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The EMBO journal
Oct 02, 2013;32 (19): 2645-56.

Gene promoters dictate histone occupancy within genes.

Roberto Perales, Benjamin Erickson, Lian Zhang, Hyunmin Kim, Elan Valiquett, David Bentley
Author Information
  1. Roberto Perales: Program in Molecular Biology, Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, CO, USA.
PMID: 24013117 DOI: 10.1038/emboj.2013.194

Abstract

Spt6 is a transcriptional elongation factor and histone chaperone that reassembles transcribed chromatin. Genome-wide H3 mapping showed that Spt6 preferentially maintains nucleosomes within the first 500 bases of genes and helps define nucleosome-depleted regions in 5' and 3' flanking sequences. In Spt6-depleted cells, H3 loss at 5' ends correlates with reduced pol II density suggesting enhanced transcription elongation. Consistent with its 'Suppressor of Ty' (Spt) phenotype, Spt6 inactivation caused localized H3 eviction over 1-2 nucleosomes at 5' ends of Ty elements. H3 displacement differed between genes driven by promoters with 'open'/DPN and 'closed'/OPN chromatin conformations with similar pol II densities. More eviction occurred on genes with 'closed' promoters, associated with 'noisy' transcription. Moreover, swapping of 'open' and 'closed' promoters showed that they can specify distinct downstream patterns of histone eviction/deposition. These observations suggest a novel function for promoters in dictating histone dynamics within genes possibly through effects on transcriptional bursting or elongation rate.

Associated Data

GEO | GSE49928

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Grants

  1. P30 CA046934/NCI NIH HHS
  2. R01 GM063873/NIGMS NIH HHS
  3. GM063873/NIGMS NIH HHS
  4. 3R01GM063873-06S1/NIGMS NIH HHS

MeSH Term

Histone Chaperones
Histones
Nuclear Proteins
Promoter Regions, Genetic
Saccharomyces cerevisiae
Saccharomyces cerevisiae Proteins
Transcriptional Elongation Factors

Chemicals

Histone Chaperones
Histones
Nuclear Proteins
SPT6 protein, S cerevisiae
Saccharomyces cerevisiae Proteins
Transcriptional Elongation Factors
Journal Article Research Support, American Recovery and Reinvestment Act Research Support, N.I.H., Extramural

Word Cloud

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