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Series GSE5948 Query DataSets for GSE5948
Status Public on Nov 30, 2006
Title A chromatin-mediated mechanism for specification of conditional transcription factor targets
Organism Saccharomyces cerevisiae
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary Organisms respond to changes in their environment, and many such responses are initiated at the level of gene transcription. Here, we provide evidence for a previously undiscovered mechanism for directing transcriptional regulators to new binding targets in response to an environmental change. We show that Rap1, a master regulator of yeast metabolism, binds to an expanded target set upon nutrient depletion despite decreasing protein levels and no evidence of posttranslational modification. Computational analysis predicted that proteins capable of recruiting the chromatin regulator Tup1 acted to restrict the binding distribution of Rap1 in the presence of nutrients. Deletions of TUP1, genes that encode recruiters of Tup1, or chromatin regulators recruited by Tup1, cause Rap1 to bind specifically and inappropriately to low-nutrient targets. These data, combined with whole-genome measurements of nucleosome occupancy and Tup1 distribution, provide evidence for a mechanism of dynamic target specification that coordinates the genome-wide distribution of intermediate-affinity DNA sequence motifs with chromatin-mediated regulation of accessibility to those sites.
Keywords: ChIP-chip
Overall design ChIP-chip
Contributor(s) Buck MJ, Lieb JD
Citation(s) 17099712
Submission date Oct 02, 2006
Last update date Mar 16, 2012
Contact name Jason D. Lieb
Phone 919-843-3228
Organization name Univeristy of North Carolina at Chapel Hill
Department Biology
Lab Lieb
Street address CB 3280
City Chapel Hill
State/province NC
ZIP/Postal code 27599
Country USA
Platforms (1)
GPL4414 Lieb Lab at UNC-CH_Yeast Whole-genome Array (PCR-based)_for Buck MJ et al.
Samples (106)
GSM140972 Rap1-Tap IP during expontential growth culture #1
GSM140975 Rap1-Tap IP during expontential growth culture #3 Dye-Swap Rep
GSM140976 Rap1-Tap IP during expontential growth culture #2 Dye-Swap Rep
BioProject PRJNA97403

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Supplementary file Size Download File type/resource
GSE5948_RAW.tar 175.8 Mb (http)(custom) TAR (of GPR)

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