Difference between revisions of "YKL162C"
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==Community Commentary== | ==Community Commentary== | ||
{{CommentaryHelp}} | {{CommentaryHelp}} | ||
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| + | ==Acids== | ||
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| + | [[UW-Stout/Acids_SP23]] | ||
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| + | [[File:MEL_control_v.s_knockout_-3.jpg]] | ||
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| + | ===Analysis=== | ||
| + | These are the results we gathered from testing a pH of # against the control wild yeast and the gene YKL162C. The three red lines are the growth rates of the BY (wild yeast) mixed with a pH of # and the three blue lines are the three growth rates of the YKL162C knockout gene mixed with a pH of #. All trials demonstrated strong cell growth, the YKL162C gene did grow at a more rapid pace. The average double time of the knockout gene was 19.3 minutes and the average double time of the wild yeast was 13.57 minutes. Overall, all trials showed good cell growth and the knockout surpassed the wild yeast in growth of the 18 hour period. | ||
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| + | ==Caffeine== | ||
| + | [[UW-Stout/Caffeine SP23]] | ||
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| + | [[File:KnockoutControl.jpg|center|thumb|600px]] | ||
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| + | [[File:KnockoutGene3.jpg|center|thumb|600px]] | ||
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| + | '''Analysis''' | ||
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| + | The doubling time for the knockout gene YKL162C at standard conditions was 194 minutes. The doubling time for the knockout gene under the stress of caffeine was 90 minutes. Under the stress of the caffeine there was growth happening. This means that there was a correct amount of caffeine in the concentration to produce growth. In all the concentrations the growth rate increases at around the same rate but around 172 min the different volume of caffeine concentrations change. The 6.8 mL starts to decrease when the amount of yeast declines while the 7.55 mL shows a remained constant around 181 min which correlates with the optical density that rises around 181 min showing that there was a rise in yeast in the well and finally the 8.3 mL shows an increase in optical density around 181 min showing a growth in yeast in the well ending with an unchanged constant growth rate. This means that the higher concentration of 8.3 mL shows a much faster growth rate and produces more yeast in the well. | ||
==Glucose Sensitivity== | ==Glucose Sensitivity== | ||
| − | [https://wiki.yeastgenome.org/index.php/UW-Stout/Glucose_SP23] | + | |
| + | ====Protocol==== | ||
| + | [https://wiki.yeastgenome.org/index.php/UW-Stout/Glucose_SP23] | ||
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===Analysis=== | ===Analysis=== | ||
| − | The | + | |
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| + | The graph displayed above shows the results of a viability assay of a YKL162C knockout strain as compared to BY4735 (wild type) and other knockout strains. This knockout strain was found to have overall more cell death than all other strains assayed. With the YKL162C gene removed nearly all cells died when incubated for 48 hours in 2% Glucose. This indicates a higher sensitivity to glucose than was exemplified in the wild type strain. There appears to be a significant associated death rate in glucose solution for this strain as compared to BY4735. Perhaps, YKL162C is of more biological importance in the BY4735 wild type than previously thought. Further research should consider why this knockout strain had complete glucose-induced apoptosis, as well as higher overall cell death rate, as compared to the other strains tested in this study. | ||
<!-- PLEASE ADD Community Commentary ABOVE THIS MESSAGE. See below for an example of community annotation --> | <!-- PLEASE ADD Community Commentary ABOVE THIS MESSAGE. See below for an example of community annotation --> | ||
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==Heat Shock== | ==Heat Shock== | ||
| + | [[UW-Stout/Heat_shock_SP23]] | ||
{| class="wikitable" | {| class="wikitable" | ||
|+ YKL162 Yeast Colonies at 40 degrees Celsius | |+ YKL162 Yeast Colonies at 40 degrees Celsius | ||
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The general trend of our data yielded a negative relationship between time of heat shock. About half of the yeast cells died off in a matter of 135 seconds at 40 degrees Celsius. The YKL162C yeast were dying off at a faster rate over time compared to the Wild Yeast strain. This means that the gene that was knocked out in the YKL162C yeast could have cause some resistance to heat shock. | The general trend of our data yielded a negative relationship between time of heat shock. About half of the yeast cells died off in a matter of 135 seconds at 40 degrees Celsius. The YKL162C yeast were dying off at a faster rate over time compared to the Wild Yeast strain. This means that the gene that was knocked out in the YKL162C yeast could have cause some resistance to heat shock. | ||
| − | + | ==Bases== | |
| + | [[Image:EMYeast3.jpg]] | ||
| + | |||
| + | '''Analysis''' | ||
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| + | As you can see there was clearly an error with the A11 sample of yeast 3. The other two samples showed less growth than the Wild Type yeast, A1 A2 A3, over the 24 hour time period. This knockout gene likely did not aid in basic pH environmental growth. | ||
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| − | '''Analysis''' | + | Protocol- |
| + | [[UW-Stout/Bases SP23]] | ||
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| + | ==Electrical Shock== | ||
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| + | '''Protocol''' | ||
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| + | [[UW-Stout/Voltage SP23]] | ||
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| + | '''Data''' | ||
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| + | [[Image:31.jpg]] | ||
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| + | [[Image:32.jpg]] | ||
| + | |||
| + | '''Analysis''' | ||
| + | These two pictures are showing how the third knockout strain reacts with either no electrical shock or an electrical shock of 2.5 kV. These were the same experiments but on different days to make sure things looked like each other. This knockout strain acted just the opposite of the second knockout. We see that with the 2.5kV shock that most of the cells have died off. With our second trial we noticed that we had contamination in all of our plates. While our cells did grow so did other things. | ||
==References== | ==References== | ||
Latest revision as of 19:35, 9 May 2023
Share your knowledge...Edit this entry! <protect>
| Systematic name | YKL162C |
| Gene name | |
| Aliases | |
| Feature type | ORF, Uncharacterized |
| Coordinates | Chr XI:148838..147630 |
| Primary SGDID | S000001645 |
Description of YKL162C: Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion[1]
</protect>
Contents
Community Commentary
About Community Commentary. Please share your knowledge!
