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Cited by 247Genomics and Chromatin DynamicsChromatin Remodeling and CancerNuclear Structure and Function

The role of transcription in shaping the spatial organization of the genome

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van Steensel, Bas, Furlong, Eileen E. M.·2019·Nature Reviews Molecular Cell Biology
DOI 10.1038/s41580-019-0114-6PMC PMC7116054
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Abstract

The spatial organization of the genome into compartments and topologically associated domains can have an important role in the regulation of gene expression. But could gene expression conversely regulate genome organization? Here, we review recent studies that assessed the requirement of transcription and/or the transcription machinery for the establishment or maintenance of genome topology. The results reveal different requirements at different genomic scales. Transcription is generally not required for higher-level genome compartmentalization, has only moderate effects on domain organization and is not sufficient to create new domain boundaries. However, on a finer scale, transcripts or transcription does seem to have a role in the formation of subcompartments and subdomains and in stabilizing enhancer-promoter interactions. Recent evidence suggests a dynamic, reciprocal interplay between fine-scale genome organization and transcription, in which each is able to modulate or reinforce the activity of the other.

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  • Transcription can either disrupt or stabilise specific enhancer-promoter loops.

    “Whilst it is established that transcription helps shape up higher-level genome conformation (reviewed in [386]), there is also evidence that it can either disrupt or stabilise specific enhancer–promoter loops.”

    From Transcriptional enhancers and their communication with gene promoters (2021) · cites this paper as [386]

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Authors
van Steensel, B., & Furlong, E. E. M.
Affiliations
European Molecular Biology Laboratory (DE)
Corresponding author
Furlong, Eileen E. M.
ORCID
Venue
Nature Reviews Molecular Cell Biology
Publisher
Springer Science and Business Media LLC
Published
2019-03-18
Volume
20
Issue
6
Pages
327-337
ISSN
  • 1471-0072 (ISSN-L)
  • 1471-0080
DOI
10.1038/s41580-019-0114-6
PMC
PMC7116054
OpenAlex
W2920852097
Cited by
247
References
23
Citations by year
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FWCI
3.69
Type
journal article
Language
en
Open access
Licence
www.springer.com/tdm (tdm)
Locations
  • Nature Reviews Molecular Cell Biology (publishedVersion)
  • PubMed (publishedVersion)
  • EUR Research Repository (Erasmus University Rotterdam) (publishedVersion)
  • PubMed Central (acceptedVersion)
  • EUR Research Repository (Erasmus University Rotterdam) (submittedVersion)
Funders
  • KWF Kankerbestrijding
  • Oncode Institute
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
Keywords
transcription, 3D genome organization, topologically associating domains, nuclear compartments, gene expression regulation, enhancer-promoter interactions, subdomains, chromatin topology, transcription machinery
MeSH terms
Animals, Chromatin, Enhancer Elements, Genetic, Humans, Promoter Regions, Genetic, Transcription, Genetic, Genome, Human

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

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