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Comparison of gene regulation by Gcn5 under KCl stress in S. cerevisiae and S. pombe

ABSTRACT: Comparison of gene regulation by Gcn5 under KCl stress in S. cerevisiae and S. pombe

PROVIDER: PRJNA122641 | ENA |

REPOSITORIES: ENA

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Comparison of gene regulation by Gcn5 under KCl stress in S. cerevisiae and S. pombe

2010-01-01 | GSE5218 | GEO

Comparison of gene regulation by Gcn5 under KCl stress in S. cerevisiae and S. pombe

Project description:This is parallel comparison of gene regulation by Gcn5 in evolutionarily divergent yeasts S. pombe and S. cerevisiae. Our study showed Gcn5 is required for a similar spectrum of stress responses in both organisms, including the response to KCl. This DNA microarray studies is to find conserved or diverged gene regulation pattern under KCl stress condition in the two yeasts. There are 6 subsets in total, 3 subsets in each evolutionarily divergent yeasts including the following: 1 gcn5 mutant compared to wt under rich medium without treatment, 2 gcn5 mutant compared to wild type both under KCl treatment, 3 wild type strains under KCl treatment compared to wild type without treatment. Keywords: stress response, Gcn5, Comparative genomics, Transcriptional co-activator Gene expression profiling experiment in which gene expression in logarithmically growing cultures of test groups was compared to that of the control groups in rich medium at 25C. There are 6 subsets in total, 3 subsets in each yeast including the following: 1 gcn5 mutant compared to wt under rich medium without treatment, 2 gcn5 mutant compared to wild type both under KCl treatment, 3 wild type strains under KCl treatment compared to wild type without treatment. RNA was extracted and subjected to cDNA expression profiling analysis using the established protocols (Xue et al, 2004). Independent RNA preparations were used to hybridize to microarray slides with dye swap. Data normalized with 'Lowess' per chip per spot normalization.

2010-06-24 | E-GEOD-5218 | biostudies-arrayexpress

Genome-wide localization of Gcn5 under normal and stress conditions in S. cerevisiae and S. pombe

Project description:Here we studied genome-wide localization of Gcn5 under normal and KCl stress conditions in both yeast species. We found that in Saccharomyces cerevisiae, the enrichment of Gcn5 on genes changes from a relatively even distribution between coding region and intergenic region in the absence of stress, to a predominant localization in gene coding regions under stress conditions. This altered pattern changes are at global level indicates an important role of Gcn5 in modifying chromatin structure for stress adaptation in S. cerevisiae. The altered pattern changes are not observed in Saccharomyces pombe suggesting the different regulatory mechinery between two yeast speices. The related data series is GSE5218, where we have compared the gene regulation of Gcn5 at expression level in S. cerevisiae and S. pombe.

2010-03-01 | GSE16514 | GEO

Stress-specific role of the fission yeast Gcn5 acetylatransferase in programming a subset of stress-response genes

Project description:We have found Gcn5 is specifically requried for KCl and CaCl2 mediated stress in Schizosaccharomyces Pombe. We have charaterised the genome wide gene expression responses to KCl stress and show the Gcn5 in involved in the regulation of sebset of stress response genes. Keywords: stress response

2006-07-06 | GSE5227 | GEO

S. pombe acetyltransferase mutants identifies redundant pathways of gene regulation, dual-channel dataset

Project description:Analysis of histone acetyl transferases (HATs) from the MYST and GNAT families in S. pombe to identify functional differences or overlap with regard to gene expression. Mutations were made to Elp3 and Gcn5 (GNAT family), and to Mst2 (MYST family). Mutants showed distinct phenotypes which were repressed or enhanced by mutant combinations. Mutations were made to Gcn5 (GNAT family), and to Mst2 (MYST family) in S. pombe. A treatment of 1M KCl was applied for 60min to some samples. RNA was extracted from the various mutants and hybridized on Eurogentec arrays.

