SGD-Wiki - User contributions [en]

Commonly used strains

2025-05-06T23:06:27Z

Nash: /* Sigma1278b */

This page describes some of the most commonly used yeast lab strains. Much of the information is taken from [http://www.urmc.rochester.edu/biochemistry-biophysics/images/Getting-Started-With-Yeast.pdf F. Sherman (2002)] Getting started with yeast, Methods Enzymol. 350, 3-41. Other useful papers for strain background information include:

* [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43 - thoroughly describes the genealogy of strain S288C
* [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714 - compares various characteristics of commonly used lab strains
* [http://www.yeastgenome.org/reference/S000080159/overview Winzeler et al.] (2003) Genetics 163:79-89 - uses SFP (single-feature polymorphisms) analysis to study genetic identity between common lab strains

=S288C=
'''Genotype:''' ''MAT''α ''SUC2 gal2 mal2 mel flo1 flo8-1 hap1 ho bio1 bio6''

'''Notes:''' Strain used in the systematic sequencing project, the sequence stored in SGD. S288C does not form pseudohyphae. In addition, since it has a mutated copy of [http://www.yeastgenome.org/locus/S000004246/overview ''HAP1''], it is not a good strain for mitochondrial studies. It has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. S288C strains are ''gal''2- and they do not use galactose anaerobically.

The S288C genome was recently resequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43.

'''Sources:''' [http://www.atcc.org/Products/All/204508.aspx ATCC:204508]

==A364A==
'''Genotype:''' ''MAT''a'' ade1 ade2 ura1 his7 lys2 tyr1 gal1 SUC mal cup BIO''

'''Notes:''' Used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000079649/overview Hartwell] (1967) J. Bacteriol. 93:1662-1670.

'''Sources:''' [http://www.atcc.org/Products/All/208526.aspx ATCC:208526]

==AB972==
'''Genotype:''' ''MAT''α'' X2180-1B trp10 [rho 0]''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD. AB972 is an ethidium bromide-induced rho- derivative of the strain X2180-1B-''trp1''.

'''References:''' [http://www.yeastgenome.org/reference/S000057090/overview Olson MV et al.] (1986) Proc. Natl. Acad. Sci. USA 83:7826-7830.

'''Sources:''' [http://www.atcc.org/Products/All/204511.aspx ATCC:204511]

==BY4743==
'''Genotype:''' ''MAT''a/α ''his3''Δ''1/his3''Δ''1 leu2''Δ''0/leu2''Δ''0 LYS2/lys2''Δ''0 met15''Δ''0/MET15 ura3''Δ''0/ura3''Δ''0''

'''Notes:''' Strain used in the [http://www-sequence.stanford.edu/group/yeast_deletion_project/project_desc.html systematic deletion project], generated from a cross between BY4741 and BY4742, which are derived from S288C. As in S288c, this strain as well as haploid derivatives BY4741, and BY4742 have allelic variants of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''], [http://www.yeastgenome.org/locus/SAL1/overview ''SAL1''] and [http://www.yeastgenome.org/locus/CAT5/overview ''CAT5''] and these polymorphisms, described in the respective locus history notes for these genes ([http://www.yeastgenome.org/locus/S000005857/sequence#history ''MIP1''], [http://www.yeastgenome.org/locus/S000005027/sequence#history ''SAL1''] and [http://www.yeastgenome.org/locus/cat5/sequence#history ''CAT5'']) all contribute to the high observed petite frequency. Details regarding the contributions of these variants to petite formation are referenced in [http://www.yeastgenome.org/reference/S000130847/overview Dimitrov et al.] (2009) Genetics 183(1):365-83. See the Brachmann et al., 1998 reference for details of strain construction.

'''References:''' [http://www.yeastgenome.org/reference/S000041186/overview Brachmann et al.] (1998) Yeast 14:115-32.

'''Sources:''' [http://www.atcc.org/products/all/201390.aspx ATCC:201390]
===Y7092===
Y7092 is isogenic with BY4741, except for the markers required for the synthetic genetic array procedure

'''Reference:''' [https://www.yeastgenome.org/reference/S000137665 Tong AH and Boone C (2006)] Synthetic genetic array analysis in Saccharomyces cerevisiae. Methods Mol Biol 313:171-92

==CKY8==
'''Genotype:''' ''MAT''α ''ura3-52 leu2-3,112''

'''Sources:''' C. Kaiser (Massachusetts Institute of Technology, Boston)

==DBY4975==
'''Genotype:''' ''MAT''α ''his3Δ200 leu2-3,112 lys2-801 ura3-52 ade2''

'''Derived:''' from S288C

aka IGY6

'''Reference:''' [https://www.yeastgenome.org/reference/11156976 Whitacre J, et al. (2001)] Generation of an isogenic collection of yeast actin mutants and identification of three interrelated phenotypes. Genetics 157(2):533-43

==DBY947==
'''Genotype:''' ''MAT''α ''SUC2 ade2-101 ura3-52''

'''Derived:''' from repeated backcrosses of the ura3-52 allele into the S288C background.

'''Reference:''' [http://www.yeastgenome.org/reference/6380751/overview Neff et al.] (1983) Cell 33(1):211-9

===DFS160===
'''Genotype:''' ''MATα ade2-101 leu2 ura3-52 arg8∷URA3 kar1-1 [rho0]

'''Notes:''' Derived from DBY947. Used in cytoduction experiments; kar1-1 to prevent nuclear fusion and lacks mitochondria (rho0)

'''References:''' [https://journals.asm.org/doi/epdf/10.1128/mcb.13.8.4806-4813.1993 Costanzo & Fox] (1993) MCB 13(8):4806-13 | [https://www.pnas.org/content/pnas/93/11/5253.full.pdf Steele et al.] (1996) PNAS 93:5253-7

==DC5==
'''Genotype:''' ''MAT''a'' leu2-3,112 his3-11,15 can1-11''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000054242/overview Broach et al.] (1979) Gene 8:121-133
==EY441==

'''Genotype:''' ''kss1 ura3-52 leu2-3,112 his3Δ200 ade2-1 lys2Δ201''

'''Reference:''' Elion EA, et al. (1990) FUS3 encodes a cdc2+/CDC28-related kinase required for the transition from mitosis into conjugation. Cell 60(4):649-64 PMID:2406028

==FY4==
'''Genotype:''' ''MAT''a, ''srd1''Δ''0''

'''Notes:''' Derived from S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

[http://www.yeastgenome.org/reference/9483801/overview Brachmann et al.] (1998) Yeast 14:115-32.

===DBY12020===
'''Genotype:''' ''MAT'''''a'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

===DBY12021===
'''Genotype:''' ''MAT'''''α'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

==FY1679==
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 trp1''Δ''63/TRP1 leu2''Δ''1/LEU2 his3''Δ''200/HIS3 GAL2/GAL''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/fy1679.html EUROSCARF:10000D]
==NY13==
isogenic with S288C PMID:24476960
==TB50==
isogenic with S288C PMID:24476960

==X2180-1A==
'''Genotype:''' ''MAT''a'' SUC2 mal mel gal2 CUP1''

'''Notes:'''S288c spontaneously diploidized to give rise to X2180. The haploid segregants X2180-1a and X2180-1b were obtained from sporulated X2180

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston]

'''Sources:''' [http://www.atcc.org/Products/All/204504.aspx ATCC:204504]

=CEN.PK (aka CEN.PK2)=
'''Genotype:''' ''MAT''a/α'' ura3-52/ura3-52 trp1-289/trp1-289 leu2-3,112/leu2-3,112 his3 ''Δ''1/his3 ''Δ''1 MAL2-8C/MAL2-8C SUC2/SUC2''

'''Notes:''' CEN.PK possesses a mutation in CYR1 (A5627T corresponding to a K1876M substitution near the end of the catalytic domain in adenylate cyclase which eliminates glucose- and acidification-induced cAMP signalling and delays glucose-induced loss of stress resistance ([http://www.yeastgenome.org/reference/S000052724/overview Vanhalewyn et al., 1999]; [http://www.yeastgenome.org/reference/S000043601/overview Dumortier et al., 2000]).

'''References:''' [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/cen.html EUROSCARF:30000D]

=D273-10B=
'''Genotype:''' ''MAT''α ''mal GAL''

'''Notes:''' Normal cytochrome content and respiration; low frequency of rho-. This strain and its auxotrophic derivatives were used in numerious laboratories for mitochondrial and related studies and for mutant screens. Good respirer that's relatively resistant to glucose repression.

'''References:''' [http://www.yeastgenome.org/reference/13977171/overview Sherman, F.] (1963) Genetics 48:375-385.

'''Sources:''' [http://www.atcc.org/Products/All/24657.aspx ATCC:24657]

=FL100=
'''Genotype:''' ''MAT''a

'''References:''' [http://www.yeastgenome.org/reference/S000065623/overview Lacroute, F.] (1968) J. Bacteriol. 95:824-832.

Sources: [http://www.atcc.org/Products/All/28383.aspx ATCC:28383]

=JK9-3d=

There are a, alpha and a/alpha diploids of JK9-3d with the following genotypes:

'''Genotypes:''' JK9-3da ''MAT''a ''leu2-3,112 ura3-52 rme1 trp1 his4''

JK9-3dα has the same genotype as JK9-3da with the exception of the MAT locus

JK9-3da/α is homozygous for all markers except mating type

'''Notes:''' JK9-3d was constructed by Jeanette Kunz while in Mike Hall's lab. She made the original strain while Joe Heitman isolated isogenic strains of opposite mating type and derived the a/alpha isogenic diploid by mating type switching. It has in its background S288c, a strain from the Oshima lab, and a strain from the Herskowitz lab. It was chosen because of its robust growth and sporulation, as well as good growth on galactose (GAL+) (so that genes under control of the galactose promoter could be induced). It may also have a SUP mutation that allows translation through premature STOP codons and therefore produces functional alleles with many point mutations.

Recent work shows that JK9-3d carries an ''rme1'' mutation that may be responsible for the rapid G1 arrest of this strain upon exposure to rapamycin ([http://www.yeastgenome.org/reference/S000181599/overview Moreno-Torres M, et al. (2015) Nat Commun 6:8256])

'''References:''' [http://www.yeastgenome.org/reference/S000054286/overview Heitman et al.] (1991a) Science 253(5022):905-9 and [http://www.yeastgenome.org/reference/S000054822/overview Heitman et al.] (1991b) Proc Natl Acad Sci U S A 88(5):1948-52
=RM11-1a=

'''Genotype:''' ''MAT''a ''leu2''Δ''0 ura3-''Δ''0 HO::kanMX

'''Notes:''' RM11-1a is a haploid derivative of RM11, which is a diploid derivative of Bb32(3), which is an ascus derived from Bb32, which is a natural isolate collected by Robert Mortimer from a California vineyard (Ravenswood Zinfandel) in 1993, as in [http://www.yeastgenome.org/reference/S000041556/overview Mortimer et al.] (1994). It has high spore viability (80–90%) and has been extensively characterized phenotypically under a wide range of conditions. It has a significantly longer life span than typical lab yeast strains and accumulates age-associated abnormalities at a lower rate. It displays approximately 0.5–1% sequence divergence relative to S288c. More information is available at the [http://www.broadinstitute.org/annotation/genome/saccharomyces_cerevisiae.3/Home.html Broad Institute website].

'''References:''' [http://www.yeastgenome.org/reference/S000069875/overview Brem et al.] (2002) Science 296(5568):752-5
=SEY6210/SEY6211=
'''Genotype:''' ''MAT''a/''MAT''α ''leu2-3,112/leu2-3,112 ura3-52/ura3-52 his3-''Δ''200/his3-''Δ''200 trp1-''Δ''901/trp1-''Δ''901 ade2/ADE2 suc2-''Δ''9/suc2-''Δ''9 GAL/GAL LYS2/lys2-801''

'''Notes:''' SEY6210/SEY6211, also known as SEY6210.5, was constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers, good growth properties and good sporulation.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/201392.aspx ATCC:201392]

==SEY6210==
'''Genotype:''' ''MAT''α ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 suc2-''Δ''9 lys2-801; GAL''

'''Notes:''' SEY6210 is a MATalpha haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96099.aspx ATCC:96099]

==SEY6211==
'''Genotype:''' ''MAT''a ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 ade2-101 suc2-''Δ''9; GAL''

'''Notes:''' SEY6211 is a MATa haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96100.aspx ATCC:96100]

=Sigma1278b=

'''Genotype:''' ''MAT''α''

Sigma1278b was first isolated in the lab of Marcelle Grenson in the early 1960s, as described in André B (2018) Tribute to Marcelle Grenson (1925-1996), A Pioneer in the Study of Amino Acid Transport in Yeast. Int J Mol Sci 19(4), PMID:[https://www.yeastgenome.org/reference/S000216588 29659503], which contains the complete, exact pedigree of Σ1278b from the Grenson lab archives. A short excerpt:

"A new, prototrophic reference strain was thus isolated: strain Σ1278b. It was obtained by first crossing the YFa-derived yeast D77 (auxotrophic for uracil and glutamate) with the yeast 1422-11D that was received from the American geneticist Donald C. Hawthorne. The derived haploid strain Σ15d (Σ stands for “segregant”) was then crossed with strain DP1-1B received from Piotr Slonimski, and one of the spores issued from this cross gave rise to Σ1278b."

In September 1970, Grenson sent to Gerry Fink a aap/apf1/shr3 mutant isolated from Σ1278b. This strain, which likely diploidized during successive subculturing, was classified as “Fink lab Foreigner strains, F35”. As detailed in the note provided by the Fink lab, collected Nov. 1998 by Cora Styles, analysis twenty years later of this mutant by C. Gimeno and P. Ljungdahl allowed them to discover pseudohyphal growth : Gimeno, C. J., Ljungdahl, P. O., Styles, C. A., & Fink, G. R. (1992). Unipolar cell divisions in the yeast S. cerevisiae lead to filamentous growth: regulation by starvation and RAS. Cell, 68(6), 1077–1090, [https://www.yeastgenome.org/reference/S000041853 PMID:1547504].

''Thanks to Bruno André for contacting SGD directly to share and disseminate this information.''

'''Notes:''' Used in pseudohyphal growth studies. [[History_of_Sigma|Detailed notes]] about the sigma strains have been kindly provided by Cora Styles.

[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000823 Granek and Magwene], PLoS Genet. 2010 Jan 22;6(1):e1000823, established that certain lineages of the Sigma1278B background contain
a nonsense mutation in RIM15, a G-to-T transversion at position 1216 that converts a Gly codon to an opal stop codon. This rim15 mutation interacts epistatically with mutations in certain other genes to affect colony morphology. The Sigma1278b genome is closely related to S288c, and shares some other genomic regions with W303 [http://rsob.royalsocietypublishing.org/content/2/8/120093].

Annotation of the Sigma1278b genome and information about the systematic deletion collection can be found in [http://www.yeastgenome.org/reference/S000133862/overview Dowell et al.] (2010).

The sequence of Ena1p in Σ1278b contains 14 amino acid level changes compared to S288C. 11 are shared with Ena1p of CEN.PK, SK1 and Y55 strains (i.e., V101, G102, G106, D191, T204, R497, A753, N882, L1045, and I1085). Only C556, F860 and G1070 are unique to Ena1p of Σ1278b. F860 results in non-functionality of the protein that can be restored by replacement with Serine as found in S288C, SK1, CEN.PK, Y55 and RM11 as described in [https://www.yeastgenome.org/reference/S100000488 Engelberg et al.] (2025).

=SK1=
'''Genotype:''' ''MAT''a/α'' HO gal2 cupS can1R BIO''

'''Notes:''' Commonly used for studying sporulation or meiosis. Canavanine-resistant derivative.

The SK1 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000079650/overview Kane SM and Roth J.] (1974) Bacteriol. 118: 8-14

'''Sources:''' [http://www.atcc.org/Products/All/204722.aspx ATCC:204722]

==g833-1B==
'''Genotype:''' ''MAT''a'' leu2 can1 HOM3 his1-1 trp2 ADE2 ho gal2''

'''Notes:''' Haploid derivative of SK1, constructed by JC Game in the 1980s.

'''Sources:''' [http://www.atcc.org/Products/All/204720.aspx ATCC:204720]

=W303=
'''Genotype:''' ''MAT''a/''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''} [''phi+'']

<table style="text-align: left; width: 526px; height: 174px;" border="1"
cellpadding="2" cellspacing="2">
<tr>
<td style="vertical-align: top; font-weight: bold;">allele 
</td>
<td style="vertical-align: top; font-weight: bold;">locus 
</td>
<td style="vertical-align: top; font-weight: bold;">mutation [http://rsob.royalsocietypublishing.org/content/2/8/120093 (1)] 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">ade2-1 
</td>
<td style="vertical-align: top;"> YOR128C</td>
<td style="vertical-align: top;">nonsense, glu64STOP 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">trp1-1 
</td>
<td style="vertical-align: top;">YDR007W</td>
<td style="vertical-align: top;">nonsense, glu83STOP</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">can1-100 
</td>
<td style="vertical-align: top;"> YEL063C</td>
<td style="vertical-align: top;">frameshift, lys47</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">leu2-3,112 
</td>
<td style="vertical-align: top;">YCL018W 
</td>
<td style="vertical-align: top;">frameshift, gly83</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">his3-11,15 
</td>
<td style="vertical-align: top;">YOR202W</td>
<td style="vertical-align: top;"> 2x frameshifts, ala70 and glu106</td>
</tr>
</table>

'''Notes:''' The W303 genome is to 85.4% derived from S288c, part of the other regions are similar to non-S288c regions of Sigma1278b. In total, some 800 CDS differ between W303 and S288c, but in most cases only one or two residues differ [http://rsob.royalsocietypublishing.org/content/2/8/120093]. These include a ''bud4'' mutation that causes haploids to bud with a mixture of axial and bipolar budding
patterns. In addition, the original W303 strain contains the [http://wiki.yeastgenome.org/index.php/CommunityW303.html ''rad5-535''] allele. As S288c, W303 has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. Unlike S288C, W303 lacks a functional copy of the RNA-binding protein and translational repressor, Ssd1 [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1462329/pdf/12454058.pdf], [https://doi.org/10.1091/mbc.E19-04-0190],[https://doi.org/10.7554/eLife.52063].

The W303 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute] and by [http://rsob.royalsocietypublishing.org/content/2/8/120093 Ralser M. ''et al.''] (2012) Open Biol 2: 120093.
[http://rsob.royalsocietypublishing.org/content/2/8/120093 1] (DDBJ/EMBL/GenBank ALAV00000000).

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''bud4'' info: Original mutant description [http://www.yeastgenome.org/reference/S000120449/overview Voth et al.] (2005) Eukaryotic Cell, 4:1018-28. Mutation: deletion of one of four Gs at positions 2456-2459 of BUD4 ORF. Seq data from: Ralser et al above ''rad5-535'' info: see [[CommunityW303.html|detailed notes]]

'''Sources:''' [http://www.atcc.org/Products/All/200060.aspx ATCC:200060]

==W303-1A==
'''Genotype:''' ''MAT''a {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''Notes:''' W303-1A possesses a ''ybp1-1'' mutation (I7L, F328V, K343E, N571D) which abolishes Ybp1p function, increasing sensitivity to oxidative stress.

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''ybp1-1'' info: [http://www.yeastgenome.org/reference/S000073844/overview Veal et al.] (2003) J. Biol. Chem. 278:30896-904. 

'''Sources:''' [http://www.atcc.org/products/all/208352.aspx ATCC:208352]

==W303-1B==
'''Genotype:''' ''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch'').

'''Sources:''' [http://www.atcc.org/Products/All/201238.aspx ATCC:201238]

==W303-K6001==

'''Genotype:''' ''MAT''a; {''ade2-1, trp1-1, can1-100, leu2-3,112, his3-11,15, GAL, psi+, ho::HO::CDC6 (at HO), cdc6::hisG, ura3::URA3 GAL-ubiR-CDC6 (at URA3)''}

'''References:''' K6001 was created in Kim Nasmyth's lab ''Piatti at al'' (PMID: 7641697) and ''Bobola et al'' (PMID: 8625408). K6001 has become a popular model in yeast aging research, as it allows a replicative aging assay based on microcolonies (PMID: 15489200). Its genome has been sequenced by Timmermann et al (PMID: 20729566), Ralser et al [http://rsob.royalsocietypublishing.org/content/2/8/120093].

==W1536 8B==

'''Genotype:''' ''MATα, ade2Δ, ade3Δ, can1-100, his3-11,15, leu2-3,112, trp1-1, ura3-1''

'''References:''' Shvetsova A, et al. (2021) PMID:34713605

==W1588-4C==
RAD5 derivative of W303

'''Genotype''': ''MAT''a ''ade2-1 can1-100 ura3-1 his3-11,15 leu2-3,112 trp1-1 RAD5''

'''Reference''': Dhingra N, et al. (2019) Replication protein A (RPA) sumoylation positively influences the DNA damage checkpoint response in yeast. J Biol Chem 294(8):2690-2699 PMID:30591583

==DY1457==

'''Genotype:''' ''MAT''a; {''ade6 can1-100(oc) his3-11,15 leu2-3,112 trp1-1 ura3-52''}

'''References:''' [http://www.yeastgenome.org/reference/S000040392/overview Askwith C, et al.] (1994) Cell 76(2):403-10 PMID: 8293473
==EY699==
'''Genotype:''' ''MAT'''a''' ura3-1 his3-11,15 leu2-3,112 trp1-1 ade2 can1-100 Gal+''

'''References:'''
#Rodney Rothstein
#Elion EA, et al. (1991) Functional redundancy in the yeast cell cycle: FUS3 and KSS1 have both overlapping and unique functions. Cold Spring Harb Symp Quant Biol 56:41-9

=XJ24-24a=
'''Genotype:''' ''MAT''a ''ho HMa HMα ade6 arg4-17 trp1-1 tyr7-1 MAL2''

'''Notes:''' Likely quite different from S288C. A strain derived from XJ24-24a called XG1#24 had a recombination between HML and MAT that generated a large ring chromosome (Strathern et al. 1979 Cell), and Carol Newlon generated an ordered map of plasmid sub clones from this ring chromosome (Newlon et al. 1991 Genetics) that was then used for the initial sequencing of Chromosome III (Oliver et al. 1992), which has since been updated numerous times. The provenance of XJ24-24a is unclear. Newlon was able to trace it back about 5 generations: some of the progenitor strains were from the Cold Spring Harbor Yeast course, and some of those strains had some markers similar to S288C (none of which are still in XJ24-24a). ''Thanks to Joachim Li for sharing this history of XJ24-24a with SGD.''

'''References:'''
* [http://www.yeastgenome.org/reference/S000055409/overview Strathern et al.] (1979) Cell 18:309-319
* [http://www.yeastgenome.org/reference/S000055743/overview Newlon et al.] (1979) Genetics 129:343-57
* [http://www.yeastgenome.org/reference/S000060078/overview Oliver et al.] (1992) Nature 357:38-46

=Y55=

'''Genotype:''' ''MAT''a /''MAT''alpha ''HO''/''HO''

'''Notes:''' Y55 is a prototrophic, homothallic diploid strain that was originally isolated by Dennis Winge. Many auxotrophic mutant derivatives have been created by John McCusker by using ethidium bromide treatment to eliminate non-auxotrophs. Y55 background strains have been used to study the timing of meiotic recombination ([http://www.yeastgenome.org/reference/S000148282/overview Borts et al. 1984]); to isolate almost all the subunits of the proteasome ([http://www.yeastgenome.org/reference/3294104/overview McCusker and Haber 1988a], [http://www.yeastgenome.org/reference/3294103/overview 1988b]); to get mutations in PMA1 and related genes ([http://www.yeastgenome.org/reference/2963211/overview McCusker 1986]); and to do meiotic mapping and interference experiments ([http://www.yeastgenome.org/reference/15454526/overview Malkova et al. 2004]).
=YNN216=
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 lys2-801amber/lys2-801amber ade2-101ochre/ade2-101ochre''

'''Notes:''' Congenic to S288C (see Sikorski and Hieter). Used to derive YSS and CY strains (see Sobel and Wolin).

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862.
==YPH499==
'''Genotype:''' ''MAT''a ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:''' Contains nonrevertible (deletion) auxotrophic mutations that can be used for selection of vectors. Note that ''trp1-''Δ''63'', unlike ''trp1-''Δ''1'', does not delete adjacent ''GAL3'' UAS sequence and retains homology to ''TRP1'' selectable marker. ''gal2-'', does not use galactose anaerobically. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204679.aspx ATCC:204679]

==YPH500==
'''Genotype:''' ''MAT''α ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:'''''MAT''α strain isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] except at mating type locus. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/76626.aspx ATCC:76626]

==YPH501==
'''Genotype:''' ''MAT''a/''MAT''α ''ura3-52/ura3-52 lys2-801_amber/lys2-801_amber ade2-101_ochre/ade2-101_ochre trp1-''Δ''63/trp1-''Δ''63 his3-''Δ''200/his3-''Δ''200 leu2-''Δ''1/leu2-''Δ''1''

'''Notes:''' a/α diploid isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] and [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH500 YPH500]. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204681.aspx ATCC:204681]

Commonly used strains

2025-05-06T23:05:51Z

Nash: /* Sigma1278b */

This page describes some of the most commonly used yeast lab strains. Much of the information is taken from [http://www.urmc.rochester.edu/biochemistry-biophysics/images/Getting-Started-With-Yeast.pdf F. Sherman (2002)] Getting started with yeast, Methods Enzymol. 350, 3-41. Other useful papers for strain background information include:

* [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43 - thoroughly describes the genealogy of strain S288C
* [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714 - compares various characteristics of commonly used lab strains
* [http://www.yeastgenome.org/reference/S000080159/overview Winzeler et al.] (2003) Genetics 163:79-89 - uses SFP (single-feature polymorphisms) analysis to study genetic identity between common lab strains

=S288C=
'''Genotype:''' ''MAT''α ''SUC2 gal2 mal2 mel flo1 flo8-1 hap1 ho bio1 bio6''

'''Notes:''' Strain used in the systematic sequencing project, the sequence stored in SGD. S288C does not form pseudohyphae. In addition, since it has a mutated copy of [http://www.yeastgenome.org/locus/S000004246/overview ''HAP1''], it is not a good strain for mitochondrial studies. It has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. S288C strains are ''gal''2- and they do not use galactose anaerobically.

The S288C genome was recently resequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43.

'''Sources:''' [http://www.atcc.org/Products/All/204508.aspx ATCC:204508]

==A364A==
'''Genotype:''' ''MAT''a'' ade1 ade2 ura1 his7 lys2 tyr1 gal1 SUC mal cup BIO''

'''Notes:''' Used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000079649/overview Hartwell] (1967) J. Bacteriol. 93:1662-1670.

'''Sources:''' [http://www.atcc.org/Products/All/208526.aspx ATCC:208526]

==AB972==
'''Genotype:''' ''MAT''α'' X2180-1B trp10 [rho 0]''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD. AB972 is an ethidium bromide-induced rho- derivative of the strain X2180-1B-''trp1''.

'''References:''' [http://www.yeastgenome.org/reference/S000057090/overview Olson MV et al.] (1986) Proc. Natl. Acad. Sci. USA 83:7826-7830.

'''Sources:''' [http://www.atcc.org/Products/All/204511.aspx ATCC:204511]

==BY4743==
'''Genotype:''' ''MAT''a/α ''his3''Δ''1/his3''Δ''1 leu2''Δ''0/leu2''Δ''0 LYS2/lys2''Δ''0 met15''Δ''0/MET15 ura3''Δ''0/ura3''Δ''0''

'''Notes:''' Strain used in the [http://www-sequence.stanford.edu/group/yeast_deletion_project/project_desc.html systematic deletion project], generated from a cross between BY4741 and BY4742, which are derived from S288C. As in S288c, this strain as well as haploid derivatives BY4741, and BY4742 have allelic variants of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''], [http://www.yeastgenome.org/locus/SAL1/overview ''SAL1''] and [http://www.yeastgenome.org/locus/CAT5/overview ''CAT5''] and these polymorphisms, described in the respective locus history notes for these genes ([http://www.yeastgenome.org/locus/S000005857/sequence#history ''MIP1''], [http://www.yeastgenome.org/locus/S000005027/sequence#history ''SAL1''] and [http://www.yeastgenome.org/locus/cat5/sequence#history ''CAT5'']) all contribute to the high observed petite frequency. Details regarding the contributions of these variants to petite formation are referenced in [http://www.yeastgenome.org/reference/S000130847/overview Dimitrov et al.] (2009) Genetics 183(1):365-83. See the Brachmann et al., 1998 reference for details of strain construction.

'''References:''' [http://www.yeastgenome.org/reference/S000041186/overview Brachmann et al.] (1998) Yeast 14:115-32.

'''Sources:''' [http://www.atcc.org/products/all/201390.aspx ATCC:201390]
===Y7092===
Y7092 is isogenic with BY4741, except for the markers required for the synthetic genetic array procedure

'''Reference:''' [https://www.yeastgenome.org/reference/S000137665 Tong AH and Boone C (2006)] Synthetic genetic array analysis in Saccharomyces cerevisiae. Methods Mol Biol 313:171-92

==CKY8==
'''Genotype:''' ''MAT''α ''ura3-52 leu2-3,112''

'''Sources:''' C. Kaiser (Massachusetts Institute of Technology, Boston)

==DBY4975==
'''Genotype:''' ''MAT''α ''his3Δ200 leu2-3,112 lys2-801 ura3-52 ade2''

'''Derived:''' from S288C

aka IGY6

'''Reference:''' [https://www.yeastgenome.org/reference/11156976 Whitacre J, et al. (2001)] Generation of an isogenic collection of yeast actin mutants and identification of three interrelated phenotypes. Genetics 157(2):533-43

==DBY947==
'''Genotype:''' ''MAT''α ''SUC2 ade2-101 ura3-52''

'''Derived:''' from repeated backcrosses of the ura3-52 allele into the S288C background.

'''Reference:''' [http://www.yeastgenome.org/reference/6380751/overview Neff et al.] (1983) Cell 33(1):211-9

===DFS160===
'''Genotype:''' ''MATα ade2-101 leu2 ura3-52 arg8∷URA3 kar1-1 [rho0]

'''Notes:''' Derived from DBY947. Used in cytoduction experiments; kar1-1 to prevent nuclear fusion and lacks mitochondria (rho0)

'''References:''' [https://journals.asm.org/doi/epdf/10.1128/mcb.13.8.4806-4813.1993 Costanzo & Fox] (1993) MCB 13(8):4806-13 | [https://www.pnas.org/content/pnas/93/11/5253.full.pdf Steele et al.] (1996) PNAS 93:5253-7

==DC5==
'''Genotype:''' ''MAT''a'' leu2-3,112 his3-11,15 can1-11''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000054242/overview Broach et al.] (1979) Gene 8:121-133
==EY441==

'''Genotype:''' ''kss1 ura3-52 leu2-3,112 his3Δ200 ade2-1 lys2Δ201''

'''Reference:''' Elion EA, et al. (1990) FUS3 encodes a cdc2+/CDC28-related kinase required for the transition from mitosis into conjugation. Cell 60(4):649-64 PMID:2406028

==FY4==
'''Genotype:''' ''MAT''a, ''srd1''Δ''0''

'''Notes:''' Derived from S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

[http://www.yeastgenome.org/reference/9483801/overview Brachmann et al.] (1998) Yeast 14:115-32.

===DBY12020===
'''Genotype:''' ''MAT'''''a'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

===DBY12021===
'''Genotype:''' ''MAT'''''α'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

==FY1679==
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 trp1''Δ''63/TRP1 leu2''Δ''1/LEU2 his3''Δ''200/HIS3 GAL2/GAL''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/fy1679.html EUROSCARF:10000D]
==NY13==
isogenic with S288C PMID:24476960
==TB50==
isogenic with S288C PMID:24476960

==X2180-1A==
'''Genotype:''' ''MAT''a'' SUC2 mal mel gal2 CUP1''

'''Notes:'''S288c spontaneously diploidized to give rise to X2180. The haploid segregants X2180-1a and X2180-1b were obtained from sporulated X2180

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston]

'''Sources:''' [http://www.atcc.org/Products/All/204504.aspx ATCC:204504]

=CEN.PK (aka CEN.PK2)=
'''Genotype:''' ''MAT''a/α'' ura3-52/ura3-52 trp1-289/trp1-289 leu2-3,112/leu2-3,112 his3 ''Δ''1/his3 ''Δ''1 MAL2-8C/MAL2-8C SUC2/SUC2''

'''Notes:''' CEN.PK possesses a mutation in CYR1 (A5627T corresponding to a K1876M substitution near the end of the catalytic domain in adenylate cyclase which eliminates glucose- and acidification-induced cAMP signalling and delays glucose-induced loss of stress resistance ([http://www.yeastgenome.org/reference/S000052724/overview Vanhalewyn et al., 1999]; [http://www.yeastgenome.org/reference/S000043601/overview Dumortier et al., 2000]).

'''References:''' [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/cen.html EUROSCARF:30000D]

=D273-10B=
'''Genotype:''' ''MAT''α ''mal GAL''

'''Notes:''' Normal cytochrome content and respiration; low frequency of rho-. This strain and its auxotrophic derivatives were used in numerious laboratories for mitochondrial and related studies and for mutant screens. Good respirer that's relatively resistant to glucose repression.

'''References:''' [http://www.yeastgenome.org/reference/13977171/overview Sherman, F.] (1963) Genetics 48:375-385.

'''Sources:''' [http://www.atcc.org/Products/All/24657.aspx ATCC:24657]

=FL100=
'''Genotype:''' ''MAT''a

'''References:''' [http://www.yeastgenome.org/reference/S000065623/overview Lacroute, F.] (1968) J. Bacteriol. 95:824-832.

Sources: [http://www.atcc.org/Products/All/28383.aspx ATCC:28383]

=JK9-3d=

There are a, alpha and a/alpha diploids of JK9-3d with the following genotypes:

'''Genotypes:''' JK9-3da ''MAT''a ''leu2-3,112 ura3-52 rme1 trp1 his4''

JK9-3dα has the same genotype as JK9-3da with the exception of the MAT locus

JK9-3da/α is homozygous for all markers except mating type

'''Notes:''' JK9-3d was constructed by Jeanette Kunz while in Mike Hall's lab. She made the original strain while Joe Heitman isolated isogenic strains of opposite mating type and derived the a/alpha isogenic diploid by mating type switching. It has in its background S288c, a strain from the Oshima lab, and a strain from the Herskowitz lab. It was chosen because of its robust growth and sporulation, as well as good growth on galactose (GAL+) (so that genes under control of the galactose promoter could be induced). It may also have a SUP mutation that allows translation through premature STOP codons and therefore produces functional alleles with many point mutations.

Recent work shows that JK9-3d carries an ''rme1'' mutation that may be responsible for the rapid G1 arrest of this strain upon exposure to rapamycin ([http://www.yeastgenome.org/reference/S000181599/overview Moreno-Torres M, et al. (2015) Nat Commun 6:8256])

'''References:''' [http://www.yeastgenome.org/reference/S000054286/overview Heitman et al.] (1991a) Science 253(5022):905-9 and [http://www.yeastgenome.org/reference/S000054822/overview Heitman et al.] (1991b) Proc Natl Acad Sci U S A 88(5):1948-52
=RM11-1a=

'''Genotype:''' ''MAT''a ''leu2''Δ''0 ura3-''Δ''0 HO::kanMX

'''Notes:''' RM11-1a is a haploid derivative of RM11, which is a diploid derivative of Bb32(3), which is an ascus derived from Bb32, which is a natural isolate collected by Robert Mortimer from a California vineyard (Ravenswood Zinfandel) in 1993, as in [http://www.yeastgenome.org/reference/S000041556/overview Mortimer et al.] (1994). It has high spore viability (80–90%) and has been extensively characterized phenotypically under a wide range of conditions. It has a significantly longer life span than typical lab yeast strains and accumulates age-associated abnormalities at a lower rate. It displays approximately 0.5–1% sequence divergence relative to S288c. More information is available at the [http://www.broadinstitute.org/annotation/genome/saccharomyces_cerevisiae.3/Home.html Broad Institute website].

'''References:''' [http://www.yeastgenome.org/reference/S000069875/overview Brem et al.] (2002) Science 296(5568):752-5
=SEY6210/SEY6211=
'''Genotype:''' ''MAT''a/''MAT''α ''leu2-3,112/leu2-3,112 ura3-52/ura3-52 his3-''Δ''200/his3-''Δ''200 trp1-''Δ''901/trp1-''Δ''901 ade2/ADE2 suc2-''Δ''9/suc2-''Δ''9 GAL/GAL LYS2/lys2-801''

'''Notes:''' SEY6210/SEY6211, also known as SEY6210.5, was constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers, good growth properties and good sporulation.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/201392.aspx ATCC:201392]

==SEY6210==
'''Genotype:''' ''MAT''α ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 suc2-''Δ''9 lys2-801; GAL''

'''Notes:''' SEY6210 is a MATalpha haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96099.aspx ATCC:96099]

==SEY6211==
'''Genotype:''' ''MAT''a ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 ade2-101 suc2-''Δ''9; GAL''

'''Notes:''' SEY6211 is a MATa haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96100.aspx ATCC:96100]

=Sigma1278b=

'''Genotype:''' ''MAT''α''

Sigma1278b was first isolated in the lab of Marcelle Grenson in the early 1960s, as described in André B (2018) Tribute to Marcelle Grenson (1925-1996), A Pioneer in the Study of Amino Acid Transport in Yeast. Int J Mol Sci 19(4), PMID:[https://www.yeastgenome.org/reference/S000216588 29659503], which contains the complete, exact pedigree of Σ1278b from the Grenson lab archives. A short excerpt:

"A new, prototrophic reference strain was thus isolated: strain Σ1278b. It was obtained by first crossing the YFa-derived yeast D77 (auxotrophic for uracil and glutamate) with the yeast 1422-11D that was received from the American geneticist Donald C. Hawthorne. The derived haploid strain Σ15d (Σ stands for “segregant”) was then crossed with strain DP1-1B received from Piotr Slonimski, and one of the spores issued from this cross gave rise to Σ1278b."

In September 1970, Grenson sent to Gerry Fink a aap/apf1/shr3 mutant isolated from Σ1278b. This strain, which likely diploidized during successive subculturing, was classified as “Fink lab Foreigner strains, F35”. As detailed in the note provided by the Fink lab, collected Nov. 1998 by Cora Styles, analysis twenty years later of this mutant by C. Gimeno and P. Ljungdahl allowed them to discover pseudohyphal growth : Gimeno, C. J., Ljungdahl, P. O., Styles, C. A., & Fink, G. R. (1992). Unipolar cell divisions in the yeast S. cerevisiae lead to filamentous growth: regulation by starvation and RAS. Cell, 68(6), 1077–1090, [https://www.yeastgenome.org/reference/S000041853 PMID:1547504].

''Thanks to Bruno André for contacting SGD directly to share and disseminate this information.''

'''Notes:''' Used in pseudohyphal growth studies. [[History_of_Sigma|Detailed notes]] about the sigma strains have been kindly provided by Cora Styles.

[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000823 Granek and Magwene], PLoS Genet. 2010 Jan 22;6(1):e1000823, established that certain lineages of the Sigma1278B background contain
a nonsense mutation in RIM15, a G-to-T transversion at position 1216 that converts a Gly codon to an opal stop codon. This rim15 mutation interacts epistatically with mutations in certain other genes to affect colony morphology. The Sigma1278b genome is closely related to S288c, and shares some other genomic regions with W303 [http://rsob.royalsocietypublishing.org/content/2/8/120093].

Annotation of the Sigma1278b genome and information about the systematic deletion collection can be found in [http://www.yeastgenome.org/reference/S000133862/overview Dowell et al.] (2010).

The sequence of Ena1p in Σ1278b contains 14 amino acid level changes compared to S288C. 11 are shared with Ena1p of the CEN.PK, SK1 and Y55 strains (i.e., V101, G102, G106, D191, T204, R497, A753, N882, L1045, and I1085). Only C556, F860 and G1070 are unique to Ena1p of Σ1278b. F860 results in non-functionality of the protein that can be restored by replacement with Serine as found in S288C, SK1, CEN.PK, Y55 and RM11 as described in [https://www.yeastgenome.org/reference/S100000488 Engelberg et al.] (2025).

=SK1=
'''Genotype:''' ''MAT''a/α'' HO gal2 cupS can1R BIO''

'''Notes:''' Commonly used for studying sporulation or meiosis. Canavanine-resistant derivative.

The SK1 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000079650/overview Kane SM and Roth J.] (1974) Bacteriol. 118: 8-14

'''Sources:''' [http://www.atcc.org/Products/All/204722.aspx ATCC:204722]

==g833-1B==
'''Genotype:''' ''MAT''a'' leu2 can1 HOM3 his1-1 trp2 ADE2 ho gal2''

'''Notes:''' Haploid derivative of SK1, constructed by JC Game in the 1980s.

