Gene promoters dictate histone occupancy within genes

Perales, R., Erickson, B., Zhang, L., Kim, H., Valiquett, E., Bentley, D. (2013) Gene promoters dictate histone occupancy within genes. Embo Journal, 32 (19). pp. 2645-2656. ISSN 02614189 (ISSN)

URL: http://www.ncbi.nlm.nih.gov/pubmed/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. © 2013 European Molecular Biology Organization.

Item Type: Paper
Uncontrolled Keywords: chromatin histone eviction/deposition nucleosome occupancy promoters RNA pol II transcription Spt6
Subjects: bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > DNA expression
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
bioinformatics > genomics and proteomics > genetics & nucleic acid processing
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > genes, structure and function
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > protein structure, function, modification > protein types > histone
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > DNA expression > promoter
CSHL Authors:
Communities: CSHL labs > Hammell C. lab
Depositing User: Matt Covey
Date Deposited: 05 Nov 2013 21:51
Last Modified: 05 Nov 2013 21:51
PMCID: PMC3791371
Related URLs:
URI: http://repository.cshl.edu/id/eprint/28836

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