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dc.contributor.authorWeiner, Assaf
dc.contributor.authorChen, Hsiuyi V.
dc.contributor.authorLiu, Chih Long
dc.contributor.authorRahat, Ayelet
dc.contributor.authorKlien, Avital
dc.contributor.authorSoares, Luis
dc.contributor.authorGudipati, Mohanram
dc.contributor.authorPfeffner, Jenna
dc.contributor.authorRegev, Aviv
dc.contributor.authorBuratowski, Stephen
dc.contributor.authorPleiss, Jeffrey A.
dc.contributor.authorFriedman, Nir
dc.contributor.authorRando, Oliver J.
dc.date.accessioned2013-03-27T17:34:10Z
dc.date.issued2012
dc.identifier.citationWeiner, Assaf, Hsiuyi V. Chen, Chih Long Liu, Ayelet Rahat, Avital Klien, Luis Soares, Mohanram Gudipati, Jenna Pfeffner, Aviv Regev, Stephen Buratowski, Jeffrey A. Pleiss, Nir Friedman, and Oliver J. Rando. 2012. Systematic dissection of roles for chromatin regulators in a yeast stress response. PLoS Biology 10(7): e1001369.en_US
dc.identifier.issn1544-9173en_US
dc.identifier.urihttp://nrs.harvard.edu/urn-3:HUL.InstRepos:10471500
dc.description.abstractPackaging of eukaryotic genomes into chromatin has wide-ranging effects on gene transcription. Curiously, it is commonly observed that deletion of a global chromatin regulator affects expression of only a limited subset of genes bound to or modified by the regulator in question. However, in many single-gene studies it has become clear that chromatin regulators often do not affect steady-state transcription, but instead are required for normal transcriptional reprogramming by environmental cues. We therefore have systematically investigated the effects of 83 histone mutants, and 119 gene deletion mutants, on induction/repression dynamics of 170 transcripts in response to diamide stress in yeast. Importantly, we find that chromatin regulators play far more pronounced roles during gene induction/repression than they do in steady-state expression. Furthermore, by jointly analyzing the substrates (histone mutants) and enzymes (chromatin modifier deletions) we identify specific interactions between histone modifications and their regulators. Combining these functional results with genome-wide mapping of several histone marks in the same time course, we systematically investigated the correspondence between histone modification occurrence and function. We followed up on one pathway, finding that Set1-dependent H3K4 methylation primarily acts as a gene repressor during multiple stresses, specifically at genes involved in ribosome biosynthesis. Set1-dependent repression of ribosomal genes occurs via distinct pathways for ribosomal protein genes and ribosomal biogenesis genes, which can be separated based on genetic requirements for repression and based on chromatin changes during gene repression. Together, our dynamic studies provide a rich resource for investigating chromatin regulation, and identify a significant role for the “activating” mark H3K4me3 in gene repression.en_US
dc.language.isoen_USen_US
dc.publisherPublic Library of Scienceen_US
dc.relation.isversionofdoi:10.1371/journal.pbio.1001369en_US
dc.relation.hasversionhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC3416867/pdf/en_US
dash.licenseLAA
dc.subjectBiologyen_US
dc.subjectGeneticsen_US
dc.subjectEpigeneticsen_US
dc.subjectGene Expressionen_US
dc.subjectGenomicsen_US
dc.subjectChromosome Biologyen_US
dc.subjectFunctional Genomicsen_US
dc.subjectGenome Expression Analysisen_US
dc.subjectSystems Biologyen_US
dc.titleSystematic Dissection of Roles for Chromatin Regulators in a Yeast Stress Responseen_US
dc.typeJournal Articleen_US
dc.description.versionVersion of Recorden_US
dc.relation.journalPLoS Biologyen_US
dash.depositing.authorBuratowski, Stephen
dc.date.available2013-03-27T17:34:10Z
dc.identifier.doi10.1371/journal.pbio.1001369*
dash.contributor.affiliatedSoares, Luis
dash.contributor.affiliatedBuratowski, Stephen


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