'''Sources:''' [http://www.atcc.org/Products/All/204720.aspx ATCC:204720]

=W303=
'''Genotype:''' ''MAT''a/''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''} [''phi+'']

<table style="text-align: left; width: 526px; height: 174px;" border="1"
cellpadding="2" cellspacing="2">
<tr>
<td style="vertical-align: top; font-weight: bold;">allele 
</td>
<td style="vertical-align: top; font-weight: bold;">locus 
</td>
<td style="vertical-align: top; font-weight: bold;">mutation [http://rsob.royalsocietypublishing.org/content/2/8/120093 (1)] 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">ade2-1 
</td>
<td style="vertical-align: top;"> YOR128C</td>
<td style="vertical-align: top;">nonsense, glu64STOP 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">trp1-1 
</td>
<td style="vertical-align: top;">YDR007W</td>
<td style="vertical-align: top;">nonsense, glu83STOP</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">can1-100 
</td>
<td style="vertical-align: top;"> YEL063C</td>
<td style="vertical-align: top;">frameshift, lys47</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">leu2-3,112 
</td>
<td style="vertical-align: top;">YCL018W 
</td>
<td style="vertical-align: top;">frameshift, gly83</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">his3-11,15 
</td>
<td style="vertical-align: top;">YOR202W</td>
<td style="vertical-align: top;"> 2x frameshifts, ala70 and glu106</td>
</tr>
</table>

'''Notes:''' The W303 genome is to 85.4% derived from S288c, part of the other regions are similar to non-S288c regions of Sigma1278b. In total, some 800 CDS differ between W303 and S288c, but in most cases only one or two residues differ [http://rsob.royalsocietypublishing.org/content/2/8/120093]. These include a ''bud4'' mutation that causes haploids to bud with a mixture of axial and bipolar budding
patterns. In addition, the original W303 strain contains the [http://wiki.yeastgenome.org/index.php/CommunityW303.html ''rad5-535''] allele. As S288c, W303 has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. Unlike S288C, W303 lacks a functional copy of the RNA-binding protein and translational repressor, Ssd1 [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1462329/pdf/12454058.pdf], [https://doi.org/10.1091/mbc.E19-04-0190],[https://doi.org/10.7554/eLife.52063].

The W303 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute] and by [http://rsob.royalsocietypublishing.org/content/2/8/120093 Ralser M. ''et al.''] (2012) Open Biol 2: 120093.
[http://rsob.royalsocietypublishing.org/content/2/8/120093 1] (DDBJ/EMBL/GenBank ALAV00000000).

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''bud4'' info: Original mutant description [http://www.yeastgenome.org/reference/S000120449/overview Voth et al.] (2005) Eukaryotic Cell, 4:1018-28. Mutation: deletion of one of four Gs at positions 2456-2459 of BUD4 ORF. Seq data from: Ralser et al above ''rad5-535'' info: see [[CommunityW303.html|detailed notes]]

'''Sources:''' [http://www.atcc.org/Products/All/200060.aspx ATCC:200060]

==W303-1A==
'''Genotype:''' ''MAT''a {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''Notes:''' W303-1A possesses a ''ybp1-1'' mutation (I7L, F328V, K343E, N571D) which abolishes Ybp1p function, increasing sensitivity to oxidative stress.

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''ybp1-1'' info: [http://www.yeastgenome.org/reference/S000073844/overview Veal et al.] (2003) J. Biol. Chem. 278:30896-904. 

'''Sources:''' [http://www.atcc.org/products/all/208352.aspx ATCC:208352]

==W303-1B==
'''Genotype:''' ''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch'').

'''Sources:''' [http://www.atcc.org/Products/All/201238.aspx ATCC:201238]

==W303-K6001==

'''Genotype:''' ''MAT''a; {''ade2-1, trp1-1, can1-100, leu2-3,112, his3-11,15, GAL, psi+, ho::HO::CDC6 (at HO), cdc6::hisG, ura3::URA3 GAL-ubiR-CDC6 (at URA3)''}

'''References:''' K6001 was created in Kim Nasmyth's lab ''Piatti at al'' (PMID: 7641697) and ''Bobola et al'' (PMID: 8625408). K6001 has become a popular model in yeast aging research, as it allows a replicative aging assay based on microcolonies (PMID: 15489200). Its genome has been sequenced by Timmermann et al (PMID: 20729566), Ralser et al [http://rsob.royalsocietypublishing.org/content/2/8/120093].

==W1536 8B==

'''Genotype:''' ''MATα, ade2Δ, ade3Δ, can1-100, his3-11,15, leu2-3,112, trp1-1, ura3-1''

'''References:''' Shvetsova A, et al. (2021) PMID:34713605

==W1588-4C==
RAD5 derivative of W303

'''Genotype''': ''MAT''a ''ade2-1 can1-100 ura3-1 his3-11,15 leu2-3,112 trp1-1 RAD5''

'''Reference''': Dhingra N, et al. (2019) Replication protein A (RPA) sumoylation positively influences the DNA damage checkpoint response in yeast. J Biol Chem 294(8):2690-2699 PMID:30591583

==DY1457==

'''Genotype:''' ''MAT''a; {''ade6 can1-100(oc) his3-11,15 leu2-3,112 trp1-1 ura3-52''}

'''References:''' [http://www.yeastgenome.org/reference/S000040392/overview Askwith C, et al.] (1994) Cell 76(2):403-10 PMID: 8293473
==EY699==
'''Genotype:''' ''MAT'''a''' ura3-1 his3-11,15 leu2-3,112 trp1-1 ade2 can1-100 Gal+''

'''References:'''
#Rodney Rothstein
#Elion EA, et al. (1991) Functional redundancy in the yeast cell cycle: FUS3 and KSS1 have both overlapping and unique functions. Cold Spring Harb Symp Quant Biol 56:41-9

=XJ24-24a=
'''Genotype:''' ''MAT''a ''ho HMa HMα ade6 arg4-17 trp1-1 tyr7-1 MAL2''

'''Notes:''' Likely quite different from S288C. A strain derived from XJ24-24a called XG1#24 had a recombination between HML and MAT that generated a large ring chromosome (Strathern et al. 1979 Cell), and Carol Newlon generated an ordered map of plasmid sub clones from this ring chromosome (Newlon et al. 1991 Genetics) that was then used for the initial sequencing of Chromosome III (Oliver et al. 1992), which has since been updated numerous times. The provenance of XJ24-24a is unclear. Newlon was able to trace it back about 5 generations: some of the progenitor strains were from the Cold Spring Harbor Yeast course, and some of those strains had some markers similar to S288C (none of which are still in XJ24-24a). ''Thanks to Joachim Li for sharing this history of XJ24-24a with SGD.''

'''References:'''
* [http://www.yeastgenome.org/reference/S000055409/overview Strathern et al.] (1979) Cell 18:309-319
* [http://www.yeastgenome.org/reference/S000055743/overview Newlon et al.] (1979) Genetics 129:343-57
* [http://www.yeastgenome.org/reference/S000060078/overview Oliver et al.] (1992) Nature 357:38-46

=Y55=

'''Genotype:''' ''MAT''a /''MAT''alpha ''HO''/''HO''

'''Notes:''' Y55 is a prototrophic, homothallic diploid strain that was originally isolated by Dennis Winge. Many auxotrophic mutant derivatives have been created by John McCusker by using ethidium bromide treatment to eliminate non-auxotrophs. Y55 background strains have been used to study the timing of meiotic recombination ([http://www.yeastgenome.org/reference/S000148282/overview Borts et al. 1984]); to isolate almost all the subunits of the proteasome ([http://www.yeastgenome.org/reference/3294104/overview McCusker and Haber 1988a], [http://www.yeastgenome.org/reference/3294103/overview 1988b]); to get mutations in PMA1 and related genes ([http://www.yeastgenome.org/reference/2963211/overview McCusker 1986]); and to do meiotic mapping and interference experiments ([http://www.yeastgenome.org/reference/15454526/overview Malkova et al. 2004]).
=YNN216=
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 lys2-801amber/lys2-801amber ade2-101ochre/ade2-101ochre''

'''Notes:''' Congenic to S288C (see Sikorski and Hieter). Used to derive YSS and CY strains (see Sobel and Wolin).

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862.
==YPH499==
'''Genotype:''' ''MAT''a ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:''' Contains nonrevertible (deletion) auxotrophic mutations that can be used for selection of vectors. Note that ''trp1-''Δ''63'', unlike ''trp1-''Δ''1'', does not delete adjacent ''GAL3'' UAS sequence and retains homology to ''TRP1'' selectable marker. ''gal2-'', does not use galactose anaerobically. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204679.aspx ATCC:204679]

==YPH500==
'''Genotype:''' ''MAT''α ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:'''''MAT''α strain isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] except at mating type locus. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/76626.aspx ATCC:76626]

==YPH501==
'''Genotype:''' ''MAT''a/''MAT''α ''ura3-52/ura3-52 lys2-801_amber/lys2-801_amber ade2-101_ochre/ade2-101_ochre trp1-''Δ''63/trp1-''Δ''63 his3-''Δ''200/his3-''Δ''200 leu2-''Δ''1/leu2-''Δ''1''

'''Notes:''' a/α diploid isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] and [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH500 YPH500]. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204681.aspx ATCC:204681]

Commonly used strains

2025-05-06T23:02:36Z

Nash: /* Sigma1278b */

This page describes some of the most commonly used yeast lab strains. Much of the information is taken from [http://www.urmc.rochester.edu/biochemistry-biophysics/images/Getting-Started-With-Yeast.pdf F. Sherman (2002)] Getting started with yeast, Methods Enzymol. 350, 3-41. Other useful papers for strain background information include:

* [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43 - thoroughly describes the genealogy of strain S288C
* [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714 - compares various characteristics of commonly used lab strains
* [http://www.yeastgenome.org/reference/S000080159/overview Winzeler et al.] (2003) Genetics 163:79-89 - uses SFP (single-feature polymorphisms) analysis to study genetic identity between common lab strains

=S288C=
'''Genotype:''' ''MAT''α ''SUC2 gal2 mal2 mel flo1 flo8-1 hap1 ho bio1 bio6''

'''Notes:''' Strain used in the systematic sequencing project, the sequence stored in SGD. S288C does not form pseudohyphae. In addition, since it has a mutated copy of [http://www.yeastgenome.org/locus/S000004246/overview ''HAP1''], it is not a good strain for mitochondrial studies. It has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. S288C strains are ''gal''2- and they do not use galactose anaerobically.

The S288C genome was recently resequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43.

'''Sources:''' [http://www.atcc.org/Products/All/204508.aspx ATCC:204508]

==A364A==
'''Genotype:''' ''MAT''a'' ade1 ade2 ura1 his7 lys2 tyr1 gal1 SUC mal cup BIO''

'''Notes:''' Used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000079649/overview Hartwell] (1967) J. Bacteriol. 93:1662-1670.

'''Sources:''' [http://www.atcc.org/Products/All/208526.aspx ATCC:208526]

==AB972==
'''Genotype:''' ''MAT''α'' X2180-1B trp10 [rho 0]''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD. AB972 is an ethidium bromide-induced rho- derivative of the strain X2180-1B-''trp1''.

'''References:''' [http://www.yeastgenome.org/reference/S000057090/overview Olson MV et al.] (1986) Proc. Natl. Acad. Sci. USA 83:7826-7830.

'''Sources:''' [http://www.atcc.org/Products/All/204511.aspx ATCC:204511]

==BY4743==
'''Genotype:''' ''MAT''a/α ''his3''Δ''1/his3''Δ''1 leu2''Δ''0/leu2''Δ''0 LYS2/lys2''Δ''0 met15''Δ''0/MET15 ura3''Δ''0/ura3''Δ''0''

'''Notes:''' Strain used in the [http://www-sequence.stanford.edu/group/yeast_deletion_project/project_desc.html systematic deletion project], generated from a cross between BY4741 and BY4742, which are derived from S288C. As in S288c, this strain as well as haploid derivatives BY4741, and BY4742 have allelic variants of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''], [http://www.yeastgenome.org/locus/SAL1/overview ''SAL1''] and [http://www.yeastgenome.org/locus/CAT5/overview ''CAT5''] and these polymorphisms, described in the respective locus history notes for these genes ([http://www.yeastgenome.org/locus/S000005857/sequence#history ''MIP1''], [http://www.yeastgenome.org/locus/S000005027/sequence#history ''SAL1''] and [http://www.yeastgenome.org/locus/cat5/sequence#history ''CAT5'']) all contribute to the high observed petite frequency. Details regarding the contributions of these variants to petite formation are referenced in [http://www.yeastgenome.org/reference/S000130847/overview Dimitrov et al.] (2009) Genetics 183(1):365-83. See the Brachmann et al., 1998 reference for details of strain construction.

'''References:''' [http://www.yeastgenome.org/reference/S000041186/overview Brachmann et al.] (1998) Yeast 14:115-32.

'''Sources:''' [http://www.atcc.org/products/all/201390.aspx ATCC:201390]
===Y7092===
Y7092 is isogenic with BY4741, except for the markers required for the synthetic genetic array procedure

'''Reference:''' [https://www.yeastgenome.org/reference/S000137665 Tong AH and Boone C (2006)] Synthetic genetic array analysis in Saccharomyces cerevisiae. Methods Mol Biol 313:171-92

==CKY8==
'''Genotype:''' ''MAT''α ''ura3-52 leu2-3,112''

'''Sources:''' C. Kaiser (Massachusetts Institute of Technology, Boston)

==DBY4975==
'''Genotype:''' ''MAT''α ''his3Δ200 leu2-3,112 lys2-801 ura3-52 ade2''

'''Derived:''' from S288C

aka IGY6

'''Reference:''' [https://www.yeastgenome.org/reference/11156976 Whitacre J, et al. (2001)] Generation of an isogenic collection of yeast actin mutants and identification of three interrelated phenotypes. Genetics 157(2):533-43

==DBY947==
'''Genotype:''' ''MAT''α ''SUC2 ade2-101 ura3-52''

'''Derived:''' from repeated backcrosses of the ura3-52 allele into the S288C background.

'''Reference:''' [http://www.yeastgenome.org/reference/6380751/overview Neff et al.] (1983) Cell 33(1):211-9

===DFS160===
'''Genotype:''' ''MATα ade2-101 leu2 ura3-52 arg8∷URA3 kar1-1 [rho0]

'''Notes:''' Derived from DBY947. Used in cytoduction experiments; kar1-1 to prevent nuclear fusion and lacks mitochondria (rho0)

'''References:''' [https://journals.asm.org/doi/epdf/10.1128/mcb.13.8.4806-4813.1993 Costanzo & Fox] (1993) MCB 13(8):4806-13 | [https://www.pnas.org/content/pnas/93/11/5253.full.pdf Steele et al.] (1996) PNAS 93:5253-7

==DC5==
'''Genotype:''' ''MAT''a'' leu2-3,112 his3-11,15 can1-11''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000054242/overview Broach et al.] (1979) Gene 8:121-133
==EY441==

'''Genotype:''' ''kss1 ura3-52 leu2-3,112 his3Δ200 ade2-1 lys2Δ201''

'''Reference:''' Elion EA, et al. (1990) FUS3 encodes a cdc2+/CDC28-related kinase required for the transition from mitosis into conjugation. Cell 60(4):649-64 PMID:2406028

==FY4==
'''Genotype:''' ''MAT''a, ''srd1''Δ''0''

'''Notes:''' Derived from S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

[http://www.yeastgenome.org/reference/9483801/overview Brachmann et al.] (1998) Yeast 14:115-32.

===DBY12020===
'''Genotype:''' ''MAT'''''a'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

===DBY12021===
'''Genotype:''' ''MAT'''''α'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

==FY1679==
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 trp1''Δ''63/TRP1 leu2''Δ''1/LEU2 his3''Δ''200/HIS3 GAL2/GAL''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/fy1679.html EUROSCARF:10000D]
==NY13==
isogenic with S288C PMID:24476960
==TB50==
isogenic with S288C PMID:24476960

==X2180-1A==
'''Genotype:''' ''MAT''a'' SUC2 mal mel gal2 CUP1''

'''Notes:'''S288c spontaneously diploidized to give rise to X2180. The haploid segregants X2180-1a and X2180-1b were obtained from sporulated X2180

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston]

'''Sources:''' [http://www.atcc.org/Products/All/204504.aspx ATCC:204504]

=CEN.PK (aka CEN.PK2)=
'''Genotype:''' ''MAT''a/α'' ura3-52/ura3-52 trp1-289/trp1-289 leu2-3,112/leu2-3,112 his3 ''Δ''1/his3 ''Δ''1 MAL2-8C/MAL2-8C SUC2/SUC2''

'''Notes:''' CEN.PK possesses a mutation in CYR1 (A5627T corresponding to a K1876M substitution near the end of the catalytic domain in adenylate cyclase which eliminates glucose- and acidification-induced cAMP signalling and delays glucose-induced loss of stress resistance ([http://www.yeastgenome.org/reference/S000052724/overview Vanhalewyn et al., 1999]; [http://www.yeastgenome.org/reference/S000043601/overview Dumortier et al., 2000]).

'''References:''' [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/cen.html EUROSCARF:30000D]

=D273-10B=
'''Genotype:''' ''MAT''α ''mal GAL''

'''Notes:''' Normal cytochrome content and respiration; low frequency of rho-. This strain and its auxotrophic derivatives were used in numerious laboratories for mitochondrial and related studies and for mutant screens. Good respirer that's relatively resistant to glucose repression.

'''References:''' [http://www.yeastgenome.org/reference/13977171/overview Sherman, F.] (1963) Genetics 48:375-385.

'''Sources:''' [http://www.atcc.org/Products/All/24657.aspx ATCC:24657]

=FL100=
'''Genotype:''' ''MAT''a

'''References:''' [http://www.yeastgenome.org/reference/S000065623/overview Lacroute, F.] (1968) J. Bacteriol. 95:824-832.

Sources: [http://www.atcc.org/Products/All/28383.aspx ATCC:28383]

=JK9-3d=

There are a, alpha and a/alpha diploids of JK9-3d with the following genotypes:

'''Genotypes:''' JK9-3da ''MAT''a ''leu2-3,112 ura3-52 rme1 trp1 his4''

JK9-3dα has the same genotype as JK9-3da with the exception of the MAT locus

JK9-3da/α is homozygous for all markers except mating type

'''Notes:''' JK9-3d was constructed by Jeanette Kunz while in Mike Hall's lab. She made the original strain while Joe Heitman isolated isogenic strains of opposite mating type and derived the a/alpha isogenic diploid by mating type switching. It has in its background S288c, a strain from the Oshima lab, and a strain from the Herskowitz lab. It was chosen because of its robust growth and sporulation, as well as good growth on galactose (GAL+) (so that genes under control of the galactose promoter could be induced). It may also have a SUP mutation that allows translation through premature STOP codons and therefore produces functional alleles with many point mutations.

Recent work shows that JK9-3d carries an ''rme1'' mutation that may be responsible for the rapid G1 arrest of this strain upon exposure to rapamycin ([http://www.yeastgenome.org/reference/S000181599/overview Moreno-Torres M, et al. (2015) Nat Commun 6:8256])

'''References:''' [http://www.yeastgenome.org/reference/S000054286/overview Heitman et al.] (1991a) Science 253(5022):905-9 and [http://www.yeastgenome.org/reference/S000054822/overview Heitman et al.] (1991b) Proc Natl Acad Sci U S A 88(5):1948-52
=RM11-1a=

'''Genotype:''' ''MAT''a ''leu2''Δ''0 ura3-''Δ''0 HO::kanMX

'''Notes:''' RM11-1a is a haploid derivative of RM11, which is a diploid derivative of Bb32(3), which is an ascus derived from Bb32, which is a natural isolate collected by Robert Mortimer from a California vineyard (Ravenswood Zinfandel) in 1993, as in [http://www.yeastgenome.org/reference/S000041556/overview Mortimer et al.] (1994). It has high spore viability (80–90%) and has been extensively characterized phenotypically under a wide range of conditions. It has a significantly longer life span than typical lab yeast strains and accumulates age-associated abnormalities at a lower rate. It displays approximately 0.5–1% sequence divergence relative to S288c. More information is available at the [http://www.broadinstitute.org/annotation/genome/saccharomyces_cerevisiae.3/Home.html Broad Institute website].

'''References:''' [http://www.yeastgenome.org/reference/S000069875/overview Brem et al.] (2002) Science 296(5568):752-5
=SEY6210/SEY6211=
'''Genotype:''' ''MAT''a/''MAT''α ''leu2-3,112/leu2-3,112 ura3-52/ura3-52 his3-''Δ''200/his3-''Δ''200 trp1-''Δ''901/trp1-''Δ''901 ade2/ADE2 suc2-''Δ''9/suc2-''Δ''9 GAL/GAL LYS2/lys2-801''

'''Notes:''' SEY6210/SEY6211, also known as SEY6210.5, was constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers, good growth properties and good sporulation.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/201392.aspx ATCC:201392]

==SEY6210==
'''Genotype:''' ''MAT''α ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 suc2-''Δ''9 lys2-801; GAL''

'''Notes:''' SEY6210 is a MATalpha haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96099.aspx ATCC:96099]

==SEY6211==
'''Genotype:''' ''MAT''a ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 ade2-101 suc2-''Δ''9; GAL''

'''Notes:''' SEY6211 is a MATa haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96100.aspx ATCC:96100]

=Sigma1278b=

'''Genotype:''' ''MAT''α''

Sigma1278b was first isolated in the lab of Marcelle Grenson in the early 1960s, as described in André B (2018) Tribute to Marcelle Grenson (1925-1996), A Pioneer in the Study of Amino Acid Transport in Yeast. Int J Mol Sci 19(4), PMID:[https://www.yeastgenome.org/reference/S000216588 29659503], which contains the complete, exact pedigree of Σ1278b from the Grenson lab archives. A short excerpt:

"A new, prototrophic reference strain was thus isolated: strain Σ1278b. It was obtained by first crossing the YFa-derived yeast D77 (auxotrophic for uracil and glutamate) with the yeast 1422-11D that was received from the American geneticist Donald C. Hawthorne. The derived haploid strain Σ15d (Σ stands for “segregant”) was then crossed with strain DP1-1B received from Piotr Slonimski, and one of the spores issued from this cross gave rise to Σ1278b."

In September 1970, Grenson sent to Gerry Fink a aap/apf1/shr3 mutant isolated from Σ1278b. This strain, which likely diploidized during successive subculturing, was classified as “Fink lab Foreigner strains, F35”. As detailed in the note provided by the Fink lab, collected Nov. 1998 by Cora Styles, analysis twenty years later of this mutant by C. Gimeno and P. Ljungdahl allowed them to discover pseudohyphal growth : Gimeno, C. J., Ljungdahl, P. O., Styles, C. A., & Fink, G. R. (1992). Unipolar cell divisions in the yeast S. cerevisiae lead to filamentous growth: regulation by starvation and RAS. Cell, 68(6), 1077–1090, [https://www.yeastgenome.org/reference/S000041853 PMID:1547504].

''Thanks to Bruno André for contacting SGD directly to share and disseminate this information.''

'''Notes:''' Used in pseudohyphal growth studies. [[History_of_Sigma|Detailed notes]] about the sigma strains have been kindly provided by Cora Styles.

[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000823 Granek and Magwene], PLoS Genet. 2010 Jan 22;6(1):e1000823, established that certain lineages of the Sigma1278B background contain
a nonsense mutation in RIM15, a G-to-T transversion at position 1216 that converts a Gly codon to an opal stop codon. This rim15 mutation interacts epistatically with mutations in certain other genes to affect colony morphology. The Sigma1278b genome is closely related to S288c, and shares some other genomic regions with W303 [http://rsob.royalsocietypublishing.org/content/2/8/120093].

Annotation of the Sigma1278b genome and information about the systematic deletion collection can be found in [http://www.yeastgenome.org/reference/S000133862/overview Dowell et al.] (2010).

The sequence of Ena1p in Σ1278b contains 14 amino acid level changes compared to S288C. 11 are shared with Ena1p of the CEN.PK, SK1 and Y55 strains (i.e., V101, G102, G106, D191, T204, R497, A753, N882, L1045, and I1085). Only C556, F860 and G1070 are unique to Ena1p of Σ1278b. F860 results in non-functionality of the protein that can be restored by replacement with Serine as found in S288C, SK1, CEN.PK, Y55 and RM11 as described in [https://www.yeastgenome.org/reference/SGD:S100000488 Engelberg et al.] (2025).

=SK1=
'''Genotype:''' ''MAT''a/α'' HO gal2 cupS can1R BIO''

'''Notes:''' Commonly used for studying sporulation or meiosis. Canavanine-resistant derivative.

The SK1 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000079650/overview Kane SM and Roth J.] (1974) Bacteriol. 118: 8-14

'''Sources:''' [http://www.atcc.org/Products/All/204722.aspx ATCC:204722]

==g833-1B==
'''Genotype:''' ''MAT''a'' leu2 can1 HOM3 his1-1 trp2 ADE2 ho gal2''

'''Notes:''' Haploid derivative of SK1, constructed by JC Game in the 1980s.

'''Sources:''' [http://www.atcc.org/Products/All/204720.aspx ATCC:204720]

=W303=
'''Genotype:''' ''MAT''a/''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''} [''phi+'']

<table style="text-align: left; width: 526px; height: 174px;" border="1"
cellpadding="2" cellspacing="2">
<tr>
<td style="vertical-align: top; font-weight: bold;">allele 
</td>
<td style="vertical-align: top; font-weight: bold;">locus 
</td>
<td style="vertical-align: top; font-weight: bold;">mutation [http://rsob.royalsocietypublishing.org/content/2/8/120093 (1)] 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">ade2-1 
</td>
<td style="vertical-align: top;"> YOR128C</td>
<td style="vertical-align: top;">nonsense, glu64STOP 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">trp1-1 
</td>
<td style="vertical-align: top;">YDR007W</td>
<td style="vertical-align: top;">nonsense, glu83STOP</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">can1-100 
</td>
<td style="vertical-align: top;"> YEL063C</td>
<td style="vertical-align: top;">frameshift, lys47</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">leu2-3,112 
</td>
<td style="vertical-align: top;">YCL018W 
</td>
<td style="vertical-align: top;">frameshift, gly83</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">his3-11,15 
</td>
<td style="vertical-align: top;">YOR202W</td>
<td style="vertical-align: top;"> 2x frameshifts, ala70 and glu106</td>
</tr>
</table>

'''Notes:''' The W303 genome is to 85.4% derived from S288c, part of the other regions are similar to non-S288c regions of Sigma1278b. In total, some 800 CDS differ between W303 and S288c, but in most cases only one or two residues differ [http://rsob.royalsocietypublishing.org/content/2/8/120093]. These include a ''bud4'' mutation that causes haploids to bud with a mixture of axial and bipolar budding
patterns. In addition, the original W303 strain contains the [http://wiki.yeastgenome.org/index.php/CommunityW303.html ''rad5-535''] allele. As S288c, W303 has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. Unlike S288C, W303 lacks a functional copy of the RNA-binding protein and translational repressor, Ssd1 [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1462329/pdf/12454058.pdf], [https://doi.org/10.1091/mbc.E19-04-0190],[https://doi.org/10.7554/eLife.52063].

The W303 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute] and by [http://rsob.royalsocietypublishing.org/content/2/8/120093 Ralser M. ''et al.''] (2012) Open Biol 2: 120093.
[http://rsob.royalsocietypublishing.org/content/2/8/120093 1] (DDBJ/EMBL/GenBank ALAV00000000).

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''bud4'' info: Original mutant description [http://www.yeastgenome.org/reference/S000120449/overview Voth et al.] (2005) Eukaryotic Cell, 4:1018-28. Mutation: deletion of one of four Gs at positions 2456-2459 of BUD4 ORF. Seq data from: Ralser et al above ''rad5-535'' info: see [[CommunityW303.html|detailed notes]]

'''Sources:''' [http://www.atcc.org/Products/All/200060.aspx ATCC:200060]

==W303-1A==
'''Genotype:''' ''MAT''a {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''Notes:''' W303-1A possesses a ''ybp1-1'' mutation (I7L, F328V, K343E, N571D) which abolishes Ybp1p function, increasing sensitivity to oxidative stress.

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''ybp1-1'' info: [http://www.yeastgenome.org/reference/S000073844/overview Veal et al.] (2003) J. Biol. Chem. 278:30896-904. 

'''Sources:''' [http://www.atcc.org/products/all/208352.aspx ATCC:208352]

==W303-1B==
'''Genotype:''' ''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch'').

'''Sources:''' [http://www.atcc.org/Products/All/201238.aspx ATCC:201238]

==W303-K6001==

'''Genotype:''' ''MAT''a; {''ade2-1, trp1-1, can1-100, leu2-3,112, his3-11,15, GAL, psi+, ho::HO::CDC6 (at HO), cdc6::hisG, ura3::URA3 GAL-ubiR-CDC6 (at URA3)''}

'''References:''' K6001 was created in Kim Nasmyth's lab ''Piatti at al'' (PMID: 7641697) and ''Bobola et al'' (PMID: 8625408). K6001 has become a popular model in yeast aging research, as it allows a replicative aging assay based on microcolonies (PMID: 15489200). Its genome has been sequenced by Timmermann et al (PMID: 20729566), Ralser et al [http://rsob.royalsocietypublishing.org/content/2/8/120093].

==W1536 8B==

'''Genotype:''' ''MATα, ade2Δ, ade3Δ, can1-100, his3-11,15, leu2-3,112, trp1-1, ura3-1''

'''References:''' Shvetsova A, et al. (2021) PMID:34713605

==W1588-4C==
RAD5 derivative of W303

'''Genotype''': ''MAT''a ''ade2-1 can1-100 ura3-1 his3-11,15 leu2-3,112 trp1-1 RAD5''

'''Reference''': Dhingra N, et al. (2019) Replication protein A (RPA) sumoylation positively influences the DNA damage checkpoint response in yeast. J Biol Chem 294(8):2690-2699 PMID:30591583

==DY1457==

'''Genotype:''' ''MAT''a; {''ade6 can1-100(oc) his3-11,15 leu2-3,112 trp1-1 ura3-52''}

'''References:''' [http://www.yeastgenome.org/reference/S000040392/overview Askwith C, et al.] (1994) Cell 76(2):403-10 PMID: 8293473
==EY699==
'''Genotype:''' ''MAT'''a''' ura3-1 his3-11,15 leu2-3,112 trp1-1 ade2 can1-100 Gal+''

'''References:'''
#Rodney Rothstein
#Elion EA, et al. (1991) Functional redundancy in the yeast cell cycle: FUS3 and KSS1 have both overlapping and unique functions. Cold Spring Harb Symp Quant Biol 56:41-9

=XJ24-24a=
'''Genotype:''' ''MAT''a ''ho HMa HMα ade6 arg4-17 trp1-1 tyr7-1 MAL2''

'''Notes:''' Likely quite different from S288C. A strain derived from XJ24-24a called XG1#24 had a recombination between HML and MAT that generated a large ring chromosome (Strathern et al. 1979 Cell), and Carol Newlon generated an ordered map of plasmid sub clones from this ring chromosome (Newlon et al. 1991 Genetics) that was then used for the initial sequencing of Chromosome III (Oliver et al. 1992), which has since been updated numerous times. The provenance of XJ24-24a is unclear. Newlon was able to trace it back about 5 generations: some of the progenitor strains were from the Cold Spring Harbor Yeast course, and some of those strains had some markers similar to S288C (none of which are still in XJ24-24a). ''Thanks to Joachim Li for sharing this history of XJ24-24a with SGD.''

'''References:'''
* [http://www.yeastgenome.org/reference/S000055409/overview Strathern et al.] (1979) Cell 18:309-319
* [http://www.yeastgenome.org/reference/S000055743/overview Newlon et al.] (1979) Genetics 129:343-57
* [http://www.yeastgenome.org/reference/S000060078/overview Oliver et al.] (1992) Nature 357:38-46

=Y55=

'''Genotype:''' ''MAT''a /''MAT''alpha ''HO''/''HO''

'''Notes:''' Y55 is a prototrophic, homothallic diploid strain that was originally isolated by Dennis Winge. Many auxotrophic mutant derivatives have been created by John McCusker by using ethidium bromide treatment to eliminate non-auxotrophs. Y55 background strains have been used to study the timing of meiotic recombination ([http://www.yeastgenome.org/reference/S000148282/overview Borts et al. 1984]); to isolate almost all the subunits of the proteasome ([http://www.yeastgenome.org/reference/3294104/overview McCusker and Haber 1988a], [http://www.yeastgenome.org/reference/3294103/overview 1988b]); to get mutations in PMA1 and related genes ([http://www.yeastgenome.org/reference/2963211/overview McCusker 1986]); and to do meiotic mapping and interference experiments ([http://www.yeastgenome.org/reference/15454526/overview Malkova et al. 2004]).
=YNN216=
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 lys2-801amber/lys2-801amber ade2-101ochre/ade2-101ochre''

'''Notes:''' Congenic to S288C (see Sikorski and Hieter). Used to derive YSS and CY strains (see Sobel and Wolin).

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862.
==YPH499==
'''Genotype:''' ''MAT''a ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:''' Contains nonrevertible (deletion) auxotrophic mutations that can be used for selection of vectors. Note that ''trp1-''Δ''63'', unlike ''trp1-''Δ''1'', does not delete adjacent ''GAL3'' UAS sequence and retains homology to ''TRP1'' selectable marker. ''gal2-'', does not use galactose anaerobically. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204679.aspx ATCC:204679]

==YPH500==
'''Genotype:''' ''MAT''α ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:'''''MAT''α strain isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] except at mating type locus. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/76626.aspx ATCC:76626]

==YPH501==
'''Genotype:''' ''MAT''a/''MAT''α ''ura3-52/ura3-52 lys2-801_amber/lys2-801_amber ade2-101_ochre/ade2-101_ochre trp1-''Δ''63/trp1-''Δ''63 his3-''Δ''200/his3-''Δ''200 leu2-''Δ''1/leu2-''Δ''1''

'''Notes:''' a/α diploid isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] and [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH500 YPH500]. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204681.aspx ATCC:204681]

Commonly used strains

2025-05-06T23:02:00Z

Nash: /* Sigma1278b */

This page describes some of the most commonly used yeast lab strains. Much of the information is taken from [http://www.urmc.rochester.edu/biochemistry-biophysics/images/Getting-Started-With-Yeast.pdf F. Sherman (2002)] Getting started with yeast, Methods Enzymol. 350, 3-41. Other useful papers for strain background information include:

* [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43 - thoroughly describes the genealogy of strain S288C
* [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714 - compares various characteristics of commonly used lab strains
* [http://www.yeastgenome.org/reference/S000080159/overview Winzeler et al.] (2003) Genetics 163:79-89 - uses SFP (single-feature polymorphisms) analysis to study genetic identity between common lab strains

=S288C=
'''Genotype:''' ''MAT''α ''SUC2 gal2 mal2 mel flo1 flo8-1 hap1 ho bio1 bio6''

'''Notes:''' Strain used in the systematic sequencing project, the sequence stored in SGD. S288C does not form pseudohyphae. In addition, since it has a mutated copy of [http://www.yeastgenome.org/locus/S000004246/overview ''HAP1''], it is not a good strain for mitochondrial studies. It has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. S288C strains are ''gal''2- and they do not use galactose anaerobically.

The S288C genome was recently resequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston] (1986) Genetics 113:35-43.

'''Sources:''' [http://www.atcc.org/Products/All/204508.aspx ATCC:204508]

==A364A==
'''Genotype:''' ''MAT''a'' ade1 ade2 ura1 his7 lys2 tyr1 gal1 SUC mal cup BIO''

'''Notes:''' Used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000079649/overview Hartwell] (1967) J. Bacteriol. 93:1662-1670.

'''Sources:''' [http://www.atcc.org/Products/All/208526.aspx ATCC:208526]

==AB972==
'''Genotype:''' ''MAT''α'' X2180-1B trp10 [rho 0]''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD. AB972 is an ethidium bromide-induced rho- derivative of the strain X2180-1B-''trp1''.

'''References:''' [http://www.yeastgenome.org/reference/S000057090/overview Olson MV et al.] (1986) Proc. Natl. Acad. Sci. USA 83:7826-7830.

'''Sources:''' [http://www.atcc.org/Products/All/204511.aspx ATCC:204511]

==BY4743==
'''Genotype:''' ''MAT''a/α ''his3''Δ''1/his3''Δ''1 leu2''Δ''0/leu2''Δ''0 LYS2/lys2''Δ''0 met15''Δ''0/MET15 ura3''Δ''0/ura3''Δ''0''

'''Notes:''' Strain used in the [http://www-sequence.stanford.edu/group/yeast_deletion_project/project_desc.html systematic deletion project], generated from a cross between BY4741 and BY4742, which are derived from S288C. As in S288c, this strain as well as haploid derivatives BY4741, and BY4742 have allelic variants of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''], [http://www.yeastgenome.org/locus/SAL1/overview ''SAL1''] and [http://www.yeastgenome.org/locus/CAT5/overview ''CAT5''] and these polymorphisms, described in the respective locus history notes for these genes ([http://www.yeastgenome.org/locus/S000005857/sequence#history ''MIP1''], [http://www.yeastgenome.org/locus/S000005027/sequence#history ''SAL1''] and [http://www.yeastgenome.org/locus/cat5/sequence#history ''CAT5'']) all contribute to the high observed petite frequency. Details regarding the contributions of these variants to petite formation are referenced in [http://www.yeastgenome.org/reference/S000130847/overview Dimitrov et al.] (2009) Genetics 183(1):365-83. See the Brachmann et al., 1998 reference for details of strain construction.

'''References:''' [http://www.yeastgenome.org/reference/S000041186/overview Brachmann et al.] (1998) Yeast 14:115-32.

'''Sources:''' [http://www.atcc.org/products/all/201390.aspx ATCC:201390]
===Y7092===
Y7092 is isogenic with BY4741, except for the markers required for the synthetic genetic array procedure

'''Reference:''' [https://www.yeastgenome.org/reference/S000137665 Tong AH and Boone C (2006)] Synthetic genetic array analysis in Saccharomyces cerevisiae. Methods Mol Biol 313:171-92

==CKY8==
'''Genotype:''' ''MAT''α ''ura3-52 leu2-3,112''

'''Sources:''' C. Kaiser (Massachusetts Institute of Technology, Boston)

==DBY4975==
'''Genotype:''' ''MAT''α ''his3Δ200 leu2-3,112 lys2-801 ura3-52 ade2''

'''Derived:''' from S288C

aka IGY6

'''Reference:''' [https://www.yeastgenome.org/reference/11156976 Whitacre J, et al. (2001)] Generation of an isogenic collection of yeast actin mutants and identification of three interrelated phenotypes. Genetics 157(2):533-43

==DBY947==
'''Genotype:''' ''MAT''α ''SUC2 ade2-101 ura3-52''

'''Derived:''' from repeated backcrosses of the ura3-52 allele into the S288C background.

'''Reference:''' [http://www.yeastgenome.org/reference/6380751/overview Neff et al.] (1983) Cell 33(1):211-9

===DFS160===
'''Genotype:''' ''MATα ade2-101 leu2 ura3-52 arg8∷URA3 kar1-1 [rho0]

'''Notes:''' Derived from DBY947. Used in cytoduction experiments; kar1-1 to prevent nuclear fusion and lacks mitochondria (rho0)

'''References:''' [https://journals.asm.org/doi/epdf/10.1128/mcb.13.8.4806-4813.1993 Costanzo & Fox] (1993) MCB 13(8):4806-13 | [https://www.pnas.org/content/pnas/93/11/5253.full.pdf Steele et al.] (1996) PNAS 93:5253-7

==DC5==
'''Genotype:''' ''MAT''a'' leu2-3,112 his3-11,15 can1-11''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000054242/overview Broach et al.] (1979) Gene 8:121-133
==EY441==

'''Genotype:''' ''kss1 ura3-52 leu2-3,112 his3Δ200 ade2-1 lys2Δ201''

'''Reference:''' Elion EA, et al. (1990) FUS3 encodes a cdc2+/CDC28-related kinase required for the transition from mitosis into conjugation. Cell 60(4):649-64 PMID:2406028

==FY4==
'''Genotype:''' ''MAT''a, ''srd1''Δ''0''

'''Notes:''' Derived from S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

[http://www.yeastgenome.org/reference/9483801/overview Brachmann et al.] (1998) Yeast 14:115-32.

===DBY12020===
'''Genotype:''' ''MAT'''''a'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

===DBY12021===
'''Genotype:''' ''MAT'''''α'''(PGAL10+''gal1'')Δ::loxP, ''leu2''Δ''0''::PACT1-GEV-NatMX, ''gal4''Δ::''LEU2'', ''HAP1+''

'''Notes:''' Derived from FY4.

'''Reference:''' [http://www.yeastgenome.org/reference/21965290/overview McIsaac et al.] (2011) Mol Biol Cell 22(22):4447-59.

==FY1679==
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 trp1''Δ''63/TRP1 leu2''Δ''1/LEU2 his3''Δ''200/HIS3 GAL2/GAL''

'''Notes:''' Isogenic to S288C; used in the systematic sequencing project, the sequence stored in SGD.

'''References:''' [http://www.yeastgenome.org/reference/S000047446/overview Winston et al.] (1995) Yeast 11:53-55.

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/fy1679.html EUROSCARF:10000D]
==NY13==
isogenic with S288C PMID:24476960
==TB50==
isogenic with S288C PMID:24476960

==X2180-1A==
'''Genotype:''' ''MAT''a'' SUC2 mal mel gal2 CUP1''

'''Notes:'''S288c spontaneously diploidized to give rise to X2180. The haploid segregants X2180-1a and X2180-1b were obtained from sporulated X2180

'''References:''' [http://www.yeastgenome.org/reference/S000050744/overview Mortimer and Johnston]

'''Sources:''' [http://www.atcc.org/Products/All/204504.aspx ATCC:204504]

=CEN.PK (aka CEN.PK2)=
'''Genotype:''' ''MAT''a/α'' ura3-52/ura3-52 trp1-289/trp1-289 leu2-3,112/leu2-3,112 his3 ''Δ''1/his3 ''Δ''1 MAL2-8C/MAL2-8C SUC2/SUC2''

'''Notes:''' CEN.PK possesses a mutation in CYR1 (A5627T corresponding to a K1876M substitution near the end of the catalytic domain in adenylate cyclase which eliminates glucose- and acidification-induced cAMP signalling and delays glucose-induced loss of stress resistance ([http://www.yeastgenome.org/reference/S000052724/overview Vanhalewyn et al., 1999]; [http://www.yeastgenome.org/reference/S000043601/overview Dumortier et al., 2000]).

