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Cited by 102Genomics and Chromatin DynamicsEpigenetics and DNA MethylationChromatin Remodeling and Cancer

Cotranscriptional histone H2B monoubiquitylation is tightly coupled with RNA polymerase II elongation rate

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Fuchs, Gilad, Hollander, Dror, Voichek, Yoav, Ast, Gil, Oren, Moshe·2014·Genome Research
DOI 10.1101/gr.176487.114PMC PMC4199367
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Abstract

Various histone modifications decorate nucleosomes within transcribed genes. Among these, monoubiquitylation of histone H2B (H2Bub1) and methylation of histone H3 on lysines 36 (H3K36me2/3) and 79 (H3K79me2/3) correlate positively with gene expression. By measuring the progression of the transcriptional machinery along genes within live cells, we now report that H2B monoubiquitylation occurs cotranscriptionally and accurately reflects the advance of RNA polymerase II (Pol II). In contrast, H3K36me3 and H3K79me2 are less dynamic and represent Pol II movement less faithfully. High-resolution ChIP-seq reveals that H2Bub1 levels are selectively reduced at exons and decrease in an exon-dependent stepwise manner toward the 3′ end of genes. Exonic depletion of H2Bub1 in gene bodies is highly correlated with Pol II pausing at exons, suggesting elongation rate changes associated with intron–exon structure. In support of this notion, H2Bub1 levels were found to be significantly correlated with transcription elongation rates measured in various cell lines. Overall, our data shed light on the organization of H2Bub1 within transcribed genes and single out H2Bub1 as a reliable marker for ongoing transcription elongation.

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  • H3K79me2, H2B mono-ubiquitylation, and H4K20me1 positively correlate with RNA Pol II speed in the gene body.

    “Genome‐wide studies have shown that H3K79me2, H2B mono‐ubiquitylation, and H4K20me1 positively correlate with RNA Pol II speed in the gene body (Fuchs et al, 2014a; Jonkers et al, 2014; Veloso et al, 2014).”

    From RNA polymerase II speed: a key player in controlling and adapting transcriptome composition (2021) · cites this paper as Fuchs et al, 2014a

    The Results section reports a positive genome-wide correlation between H2Bub1 levels and elongation rates, and the Discussion says H3K79me2 levels also correlate with elongation rates. Our copy does not report a corresponding correlation for H4K20me1 (searched: H4K20me1). Page numbers were not available in the indexed passages. (LLM, conf=0.88)

    Experimental — accuracy not yet measured

  • H2Bub1 levels are highly correlated with RNA Pol II velocity and inhibition of transcription elongation strongly affects global H2Bub1 levels.

    “In addition, H2Bub1 levels are highly correlated with RNA Pol II velocity and inhibition of transcription elongation strongly affects global H2Bub1 levels (Fuchs et al, 2014a).”

    From RNA polymerase II speed: a key player in controlling and adapting transcriptome composition (2021) · cites this paper as Fuchs et al, 2014a

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Authors
Fuchs, G., Hollander, D., Voichek, Y., Ast, G., & Oren, M.
Affiliations
  • Weizmann Institute of Science (IL)
  • Tel Aviv University (IL)
Corresponding author
Oren, Moshe
ORCID
Venue
Genome Research
Publisher
Cold Spring Harbor Laboratory
Published
2014-07-21
Volume
24
Issue
10
Pages
1572-1583
ISSN
  • 1088-9051 (ISSN-L)
  • 1549-5469
DOI
10.1101/gr.176487.114
PMC
PMC4199367
OpenAlex
W2033692494
Cited by
102
References
8
Citations by year
2026: 3 · 2025: 6 · 2024: 9 · 2023: 9 · 2022: 8 · 2021: 13 · 2020: 6 · 2019: 6 · 2018: 6 · 2017: 15 · 2016: 12 · 2015: 9
Type
posted content
Language
en
Open access
Locations
  • Genome Research (publishedVersion)
  • PubMed Central (publishedVersion, cc-by-nc)
  • PubMed (publishedVersion)
  • HighWire Press Open Archive (submittedVersion)
Funders
  • European Research Council (293438)
  • Israel Science Foundation (61/09, 142/13)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
Keywords
H2Bub1, RNA polymerase II elongation, H3K36me3, H3K79me2, histone modifications, gene body, exon-intron structure
MeSH terms
Exons, HeLa Cells, Histones, Humans, Molecular Sequence Data, RNA Polymerase II, RNA, Messenger, Sequence Analysis, DNA, Cell Line, Tumor, Ubiquitination, Transcription Elongation, Genetic

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