The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters

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The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters. / Pundhir, Sachin; Su, Jinyu; Tapia, Marta; Hansen, Anne Meldgaard; Haile, James Seymour; Hansen, Klaus; Porse, Bo Torben.

In: Genome Research, Vol. 33, No. 3, 2023, p. 332-345.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Pundhir, S, Su, J, Tapia, M, Hansen, AM, Haile, JS, Hansen, K & Porse, BT 2023, 'The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters', Genome Research, vol. 33, no. 3, pp. 332-345. https://doi.org/10.1101/gr.277089.122

APA

Pundhir, S., Su, J., Tapia, M., Hansen, A. M., Haile, J. S., Hansen, K., & Porse, B. T. (2023). The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters. Genome Research, 33(3), 332-345. https://doi.org/10.1101/gr.277089.122

Vancouver

Pundhir S, Su J, Tapia M, Hansen AM, Haile JS, Hansen K et al. The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters. Genome Research. 2023;33(3):332-345. https://doi.org/10.1101/gr.277089.122

Author

Pundhir, Sachin ; Su, Jinyu ; Tapia, Marta ; Hansen, Anne Meldgaard ; Haile, James Seymour ; Hansen, Klaus ; Porse, Bo Torben. / The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters. In: Genome Research. 2023 ; Vol. 33, No. 3. pp. 332-345.

Bibtex

@article{ca0589d8baa3489ebee6e36ea6eaf584,
title = "The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters",
abstract = "SWI/SNF and NuRD are protein complexes that antagonistically regulate DNA accessibility. However, repression of their activities often leads to unanticipated changes in target gene expression (paradoxical), highlighting our incomplete understanding of their activities. Here we show that SWI/SNF and NuRD are in a tug-of-war to regulate PRC2 occupancy at lowly expressed and bivalent genes in mouse embryonic stem cells (mESCs). In contrast, at promoters of average or highly expressed genes, SWI/SNF and NuRD antagonistically modulate RNA polymerase II (Pol II) release kinetics, arguably owing to accompanying alterations in H3.3 and H2A.Z levels at promoter-flanking nucleosomes, leading to paradoxical changes in gene expression. Owing to this mechanism, the relative activities of the two remodelers potentiate gene promoters toward Pol II–dependent open or PRC2-dependent closed chromatin states. Our results highlight RNA Pol II occupancy as the key parameter in determining the direction of gene expression changes in response to SWI/SNF and NuRD inactivation at gene promoters in mESCs.",
author = "Sachin Pundhir and Jinyu Su and Marta Tapia and Hansen, {Anne Meldgaard} and Haile, {James Seymour} and Klaus Hansen and Porse, {Bo Torben}",
note = "Publisher Copyright: {\textcopyright} 2023 Pundhir et al.; Published by Cold Spring Harbor Laboratory Press.",
year = "2023",
doi = "10.1101/gr.277089.122",
language = "English",
volume = "33",
pages = "332--345",
journal = "Genome Research",
issn = "1088-9051",
publisher = "Cold Spring Harbor Laboratory Press",
number = "3",

}

RIS

TY - JOUR

T1 - The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters

AU - Pundhir, Sachin

AU - Su, Jinyu

AU - Tapia, Marta

AU - Hansen, Anne Meldgaard

AU - Haile, James Seymour

AU - Hansen, Klaus

AU - Porse, Bo Torben

N1 - Publisher Copyright: © 2023 Pundhir et al.; Published by Cold Spring Harbor Laboratory Press.

PY - 2023

Y1 - 2023

N2 - SWI/SNF and NuRD are protein complexes that antagonistically regulate DNA accessibility. However, repression of their activities often leads to unanticipated changes in target gene expression (paradoxical), highlighting our incomplete understanding of their activities. Here we show that SWI/SNF and NuRD are in a tug-of-war to regulate PRC2 occupancy at lowly expressed and bivalent genes in mouse embryonic stem cells (mESCs). In contrast, at promoters of average or highly expressed genes, SWI/SNF and NuRD antagonistically modulate RNA polymerase II (Pol II) release kinetics, arguably owing to accompanying alterations in H3.3 and H2A.Z levels at promoter-flanking nucleosomes, leading to paradoxical changes in gene expression. Owing to this mechanism, the relative activities of the two remodelers potentiate gene promoters toward Pol II–dependent open or PRC2-dependent closed chromatin states. Our results highlight RNA Pol II occupancy as the key parameter in determining the direction of gene expression changes in response to SWI/SNF and NuRD inactivation at gene promoters in mESCs.

AB - SWI/SNF and NuRD are protein complexes that antagonistically regulate DNA accessibility. However, repression of their activities often leads to unanticipated changes in target gene expression (paradoxical), highlighting our incomplete understanding of their activities. Here we show that SWI/SNF and NuRD are in a tug-of-war to regulate PRC2 occupancy at lowly expressed and bivalent genes in mouse embryonic stem cells (mESCs). In contrast, at promoters of average or highly expressed genes, SWI/SNF and NuRD antagonistically modulate RNA polymerase II (Pol II) release kinetics, arguably owing to accompanying alterations in H3.3 and H2A.Z levels at promoter-flanking nucleosomes, leading to paradoxical changes in gene expression. Owing to this mechanism, the relative activities of the two remodelers potentiate gene promoters toward Pol II–dependent open or PRC2-dependent closed chromatin states. Our results highlight RNA Pol II occupancy as the key parameter in determining the direction of gene expression changes in response to SWI/SNF and NuRD inactivation at gene promoters in mESCs.

U2 - 10.1101/gr.277089.122

DO - 10.1101/gr.277089.122

M3 - Journal article

C2 - 36927987

AN - SCOPUS:85153112456

VL - 33

SP - 332

EP - 345

JO - Genome Research

JF - Genome Research

SN - 1088-9051

IS - 3

ER -

ID: 345601488