'''References:''' [http://www.yeastgenome.org/reference/S000079648/overview van Dijken et al.] (2000) Enzyme Microb Technol 26:706-714

'''Sources:''' [http://web.uni-frankfurt.de/fb15/mikro/euroscarf/data/cen.html EUROSCARF:30000D]

=D273-10B=
'''Genotype:''' ''MAT''α ''mal GAL''

'''Notes:''' Normal cytochrome content and respiration; low frequency of rho-. This strain and its auxotrophic derivatives were used in numerious laboratories for mitochondrial and related studies and for mutant screens. Good respirer that's relatively resistant to glucose repression.

'''References:''' [http://www.yeastgenome.org/reference/13977171/overview Sherman, F.] (1963) Genetics 48:375-385.

'''Sources:''' [http://www.atcc.org/Products/All/24657.aspx ATCC:24657]

=FL100=
'''Genotype:''' ''MAT''a

'''References:''' [http://www.yeastgenome.org/reference/S000065623/overview Lacroute, F.] (1968) J. Bacteriol. 95:824-832.

Sources: [http://www.atcc.org/Products/All/28383.aspx ATCC:28383]

=JK9-3d=

There are a, alpha and a/alpha diploids of JK9-3d with the following genotypes:

'''Genotypes:''' JK9-3da ''MAT''a ''leu2-3,112 ura3-52 rme1 trp1 his4''

JK9-3dα has the same genotype as JK9-3da with the exception of the MAT locus

JK9-3da/α is homozygous for all markers except mating type

'''Notes:''' JK9-3d was constructed by Jeanette Kunz while in Mike Hall's lab. She made the original strain while Joe Heitman isolated isogenic strains of opposite mating type and derived the a/alpha isogenic diploid by mating type switching. It has in its background S288c, a strain from the Oshima lab, and a strain from the Herskowitz lab. It was chosen because of its robust growth and sporulation, as well as good growth on galactose (GAL+) (so that genes under control of the galactose promoter could be induced). It may also have a SUP mutation that allows translation through premature STOP codons and therefore produces functional alleles with many point mutations.

Recent work shows that JK9-3d carries an ''rme1'' mutation that may be responsible for the rapid G1 arrest of this strain upon exposure to rapamycin ([http://www.yeastgenome.org/reference/S000181599/overview Moreno-Torres M, et al. (2015) Nat Commun 6:8256])

'''References:''' [http://www.yeastgenome.org/reference/S000054286/overview Heitman et al.] (1991a) Science 253(5022):905-9 and [http://www.yeastgenome.org/reference/S000054822/overview Heitman et al.] (1991b) Proc Natl Acad Sci U S A 88(5):1948-52
=RM11-1a=

'''Genotype:''' ''MAT''a ''leu2''Δ''0 ura3-''Δ''0 HO::kanMX

'''Notes:''' RM11-1a is a haploid derivative of RM11, which is a diploid derivative of Bb32(3), which is an ascus derived from Bb32, which is a natural isolate collected by Robert Mortimer from a California vineyard (Ravenswood Zinfandel) in 1993, as in [http://www.yeastgenome.org/reference/S000041556/overview Mortimer et al.] (1994). It has high spore viability (80–90%) and has been extensively characterized phenotypically under a wide range of conditions. It has a significantly longer life span than typical lab yeast strains and accumulates age-associated abnormalities at a lower rate. It displays approximately 0.5–1% sequence divergence relative to S288c. More information is available at the [http://www.broadinstitute.org/annotation/genome/saccharomyces_cerevisiae.3/Home.html Broad Institute website].

'''References:''' [http://www.yeastgenome.org/reference/S000069875/overview Brem et al.] (2002) Science 296(5568):752-5
=SEY6210/SEY6211=
'''Genotype:''' ''MAT''a/''MAT''α ''leu2-3,112/leu2-3,112 ura3-52/ura3-52 his3-''Δ''200/his3-''Δ''200 trp1-''Δ''901/trp1-''Δ''901 ade2/ADE2 suc2-''Δ''9/suc2-''Δ''9 GAL/GAL LYS2/lys2-801''

'''Notes:''' SEY6210/SEY6211, also known as SEY6210.5, was constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers, good growth properties and good sporulation.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/201392.aspx ATCC:201392]

==SEY6210==
'''Genotype:''' ''MAT''α ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 suc2-''Δ''9 lys2-801; GAL''

'''Notes:''' SEY6210 is a MATalpha haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96099.aspx ATCC:96099]

==SEY6211==
'''Genotype:''' ''MAT''a ''leu2-3,112 ura3-52 his3-''Δ''200 trp1-''Δ''901 ade2-101 suc2-''Δ''9; GAL''

'''Notes:''' SEY6211 is a MATa haploid constructed by Scott Emr and has been used in studies of autophagy, protein sorting etc. It is the product of crossing with strains from 5 different labs (Gerry Fink, Ron Davis, David Botstein, Fred Sherman, Randy Schekman). It has several selectable markers and good growth properties.

'''References:''' [http://www.yeastgenome.org/reference/S000045321/overview Robinson et al.] (1988) Mol Cell Biol 8(11):4936-48

'''Sources:''' [http://www.atcc.org/Products/All/96100.aspx ATCC:96100]

=Sigma1278b=

'''Genotype:''' ''MAT''α''

Sigma1278b was first isolated in the lab of Marcelle Grenson in the early 1960s, as described in André B (2018) Tribute to Marcelle Grenson (1925-1996), A Pioneer in the Study of Amino Acid Transport in Yeast. Int J Mol Sci 19(4), PMID:[https://www.yeastgenome.org/reference/S000216588 29659503], which contains the complete, exact pedigree of Σ1278b from the Grenson lab archives. A short excerpt:

"A new, prototrophic reference strain was thus isolated: strain Σ1278b. It was obtained by first crossing the YFa-derived yeast D77 (auxotrophic for uracil and glutamate) with the yeast 1422-11D that was received from the American geneticist Donald C. Hawthorne. The derived haploid strain Σ15d (Σ stands for “segregant”) was then crossed with strain DP1-1B received from Piotr Slonimski, and one of the spores issued from this cross gave rise to Σ1278b."

In September 1970, Grenson sent to Gerry Fink a aap/apf1/shr3 mutant isolated from Σ1278b. This strain, which likely diploidized during successive subculturing, was classified as “Fink lab Foreigner strains, F35”. As detailed in the note provided by the Fink lab, collected Nov. 1998 by Cora Styles, analysis twenty years later of this mutant by C. Gimeno and P. Ljungdahl allowed them to discover pseudohyphal growth : Gimeno, C. J., Ljungdahl, P. O., Styles, C. A., & Fink, G. R. (1992). Unipolar cell divisions in the yeast S. cerevisiae lead to filamentous growth: regulation by starvation and RAS. Cell, 68(6), 1077–1090, [https://www.yeastgenome.org/reference/S000041853 PMID:1547504].

''Thanks to Bruno André for contacting SGD directly to share and disseminate this information.''

'''Notes:''' Used in pseudohyphal growth studies. [[History_of_Sigma|Detailed notes]] about the sigma strains have been kindly provided by Cora Styles.

[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1000823 Granek and Magwene], PLoS Genet. 2010 Jan 22;6(1):e1000823, established that certain lineages of the Sigma1278B background contain
a nonsense mutation in RIM15, a G-to-T transversion at position 1216 that converts a Gly codon to an opal stop codon. This rim15 mutation interacts epistatically with mutations in certain other genes to affect colony morphology. The Sigma1278b genome is closely related to S288c, and shares some other genomic regions with W303 [http://rsob.royalsocietypublishing.org/content/2/8/120093].

Annotation of the Sigma1278b genome and information about the systematic deletion collection can be found in [http://www.yeastgenome.org/reference/S000133862/overview Dowell et al.] (2010).

The sequence of Ena1p in Σ1278b contains 14 amino acid level changes compared to S288C. 11 are shared with Ena1p of the CEN.PK, SK1 and Y55 strains (i.e., V101, G102, G106, D191, T204, R497, A753, N882, L1045, and I1085). Only C556, F860 and G1070 are unique to Ena1p of Σ1278b. F860 results in non-functionality of the protein that can be restored by replacement with Serine as found in S288C, SK1, CEN.PK, Y55 and RM11[https://www.yeastgenome.org/reference/SGD:S100000488 Engelberg et al.] (2025).

=SK1=
'''Genotype:''' ''MAT''a/α'' HO gal2 cupS can1R BIO''

'''Notes:''' Commonly used for studying sporulation or meiosis. Canavanine-resistant derivative.

The SK1 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute].

'''References:''' [http://www.yeastgenome.org/reference/S000079650/overview Kane SM and Roth J.] (1974) Bacteriol. 118: 8-14

'''Sources:''' [http://www.atcc.org/Products/All/204722.aspx ATCC:204722]

==g833-1B==
'''Genotype:''' ''MAT''a'' leu2 can1 HOM3 his1-1 trp2 ADE2 ho gal2''

'''Notes:''' Haploid derivative of SK1, constructed by JC Game in the 1980s.

'''Sources:''' [http://www.atcc.org/Products/All/204720.aspx ATCC:204720]

=W303=
'''Genotype:''' ''MAT''a/''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''} [''phi+'']

<table style="text-align: left; width: 526px; height: 174px;" border="1"
cellpadding="2" cellspacing="2">
<tr>
<td style="vertical-align: top; font-weight: bold;">allele 
</td>
<td style="vertical-align: top; font-weight: bold;">locus 
</td>
<td style="vertical-align: top; font-weight: bold;">mutation [http://rsob.royalsocietypublishing.org/content/2/8/120093 (1)] 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">ade2-1 
</td>
<td style="vertical-align: top;"> YOR128C</td>
<td style="vertical-align: top;">nonsense, glu64STOP 
</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">trp1-1 
</td>
<td style="vertical-align: top;">YDR007W</td>
<td style="vertical-align: top;">nonsense, glu83STOP</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">can1-100 
</td>
<td style="vertical-align: top;"> YEL063C</td>
<td style="vertical-align: top;">frameshift, lys47</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">leu2-3,112 
</td>
<td style="vertical-align: top;">YCL018W 
</td>
<td style="vertical-align: top;">frameshift, gly83</td>
</tr>
<tr>
<td style="vertical-align: top; font-style: italic;">his3-11,15 
</td>
<td style="vertical-align: top;">YOR202W</td>
<td style="vertical-align: top;"> 2x frameshifts, ala70 and glu106</td>
</tr>
</table>

'''Notes:''' The W303 genome is to 85.4% derived from S288c, part of the other regions are similar to non-S288c regions of Sigma1278b. In total, some 800 CDS differ between W303 and S288c, but in most cases only one or two residues differ [http://rsob.royalsocietypublishing.org/content/2/8/120093]. These include a ''bud4'' mutation that causes haploids to bud with a mixture of axial and bipolar budding
patterns. In addition, the original W303 strain contains the [http://wiki.yeastgenome.org/index.php/CommunityW303.html ''rad5-535''] allele. As S288c, W303 has an allelic variant of [http://www.yeastgenome.org/locus/MIP1/overview ''MIP1''] which increases petite frequency. Unlike S288C, W303 lacks a functional copy of the RNA-binding protein and translational repressor, Ssd1 [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1462329/pdf/12454058.pdf], [https://doi.org/10.1091/mbc.E19-04-0190],[https://doi.org/10.7554/eLife.52063].

The W303 genome was sequenced at the [http://www.sanger.ac.uk/research/projects/genomeinformatics/ Sanger Institute] and by [http://rsob.royalsocietypublishing.org/content/2/8/120093 Ralser M. ''et al.''] (2012) Open Biol 2: 120093.
[http://rsob.royalsocietypublishing.org/content/2/8/120093 1] (DDBJ/EMBL/GenBank ALAV00000000).

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''bud4'' info: Original mutant description [http://www.yeastgenome.org/reference/S000120449/overview Voth et al.] (2005) Eukaryotic Cell, 4:1018-28. Mutation: deletion of one of four Gs at positions 2456-2459 of BUD4 ORF. Seq data from: Ralser et al above ''rad5-535'' info: see [[CommunityW303.html|detailed notes]]

'''Sources:''' [http://www.atcc.org/Products/All/200060.aspx ATCC:200060]

==W303-1A==
'''Genotype:''' ''MAT''a {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''Notes:''' W303-1A possesses a ''ybp1-1'' mutation (I7L, F328V, K343E, N571D) which abolishes Ybp1p function, increasing sensitivity to oxidative stress.

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch''). ''ybp1-1'' info: [http://www.yeastgenome.org/reference/S000073844/overview Veal et al.] (2003) J. Biol. Chem. 278:30896-904. 

'''Sources:''' [http://www.atcc.org/products/all/208352.aspx ATCC:208352]

==W303-1B==
'''Genotype:''' ''MAT''α {''leu2-3,112 trp1-1 can1-100 ura3-1 ade2-1 his3-11,15''}

'''References:''' W303 constructed by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bartsch'').

'''Sources:''' [http://www.atcc.org/Products/All/201238.aspx ATCC:201238]

==W303-K6001==

'''Genotype:''' ''MAT''a; {''ade2-1, trp1-1, can1-100, leu2-3,112, his3-11,15, GAL, psi+, ho::HO::CDC6 (at HO), cdc6::hisG, ura3::URA3 GAL-ubiR-CDC6 (at URA3)''}

'''References:''' K6001 was created in Kim Nasmyth's lab ''Piatti at al'' (PMID: 7641697) and ''Bobola et al'' (PMID: 8625408). K6001 has become a popular model in yeast aging research, as it allows a replicative aging assay based on microcolonies (PMID: 15489200). Its genome has been sequenced by Timmermann et al (PMID: 20729566), Ralser et al [http://rsob.royalsocietypublishing.org/content/2/8/120093].

==W1536 8B==

'''Genotype:''' ''MATα, ade2Δ, ade3Δ, can1-100, his3-11,15, leu2-3,112, trp1-1, ura3-1''

'''References:''' Shvetsova A, et al. (2021) PMID:34713605

==W1588-4C==
RAD5 derivative of W303

'''Genotype''': ''MAT''a ''ade2-1 can1-100 ura3-1 his3-11,15 leu2-3,112 trp1-1 RAD5''

'''Reference''': Dhingra N, et al. (2019) Replication protein A (RPA) sumoylation positively influences the DNA damage checkpoint response in yeast. J Biol Chem 294(8):2690-2699 PMID:30591583

==DY1457==

'''Genotype:''' ''MAT''a; {''ade6 can1-100(oc) his3-11,15 leu2-3,112 trp1-1 ura3-52''}

'''References:''' [http://www.yeastgenome.org/reference/S000040392/overview Askwith C, et al.] (1994) Cell 76(2):403-10 PMID: 8293473
==EY699==
'''Genotype:''' ''MAT'''a''' ura3-1 his3-11,15 leu2-3,112 trp1-1 ade2 can1-100 Gal+''

'''References:'''
#Rodney Rothstein
#Elion EA, et al. (1991) Functional redundancy in the yeast cell cycle: FUS3 and KSS1 have both overlapping and unique functions. Cold Spring Harb Symp Quant Biol 56:41-9

=XJ24-24a=
'''Genotype:''' ''MAT''a ''ho HMa HMα ade6 arg4-17 trp1-1 tyr7-1 MAL2''

'''Notes:''' Likely quite different from S288C. A strain derived from XJ24-24a called XG1#24 had a recombination between HML and MAT that generated a large ring chromosome (Strathern et al. 1979 Cell), and Carol Newlon generated an ordered map of plasmid sub clones from this ring chromosome (Newlon et al. 1991 Genetics) that was then used for the initial sequencing of Chromosome III (Oliver et al. 1992), which has since been updated numerous times. The provenance of XJ24-24a is unclear. Newlon was able to trace it back about 5 generations: some of the progenitor strains were from the Cold Spring Harbor Yeast course, and some of those strains had some markers similar to S288C (none of which are still in XJ24-24a). ''Thanks to Joachim Li for sharing this history of XJ24-24a with SGD.''

'''References:'''
* [http://www.yeastgenome.org/reference/S000055409/overview Strathern et al.] (1979) Cell 18:309-319
* [http://www.yeastgenome.org/reference/S000055743/overview Newlon et al.] (1979) Genetics 129:343-57
* [http://www.yeastgenome.org/reference/S000060078/overview Oliver et al.] (1992) Nature 357:38-46

=Y55=

'''Genotype:''' ''MAT''a /''MAT''alpha ''HO''/''HO''

'''Notes:''' Y55 is a prototrophic, homothallic diploid strain that was originally isolated by Dennis Winge. Many auxotrophic mutant derivatives have been created by John McCusker by using ethidium bromide treatment to eliminate non-auxotrophs. Y55 background strains have been used to study the timing of meiotic recombination ([http://www.yeastgenome.org/reference/S000148282/overview Borts et al. 1984]); to isolate almost all the subunits of the proteasome ([http://www.yeastgenome.org/reference/3294104/overview McCusker and Haber 1988a], [http://www.yeastgenome.org/reference/3294103/overview 1988b]); to get mutations in PMA1 and related genes ([http://www.yeastgenome.org/reference/2963211/overview McCusker 1986]); and to do meiotic mapping and interference experiments ([http://www.yeastgenome.org/reference/15454526/overview Malkova et al. 2004]).
=YNN216=
'''Genotype:''' ''MAT''a/α ''ura3-52/ura3-52 lys2-801amber/lys2-801amber ade2-101ochre/ade2-101ochre''

'''Notes:''' Congenic to S288C (see Sikorski and Hieter). Used to derive YSS and CY strains (see Sobel and Wolin).

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862.
==YPH499==
'''Genotype:''' ''MAT''a ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:''' Contains nonrevertible (deletion) auxotrophic mutations that can be used for selection of vectors. Note that ''trp1-''Δ''63'', unlike ''trp1-''Δ''1'', does not delete adjacent ''GAL3'' UAS sequence and retains homology to ''TRP1'' selectable marker. ''gal2-'', does not use galactose anaerobically. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204679.aspx ATCC:204679]

==YPH500==
'''Genotype:''' ''MAT''α ''ura3-52 lys2-801_amber ade2-101_ochre trp1-''Δ''63 his3-''Δ''200 leu2-''Δ''1''

'''Notes:'''''MAT''α strain isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] except at mating type locus. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/76626.aspx ATCC:76626]

==YPH501==
'''Genotype:''' ''MAT''a/''MAT''α ''ura3-52/ura3-52 lys2-801_amber/lys2-801_amber ade2-101_ochre/ade2-101_ochre trp1-''Δ''63/trp1-''Δ''63 his3-''Δ''200/his3-''Δ''200 leu2-''Δ''1/leu2-''Δ''1''

'''Notes:''' a/α diploid isogenic to [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH499 YPH499] and [http://wiki.yeastgenome.org/index.php/Commonly_used_strains#YPH500 YPH500]. Derived from the diploid strain YNN216 (Johnston and Davis 1984; original source: M. Carlson, Columbia University), which is congenic with S288C.

'''References:''' [http://www.yeastgenome.org/reference/S000044428/overview Sikorski RS and Hieter P] (1989) Genetics 122:19-27. [http://www.yeastgenome.org/reference/S000042217/overview Sobel and Wolin] (1999) Mol. Biol. Cell 10:3849-3862. [http://www.yeastgenome.org/reference/6092912/overview Johnston M and Davis RW] (1984) Mol Cell Biol 4(8):1440-8.

'''Sources:''' [http://www.atcc.org/Products/All/204681.aspx ATCC:204681]

SGD Publications

2025-03-31T16:31:50Z

Nash:

This is a list of publications written by or in collaboration with members of the SGD staff.
#Engel SR, Aleksander S, Nash RS, Wong ED, Weng S, Miyasato SR, Sherlock G, Cherry JM (2025) Saccharomyces Genome Database: advances in genome annotation, expanded biochemical pathways, and other key enhancements. Genetics. 2025 Mar 17;229(3):iyae185. doi: 10.1093/genetics/iyae185. [[media:Engel_2025_PMID_39530598.pdf| '''Full-Text PDF''']] | [https://pubmed.ncbi.nlm.nih.gov/39530598/ '''PMID:39530598''']
#Wong ED, Miyasato SR, Aleksander S, Karra K, Nash RS, Skrzypek MS, Weng S, Engel SR, Cherry JM (2023) Saccharomyces genome database update: server architecture, pan-genome nomenclature, and external resources. Genetics. 2023 May 4;224(1):iyac191. doi: 10.1093/genetics/iyac191. [[media:Wong_2023_PMID_36607068.pdf| '''Full-Text PDF''']] | [https://pubmed.ncbi.nlm.nih.gov/36607068 '''PMID:36607068''']
#Engel SR, Wong ED, Nash RS, Aleksander S, Alexander M, Douglass E, Karra K, Miyasato SR, Simison M, Skrzypek MS, Weng S, Cherry JM (2022) New data and collaborations at the ''Saccharomyces'' Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources. Genetics. 2022 Apr 4; 220(4):iyab224. doi: 10.1093/genetics/iyab224. [[media:Engel_2022_PMID_34897464.pdf| '''Full-Text PDF''']] | [https://pubmed.ncbi.nlm.nih.gov/34897464 '''PMID:34897464''']
#Nash RS, Weng S, Karra K, Wong ED, Engel SR, Cherry JM, the SGD Project (2019) Incorporation of a unified protein abundance dataset into the ''Saccharomyces'' Genome Database. Database (Oxford). 2020 Jan 1; 2020. doi: 10.1093/database/baaa008.[[media:Nash_2020_PMID_32128557.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/32128557 '''PMID: 32128557''']
#Kishore R, Arnaboldi V, Van Slyke CE, Chan J, Nash RS, Urbano JM, Dolan ME, Engel SR, Shimoyama M, Sternberg PW, Genome Resources TAO (2020) Automated generation of gene summaries at the Alliance of Genome Resources. Database (Oxford). 2020 Jan 1;2020:baaa037. doi: 10.1093/database/baaa037. [[media:Kishore_2020_PMID_32559296.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/32559296 '''PMID: 32559296''']
#Ng PC, Wong ED, MacPherson KA, Aleksander S, Argasinska J, Dunn B, Nash RS, Skrzypek MS, Gondwe F, Jha S, Karra K, Weng S, Miyasato S, Simison M, Engel SR, Cherry JM (2019) Transcriptome visualization and data availability at the Saccharomyces Genome Database. Nucleic Acids Res. 2019 Oct 15; pii: gkz892. doi: 10.1093/nar/gkz892. [[media:Ng_2019_PMID_31612944.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/31612944 '''PMID: 31612944''']
#Wong ED, Skrzypek MS, Weng S, Binkley G, Meldal BHM, Perfetto L, Orchard SE, Engel SR, Cherry JM, the SGD Project (2019) Integration of macromolecular complex data into the ''Saccharomyces'' Genome Database. Database (Oxford). 2019 Jan 1; 2019. doi: 10.1093/database/baz008.[[media:Wong_2019_PMID_30715277.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/30715277 '''PMID: 30715277''']
#Meldal BHM, Bye-A-Jee H, Gajdoš L, Hammerová Z, Horácková A, Melicher F, Perfetto L, Pokorný D, Lopez MR, Türková A, Wong ED, Xie Z, Casanova EB, Del-Toro N, Koch M, Porras P, Hermjakob H, Orchard S (2019) Complex Portal 2018: extended content and enhanced visualization tools for macromolecular complexes. Nucleic Acids Res. 2019 Jan 8;47(D1):D550-D558. doi: 10.1093/nar/gky1001. [[media:Meldal_2019_PMID_30357405.pdf| '''Full-Text PDF''']] | [https://pubmed.ncbi.nlm.nih.gov/30357405 '''PMID:30357405''']]
#Howe DG, Blake JA, Bradford YM, Bult CJ, Calvi BR, Engel SR, Kadin JA, Kaufman TC, Kishore R, Laulederkind SJF, Lewis SE, Moxon SAT, Richardson JE, Smith C (2018) Model organism data evolving in support of translational medicine. Lab Anim (NY). Sep 17; 2018. doi: 10.1038/s41684-018-0150-4.[[media:Howe_2018_PMID_30224793.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/30224793 '''PMID: 30224793''']
#Lang OW, Nash RS, Hellerstedt ST, Engel SR, the SGD Project (2018) An Introduction to the Saccharomyces Genome Database (SGD). Methods Mol Biol. 2018 May 15; 1757:21-30.[[media:Lang_2018_PMID_29761454.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/29761454 '''PMID: 29761454''']
#Engel SR, Skrzypek MS, Hellerstedt ST, Wong ED, Nash RS, Weng S, Binkley G, Sheppard TK, Karra K, Cherry JM (2018) Updated regulation curation model at the ''Saccharomyces'' Genome Database. Database (Oxford). 2018 Jan 1; 2018. doi: 10.1093/database/bay007.[[media:Engel_2018_PMID_29688362.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/29688362 '''PMID: 29140510''']
#Skrzypek MS, Nash RS, Wong ED, MacPherson KA, Hellerstedt ST, Engel SR, Karra K, Weng S, Sheppard TK, Binkley G, Simison M, Miyasato SR, Cherry JM (2018) ''Saccharomyces'' genome database informs human biology. Nucleic Acids Res. 2018 Jan 4; 46:D736-D742. doi: 10.1093/nar/gkx1112. [[media:Skrzypek_2018_PMID_29140510.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/29140510 '''PMID: 29140510''']
#Wong ED (2017) Exploring Protein Function Using the ''Saccharomyces'' Genome Database. Methods Mol Biol. 2017 Apr 28; 1611:169-182. doi: 10.1007/978-1-4939-7015-5_13.[[media:Wong_2017_PMID_28451979.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/28451979 '''PMID: 28365719''']
#MacPherson KA, Starr B, Wong ED, Dalusag KS, Hellerstedt ST, Lang OW, Nash RS, Skrzypek MS, Engel SR, Cherry JM (2017) Outreach and online training services at the ''Saccharomyces'' Genome Database. 2017 Jan 1; pii: bax002. doi: 10.1093/database/bax002.[[media:MacPherson_2017_PMID_28365719.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/28365719 '''PMID: 28365719''']
#Hellerstedt ST, Nash RS, Weng S, Paskov KM, Wong ED, Karra K, Engel SR, Cherry JM (2017) Curated protein information in the ''Saccharomyces'' Genome Database. 2017 Mar 11; pii: bax011. doi: 10.1093/database/bax011. [[media:Hellerstedt_2017_PMID_28365727.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/28365727 '''PMID: 28365727''']
#Engel SR, MacPherson KA (2016) Using Model Organism Databases (MODs). Current Protocols Essential Laboratory Techniques. 2016 Nov. doi: 10.1002/cpet.4. [[media:Engel_2016_UsingModelOrganisms.pdf| '''Full-Text PDF''']]
#Song G, Balakrishnan R, Binkley G, Costanzo MC, Dalusag K, Demeter J, Engel S, Hellerstedt ST, Karra K, Hitz BC, Nash RS, Paskov K, Sheppard T, Skrzypek M, Weng S, Wong E, Cherry JM (2016) Integration of new alternative reference strain genome sequences into the Saccharomyces genome database. 2016 Jun 1; pii: baw074. doi: 10.1093/database/baw074. [[media:Song_2016_PMID_27252399.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/27252399 '''PMID: 27252399''']
#Engel SR, Weng S, Binkley G, Paskov K, Song G, Cherry JM (2016) From one to many: expanding the ''Saccharomyces cerevisiae'' reference genome panel. 2016 Mar 17; pii: baw020. doi: 10.1093/database/baw020. [[media:Engel_2016_PMID_26989152.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26989152 '''PMID: 26989152''']
#Sheppard TK, Hitz BC, Engel SR, Song G, Balakrishnan R, Binkley G, Costanzo MC, Dalusag KS, Demeter J, Hellerstedt ST, Karra K, Nash RS, Paskov KM, Skrzypek MS, Weng S, Wong ED, Cherry JM (2016) The ''Saccharomyces'' Genome Database Variant Viewer. Nucleic Acids Res. 2016 Jan 4. pii: gkv1250.[[media:Sheppard_2016_PMID_26578556.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26578556 '''PMID: 26578556''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: A Tool for Discovery. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.top083840. doi: 10.1101/pdb.top083840. [[media:Cherry_2016_PMID_26631132.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631132 '''PMID: 26631132''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: Exploring Genome Features and Their Annotations. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.prot088922. doi: 10.1101/pdb.prot088922. [[media:Cherry_2016_PMID_26631126.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631126 '''PMID: 26631126''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: Gene Product Annotation of Function, Process, and Component. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.prot088914. doi: 10.1101/pdb.prot088914. [[media:Cherry_2016_PMID_26631125.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631125 '''PMID: 26631125''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: Advanced Searching Methods and Data Mining. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.prot088906. doi: 10.1101/pdb.prot088906. [[media:Cherry_2016_PMID_26631124.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631124 '''PMID: 26631124''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: Exploring Biochemical Pathways and Mutant Phenotypes. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.prot088898. doi: 10.1101/pdb.prot088898. [[media:Cherry_2016_PMID_26631123.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631123 '''PMID: 26631123''']
#Skrzypek MS, Nash RS (2015) Biocuration at the ''Saccharomyces'' Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. [[media:Skrzypek_2015_PMID_25997651.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of ''Saccharomyces cerevisiae''. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [[media:Song_2015_PMID_25781462.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']
#Meldal BH, Forner-Martinez O, Costanzo MC, Dana J, Demeter J, Dumousseau M, Dwight SS, Gaulton A, Licata L, Melidoni AN, Ricard-Blum S, Roechert B, Skyzypek MS, Tiwari M, Velankar S, Wong ED, Hermjakob H, Orchard S (2014) The complex portal - an encyclopaedia of macromolecular complexes. Nucleic Acids Res. 43(Database issue):D479-84. doi: 10.1093/nar/gku975. [[media:Nucl._Acids_Res.-2015-Meldal-D479-84.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25313161 '''PMID: 25313161''']
#Chibucos MC, Mungall CJ, Balakrishnan R, Christie KR, Huntley RP, White O, Blake JA, Lewis SE, Giglio M (2014) Standardized description of scientific evidence using the Evidence Ontology (ECO). Database (Oxford) doi: 10.1093/database/bau075 [[media:Database-2014-Chibucos-database-bau075.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25052702 '''PMID: 25052702''']
#Costanzo MC, Engel SR, Wong ED, Lloyd P, Karra K, Chan ET, Weng S, Paskov KM, Roe GR, Binkley G, Hitz BC, Cherry JM (2014) ''Saccharomyces'' Genome Database provides new regulation data. Nucleic Acids Res. 2014 Jan 1;42(1):D717-25. doi: 10.1093/nar/gkt1158. [[media:Costanzo_2013_PMID_24265222.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24265222 '''PMID: 24265222''']
#Engel SR, Dietrich FS, Fisk DG, Binkley G, Balakrishnan R, Costanzo MC, Dwight SS, Hitz BC, Karra K, Nash RS, Weng S, Wong ED, Lloyd P, Skrzypek MS, Miyasato SR, Simison M, Cherry JM (2013) The reference genome sequence of ''Saccharomyces cerevisiae'': Then and now. Database (Oxford) G3 (Bethesda). 2013 Dec 27. pii: g3.113.008995v1. doi: 10.1534/g3.113.008995. [[media:EngelSR_2013_PMID_24374639.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24374639 '''PMID: 24374639''']
#Balakrishnan R, Harris MA, Huntley R, Van Auken K, Cherry JM (2013) A guide to best practices for Gene Ontology (GO) manual annotation. Database (Oxford) doi: 10.1093/database/bat054. [[media:Database-2013-Balakrishnan-database-bat054.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/23842463 '''PMID: 23842463''']
#Engel SR, Cherry JM (2013) The new modern era of yeast genomics: community sequencing and the resulting annotation of multiple ''Saccharomyces cerevisiae'' strains at the ''Saccharomyces'' Genome Database. Database (Oxford) doi: 10.1093/database/bat012. [[media:Engel_2013_PMID_23487186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23487186 '''PMID: 23487186''']
#Wong ED, Karra K, Hitz BC, Hong EL, Cherry JM (2013) The YeastGenome app: the ''Saccharomyces'' Genome Database at your fingertips. Database (Oxford) doi: 10.1093/database/bat004. [[media:Wong_2013_PMID_23396302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23396302 '''PMID: 23396302''']
#Cherry JM, Hong EL, Amundsen C, Balakrishnan R, Binkley G, Chan ET, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Karra K, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Simison M, Weng S, Wong ED (2012) ''Saccharomyces'' Genome Database: the genomics resource of budding yeast. Nucleic Acids Res. Jan;40(Database issue):D700-5. [[media:Cherry_2012_PMID_22110037.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22110037 '''PMID: 22110037''']
#Balakrishnan R, Park J, Karra K, Hitz BC, Binkley G, Hong EL, Sullivan J, Micklem G, Cherry JM (2012) YeastMine - An integrated data warehouse for ''S. cerevisiae'' data as a multi-purpose tool-kit. Database (Oxford) doi: 10.1093/database/bar062. [[media:Balakrishnan_2012_PMID_22434830.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434830 '''PMID: 22434830''']
#Chan ET, Cherry JM (2012) Considerations for creating and annotating the budding yeast Genome Map at SGD: A progress report. Database (Oxford) doi: 10.1093/database/bar057. [[media:Chan_2012_PMID_22434826.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434826 '''PMID: 22434826''']
#Park J, Costanzo MC, Balakrishnan R, Cherry JM, Hong EL (2012) CvManGO, a method for leveraging computational predictions to improve literature-based Gene Ontology annotations. Database (Oxford) doi: 10.1093/database/bas001. [[media:Park_2012_PMID_22434836.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434836 '''PMID: 22434836''']
#Costanzo MC, Park J, Balakrishnan R, Cherry JM, Hong EL (2011) Using computational predictions to improve literature-based Gene Ontology annotations: a feasibility study. Database (Oxford) doi: 10.1093/database/bar004. [[media:Costanzo_2011_PMID_21411447.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=21411447 '''PMID: 21411447''']
#Engel SR, Balakrishnan R, Binkley G, Christie KR, Costanzo MC, Dwight SS, Fisk DG, Hirschman JE, Hitz BC, Hong EL, Krieger CJ, Livstone MS, Miyasato SR, Nash R, Oughtred R, Park J, Skrzypek MS, Weng S, Wong ED, Dolinski K, Botstein D, Cherry JM. (2010) ''Saccharomyces'' Genome Database provides mutant phenotype data. Nucleic Acids Res. 2010 Jan;38(Database issue):D433-6. [[media:Engel_2009_PMID_19906697.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19906697 '''PMID: 19906697''']
#Costanzo MC, Skrzypek MS, Nash R, Wong E, Binkley G, Engel SR, Hitz B, Hong EL, Cherry JM, and the ''Saccharomyces'' Genome Database Project. (2009) New mutant phenotype data curation system in the ''Saccharomyces'' Genome Database. Database; doi: 10.1093/database/bap001. [[media:Costanzo_2009_PMID_20157474.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=20157474 '''PMID: 20157474''']
#Christie KR, Hong EL, Cherry JM. (2009) Functional annotations for the ''Saccharomyces cerevisiae'' genome: the knowns and the known unknowns. Trends Microbiol. 2009 Jul;17(7):286-94. [[media:Christie_2009_PMID_19577472.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19577472 '''PMID: 19577472''']
#Engel SR (2009) Using Model Organism Databases (MODs). Current Protocols Essential Laboratory Techniques. 2009 Jun. doi: 10.1002/9780470089941.et1104s01. [[media:Engel_2009_UsingModelOrganisms.pdf| '''Full-Text PDF''']]
#Hong EL, Balakrishnan R, Dong Q, Christie KR, Park J, Binkley G, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Krieger CJ, Livstone MS, Miyasato SR, Nash RS, Oughtred R, Skrzypek MS, Weng S, Wong ED, Zhu KK, Dolinski K, Botstein D, Cherry JM. (2008) Gene Ontology annotations at SGD: new data sources and annotation methods. Nucleic Acids Res. 2008 Jan;36(Database issue):D577-81. [[media:Hong_2008_PMID_17982175.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17982175 '''PMID: 17982175''']
#Fisk DG, Ball CA, Dolinski K, Engel SR, Hong EL, Issel-Tarver L, Schwartz K, Sethuraman A, Botstein D, Michael Cherry J (2006) ''Saccharomyces cerevisiae'' S288C genome annotation: a working hypothesis. Yeast 23(12):857-65. [[media:Fisk_2006_PMID_17001629.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17001629 '''PMID: 17001629''']
#Nash R, Weng S, Hitz B, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Livstone MS, Oughtred R, Park J, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Dolinski K, Botstein D, Cherry JM (2007) Expanded protein information at SGD: new pages and proteome browser. Nucleic Acids Res 35(Database issue):D468-71. [[media:Nash_2007_PMID_17142221.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17142221 '''PMID: 17142221''']
#Hirschman JE, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hong EL, Livstone MS, Nash R, Park J, Oughtred R, Skrzypek M, Starr B, Theesfeld CL, Williams J, Andrada R, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Thanawala MK, Weng S, Dolinski K, Botstein D, Cherry JM (2006) Genome Snapshot: a new resource at the ''Saccharomyces'' Genome Database (SGD) presenting an overview of the ''Saccharomyces cerevisiae'' genome. Nucleic Acids Res 34(Database issue):D442-5. [[media:Hirschman_2006_PMID_16381907.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=16381907 '''PMID: 16381907''']
#Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Nash R, Oughtred R, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Sethuraman A, Weng S, Botstein D, Cherry JM. Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the ''Saccharomyces'' Genome Database (SGD). Nucleic Acids Res. 2005 Jan 1; 33 Database Issue:D374-7. [[media:Balakrishnan_2005_PMID_15608219.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15608219 '''PMID: 15608219''']
#Dwight SS, Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Engel SR, Feierbach B, Fisk DG, Hirschman J, Hong EL, Issel-Tarver L, Nash RS, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Weng S, Botstein D, Cherry JM. ''Saccharomyces'' genome database: underlying principles and organisation. Brief Bioinform. 2004 Mar; 5(1):9-22. [[media:Dwight_2004_PMID_15153302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15153302 '''PMID: 15153302''']
#Christie KR, Weng S, Balakrishnan R, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Feierbach B, Fisk DG, Hirschman JE, Hong EL, Issel-Tarver L, Nash R, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database (SGD) provides tools to identify and analyze sequences from ''Saccharomyces cerevisiae'' and related sequences from other organisms. Nucleic Acids Res. 2004 Jan 1; 32 Database issue:D311-4. [[media:Christie_2004_PMID_14681421.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=14681421 '''PMID: 14681421''']
#Weng S, Dong Q, Balakrishnan R, Christie K, Costanzo M, Dolinski K, Dwight SS, Engel S, Fisk DG, Hong E, Issel-Tarver L, Sethuraman A, Theesfeld C, Andrada R, Binkley G, Lane C, Schroeder M, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database (SGD) provides biochemical and structural information for budding yeast proteins. Nucleic Acids Res. 2003 Jan 1; 31(1):216-8. [[media:Weng_2003_PMID_12519985.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12519985 '''PMID: 12519985''']
#Issel-Tarver L, Christie KR, Dolinski K, Andrada R, Balakrishnan R, Ball CA, Binkley G, Dong S, Dwight SS, Fisk DG, Harris M, Schroeder M, Sethuraman A, Tse K, Weng S, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database. Methods Enzymol. 2002 350:329-46. [[media:Issel-Tarver_2002_PMID_12073322.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12073322 '''PMID: 12073322''']
#Dwight SS, Harris MA, Dolinski K, Ball CA, Binkley G, Christie KR, Fisk DG, Issel-Tarver L, Schroeder M, Sherlock G, Sethuraman A, Weng S, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Nucleic Acids Res. 2002 Jan 1; 30(1):69-72. [[media:Dwight_2002_PMID_11752257.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11752257 '''PMID: 11752257''']
#Ball CA, Jin H, Sherlock G, Weng S, Matese JC, Andrada R, Binkley G, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Schroeder M, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database provides tools to survey gene expression and functional analysis data. Nucleic Acids Res. 2001 Jan 1;29(1):80-1. [[media:Ball_2001_PMID_11125055.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11125055 '''PMID: 11125055''']
#Ball CA, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Kasarskis A, Scafe CR, Sherlock G, Binkley G, Jin H, Kaloper M, Orr SD, Schroeder M, Weng S, Zhu Y, Botstein D, Cherry JM. Nucleic Acids Res 2000 28(1):77-80. Integrating functional genomic information into the ''Saccharomyces'' genome database. [[media:Ball_2000_PMID_10592186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=10592186 '''PMID: 10592186''']
#Chervitz SA, Hester ET, Ball CA, Dolinski K, Dwight SS, Harris MA, Juvik G, Malekian A, Roberts S, Roe T, Scafe C, Schroeder M, Sherlock G, Weng S, Zhu Y, Cherry JM, Botstein D. Nucleic Acids Res 1999 27(1):74-8. Using the ''Saccharomyces'' Genome Database (SGD) for analysis of protein similarities and structure. [[media:Chervitz_1999_PMID_9847146.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9847146 '''PMID: 9847146''']
#Chervitz SA, Aravind L, Sherlock G, Ball CA, Koonin EV, Dwight SS, Harris MA, Dolinski K, Mohr S, Smith T, Weng S, Cherry JM, Botstein D. Science 1998 282(5396):2022-8. Comparison of the complete protein sets of worm and yeast: orthology and divergence. [[media:Chervitz_1998_PMID_9851918.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9851918 '''PMID: 9851918''']
#Dolinski K, Ball CA, Chervitz SA, Dwight SS, Harris MA, Roberts S, Roe T, Cherry JM, Botstein D. Yeast 1998 Dec;14(16):1453-69. Expanding yeast knowledge online. [[media:Dolinski_1998_PMID_9885151.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9885151 '''PMID: 9885151''']
#Cherry JM, Adler C, Ball C, Chervitz SA, Dwight SS, Hester ET, Jia Y, Juvik G, Roe T, Schroeder M, Weng S, Botstein D. Nucleic Acids Res 1998 26(1):73-80. SGD: ''Saccharomyces'' Genome Database. [[media:Cherry_1998_PMID_9399804.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9399804 '''PMID: 9399804''']
#Botstein D, Chervitz SA, Cherry JM. Science 1997 277(5330):1259-1260. Yeast as a model organism. [[media:Botstein_1997_PMID_9297238.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9297238 '''PMID: 9297238''']
#Botstein D, Cherry JM. Proc Natl Acad Sci U S A 1997 94(11):5506-5507. Molecular linguistics: extracting information from gene and protein sequences. [[media:Botstein_1997_PMID_9159100.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9159100 '''PMID: 9159100''']
#Cherry JM, Ball C, Weng S, Juvik G, Schmidt R, Adler C, Dunn B, Dwight S, Riles L, Mortimer RK, Botstein D. Nature 1997 387(6632 Suppl):67-73. Genetic and physical maps of ''Saccharomyces cerevisiae''. [[media:Cherry_1997_PMID_9169866.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9169866 '''PMID: 9169866''']
#Cherry, JM. Trends Genet 1995 11-12. Genetic nomenclature guide. ''Saccharomyces cerevisiae''. [[media:Cherry_1995_PMID_7660459.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=7660459 '''PMID: 7660459''']

File:Engel 2025 PMID 39530598.pdf

2025-03-31T16:28:40Z

Nash: 2025 Genetics paper

== Summary ==
2025 Genetics paper

Yeast Mortimer Maps - Edition 12

2023-11-30T17:34:25Z

Nash:

<center>[[File:GeneticandPhysicalMapsofSaccharomycesCerevisiae.jpg|350px|link=http://wiki.yeastgenome.org/images/1/10/GeneticandPhysicalMapsofSaccharomycesCerevisiae.jpg]]</center>
 
The genetic and physical maps of the 16 chromosomes of ''Saccharomyces cerevisiae'' are based on data presented in the following:

* [https://www.yeastgenome.org/reference/S000057315 Mortimer RK and Schild D (1980) Genetic map of Saccharomyces cerevisiae. Microbiol Rev 44(4):519-71]
* [https://www.yeastgenome.org/reference/S000073208 Mortimer RK and Schild D (1985) Genetic map of Saccharomyces cerevisiae, edition 9. Microbiol Rev 49(3):181-213]
* [https://www.yeastgenome.org/reference/S000073208 Mortimer RK, et al. (1989) Genetic map of Saccharomyces cerevisiae, edition 10. Yeast 5(5):321-403. PMID: 2678811.]
* [https://www.yeastgenome.org/reference/S000056506 Mortimer RK, et al. (1992) Genetic and physical maps of Saccharomyces cerevisiae, Edition 11. Yeast 8: 817-902.]

