Difference between revisions of "Commonly used auxotrophic markers"
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− | This table describes some commonly used auxotrophic markers (along with some novel useful markers); it is based on a table in [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000041186 Brachmann et al.] (1998) "Designer deletion strains derived from Saccharomyces cerevisiae S288C: a useful set of strains and plasmids for PCR-mediated gene disruption and other applications." Yeast 14:115-132. Please send e-mail to the curators at SGD at sgd-helpdesk@lists.stanford.edu if | + | This table describes some commonly used auxotrophic markers (along with some novel useful markers); it is based on a table in [http://www.yeastgenome.org/cgi-bin/reference/reference.pl?dbid=S000041186 Brachmann et al.] (1998) "Designer deletion strains derived from Saccharomyces cerevisiae S288C: a useful set of strains and plasmids for PCR-mediated gene disruption and other applications." Yeast 14:115-132. Please send e-mail to the curators at SGD at sgd-helpdesk@lists.stanford.edu if you would like to suggest additions or modifications. |
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Revision as of 13:30, 8 March 2012
This table describes some commonly used auxotrophic markers (along with some novel useful markers); it is based on a table in Brachmann et al. (1998) "Designer deletion strains derived from Saccharomyces cerevisiae S288C: a useful set of strains and plasmids for PCR-mediated gene disruption and other applications." Yeast 14:115-132. Please send e-mail to the curators at SGD at sgd-helpdesk@lists.stanford.edu if you would like to suggest additions or modifications.
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Allele | Deleted ORF? | Reverts? | Notes | Molecular Descriptiona | Reference |
---|---|---|---|---|---|
no |
yes |
red colonies |
TGG-to-TGA nonsense change at codon 244; GGA-to-GAA missense change at codon 185 |
||
no |
yes |
ochre mutation |
TTA-to-TTG silent change at codon 9, GAA-to-TAA ochre nonsense change at codon 64, AGA-to-GGA missense change at codon 101, GTT-to-GTC silent change at codon 124, ACG-to-ACA silent change at codon 539 |
Rodney Rothstein, Personal communication to SGD | |
no |
yes |
ochre mutation, red colonies |
G to T transversion at nucleotide 190, changing codon 64 from a Glu to a Stop |
||
no |
no |
red colonies |
frameshift (BglII site filled in at position 592) |
||
no |
yes |
ochre mutation |
AAA-to-TAA ochre nonsense change at codon 47 |
Rodney Rothstein, Personal communication to SGD | |
yes |
no |
Cold sensitive; high frequency of petite formation, especially during transformation. Note that this deletion damages the PET56 promoter. See Zhang et al. (2003) for a discussion of this issue. |
1 kb deletion (-205 to 835) |
||
partial |
no |
187 bp HindIII-HindIII internal deletion (305 to 492) |
|||
no |
no |
double mutant |
G deletion at nucleotide 208, G deletion at nucleotide 319 |
Rodney Rothstein, Personal communication to SGD | |
partial |
no |
EcoRI-ClaI internal deletion (163 to 649, 0.6 kb) |
|||
no |
no |
double mutant |
GTC-to-GTT silent change at codon 56, GTT-to-GCT missense change at codon 69, G insertion at nucleotide 249, G insertion at nucleotide 792, GTT-to-GTC silent change at codon 299, GAC-to-AAC missense change at codon 300 |
Hinnen et al. 1978; Gaber and Culbertson 1982; Meira LB et al., 1995; Rodney Rothstein, Personal communication to SGD | |
no |
yes |
amber mutation |
|||
partial |
no |
XhoI-HpaI internal deletion (1813 to 2864, 1.0 kb) |
|||
yes |
no |
cold sensitiveb, weak galactose inducer (deletes GAL3 UAS), removes ARS1, also called trp1-901 |
1.45 kb deletion, EcoRI-EcoRI (-102 to 1352) |
||
partial |
no |
cold sensitiveb |
0.6 kb deletion, EcoRI-HindIII (-102 to 513) |
||
no |
yes |
amber mutation |
GAG-to-TAG amber nonsense change at codon 83 |
||
no |
yes |
cold sensitiveb |
C to T at residue 403 of the coding sequence, changing residue 135 from glutamine to an amber stop codon |
Brian Green and Joachim Li, unpublished results | |
no |
no |
Ty1 insertion (transcribing left to right) at pos. 121 |
|||
no |
yes |
G to A transition at residue 701 of the coding sequence, changing residue 234 from glycine to glutamate |
Yan Li, Glenn Manthey, and Adam Bailis, unpublished results | ||
edit table |
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The alleles listed below are described in Brachmann et al. 1998.
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Allele | Deleted ORF? | Reverts? | Notes | Molecular Descriptiona | Reference |
---|---|---|---|---|---|
no |
no |
||||
yes |
no |
designer deletion |
|||
yes |
no |
designer deletion |
|||
yes |
no |
designer deletion |
|||
yes |
no |
designer deletion |
|||
edit table |
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aThe sequence coordinates are relative to the first ATG of the selectable marker ORF, in which the A residue is defined as +1.
bAll trp- strains are cold sensitive (Singh and Manney 1974).