Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs

Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs

Polycomb repressor complexes (PRCs) are important chromatin modifiers fundamentally implicated in pluripotency and cancer. Polycomb silencing in embryonic stem cells (ESCs) can be accompanied by active chromatin and primed RNA polymerase II (RNAPII), but the relationship between PRCs and RNAPII rema...

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Main Authors: Brookes, Emily, de Santiago, Inês, Hebenstreit, Daniel, Morris, Kelly J., Carroll, Tom, Xie, Sheila Q., Stock, Julie K., Heidemann, