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Links from GEO DataSets

Items: 16

1.

Natural variation in yeast reveals multiple paths for acquiring higher stress resistance

(Submitter supplied) Organisms frequently experience environmental stresses that occur in predictable patterns and combinations. For wild Saccharomyces cerevisiae yeast growing in natural environments, cells may experience high osmotic stress when they first enter broken fruit, followed by high ethanol levels during fermentation, and then finally high levels of oxidative stress resulting from respiration of ethanol. Yeast have adapted to these patterns by evolving sophisticated “cross protection” mechanisms, where mild ‘primary’ doses of one stress can enhance tolerance to severe doses of a different ‘secondary’ stress. more...
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21656
119 Samples
Download data: TXT, XLSX
Series
Accession:
GSE248219
ID:
200248219
2.

nup42-delta cells pretreated with NaCl lose the altered gene expression in response to H2O2

(Submitter supplied) BY4741 (S288c haploid) cells have different gene expression in response to 0.4mM H2O2 when pretreated with 0.7M NaCl compared to cells that are not pretreated with NaCl (mock cells). Cells lacking Nup42p do not exhibit a different gene expression in response to H2O2 between naive cells and cells pretreated with 0.7M NaCl
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by array
Platforms:
GPL15778 GPL5915
43 Samples
Download data: FTR, GPR
Series
Accession:
GSE32196
ID:
200032196
3.

eQTL Mapping of the Yeast Ethanol Response

(Submitter supplied) In a previous study, we identified extensive natural variation in the response to acute ethanol treatment in three yeast strains: a lab strain derived from the commonly used S288c (DBY8268), vineyard isolate M22, and oak soil strain YPS163. Many expression differences persisted across several modules of co-regulated genes, implicating trans-acting systemic differences in ethanol sensing and/or response. more...
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by array
Platform:
GPL13254
196 Samples
Download data: FTR, PAIR
Series
Accession:
GSE54196
ID:
200054196
4.

The InsP7 phosphatase Siw14 regulates levels of inositol pyrophosphates and affects activity of general stress transcription factors Msn2 and Msn4

(Submitter supplied) Cells missing the InsP7 phosphatase Siw14 were exposed to osmotic and oxidative stress and the transcriptional response compared to that in a wild-type strain. The data show that the Siw14 delete strain has an elevated stress reponse in log growth conditions, but still mounts a robust response to acute stress.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by array
Platform:
GPL16244
5 Samples
Download data: GPR
Series
Accession:
GSE135546
ID:
200135546
5.

Ethanol stress in yeast

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing; Genome variation profiling by high throughput sequencing
Platform:
GPL19756
16 Samples
Download data: TXT
Series
Accession:
GSE151786
ID:
200151786
6.

Transcriptional profiling by RNA-seq of an evolved hyper-ethanol surviving yeast strain and a wild-type yeast strain at various stress time points

(Submitter supplied) Our evolved hyper-ethanol surviving strain showed more than a 10-fold survival under lethal ethanol stress. To determine the strategies the yeast cells employed to achieve this superior survival, we performed transcriptional profiling by RNA-seq to compare the gene expression states between these two strains. Our study found that the evolved strain reprogrammed its gene expression such that its pre-stress state was shifted towards that of the wild-type strain at 15 minutes post-stress.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19756
10 Samples
Download data: TXT
Series
Accession:
GSE151785
ID:
200151785
7.

Fitness profiling using the yeast deletion library to determine contribution of all non-essential genes to survival under acute exposure to lethal ethanol stress

(Submitter supplied) To determine the contribution of yeast genes to acute lethal ethanol stress, we performed fitness profiling of a pooled haploid yeast deletion library. This deletion library contains 4,500 deletions of most non-essential yeast genes. Comparing the abundance of post-stress gene deletions to pre-stress gene deletions allows for the quantification of the effects of each gene deletion on survival
Organism:
Saccharomyces cerevisiae
Type:
Genome variation profiling by high throughput sequencing
Platform:
GPL19756
6 Samples
Download data: TXT
Series
Accession:
GSE151784
ID:
200151784
8.

Comparison of the transcriptional response to ethanol in laboratory and wild yeast strains

(Submitter supplied) An S288c-derived lab strain of Saccharomyces cerevisiae has lower ethanol resistance than either the vineyard strain M22 or the oak strain YPS163. We performed a 60 minute time-course experiment in the presence of 5% ethanol and compared the transcriptional response to ethanol between strains. We additionally analyzed the time-point of maximal response (30 min.) in wild type cells, YPS163 msn2D, and YPS163 hap1D cells.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by array
Platform:
GPL5915
36 Samples
Download data: GPR
Series
Accession:
GSE22904
ID:
200022904
9.

