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E-GEOD-21852 - Environment-responsive transcription factors bind proto-silencer elements and regulate subtelomeric silencing

Status
Released on 2 May 2011, last updated on 2 May 2014
Organism
Saccharomyces cerevisiae
Samples (12)
Array (1)
Protocols (8)
Description
Subtelomeric chromatin is subject to evolutionarily conserved complex epigenetic regulation and is implicated in numerous aspects of cellular function including formation of heterochromatin, regulation of different stress response pathways, and control of lifespan. Subtelomeric DNA is characterized by the presence of specific repeated segments that serve to propagate silencing activities or to protect chromosomal regions from spreading epigenetic control. Using condition-specific genome wide chromatin immunoprecipitation and expression data, we show that several yeast transcription factors regulate subtelomeric silencing in response to various environmental stimuli through conditional association with proto-silencing regions called X elements. In this context, some factors control the propagation of silencing toward centromeres in response to stimuli affecting stress responses and metabolism, whereas others appear to influence boundaries of silencing, regulating telomere-proximal genes in Y’ elements. The factors implicated here have previously been shown to control adjacent genes at intrachromosomal positions, suggesting dual functionality of the factors and a possible mechanism of coordinating intrachromosomal gene expression with subtelomeric silencing. These data suggest a fundamental mechanism to coordinate telomere biology related to aging and adaptation with cellular environment and the activities of other cellular processes. These are Chip-CHIP data for myc tagged Oaf1p transcription factor from S. cerevisiae grown in the presence or absence of the fatty acid oleate. ChIP-CHIP analysis was performed to determine the genomic distribution of Oaf1p transcription factor in the BY4742 yeast strain after growth in 0.1% glucose, or in the presence of the fatty acid oleate. Three biological replicates for each growth condition (in the presence of low glucose or 5 h after a shift to medium containing oleate as a carbon source). ChIP samples were amplified by PCR, labelled and hybridized to 50-mer tiling arrays covering both strands of the entire yeast genome at a 64 bp resolution.
Experiment type
ChIP-chip by tiling array 
Contacts
Jennifer Joy Smith <jsmith@systemsbiology.org>, Jennifer J Smith, John D Aitchison, Laura Vazquez, Leslie Miller, Yakun Wan
Citation
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-21852.idf.txt
Sample and data relationshipE-GEOD-21852.sdrf.txt
Raw data (1)E-GEOD-21852.raw.1.zip
Processed data (1)E-GEOD-21852.processed.1.zip
Array designA-GEOD-5683.adf.txt
Links