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

ABSTRACT: 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.

ORGANISM(S): Schizosaccharomyces pombe

SUBMITTER: Susan Forsburg

PROVIDER: E-GEOD-17262 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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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.

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

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

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Expression profiling of S. pombe acetyltransferase mutants identifies redundant pathways of gene regulation

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. This SuperSeries is composed of the following subset Series: GSE17259: S. pombe acetyltransferase mutants identifies redundant pathways of gene regulation, dual-channel dataset GSE17262: S. pombe acetyltransferase mutants identifies redundant pathways of gene regulation, Affymetrix dataset Refer to individual Series

2009-09-19 | E-GEOD-17298 | biostudies-arrayexpress

Genome-wide relationships between TAF1 and histone acetyltransferases in S. cerevisiae - chIP-chip study

Project description:Evidence suggests that the TAF1 subunit of TFIID is a histone acetyltransferase (HAT) that is functionally redundant with the Gcn5 HAT of the SAGA and ADA complexes. Here we test a number of predictions of this hypothesis by examining the in vivo histone acetylation targets of TAF1 and Gcn5, and re-examining the basis for the reported genome-wide functional redundancy between TAF1 and Gcn5. Our findings do not support a number of basic tenets of the hypothesis, thus bringing into question the physiological presence of any TAF1 HAT function in yeast. We have also conducted genome-wide expression profiles of numerous other HATs (Elp3, Hat1, Hpa2, Sas3) in an effort identify potential functional redundancy between TAF1 and other HATs, and find none. Further investigation of TAF1 and the Esa1 HAT re-affirm a link between histone H4 acetylation by Esa1, and TFIID binding via interactions with acetylated histone H4-binding protein Bdf1. Keywords: ChIP-chip, genetic modification

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The effect of γ-butyrolactone (MB3) treatment on the transcript response after wounding of Arabidopsis thaliana roots

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Nucleosome eviction in mitosis assists condensin loading and chromosome condensation

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PCAF/GCN5-regulated genes in MEFs

Project description:Histone acetyltransferases (HATs) GCN5/PCAF and CBP/p300 are transcription coactivators. However, how these HATs regulate ligand-induced nuclear receptor target gene expression remains unclear. Here we show in mouse embryonic fibroblasts (MEFs), deletion of GCN5/PCAF specifically eliminates acetylation on H3K9 (H3K9Ac) while deletion of CBP/p300 selectively reduces acetylation on H3K18 and H3K27 (H3K18/27Ac). Treating MEFs with a specific ligand for nuclear receptor PPARdelta induces sequential increases of H3K18/27Ac and H3K9Ac on the promoter of PPARdelta target gene Angptl4, which correlates with a robust ligand-induced Angptl4 expression. Inhibiting transcription elongation blocks ligand-induced H3K9Ac but not H3K18/27Ac on Angptl4 promoter. Finally, we show CBP/p300 and their HAT activities are required, while GCN5/PCAF and H3K9Ac are dispensable, for ligand-induced PPARdelta target gene expression in MEFs. These results highlight the substrate and site specificities of HATs in cells, and suggest that GCN5/PCAF- and CBP/p300-mediated histone acetylations play distinct roles in regulating ligand-induced nuclear receptor target gene expression. PCAF and GCN5 have some redundant function. To identify PCAF/GCN5-regulated genes, immortalized MEFs with PCAF knockout and GCN5 conditional knockout were infected with retroviruses expressing either Cre recombinase or vector alone. We prepared duplicated RNAs from either vector or Cre infected cells (PCAF-/-;GCN5+/- or PCAF-/-;GCN5+/-) and RNAs from either Vector or Cre infected the other independently immortalized cells for 6 affymetrix microarray.

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