Physical maps were compiled from:
* [https://www.yeastgenome.org/reference/S000079656 Riles L, et al. (1993) Physical maps of the six smallest chromosomes of Saccharomyces cerevisiae at a resolution of 2.6 kilobase pairs. Genetics 134(1):81-150]
* gene/clone associations reported by many laboratories
* DNA consensus sequences produced by Fred Dietrich from GenBank sequences,
* the seven completed yeast chromosomal sequences: I, II, III, V, VIII, IX, and XI (Bussey et al., (1994); Feldmann et al, (1994), EMBL J. in press; Oliver et al. (1992), Nature 357:38-46; Dietrich et al., (1994); Johnston et al., (1994), Science 265:2077-2082 Barrell et al., (1994); Dujon et al. (1994), Nature 369:371-378). Full text of these papers is [https://wiki.yeastgenome.org/index.php/Original_Sequence_Papers available here].

Genetic maps are drawn as follows:
* Solid vertical lines.
* Dashed lines represent linkages established by mitotic crossing over.
* Centromeres are represented as circles with the left arm above and the right arm below the centromere.
* Horizontal tick marks indicate the positions of the genes.
* Crowded regions on the genetic map are drawn as expansions; tick marks are joined to the gene symbol by a thin connecting line.
* Genes added since Edition 11 are in bold type.
* Genes that have been mapped on the basis of sequence overlap relative to genetically-mapped genes are positioned to the left of the genetic map line and are connected to this line by tick marks.
* When the order of these genes relative to the mapped genes is unknown, they are arbitrarily placed distal to the mapped gene.

Physical maps are drawn as follows:
* Parallel and to the left of the genetic maps, with the scale (in kb) to the left of this line.
* Symbols represent genes located solely by physical methods.
* Note that two loci (RDN1 on XII and CUP1 on VIII are known to vary greatly in length from strain to strain.
* Dashed lines connect the same gene on the genetic and physical maps, only a fraction of such associations are shown.

Other information of note:
* Genes listed below the chromosome maps or expanded regions of these maps have been assigned to the chromosome or region either by genetic or physical methods but have not been positioned more precisely.
* Some gene symbols in this category are capitalized; this does not necessarily indicate dominance but instead means that the wild type copy was used to map the gene.
* Numerous gene name synonyms have not been included.
** The choice of symbol was guided by an amalgam of consensus, literature usage, clarity relative to function, and priority in the literature.
* Many of the physical map gene positions are based on hybridization results to the prime clone filter grids.
** In these cases the location of the gene is arbitarily placed at the center of the hybridizing region.

'''Maps of individual chromosomes are found below, click on an individual chromosome to view its larger map image.'''
{| border="1" cellpadding="0"
|-
| [[Image:ChromosomeI.jpg|250x250px|link=http://wiki.yeastgenome.org/images/6/6d/ChromosomeI.jpg]]Chromosome I|| [[Image:ChromosomeII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/5/53/ChromosomeII.jpg]]Chromosome II || [[Image:ChromosomeIII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/1/1b/ChromosomeIII.jpg]]Chromosome III || [[Image:ChromosomeIV.jpg|250x250px|link=http://wiki.yeastgenome.org/images/0/09/ChromosomeIV.jpg]]Chromosome IV || [[Image:ChromosomeV.jpg|250x250px|link=http://wiki.yeastgenome.org/images/a/a2/ChromosomeV.jpg]]Chromosome V || [[Image:ChromosomeVI.jpg|250x250px|link=http://wiki.yeastgenome.org/images/9/93/ChromosomeVI.jpg]]Chromosome VI || [[Image:ChromosomeVII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/e/e3/chrVII.gif]]Chromosome VII || [[Image:ChromosomeVIII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/4/46/ChromosomeVIII.jpg]]Chromosome VIII
|-
| [[Image:ChromosomeIX.jpg|250x250px|link=http://wiki.yeastgenome.org/images/8/8b/ChromosomeIX.jpg]]Chromosome IX || [[Image:ChromosomeX.jpg|250x250px|link=http://wiki.yeastgenome.org/images/4/43/ChromosomeX.jpg]]Chromosome X || [[Image:ChromosomeXI.jpg|250x250px|link=http://wiki.yeastgenome.org/images/e/e6/ChromosomeXI.jpg]]Chromosome XI || [[Image:ChromosomeXII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/6/6a/ChromosomeXII.jpg]]Chromosome XII || [[Image:ChromosomeXIII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/7/76/ChromosomeXIII.jpg]]Chromosome XIII || [[Image:ChromosomeXIV.jpg|250x250px|link=http://wiki.yeastgenome.org/images/2/24/ChromosomeXIV.jpg]]Chromosome XIV || [[Image:ChromosomeXV.jpg|250x250px|link=http://wiki.yeastgenome.org/images/e/ec/ChromosomeXV.jpg]]Chromosome XV || [[Image:ChromosomeXVI.jpg|250x250px|link=http://wiki.yeastgenome.org/images/9/98/ChromosomeXVI.jpg]]Chromosome XVI
|}
 
<center>Two-point genetic mapping data can be accessed on the downloads site in a file named [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.tab genetic_map.tab]. Details of the file contents can be accessed in the associated [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.README README file]. </center>

<center>[[File:Map.jpg|400px|link=http://wiki.yeastgenome.org/images/e/ea/Map.jpg]]</center>

Yeast Mortimer Maps - Edition 12

2023-11-30T17:31:37Z

Nash:

<center>[[File:GeneticandPhysicalMapsofSaccharomycesCerevisiae.jpg|350px|link=http://wiki.yeastgenome.org/images/1/10/GeneticandPhysicalMapsofSaccharomycesCerevisiae.jpg]]</center>
 
The genetic and physical maps of the 16 chromosomes of ''Saccharomyces cerevisiae'' are based on data presented in the following:

* [https://www.yeastgenome.org/reference/S000057315 Mortimer RK and Schild D (1980) Genetic map of Saccharomyces cerevisiae. Microbiol Rev 44(4):519-71]
* [https://www.yeastgenome.org/reference/S000073208 Mortimer RK and Schild D (1985) Genetic map of Saccharomyces cerevisiae, edition 9. Microbiol Rev 49(3):181-213]
* [https://www.yeastgenome.org/reference/S000073208 Mortimer RK, et al. (1989) Genetic map of Saccharomyces cerevisiae, edition 10. Yeast 5(5):321-403. PMID: 2678811.]
* [https://www.yeastgenome.org/reference/S000056506 Mortimer RK, et al. (1992) Genetic and physical maps of Saccharomyces cerevisiae, Edition 11. Yeast 8: 817-902.]

Physical maps were compiled from:
* [https://www.yeastgenome.org/reference/S000079656 Riles L, et al. (1993) Physical maps of the six smallest chromosomes of Saccharomyces cerevisiae at a resolution of 2.6 kilobase pairs. Genetics 134(1):81-150]
* gene/clone associations reported by many laboratories
* DNA consensus sequences produced by Fred Dietrich from GenBank sequences,
* the seven completed yeast chromosomal sequences: I, II, III, V, VIII, IX, and XI (Bussey et al., (1994); Feldmann et al, (1994), EMBL J. in press; Oliver et al. (1992), Nature 357:38-46; Dietrich et al., (1994); Johnston et al., (1994), Science 265:2077-2082 Barrell et al., (1994); Dujon et al. (1994), Nature 369:371-378).

Genetic maps are drawn as follows:
* Solid vertical lines.
* Dashed lines represent linkages established by mitotic crossing over.
* Centromeres are represented as circles with the left arm above and the right arm below the centromere.
* Horizontal tick marks indicate the positions of the genes.
* Crowded regions on the genetic map are drawn as expansions; tick marks are joined to the gene symbol by a thin connecting line.
* Genes added since Edition 11 are in bold type.
* Genes that have been mapped on the basis of sequence overlap relative to genetically-mapped genes are positioned to the left of the genetic map line and are connected to this line by tick marks.
* When the order of these genes relative to the mapped genes is unknown, they are arbitrarily placed distal to the mapped gene.

Physical maps are drawn as follows:
* Parallel and to the left of the genetic maps, with the scale (in kb) to the left of this line.
* Symbols represent genes located solely by physical methods.
* Note that two loci (RDN1 on XII and CUP1 on VIII are known to vary greatly in length from strain to strain.
* Dashed lines connect the same gene on the genetic and physical maps, only a fraction of such associations are shown.

Other information of note:
* Genes listed below the chromosome maps or expanded regions of these maps have been assigned to the chromosome or region either by genetic or physical methods but have not been positioned more precisely.
* Some gene symbols in this category are capitalized; this does not necessarily indicate dominance but instead means that the wild type copy was used to map the gene.
* Numerous gene name synonyms have not been included.
** The choice of symbol was guided by an amalgam of consensus, literature usage, clarity relative to function, and priority in the literature.
* Many of the physical map gene positions are based on hybridization results to the prime clone filter grids.
** In these cases the location of the gene is arbitarily placed at the center of the hybridizing region.

'''Maps of individual chromosomes are found below, click on an individual chromosome to view its larger map image.'''
{| border="1" cellpadding="0"
|-
| [[Image:ChromosomeI.jpg|250x250px|link=http://wiki.yeastgenome.org/images/6/6d/ChromosomeI.jpg]]Chromosome I|| [[Image:ChromosomeII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/5/53/ChromosomeII.jpg]]Chromosome II || [[Image:ChromosomeIII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/1/1b/ChromosomeIII.jpg]]Chromosome III || [[Image:ChromosomeIV.jpg|250x250px|link=http://wiki.yeastgenome.org/images/0/09/ChromosomeIV.jpg]]Chromosome IV || [[Image:ChromosomeV.jpg|250x250px|link=http://wiki.yeastgenome.org/images/a/a2/ChromosomeV.jpg]]Chromosome V || [[Image:ChromosomeVI.jpg|250x250px|link=http://wiki.yeastgenome.org/images/9/93/ChromosomeVI.jpg]]Chromosome VI || [[Image:ChromosomeVII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/e/e3/chrVII.gif]]Chromosome VII || [[Image:ChromosomeVIII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/4/46/ChromosomeVIII.jpg]]Chromosome VIII
|-
| [[Image:ChromosomeIX.jpg|250x250px|link=http://wiki.yeastgenome.org/images/8/8b/ChromosomeIX.jpg]]Chromosome IX || [[Image:ChromosomeX.jpg|250x250px|link=http://wiki.yeastgenome.org/images/4/43/ChromosomeX.jpg]]Chromosome X || [[Image:ChromosomeXI.jpg|250x250px|link=http://wiki.yeastgenome.org/images/e/e6/ChromosomeXI.jpg]]Chromosome XI || [[Image:ChromosomeXII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/6/6a/ChromosomeXII.jpg]]Chromosome XII || [[Image:ChromosomeXIII.jpg|250x250px|link=http://wiki.yeastgenome.org/images/7/76/ChromosomeXIII.jpg]]Chromosome XIII || [[Image:ChromosomeXIV.jpg|250x250px|link=http://wiki.yeastgenome.org/images/2/24/ChromosomeXIV.jpg]]Chromosome XIV || [[Image:ChromosomeXV.jpg|250x250px|link=http://wiki.yeastgenome.org/images/e/ec/ChromosomeXV.jpg]]Chromosome XV || [[Image:ChromosomeXVI.jpg|250x250px|link=http://wiki.yeastgenome.org/images/9/98/ChromosomeXVI.jpg]]Chromosome XVI
|}
 
<center>Two-point genetic mapping data can be accessed on the downloads site in a file named [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.tab genetic_map.tab]. Details of the file contents can be accessed in the associated [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.README README file]. </center>

<center>[[File:Map.jpg|400px|link=http://wiki.yeastgenome.org/images/e/ea/Map.jpg]]</center>

Combined Physical and Genetic Maps of S. cerevisiae

2023-11-30T17:23:03Z

Nash:

This page contains links to combined physical and genetic maps for each of the sixteen nuclear chromosomes. In each of these maps genetically and physically mapped features are displayed in a side-by-side representation based on the physical and genetic distances between genes and loci respectively. This page also contains graphs for each of the nuclear chromosomes where relative recombination frequencies along the chromosome are represented based on the ratios of genetic to physical distance, using both two-point data and the lengths of DNA sequences in the genome.

Two-point genetic mapping data can be accessed on the downloads site in a file named [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.tab genetic_map.tab]. Details of the file contents can be accessed in the associated [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.README README file].
==Combined Physical and Genetic Maps==
The combined physical and genetic maps contain a side-by-side representation of the physical and genetic maps for the each nuclear chromosome, based on distances calculated from genetic and physical data. This data was derived from the systematic genomic sequencing project and from data contained within SGD ([https://www.yeastgenome.org/reference/S000060841 Cherry et al., Nature 387(6632S):67-73 (1997)]), as well as data presented in earlier reviews [https://www.yeastgenome.org/reference/S000057315 Mortimer and Schild, Microbiol. Rev. 44:519-571 (1980)], [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000056976 Microbiol. Rev. 49:181-213 (1985)], [https://www.yeastgenome.org/reference/S000073208 Mortimer et al., Yeast 5:321-404 (1989)], and [https://www.yeastgenome.org/reference/S000056506 Mortimer et al., Yeast 8:817-902 (1992)]). In the case where an ORF has been defined, its standard gene name is indicated.

'''Click below on one of the sixteen chromosome numbers to display the Combined Physical and Genetic Map for a desired chromosome.'''
<center>
{| width="50%" border="1"
|-
| [http://wiki.yeastgenome.org/images/4/4e/pgI.gif I] || [http://wiki.yeastgenome.org/images/a/af/pgII.gif II] || [http://wiki.yeastgenome.org/images/d/d1/pgIII.gif III] || [http://wiki.yeastgenome.org/images/6/69/pgIV.gif IV] || [http://wiki.yeastgenome.org/images/d/db/pgV.gif V] || [http://wiki.yeastgenome.org/images/1/14/pgVI.gif VI] || [http://wiki.yeastgenome.org/images/3/3a/pgVII.gif VII] || [http://wiki.yeastgenome.org/images/e/eb/pgVIII.gif VIII]
|-
| [http://wiki.yeastgenome.org/images/4/4c/pgIX.gif IX] || [http://wiki.yeastgenome.org/images/3/36/pgX.gif X] || [http://wiki.yeastgenome.org/images/9/9e/pgXI.gif XI] || [http://wiki.yeastgenome.org/images/8/8b/pgXII.gif XII] || [http://wiki.yeastgenome.org/images/d/d0/pgXIII.gif XIII] || [http://wiki.yeastgenome.org/images/e/ea/pgXIV.gif XIV] || [http://wiki.yeastgenome.org/images/d/d2/pgXV.gif XV] || [http://wiki.yeastgenome.org/images/7/7a/pgXVI.gif XVI]
|-
| colspan="8" align="center" |
{| border="0"
|-
| align="center" width="700" | [[File:SamplePhysicalandGeneticMap.jpg|link=http://wiki.yeastgenome.org/index.php/Combined_Physical_and_Genetic_Maps_of_S._cerevisiae]]
|-
|}
|}
</center>

==Organization of the Combined Physical and Genetic Maps==
* '''Physical and Genetic Map positions''' - The Physical Map is presented on the left (in Kbp) and the Genetic Map on the right (in cM) side of each map. Correspondingly, the Kbp scale is displayed on the left side of the window and the cM scale on the right side.

* '''ORF Identification on the Physical Map''' - ORFs are identified by blue (Crick strand) and red (Watson strand) bars on the physical map. The boxes on the left of the physical map line are for ORFs which have been mapped physically, but not genetically (i.e. gene B in the display). The boxes to the right of the physical map line are for those ORFs which have been mapped both physically and genetically (i.e. genes A and C in the display).

* '''ORF Labeling''' - All identified ORFs are present as bars on the Combined Genetic and Physical Map. In the case where an ORF has been defined, its primary gene name is present on the map. ORFs without gene names are represented only by bars on the map.

* '''ORF Identification on the Genetic Map''' - ORFs are identified on the genetic map by horizontal tick marks to the right of the genetic map.

* '''Lines connecting the Physical and Genetic Maps''' - Lines connect genetically mapped genes with their ORFs on the physical map. In this case, the line extends from the top of the ORF's colored box on the physical map to the corresponding tick mark on the genetic map (see genes A and C for an example).

* '''Getting to the Locus Summary page''' - To get to the Locus Summary page for any of the ORFs displayed on the map, enter the name for the ORF in the search box located at the top of all SGD pages.

* '''Overlapping ORFs''' - In the case of overlapping ORFs, the element at the bottom is shown to overlap the element at the top.

==Genetic Distance vs. Physical Distance Ratios==
These graphs represent the length of a given chromosome along the x-axis (in kilobase pairs) and the ratio of centimorgans to kilobase pairs along the y-axis. Since the location in centimorgans is not known for every locus, intervals are graphed. For example, if marker A is 15 kilobase pairs away from its closest genetically mapped locus, marker B, there will be a 15 kilobase pair-long plateau with the cM/Kbp value that is calculated for that genetic interval.

'''Click below on one of the sixteen chromosome numbers to display the Genetic Distance vs. Physical Distance Ratio for a desired chromosome.'''
<center>
{| width="50%" border="1"
|-
| '''Chromosome''' || [http://wiki.yeastgenome.org/images/f/f1/ratiomapI.gif I] || [http://wiki.yeastgenome.org/images/0/09/ratiomapII.gif II] || [http://wiki.yeastgenome.org/images/7/7d/ratiomapIII.gif III] || [http://wiki.yeastgenome.org/images/9/9f/ratiomapIV.gif IV] || [http://wiki.yeastgenome.org/images/b/b2/ratiomapV.gif V] || [http://wiki.yeastgenome.org/images/4/49/ratiomapVI.gif VI] || [http://wiki.yeastgenome.org/images/8/8d/ratiomapVII.gif VII] || [http://wiki.yeastgenome.org/images/e/e0/ratiomapVIII.gif VIII] || [http://wiki.yeastgenome.org/images/8/8e/ratiomapIX.gif IX] || [http://wiki.yeastgenome.org/images/a/a6/ratiomapX.gif X] || [http://wiki.yeastgenome.org/images/7/78/ratiomapXI.gif XI] || [http://wiki.yeastgenome.org/images/4/46/ratiomapXII.gif XII] || [http://wiki.yeastgenome.org/images/f/fa/ratiomapXIII.gif XIII] || [http://wiki.yeastgenome.org/images/d/dc/ratiomapXIV.gif XIV] || [http://wiki.yeastgenome.org/images/9/9f/ratiomapXV.gif XV] || [http://wiki.yeastgenome.org/images/8/8e/ratiomapXVI.gif XVI]
|-
| '''cM/Kbp''' || 0.45 || 0.30 || 0.48 || 0.31 || 0.35 || 0.48 || 0.37 || 0.30 || 0.45 || 0.30 || 0.38 || 0.36 || 0.34 || 0.37 || 0.33 || 0.29
|}
</center>

Combined Physical and Genetic Maps of S. cerevisiae

2023-11-30T17:22:39Z

Nash:

This page contains links to combined physical and genetic maps for each of the sixteen nuclear chromosomes. In each of these maps genetically and physically mapped features are displayed in a side-by-side representation based on the physical and genetic distances between genes and loci respectively. This page also contains graphs for each of the nuclear chromosomes where relative recombination frequencies along the chromosome are represented based on the ratios of genetic to physical distance, using both two-point data and the lengths of DNA sequences in the genome.

Two-point genetic mapping data can be accessed on the downloads site in a file named [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.tab genetic_map.tab]. Details of the file contents can be accessed in the associated [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.README README file].
==Combined Physical and Genetic Maps==
The combined physical and genetic maps contain a side-by-side representation of the physical and genetic maps for the each nuclear chromosome, based on distances calculated from genetic and physical data. This data was derived from the systematic genomic sequencing project and from data contained within SGD ([https://www.yeastgenome.org/reference/S000060841 Cherry et al., Nature 387(6632S):67-73 (1997)]), as well as data presented in earlier reviews [https://www.yeastgenome.org/reference/S000057315 Mortimer and Schild, Microbiol. Rev. 44:519-571 (1980)], [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000056976 Microbiol. Rev. 49:181-213 (1985)], [https://www.yeastgenome.org/reference/S000073208 Mortimer et al., Yeast 5:321-404 (1989)], and [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000056506 Mortimer et al., Yeast 8:817-902 (1992)]). In the case where an ORF has been defined, its standard gene name is indicated.

'''Click below on one of the sixteen chromosome numbers to display the Combined Physical and Genetic Map for a desired chromosome.'''
<center>
{| width="50%" border="1"
|-
| [http://wiki.yeastgenome.org/images/4/4e/pgI.gif I] || [http://wiki.yeastgenome.org/images/a/af/pgII.gif II] || [http://wiki.yeastgenome.org/images/d/d1/pgIII.gif III] || [http://wiki.yeastgenome.org/images/6/69/pgIV.gif IV] || [http://wiki.yeastgenome.org/images/d/db/pgV.gif V] || [http://wiki.yeastgenome.org/images/1/14/pgVI.gif VI] || [http://wiki.yeastgenome.org/images/3/3a/pgVII.gif VII] || [http://wiki.yeastgenome.org/images/e/eb/pgVIII.gif VIII]
|-
| [http://wiki.yeastgenome.org/images/4/4c/pgIX.gif IX] || [http://wiki.yeastgenome.org/images/3/36/pgX.gif X] || [http://wiki.yeastgenome.org/images/9/9e/pgXI.gif XI] || [http://wiki.yeastgenome.org/images/8/8b/pgXII.gif XII] || [http://wiki.yeastgenome.org/images/d/d0/pgXIII.gif XIII] || [http://wiki.yeastgenome.org/images/e/ea/pgXIV.gif XIV] || [http://wiki.yeastgenome.org/images/d/d2/pgXV.gif XV] || [http://wiki.yeastgenome.org/images/7/7a/pgXVI.gif XVI]
|-
| colspan="8" align="center" |
{| border="0"
|-
| align="center" width="700" | [[File:SamplePhysicalandGeneticMap.jpg|link=http://wiki.yeastgenome.org/index.php/Combined_Physical_and_Genetic_Maps_of_S._cerevisiae]]
|-
|}
|}
</center>

==Organization of the Combined Physical and Genetic Maps==
* '''Physical and Genetic Map positions''' - The Physical Map is presented on the left (in Kbp) and the Genetic Map on the right (in cM) side of each map. Correspondingly, the Kbp scale is displayed on the left side of the window and the cM scale on the right side.

* '''ORF Identification on the Physical Map''' - ORFs are identified by blue (Crick strand) and red (Watson strand) bars on the physical map. The boxes on the left of the physical map line are for ORFs which have been mapped physically, but not genetically (i.e. gene B in the display). The boxes to the right of the physical map line are for those ORFs which have been mapped both physically and genetically (i.e. genes A and C in the display).

* '''ORF Labeling''' - All identified ORFs are present as bars on the Combined Genetic and Physical Map. In the case where an ORF has been defined, its primary gene name is present on the map. ORFs without gene names are represented only by bars on the map.

* '''ORF Identification on the Genetic Map''' - ORFs are identified on the genetic map by horizontal tick marks to the right of the genetic map.

* '''Lines connecting the Physical and Genetic Maps''' - Lines connect genetically mapped genes with their ORFs on the physical map. In this case, the line extends from the top of the ORF's colored box on the physical map to the corresponding tick mark on the genetic map (see genes A and C for an example).

* '''Getting to the Locus Summary page''' - To get to the Locus Summary page for any of the ORFs displayed on the map, enter the name for the ORF in the search box located at the top of all SGD pages.

* '''Overlapping ORFs''' - In the case of overlapping ORFs, the element at the bottom is shown to overlap the element at the top.

==Genetic Distance vs. Physical Distance Ratios==
These graphs represent the length of a given chromosome along the x-axis (in kilobase pairs) and the ratio of centimorgans to kilobase pairs along the y-axis. Since the location in centimorgans is not known for every locus, intervals are graphed. For example, if marker A is 15 kilobase pairs away from its closest genetically mapped locus, marker B, there will be a 15 kilobase pair-long plateau with the cM/Kbp value that is calculated for that genetic interval.

'''Click below on one of the sixteen chromosome numbers to display the Genetic Distance vs. Physical Distance Ratio for a desired chromosome.'''
<center>
{| width="50%" border="1"
|-
| '''Chromosome''' || [http://wiki.yeastgenome.org/images/f/f1/ratiomapI.gif I] || [http://wiki.yeastgenome.org/images/0/09/ratiomapII.gif II] || [http://wiki.yeastgenome.org/images/7/7d/ratiomapIII.gif III] || [http://wiki.yeastgenome.org/images/9/9f/ratiomapIV.gif IV] || [http://wiki.yeastgenome.org/images/b/b2/ratiomapV.gif V] || [http://wiki.yeastgenome.org/images/4/49/ratiomapVI.gif VI] || [http://wiki.yeastgenome.org/images/8/8d/ratiomapVII.gif VII] || [http://wiki.yeastgenome.org/images/e/e0/ratiomapVIII.gif VIII] || [http://wiki.yeastgenome.org/images/8/8e/ratiomapIX.gif IX] || [http://wiki.yeastgenome.org/images/a/a6/ratiomapX.gif X] || [http://wiki.yeastgenome.org/images/7/78/ratiomapXI.gif XI] || [http://wiki.yeastgenome.org/images/4/46/ratiomapXII.gif XII] || [http://wiki.yeastgenome.org/images/f/fa/ratiomapXIII.gif XIII] || [http://wiki.yeastgenome.org/images/d/dc/ratiomapXIV.gif XIV] || [http://wiki.yeastgenome.org/images/9/9f/ratiomapXV.gif XV] || [http://wiki.yeastgenome.org/images/8/8e/ratiomapXVI.gif XVI]
|-
| '''cM/Kbp''' || 0.45 || 0.30 || 0.48 || 0.31 || 0.35 || 0.48 || 0.37 || 0.30 || 0.45 || 0.30 || 0.38 || 0.36 || 0.34 || 0.37 || 0.33 || 0.29
|}
</center>

Combined Physical and Genetic Maps of S. cerevisiae

2023-11-30T17:22:02Z

Nash:

This page contains links to combined physical and genetic maps for each of the sixteen nuclear chromosomes. In each of these maps genetically and physically mapped features are displayed in a side-by-side representation based on the physical and genetic distances between genes and loci respectively. This page also contains graphs for each of the nuclear chromosomes where relative recombination frequencies along the chromosome are represented based on the ratios of genetic to physical distance, using both two-point data and the lengths of DNA sequences in the genome.

Two-point genetic mapping data can be accessed on the downloads site in a file named [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.tab genetic_map.tab]. Details of the file contents can be accessed in the associated [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.README README file].
==Combined Physical and Genetic Maps==
The combined physical and genetic maps contain a side-by-side representation of the physical and genetic maps for the each nuclear chromosome, based on distances calculated from genetic and physical data. This data was derived from the systematic genomic sequencing project and from data contained within SGD ([https://www.yeastgenome.org/reference/S000060841 Cherry et al., Nature 387(6632S):67-73 (1997)]), as well as data presented in earlier reviews [https://www.yeastgenome.org/reference/S000057315 Mortimer and Schild, Microbiol. Rev. 44:519-571 (1980)], [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000056976 Microbiol. Rev. 49:181-213 (1985)], [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000073208 Mortimer et al., Yeast 5:321-404 (1989)], and [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000056506 Mortimer et al., Yeast 8:817-902 (1992)]). In the case where an ORF has been defined, its standard gene name is indicated.

'''Click below on one of the sixteen chromosome numbers to display the Combined Physical and Genetic Map for a desired chromosome.'''
<center>
{| width="50%" border="1"
|-
| [http://wiki.yeastgenome.org/images/4/4e/pgI.gif I] || [http://wiki.yeastgenome.org/images/a/af/pgII.gif II] || [http://wiki.yeastgenome.org/images/d/d1/pgIII.gif III] || [http://wiki.yeastgenome.org/images/6/69/pgIV.gif IV] || [http://wiki.yeastgenome.org/images/d/db/pgV.gif V] || [http://wiki.yeastgenome.org/images/1/14/pgVI.gif VI] || [http://wiki.yeastgenome.org/images/3/3a/pgVII.gif VII] || [http://wiki.yeastgenome.org/images/e/eb/pgVIII.gif VIII]
|-
| [http://wiki.yeastgenome.org/images/4/4c/pgIX.gif IX] || [http://wiki.yeastgenome.org/images/3/36/pgX.gif X] || [http://wiki.yeastgenome.org/images/9/9e/pgXI.gif XI] || [http://wiki.yeastgenome.org/images/8/8b/pgXII.gif XII] || [http://wiki.yeastgenome.org/images/d/d0/pgXIII.gif XIII] || [http://wiki.yeastgenome.org/images/e/ea/pgXIV.gif XIV] || [http://wiki.yeastgenome.org/images/d/d2/pgXV.gif XV] || [http://wiki.yeastgenome.org/images/7/7a/pgXVI.gif XVI]
|-
| colspan="8" align="center" |
{| border="0"
|-
| align="center" width="700" | [[File:SamplePhysicalandGeneticMap.jpg|link=http://wiki.yeastgenome.org/index.php/Combined_Physical_and_Genetic_Maps_of_S._cerevisiae]]
|-
|}
|}
</center>

==Organization of the Combined Physical and Genetic Maps==
* '''Physical and Genetic Map positions''' - The Physical Map is presented on the left (in Kbp) and the Genetic Map on the right (in cM) side of each map. Correspondingly, the Kbp scale is displayed on the left side of the window and the cM scale on the right side.

* '''ORF Identification on the Physical Map''' - ORFs are identified by blue (Crick strand) and red (Watson strand) bars on the physical map. The boxes on the left of the physical map line are for ORFs which have been mapped physically, but not genetically (i.e. gene B in the display). The boxes to the right of the physical map line are for those ORFs which have been mapped both physically and genetically (i.e. genes A and C in the display).

* '''ORF Labeling''' - All identified ORFs are present as bars on the Combined Genetic and Physical Map. In the case where an ORF has been defined, its primary gene name is present on the map. ORFs without gene names are represented only by bars on the map.

* '''ORF Identification on the Genetic Map''' - ORFs are identified on the genetic map by horizontal tick marks to the right of the genetic map.

* '''Lines connecting the Physical and Genetic Maps''' - Lines connect genetically mapped genes with their ORFs on the physical map. In this case, the line extends from the top of the ORF's colored box on the physical map to the corresponding tick mark on the genetic map (see genes A and C for an example).

* '''Getting to the Locus Summary page''' - To get to the Locus Summary page for any of the ORFs displayed on the map, enter the name for the ORF in the search box located at the top of all SGD pages.

* '''Overlapping ORFs''' - In the case of overlapping ORFs, the element at the bottom is shown to overlap the element at the top.

==Genetic Distance vs. Physical Distance Ratios==
These graphs represent the length of a given chromosome along the x-axis (in kilobase pairs) and the ratio of centimorgans to kilobase pairs along the y-axis. Since the location in centimorgans is not known for every locus, intervals are graphed. For example, if marker A is 15 kilobase pairs away from its closest genetically mapped locus, marker B, there will be a 15 kilobase pair-long plateau with the cM/Kbp value that is calculated for that genetic interval.

'''Click below on one of the sixteen chromosome numbers to display the Genetic Distance vs. Physical Distance Ratio for a desired chromosome.'''
<center>
{| width="50%" border="1"
|-
| '''Chromosome''' || [http://wiki.yeastgenome.org/images/f/f1/ratiomapI.gif I] || [http://wiki.yeastgenome.org/images/0/09/ratiomapII.gif II] || [http://wiki.yeastgenome.org/images/7/7d/ratiomapIII.gif III] || [http://wiki.yeastgenome.org/images/9/9f/ratiomapIV.gif IV] || [http://wiki.yeastgenome.org/images/b/b2/ratiomapV.gif V] || [http://wiki.yeastgenome.org/images/4/49/ratiomapVI.gif VI] || [http://wiki.yeastgenome.org/images/8/8d/ratiomapVII.gif VII] || [http://wiki.yeastgenome.org/images/e/e0/ratiomapVIII.gif VIII] || [http://wiki.yeastgenome.org/images/8/8e/ratiomapIX.gif IX] || [http://wiki.yeastgenome.org/images/a/a6/ratiomapX.gif X] || [http://wiki.yeastgenome.org/images/7/78/ratiomapXI.gif XI] || [http://wiki.yeastgenome.org/images/4/46/ratiomapXII.gif XII] || [http://wiki.yeastgenome.org/images/f/fa/ratiomapXIII.gif XIII] || [http://wiki.yeastgenome.org/images/d/dc/ratiomapXIV.gif XIV] || [http://wiki.yeastgenome.org/images/9/9f/ratiomapXV.gif XV] || [http://wiki.yeastgenome.org/images/8/8e/ratiomapXVI.gif XVI]
|-
| '''cM/Kbp''' || 0.45 || 0.30 || 0.48 || 0.31 || 0.35 || 0.48 || 0.37 || 0.30 || 0.45 || 0.30 || 0.38 || 0.36 || 0.34 || 0.37 || 0.33 || 0.29
|}
</center>

Combined Physical and Genetic Maps of S. cerevisiae

2023-11-30T17:21:32Z

Nash:

This page contains links to combined physical and genetic maps for each of the sixteen nuclear chromosomes. In each of these maps genetically and physically mapped features are displayed in a side-by-side representation based on the physical and genetic distances between genes and loci respectively. This page also contains graphs for each of the nuclear chromosomes where relative recombination frequencies along the chromosome are represented based on the ratios of genetic to physical distance, using both two-point data and the lengths of DNA sequences in the genome.

Two-point genetic mapping data can be accessed on the downloads site in a file named [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.tab genetic_map.tab]. Details of the file contents can be accessed in the associated [http://downloads.yeastgenome.org/curation/chromosomal_feature/genetic_map.README README file].
==Combined Physical and Genetic Maps==
The combined physical and genetic maps contain a side-by-side representation of the physical and genetic maps for the each nuclear chromosome, based on distances calculated from genetic and physical data. This data was derived from the systematic genomic sequencing project and from data contained within SGD ([https://www.yeastgenome.org/reference/S000060841 Cherry et al., Nature 387(6632S):67-73 (1997)]), as well as data presented in earlier reviews [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000057315 Mortimer and Schild, Microbiol. Rev. 44:519-571 (1980)], [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000056976 Microbiol. Rev. 49:181-213 (1985)], [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000073208 Mortimer et al., Yeast 5:321-404 (1989)], and [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000056506 Mortimer et al., Yeast 8:817-902 (1992)]). In the case where an ORF has been defined, its standard gene name is indicated.

'''Click below on one of the sixteen chromosome numbers to display the Combined Physical and Genetic Map for a desired chromosome.'''
<center>
{| width="50%" border="1"
|-
| [http://wiki.yeastgenome.org/images/4/4e/pgI.gif I] || [http://wiki.yeastgenome.org/images/a/af/pgII.gif II] || [http://wiki.yeastgenome.org/images/d/d1/pgIII.gif III] || [http://wiki.yeastgenome.org/images/6/69/pgIV.gif IV] || [http://wiki.yeastgenome.org/images/d/db/pgV.gif V] || [http://wiki.yeastgenome.org/images/1/14/pgVI.gif VI] || [http://wiki.yeastgenome.org/images/3/3a/pgVII.gif VII] || [http://wiki.yeastgenome.org/images/e/eb/pgVIII.gif VIII]
|-
| [http://wiki.yeastgenome.org/images/4/4c/pgIX.gif IX] || [http://wiki.yeastgenome.org/images/3/36/pgX.gif X] || [http://wiki.yeastgenome.org/images/9/9e/pgXI.gif XI] || [http://wiki.yeastgenome.org/images/8/8b/pgXII.gif XII] || [http://wiki.yeastgenome.org/images/d/d0/pgXIII.gif XIII] || [http://wiki.yeastgenome.org/images/e/ea/pgXIV.gif XIV] || [http://wiki.yeastgenome.org/images/d/d2/pgXV.gif XV] || [http://wiki.yeastgenome.org/images/7/7a/pgXVI.gif XVI]
|-
| colspan="8" align="center" |
{| border="0"
|-
| align="center" width="700" | [[File:SamplePhysicalandGeneticMap.jpg|link=http://wiki.yeastgenome.org/index.php/Combined_Physical_and_Genetic_Maps_of_S._cerevisiae]]
|-
|}
|}
</center>

==Organization of the Combined Physical and Genetic Maps==
* '''Physical and Genetic Map positions''' - The Physical Map is presented on the left (in Kbp) and the Genetic Map on the right (in cM) side of each map. Correspondingly, the Kbp scale is displayed on the left side of the window and the cM scale on the right side.

* '''ORF Identification on the Physical Map''' - ORFs are identified by blue (Crick strand) and red (Watson strand) bars on the physical map. The boxes on the left of the physical map line are for ORFs which have been mapped physically, but not genetically (i.e. gene B in the display). The boxes to the right of the physical map line are for those ORFs which have been mapped both physically and genetically (i.e. genes A and C in the display).

* '''ORF Labeling''' - All identified ORFs are present as bars on the Combined Genetic and Physical Map. In the case where an ORF has been defined, its primary gene name is present on the map. ORFs without gene names are represented only by bars on the map.

* '''ORF Identification on the Genetic Map''' - ORFs are identified on the genetic map by horizontal tick marks to the right of the genetic map.

* '''Lines connecting the Physical and Genetic Maps''' - Lines connect genetically mapped genes with their ORFs on the physical map. In this case, the line extends from the top of the ORF's colored box on the physical map to the corresponding tick mark on the genetic map (see genes A and C for an example).

* '''Getting to the Locus Summary page''' - To get to the Locus Summary page for any of the ORFs displayed on the map, enter the name for the ORF in the search box located at the top of all SGD pages.