2009-09-19 | E-GEOD-17259 | biostudies-arrayexpress

Deletion of Clr3 restores expression of a subset of genes in gcn5- mutant cells

Project description:Histone acetylation and deacetylation is important for gene regulation. The histone acetyltransferase, Gcn5, is a known activator of transcriptional initiation that is recruited to gene promoters. Here we map genome-wide levels of Gcn5 occupancy and histone H3K14ac at high resolution. Gcn5 is predominantly localized to coding regions of highly transcribed genes where it antagonistically collaborates with the class II histone deacetylase, Clr3, to regulate histone H3K14ac levels. Regulation of histone H3k14ac levels is critical for regulation of many genes during stress adaptation. Our findings suggest a novel role for Gcn5 during transcriptional elongation in addition to its known role in transcriptional initiation. The related data for this are GSE13790 and GSE5227 Data showed expression pattern of gcn5- vs gcn5-clr3- and clr3- vs wild type under KCl stress in S. pombe. Two biological replicates are used with dye-swap labeling.

2010-06-24 | E-GEOD-13817 | biostudies-arrayexpress

Genome-wide localization of Gcn5 under normal and stress conditions in S. cerevisiae and S. pombe

Project description:Genome-wide localization of Gcn5 under normal and stress conditions in S. cerevisiae and S. pombe

| PRJNA122913 | ENA

Transcription profiling of fission yeast SAGA mutants shows that the SAGA complex controls the switch from proliferation to sexual differentiation through the opposing roles of its subunits Gcn5 and Spt8

Project description:The SAGA complex is a conserved multifunctional coactivator known to play broad roles in eukaryotic transcription. To gain new insights into its functions, we have performed biochemical and genetic analyses of SAGA in the fission yeast, Schizosaccharomyces pombe. Purification of the S. pombe SAGA complex showed that its subunit composition is identical to that of Saccharomyces cerevisiae. Analysis of S. pombe SAGA mutants revealed that SAGA has two opposing roles regulating sexual differentiation. First, in nutrient rich conditions, the SAGA histone acetyltransferase, Gcn5, represses ste11+, which encodes the master regulator of the mating pathway. In contrast, the SAGA subunit Spt8 is required for the induction of ste11+ upon nutrient starvation. Chromatin immunoprecipitation experiments suggest that these regulatory effects are direct, as SAGA is physically associated with the ste11+ promoter independent of nutrient levels. Genetic tests suggest that nutrient levels do cause a switch in SAGA function, as spt8? suppresses gcn5? with respect to ste11+ derepression in rich medium, whereas the opposite relationship, gcn5? suppression of spt8?, occurs during starvation. Thus, SAGA plays distinct roles in the control of the switch from proliferation to differentiation in S. pombe through the dynamic and opposing activities of Gcn5 and Spt8.

2008-11-19 | E-MTAB-53 | biostudies-arrayexpress

Transcription profiling of S. pombe acetyltransferase mutants identifies redundant pathways of gene regulation, Affymetrix dataset

Project description:Analysis of histone acetyl transferases (HATs) from the MYST and GNAT families in S. pombe to identify functional differences or overlap with regard to gene expression. Mutations were made to Elp3 and Gcn5 (GNAT family), and to Mst2 (MYST family). Mutants showed distinct phenotypes which were repressed or enhanced by mutant combinations. Experiment Overall Design: Mutations were made to Elp3 and Gcn5 (GNAT family), and to Mst2 (MYST family) in S. pombe. RNA was extracted from the various mutants and hybridized on Affymetrix arrays.

2009-09-25 | E-GEOD-17262 | biostudies-arrayexpress

Comparison of simple mutants gcn5 and hd1 and double mutant gcn5 hd1.

Project description:rs05-09_histone-acetylase - gcn5 - Different genes show an opposed expression profile in gcn5 compared to hd1. For these genes, the double mutant might show an expression similar to the wild type. - gcn5, hd1 or double mutant gcn5hd1 were grown on MS during 10 days (1.03 boyes stage). Keywords: gene knock out

2009-04-11 | GSE15560 | GEO

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