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A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Schizosaccharomyces pombe

PROVIDER: GSE123633 | GEO | 2018/12/12

REPOSITORIES: GEO

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A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe.

Project description:BackgroundOptimal glucose metabolism is central to the growth and development of cells. In microbial eukaryotes, carbon catabolite repression (CCR) mediates the preferential utilization of glucose, primarily by repressing alternate carbon source utilization. In fission yeast, CCR is mediated by transcriptional repressors Scr1 and the Tup/Ssn6 complex, with the Rst2 transcription factor important for activation of gluconeogenesis and sexual differentiation genes upon derepression. Through genetic and genome-wide methods, this study aimed to comprehensively characterize CCR in fission yeast by identifying the genes and biological processes that are regulated by Scr1, Tup/Ssn6 and Rst2, the core CCR machinery.ResultsThe transcriptional response of fission yeast to glucose-sufficient or glucose-deficient growth conditions in wild type and CCR mutant cells was determined by RNA-seq and ChIP-seq. Scr1 was found to regulate genes involved in carbon metabolism, hexose uptake, gluconeogenesis and the TCA cycle. Surprisingly, a role for Scr1 in the suppression of sexual differentiation was also identified, as homothallic scr1 deletion mutants showed ectopic meiosis in carbon and nitrogen rich conditions. ChIP-seq characterised the targets of Tup/Ssn6 and Rst2 identifying regulatory roles within and independent of CCR. Finally, a subset of genes bound by all three factors was identified, implying that regulation of certain loci may be modulated in a competitive fashion between the Scr1, Tup/Ssn6 repressors and the Rst2 activator.ConclusionsBy identifying the genes directly and indirectly regulated by Scr1, Tup/Ssn6 and Rst2, this study comprehensively defined the gene regulatory networks of CCR in fission yeast and revealed the transcriptional complexities governing this system.

| S-EPMC6440086 | biostudies-literature

A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe [ChIP-seq]

Project description:Optimal glucose metabolism is central to the growth and development of cells. In microbial eukaryotes, carbon catabolite repression (CCR) mediates the preferential utilization of glucose, primarily by repressing alternate carbon source utilization. In fission yeast, CCR is mediated by transcriptional repressors Scr1 and the Tup/Ssn6 complex, with the Rst2 transcription factor important for activation of gluconeogenesis and sexual differentiation genes upon derepression. Through genetic and genome-wide methods, this study aimed to comprehensively characterize CCR in fission yeast by identifying the genes and biological processes that are regulated by Scr1, Tup/Ssn6 and Rst2, the core CCR machinery. The transcriptional response of S. pombe to glucose-sufficient or glucose-deficient growth conditions in wild type and CCR mutant cells was determined by RNA-seq and ChIP-seq. Scr1 was found to regulate genes involved in carbon metabolism, hexose uptake, gluconeogenesis and the TCA cycle. Surprisingly, a role for Scr1 in the suppression of sexual differentiation was also identified, as homothallic scr1 deletion mutants showed ectopic meiosis in carbon and nitrogen rich conditions. ChIP-seq characterised the targets of Tup/Ssn6 and Rst2 identifying regulatory roles within and independent of CCR. Finally, a subset of genes bound by all three factors was identified, implying that regulation of certain loci may be modulated in a competitive fashion between the Scr1, Tup/Ssn6 repressors and the Rst2 activator. By identifying the genes directly and indirectly regulated by Scr1, Tup/Ssn6 and Rst2, this study comprehensively defined the gene regulatory networks of CCR in fission yeast and revealed the transcriptional complexities which govern this system.

2018-12-12 | GSE123614 | GEO

A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe [RNA-seq]

2018-12-12 | GSE123617 | GEO

Genome-Wide Characterization of the Phosphate Starvation Response in Schizosaccharomyces pombe

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-01-02 | E-GEOD-39499 | biostudies-arrayexpress

A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe

Project description:A genome-wide analysis of carbon catabolite repression in Schizosaccharomyces pombe

| PRJNA509428 | ENA

Genome-Wide Characterization of the Phosphate Starvation Response in Schizosaccharomyces pombe

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

2013-01-02 | GSE39499 | GEO

RNAi mediates post-transcriptional repression of gene expression in fission yeast Schizosaccharomyces pombe

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-01-23 | E-GEOD-54195 | biostudies-arrayexpress

Genome-wide chromosomal associationof Upf1 is linked toPol II transcriptionin Schizosaccharomyces pombe

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

2021-03-24 | GSE169425 | GEO

RNAi mediates post-transcriptional repression of gene expression in fission yeast Schizosaccharomyces pombe

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

2014-01-23 | GSE54195 | GEO

Centromere repositioning in Schizosaccharomyces pombe

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

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