* '''Overlapping ORFs''' - In the case of overlapping ORFs, the element at the bottom is shown to overlap the element at the top.

==Genetic Distance vs. Physical Distance Ratios==
These graphs represent the length of a given chromosome along the x-axis (in kilobase pairs) and the ratio of centimorgans to kilobase pairs along the y-axis. Since the location in centimorgans is not known for every locus, intervals are graphed. For example, if marker A is 15 kilobase pairs away from its closest genetically mapped locus, marker B, there will be a 15 kilobase pair-long plateau with the cM/Kbp value that is calculated for that genetic interval.

'''Click below on one of the sixteen chromosome numbers to display the Genetic Distance vs. Physical Distance Ratio for a desired chromosome.'''
<center>
{| width="50%" border="1"
|-
| '''Chromosome''' || [http://wiki.yeastgenome.org/images/f/f1/ratiomapI.gif I] || [http://wiki.yeastgenome.org/images/0/09/ratiomapII.gif II] || [http://wiki.yeastgenome.org/images/7/7d/ratiomapIII.gif III] || [http://wiki.yeastgenome.org/images/9/9f/ratiomapIV.gif IV] || [http://wiki.yeastgenome.org/images/b/b2/ratiomapV.gif V] || [http://wiki.yeastgenome.org/images/4/49/ratiomapVI.gif VI] || [http://wiki.yeastgenome.org/images/8/8d/ratiomapVII.gif VII] || [http://wiki.yeastgenome.org/images/e/e0/ratiomapVIII.gif VIII] || [http://wiki.yeastgenome.org/images/8/8e/ratiomapIX.gif IX] || [http://wiki.yeastgenome.org/images/a/a6/ratiomapX.gif X] || [http://wiki.yeastgenome.org/images/7/78/ratiomapXI.gif XI] || [http://wiki.yeastgenome.org/images/4/46/ratiomapXII.gif XII] || [http://wiki.yeastgenome.org/images/f/fa/ratiomapXIII.gif XIII] || [http://wiki.yeastgenome.org/images/d/dc/ratiomapXIV.gif XIV] || [http://wiki.yeastgenome.org/images/9/9f/ratiomapXV.gif XV] || [http://wiki.yeastgenome.org/images/8/8e/ratiomapXVI.gif XVI]
|-
| '''cM/Kbp''' || 0.45 || 0.30 || 0.48 || 0.31 || 0.35 || 0.48 || 0.37 || 0.30 || 0.45 || 0.30 || 0.38 || 0.36 || 0.34 || 0.37 || 0.33 || 0.29
|}
</center>

SGD Newsletter, Summer 2023

2023-06-22T17:19:18Z

Nash: /* SGD collaborates to add new data links (THIS TOPIC NEEDS UPDATING - have we added any new links?) */

[[Category: Newsletter]]
THIS IS NOT THE FINAL VERSION - WE ARE STILL WORKING ON THIS DOCUMENT

'''About this newsletter:''' This is the Summer 2023 issue of the SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community. You can view this [https://wiki.yeastgenome.org/index.php/SGD_Newsletter,_Summer_2023 newsletter] as well as previous newsletters, on our [https://wiki.yeastgenome.org/index.php/SGD_Newsletter_Archives Community Wiki].

==Biochemical Pathways added to SGD Search==
[[Image:pathwaysSearch.png |thumb|left|upright=1.25]]

Biochemical pathways have been added to SGD search in order to facilitate easy access to metabolic yeast pathway pages at [http://pathway.yeastgenome.org YeastPathways].

YeastPathways is a database of metabolic pathways and enzymes in the budding yeast ''Saccharomyces cerevisiae''. YeastPathways content is manually curated and maintained by the curation team at SGD, your model organism database for budding yeast. Check it out! 👀 http://yeastgenome.org/search?q=&category=pathway

Manual curation of pathways is an ongoing process at SGD. We welcome feedback from the research community. Please feel free to [mailto:sgd-helpdesk@lists.stanford.edu contact us] with any questions or comments.

 

==GENETICS Knowledgebase and Database Resources==
[[Image:GENETICSmodUpdates.png|link=https://www.yeastgenome.org/blog/genetics-knowledgebase-and-database-resources |thumb|left|upright=.75]]

The [https://academic.oup.com/genetics/issue/224/1 May 2023 issue] of [https://academic.oup.com/genetics GENETICS] features the second annual collection of Model Organism Database articles.

Scientists from [https://www.alliancegenome.org Alliance of Genome Resources] member groups [https://www.yeastgenome.org SGD], [https://www.alliancegenome.org/members/rgd RGD], [https://www.alliancegenome.org/members/zfin ZFIN], [https://www.alliancegenome.org/members/goc Gene Ontology], and [https://www.xenbase.org/entry/ Xenbase] have provided updates on recent activities and innovations.

Be sure to browse the issue and get acquainted with these excellent Knowledgebase and Database Resource papers at GENETICS. Cover art by [https://www.vividbiology.com Vivid Biology].
 
*SGD https://doi.org/10.1093/genetics/iyac191
*RGD https://doi.org/10.1093/genetics/iyad042
*ZFIN https://doi.org/10.1093/genetics/iyad032
*Gene Ontology (GO) https://doi.org/10.1093/genetics/iyad031
*Xenbase https://doi.org/10.1093/genetics/iyad018

 

==SGD collaborates to add new data links (THIS TOPIC NEEDS UPDATING - have we added any new links?)==
[[Image:AlphaFoldPrediction.png|thumb|right|upright=.4]]

COSMIC C IN APRIL (https://shiny-server-dept-yeast-cosmos.apps.cloudapps.unc.edu/ and sample gene https://www.yeastgenome.org/locus/S000000002/protein in PTM section. From the site: search for and identify motifs conserved in the 1002 yeast genome project.

On the topic of integration, SGD is happy to integrate new data sets that add value to the database. We have the ability to incorporate these datasets directly from research groups, rather than from publications. Most recently we integrated the [http://www.science.org/doi/10.1126/science.abm4805 AlphaFold] predicted 3D structures for complexes as links on the SGD Interaction and Protein pages. It is now possible to look for your own proteins or complexes of interest and go straight to the predicted structure.

Another recent example is [https://www.weizmann.ac.il/molgen/AnalogYeast AnalogYeast], a dataset of analogs to yeast proteins in non-fungal organisms predicted by sequence similarity, which was created by the [https://mayaschuldiner.wixsite.com/schuldinerlab Schuldiner lab]. Links have been added to the Resources sections of SGD [https://yeastgenome.org/locus/S000005737/protein#resources Protein] and [https://yeastgenome.org/locus/S000005737/homology#resources Homology] pages.

We are open to more of this collaboration and would be glad to hear from community members who think they have data useful to other researchers. Get in touch!

 

==microPublications - latest yeast papers==
[[Image:MicroPub.png|link=https://www.micropublication.org/|thumb|right|upright=.4]]

[https://www.micropublication.org microPublication Biology] is part of the emerging genre of rapidly-published research communications. We are seeing a strong set of microPublications come through the database and are glad for this venue to publish brief, novel findings, negative and/or reproduced results, and results which may initially lack a broader scientific narrative. Each article is peer-reviewed, assigned a DOI, and indexed through PubMed and PubMedCentral.

Consider [https://www.micropublication.org/journals/biology/species/s-cerevisiae microPubublications] when you have a result that doesn't necessarily fit into a larger story, but will be of value to others.

Latest yeast microPublications:

*[https://www.yeastgenome.org/reference/S000342338 Daraghmi MM, et al. (2023)] Macro-ER-phagy receptors Atg39p and Atg40p confer resistance to aminoglycoside hygromycin B in S. cerevisiae. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342708 Domeni Zali G and Moriel-Carretero M (2023)] Auxin alone provokes retention of ASH1 mRNA in Saccharomyces cerevisiae mother cells. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000343723 Hiestand L, et al. (2023)] Chemical Genetics Screen of EVP4593 Sensitivity in Budding Yeast Identifies Effects on Mitochondrial Structure and Function. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342340 Liu L, et al. (2023)] A role for ion homeostasis in yeast ionic liquid tolerance. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342029 Longan ER, et al. (2023)] ADATscan - A flexible tool for scanning exomes for wobble inosine-dependent codons reveals a neurological bias for genes enriched in such codons in humans and mice. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342948 Miles S, et al. (2023)] BY4741 cannot enter quiescence from rich medium. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342432 Moresi NG, et al. (2023)] Caffeine-tolerant mutations selected through an at-home yeast experimental evolution teaching lab. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342286 Shortt C, et al. (2023)] A simple and accessible CRISPR genome editing laboratory exercise using yeast. MicroPubl Biol 2023

All yeast microPublications can be found in [https://www.yeastgenome.org/search?category=reference&journal=microPublication.%20Biology&page=0&q= SGD].

 

==Alliance of Genome Resources - Release 5.4==
[[Image:alliance_logo.png|link=https://www.alliancegenome.org/ |thumb|left|upright=.5]]
The [https://www.alliancegenome.org/ Alliance of Genome Resources], a collaborative effort from SGD and other model organism databases (MOD), released [https://www.alliancegenome.org/release-notes version 5.4] this past April.

*SimpleMine, which allows you to perform basic batch searches of Alliance data, has a new URL: https://www.alliancegenome.org/agr_simplemine.cgi

*For fans of Facebook, The Alliance of Genome Resources has a new Facebook page:
https://www.facebook.com/AllianceOfGenomeResources

--something here about [https://community.alliancegenome.org/categories Alliance Community Forum]

==Upcoming Conferences and Courses==
*[https://genomic.social/@DunhamLab/110042364409737514/ Pacific Northwest Yeast Club]
**Western Washington University, Bellingham, WA
**July 20, 2023

*[https://meetings.cshl.edu/courses.aspx?course=C-YEAS&year=22 Yeast Genetics & Genomics] - modern and intensive laboratory course that teaches students the full repertoire of genetic and genomic approaches needed to dissect complex problems using the yeast ''Saccharomyces cerevisiae''
**Cold Spring Harbor Laboratory, NY
**July 26 - August 15, 2023

*[https://blogs.cornell.edu/gibneylab/nery-2023/ 2023 Northeast Regional Yeast Meeting (NERY 2023)]
**Cornell University, Ithaca, NY
**July 27 to July 28, 2023

*[https://www.yeastflorence2023.com ICYGMB31 - 31st International Conference on Yeast Genetics and Molecular Biology ]
**Florence, Italy
**August 20 to August 25, 2023

*[https://smyte-2023.org 38th Small Meeting on Yeast Transport and Energetics (SMYTE)]
**Blankenberge, Belgium
**September 13 to September 17, 2023

*[https://www.csh-asia.org/?content/1352 CSH Asia: Yeast and Life Sciences]
**Kunibiki Messe (Shimane Prefectural Convention Center), MATSUE, JAPAN
**October 09 to October 13, 2023

*[https://issy2023.com.au ISSY2023: Yeast Biotech 2.0]
**National Wine Centre of Australia, Adelaide SA, Australia
**November 27 to December 01, 2023

*[https://genetics-gsa.org/tagc/ TAGC2024 The Allied Genetics Conference]
**National Harbor | Washington DC Metro Area
**March 05 to March 10, 2024

*[https://genetics-gsa.org/fungal/ 32nd Fungal Genetics Conference]
**Asilomar Conference Grounds, Pacific Grove, CA
**March 12 to March 17, 2024

*[https://easternsun.eventsair.com/2024-16th-international-congress-on-yeasts ICY2024: 16th International Congress on Yeasts]
**Cape Town International Convention Centre, Cape Town, South Africa
**September 29 to October 03, 2024

SGD Newsletter, Summer 2023

2023-06-22T17:14:43Z

Nash: /* SGD collaborates to add new data links (THIS TOPIC NEEDS UPDATING - have we added any new links?) */

[[Category: Newsletter]]
THIS IS NOT THE FINAL VERSION - WE ARE STILL WORKING ON THIS DOCUMENT

'''About this newsletter:''' This is the Summer 2023 issue of the SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community. You can view this [https://wiki.yeastgenome.org/index.php/SGD_Newsletter,_Summer_2023 newsletter] as well as previous newsletters, on our [https://wiki.yeastgenome.org/index.php/SGD_Newsletter_Archives Community Wiki].

==Biochemical Pathways added to SGD Search==
[[Image:pathwaysSearch.png |thumb|left|upright=1.25]]

Biochemical pathways have been added to SGD search in order to facilitate easy access to metabolic yeast pathway pages at [http://pathway.yeastgenome.org YeastPathways].

YeastPathways is a database of metabolic pathways and enzymes in the budding yeast ''Saccharomyces cerevisiae''. YeastPathways content is manually curated and maintained by the curation team at SGD, your model organism database for budding yeast. Check it out! 👀 http://yeastgenome.org/search?q=&category=pathway

Manual curation of pathways is an ongoing process at SGD. We welcome feedback from the research community. Please feel free to [mailto:sgd-helpdesk@lists.stanford.edu contact us] with any questions or comments.

 

==GENETICS Knowledgebase and Database Resources==
[[Image:GENETICSmodUpdates.png|link=https://www.yeastgenome.org/blog/genetics-knowledgebase-and-database-resources |thumb|left|upright=.75]]

The [https://academic.oup.com/genetics/issue/224/1 May 2023 issue] of [https://academic.oup.com/genetics GENETICS] features the second annual collection of Model Organism Database articles.

Scientists from [https://www.alliancegenome.org Alliance of Genome Resources] member groups [https://www.yeastgenome.org SGD], [https://www.alliancegenome.org/members/rgd RGD], [https://www.alliancegenome.org/members/zfin ZFIN], [https://www.alliancegenome.org/members/goc Gene Ontology], and [https://www.xenbase.org/entry/ Xenbase] have provided updates on recent activities and innovations.

Be sure to browse the issue and get acquainted with these excellent Knowledgebase and Database Resource papers at GENETICS. Cover art by [https://www.vividbiology.com Vivid Biology].
 
*SGD https://doi.org/10.1093/genetics/iyac191
*RGD https://doi.org/10.1093/genetics/iyad042
*ZFIN https://doi.org/10.1093/genetics/iyad032
*Gene Ontology (GO) https://doi.org/10.1093/genetics/iyad031
*Xenbase https://doi.org/10.1093/genetics/iyad018

 

==SGD collaborates to add new data links (THIS TOPIC NEEDS UPDATING - have we added any new links?)==
[[Image:AlphaFoldPrediction.png|thumb|right|upright=.4]]

COSMIC C IN APRIL (https://shiny-server-dept-yeast-cosmos.apps.cloudapps.unc.edu/ and sample gene https://www.yeastgenome.org/locus/S000000002/protein in PTM section

On the topic of integration, SGD is happy to integrate new data sets that add value to the database. We have the ability to incorporate these datasets directly from research groups, rather than from publications. Most recently we integrated the [http://www.science.org/doi/10.1126/science.abm4805 AlphaFold] predicted 3D structures for complexes as links on the SGD Interaction and Protein pages. It is now possible to look for your own proteins or complexes of interest and go straight to the predicted structure.

Another recent example is [https://www.weizmann.ac.il/molgen/AnalogYeast AnalogYeast], a dataset of analogs to yeast proteins in non-fungal organisms predicted by sequence similarity, which was created by the [https://mayaschuldiner.wixsite.com/schuldinerlab Schuldiner lab]. Links have been added to the Resources sections of SGD [https://yeastgenome.org/locus/S000005737/protein#resources Protein] and [https://yeastgenome.org/locus/S000005737/homology#resources Homology] pages.

We are open to more of this collaboration and would be glad to hear from community members who think they have data useful to other researchers. Get in touch!

 

==microPublications - latest yeast papers==
[[Image:MicroPub.png|link=https://www.micropublication.org/|thumb|right|upright=.4]]

[https://www.micropublication.org microPublication Biology] is part of the emerging genre of rapidly-published research communications. We are seeing a strong set of microPublications come through the database and are glad for this venue to publish brief, novel findings, negative and/or reproduced results, and results which may initially lack a broader scientific narrative. Each article is peer-reviewed, assigned a DOI, and indexed through PubMed and PubMedCentral.

Consider [https://www.micropublication.org/journals/biology/species/s-cerevisiae microPubublications] when you have a result that doesn't necessarily fit into a larger story, but will be of value to others.

Latest yeast microPublications:

*[https://www.yeastgenome.org/reference/S000342338 Daraghmi MM, et al. (2023)] Macro-ER-phagy receptors Atg39p and Atg40p confer resistance to aminoglycoside hygromycin B in S. cerevisiae. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342708 Domeni Zali G and Moriel-Carretero M (2023)] Auxin alone provokes retention of ASH1 mRNA in Saccharomyces cerevisiae mother cells. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000343723 Hiestand L, et al. (2023)] Chemical Genetics Screen of EVP4593 Sensitivity in Budding Yeast Identifies Effects on Mitochondrial Structure and Function. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342340 Liu L, et al. (2023)] A role for ion homeostasis in yeast ionic liquid tolerance. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342029 Longan ER, et al. (2023)] ADATscan - A flexible tool for scanning exomes for wobble inosine-dependent codons reveals a neurological bias for genes enriched in such codons in humans and mice. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342948 Miles S, et al. (2023)] BY4741 cannot enter quiescence from rich medium. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342432 Moresi NG, et al. (2023)] Caffeine-tolerant mutations selected through an at-home yeast experimental evolution teaching lab. MicroPubl Biol 2023
*[https://www.yeastgenome.org/reference/S000342286 Shortt C, et al. (2023)] A simple and accessible CRISPR genome editing laboratory exercise using yeast. MicroPubl Biol 2023

All yeast microPublications can be found in [https://www.yeastgenome.org/search?category=reference&journal=microPublication.%20Biology&page=0&q= SGD].

 

==Alliance of Genome Resources - Release 5.4==
[[Image:alliance_logo.png|link=https://www.alliancegenome.org/ |thumb|left|upright=.5]]
The [https://www.alliancegenome.org/ Alliance of Genome Resources], a collaborative effort from SGD and other model organism databases (MOD), released [https://www.alliancegenome.org/release-notes version 5.4] this past April.

*SimpleMine, which allows you to perform basic batch searches of Alliance data, has a new URL: https://www.alliancegenome.org/agr_simplemine.cgi

*For fans of Facebook, The Alliance of Genome Resources has a new Facebook page:
https://www.facebook.com/AllianceOfGenomeResources

--something here about [https://community.alliancegenome.org/categories Alliance Community Forum]

==Upcoming Conferences and Courses==
*[https://genomic.social/@DunhamLab/110042364409737514/ Pacific Northwest Yeast Club]
**Western Washington University, Bellingham, WA
**July 20, 2023

*[https://meetings.cshl.edu/courses.aspx?course=C-YEAS&year=22 Yeast Genetics & Genomics] - modern and intensive laboratory course that teaches students the full repertoire of genetic and genomic approaches needed to dissect complex problems using the yeast ''Saccharomyces cerevisiae''
**Cold Spring Harbor Laboratory, NY
**July 26 - August 15, 2023

*[https://blogs.cornell.edu/gibneylab/nery-2023/ 2023 Northeast Regional Yeast Meeting (NERY 2023)]
**Cornell University, Ithaca, NY
**July 27 to July 28, 2023

*[https://www.yeastflorence2023.com ICYGMB31 - 31st International Conference on Yeast Genetics and Molecular Biology ]
**Florence, Italy
**August 20 to August 25, 2023

*[https://smyte-2023.org 38th Small Meeting on Yeast Transport and Energetics (SMYTE)]
**Blankenberge, Belgium
**September 13 to September 17, 2023

*[https://www.csh-asia.org/?content/1352 CSH Asia: Yeast and Life Sciences]
**Kunibiki Messe (Shimane Prefectural Convention Center), MATSUE, JAPAN
**October 09 to October 13, 2023

*[https://issy2023.com.au ISSY2023: Yeast Biotech 2.0]
**National Wine Centre of Australia, Adelaide SA, Australia
**November 27 to December 01, 2023

*[https://genetics-gsa.org/tagc/ TAGC2024 The Allied Genetics Conference]
**National Harbor | Washington DC Metro Area
**March 05 to March 10, 2024

*[https://genetics-gsa.org/fungal/ 32nd Fungal Genetics Conference]
**Asilomar Conference Grounds, Pacific Grove, CA
**March 12 to March 17, 2024

*[https://easternsun.eventsair.com/2024-16th-international-congress-on-yeasts ICY2024: 16th International Congress on Yeasts]
**Cape Town International Convention Centre, Cape Town, South Africa
**September 29 to October 03, 2024

SGD Publications

2023-05-05T18:13:24Z

Nash:

This is a list of publications written by or in collaboration with members of the SGD staff.
#Wong ED, Miyasato SR, Aleksander S, Karra K, Nash RS, Skrzypek MS, Weng S, Engel SR, Cherry JM (2023) Saccharomyces genome database update: server architecture, pan-genome nomenclature, and external resources. Genetics. 2023 May 4;224(1):iyac191. doi: 10.1093/genetics/iyac191. [[media:Wong_2023_PMID_36607068.pdf| '''Full-Text PDF''']] | [https://pubmed.ncbi.nlm.nih.gov/36607068 '''PMID:36607068''']
#Engel SR, Wong ED, Nash RS, Aleksander S, Alexander M, Douglass E, Karra K, Miyasato SR, Simison M, Skrzypek MS, Weng S, Cherry JM (2022) New data and collaborations at the ''Saccharomyces'' Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources. Genetics. 2022 Apr 4; 220(4):iyab224. doi: 10.1093/genetics/iyab224. [[media:Engel_2022_PMID_34897464.pdf| '''Full-Text PDF''']] | [https://pubmed.ncbi.nlm.nih.gov/34897464 '''PMID:34897464''']
#Nash RS, Weng S, Karra K, Wong ED, Engel SR, Cherry JM, the SGD Project (2019) Incorporation of a unified protein abundance dataset into the ''Saccharomyces'' Genome Database. Database (Oxford). 2020 Jan 1; 2020. doi: 10.1093/database/baaa008.[[media:Nash_2020_PMID_32128557.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/32128557 '''PMID: 32128557''']
#Kishore R, Arnaboldi V, Van Slyke CE, Chan J, Nash RS, Urbano JM, Dolan ME, Engel SR, Shimoyama M, Sternberg PW, Genome Resources TAO (2020) Automated generation of gene summaries at the Alliance of Genome Resources. Database (Oxford). 2020 Jan 1;2020:baaa037. doi: 10.1093/database/baaa037. [[media:Kishore_2020_PMID_32559296.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/32559296 '''PMID: 32559296''']
#Ng PC, Wong ED, MacPherson KA, Aleksander S, Argasinska J, Dunn B, Nash RS, Skrzypek MS, Gondwe F, Jha S, Karra K, Weng S, Miyasato S, Simison M, Engel SR, Cherry JM (2019) Transcriptome visualization and data availability at the Saccharomyces Genome Database. Nucleic Acids Res. 2019 Oct 15; pii: gkz892. doi: 10.1093/nar/gkz892. [[media:Ng_2019_PMID_31612944.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/31612944 '''PMID: 31612944''']
#Wong ED, Skrzypek MS, Weng S, Binkley G, Meldal BHM, Perfetto L, Orchard SE, Engel SR, Cherry JM, the SGD Project (2019) Integration of macromolecular complex data into the ''Saccharomyces'' Genome Database. Database (Oxford). 2019 Jan 1; 2019. doi: 10.1093/database/baz008.[[media:Wong_2019_PMID_30715277.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/30715277 '''PMID: 30715277''']
#Meldal BHM, Bye-A-Jee H, Gajdoš L, Hammerová Z, Horácková A, Melicher F, Perfetto L, Pokorný D, Lopez MR, Türková A, Wong ED, Xie Z, Casanova EB, Del-Toro N, Koch M, Porras P, Hermjakob H, Orchard S (2019) Complex Portal 2018: extended content and enhanced visualization tools for macromolecular complexes. Nucleic Acids Res. 2019 Jan 8;47(D1):D550-D558. doi: 10.1093/nar/gky1001. [[media:Meldal_2019_PMID_30357405.pdf| '''Full-Text PDF''']] | [https://pubmed.ncbi.nlm.nih.gov/30357405 '''PMID:30357405''']]
#Howe DG, Blake JA, Bradford YM, Bult CJ, Calvi BR, Engel SR, Kadin JA, Kaufman TC, Kishore R, Laulederkind SJF, Lewis SE, Moxon SAT, Richardson JE, Smith C (2018) Model organism data evolving in support of translational medicine. Lab Anim (NY). Sep 17; 2018. doi: 10.1038/s41684-018-0150-4.[[media:Howe_2018_PMID_30224793.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/30224793 '''PMID: 30224793''']
#Lang OW, Nash RS, Hellerstedt ST, Engel SR, the SGD Project (2018) An Introduction to the Saccharomyces Genome Database (SGD). Methods Mol Biol. 2018 May 15; 1757:21-30.[[media:Lang_2018_PMID_29761454.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/29761454 '''PMID: 29761454''']
#Engel SR, Skrzypek MS, Hellerstedt ST, Wong ED, Nash RS, Weng S, Binkley G, Sheppard TK, Karra K, Cherry JM (2018) Updated regulation curation model at the ''Saccharomyces'' Genome Database. Database (Oxford). 2018 Jan 1; 2018. doi: 10.1093/database/bay007.[[media:Engel_2018_PMID_29688362.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/29688362 '''PMID: 29140510''']
#Skrzypek MS, Nash RS, Wong ED, MacPherson KA, Hellerstedt ST, Engel SR, Karra K, Weng S, Sheppard TK, Binkley G, Simison M, Miyasato SR, Cherry JM (2018) ''Saccharomyces'' genome database informs human biology. Nucleic Acids Res. 2018 Jan 4; 46:D736-D742. doi: 10.1093/nar/gkx1112. [[media:Skrzypek_2018_PMID_29140510.pdf| '''Full-Text PDF''']] | [https://www.ncbi.nlm.nih.gov/pubmed/29140510 '''PMID: 29140510''']
#Wong ED (2017) Exploring Protein Function Using the ''Saccharomyces'' Genome Database. Methods Mol Biol. 2017 Apr 28; 1611:169-182. doi: 10.1007/978-1-4939-7015-5_13.[[media:Wong_2017_PMID_28451979.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/28451979 '''PMID: 28365719''']
#MacPherson KA, Starr B, Wong ED, Dalusag KS, Hellerstedt ST, Lang OW, Nash RS, Skrzypek MS, Engel SR, Cherry JM (2017) Outreach and online training services at the ''Saccharomyces'' Genome Database. 2017 Jan 1; pii: bax002. doi: 10.1093/database/bax002.[[media:MacPherson_2017_PMID_28365719.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/28365719 '''PMID: 28365719''']
#Hellerstedt ST, Nash RS, Weng S, Paskov KM, Wong ED, Karra K, Engel SR, Cherry JM (2017) Curated protein information in the ''Saccharomyces'' Genome Database. 2017 Mar 11; pii: bax011. doi: 10.1093/database/bax011. [[media:Hellerstedt_2017_PMID_28365727.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/28365727 '''PMID: 28365727''']
#Engel SR, MacPherson KA (2016) Using Model Organism Databases (MODs). Current Protocols Essential Laboratory Techniques. 2016 Nov. doi: 10.1002/cpet.4. [[media:Engel_2016_UsingModelOrganisms.pdf| '''Full-Text PDF''']]
#Song G, Balakrishnan R, Binkley G, Costanzo MC, Dalusag K, Demeter J, Engel S, Hellerstedt ST, Karra K, Hitz BC, Nash RS, Paskov K, Sheppard T, Skrzypek M, Weng S, Wong E, Cherry JM (2016) Integration of new alternative reference strain genome sequences into the Saccharomyces genome database. 2016 Jun 1; pii: baw074. doi: 10.1093/database/baw074. [[media:Song_2016_PMID_27252399.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/27252399 '''PMID: 27252399''']
#Engel SR, Weng S, Binkley G, Paskov K, Song G, Cherry JM (2016) From one to many: expanding the ''Saccharomyces cerevisiae'' reference genome panel. 2016 Mar 17; pii: baw020. doi: 10.1093/database/baw020. [[media:Engel_2016_PMID_26989152.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26989152 '''PMID: 26989152''']
#Sheppard TK, Hitz BC, Engel SR, Song G, Balakrishnan R, Binkley G, Costanzo MC, Dalusag KS, Demeter J, Hellerstedt ST, Karra K, Nash RS, Paskov KM, Skrzypek MS, Weng S, Wong ED, Cherry JM (2016) The ''Saccharomyces'' Genome Database Variant Viewer. Nucleic Acids Res. 2016 Jan 4. pii: gkv1250.[[media:Sheppard_2016_PMID_26578556.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26578556 '''PMID: 26578556''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: A Tool for Discovery. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.top083840. doi: 10.1101/pdb.top083840. [[media:Cherry_2016_PMID_26631132.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631132 '''PMID: 26631132''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: Exploring Genome Features and Their Annotations. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.prot088922. doi: 10.1101/pdb.prot088922. [[media:Cherry_2016_PMID_26631126.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631126 '''PMID: 26631126''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: Gene Product Annotation of Function, Process, and Component. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.prot088914. doi: 10.1101/pdb.prot088914. [[media:Cherry_2016_PMID_26631125.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631125 '''PMID: 26631125''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: Advanced Searching Methods and Data Mining. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.prot088906. doi: 10.1101/pdb.prot088906. [[media:Cherry_2016_PMID_26631124.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631124 '''PMID: 26631124''']
#Cherry JM (2015) The ''Saccharomyces'' Genome Database: Exploring Biochemical Pathways and Mutant Phenotypes. Cold Spring Harb Protoc. 2015 Dec 2; 2015(12):pdb.prot088898. doi: 10.1101/pdb.prot088898. [[media:Cherry_2016_PMID_26631123.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/26631123 '''PMID: 26631123''']
#Skrzypek MS, Nash RS (2015) Biocuration at the ''Saccharomyces'' Genome Database. Genesis. 2015 Aug;53(8):450-7. doi: 10.1002/dvg.22862. [[media:Skrzypek_2015_PMID_25997651.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25997651 '''PMID: 25997651''']
#Song G, Dickins BJ, Demeter J, Engel S, Dunn B, Cherry JM (2015) AGAPE (Automated Genome Analysis PipelinE) for Pan-Genome Analysis of ''Saccharomyces cerevisiae''. PLoS One. 2015 Mar 17;10(3):e0120671. doi: 10.1371/journal.pone.0120671. eCollection 2015. [[media:Song_2015_PMID_25781462.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25781462 '''PMID: 25781462''']
#Meldal BH, Forner-Martinez O, Costanzo MC, Dana J, Demeter J, Dumousseau M, Dwight SS, Gaulton A, Licata L, Melidoni AN, Ricard-Blum S, Roechert B, Skyzypek MS, Tiwari M, Velankar S, Wong ED, Hermjakob H, Orchard S (2014) The complex portal - an encyclopaedia of macromolecular complexes. Nucleic Acids Res. 43(Database issue):D479-84. doi: 10.1093/nar/gku975. [[media:Nucl._Acids_Res.-2015-Meldal-D479-84.pdf | '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25313161 '''PMID: 25313161''']
#Chibucos MC, Mungall CJ, Balakrishnan R, Christie KR, Huntley RP, White O, Blake JA, Lewis SE, Giglio M (2014) Standardized description of scientific evidence using the Evidence Ontology (ECO). Database (Oxford) doi: 10.1093/database/bau075 [[media:Database-2014-Chibucos-database-bau075.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/25052702 '''PMID: 25052702''']
#Costanzo MC, Engel SR, Wong ED, Lloyd P, Karra K, Chan ET, Weng S, Paskov KM, Roe GR, Binkley G, Hitz BC, Cherry JM (2014) ''Saccharomyces'' Genome Database provides new regulation data. Nucleic Acids Res. 2014 Jan 1;42(1):D717-25. doi: 10.1093/nar/gkt1158. [[media:Costanzo_2013_PMID_24265222.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24265222 '''PMID: 24265222''']
#Engel SR, Dietrich FS, Fisk DG, Binkley G, Balakrishnan R, Costanzo MC, Dwight SS, Hitz BC, Karra K, Nash RS, Weng S, Wong ED, Lloyd P, Skrzypek MS, Miyasato SR, Simison M, Cherry JM (2013) The reference genome sequence of ''Saccharomyces cerevisiae'': Then and now. Database (Oxford) G3 (Bethesda). 2013 Dec 27. pii: g3.113.008995v1. doi: 10.1534/g3.113.008995. [[media:EngelSR_2013_PMID_24374639.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=24374639 '''PMID: 24374639''']
#Balakrishnan R, Harris MA, Huntley R, Van Auken K, Cherry JM (2013) A guide to best practices for Gene Ontology (GO) manual annotation. Database (Oxford) doi: 10.1093/database/bat054. [[media:Database-2013-Balakrishnan-database-bat054.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/23842463 '''PMID: 23842463''']
#Engel SR, Cherry JM (2013) The new modern era of yeast genomics: community sequencing and the resulting annotation of multiple ''Saccharomyces cerevisiae'' strains at the ''Saccharomyces'' Genome Database. Database (Oxford) doi: 10.1093/database/bat012. [[media:Engel_2013_PMID_23487186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23487186 '''PMID: 23487186''']
#Wong ED, Karra K, Hitz BC, Hong EL, Cherry JM (2013) The YeastGenome app: the ''Saccharomyces'' Genome Database at your fingertips. Database (Oxford) doi: 10.1093/database/bat004. [[media:Wong_2013_PMID_23396302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=23396302 '''PMID: 23396302''']
#Cherry JM, Hong EL, Amundsen C, Balakrishnan R, Binkley G, Chan ET, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Karra K, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Simison M, Weng S, Wong ED (2012) ''Saccharomyces'' Genome Database: the genomics resource of budding yeast. Nucleic Acids Res. Jan;40(Database issue):D700-5. [[media:Cherry_2012_PMID_22110037.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22110037 '''PMID: 22110037''']
#Balakrishnan R, Park J, Karra K, Hitz BC, Binkley G, Hong EL, Sullivan J, Micklem G, Cherry JM (2012) YeastMine - An integrated data warehouse for ''S. cerevisiae'' data as a multi-purpose tool-kit. Database (Oxford) doi: 10.1093/database/bar062. [[media:Balakrishnan_2012_PMID_22434830.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434830 '''PMID: 22434830''']
#Chan ET, Cherry JM (2012) Considerations for creating and annotating the budding yeast Genome Map at SGD: A progress report. Database (Oxford) doi: 10.1093/database/bar057. [[media:Chan_2012_PMID_22434826.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434826 '''PMID: 22434826''']
#Park J, Costanzo MC, Balakrishnan R, Cherry JM, Hong EL (2012) CvManGO, a method for leveraging computational predictions to improve literature-based Gene Ontology annotations. Database (Oxford) doi: 10.1093/database/bas001. [[media:Park_2012_PMID_22434836.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=22434836 '''PMID: 22434836''']
#Costanzo MC, Park J, Balakrishnan R, Cherry JM, Hong EL (2011) Using computational predictions to improve literature-based Gene Ontology annotations: a feasibility study. Database (Oxford) doi: 10.1093/database/bar004. [[media:Costanzo_2011_PMID_21411447.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=21411447 '''PMID: 21411447''']
#Engel SR, Balakrishnan R, Binkley G, Christie KR, Costanzo MC, Dwight SS, Fisk DG, Hirschman JE, Hitz BC, Hong EL, Krieger CJ, Livstone MS, Miyasato SR, Nash R, Oughtred R, Park J, Skrzypek MS, Weng S, Wong ED, Dolinski K, Botstein D, Cherry JM. (2010) ''Saccharomyces'' Genome Database provides mutant phenotype data. Nucleic Acids Res. 2010 Jan;38(Database issue):D433-6. [[media:Engel_2009_PMID_19906697.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19906697 '''PMID: 19906697''']
#Costanzo MC, Skrzypek MS, Nash R, Wong E, Binkley G, Engel SR, Hitz B, Hong EL, Cherry JM, and the ''Saccharomyces'' Genome Database Project. (2009) New mutant phenotype data curation system in the ''Saccharomyces'' Genome Database. Database; doi: 10.1093/database/bap001. [[media:Costanzo_2009_PMID_20157474.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=20157474 '''PMID: 20157474''']
#Christie KR, Hong EL, Cherry JM. (2009) Functional annotations for the ''Saccharomyces cerevisiae'' genome: the knowns and the known unknowns. Trends Microbiol. 2009 Jul;17(7):286-94. [[media:Christie_2009_PMID_19577472.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=19577472 '''PMID: 19577472''']
#Engel SR (2009) Using Model Organism Databases (MODs). Current Protocols Essential Laboratory Techniques. 2009 Jun. doi: 10.1002/9780470089941.et1104s01. [[media:Engel_2009_UsingModelOrganisms.pdf| '''Full-Text PDF''']]
#Hong EL, Balakrishnan R, Dong Q, Christie KR, Park J, Binkley G, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Krieger CJ, Livstone MS, Miyasato SR, Nash RS, Oughtred R, Skrzypek MS, Weng S, Wong ED, Zhu KK, Dolinski K, Botstein D, Cherry JM. (2008) Gene Ontology annotations at SGD: new data sources and annotation methods. Nucleic Acids Res. 2008 Jan;36(Database issue):D577-81. [[media:Hong_2008_PMID_17982175.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17982175 '''PMID: 17982175''']
#Fisk DG, Ball CA, Dolinski K, Engel SR, Hong EL, Issel-Tarver L, Schwartz K, Sethuraman A, Botstein D, Michael Cherry J (2006) ''Saccharomyces cerevisiae'' S288C genome annotation: a working hypothesis. Yeast 23(12):857-65. [[media:Fisk_2006_PMID_17001629.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17001629 '''PMID: 17001629''']
#Nash R, Weng S, Hitz B, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Livstone MS, Oughtred R, Park J, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Dolinski K, Botstein D, Cherry JM (2007) Expanded protein information at SGD: new pages and proteome browser. Nucleic Acids Res 35(Database issue):D468-71. [[media:Nash_2007_PMID_17142221.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=17142221 '''PMID: 17142221''']
#Hirschman JE, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hong EL, Livstone MS, Nash R, Park J, Oughtred R, Skrzypek M, Starr B, Theesfeld CL, Williams J, Andrada R, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Thanawala MK, Weng S, Dolinski K, Botstein D, Cherry JM (2006) Genome Snapshot: a new resource at the ''Saccharomyces'' Genome Database (SGD) presenting an overview of the ''Saccharomyces cerevisiae'' genome. Nucleic Acids Res 34(Database issue):D442-5. [[media:Hirschman_2006_PMID_16381907.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=16381907 '''PMID: 16381907''']
#Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hong EL, Nash R, Oughtred R, Skrzypek M, Theesfeld CL, Binkley G, Dong Q, Lane C, Sethuraman A, Weng S, Botstein D, Cherry JM. Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the ''Saccharomyces'' Genome Database (SGD). Nucleic Acids Res. 2005 Jan 1; 33 Database Issue:D374-7. [[media:Balakrishnan_2005_PMID_15608219.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15608219 '''PMID: 15608219''']
#Dwight SS, Balakrishnan R, Christie KR, Costanzo MC, Dolinski K, Engel SR, Feierbach B, Fisk DG, Hirschman J, Hong EL, Issel-Tarver L, Nash RS, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Weng S, Botstein D, Cherry JM. ''Saccharomyces'' genome database: underlying principles and organisation. Brief Bioinform. 2004 Mar; 5(1):9-22. [[media:Dwight_2004_PMID_15153302.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=15153302 '''PMID: 15153302''']
#Christie KR, Weng S, Balakrishnan R, Costanzo MC, Dolinski K, Dwight SS, Engel SR, Feierbach B, Fisk DG, Hirschman JE, Hong EL, Issel-Tarver L, Nash R, Sethuraman A, Starr B, Theesfeld CL, Andrada R, Binkley G, Dong Q, Lane C, Schroeder M, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database (SGD) provides tools to identify and analyze sequences from ''Saccharomyces cerevisiae'' and related sequences from other organisms. Nucleic Acids Res. 2004 Jan 1; 32 Database issue:D311-4. [[media:Christie_2004_PMID_14681421.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=14681421 '''PMID: 14681421''']
#Weng S, Dong Q, Balakrishnan R, Christie K, Costanzo M, Dolinski K, Dwight SS, Engel S, Fisk DG, Hong E, Issel-Tarver L, Sethuraman A, Theesfeld C, Andrada R, Binkley G, Lane C, Schroeder M, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database (SGD) provides biochemical and structural information for budding yeast proteins. Nucleic Acids Res. 2003 Jan 1; 31(1):216-8. [[media:Weng_2003_PMID_12519985.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12519985 '''PMID: 12519985''']
#Issel-Tarver L, Christie KR, Dolinski K, Andrada R, Balakrishnan R, Ball CA, Binkley G, Dong S, Dwight SS, Fisk DG, Harris M, Schroeder M, Sethuraman A, Tse K, Weng S, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database. Methods Enzymol. 2002 350:329-46. [[media:Issel-Tarver_2002_PMID_12073322.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=12073322 '''PMID: 12073322''']
#Dwight SS, Harris MA, Dolinski K, Ball CA, Binkley G, Christie KR, Fisk DG, Issel-Tarver L, Schroeder M, Sherlock G, Sethuraman A, Weng S, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Nucleic Acids Res. 2002 Jan 1; 30(1):69-72. [[media:Dwight_2002_PMID_11752257.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11752257 '''PMID: 11752257''']
#Ball CA, Jin H, Sherlock G, Weng S, Matese JC, Andrada R, Binkley G, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Schroeder M, Botstein D, Cherry JM. ''Saccharomyces'' Genome Database provides tools to survey gene expression and functional analysis data. Nucleic Acids Res. 2001 Jan 1;29(1):80-1. [[media:Ball_2001_PMID_11125055.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=11125055 '''PMID: 11125055''']
#Ball CA, Dolinski K, Dwight SS, Harris MA, Issel-Tarver L, Kasarskis A, Scafe CR, Sherlock G, Binkley G, Jin H, Kaloper M, Orr SD, Schroeder M, Weng S, Zhu Y, Botstein D, Cherry JM. Nucleic Acids Res 2000 28(1):77-80. Integrating functional genomic information into the ''Saccharomyces'' genome database. [[media:Ball_2000_PMID_10592186.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=10592186 '''PMID: 10592186''']
#Chervitz SA, Hester ET, Ball CA, Dolinski K, Dwight SS, Harris MA, Juvik G, Malekian A, Roberts S, Roe T, Scafe C, Schroeder M, Sherlock G, Weng S, Zhu Y, Cherry JM, Botstein D. Nucleic Acids Res 1999 27(1):74-8. Using the ''Saccharomyces'' Genome Database (SGD) for analysis of protein similarities and structure. [[media:Chervitz_1999_PMID_9847146.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9847146 '''PMID: 9847146''']
#Chervitz SA, Aravind L, Sherlock G, Ball CA, Koonin EV, Dwight SS, Harris MA, Dolinski K, Mohr S, Smith T, Weng S, Cherry JM, Botstein D. Science 1998 282(5396):2022-8. Comparison of the complete protein sets of worm and yeast: orthology and divergence. [[media:Chervitz_1998_PMID_9851918.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9851918 '''PMID: 9851918''']
#Dolinski K, Ball CA, Chervitz SA, Dwight SS, Harris MA, Roberts S, Roe T, Cherry JM, Botstein D. Yeast 1998 Dec;14(16):1453-69. Expanding yeast knowledge online. [[media:Dolinski_1998_PMID_9885151.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9885151 '''PMID: 9885151''']
#Cherry JM, Adler C, Ball C, Chervitz SA, Dwight SS, Hester ET, Jia Y, Juvik G, Roe T, Schroeder M, Weng S, Botstein D. Nucleic Acids Res 1998 26(1):73-80. SGD: ''Saccharomyces'' Genome Database. [[media:Cherry_1998_PMID_9399804.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9399804 '''PMID: 9399804''']
#Botstein D, Chervitz SA, Cherry JM. Science 1997 277(5330):1259-1260. Yeast as a model organism. [[media:Botstein_1997_PMID_9297238.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9297238 '''PMID: 9297238''']
#Botstein D, Cherry JM. Proc Natl Acad Sci U S A 1997 94(11):5506-5507. Molecular linguistics: extracting information from gene and protein sequences. [[media:Botstein_1997_PMID_9159100.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9159100 '''PMID: 9159100''']
#Cherry JM, Ball C, Weng S, Juvik G, Schmidt R, Adler C, Dunn B, Dwight S, Riles L, Mortimer RK, Botstein D. Nature 1997 387(6632 Suppl):67-73. Genetic and physical maps of ''Saccharomyces cerevisiae''. [[media:Cherry_1997_PMID_9169866.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=9169866 '''PMID: 9169866''']
#Cherry, JM. Trends Genet 1995 11-12. Genetic nomenclature guide. ''Saccharomyces cerevisiae''. [[media:Cherry_1995_PMID_7660459.pdf| '''Full-Text PDF''']] | [http://www.ncbi.nlm.nih.gov/pubmed/?term=7660459 '''PMID: 7660459''']

