Ontology highlight
ABSTRACT:
PROVIDER: PRJNA664980 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR12692374_1.fastq.gz | Fastqsanger.gz | |||
| SRR12692374_2.fastq.gz | Fastqsanger.gz | |||
| SRR12692375_1.fastq.gz | Fastqsanger.gz | |||
| SRR12692375_2.fastq.gz | Fastqsanger.gz | |||
| SRR12692376_1.fastq.gz | Fastqsanger.gz |
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Project description:A population of Saccharomyces cerevisiae was cultured for approximately 450 generations in the presence of high glucose to select for genetic variants. This experiment allows for a controlled model of adaptive evolution under natural selection. Using the parental strain BY4741 as the starting population, an evolved culture was obtained after continuous aerobic growth in a glucose-high medium for approximately 450 generations. After the evolution period three single colony isolates were selected for analysis. Next-generation Ion Torrent sequencing was used to evaluate genetic changes. Greater than 100 deletion/insertion changes were found with approximately half of these effecting genes. Additionally, over 180 single-nucleotide polymorphisms (SNPs) were identified with more than one quarter of these resulting in a non-synonymous mutation. Affymetrix DNA microarrays and RNseq analysis were used to determine differences in gene expression in the evolved strains compared to the parental strain. It was established that approximately 900 genes demonstrated significantly altered expression in the evolved strains relative to the parental strain. Many of these genes showed similar alterations in their expression in all three evolved strains. Interestingly, genes with altered expression in the three evolved strains included genes with a role in the TCA cycle. Overall these results are consistent with the physiological observations of decreased ethanol production and suggest that the underlying metabolism switched from fermentation to respiration during aerobic growth. Yeast strains were grown in the presence of high glucose for approximately 450 generations. Individual isolates were then grown and total RNA was collected to compare difference between the evolved strains and the parental strain.
2012-07-10 | E-GEOD-36518 | biostudies-arrayexpress
Project description:A population of Saccharomyces cerevisiae was cultured for approximately 450 generations in the presence of high glucose to select for genetic variants. This experiment allows for a controlled model of adaptive evolution under natural selection. Using the parental strain BY4741 as the starting population, an evolved culture was obtained after continuous aerobic growth in a glucose-high medium for approximately 450 generations. After the evolution period three single colony isolates were selected for analysis. Next-generation Ion Torrent sequencing was used to evaluate genetic changes. Greater than 100 deletion/insertion changes were found with approximately half of these effecting genes. Additionally, over 180 single-nucleotide polymorphisms (SNPs) were identified with more than one quarter of these resulting in a non-synonymous mutation. Affymetrix DNA microarrays and RNseq analysis were used to determine differences in gene expression in the evolved strains compared to the parental strain. It was established that approximately 900 genes demonstrated significantly altered expression in the evolved strains relative to the parental strain. Many of these genes showed similar alterations in their expression in all three evolved strains. Interestingly, genes with altered expression in the three evolved strains included genes with a role in the TCA cycle. Overall these results are consistent with the physiological observations of decreased ethanol production and suggest that the underlying metabolism switched from fermentation to respiration during aerobic growth.
2012-07-11 | GSE36518 | GEO
Project description:We have employed whole genome microarray expression profiling as a discovery platform to identify genes implicated in the resistance to cobalt in Saccharomyces cerevisiae. The evolved strains and the wild type were harvested in exponential phase
2012-08-01 | GSE39185 | GEO
Project description:We have employed whole genome microarray expression profiling as a discovery platform to identify genes implicated in the resistance to cobalt in Saccharomyces cerevisiae. The evolved strains and the wild type were harvested in exponential phase WT (CEN.PK), the evolved strain (CI25E) and the evolved strain delta Cot1 harvested in exponential phase (DO 600nm=3) ; three independant replicate for each.
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Project description:Comparative genomic hybridization experiments comparing DNA from experimentally evolved yeast strains to DNA from a euploid control.
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Project description:We conducted whole genome sequencing on eight evolved E. coli strains (S1–S8) and the parental wild-type (WT) strain to identify mutations arising from ofloxacin treatments. These strains (S1-S8), generated through fluoroquinolone-mediated adaptive laboratory evolution (ALE), exhibited varying levels of tolerance and resistance. The ALE experiment involved intermittent antibiotic treatments of eight independent cultures over 22 days. The untreated WT strain served as a baseline to pinpoint mutations in the evolved strains.
2024-12-23 | E-MTAB-14682 | biostudies-arrayexpress
Project description:Sequencing of mononucleosomal DNA during G1 and S phases in Saccharomyces cerevisiae Samples from mononucleosomal DNA from WT and rpd3 mutant strains (W303-1a background) in G1 or in S phase in the presence of 0.2 M HU were sequenced (Illumina Genome Analyzer IIx) using the single-end read protocol
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Project description:Genome sequence project of laboratory evolved Saccharomyces cerevisiae strains
| PRJDB4375 | ENA
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2021-07-06 | GSE179391 | GEO