Identification of Yeast Genes that Confer Resistance to Chitosan Oligosaccharide (COS) Using Chemogenomics

(Submitter supplied) Abstract: Chemogenomic fitness assays were combined with a transcriptome analysis to understand both the mode of action and the mechanisms of resistance to Chitosan oligosaccharides (COS). COS are deacetylated chitin compounds, with antimicrobial properties, that are presumed to act by disrupting the cell membrane. The fitness assays identified 39 yeast deletion strains sensitive to COS and 21 suppressors of COS sensitivity. more...
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by array
Platform:
GPL14716
36 Samples
Download data: XYS
Series
Accession:
GSE32888
ID:
200032888
10.

Expression data from oxidant treated yeast

(Submitter supplied) Yeast transcription factor Yap1 mediates adaptive response against H2O2 and the cystein thiol reactive Michael acceptor, N-ethylmaleimid (NEM) and acrolein. The response against H2O2 was found to be distinct from that against NEM and acrolein. We used microarray experiment to identify two subsets of Yap1-dependent genes that correspond to these two adaptive responses.
Organism:
Saccharomyces cerevisiae; Schizosaccharomyces pombe
Type:
Expression profiling by array
Platform:
GPL2529
16 Samples
Download data: CEL
Series
Accession:
GSE19213
ID:
200019213
11.

Array competitive genomic hybridization of three Saccharomyces cerevisiae strains vs. DBY8268

(Submitter supplied) A six array study using total gDNA recovered from two separate cultures of each of three different strains of Saccharomyces cerevisiae (YB-210 or CRB, Y389 or MUSH, and Y2209 or LEP) and two separate cultures of Saccharomyces cerevisiae DBY8268. Each array measures the hybridization of probes tiled across the Saccharomyces cerevisiae genome.
Organism:
Saccharomyces cerevisiae
Type:
Genome variation profiling by array
Platform:
GPL15778
6 Samples
Download data: FTR
Series
Accession:
GSE56441
ID:
200056441
12.

Comparative Genomic Hybridization of S. cerevisiae industrial and laboratory strains

(Submitter supplied) The environmental stresses and inhibitors encounted by Saccharomyces cerevisiae strains are main limiting factors in bioethanol fermentation. Investigation of the molecular mechanisms underlying the stresses-related phenotypes diversities within and between S. cerevisiae populations could guide the construction of yeast strains with improved stresses tolerance and fermentation performances. Here, we explored the genetic characteristics of the bioethanol S. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome variation profiling by genome tiling array
Platform:
GPL7699
2 Samples
Download data: PAIR
Series
Accession:
GSE31872
ID:
200031872
13.

Transcription profile analysis of S. cerevisiae strains

(Submitter supplied) We report the application of single-molecule-based sequencing technology for transcription profile analysis of S. cerevisiae strains with different genetic background. By combining the whole genome sequence of these strains, we sought to explore the effects of genome mutations on the transcription diversities.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13821
3 Samples
Download data: RPKM
Series
Accession:
GSE31601
ID:
200031601
14.

Natural variation in the consequences of gene overexpression during osmotic stress

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL17342 GPL21656
59 Samples
Download data
Series
Accession:
GSE226248
ID:
200226248
15.

Natural variation in the consequences of gene overexpression during osmotic stress [BAR-Seq]

(Submitter supplied) Free-living cells live in fluctuating environments and must be able to respond rapidly in order to survive. Genetic background can influence how an individual responds to a changing environment, including stressful changes. Changes in gene copy number can influence stress tolerance and responses, presumably due to corresponding changes in gene expression. However, we recently showed that strains vary in their ability to tolerate gene copy number differences; how this influences variation in stress tolerance is relatively unknown. more...
Organism:
Saccharomyces cerevisiae
Type:
Other
Platform:
GPL21656
24 Samples
Download data: TXT
Series
Accession:
GSE226247
ID:
200226247
16.

Natural variation in the consequences of gene overexpression during osmotic stress [RNA-Seq]

(Submitter supplied) We used RNA-Seq to measure transcript abundance in 4 Saccharomyces cerevisiae strains (BY4743, BC187, NCYC3290, and YPS128) from a diverse range of genetic lineages when growing in rich media (YPD) with 0.7M NaCl to characterize differential expression across strains in response to osmotic and ionic stress.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17342
35 Samples
Download data: TXT
Series
Accession:
GSE226246
ID:
200226246
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