File:Wong 2023 PMID 36607068.pdf

2023-05-05T18:12:03Z

Nash: SGD Genetics paper 2023

== Summary ==
SGD Genetics paper 2023

Educational Resources

2023-02-27T18:36:31Z

Nash: /* Classroom & Course Materials */

[[Category:Resources]]
====Note on editing these wiki tables====
''When editing this page, please refer to the comment line at the top of each table if you need assistance in creating a row, or please feel free to mail us at [mailto:sgd-helpdesk@lists.stanford.edu sgd-helpdesk@lists.stanford.edu] and we would be happy to help you with the post.
''

=Associations and Societies=



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #CEE3F6" | Association
! style="background: #CEE3F6" | Mission
|-
| [http://www.nsta.org/ National Science Teachers Association] (NTSA)
| Books, Resources, Conferences, Science Standards for Educators at all academic levels (K- Undergraduate)
|-
| [http://www.nabt.org/websites/institution/index.php?p=1 National Association of Biology Teachers] (NABT)
| Teaching Resources, Conferences, including resources for Biotechnology & Genetics
|-
| [http://www.asm.org/ American Society for Microbiology] (ASMsociety)
| Books, Questions, Activities for K-12, found under the '''Microbiology for the Public''' section
|-
| [http://micropublication.org/ microPublication Biology] (microPublication Biology)
| microPublication.org publishes brief peer-reviewed articles that are assigned a DOI and are indexed in PubMed, EuropePMC, Google Scholar, etc. Yeast data are curated and, upon publication, are deposited in SGD.
|}
 

=Teaching Resources=

==Classroom & Course Materials==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #D8D8D8" | Resource Type
! style="background: #D8D8D8" | Source
! style="background: #D8D8D8" | Description
|-
| colspan="3" style="text-align: left; background:#F2F2F2" | ''Saccharomyces cerevisiae'' specific, including materials relevant to the use of SGD
|-
| Bioinformatics Project Modules 
([[Media:ASHG_2013_Final.pdf |Overview]])
| ''Dr. Erin Strome'' and ''Dr. Bethany Bowling'', Northern Kentucky University
| Modules designed to introduce undergraduate students to using SGD and other bioinformatics resources: 
* [[Media:YeastModule_1.pdf|Module 1: "Introduction to ''Saccharomyces cerevisiae"]]
* [[Media:YeastModule_2.pdf|Module 2: "Genetic and Physical Interactions and Expression Data"]]
* [[Media:YeastModule_3.pdf|Module 3: "Structure-Based Evidence and Multiple Sequence Alignment"]]
* [[Media:YeastModule_4.pdf|Module 4: "Cellular Localization Data"]]
* [[Media:YeastModule_5.pdf|Module 5: "Gene Deletion Phenotypes"]]
|-
| Exploring genes of unknown function
| Yeast ORFan Gene Project http://www.yeastorfanproject.com/. Contact: Jill Keeney keeney@juniata.edu
| Network and resources to introduce undergraduate students to SGD resources while exploring genes of unknown function. Bioinformatics modules (8) for use in classes or lab guide students through hypothesis formation about gene function. Each module has a guide and worksheet; some modules have videos to guide students through the modules. http://www.yeastorfanproject.com/lab-modules/
|-
| Lab Experiments
| [http://www.phys.ksu.edu/gene/chapters.html Yeast Experiments], from [http://www.phys.ksu.edu/gene/ GENE Project], ''Tom Manney'', Kansas State University
| Variety of experiments for high school and undergraduate classes
|-
| Questions, Videos, Lab Experiments
| [http://faculty.bsc.edu/phanson/yen/index.htm Yeast Education Network (YEN)] (link not functional)
| Variety of teaching resources for high school and undergraduate classes
|-
| Lab Experiments
| [http://www-personal.ksu.edu/~bethmont/rl2k/yeast.html Research Link 2000]
| Experiments for use in undergraduate laboratory classes
|-
| Video tutorial
| [https://www.youtube.com/watch?v=YHe3IE8fJn8/ Evann Jarrodsmom via youtube]
| Video tutorial of how to perform tetrad dissection with a manual micromanipulator
|-
| CRISPR
| [https://www.yeastgenome.org/reference/S000342286 Connor Shortt et al.]
| Single lab session on how to edit the yeast genome by disrupting ADE2 in yeast
|-
| colspan="3" style="text-align: left; background:#F2F2F2" | General Biology and Genetics
|-
| Lesson plans and classroom activities
| [http://www.dnai.org/index.htm DNA Interactive], 
Cold Spring Harbor Laboratory
|Historical and current information about DNA and genomes, with lessons centered around understanding current techniques and resources
|-
| Genetics education resources for teachers
| [http://www.genome.gov/10005911 NHGRI Genetic Education Resources for Teachers]
| Directing teachers to classroom tools, including specific teaching plans to present the history, facts and genetic terminology behind the Human Genome Project.
|-
| Interactive activities
| [http://genetics.thetech.org/online-exhibits The Tech Museum of Innovation - Online Exhibits]
| Educational online exhibits about genetics and you, such as: [http://genetics.thetech.org/online-exhibits/dna-roulette DNA roulette], making [http://genetics.thetech.org/online-exhibits/do-it-yourself-strawberry-dna DNA from strawberries], and [http://genetics.thetech.org/online-exhibits/are-genetic-tests-right-you genetic tests and you]
|-
| Virtual experiment
| [http://sciencecourseware.org/vcise/drosophila/ Virtual Courseware for Inquiry-based Science Education: ''Drosophila''], VCISE
| Virtual experiment that allows students to apply principles of genetic inheritance by studying the inheritance patterns of fruit flies
|-
| Protocols, Workshops, Publications
| [http://www.bio.davidson.edu/projects/GCAT/gcat.html Genome Consortium for Active Teaching], GCAT
| Part of consortium designed to bring functional genomics methods into the undergraduate curriculum
|-
|}

 

==Courses==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #D8D8D8" | Course
! style="background: #D8D8D8" | Institution
! style="background: #D8D8D8" | Description
|-
| [http://apbiostudio.stanford.edu/index.html AP BioStudio]
| Stanford University
| Program at Stanford University for high school teachers that introduces AP Biology teaching modules in the areas of forensic science, human genetics, bioinformatics and evolution
|-
| [http://www.bio.davidson.edu/courses/genomics/genomics.html Discovering Genomics, Proteomics, and Bioinformatics]
| Davidson College
| Includes web activities and case studies in this problem solving approach to teaching students the fundamentals of genomic analysis. Based on the book written by ''A. Malcolm Campbell'' and ''Laurie J. Heyer''
|-
| [https://capricorn.bc.edu/bi204 Investigations in Molecular Cell Biology]
| Boston College
| Project-based course in which students study the evolutionary conservation of genes involved in methionine synthesis. Topics include yeast culture and complementation, databases, plasmids and western blots. Each module contains background information, student protocols, teaching slides and video tutorials.

|}
 

==Fun Sites==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #D8D8D8" | Resource
! style="background: #D8D8D8" | Description
|-
| [http://www.mendelweb.org/ MendelWeb]
| Primary texts relating to classical genetics, elementary plant science, and history and literature of science
|-
| [http://www.sciencebuddies.org/science-fair-projects/search.shtml?v=&s=yeast Science Buddies (for yeast)]
| Science fair project ideas for yeast and other scientific topics (resource for students, parents, teachers)
|-
| [http://www.mendelweb.org/ MendelWeb]
| Primary texts relating to classical genetics, elementary plant science, and history and literature of science
|-
| [http://www.scientificamerican.com/education/bring-science-home/ Bring Science Home]
| A Scientific American resource - featuring fun, science-related activities for 6-12 year olds
|-
|}

 

=General Learning=
==Books==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #E0F8E6" | Title
! style="background: #E0F8E6" | Description
|-
| [http://genetics.thetech.org/book-titles When Will Broccoli Taste Like Chocolate?: Your Questions on Genetic Traits Answered by Stanford Universtiy Scientists], ''David L Bodian, PhD'' and ''D Barry Starr, PhD''
| Stanford scientists answer questions such as: Why do I have freckles? Where do my blue eyes come from?
|-
| [http://www.genomenewsnetwork.org/resources/whats_a_genome/Chp1_1_1.shtml#genome1 What's a Genome?], 
by ''Sarah E. DeWeerdt'' (Genome News Network)
| Online book describing the basics of a genome, chromome, genes, DNA, sequencing, variation, and genome maps
|}
 

==Dedicated Sites==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #E0F8E6" | Resource
! style="background: #E0F8E6" | Description
|-
| [https://biologydictionary.net/ Biology Dictionary]
| An online biology reference site providing useful definitions and explanations of common biology terms
|-
| [http://learn.genetics.utah.edu/ Learn.Genetics], ''University of Utah Health Sciences''
| Tutorials describing basic genetics (e.g. "What is DNA?"), cell biology, evolution, and human health, as well as some science tools (e.g. virtual labs)
|-
| [http://www.dnalc.org/websites/ DNA Learning Center], ''Cold Spring Harbor Laboratory''
| Resources and links designed to acquaint elementary and high school students to the principles of genetics and disease risk
|-
| [http://www.dnaftb.org/ DNA from the Beginning], ''Cold Spring Harbor Labroatory''
| "An animated primer of 75 experiments that made modern genetics"
|-
| [http://www.nature.com/scitable Scitable], ''Nature Publishing Group''
| Free library providing overviews of key science concepts, with a focus on genetics
|-
| [http://www.scientificamerican.com/education/bring-science-home/ Bring Science Home]
| A Scientific American resource - featuring fun, science-related activities for 6-12 year olds
|-
|}
 

==Tutorials and Presentations==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #E0F8E6" | Resource
! style="background: #E0F8E6" | Description
|-
| [http://www.khanacademy.org/science/biology Khan Academy - Learn Biology]
| Tutorials covering topics addressed in first year high school/undergraduate biology courses
|-
| [http://genetics.thetech.org/about-genetics The Tech Museum of Innovation - Genetics page]
| General information about genetics, genes, mutations and disease, medicine and ethics. Includes information on basics such as: what is a gene, how do genes work, genetic testing, mutations and disease, as well as “[http://genetics.thetech.org/ask-a-geneticist Ask a Geneticist]”, where you can pose questions to Stanford scientists.
|-
| [http://modencode.sciencemag.org/ ModEncode (Model Organism Encyclopedia of DNA Elements)]
| Modules on model organisms and modern biology, including information on why we study model organisms, regulation of gene expression, and the role of computers and technology in biology
|-
| [https://customercare.23andme.com/entries/21286992-Genetics Genetics Tutorials], ''23andMe''
| Basic tutorials describing genes, phenotypes, SNPs and more
|-
|}

Educational Resources

2023-02-27T18:35:28Z

Nash: /* Classroom & Course Materials */

[[Category:Resources]]
====Note on editing these wiki tables====
''When editing this page, please refer to the comment line at the top of each table if you need assistance in creating a row, or please feel free to mail us at [mailto:sgd-helpdesk@lists.stanford.edu sgd-helpdesk@lists.stanford.edu] and we would be happy to help you with the post.
''

=Associations and Societies=



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #CEE3F6" | Association
! style="background: #CEE3F6" | Mission
|-
| [http://www.nsta.org/ National Science Teachers Association] (NTSA)
| Books, Resources, Conferences, Science Standards for Educators at all academic levels (K- Undergraduate)
|-
| [http://www.nabt.org/websites/institution/index.php?p=1 National Association of Biology Teachers] (NABT)
| Teaching Resources, Conferences, including resources for Biotechnology & Genetics
|-
| [http://www.asm.org/ American Society for Microbiology] (ASMsociety)
| Books, Questions, Activities for K-12, found under the '''Microbiology for the Public''' section
|-
| [http://micropublication.org/ microPublication Biology] (microPublication Biology)
| microPublication.org publishes brief peer-reviewed articles that are assigned a DOI and are indexed in PubMed, EuropePMC, Google Scholar, etc. Yeast data are curated and, upon publication, are deposited in SGD.
|}
 

=Teaching Resources=

==Classroom & Course Materials==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #D8D8D8" | Resource Type
! style="background: #D8D8D8" | Source
! style="background: #D8D8D8" | Description
|-
| colspan="3" style="text-align: left; background:#F2F2F2" | ''Saccharomyces cerevisiae'' specific, including materials relevant to the use of SGD
|-
| Bioinformatics Project Modules 
([[Media:ASHG_2013_Final.pdf |Overview]])
| ''Dr. Erin Strome'' and ''Dr. Bethany Bowling'', Northern Kentucky University
| Modules designed to introduce undergraduate students to using SGD and other bioinformatics resources: 
* [[Media:YeastModule_1.pdf|Module 1: "Introduction to ''Saccharomyces cerevisiae"]]
* [[Media:YeastModule_2.pdf|Module 2: "Genetic and Physical Interactions and Expression Data"]]
* [[Media:YeastModule_3.pdf|Module 3: "Structure-Based Evidence and Multiple Sequence Alignment"]]
* [[Media:YeastModule_4.pdf|Module 4: "Cellular Localization Data"]]
* [[Media:YeastModule_5.pdf|Module 5: "Gene Deletion Phenotypes"]]
|-
| Exploring genes of unknown function
| Yeast ORFan Gene Project http://www.yeastorfanproject.com/. Contact: Jill Keeney keeney@juniata.edu
| Network and resources to introduce undergraduate students to SGD resources while exploring genes of unknown function. Bioinformatics modules (8) for use in classes or lab guide students through hypothesis formation about gene function. Each module has a guide and worksheet; some modules have videos to guide students through the modules. http://www.yeastorfanproject.com/lab-modules/
|-
| Lab Experiments
| [http://www.phys.ksu.edu/gene/chapters.html Yeast Experiments], from [http://www.phys.ksu.edu/gene/ GENE Project], ''Tom Manney'', Kansas State University
| Variety of experiments for high school and undergraduate classes
|-
| Questions, Videos, Lab Experiments
| [http://faculty.bsc.edu/phanson/yen/index.htm Yeast Education Network (YEN)] (link not functional)
| Variety of teaching resources for high school and undergraduate classes
|-
| Lab Experiments
| [http://www-personal.ksu.edu/~bethmont/rl2k/yeast.html Research Link 2000]
| Experiments for use in undergraduate laboratory classes
|-
| Video tutorial
| [https://www.youtube.com/watch?v=YHe3IE8fJn8/ Evann Jarrodsmom via youtube]
| Video tutorial of how to perform tetrad dissection with a manual micromanipulator
|-
| CRISPR
| [https://www.yeastgenome.org/reference/S000342286 Connor Shortt et al.]
| Single lab session on how to edit the genome by disruption of ADE2 in yeast
|-
| colspan="3" style="text-align: left; background:#F2F2F2" | General Biology and Genetics
|-
| Lesson plans and classroom activities
| [http://www.dnai.org/index.htm DNA Interactive], 
Cold Spring Harbor Laboratory
|Historical and current information about DNA and genomes, with lessons centered around understanding current techniques and resources
|-
| Genetics education resources for teachers
| [http://www.genome.gov/10005911 NHGRI Genetic Education Resources for Teachers]
| Directing teachers to classroom tools, including specific teaching plans to present the history, facts and genetic terminology behind the Human Genome Project.
|-
| Interactive activities
| [http://genetics.thetech.org/online-exhibits The Tech Museum of Innovation - Online Exhibits]
| Educational online exhibits about genetics and you, such as: [http://genetics.thetech.org/online-exhibits/dna-roulette DNA roulette], making [http://genetics.thetech.org/online-exhibits/do-it-yourself-strawberry-dna DNA from strawberries], and [http://genetics.thetech.org/online-exhibits/are-genetic-tests-right-you genetic tests and you]
|-
| Virtual experiment
| [http://sciencecourseware.org/vcise/drosophila/ Virtual Courseware for Inquiry-based Science Education: ''Drosophila''], VCISE
| Virtual experiment that allows students to apply principles of genetic inheritance by studying the inheritance patterns of fruit flies
|-
| Protocols, Workshops, Publications
| [http://www.bio.davidson.edu/projects/GCAT/gcat.html Genome Consortium for Active Teaching], GCAT
| Part of consortium designed to bring functional genomics methods into the undergraduate curriculum
|-
|}

 

==Courses==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #D8D8D8" | Course
! style="background: #D8D8D8" | Institution
! style="background: #D8D8D8" | Description
|-
| [http://apbiostudio.stanford.edu/index.html AP BioStudio]
| Stanford University
| Program at Stanford University for high school teachers that introduces AP Biology teaching modules in the areas of forensic science, human genetics, bioinformatics and evolution
|-
| [http://www.bio.davidson.edu/courses/genomics/genomics.html Discovering Genomics, Proteomics, and Bioinformatics]
| Davidson College
| Includes web activities and case studies in this problem solving approach to teaching students the fundamentals of genomic analysis. Based on the book written by ''A. Malcolm Campbell'' and ''Laurie J. Heyer''
|-
| [https://capricorn.bc.edu/bi204 Investigations in Molecular Cell Biology]
| Boston College
| Project-based course in which students study the evolutionary conservation of genes involved in methionine synthesis. Topics include yeast culture and complementation, databases, plasmids and western blots. Each module contains background information, student protocols, teaching slides and video tutorials.

|}
 

==Fun Sites==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #D8D8D8" | Resource
! style="background: #D8D8D8" | Description
|-
| [http://www.mendelweb.org/ MendelWeb]
| Primary texts relating to classical genetics, elementary plant science, and history and literature of science
|-
| [http://www.sciencebuddies.org/science-fair-projects/search.shtml?v=&s=yeast Science Buddies (for yeast)]
| Science fair project ideas for yeast and other scientific topics (resource for students, parents, teachers)
|-
| [http://www.mendelweb.org/ MendelWeb]
| Primary texts relating to classical genetics, elementary plant science, and history and literature of science
|-
| [http://www.scientificamerican.com/education/bring-science-home/ Bring Science Home]
| A Scientific American resource - featuring fun, science-related activities for 6-12 year olds
|-
|}

 

=General Learning=
==Books==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #E0F8E6" | Title
! style="background: #E0F8E6" | Description
|-
| [http://genetics.thetech.org/book-titles When Will Broccoli Taste Like Chocolate?: Your Questions on Genetic Traits Answered by Stanford Universtiy Scientists], ''David L Bodian, PhD'' and ''D Barry Starr, PhD''
| Stanford scientists answer questions such as: Why do I have freckles? Where do my blue eyes come from?
|-
| [http://www.genomenewsnetwork.org/resources/whats_a_genome/Chp1_1_1.shtml#genome1 What's a Genome?], 
by ''Sarah E. DeWeerdt'' (Genome News Network)
| Online book describing the basics of a genome, chromome, genes, DNA, sequencing, variation, and genome maps
|}
 

==Dedicated Sites==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #E0F8E6" | Resource
! style="background: #E0F8E6" | Description
|-
| [https://biologydictionary.net/ Biology Dictionary]
| An online biology reference site providing useful definitions and explanations of common biology terms
|-
| [http://learn.genetics.utah.edu/ Learn.Genetics], ''University of Utah Health Sciences''
| Tutorials describing basic genetics (e.g. "What is DNA?"), cell biology, evolution, and human health, as well as some science tools (e.g. virtual labs)
|-
| [http://www.dnalc.org/websites/ DNA Learning Center], ''Cold Spring Harbor Laboratory''
| Resources and links designed to acquaint elementary and high school students to the principles of genetics and disease risk
|-
| [http://www.dnaftb.org/ DNA from the Beginning], ''Cold Spring Harbor Labroatory''
| "An animated primer of 75 experiments that made modern genetics"
|-
| [http://www.nature.com/scitable Scitable], ''Nature Publishing Group''
| Free library providing overviews of key science concepts, with a focus on genetics
|-
| [http://www.scientificamerican.com/education/bring-science-home/ Bring Science Home]
| A Scientific American resource - featuring fun, science-related activities for 6-12 year olds
|-
|}
 

==Tutorials and Presentations==



{| border="1" style="border-collapse:collapse; width:90%" cellpadding="4"
|-
! style="background: #E0F8E6" | Resource
! style="background: #E0F8E6" | Description
|-
| [http://www.khanacademy.org/science/biology Khan Academy - Learn Biology]
| Tutorials covering topics addressed in first year high school/undergraduate biology courses
|-
| [http://genetics.thetech.org/about-genetics The Tech Museum of Innovation - Genetics page]
| General information about genetics, genes, mutations and disease, medicine and ethics. Includes information on basics such as: what is a gene, how do genes work, genetic testing, mutations and disease, as well as “[http://genetics.thetech.org/ask-a-geneticist Ask a Geneticist]”, where you can pose questions to Stanford scientists.
|-
| [http://modencode.sciencemag.org/ ModEncode (Model Organism Encyclopedia of DNA Elements)]
| Modules on model organisms and modern biology, including information on why we study model organisms, regulation of gene expression, and the role of computers and technology in biology
|-
| [https://customercare.23andme.com/entries/21286992-Genetics Genetics Tutorials], ''23andMe''
| Basic tutorials describing genes, phenotypes, SNPs and more
|-
|}

Primer Set Sequences

2022-10-10T17:04:25Z

Nash: /* Primer sets used by the Yeast Knockout (YKO) Consortium */

This page contains links to download the sequences of several primer sets that were constructed to amplify various regions of the yeast genome.

==Primer sets from ResGen/Invitrogen==
These primers are no longer being made or distributed by ResGen, but their sequences are available for download from SGD:

* GenePairs, a set of primers for each ORF in the genome used for amplifying entire ORFs ([http://downloads.yeastgenome.org/sequence/S288C_reference/primer_sequences/ Download])

* pORF Yeast GenePairs, a set of primers for each gene in the genome used for amplifying partial ORFs ([http://downloads.yeastgenome.org/sequence/S288C_reference/primer_sequences/ Download])

* Yeast Intergenic Region Primers ([http://downloads.yeastgenome.org/sequence/S288C_reference/primer_sequences/ Download])

==Primer sets used by the Yeast Knockout (YKO) Consortium==

* [http://yeastdeletion-sgtc.yeastgenome.org/downloads.html Primers] for making knockouts from the consortium's website.

* [http://yeastdeletion-sgtc.yeastgenome.org/downloads.html#strainsavail Information] on the strains made by the deletion consortium

Primer Set Sequences

2022-10-10T17:04:15Z

Nash: /* Primer sets used by the Yeast Knockout (YKO) Consortium */

This page contains links to download the sequences of several primer sets that were constructed to amplify various regions of the yeast genome.

==Primer sets from ResGen/Invitrogen==
These primers are no longer being made or distributed by ResGen, but their sequences are available for download from SGD:

* GenePairs, a set of primers for each ORF in the genome used for amplifying entire ORFs ([http://downloads.yeastgenome.org/sequence/S288C_reference/primer_sequences/ Download])

* pORF Yeast GenePairs, a set of primers for each gene in the genome used for amplifying partial ORFs ([http://downloads.yeastgenome.org/sequence/S288C_reference/primer_sequences/ Download])

* Yeast Intergenic Region Primers ([http://downloads.yeastgenome.org/sequence/S288C_reference/primer_sequences/ Download])

==Primer sets used by the Yeast Knockout (YKO) Consortium==

* [http://yeastdeletion-sgtc.yeastgenome.org/downloads.html Primers] for making knockouts from the consortium's website.)

* [http://yeastdeletion-sgtc.yeastgenome.org/downloads.html#strainsavail Information] on the strains made by the deletion consortium

Meetings

2022-02-07T22:33:54Z

Nash:

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA and Online 
March 15 - 20, 2022 

[https://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project Summer Workshop] 
Ohlone College, Newark CA 
June 13-18, 2022 

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
July 12 - 15, 2022 
Abstract submission now open.

[https://meetings.cshl.edu/courses.aspx?course=C-YEAS&year=22 Yeast Genetics & Genomics course] 
Cold Spring Harbor Laboratory, New York 
July 26 - Aug 15, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2022-02-07T22:31:14Z

Nash:

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA and Online 
March 15 - 20, 2022 

[https://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project Summer Workshop] 
Ohlone College, Newark CA 
June 13-18, 2022 

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
July 12 - 16, 2022 
Abstract submission now open.

[https://meetings.cshl.edu/courses.aspx?course=C-YEAS&year=22 Yeast Genetics & Genomics course] 
Cold Spring Harbor Laboratory, New York 
July 26 - Aug 15, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2022-02-07T22:29:50Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA and Online 
March 15 - 20, 2022 

[https://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project Summer Workshop] 
Ohlone College, Newark CA 
June 13-18, 2022 

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
July 12 - 16, 2022 
Abstract submission now open</>

[https://meetings.cshl.edu/courses.aspx?course=C-YEAS&year=22 Yeast Genetics & Genomics course] 
Cold Spring Harbor Laboratory, New York 
July 26 - Aug 15, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2022-02-07T22:29:28Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA and Online 
March 15 - 20, 2022 

[https://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project Summer Workshop] 
Ohlone College, Newark CA 
June 13-18, 2022 

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
July 12 - 16, 2022 
Abstract submission now open

[https://meetings.cshl.edu/courses.aspx?course=C-YEAS&year=22 Yeast Genetics & Genomics course] 
Cold Spring Harbor Laboratory, New York 
July 26 - Aug 15, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2021-11-12T18:22:39Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA and Online 
March 15 - 20, 2022 

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
July 12 - 16, 2022 

[https://meetings.cshl.edu/courses.aspx?course=C-YEAS&year=22 Yeast Genetics & Genomics course] 
Cold Spring Harbor Laboratory, New York 
July 26 - Aug 15, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

SGD Newsletter, Fall 2021

2021-11-04T18:52:02Z

Nash: /* Upcoming Conferences */

[[Category: Newsletter]]

'''About this newsletter:''' This is the Fall 2021 issue of the SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community. You can view this [https://wiki.yeastgenome.org/index.php/SGD_Newsletter,_Spring_2021 newsletter] as well as previous newsletters on our [https://wiki.yeastgenome.org/index.php/SGD_Newsletter_Archives Community Wiki].

==Nomenclature Updates==

*YNC for ncRNA
*YSC for NISS
*legacy gene names

==AlphaFold Predicts 3D Protein Structure==

https://alphafold.ebi.ac.uk/about

[[File:AlphaFold graphic.png|thumb|left|upright=.99]]

*With a cutting-edge AI system, EMBL’s European Bioinformatics Institute (EMBL-EBI) offers a new, highly accurate tool for predicting protein structure with speed and clarity.

*Given a peptide sequence for an uncharacterized protein, AlphaFold will model predicted domains and provide relative confidence levels for each portion of the prediction.

*The predicted domains can then be compared to known protein structures (using a tool such as PDBeFold, https://www.ebi.ac.uk/msd-srv/ssm/) to seek matches to characterized protein families.

*Whether or not a family is identified, the comparison will yield clues to protein function to help design the next experiments.

==YeastMine Updates==

SGD has updated YeastMine with ...

==Alliance of Genome Resources at [[https://www.alliancegenome.org/release-notes Version 4.1]]==
[[Image:alliance_logo.png|link=https://www.alliancegenome.org/ |thumb|left|upright=.7]]
The [https://www.alliancegenome.org/ Alliance of Genome Resources], a collaborative effort from SGD and other model organism databases (MOD), released version 4.1 in August. Notable improvements and new features include:
*Added Human and model organism high throughput (HTP) variant data.
*Human variants are imported from Ensembl.
*Model organism HTP variants are submitted by Alliance members (FlyBase, RGD, SGD, Wormbase) or imported from EVA (mouse and zebrafish).
*Added HTP variants to the Alleles and Variants table on gene pages (e.g. rat Lepr Gene page) and to the table on the Alleles and Variants Details page (e.g. rat Lepr Alleles and Variants Details.
*Created a report page for Human and model organism HTP variants (e.g. human variant rs1041354454).
*Expanded Allele Category in search to “Allele/Variant” and added a search for HTP variants.
*HTP variants are currently only displayed for variants within a gene. Intergenic variants will be available in a future release.
*On Gene Pages, a new Pathways widget displays via tabs:
**Reactome models of pathways for human gene products as well as inferred pathways for model organism genes based on orthology to human genes.
**Reactome reactions for gene products (e.g. human TP53 Gene page)
*Gene Ontology Causal Activity Models (GO-CAMs). These provide a framework to represent a biological system by linking together multiple GO annotations. PMID:31548717 (e.g. worm nsy-1 Gene page).
Experimental conditions are include for Disease and Phenotype data in tables on Gene, Allele, and Disease pages (e.g. zebrafish scn1lab Gene page).
*AllianceMine added Orthologs, and Allele and Variants (low throughput) data types to this release. You can now query for these data types via pre-made template queries.
*The Alliance Community Forum is released. The Forum permits discussions across six model organism communities—flies, mice, yeast, rats, worms, and zebrafish. More details will follow.

==Upcoming Conferences==
*Fungal Genetics
*36th International Specialised Symposium on Yeasts (ISSY36)
*Yeast Genetics

==Gene Ontology Consortium Fall Meeting==
Held virtually October 12 to October 14, with participants from XX countries.
Featuring presentations on:
*Internal updates from the Gene Ontology Consortium
*Gene Alliance Pathway Viewer
*Metrics analysis
*LitSuggest
*ECO, Evidence and Conclusions Ontology
*Reactome
*RNA Central
*PAINT
*Harmonizing Regulates closure over the various GOC products
*Complex Portal New annotation
*JaponicusDB
*ChEBI
*UniProt: Plan for pathway curation
*Subsets analysis

==Upcoming Publication in Genetics Issue XX==

*GENOME VERSION R64.3.1
*ALLELES
*HOMOLOGY AND THE ALLIANCE OF GENOME RESOURCES
*OTHER UPDATES

==Happy Holidays from SGD!==

[[File:SnowShmoo.png|thumb|left|upright=.25]]

(NEEDS UPDATE) We would like to take this opportunity to recognize that 2020 has brought many changes and challenges for everyone. Our thoughts go out to all those who have been impacted by the unprecedented events of this year.

We wish you and your family, friends, and lab mates the best during the upcoming holidays. '''Stanford University will be closed for three weeks (???) starting on December 20 (???) and will reopen on January 4th (???) , 2022'''. Although SGD staff members will be taking time off, the website will be up and running throughout the winter break, and we will resume responding to user requests and questions in the new year.

Meetings

2021-11-04T18:42:50Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA and Online 
March 15 - 20, 2022 

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
July 12 - 16, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2021-11-04T18:42:14Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
March 9 - 14, 2022 

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA and Online 
March 15 - 20, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2021-11-04T18:41:45Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
March 9 - 14, 2022 

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA 
March 15 - 20, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2021-11-04T18:41:10Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
March 9 - 14, 2022 

[https://genetics-gsa.org/fungal/ 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA 
July 12 - 14, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2021-11-04T18:40:37Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
March 9 - 14, 2022 

[http://conferences.genetics-gsa.org/fungal/2019/past-and-upcoming-conferences 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA 
July 12 - 14, 2022 

[https://genetics-gsa.org/yeast/ Yeast Genetics Meeting 2022] 
University of California, Los Angeles, CA 
August 17 - 21, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2021-11-04T18:38:54Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
March 9 - 14, 2022 

[http://conferences.genetics-gsa.org/fungal/2019/past-and-upcoming-conferences 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA 
July 12 - 14, 2022 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2021-11-04T18:38:23Z

Nash: /* Upcoming Conferences & Courses */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[https://issy36.com/ 36th International Specialized Symposium on Yeasts (ISSY36): Yeast in the Genomics Era] 
University of British Columbia, Vancouver, BC 
March 9 - 14, 2021 

[http://conferences.genetics-gsa.org/fungal/2019/past-and-upcoming-conferences 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA 
July 12 - 14, 2021 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Meetings

2021-11-04T18:30:33Z

Nash: /* Past Yeast Meetings */

Meetings that may be of interest to the yeast community are listed below. If you would like to add a conference or meeting to the list, please log in to the wiki. If you do not have a user account, please contact the [http://www.yeastgenome.org/cgi-bin/suggestion SGD helpdesk] and we will gladly create an account for you.

=Upcoming Conferences & Courses =

[http://conferences.genetics-gsa.org/fungal/2019/past-and-upcoming-conferences 31st Fungal Genetics Conference] 
Asilomar Conference Grounds, Pacific Grove, CA 
March 9 - 14, 2021 

=Past Yeast Meetings=

[http://www.issy34-bariloche.com International Specialized Symposium on Yeasts, "Yeast Odyssey: from nature to industry"] 
Bariloche, Patagonia, Argentina 
October 1 - 4, 2018 

[http://www.issy34-bariloche.com International Workshop on Brewing Yeasts] 
Bariloche, Patagonia, Argentina 
October 5 - 6, 2018 

[https://www.embl.de/training/events/2018/EAE18-01/ EMBO Workshop on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems] 
Heidelberg, Germany 
October 17 - 20, 2018 

[https://iysgc2018.com/ 7th International Yeast 2.0 and Synthetic Genomes Conference] 
Sydney, New South Wales, Australia 
November 26 - 28, 2018 

[https://yeast2019.org/ 29th International Conference on Yeast Genetics and Molecular Biology (ICYGMB)] 
Gothenburg, Sweden 
August 18 - 22, 2019 

[https://smyte37.eu/ 37th Small Meeting on Yeast Transport and Energetics (SMYTE)] 
Nove Hrady, Czechia 
September 11 - 15, 2019 

[http://www.issy35.com/en/index.html 35th International Specialised Symposium on Yeasts (ISSY)] 
Antalya, Turkey 
October 21 - 25, 2019 

[https://meetings.cshl.edu/meetings.aspx?meet=biohist&year=19 Yeast Research: Origins, Insights, Breakthroughs] 
Cold Spring Harbor, NY 
October 23 - 26, 2019 

[https://www.gpwrite2019.org/ Genome Project Write and 8th Annual Sc2.0 Meeting] 
New York, NY 
November 11 - 14, 2019 

[https://imya2020.org 14th International Meeting on Yeast Apoptosis (IMYA2020)] 
Moscow, Russia 
June 2 - 5, 2020 

[http://cnrs-workshop-yeast-transcription.org Gene Transcription in Yeast: From Single Molecules to Phase Separation] 
Sant Feliu de Guixols, Spain 
June 13 - 18, 2020 

[http://www.yeastorfanproject.com/summer-workshops/ Yeast ORFan Gene Project: Finding a place for ORFans to GO] 
[http://www.yeastorfanproject.com/wp-content/uploads/2020/01/2020-NSF-RCN-UBE-yeast-ORFan-workshop-application.docx Application to attend] 
Naperville, IL 
June 22 - 27, 2020 

[https://lmo-14-2020.sciencesconf.org French Community yeast meeting: "Levures, Modèles et Outils"] 
University of Strasbourg, Strasbourg, Alsace, France 
July 9 - 11, 2020 

[https://src.faseb.org/yeastchromo FASEB Science Research Conference on Yeast Chromosome Biology and Cell Cycle] 
Babson Park, MA, USA 
July 12 - 17, 2020 

[https://meetings.cshl.edu/courses.aspx?course=C-yeas&year=20 Yeast Genetics & Genomics course] 
Cold Spring Harbor, NY 
July 21 - August 10, 2020 
Application & Materials Deadline: April 1, 2020

[http://icy15.boku.ac.at 15th International Congress on Yeasts] 
University of Vienna, Vienna, Austria 
August 23 - 27, 2020 

[https://www.tor-de-france.fr/ Le TOR de France- Target Of Rapamycin science club in France, 2nd edition] 
Nice, France 
October 1-2, 2020 

International Conference on Yeast Genetics and Molecular Biology 
:Browse or search abstracts: 
:[http://onlinelibrary.wiley.com/doi/10.1002/yea.v32.s1/issuetoc 2015] (XXVII) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.v30.S1/issuetoc 2013] (XXVI) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1862/abstract 2011] (XXV) | [http://onlinelibrary.wiley.com/doi/10.1002/yea.1682/abstract 2009] (XXIV)

Yeast Genetics & Molecular Biology Meeting 
:Browse or search abstracts; view participant lists and photos: 
:[http://wiki.yeastgenome.org/index.php/File:Program_Book_Abstracts_Yeast_2014.pdf 2014 (PDF abstract book)] | [http://www.yeast-meet.org/2012/ 2012] | [http://www.yeast-meet.org/2010/ 2010] | [http://www.yeast-meet.org/2008 2008]

Methods

2021-10-19T17:48:44Z

Nash:

*[http://wiki.yeastgenome.org/index.php/Software Software tools] created by members of the scientific community.

*[http://research.fhcrc.org/breeden/en/methods.html Yeast Lab Protocols] from the Breeden Lab, Fred Hutchinson Cancer Research Center.

*[http://research.fhcrc.org/gottschling/en/protocols/yeast-protocols.html Yeast Lab Protocols] from the Gottschling Lab, Fred Hutchinson Cancer Research Center.

*[http://gasch.genetics.wisc.edu/protocols.html Yeast & Microarray Protocols] from the Gasch Lab, University of Wisconsin-Madison.

*[http://home.cc.umanitoba.ca/~gietz/ The Definitive Yeast Transformation Homepage] from the University of Manitoba.

*[http://fangman-brewer.genetics.washington.edu/index.html DNA Replication Protocols] from the Fangman and Brewer Labs, University of Washington.

*[http://cmgm.stanford.edu/pbrown/mguide/index.html The MGuide. Version 2.0], a complete guide to microarraying for the molecular biologist, from the Brown Lab, Stanford University.

*[http://gasch.genetics.wisc.edu/protocols/Gasch_MethEnzym.pdf Guide to Yeast Microarray Experiments], by Audrey Gasch, from Guide to Yeast Genetics and Molecular and Cellular Biology, Methods in Enzymology (2002)

*[http://depts.washington.edu/yeastrc/ The NCRR Yeast Resource Center] at the University of Washington facilitates the study of yeast protein complexes by providing access to techniques such as mass spectrometry, two-hybrid arrays, deconvolution fluorescence microscopy and protein structure prediction.

