Cited by 638Genomics and Chromatin DynamicsRNA Research and SplicingNuclear Structure and Function

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Chromatin organization marks exon-intron structure

Schwartz, Schraga, Meshorer, Eran, Ast, Gil·2009·Nature Structural & Molecular Biology

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Abstract

An increasing body of evidence indicates that transcription and splicing are coupled, and it is accepted that chromatin organization regulates transcription. Little is known about the cross-talk between chromatin structure and exon-intron architecture. By analysis of genome-wide nucleosome-positioning data sets from humans, flies and worms, we found that exons show increased nucleosome-occupancy levels with respect to introns, a finding that we link to differential GC content and nucleosome-disfavoring elements between exons and introns. Analysis of genome-wide chromatin immunoprecipitation data in humans and mice revealed four specific post-translational histone modifications enriched in exons. Our findings indicate that previously described enrichment of H3K36me3 modifications in exons reflects a more fundamental phenomenon, namely increased nucleosome occupancy along exons. Our results suggest an RNA polymerase II-mediated cross-talk between chromatin structure and exon-intron architecture, implying that exon selection may be modulated by chromatin structure.

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Authors: Schwartz, S., Meshorer, E., & Ast, G.
Affiliations: Tel Aviv University (IL)
Hebrew University of Jerusalem (IL)
Corresponding author: Ast, Gil
ORCID: Schwartz, Schraga
Meshorer, Eran
Ast, Gil
Venue: Nature Structural & Molecular Biology
Publisher: Springer Science and Business Media LLC
Published: 2009-08-16
Volume: 16
Issue: 9
Pages: 990-995
ISSN: 1545-9985 (ISSN-L)
1545-9993
DOI: 10.1038/nsmb.1659
OpenAlex: W2155453721
Cited by: 638
References: 57
Citations by year: 2026: 10 · 2025: 16 · 2024: 18 · 2023: 25 · 2022: 21 · 2021: 31 · 2020: 32 · 2019: 33 · 2018: 32 · 2017: 32 · 2016: 35 · 2015: 45 · 2014: 48 · 2013: 57 · 2012: 62
FWCI: 27.08
Type: journal article
Language: en
Open access: closed
Licence: www.springer.com/tdm (tdm)
Locations: Nature Structural & Molecular Biology (publishedVersion)
PubMed (publishedVersion)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
Keywords: exon-intron structure, nucleosome occupancy, chromatin organization, transcription-splicing coupling, histone modifications, H3K36me3, GC content, exon selection, RNA polymerase II, chromatin immunoprecipitation, nucleosome positioning
MeSH terms: Animals, Base Composition, Chromatin, Exons, Histones, Humans, Introns, Methylation, Protein Processing, Post-Translational, RNA Polymerase II, RNA Splicing, Genome

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Chromatin organization marks exon-intron structure

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