Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-seq for two forms of Gcr1, during exponential phase and diauxic shift

ABSTRACT: Gcr1, the most important transcription factor for glycolytic genes in Saccharomyces cerevisiae, was recently revealed to have two isoforms, Gcr1(U) and Gcr1(S), produced from unspliced and spliced transcripts, respectively. We generated strains expressing only Gcr1(U) or Gcr1(S) form using the CRISPR/Cas9 system, and performed RNA-seq for the two strains. Since Gcr1 works as a glycolytic gene transcription factor, we extracted whole RNA at the exponential phase (6 hrs after incubation) and the diauxic shift (12 hrs after incubation).

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE153842 | GEO | 2020/07/07

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

ChIP-seq for two forms of Gcr1, during exponential phase and diauxic shift

Project description:Gcr1, the most important transcription factor for glycolytic genes in Saccharomyces cerevisiae, was recently revealed to have two isoforms, Gcr1(U) and Gcr1(S), produced from unspliced and spliced transcripts, respectively. We generated strains expressing only Gcr1(U) or Gcr1(S) form using the CRISPR/Cas9 system, and added a TAP tag protein to the Gcr1(U) and Gcr1(S), using HIS3MX6 marker system. We conducted ChIP-seq for both strains during the glycolytic phase or after the diauxic shift.

2020-07-07 | GSE153841 | GEO

Response of gcr1 null mutant to glucose

Project description:This experiment was done to detect the transcriptomic defects in the gcr1 null mutant, relative to an isogenic wild type, in the immediate response to glucose. Keywords: time course Both gcr1 mutant and wild type cells were grown in YEP containing 3% pyruvate to early/mid log phase. The 0min sample was taken just prior to glucose addition. After addition of glucose, samples were taken at 20min and 60min. Total RNA was extracted for both strains and expression was measured by competitive hybridization of the mutant and wild type labeled cRNA for each time point.

2010-06-30 | E-GEOD-5575 | biostudies-arrayexpress

Transcriptome response to the deletion of Gcr1, Nup84 or Nup84 & Gcr1 (double deletion)

Project description:This experiment compares the transcriptional response of yeast cells to the deletion of Gcr1, Nup84, or both, to isogenic wild type strains grown in YPD at 23C. The goal was to identify misregulated target genes and analyze the functional classifications of those targets. Keywords: cell type comparison (knock-outs)

2007-08-22 | GSE3853 | GEO

Transcriptome response to gcr1 deletion in raffinose, galactose, and glucose

Project description:This experiment compares transcriptomic response of yeast cells to the deletion of Gcr1 to isogenic wild type strains, grown in YEP(3%)R at 23C. The goal was to identify misregulated target genes and analyze the functional classifications of those targets. Keywords: cell type comparison

2006-11-27 | GSE5027 | GEO

Expression profile of hsp31∆, hsp32∆, hsp33∆ during diauxic shift

Project description:The yeast Hsp31 mini-family proteins (Hsp31, Hsp32, Hsp33, Hsp34) belong to the highly conserved DJ-1 superfamily. The human DJ-1 protein is associated with cancer and neurodegenerative disorders, such as Parkinson’s disease. However, the precise function of human and yeast DJ-1 proteins is unclear. Here we show that the yeast DJ-1 homologs have a role in diauxic-shift, characterized by metabolic reprogramming due to glucose limitation. We find that the Hsp31 genes are strongly induced in diauxic-shift and in stationary phase (SP), and that deletion of these genes reduces chronological lifespan, impairs transcriptional reprogramming at diauxic-shift, and impairs the acquisition of several typical characteristics of SP, including autophagy induction. In addition, under carbon starvation, the HSP31 family gene deletion strains display impaired autophagy, disrupted TORC1 localization to P-bodies, and caused abnormal TORC1-mediated Atg13 phosphorylation. Repression of TORC1 by rapamycin in the gene deletion strains completely reversed their sensitivity to heat shock. Altogether, our data indicate that Hsp31 mini-family is required for diauxic-shift reprogramming and cell survival in SP, and plays a role upstream of TORC1. The enhanced understanding of the cellular function of these genes sheds light into the biological role of other members of the superfamily, including DJ-1, which is an attractive target for therapeutic intervention in cancer and in Parkinson’s disease. hsp31∆, hsp32∆, hsp33∆ are compared with its parental strain BY4741. We used One-Color Microarray-Based Gene Expression Analysis Low Input Quick Amp Labeling from Agilent.

2014-03-25 | GSE56124 | GEO

Effect of Tup1, Xbp1, Isw2, and Sds3 on transcription in diauxic shift and stationary phase.

Project description:To investigate the effect of Tup1, Xbp1, Isw2, and Sds3 on transcription we generated knockout strains and measured their transcript abundance compared to wild type during diauxic shift and stationary phase.

2022-08-17 | GSE210930 | GEO

Response of gcr1 null mutant to glucose

2006-11-27 | GSE5575 | GEO

Analyses the expression profile of hsp31∆, hsp32∆, hsp33∆ during diauxic shift

2014-03-25 | E-GEOD-56124 | biostudies-arrayexpress

ChIP-seq and RNA-seq for two forms of Gcr1, during exponential phase and diauxic shift

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-07-07 | GSE153843 | GEO

Tup1 binding during log phase, diauxic shift, and stationary phase.

Project description:To determine where Tup1 binds to chromatin during log phase, diauxic shift and stationary phase, we performed ChIP-seq.

2022-08-17 | GSE210932 | GEO