* [http://genome.cshlp.org/content/7/12/1174.full PCR-Based Allele Replacement] (Erdeniz et al. (1997) Genome Res. 7:1174-1183). Available to the public without password restriction and at no charge, through a special arrangement with Genome Research arranged by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bärtsch on the W303 strain; derivatives were used in the study'').

*[http://dunham.gs.washington.edu/home.shtml Chemostat Manual] from Maitreya Dunham's lab, University of Washington.

*[http://www.phys.ksu.edu/gene/chapters.html A Classroom Guide To Yeast Experiments] from The GENE project at Kansas State University based on [http://www.rushessay.com essay writing].

*[http://openwetware.org/wiki/The_mRNA_Decay_Resource:Protocols_and_Resources Protocols and Resources] from the RNA Decay Resource, a resource for the sharing of information, know-how, and wisdom among researchers who study mRNA decay.

*[[SGA]] protocols and scoring software.

*[http://Vadlo.com/ Molecular Biology Protocols Search Engine] from Life in Research, LLC. Also life sciences databases, online tools, software, and powerpoints. For example [http://www.vadlo.com/b/q?k=Yeast+Protocols&rel=0 Yeast protocols], [http://www.vadlo.com/b/q?k=Yeast&rel=3 Yeast databases]

*[http://h.web.umkc.edu/honigbergs/yeastcommunity/concept.html.html Yeast Community Site] from Honigberg Lab, University of Missouri Kansas City.

*[http://www.magusto.com/ Concours Site] from concours Lab, University of Mousseaux sur seine (protocol in French).

*[[Yeast_Cell_Micromanipulation|Yeast Cell Micromanipulation]] Protocol for Making Support Rod with Fiber Optic Needle Attached from Cora Styles

*[http://yeastgenome.org/cgi-bin/geneticData/displayTwoPoint? Genetic Mapping (Two-Point) Data] for yeast genes.
*[[GRSandPRIMED|PRIMED]]: Complete primer set for deleting and C-terminally tagging every protein-coding and non-coding RNA gene in ''S. cerevisiae''.

*[http://www.babraham.ac.uk/our-research/epigenetics/jon-houseley/protocols Yeast Protocols] particularly DNA/RNA analysis, from the Houseley Lab at the Babraham Institute. Updated May 2018.

*[http://cshprotocols.cshlp.org/site/recipes/ Cold Spring Harbor Protocols] Alphabetical list of recipes for techniques and media (see 'Y' for example)

Methods

2021-10-19T17:48:30Z

Nash:

*[http://wiki.yeastgenome.org/index.php/Software Software tools] created by members of the scientific community.

*[http://research.fhcrc.org/breeden/en/methods.html Yeast Lab Protocols] from the Breeden Lab, Fred Hutchinson Cancer Research Center.

*[http://research.fhcrc.org/gottschling/en/protocols/yeast-protocols.html Yeast Lab Protocols] from the Gottschling Lab, Fred Hutchinson Cancer Research Center.

*[http://gasch.genetics.wisc.edu/protocols.html Yeast & Microarray Protocols] from the Gasch Lab, University of Wisconsin-Madison.

*[http://home.cc.umanitoba.ca/~gietz/ The Definitive Yeast Transformation Homepage] from the University of Manitoba.

*[http://fangman-brewer.genetics.washington.edu/index.html DNA Replication Protocols] from the Fangman and Brewer Labs, University of Washington.

*[http://cmgm.stanford.edu/pbrown/mguide/index.html The MGuide. Version 2.0], a complete guide to microarraying for the molecular biologist, from the Brown Lab, Stanford University.

*[http://gasch.genetics.wisc.edu/protocols/Gasch_MethEnzym.pdf Guide to Yeast Microarray Experiments], by Audrey Gasch, from Guide to Yeast Genetics and Molecular and Cellular Biology, Methods in Enzymology (2002)

*[http://depts.washington.edu/yeastrc/ The NCRR Yeast Resource Center] at the University of Washington facilitates the study of yeast protein complexes by providing access to techniques such as mass spectrometry, two-hybrid arrays, deconvolution fluorescence microscopy and protein structure prediction.

* [http://genome.cshlp.org/content/7/12/1174.full PCR-Based Allele Replacement] (Erdeniz et al. (1997) Genome Res. 7:1174-1183). Available to the public without password restriction and at no charge, through a special arrangement with Genome Research arranged by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bärtsch on the W303 strain; derivatives were used in the study'').

*[http://dunham.gs.washington.edu/home.shtml Chemostat Manual] from Maitreya Dunham's lab, University of Washington.

*[http://www.phys.ksu.edu/gene/chapters.html A Classroom Guide To Yeast Experiments] from The GENE project at Kansas State University based on [http://www.rushessay.com essay writing].

*[http://openwetware.org/wiki/The_mRNA_Decay_Resource:Protocols_and_Resources Protocols and Resources] from the RNA Decay Resource, a resource for the sharing of information, know-how, and wisdom among researchers who study mRNA decay.

*[[SGA]] protocols and scoring software.

*[http://Vadlo.com/ Molecular Biology Protocols Search Engine] from Life in Research, LLC. Also life sciences databases, online tools, software, and powerpoints. For example [http://www.vadlo.com/b/q?k=Yeast+Protocols&rel=0 Yeast protocols], [http://www.vadlo.com/b/q?k=Yeast&rel=3 Yeast databases]

*[http://h.web.umkc.edu/honigbergs/yeastcommunity/concept.html.html Yeast Community Site] from Honigberg Lab, University of Missouri Kansas City.

*[http://www.magusto.com/ Concours Site] from concours Lab, University of Mousseaux sur seine (protocol in French).

*[[Yeast_Cell_Micromanipulation|Yeast Cell Micromanipulation]] Protocol for Making Support Rod with Fiber Optic Needle Attached from Cora Styles

*[http://yeastgenome.org/cgi-bin/geneticData/displayTwoPoint? Genetic Mapping (Two-Point) Data] for yeast genes.
*[[GRSandPRIMED|PRIMED]]: Complete primer set for deleting and C-terminally tagging every protein-coding and non-coding RNA gene in ''S. cerevisiae''.

*[http://www.babraham.ac.uk/our-research/epigenetics/jon-houseley/protocols Yeast Protocols] particularly DNA/RNA analysis, from the Houseley Lab at the Babraham Institute. Updated May 2018.

*[http://cshprotocols.cshlp.org/site/recipes/ Cold Spring Harbor Protocols] Alphabetical List of Recipes for techniques and media (see 'Y' for example)

Methods

2021-10-19T17:47:59Z

Nash:

*[http://wiki.yeastgenome.org/index.php/Software Software tools] created by members of the scientific community.

*[http://research.fhcrc.org/breeden/en/methods.html Yeast Lab Protocols] from the Breeden Lab, Fred Hutchinson Cancer Research Center.

*[http://research.fhcrc.org/gottschling/en/protocols/yeast-protocols.html Yeast Lab Protocols] from the Gottschling Lab, Fred Hutchinson Cancer Research Center.

*[http://gasch.genetics.wisc.edu/protocols.html Yeast & Microarray Protocols] from the Gasch Lab, University of Wisconsin-Madison.

*[http://home.cc.umanitoba.ca/~gietz/ The Definitive Yeast Transformation Homepage] from the University of Manitoba.

*[http://fangman-brewer.genetics.washington.edu/index.html DNA Replication Protocols] from the Fangman and Brewer Labs, University of Washington.

*[http://cmgm.stanford.edu/pbrown/mguide/index.html The MGuide. Version 2.0], a complete guide to microarraying for the molecular biologist, from the Brown Lab, Stanford University.

*[http://gasch.genetics.wisc.edu/protocols/Gasch_MethEnzym.pdf Guide to Yeast Microarray Experiments], by Audrey Gasch, from Guide to Yeast Genetics and Molecular and Cellular Biology, Methods in Enzymology (2002)

*[http://depts.washington.edu/yeastrc/ The NCRR Yeast Resource Center] at the University of Washington facilitates the study of yeast protein complexes by providing access to techniques such as mass spectrometry, two-hybrid arrays, deconvolution fluorescence microscopy and protein structure prediction.

*[http://cshprotocols.cshlp.org/site/recipes/ Cold Spring Harbor Protocols] Alphabetical List of Recipes for techniques and media (see 'Y' for example)

* [http://genome.cshlp.org/content/7/12/1174.full PCR-Based Allele Replacement] (Erdeniz et al. (1997) Genome Res. 7:1174-1183). Available to the public without password restriction and at no charge, through a special arrangement with Genome Research arranged by Rodney Rothstein (''see [[CommunityW303.html|detailed notes]] from RR and Stephan Bärtsch on the W303 strain; derivatives were used in the study'').

*[http://dunham.gs.washington.edu/home.shtml Chemostat Manual] from Maitreya Dunham's lab, University of Washington.

*[http://www.phys.ksu.edu/gene/chapters.html A Classroom Guide To Yeast Experiments] from The GENE project at Kansas State University based on [http://www.rushessay.com essay writing].

*[http://openwetware.org/wiki/The_mRNA_Decay_Resource:Protocols_and_Resources Protocols and Resources] from the RNA Decay Resource, a resource for the sharing of information, know-how, and wisdom among researchers who study mRNA decay.

*[[SGA]] protocols and scoring software.

*[http://Vadlo.com/ Molecular Biology Protocols Search Engine] from Life in Research, LLC. Also life sciences databases, online tools, software, and powerpoints. For example [http://www.vadlo.com/b/q?k=Yeast+Protocols&rel=0 Yeast protocols], [http://www.vadlo.com/b/q?k=Yeast&rel=3 Yeast databases]

*[http://h.web.umkc.edu/honigbergs/yeastcommunity/concept.html.html Yeast Community Site] from Honigberg Lab, University of Missouri Kansas City.

*[http://www.magusto.com/ Concours Site] from concours Lab, University of Mousseaux sur seine (protocol in French).

*[[Yeast_Cell_Micromanipulation|Yeast Cell Micromanipulation]] Protocol for Making Support Rod with Fiber Optic Needle Attached from Cora Styles

*[http://yeastgenome.org/cgi-bin/geneticData/displayTwoPoint? Genetic Mapping (Two-Point) Data] for yeast genes.
*[[GRSandPRIMED|PRIMED]]: Complete primer set for deleting and C-terminally tagging every protein-coding and non-coding RNA gene in ''S. cerevisiae''.

*[http://www.babraham.ac.uk/our-research/epigenetics/jon-houseley/protocols Yeast Protocols] particularly DNA/RNA analysis, from the Houseley Lab at the Babraham Institute. Updated May 2018.

SGD Newsletter, Spring 2021

2021-05-27T20:43:41Z

Nash: /* Textpresso Central Update */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2021 issue of the SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.

==R64.3 Annotation Update==
SGD curators periodically update the chromosomal annotations of the ''S. cerevisiae'' Reference Genome, which is derived from strain [http://www.yeastgenome.org/strain/S288C/overview S288C].

The R64.3 annotation release included various updates and additions:

*7 new ORFs: [https://www.yeastgenome.org/locus/S000303806 OTO1/YGR227C-A], [https://www.yeastgenome.org/locus/S000303807 YHR052C-B], [https://www.yeastgenome.org/locus/S000303808 YHR054C-B], [https://www.yeastgenome.org/locus/S000303810 YJR107C-A], [https://www.yeastgenome.org/locus/S000303811 YKL104W-A], [https://www.yeastgenome.org/locus/S000303812 YLR379W-A], [https://www.yeastgenome.org/locus/S000303813 YMR008C-A]
*5 new ncRNAs: [https://www.yeastgenome.org/locus/S000303802 GAL10-ncRNA], [https://www.yeastgenome.org/locus/S000303803 TBRT/XUT_2F-154], [https://www.yeastgenome.org/locus/S000303809 SUT169], [https://www.yeastgenome.org/locus/S000303814 PHO84 lncRNA], [https://www.yeastgenome.org/locus/S000303815 GAL4 lncRNA]
*2 new uORFs for [https://www.yeastgenome.org/locus/S000003139 ROK1/YGL171W]
*1 new recombination enhancer: [https://www.yeastgenome.org/locus/S000303804 RE]
*1 new LTR: [https://www.yeastgenome.org/locus/S000303805 YELWdelta27]
*3 ORFs with shifted translation starts: [https://www.yeastgenome.org/locus/S000000792 HPA3/YEL066W], [https://www.yeastgenome.org/locus/S000003773 YJR012C], [https://www.yeastgenome.org/locus/S000005204 LTO1/YNL260C]
*1 ORF with shifted translation stop plus new intron: [https://www.yeastgenome.org/locus/S000004755 LDO45/YMR147W]
*Changed feature_type (and SO_term) for non-transcribed spacers: [https://www.yeastgenome.org/locus/S000029714 NTS1-2], [https://www.yeastgenome.org/locus/S000029329 NTS2-1], [https://www.yeastgenome.org/locus/S000029706 NTS2-2]
*New systematic nomenclature system for [https://www.yeastgenome.org/search?q=YNC&category=locus entire annotated complement of ncRNAs]

Various sequence and annotation files are available on SGD's [http://sgd-archive.yeastgenome.org/sequence/S288C_reference/ Downloads] site. You can find more update details and read about the new systematic nomenclature system for noncoding RNA genes on the [https://wiki.yeastgenome.org/index.php/Details_of_2021_Reference_Genome_Annotation_Update_R64.3#R64.3_Annotation_update_summary Details of 2021 Reference Genome Annotation Update R64.3] SGD Wiki page.
 
==New Homology Pages==

SGD is excited to introduce our new Homology Pages! These pages can be accessed by clicking on the Homology tab in the header of SGD gene pages, as seen below.

The information displayed on the Homology Pages is divided into several sections:

*Homologs: Information about known homologs for the gene of interest, such as the species of the homolog, the corresponding Gene ID from the Alliance of Genome Resources, and the name of the homolog.
*Functional Complementation: Data about cross-species functional complementation between yeast and other species, curated by SGD and the Princeton Protein Orthology Database (P-POD).
*Fungal Homologs: Curated homolog information for 24 additional species of fungi. View the species of the fungal homolog, the database source of the entry, and the Gene ID of the homolog from that database.
*External Identifiers: A list of external identifiers for the protein from various database sources.
 
[[File:homology1.png|650px|left|Image: 650 pixels]] [[File:homology2.png|750px|Image: 650 pixels]]
 
==Functional Complementation Data Available on References Pages==
Functional Complementation annotations are now viewable on reference pages for which there is curatable functional complementation data. This information describes cross-species functional complementation between yeast and other species, and is curated by SGD and the [http://ppod.princeton.edu Princeton Protein Orthology Database] (P-POD).

[[File:functional_comp3.png|600px|center|upright=0.8]]
 
==YeastMine Updates and New Templates==
SGD has updated the current [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_UTRs&scope=all Gene-->UTRs] YeastMine template with newly calculated 5' and 3' UTR sequence/coordinates. Additionally, transcript iso-forms for specific genes from the [http://www.yeastgenome.org/reference/S000153368/overview Pelachano et al., 2013] study can be accessed in YeastMine using the new [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Transcript&scope=all Gene-->Transcripts] template. Both templates can be found under the "Templates" section of YeastMine under the "Expression" category.
[[File:ym_templates.png|600px|center|upright=0.8|Transcript and UTR YeastMine Templates]]

==Textpresso Central Update==
[[File:textpresso.png|600px|thumb|left|upright=0.8|Textpresso Central homepage]]
[https://textpresso.yeastgenome.org/tpc/home Textpresso] has recently been updated with a new system, adopting an overhauled user interface and introducing several new features including:
*Search results shown in the context of the full text
*Custom corpus creation
*Customizable annotation interface
*Search terms are highlighted in full-text view

Textpresso Central can also be accessed by clicking on "Full-text Search" under the Literature pull-down menu on the home page of SGD. More information about the changes and types of papers stored in Textpresso can be found in their [https://textpresso.yeastgenome.org/tpc/aboutus About Us] help section or (from [https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2103-8 Müller et al., 2018]).

 

==Number of Curated Alleles Continues to Grow==
SGD now has approximately '''13,000''' [https://www.yeastgenome.org/search?q=&category=allele alleles] that are either fully or partially curated. To navigate to an allele page, use the search bar to find a specific allele or enter a gene name and select an allele from the autocomplete list. Additionally, these pages can be accessed by clicking on the allele name in a gene’s Phenotype Annotation table. SGD Curators continue to add new alleles or update existing ones as new information becomes available.

You can generate a list of all alleles in our database or find alleles for a specific gene using the [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Alleles&scope=all Genes --> Alleles] template in [https://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine].
 
[[File:allele_page.png|link=https://yeastgenome.org/allele/S000277751|600px|center|upright=.8]]
 

==Alliance of Genome Resources - Disease Associations for model organisms==
Did you know that you can find human disease associations for yeast genes and their orthologs in other key model organisms at the [https://www.alliancegenome.org Alliance of Genome Resources]?

SGD is a founding member of the Alliance of Genome Resources, which was established to facilitate the use of diverse model organisms in understanding the genetic and genomic bases of human biology, health, and disease. [https://www.alliancegenome.org/gene/SGD:S000006344 Gene pages] for yeast and other model organisms at the Alliance include a section for Disease Associations, including those for orthologous genes. Human diseases are represented using the [https://disease-ontology.org Disease Ontology (DO)].

[[File:allianceDiseaseTAZ1.png|850px|center|upright=0.8]]
 

==Fungal Pathogen Genomics Workshop==
[[File:workshop.png|thumb|left|250px]]
From May 10th - 14th, Senior Biocuration Scientist Edith Wong, Senior Biocuration Scientist Rob Nash, Senior Biocuration Scientist Marek Skrzypek, Biocuration Scientist Suzi Aleksander, and Associate Biocuration Scientist Micheal Alexander were instructors for the [https://coursesandconferences.wellcomeconnectingscience.org/event/fungal-pathogen-genomics-virtual-20210510/ Virtual Fungal Pathogen Genomics Workshop] hosted by [https://coursesandconferences.wellcomeconnectingscience.org Wellcome Connecting Science]. Our curators helped attendees learn more about the unique tools hosted on our website and provided them the opportunity to learn about other curation tools from [https://veupathdb.org/veupathdb/app FungiDB], [https://fungi.ensembl.org/index.html EnsemblFungi], [http://www.candidagenome.org CGD], [https://mycocosm.jgi.doe.gov/mycocosm/home MycoCosm], and [https://genome.jgi.doe.gov/portal/ JGI].

We would like to thank the Fungal Pathogen Genomics team for facilitating a successful virtual workshop, and for providing excellent training in web-based data mining resources for all attendees.

SGD Newsletter, Spring 2021

2021-05-27T20:43:27Z

Nash: /* YeastMine Updates and New Templates */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2021 issue of the SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.

==R64.3 Annotation Update==
SGD curators periodically update the chromosomal annotations of the ''S. cerevisiae'' Reference Genome, which is derived from strain [http://www.yeastgenome.org/strain/S288C/overview S288C].

The R64.3 annotation release included various updates and additions:

*7 new ORFs: [https://www.yeastgenome.org/locus/S000303806 OTO1/YGR227C-A], [https://www.yeastgenome.org/locus/S000303807 YHR052C-B], [https://www.yeastgenome.org/locus/S000303808 YHR054C-B], [https://www.yeastgenome.org/locus/S000303810 YJR107C-A], [https://www.yeastgenome.org/locus/S000303811 YKL104W-A], [https://www.yeastgenome.org/locus/S000303812 YLR379W-A], [https://www.yeastgenome.org/locus/S000303813 YMR008C-A]
*5 new ncRNAs: [https://www.yeastgenome.org/locus/S000303802 GAL10-ncRNA], [https://www.yeastgenome.org/locus/S000303803 TBRT/XUT_2F-154], [https://www.yeastgenome.org/locus/S000303809 SUT169], [https://www.yeastgenome.org/locus/S000303814 PHO84 lncRNA], [https://www.yeastgenome.org/locus/S000303815 GAL4 lncRNA]
*2 new uORFs for [https://www.yeastgenome.org/locus/S000003139 ROK1/YGL171W]
*1 new recombination enhancer: [https://www.yeastgenome.org/locus/S000303804 RE]
*1 new LTR: [https://www.yeastgenome.org/locus/S000303805 YELWdelta27]
*3 ORFs with shifted translation starts: [https://www.yeastgenome.org/locus/S000000792 HPA3/YEL066W], [https://www.yeastgenome.org/locus/S000003773 YJR012C], [https://www.yeastgenome.org/locus/S000005204 LTO1/YNL260C]
*1 ORF with shifted translation stop plus new intron: [https://www.yeastgenome.org/locus/S000004755 LDO45/YMR147W]
*Changed feature_type (and SO_term) for non-transcribed spacers: [https://www.yeastgenome.org/locus/S000029714 NTS1-2], [https://www.yeastgenome.org/locus/S000029329 NTS2-1], [https://www.yeastgenome.org/locus/S000029706 NTS2-2]
*New systematic nomenclature system for [https://www.yeastgenome.org/search?q=YNC&category=locus entire annotated complement of ncRNAs]

Various sequence and annotation files are available on SGD's [http://sgd-archive.yeastgenome.org/sequence/S288C_reference/ Downloads] site. You can find more update details and read about the new systematic nomenclature system for noncoding RNA genes on the [https://wiki.yeastgenome.org/index.php/Details_of_2021_Reference_Genome_Annotation_Update_R64.3#R64.3_Annotation_update_summary Details of 2021 Reference Genome Annotation Update R64.3] SGD Wiki page.
 
==New Homology Pages==

SGD is excited to introduce our new Homology Pages! These pages can be accessed by clicking on the Homology tab in the header of SGD gene pages, as seen below.

The information displayed on the Homology Pages is divided into several sections:

*Homologs: Information about known homologs for the gene of interest, such as the species of the homolog, the corresponding Gene ID from the Alliance of Genome Resources, and the name of the homolog.
*Functional Complementation: Data about cross-species functional complementation between yeast and other species, curated by SGD and the Princeton Protein Orthology Database (P-POD).
*Fungal Homologs: Curated homolog information for 24 additional species of fungi. View the species of the fungal homolog, the database source of the entry, and the Gene ID of the homolog from that database.
*External Identifiers: A list of external identifiers for the protein from various database sources.
 
[[File:homology1.png|650px|left|Image: 650 pixels]] [[File:homology2.png|750px|Image: 650 pixels]]
 
==Functional Complementation Data Available on References Pages==
Functional Complementation annotations are now viewable on reference pages for which there is curatable functional complementation data. This information describes cross-species functional complementation between yeast and other species, and is curated by SGD and the [http://ppod.princeton.edu Princeton Protein Orthology Database] (P-POD).

[[File:functional_comp3.png|600px|center|upright=0.8]]
 
==YeastMine Updates and New Templates==
SGD has updated the current [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_UTRs&scope=all Gene-->UTRs] YeastMine template with newly calculated 5' and 3' UTR sequence/coordinates. Additionally, transcript iso-forms for specific genes from the [http://www.yeastgenome.org/reference/S000153368/overview Pelachano et al., 2013] study can be accessed in YeastMine using the new [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Transcript&scope=all Gene-->Transcripts] template. Both templates can be found under the "Templates" section of YeastMine under the "Expression" category.
[[File:ym_templates.png|600px|center|upright=0.8|Transcript and UTR YeastMine Templates]]

==Textpresso Central Update==
[[File:textpresso.png|600px|thumb|left|upright=0.8|Textpresso Central homepage]]
[https://textpresso.yeastgenome.org/tpc/home Textpresso] has recently been updated with a new system, adopting an overhauled user interface and introducing several new features including:
*Search results shown in the context of the full text
*Custom corpus creation
*Customizable annotation interface
*Search terms are highlighted in full-text view

Textpresso Central can also be accessed by clicking on "Full-text Search" under the Literature pull-down menu on the home page of SGD. More information about the changes and types of papers stored in Textpresso can be found in their [https://textpresso.yeastgenome.org/tpc/aboutus About Us] help section or (from [https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2103-8 Müller et al]).

 

==Number of Curated Alleles Continues to Grow==
SGD now has approximately '''13,000''' [https://www.yeastgenome.org/search?q=&category=allele alleles] that are either fully or partially curated. To navigate to an allele page, use the search bar to find a specific allele or enter a gene name and select an allele from the autocomplete list. Additionally, these pages can be accessed by clicking on the allele name in a gene’s Phenotype Annotation table. SGD Curators continue to add new alleles or update existing ones as new information becomes available.

You can generate a list of all alleles in our database or find alleles for a specific gene using the [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Alleles&scope=all Genes --> Alleles] template in [https://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine].
 
[[File:allele_page.png|link=https://yeastgenome.org/allele/S000277751|600px|center|upright=.8]]
 

==Alliance of Genome Resources - Disease Associations for model organisms==
Did you know that you can find human disease associations for yeast genes and their orthologs in other key model organisms at the [https://www.alliancegenome.org Alliance of Genome Resources]?

SGD is a founding member of the Alliance of Genome Resources, which was established to facilitate the use of diverse model organisms in understanding the genetic and genomic bases of human biology, health, and disease. [https://www.alliancegenome.org/gene/SGD:S000006344 Gene pages] for yeast and other model organisms at the Alliance include a section for Disease Associations, including those for orthologous genes. Human diseases are represented using the [https://disease-ontology.org Disease Ontology (DO)].

[[File:allianceDiseaseTAZ1.png|850px|center|upright=0.8]]
 

==Fungal Pathogen Genomics Workshop==
[[File:workshop.png|thumb|left|250px]]
From May 10th - 14th, Senior Biocuration Scientist Edith Wong, Senior Biocuration Scientist Rob Nash, Senior Biocuration Scientist Marek Skrzypek, Biocuration Scientist Suzi Aleksander, and Associate Biocuration Scientist Micheal Alexander were instructors for the [https://coursesandconferences.wellcomeconnectingscience.org/event/fungal-pathogen-genomics-virtual-20210510/ Virtual Fungal Pathogen Genomics Workshop] hosted by [https://coursesandconferences.wellcomeconnectingscience.org Wellcome Connecting Science]. Our curators helped attendees learn more about the unique tools hosted on our website and provided them the opportunity to learn about other curation tools from [https://veupathdb.org/veupathdb/app FungiDB], [https://fungi.ensembl.org/index.html EnsemblFungi], [http://www.candidagenome.org CGD], [https://mycocosm.jgi.doe.gov/mycocosm/home MycoCosm], and [https://genome.jgi.doe.gov/portal/ JGI].

We would like to thank the Fungal Pathogen Genomics team for facilitating a successful virtual workshop, and for providing excellent training in web-based data mining resources for all attendees.

SGD Newsletter, Spring 2021

2021-05-27T20:40:29Z

Nash: /* YeastMine Updates and New Templates */

[[Category:Newsletter]]
'''About this newsletter:''' 

This is the Summer 2021 issue of the SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.

==R64.3 Annotation Update==
SGD curators periodically update the chromosomal annotations of the ''S. cerevisiae'' Reference Genome, which is derived from strain [http://www.yeastgenome.org/strain/S288C/overview S288C].

The R64.3 annotation release included various updates and additions:

*7 new ORFs: [https://www.yeastgenome.org/locus/S000303806 OTO1/YGR227C-A], [https://www.yeastgenome.org/locus/S000303807 YHR052C-B], [https://www.yeastgenome.org/locus/S000303808 YHR054C-B], [https://www.yeastgenome.org/locus/S000303810 YJR107C-A], [https://www.yeastgenome.org/locus/S000303811 YKL104W-A], [https://www.yeastgenome.org/locus/S000303812 YLR379W-A], [https://www.yeastgenome.org/locus/S000303813 YMR008C-A]
*5 new ncRNAs: [https://www.yeastgenome.org/locus/S000303802 GAL10-ncRNA], [https://www.yeastgenome.org/locus/S000303803 TBRT/XUT_2F-154], [https://www.yeastgenome.org/locus/S000303809 SUT169], [https://www.yeastgenome.org/locus/S000303814 PHO84 lncRNA], [https://www.yeastgenome.org/locus/S000303815 GAL4 lncRNA]
*2 new uORFs for [https://www.yeastgenome.org/locus/S000003139 ROK1/YGL171W]
*1 new recombination enhancer: [https://www.yeastgenome.org/locus/S000303804 RE]
*1 new LTR: [https://www.yeastgenome.org/locus/S000303805 YELWdelta27]
*3 ORFs with shifted translation starts: [https://www.yeastgenome.org/locus/S000000792 HPA3/YEL066W], [https://www.yeastgenome.org/locus/S000003773 YJR012C], [https://www.yeastgenome.org/locus/S000005204 LTO1/YNL260C]
*1 ORF with shifted translation stop plus new intron: [https://www.yeastgenome.org/locus/S000004755 LDO45/YMR147W]
*Changed feature_type (and SO_term) for non-transcribed spacers: [https://www.yeastgenome.org/locus/S000029714 NTS1-2], [https://www.yeastgenome.org/locus/S000029329 NTS2-1], [https://www.yeastgenome.org/locus/S000029706 NTS2-2]
*New systematic nomenclature system for [https://www.yeastgenome.org/search?q=YNC&category=locus entire annotated complement of ncRNAs]

Various sequence and annotation files are available on SGD's [http://sgd-archive.yeastgenome.org/sequence/S288C_reference/ Downloads] site. You can find more update details and read about the new systematic nomenclature system for noncoding RNA genes on the [https://wiki.yeastgenome.org/index.php/Details_of_2021_Reference_Genome_Annotation_Update_R64.3#R64.3_Annotation_update_summary Details of 2021 Reference Genome Annotation Update R64.3] SGD Wiki page.
 
==New Homology Pages==

SGD is excited to introduce our new Homology Pages! These pages can be accessed by clicking on the Homology tab in the header of SGD gene pages, as seen below.

The information displayed on the Homology Pages is divided into several sections:

*Homologs: Information about known homologs for the gene of interest, such as the species of the homolog, the corresponding Gene ID from the Alliance of Genome Resources, and the name of the homolog.
*Functional Complementation: Data about cross-species functional complementation between yeast and other species, curated by SGD and the Princeton Protein Orthology Database (P-POD).
*Fungal Homologs: Curated homolog information for 24 additional species of fungi. View the species of the fungal homolog, the database source of the entry, and the Gene ID of the homolog from that database.
*External Identifiers: A list of external identifiers for the protein from various database sources.
 
[[File:homology1.png|650px|left|Image: 650 pixels]] [[File:homology2.png|750px|Image: 650 pixels]]
 
==Functional Complementation Data Available on References Pages==
Functional Complementation annotations are now viewable on reference pages for which there is curatable functional complementation data. This information describes cross-species functional complementation between yeast and other species, and is curated by SGD and the [http://ppod.princeton.edu Princeton Protein Orthology Database] (P-POD).

[[File:functional_comp3.png|600px|center|upright=0.8]]
 
==YeastMine Updates and New Templates==
SGD has updated the current [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_UTRs&scope=all Gene-->UTRs] YeastMine template with newly calculated 5' and 3' UTR sequence/coordinates. Additionally, transcript iso-forms for specific genes from the [http://www.yeastgenome.org/reference/S000153368/overview Pelachano et al 2013] study can be accessed in YeastMine using the new [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Transcript&scope=all Gene-->Transcripts] template. Both templates can be found under the "Templates" section of YeastMine under the "Expression" category.
[[File:ym_templates.png|600px|center|upright=0.8|Transcript and UTR YeastMine Templates]]

==Textpresso Central Update==
[[File:textpresso.png|600px|thumb|left|upright=0.8|Textpresso Central homepage]]
[https://textpresso.yeastgenome.org/tpc/home Textpresso] has recently been updated with a new system, adopting an overhauled user interface and introducing several new features including:
*Search results shown in the context of the full text
*Custom corpus creation
*Customizable annotation interface
*Search terms are highlighted in full-text view

Textpresso Central can also be accessed by clicking on "Full-text Search" under the Literature pull-down menu on the home page of SGD. More information about the changes and types of papers stored in Textpresso can be found in their [https://textpresso.yeastgenome.org/tpc/aboutus About Us] help section or (from [https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2103-8 Müller et al]).

 

==Number of Curated Alleles Continues to Grow==
SGD now has approximately '''13,000''' [https://www.yeastgenome.org/search?q=&category=allele alleles] that are either fully or partially curated. To navigate to an allele page, use the search bar to find a specific allele or enter a gene name and select an allele from the autocomplete list. Additionally, these pages can be accessed by clicking on the allele name in a gene’s Phenotype Annotation table. SGD Curators continue to add new alleles or update existing ones as new information becomes available.

You can generate a list of all alleles in our database or find alleles for a specific gene using the [https://yeastmine.yeastgenome.org/yeastmine/template.do?name=Gene_Alleles&scope=all Genes --> Alleles] template in [https://yeastmine.yeastgenome.org/yeastmine/begin.do YeastMine].
 
[[File:allele_page.png|link=https://yeastgenome.org/allele/S000277751|600px|center|upright=.8]]
 

==Alliance of Genome Resources - Disease Associations for model organisms==
Did you know that you can find human disease associations for yeast genes and their orthologs in other key model organisms at the [https://www.alliancegenome.org Alliance of Genome Resources]?

SGD is a founding member of the Alliance of Genome Resources, which was established to facilitate the use of diverse model organisms in understanding the genetic and genomic bases of human biology, health, and disease. [https://www.alliancegenome.org/gene/SGD:S000006344 Gene pages] for yeast and other model organisms at the Alliance include a section for Disease Associations, including those for orthologous genes. Human diseases are represented using the [https://disease-ontology.org Disease Ontology (DO)].

[[File:allianceDiseaseTAZ1.png|850px|center|upright=0.8]]
 

==Fungal Pathogen Genomics Workshop==
[[File:workshop.png|thumb|left|250px]]
From May 10th - 14th, Senior Biocuration Scientist Edith Wong, Senior Biocuration Scientist Rob Nash, Senior Biocuration Scientist Marek Skrzypek, Biocuration Scientist Suzi Aleksander, and Associate Biocuration Scientist Micheal Alexander were instructors for the [https://coursesandconferences.wellcomeconnectingscience.org/event/fungal-pathogen-genomics-virtual-20210510/ Virtual Fungal Pathogen Genomics Workshop] hosted by [https://coursesandconferences.wellcomeconnectingscience.org Wellcome Connecting Science]. Our curators helped attendees learn more about the unique tools hosted on our website and provided them the opportunity to learn about other curation tools from [https://veupathdb.org/veupathdb/app FungiDB], [https://fungi.ensembl.org/index.html EnsemblFungi], [http://www.candidagenome.org CGD], [https://mycocosm.jgi.doe.gov/mycocosm/home MycoCosm], and [https://genome.jgi.doe.gov/portal/ JGI].

We would like to thank the Fungal Pathogen Genomics team for facilitating a successful virtual workshop, and for providing excellent training in web-based data mining resources for all attendees.

Strains

2021-04-14T17:17:04Z

Nash: /* Stock Centers */

=Strain Backgrounds=
*View genotypes and descriptions of [[Commonly_used_strains|commonly used strains]].
*View [http://gbrowse.princeton.edu/cgi-bin/gbrowse/yeast_strains_snps/ SNPs] in S. cerevisiae strains
*Table of [[Commonly_used_auxotrophic_markers|commonly used auxotrophic markers]], with sequence information where known.

=Stock Centers=
*[http://www.atcc.org/ American Type Culture Collection] (ATCC) maintains yeast stocks and clones.

*[http://www.euroscarf.de EUROSCARF], the EUROpean Saccharomyces Cerevisiae ARchive for Functional analysis, maintains a collection of systematic deletion strains [http://cgi.server.uni-frankfurt.de/fb15/rose/index.html searchable] by gene name.

*[http://www.ncyc.co.uk/ National Collection of Yeast Cultures (NCYC)] maintains over 3,100 non-pathogenic yeasts, including type strains, strains of general interest for education and research, strains of industrial importance, and genetically marked strains.

*[http://www.cabri.org/ Common Access to Biological Resources and Information] (CABRI) includes catalogs from European culture collections for yeast and other organisms.

*[http://www.addgene.org Addgene] is a non-profit plasmid repository that distributes many plasmids for yeast research. In particular, Addgene is distributing a collection of [http://www.addgene.org/yeast_gateway Yeast Advanced Gateway Destination Vectors] created by Dr. Susan Lindquist's laboratory.

*[http://yeast.lab.nig.ac.jp/yeast/ Yeast Genetic Resource Center (YGRC)] maintains over 4,800 S. pombe strains and over 9,000 S. cerevisiae strains.

*[http://www.dbvpg.unipg.it/ Industrial Yeasts Collection DBVPG]. The Industrial Yeasts Collection DBVPG, an academic biological resource centre (BRC) specialized in yeasts and yeast-like microorganisms, distributes strains and offers services to the international scientific community and to other private Institutions. DBVPG maintains over 6,000 yeast strains and over 300 yeast-like (Prototheca sp. ) strains.

=Strain Collections=

*[http://clones.invitrogen.com/cloneinfo.php?clone=yeastgfp Yeast-GFP Clone Collection] from Dr. Erin O'Shea and Dr. Jonathan Weissman at UCSF, consisting of C-terminal tagged open reading frames (ORFs). Hosted by [http://www.invitrogen.com/site/us/en/home/brands/Invitrogen.html Invitrogen].

*[http://www.thermoscientificbio.com/non-mammalian-cdna-and-orf/yeast-gst-tagged-orfs/ Yeast GST-Tagged Collection] for inducible overexpression of yeast ORFs, developed in the Andrews lab at the University of Toronto. Hosted by [http://www.thermoscientificbio.com/openbiosystems/?redirect=true Open Biosystems].

*[http://www-sequence.stanford.edu/group/yeast_deletion_project/deletions3.html Yeast Knockout (YKO) Collection] from the [http://www-sequence.stanford.edu/group/yeast_deletion_project/member.html Saccharomyces Genome Deletion Consortium].
**[http://www-sequence.stanford.edu/group/yeast_deletion_project/ykocpadd.html Submit] a comment to the Community Posting page.
**[http://www-sequence.stanford.edu/group/yeast_deletion_project/gb/ykocp.html Read] all comments.

*[http://www.thermoscientificbio.com/non-mammalian-cdna-and-orf/yeast-tap-tagged-orfs/ Yeast-TAP Fusion Library] from Dr. Erin O'Shea and Dr. Jonathan Weissman at UCSF, containing open reading frames (ORFs) tagged with a high-affinity epitope and expressed from their natural chromosomal locations. Hosted by [http://www.thermoscientificbio.com/openbiosystems/?redirect=true Open Biosystems].

*[http://www.openbiosystems.com/GeneExpression/Yeast/Tet-Promoters/ Yeast Tet-promoters Hughes Collection] containing 800 essential yeast genes for which expression is regulated by doxycycline. Hosted by [http://www.openbiosystems.com Open Biosystems].

*The Yeast Transposon Insertion Library Collection, derived by using mini-transposons (mTns) to mutagenize a yeast genomic DNA library, is available from the [http://snyderlab.stanford.edu/ Mike Snyder lab] at Stanford University. Please contact Minyi Shi (minyishi at stanford dot edu) with requests.

Positions in yeast labs

2020-12-08T01:47:31Z

Nash: /* Research Manager - Microbiology and Systems Biology (posted 4 December 2020) */

=='''Research Manager - Microbiology and Systems Biology (posted 4 December 2020)'''==

E. & J. Gallo Winery is currently seeking a highly motivated Research Manager to work in our Winegrowing Research department located in Modesto, California.

'''Job Description:'''
The successful candidate will lead research in the all areas of wine microbiology and fermentation with a focus on the evaluation and genetic improvement of yeast and bacteria performance, optimization of fermentation conditions, and application of emerging technologies and innovative processing techniques to improve wine quality. The Research Manager will work cross-functionally to apply systems biology approaches to address grape and wine research initiatives and will participate in collaborative projects with external research partners, including universities and research institutions.

The successful candidate must have experience in microbiology and molecular biology; preference will be given to candidates with experience in genomics, molecular biology, systems biology, and physiology of the yeast ''Saccharomyces cerevisiae''. Candidates with experience in molecular biology and microbial physiology of other yeasts, fungi, and bacteria are also encouraged to apply for his position.

'''Education and Experience:'''
The preferred candidate will have a Ph.D. in Microbiology, Molecular Biology, Biochemistry, Genetics, Biotechnology or Food Science with 5+ years research experience.

'''To Apply:'''
To apply for this position, click on the link below to upload your [https://career4.successfactors.com/sfcareer/jobreqcareer?jobId=74605&company=Gallo Curriculum Vitae].

If you have any questions about this position, please contact [mailto:Michelle.Samano@ejgallo.com Michelle Samano] from our Talent Acquisition team (209) 281-5992.

=='''PhD project position “Target-based antiplasmodial drug discovery using yeast” - Sunnerhagen lab (posted 13 February 2020)'''==
'''Description:''' We use a target-based strategy based on surrogate genetics in yeast to discover and develop drug candidates directed against proteins from the Plasmodium malaria parasite. Plasmodium genes are cloned into vectors for regulatable expression in yeast. The human protein ortholog is expressed in a parallel yeast strain, and the effects of candidate drugs on growth of yeast strains expressing the parasite or the human protein are compared. The project is a collaboration involving several research groups representing different scientific disciplines, from Sweden and Brazil.

'''Position Overview:''' The successful PhD candidate should have an interest in participating in an interdisciplinary international project. Beside a molecular biology/microbiology background, proficiency in one or more of the following areas is valuable: bioinformatics, genomics, programming, high throughput techniques including robotics, biochemistry, molecular modelling, structural biology, and pharmacy.

