Subnucleosomal structures and nucleosome asymmetry across a genome

Ho Sung Rhee, Alain R. Bataille, Liye Zhang, Benjamin Franklin Pugh

Research output: Contribution to journalArticle

79 Citations (Scopus)

Abstract

Genes are packaged into nucleosomal arrays, each nucleosome typically having two copies of histones H2A, H2B, H3, and H4. Histones have distinct posttranslational modifications, variant isoforms, and dynamics. Whether each histone copy within a nucleosome has distinct properties, particularly in relation to the direction of transcription, is unknown. Here we use chromatin immunoprecipitation-exonuclease (ChIP-exo) to resolve the organization of individual histones on a genomic scale. We detect widespread subnucleosomal structures in dynamic chromatin, including what appear to be half-nucleosomes consisting of one copy of each histone. We also detect interactions of H3 tails with linker DNA between nucleosomes, which may be negatively regulated by methylation of H3K36. Histone variant H2A.Z is enriched on the promoter-distal half of the +1 nucleosome, whereas H2BK123 ubiquitylation and H3K9 acetylation are enriched on the promoter-proximal half in a transcription-linked manner. Subnucleosome asymmetries might serve as molecular beacons that guide transcription.

Original languageEnglish (US)
Pages (from-to)1377-1388
Number of pages12
JournalCell
Volume159
Issue number6
DOIs
StatePublished - Dec 4 2014

Fingerprint

Nucleosomes
Histones
Genes
Genome
Transcription
Chromatin
Acetylation
Exonucleases
Methylation
Chromatin Immunoprecipitation
Ubiquitination
Post Translational Protein Processing
Protein Isoforms
DNA

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Rhee, Ho Sung ; Bataille, Alain R. ; Zhang, Liye ; Pugh, Benjamin Franklin. / Subnucleosomal structures and nucleosome asymmetry across a genome. In: Cell. 2014 ; Vol. 159, No. 6. pp. 1377-1388.
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Subnucleosomal structures and nucleosome asymmetry across a genome. / Rhee, Ho Sung; Bataille, Alain R.; Zhang, Liye; Pugh, Benjamin Franklin.

In: Cell, Vol. 159, No. 6, 04.12.2014, p. 1377-1388.

Research output: Contribution to journalArticle

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