Acids
Analysis
These are the results we gathered from testing a pH of # against the control wild yeast and the gene YKL162C. The three red lines are the growth rates of the BY (wild yeast) mixed with a pH of # and the three blue lines are the three growth rates of the YKL162C knockout gene mixed with a pH of #. All trials demonstrated strong cell growth, the YKL162C gene did grow at a more rapid pace. The average double time of the knockout gene was 19.3 minutes and the average double time of the wild yeast was 13.57 minutes. Overall, all trials showed good cell growth and the knockout surpassed the wild yeast in growth of the 18 hour period.
Caffeine
Analysis
The doubling time for the knockout gene YKL162C at standard conditions was 194 minutes. The doubling time for the knockout gene under the stress of caffeine was 90 minutes. Under the stress of the caffeine there was growth happening. This means that there was a correct amount of caffeine in the concentration to produce growth. In all the concentrations the growth rate increases at around the same rate but around 172 min the different volume of caffeine concentrations change. The 6.8 mL starts to decrease when the amount of yeast declines while the 7.55 mL shows a remained constant around 181 min which correlates with the optical density that rises around 181 min showing that there was a rise in yeast in the well and finally the 8.3 mL shows an increase in optical density around 181 min showing a growth in yeast in the well ending with an unchanged constant growth rate. This means that the higher concentration of 8.3 mL shows a much faster growth rate and produces more yeast in the well.
Glucose Sensitivity
Protocol
Analysis
The graph displayed above shows the results of a viability assay of a YKL162C knockout strain as compared to BY4735 (wild type) and other knockout strains. This knockout strain was found to have overall more cell death than all other strains assayed. With the YKL162C gene removed nearly all cells died when incubated for 48 hours in 2% Glucose. This indicates a higher sensitivity to glucose than was exemplified in the wild type strain. There appears to be a significant associated death rate in glucose solution for this strain as compared to BY4735. Perhaps, YKL162C is of more biological importance in the BY4735 wild type than previously thought. Further research should consider why this knockout strain had complete glucose-induced apoptosis, as well as higher overall cell death rate, as compared to the other strains tested in this study.
Isopropanol
Analysis
These results were what was expected and all 3 were consistent throughout the trials. Although there was less growth than the control group, it could mean that the cell is more sensitive to the isopropanol with the gene knocked out. In the third trial there was a little bit of spiking towards the end around 15:20-18:00 but other than that it was a good growth curve.
Heat Shock
| Time (sec) | Colonies | |
|---|---|---|
| 0 | 50 | |
| 15 | 41 | |
| 45 | 25 | |
| 75 | 24 | |
| 105 | 13 | |
| 135 | 25 |
| Time (sec) | Colonies | |
|---|---|---|
| 0 | 24 | |
| 15 | 20 | |
| 45 | 17 | |
| 75 | 16 | |
| 105 | 18 | |
| 135 | 14 |
Analysis
The general trend of our data yielded a negative relationship between time of heat shock. About half of the yeast cells died off in a matter of 135 seconds at 40 degrees Celsius. The YKL162C yeast were dying off at a faster rate over time compared to the Wild Yeast strain. This means that the gene that was knocked out in the YKL162C yeast could have cause some resistance to heat shock.
Bases
Analysis
As you can see there was clearly an error with the A11 sample of yeast 3. The other two samples showed less growth than the Wild Type yeast, A1 A2 A3, over the 24 hour time period. This knockout gene likely did not aid in basic pH environmental growth.
Protocol-
UW-Stout/Bases SP23
Electrical Shock
Protocol
Data
Analysis These two pictures are showing how the third knockout strain reacts with either no electrical shock or an electrical shock of 2.5 kV. These were the same experiments but on different days to make sure things looked like each other. This knockout strain acted just the opposite of the second knockout. We see that with the 2.5kV shock that most of the cells have died off. With our second trial we noticed that we had contamination in all of our plates. While our cells did grow so did other things.
References
See Help:References on how to add references
See Help:Categories on how to add the wiki page for this gene to a Category </protect>