'''How to apply:''' This PhD project at the University of Gothenburg, Sweden will soon open for applications. The starting date is flexible but has to be in 2020. We are looking for candidates with an interest in an international collaborative project and having a molecular biology background. Experience from yeast genetics is advantageous. Interested candidates can contact [mailto:per.sunnerhagen@cmb.gu.se Per Sunnerhagen] for more information.

=='''PhD project position in cell polarization and membrane biology - Martin lab (posted 22 August 2019)'''==
'''Description:''' We use a target-based strategy based on surrogate genetics in yeast to discover and develop drug candidates directed against proteins from the Plasmodium malaria parasite previously unexplored as drug targets. Genes encoding conserved proteins likely to perform essential functions, from the Plasmodium malaria parasite, are cloned into vectors for regulatable expression in yeast. The human protein ortholog is expressed in a parallel yeast strain, and the effects of candidate drugs on growth of yeast strains expressing the parasite or the human protein are compared.

'''Position Overview:''' The successful PhD candidate should have an interest in participating in an interdisciplinary international project. Beside a molecular biology/microbiology background, proficiency in one or more of the following areas is valuable: bioinformatics, genomics, programming, high throughput techniques including robotics, biochemistry, molecular modelling, structural biology, and pharmacy.

'''How to apply:''' This PhD project at the University of Gothenburg, Sweden will soon open for applications. The starting date is flexible but has to be in 2020. We are looking for candidates with an interest in an international collaborative project and having a molecular biology background. Experience from yeast genetics is advantageous. Interested candidates can contact [mailto:per.sunnerhagen@cmb.gu.se Per Sunnerhagen] for more information.

=='''Post-doctoral position in cell polarization and membrane biology - Martin lab (posted 22 August 2019)'''==
'''Description:''' The Martin lab at the University of Lausanne, Switzerland, is looking for an outstanding, highly motivated candidate to study the process of cell-cell fusion. Cell-cell fusion is a critical process that underlies fertilization in all eukaryotic cells as well as the formation of many tissues in multicellular organisms. Research projects will aim to understand the mechanisms of cell polarization and membrane reorganization that happens during fusion. Candidates bringing expertise in proteomics, electron microscopy and/or quantitative imaging are particularly welcome to apply.

'''Position Overview:''' The candidate will hold a PhD thesis and a good publication record (at least one first-author publication in a reputable peer-reviewed journal). S/he will be highly motivated to excel in science, curious and open-minded. Strong background in cell and molecular biology is required. Prior research experience on yeast cell biology would be an asset, but is not essential. The lab is located on the joint UNIL-EPFL international research campus in Lausanne, 200m from lake Geneva, and has access to all state-of-the art equipment. Please visit our website for more information on our group, research interests and publications: http://www.unil.ch/martinlab.

'''How to apply:''' Please send your full application including motivation letter, CV, list of publications and the names and email addresses of 2-3 referees to Sophie Martin. The University of Lausanne offers at first a 1-year contract, which can be renewed for up to a maximum of 5 years; salary according to University of Lausanne pay scale.

=='''Postdoctoral Position in Yeast Molecular Biology/Bioinformatics (posted 20 August 2019)'''==
'''Description:''' A NIH-funded postdoctoral position is available in the laboratory of Dr. David Kadosh in the Department of Microbiology, Immunology & Molecular Genetics at the University of Texas Health Science Center at San Antonio. Research will use cutting-edge techniques to study molecular mechanisms that control gene expression, morphology, virulence and virulence-related properties in response to host environmental cues in the yeast ''Candida albicans'', a major human fungal pathogen. For additional details and previous publications, please see [https://wp.uthscsa.edu/mimg/team-member/david-kadosh-ph-d/]. Many opportunities are available for collaboration with both basic and clinical fungal pathogenesis researchers at the large and internationally recognized San Antonio Center for Medical Mycology (see [http://www.sacmm.org/]). The successful applicant will receive equivalent to NIH-level salary and full benefits. Located in south central Texas, near both Austin and the Texas Hill Country, San Antonio is one of the lowest cost-of-living major metropolitan areas in the U.S.

'''Position Overview:''' Highly motivated individuals with previous experience and a strong track record in molecular biology, bioinformatics, genomics, cell biology, genetics, and/or protein chemistry are especially encouraged to apply. Bioinformatics/computational biology experience in any system is strongly preferred but not required. Prior experience in fungal pathogenesis is not necessarily required.

'''How to apply:''' Please send a cover letter outlining your research interests, CV, and contact information for three references to David Kadosh (kadosh@uthscsa.edu). All postdoctoral appointments are designated as security sensitive positions. The University of Texas Health Science Center at San Antonio is an Equal Employment Opportunity/Affirmative Action Employer.

=='''Postdoctoral and technician positions – University of Rochester (posted 18 July 2019)'''==
'''Description:''' A postdoctoral position and a technician position are available immediately in the Elena Rustchenko laboratory in University of Rochester, Rochester, NY, which studies the evolution of echinocandin drug resistance. Studies will focus on mechanisms that are responsible for the increased tolerance to echinocandin drugs subsequently leading to true resistance in Candida albicans.

'''Position Overview:'''Applicants should have a Ph.D. in an area related to molecular and cell biology, biochemistry or microbiology. Experience with C. albicans is preferred. We will also employ an experienced technician.

'''How to apply:''' Please, send a ''cover letter'', a concise ''summary of previous research activities'', a ''complete CV'' and ''contact information for referees'' to Elena Rustchenko, elena_bulgac@urmc.rochester.edu.

=='''PhD and post-doctoral research positions - Prof. Martin Kupiec's lab at [https://mkyeastlab.wixsite.com/mklab Tel Aviv University] (posted 17 July 2019)'''==
'''Description:''' We work with yeast (''S. cerevisiae'' and ''S. pombe'') exploring the role of Elg1 and other proteins in genome stability maintenance and telomere biology. Additional projects include exploring the interphase between DNA replication, chromatin modifications, sister-chromatid cohesion and DNA repair.

'''Position Overview:''' We are seeking highly motivated candidates with expertise in molecular biology and genetics. Experience in yeast genetics is desirable, but not a requirement. Independence, communication and interpersonal skills are valued in order to work in a young, dynamic, diverse, and collaborative environment. We are an international team, and research is carried out in English.

'''How to apply:''' Prospective candidates should submit a ''cover letter'' describing their research experience, scientific interest, career goals, and motivation to apply for this position. Please include an ''updated CV'' and the contact information of ''at least two references''. Questions should be directed to Prof. Martin Kupiec at martin@tauex.tau.ac.il.

=='''Postdoctoral Fellow - Garcia Lab at the University of Oregon (posted 26 April 2019)'''==

'''Department Description:''' The Institute of Molecular Biology (IMB) is a research institute that has 18 labs and approximately 150 employees, including 45 graduate students who train in our labs. We have an administrative structure, which includes accounting, purchasing, personnel, PI support, building management, and three service centers, including genomics and cell characterization, and imaging.

'''Position Overview:''' The Postdoctoral Fellow will carry out studies of eukaryotic epigenetic regulation using mostly genetic, biochemical, and cell biological techniques in yeast and/or mammalian cells. The purpose is to make high-impact discoveries in the field of epigenetics. In particular, work will involve study of prion proteins (non-toxic) and their impact on RNA regulation, as well as how stress affects epigenetic mechanisms in cells. More info is available at [https://www.garcialab.org/ garcialab.org].

'''How to apply:''' Please [mailto:dmgarcia@uoregon.edu email Dr. Garcia]. Include your CV (which includes three professional references) and a brief statement about your research interests (1/2 to 1 page).

Positions in yeast labs

2020-12-05T00:59:08Z

Nash: /* Research Manager - Microbiology and Systems Biology (posted 4 December 2020) */

=='''Research Manager - Microbiology and Systems Biology (posted 4 December 2020)'''==

E. & J. Gallo Winery is currently seeking a highly motivated Research Manager to work in our Winegrowing Research department located in Modesto, California.

'''Job Description:'''
The successful candidate will lead research in the all areas of wine microbiology and fermentation with a focus on the evaluation and genetic improvement of yeast and bacteria performance, optimization of fermentation conditions, and application of emerging technologies and innovative processing techniques to improve wine quality. The Research Manager will work cross-functionally to apply systems biology approaches to address grape and wine research initiatives and will participate in collaborative projects with external research partners, including universities and research institutions.

The successful candidate must have experience in microbiology and molecular biology; preference will be given to candidates with experience in genomics, molecular biology, systems biology, and physiology of the yeast Saccharomyces cerevisiae. Candidates with experience in molecular biology and microbial physiology of other yeasts, fungi, and bacteria are also encouraged to apply for his position.

'''Education and Experience:'''
The preferred candidate will have a Ph.D. in Microbiology, Molecular Biology, Biochemistry, Genetics, Biotechnology or Food Science with 5+ years research experience.

'''To Apply:'''
To apply for this position, click on the link below to upload your [https://career4.successfactors.com/sfcareer/jobreqcareer?jobId=74605&company=Gallo [https://career4.successfactors.com/sfcareer/jobreqcareer?jobId=74605&company=Gallo Curriculum Vitae].

If you have any questions about this position, please contact [mailto:Michelle.Samano@ejgallo.com Michelle Samano] from our Talent Acquisition team (209) 281-5992.

=='''PhD project position “Target-based antiplasmodial drug discovery using yeast” - Sunnerhagen lab (posted 13 February 2020)'''==
'''Description:''' We use a target-based strategy based on surrogate genetics in yeast to discover and develop drug candidates directed against proteins from the Plasmodium malaria parasite. Plasmodium genes are cloned into vectors for regulatable expression in yeast. The human protein ortholog is expressed in a parallel yeast strain, and the effects of candidate drugs on growth of yeast strains expressing the parasite or the human protein are compared. The project is a collaboration involving several research groups representing different scientific disciplines, from Sweden and Brazil.

'''Position Overview:''' The successful PhD candidate should have an interest in participating in an interdisciplinary international project. Beside a molecular biology/microbiology background, proficiency in one or more of the following areas is valuable: bioinformatics, genomics, programming, high throughput techniques including robotics, biochemistry, molecular modelling, structural biology, and pharmacy.

'''How to apply:''' This PhD project at the University of Gothenburg, Sweden will soon open for applications. The starting date is flexible but has to be in 2020. We are looking for candidates with an interest in an international collaborative project and having a molecular biology background. Experience from yeast genetics is advantageous. Interested candidates can contact [mailto:per.sunnerhagen@cmb.gu.se Per Sunnerhagen] for more information.

=='''PhD project position in cell polarization and membrane biology - Martin lab (posted 22 August 2019)'''==
'''Description:''' We use a target-based strategy based on surrogate genetics in yeast to discover and develop drug candidates directed against proteins from the Plasmodium malaria parasite previously unexplored as drug targets. Genes encoding conserved proteins likely to perform essential functions, from the Plasmodium malaria parasite, are cloned into vectors for regulatable expression in yeast. The human protein ortholog is expressed in a parallel yeast strain, and the effects of candidate drugs on growth of yeast strains expressing the parasite or the human protein are compared.

'''Position Overview:''' The successful PhD candidate should have an interest in participating in an interdisciplinary international project. Beside a molecular biology/microbiology background, proficiency in one or more of the following areas is valuable: bioinformatics, genomics, programming, high throughput techniques including robotics, biochemistry, molecular modelling, structural biology, and pharmacy.

'''How to apply:''' This PhD project at the University of Gothenburg, Sweden will soon open for applications. The starting date is flexible but has to be in 2020. We are looking for candidates with an interest in an international collaborative project and having a molecular biology background. Experience from yeast genetics is advantageous. Interested candidates can contact [mailto:per.sunnerhagen@cmb.gu.se Per Sunnerhagen] for more information.

=='''Post-doctoral position in cell polarization and membrane biology - Martin lab (posted 22 August 2019)'''==
'''Description:''' The Martin lab at the University of Lausanne, Switzerland, is looking for an outstanding, highly motivated candidate to study the process of cell-cell fusion. Cell-cell fusion is a critical process that underlies fertilization in all eukaryotic cells as well as the formation of many tissues in multicellular organisms. Research projects will aim to understand the mechanisms of cell polarization and membrane reorganization that happens during fusion. Candidates bringing expertise in proteomics, electron microscopy and/or quantitative imaging are particularly welcome to apply.

'''Position Overview:''' The candidate will hold a PhD thesis and a good publication record (at least one first-author publication in a reputable peer-reviewed journal). S/he will be highly motivated to excel in science, curious and open-minded. Strong background in cell and molecular biology is required. Prior research experience on yeast cell biology would be an asset, but is not essential. The lab is located on the joint UNIL-EPFL international research campus in Lausanne, 200m from lake Geneva, and has access to all state-of-the art equipment. Please visit our website for more information on our group, research interests and publications: http://www.unil.ch/martinlab.

'''How to apply:''' Please send your full application including motivation letter, CV, list of publications and the names and email addresses of 2-3 referees to Sophie Martin. The University of Lausanne offers at first a 1-year contract, which can be renewed for up to a maximum of 5 years; salary according to University of Lausanne pay scale.

=='''Postdoctoral Position in Yeast Molecular Biology/Bioinformatics (posted 20 August 2019)'''==
'''Description:''' A NIH-funded postdoctoral position is available in the laboratory of Dr. David Kadosh in the Department of Microbiology, Immunology & Molecular Genetics at the University of Texas Health Science Center at San Antonio. Research will use cutting-edge techniques to study molecular mechanisms that control gene expression, morphology, virulence and virulence-related properties in response to host environmental cues in the yeast ''Candida albicans'', a major human fungal pathogen. For additional details and previous publications, please see [https://wp.uthscsa.edu/mimg/team-member/david-kadosh-ph-d/]. Many opportunities are available for collaboration with both basic and clinical fungal pathogenesis researchers at the large and internationally recognized San Antonio Center for Medical Mycology (see [http://www.sacmm.org/]). The successful applicant will receive equivalent to NIH-level salary and full benefits. Located in south central Texas, near both Austin and the Texas Hill Country, San Antonio is one of the lowest cost-of-living major metropolitan areas in the U.S.

'''Position Overview:''' Highly motivated individuals with previous experience and a strong track record in molecular biology, bioinformatics, genomics, cell biology, genetics, and/or protein chemistry are especially encouraged to apply. Bioinformatics/computational biology experience in any system is strongly preferred but not required. Prior experience in fungal pathogenesis is not necessarily required.

'''How to apply:''' Please send a cover letter outlining your research interests, CV, and contact information for three references to David Kadosh (kadosh@uthscsa.edu). All postdoctoral appointments are designated as security sensitive positions. The University of Texas Health Science Center at San Antonio is an Equal Employment Opportunity/Affirmative Action Employer.

=='''Postdoctoral and technician positions – University of Rochester (posted 18 July 2019)'''==
'''Description:''' A postdoctoral position and a technician position are available immediately in the Elena Rustchenko laboratory in University of Rochester, Rochester, NY, which studies the evolution of echinocandin drug resistance. Studies will focus on mechanisms that are responsible for the increased tolerance to echinocandin drugs subsequently leading to true resistance in Candida albicans.

'''Position Overview:'''Applicants should have a Ph.D. in an area related to molecular and cell biology, biochemistry or microbiology. Experience with C. albicans is preferred. We will also employ an experienced technician.

'''How to apply:''' Please, send a ''cover letter'', a concise ''summary of previous research activities'', a ''complete CV'' and ''contact information for referees'' to Elena Rustchenko, elena_bulgac@urmc.rochester.edu.

=='''PhD and post-doctoral research positions - Prof. Martin Kupiec's lab at [https://mkyeastlab.wixsite.com/mklab Tel Aviv University] (posted 17 July 2019)'''==
'''Description:''' We work with yeast (''S. cerevisiae'' and ''S. pombe'') exploring the role of Elg1 and other proteins in genome stability maintenance and telomere biology. Additional projects include exploring the interphase between DNA replication, chromatin modifications, sister-chromatid cohesion and DNA repair.

'''Position Overview:''' We are seeking highly motivated candidates with expertise in molecular biology and genetics. Experience in yeast genetics is desirable, but not a requirement. Independence, communication and interpersonal skills are valued in order to work in a young, dynamic, diverse, and collaborative environment. We are an international team, and research is carried out in English.

'''How to apply:''' Prospective candidates should submit a ''cover letter'' describing their research experience, scientific interest, career goals, and motivation to apply for this position. Please include an ''updated CV'' and the contact information of ''at least two references''. Questions should be directed to Prof. Martin Kupiec at martin@tauex.tau.ac.il.

=='''Postdoctoral Fellow - Garcia Lab at the University of Oregon (posted 26 April 2019)'''==

'''Department Description:''' The Institute of Molecular Biology (IMB) is a research institute that has 18 labs and approximately 150 employees, including 45 graduate students who train in our labs. We have an administrative structure, which includes accounting, purchasing, personnel, PI support, building management, and three service centers, including genomics and cell characterization, and imaging.

'''Position Overview:''' The Postdoctoral Fellow will carry out studies of eukaryotic epigenetic regulation using mostly genetic, biochemical, and cell biological techniques in yeast and/or mammalian cells. The purpose is to make high-impact discoveries in the field of epigenetics. In particular, work will involve study of prion proteins (non-toxic) and their impact on RNA regulation, as well as how stress affects epigenetic mechanisms in cells. More info is available at [https://www.garcialab.org/ garcialab.org].

'''How to apply:''' Please [mailto:dmgarcia@uoregon.edu email Dr. Garcia]. Include your CV (which includes three professional references) and a brief statement about your research interests (1/2 to 1 page).

Positions in yeast labs

2020-12-05T00:58:51Z

Nash: /* Manager - Microbiology and Systems Biology (posted 4 December 2020) */

=='''Manager - Microbiology and Systems Biology (posted 4 December 2020)'''==

E. & J. Gallo Winery is currently seeking a highly motivated Research Manager to work in our Winegrowing Research department located in Modesto, California.

'''Job Description:'''
The successful candidate will lead research in the all areas of wine microbiology and fermentation with a focus on the evaluation and genetic improvement of yeast and bacteria performance, optimization of fermentation conditions, and application of emerging technologies and innovative processing techniques to improve wine quality. The Research Manager will work cross-functionally to apply systems biology approaches to address grape and wine research initiatives and will participate in collaborative projects with external research partners, including universities and research institutions.

The successful candidate must have experience in microbiology and molecular biology; preference will be given to candidates with experience in genomics, molecular biology, systems biology, and physiology of the yeast Saccharomyces cerevisiae. Candidates with experience in molecular biology and microbial physiology of other yeasts, fungi, and bacteria are also encouraged to apply for his position.

'''Education and Experience'''
The preferred candidate will have a Ph.D. in Microbiology, Molecular Biology, Biochemistry, Genetics, Biotechnology or Food Science with 5+ years research experience.

'''To Apply'''
To apply for this position, click on the link below to upload your [https://career4.successfactors.com/sfcareer/jobreqcareer?jobId=74605&company=Gallo [https://career4.successfactors.com/sfcareer/jobreqcareer?jobId=74605&company=Gallo Curriculum Vitae].

If you have any questions about this position, please contact [mailto:Michelle.Samano@ejgallo.com Michelle Samano] from our Talent Acquisition team (209) 281-5992.

=='''PhD project position “Target-based antiplasmodial drug discovery using yeast” - Sunnerhagen lab (posted 13 February 2020)'''==
'''Description:''' We use a target-based strategy based on surrogate genetics in yeast to discover and develop drug candidates directed against proteins from the Plasmodium malaria parasite. Plasmodium genes are cloned into vectors for regulatable expression in yeast. The human protein ortholog is expressed in a parallel yeast strain, and the effects of candidate drugs on growth of yeast strains expressing the parasite or the human protein are compared. The project is a collaboration involving several research groups representing different scientific disciplines, from Sweden and Brazil.

'''Position Overview:''' The successful PhD candidate should have an interest in participating in an interdisciplinary international project. Beside a molecular biology/microbiology background, proficiency in one or more of the following areas is valuable: bioinformatics, genomics, programming, high throughput techniques including robotics, biochemistry, molecular modelling, structural biology, and pharmacy.

'''How to apply:''' This PhD project at the University of Gothenburg, Sweden will soon open for applications. The starting date is flexible but has to be in 2020. We are looking for candidates with an interest in an international collaborative project and having a molecular biology background. Experience from yeast genetics is advantageous. Interested candidates can contact [mailto:per.sunnerhagen@cmb.gu.se Per Sunnerhagen] for more information.

=='''PhD project position in cell polarization and membrane biology - Martin lab (posted 22 August 2019)'''==
'''Description:''' We use a target-based strategy based on surrogate genetics in yeast to discover and develop drug candidates directed against proteins from the Plasmodium malaria parasite previously unexplored as drug targets. Genes encoding conserved proteins likely to perform essential functions, from the Plasmodium malaria parasite, are cloned into vectors for regulatable expression in yeast. The human protein ortholog is expressed in a parallel yeast strain, and the effects of candidate drugs on growth of yeast strains expressing the parasite or the human protein are compared.

'''Position Overview:''' The successful PhD candidate should have an interest in participating in an interdisciplinary international project. Beside a molecular biology/microbiology background, proficiency in one or more of the following areas is valuable: bioinformatics, genomics, programming, high throughput techniques including robotics, biochemistry, molecular modelling, structural biology, and pharmacy.

'''How to apply:''' This PhD project at the University of Gothenburg, Sweden will soon open for applications. The starting date is flexible but has to be in 2020. We are looking for candidates with an interest in an international collaborative project and having a molecular biology background. Experience from yeast genetics is advantageous. Interested candidates can contact [mailto:per.sunnerhagen@cmb.gu.se Per Sunnerhagen] for more information.

=='''Post-doctoral position in cell polarization and membrane biology - Martin lab (posted 22 August 2019)'''==
'''Description:''' The Martin lab at the University of Lausanne, Switzerland, is looking for an outstanding, highly motivated candidate to study the process of cell-cell fusion. Cell-cell fusion is a critical process that underlies fertilization in all eukaryotic cells as well as the formation of many tissues in multicellular organisms. Research projects will aim to understand the mechanisms of cell polarization and membrane reorganization that happens during fusion. Candidates bringing expertise in proteomics, electron microscopy and/or quantitative imaging are particularly welcome to apply.

'''Position Overview:''' The candidate will hold a PhD thesis and a good publication record (at least one first-author publication in a reputable peer-reviewed journal). S/he will be highly motivated to excel in science, curious and open-minded. Strong background in cell and molecular biology is required. Prior research experience on yeast cell biology would be an asset, but is not essential. The lab is located on the joint UNIL-EPFL international research campus in Lausanne, 200m from lake Geneva, and has access to all state-of-the art equipment. Please visit our website for more information on our group, research interests and publications: http://www.unil.ch/martinlab.

'''How to apply:''' Please send your full application including motivation letter, CV, list of publications and the names and email addresses of 2-3 referees to Sophie Martin. The University of Lausanne offers at first a 1-year contract, which can be renewed for up to a maximum of 5 years; salary according to University of Lausanne pay scale.

=='''Postdoctoral Position in Yeast Molecular Biology/Bioinformatics (posted 20 August 2019)'''==
'''Description:''' A NIH-funded postdoctoral position is available in the laboratory of Dr. David Kadosh in the Department of Microbiology, Immunology & Molecular Genetics at the University of Texas Health Science Center at San Antonio. Research will use cutting-edge techniques to study molecular mechanisms that control gene expression, morphology, virulence and virulence-related properties in response to host environmental cues in the yeast ''Candida albicans'', a major human fungal pathogen. For additional details and previous publications, please see [https://wp.uthscsa.edu/mimg/team-member/david-kadosh-ph-d/]. Many opportunities are available for collaboration with both basic and clinical fungal pathogenesis researchers at the large and internationally recognized San Antonio Center for Medical Mycology (see [http://www.sacmm.org/]). The successful applicant will receive equivalent to NIH-level salary and full benefits. Located in south central Texas, near both Austin and the Texas Hill Country, San Antonio is one of the lowest cost-of-living major metropolitan areas in the U.S.

'''Position Overview:''' Highly motivated individuals with previous experience and a strong track record in molecular biology, bioinformatics, genomics, cell biology, genetics, and/or protein chemistry are especially encouraged to apply. Bioinformatics/computational biology experience in any system is strongly preferred but not required. Prior experience in fungal pathogenesis is not necessarily required.

'''How to apply:''' Please send a cover letter outlining your research interests, CV, and contact information for three references to David Kadosh (kadosh@uthscsa.edu). All postdoctoral appointments are designated as security sensitive positions. The University of Texas Health Science Center at San Antonio is an Equal Employment Opportunity/Affirmative Action Employer.

=='''Postdoctoral and technician positions – University of Rochester (posted 18 July 2019)'''==
'''Description:''' A postdoctoral position and a technician position are available immediately in the Elena Rustchenko laboratory in University of Rochester, Rochester, NY, which studies the evolution of echinocandin drug resistance. Studies will focus on mechanisms that are responsible for the increased tolerance to echinocandin drugs subsequently leading to true resistance in Candida albicans.

'''Position Overview:'''Applicants should have a Ph.D. in an area related to molecular and cell biology, biochemistry or microbiology. Experience with C. albicans is preferred. We will also employ an experienced technician.

'''How to apply:''' Please, send a ''cover letter'', a concise ''summary of previous research activities'', a ''complete CV'' and ''contact information for referees'' to Elena Rustchenko, elena_bulgac@urmc.rochester.edu.

=='''PhD and post-doctoral research positions - Prof. Martin Kupiec's lab at [https://mkyeastlab.wixsite.com/mklab Tel Aviv University] (posted 17 July 2019)'''==
'''Description:''' We work with yeast (''S. cerevisiae'' and ''S. pombe'') exploring the role of Elg1 and other proteins in genome stability maintenance and telomere biology. Additional projects include exploring the interphase between DNA replication, chromatin modifications, sister-chromatid cohesion and DNA repair.

'''Position Overview:''' We are seeking highly motivated candidates with expertise in molecular biology and genetics. Experience in yeast genetics is desirable, but not a requirement. Independence, communication and interpersonal skills are valued in order to work in a young, dynamic, diverse, and collaborative environment. We are an international team, and research is carried out in English.

'''How to apply:''' Prospective candidates should submit a ''cover letter'' describing their research experience, scientific interest, career goals, and motivation to apply for this position. Please include an ''updated CV'' and the contact information of ''at least two references''. Questions should be directed to Prof. Martin Kupiec at martin@tauex.tau.ac.il.

=='''Postdoctoral Fellow - Garcia Lab at the University of Oregon (posted 26 April 2019)'''==

'''Department Description:''' The Institute of Molecular Biology (IMB) is a research institute that has 18 labs and approximately 150 employees, including 45 graduate students who train in our labs. We have an administrative structure, which includes accounting, purchasing, personnel, PI support, building management, and three service centers, including genomics and cell characterization, and imaging.

'''Position Overview:''' The Postdoctoral Fellow will carry out studies of eukaryotic epigenetic regulation using mostly genetic, biochemical, and cell biological techniques in yeast and/or mammalian cells. The purpose is to make high-impact discoveries in the field of epigenetics. In particular, work will involve study of prion proteins (non-toxic) and their impact on RNA regulation, as well as how stress affects epigenetic mechanisms in cells. More info is available at [https://www.garcialab.org/ garcialab.org].

'''How to apply:''' Please [mailto:dmgarcia@uoregon.edu email Dr. Garcia]. Include your CV (which includes three professional references) and a brief statement about your research interests (1/2 to 1 page).

Positions in yeast labs

2020-12-05T00:55:19Z

Nash:

=='''Manager - Microbiology and Systems Biology (posted 4 December 2020)'''==

E. & J. Gallo Winery is currently seeking a highly motivated Research Manager to work in our Winegrowing Research department located in Modesto, California.

'''Job Description:'''
The successful candidate will lead research in the all areas of wine microbiology and fermentation with a focus on the evaluation and genetic improvement of yeast and bacteria performance, optimization of fermentation conditions, and application of emerging technologies and innovative processing techniques to improve wine quality. The Research Manager will work cross-functionally to apply systems biology approaches to address grape and wine research initiatives and will participate in collaborative projects with external research partners, including universities and research institutions.

The successful candidate must have experience in microbiology and molecular biology; preference will be given to candidates with experience in genomics, molecular biology, systems biology, and physiology of the yeast Saccharomyces cerevisiae. Candidates with experience in molecular biology and microbial physiology of other yeasts, fungi, and bacteria are also encouraged to apply for his position.

'''Education and Experience'''
The preferred candidate will have a Ph.D. in Microbiology, Molecular Biology, Biochemistry, Genetics, Biotechnology or Food Science with 5+ years research experience.

'''To Apply'''
To apply for this position, click on the link below to upload your [https://career4.successfactors.com/sfcareer/jobreqcareer?jobId=74605&company=Gallo Curriculum Vitae].

If you have any questions about this position, please contact [mailto:Michelle.Samano@ejgallo.com Michelle Samano] from our Talent Acquisition team (209) 281-5992.

[https://career4.successfactors.com/sfcareer/jobreqcareer?jobId=74605&company=Gallo Curriculum Vitae].
=='''PhD project position “Target-based antiplasmodial drug discovery using yeast” - Sunnerhagen lab (posted 13 February 2020)'''==
'''Description:''' We use a target-based strategy based on surrogate genetics in yeast to discover and develop drug candidates directed against proteins from the Plasmodium malaria parasite. Plasmodium genes are cloned into vectors for regulatable expression in yeast. The human protein ortholog is expressed in a parallel yeast strain, and the effects of candidate drugs on growth of yeast strains expressing the parasite or the human protein are compared. The project is a collaboration involving several research groups representing different scientific disciplines, from Sweden and Brazil.

'''Position Overview:''' The successful PhD candidate should have an interest in participating in an interdisciplinary international project. Beside a molecular biology/microbiology background, proficiency in one or more of the following areas is valuable: bioinformatics, genomics, programming, high throughput techniques including robotics, biochemistry, molecular modelling, structural biology, and pharmacy.

'''How to apply:''' This PhD project at the University of Gothenburg, Sweden will soon open for applications. The starting date is flexible but has to be in 2020. We are looking for candidates with an interest in an international collaborative project and having a molecular biology background. Experience from yeast genetics is advantageous. Interested candidates can contact [mailto:per.sunnerhagen@cmb.gu.se Per Sunnerhagen] for more information.

=='''PhD project position in cell polarization and membrane biology - Martin lab (posted 22 August 2019)'''==
'''Description:''' We use a target-based strategy based on surrogate genetics in yeast to discover and develop drug candidates directed against proteins from the Plasmodium malaria parasite previously unexplored as drug targets. Genes encoding conserved proteins likely to perform essential functions, from the Plasmodium malaria parasite, are cloned into vectors for regulatable expression in yeast. The human protein ortholog is expressed in a parallel yeast strain, and the effects of candidate drugs on growth of yeast strains expressing the parasite or the human protein are compared.

'''Position Overview:''' The successful PhD candidate should have an interest in participating in an interdisciplinary international project. Beside a molecular biology/microbiology background, proficiency in one or more of the following areas is valuable: bioinformatics, genomics, programming, high throughput techniques including robotics, biochemistry, molecular modelling, structural biology, and pharmacy.

'''How to apply:''' This PhD project at the University of Gothenburg, Sweden will soon open for applications. The starting date is flexible but has to be in 2020. We are looking for candidates with an interest in an international collaborative project and having a molecular biology background. Experience from yeast genetics is advantageous. Interested candidates can contact [mailto:per.sunnerhagen@cmb.gu.se Per Sunnerhagen] for more information.

=='''Post-doctoral position in cell polarization and membrane biology - Martin lab (posted 22 August 2019)'''==
'''Description:''' The Martin lab at the University of Lausanne, Switzerland, is looking for an outstanding, highly motivated candidate to study the process of cell-cell fusion. Cell-cell fusion is a critical process that underlies fertilization in all eukaryotic cells as well as the formation of many tissues in multicellular organisms. Research projects will aim to understand the mechanisms of cell polarization and membrane reorganization that happens during fusion. Candidates bringing expertise in proteomics, electron microscopy and/or quantitative imaging are particularly welcome to apply.

'''Position Overview:''' The candidate will hold a PhD thesis and a good publication record (at least one first-author publication in a reputable peer-reviewed journal). S/he will be highly motivated to excel in science, curious and open-minded. Strong background in cell and molecular biology is required. Prior research experience on yeast cell biology would be an asset, but is not essential. The lab is located on the joint UNIL-EPFL international research campus in Lausanne, 200m from lake Geneva, and has access to all state-of-the art equipment. Please visit our website for more information on our group, research interests and publications: http://www.unil.ch/martinlab.

'''How to apply:''' Please send your full application including motivation letter, CV, list of publications and the names and email addresses of 2-3 referees to Sophie Martin. The University of Lausanne offers at first a 1-year contract, which can be renewed for up to a maximum of 5 years; salary according to University of Lausanne pay scale.

=='''Postdoctoral Position in Yeast Molecular Biology/Bioinformatics (posted 20 August 2019)'''==
'''Description:''' A NIH-funded postdoctoral position is available in the laboratory of Dr. David Kadosh in the Department of Microbiology, Immunology & Molecular Genetics at the University of Texas Health Science Center at San Antonio. Research will use cutting-edge techniques to study molecular mechanisms that control gene expression, morphology, virulence and virulence-related properties in response to host environmental cues in the yeast ''Candida albicans'', a major human fungal pathogen. For additional details and previous publications, please see [https://wp.uthscsa.edu/mimg/team-member/david-kadosh-ph-d/]. Many opportunities are available for collaboration with both basic and clinical fungal pathogenesis researchers at the large and internationally recognized San Antonio Center for Medical Mycology (see [http://www.sacmm.org/]). The successful applicant will receive equivalent to NIH-level salary and full benefits. Located in south central Texas, near both Austin and the Texas Hill Country, San Antonio is one of the lowest cost-of-living major metropolitan areas in the U.S.

'''Position Overview:''' Highly motivated individuals with previous experience and a strong track record in molecular biology, bioinformatics, genomics, cell biology, genetics, and/or protein chemistry are especially encouraged to apply. Bioinformatics/computational biology experience in any system is strongly preferred but not required. Prior experience in fungal pathogenesis is not necessarily required.

'''How to apply:''' Please send a cover letter outlining your research interests, CV, and contact information for three references to David Kadosh (kadosh@uthscsa.edu). All postdoctoral appointments are designated as security sensitive positions. The University of Texas Health Science Center at San Antonio is an Equal Employment Opportunity/Affirmative Action Employer.

=='''Postdoctoral and technician positions – University of Rochester (posted 18 July 2019)'''==
'''Description:''' A postdoctoral position and a technician position are available immediately in the Elena Rustchenko laboratory in University of Rochester, Rochester, NY, which studies the evolution of echinocandin drug resistance. Studies will focus on mechanisms that are responsible for the increased tolerance to echinocandin drugs subsequently leading to true resistance in Candida albicans.

'''Position Overview:'''Applicants should have a Ph.D. in an area related to molecular and cell biology, biochemistry or microbiology. Experience with C. albicans is preferred. We will also employ an experienced technician.

'''How to apply:''' Please, send a ''cover letter'', a concise ''summary of previous research activities'', a ''complete CV'' and ''contact information for referees'' to Elena Rustchenko, elena_bulgac@urmc.rochester.edu.

=='''PhD and post-doctoral research positions - Prof. Martin Kupiec's lab at [https://mkyeastlab.wixsite.com/mklab Tel Aviv University] (posted 17 July 2019)'''==
'''Description:''' We work with yeast (''S. cerevisiae'' and ''S. pombe'') exploring the role of Elg1 and other proteins in genome stability maintenance and telomere biology. Additional projects include exploring the interphase between DNA replication, chromatin modifications, sister-chromatid cohesion and DNA repair.

'''Position Overview:''' We are seeking highly motivated candidates with expertise in molecular biology and genetics. Experience in yeast genetics is desirable, but not a requirement. Independence, communication and interpersonal skills are valued in order to work in a young, dynamic, diverse, and collaborative environment. We are an international team, and research is carried out in English.

'''How to apply:''' Prospective candidates should submit a ''cover letter'' describing their research experience, scientific interest, career goals, and motivation to apply for this position. Please include an ''updated CV'' and the contact information of ''at least two references''. Questions should be directed to Prof. Martin Kupiec at martin@tauex.tau.ac.il.

=='''Postdoctoral Fellow - Garcia Lab at the University of Oregon (posted 26 April 2019)'''==

'''Department Description:''' The Institute of Molecular Biology (IMB) is a research institute that has 18 labs and approximately 150 employees, including 45 graduate students who train in our labs. We have an administrative structure, which includes accounting, purchasing, personnel, PI support, building management, and three service centers, including genomics and cell characterization, and imaging.

'''Position Overview:''' The Postdoctoral Fellow will carry out studies of eukaryotic epigenetic regulation using mostly genetic, biochemical, and cell biological techniques in yeast and/or mammalian cells. The purpose is to make high-impact discoveries in the field of epigenetics. In particular, work will involve study of prion proteins (non-toxic) and their impact on RNA regulation, as well as how stress affects epigenetic mechanisms in cells. More info is available at [https://www.garcialab.org/ garcialab.org].

'''How to apply:''' Please [mailto:dmgarcia@uoregon.edu email Dr. Garcia]. Include your CV (which includes three professional references) and a brief statement about your research interests (1/2 to 1 page).

Methods

2020-11-16T17:25:15Z

Nash:

Software

2020-11-13T18:45:06Z

Nash:

*[[MochiView]] Desktop genome browsing and motif analysis software (with easy import of S. cerevisiae genome/genes/motif libraries)
*[[EGAN]] Downstream/pathway/gene set enrichment/visualization tool for exploring results of -omics experiments
*[[REVIGO]] A Web server that summarizes and visualizes long lists of Gene Ontology terms
*[[Primers-4-Yeast]] Design primers for gene targeting of PCR-based transformation cassettes into S. cerevisiae, and for validation of correct insertion.
*[[MyLabStocks]] Manage molecular biology stocks of your lab (primers, strains, plasmids and more...)
*[[GRSandPRIMED|GRS]]: Retrieve custom sequences from any annotated genome
*[[Yeastriction]] A web based tool to select targets for CRISPR editing of the genome.
*[[Genome Compiler]] is a free all-in-one software platform for DNA design and visualization, data management, lab collaboration and seamless DNA ordering.
*[[YeaZ]] is a Python-based graphical user interface and web application that applies a convolutional neural network, based on a training set, to aid in the visualization of yeast images by segmentation.

Software

2020-11-13T18:39:30Z

Nash:

*[[MochiView]] Desktop genome browsing and motif analysis software (with easy import of S. cerevisiae genome/genes/motif libraries)
*[[EGAN]] Downstream/pathway/gene set enrichment/visualization tool for exploring results of -omics experiments
*[[REVIGO]] A Web server that summarizes and visualizes long lists of Gene Ontology terms
*[[Primers-4-Yeast]] Design primers for gene targeting of PCR-based transformation cassettes into S. cerevisiae, and for validation of correct insertion.
*[[MyLabStocks]] Manage molecular biology stocks of your lab (primers, strains, plasmids and more...)
*[[GRSandPRIMED|GRS]]: Retrieve custom sequences from any annotated genome
*[[Yeastriction]] A web based tool to select targets for CRISPR editing of the genome.
*[[Genome Compiler]] is a free all-in-one software platform for DNA design and visualization, data management, lab collaboration and seamless DNA ordering.
*[[YeaZ]] A convolutional neural network with a training set of yeast images, a graphical user interface and a web application.

YeaZ

2020-11-13T18:38:51Z

Nash:

[https://www.epfl.ch/labs/lpbs/data-and-software/ YeaZ] is a system for efficiently and accurately segmenting microscopy images of yeast cells. It contains a convolutional neural network, with an underlying training set of high-qual|ty segmented yeast images, as well as a graphical user interface and a web application to employ, test, and expand the system.

[[Image:sgdwiki-yeaz-screenshot.png]]

The system contains a Python based application with graphical user interface available on [https://github.com/lpbsscientist/YeaZ-GUI GitHub], as well as standalone apps for both Windows and Mac based computers, and training sets. Additional information is available in the accompanying Nature Communications paper by [https://www.nature.com/articles/s41467-020-19557-4 Dietler et al., 2020]

YeaZ was created at École polytechnique fédérale de Lausanne (EPFL), Lausanne, Switzerland. Please contact [https://www.epfl.ch/labs/lpbs/professor-rahi/ Sahand Jamal Rahi] with questions, or ideas for improvements.

YeaZ

2020-11-13T18:38:22Z

Nash:

[https://www.epfl.ch/labs/lpbs/data-and-software/ YeaZ] is a system for efficiently and accurately segmenting microscopy images of yeast cells. It contains a convolutional neural network, with an underlying training set of high-qual|ty segmented yeast images, as well as a graphical user interface and a web application to employ, test, and expand the system.

[[Image:sgdwiki-yeaz-screenshot.png]]

The system contains a Python based application with graphical user interface available on [https://github.com/lpbsscientist/YeaZ-GUI GitHub], as well as standalone apps for both Windows and Mac based computers, and training sets. Additional information is available in the accompanying Nature Communications paper by [https://www.nature.com/articles/s41467-020-19557-4 Dietler et al., 2020]

YeaZ was created at École polytechnique fédérale de Lausanne (EPFL), Lausanne, Switzerland
Please contact [https://www.epfl.ch/labs/lpbs/professor-rahi/ Sahand Jamal Rahi] with questions, or ideas for improvements.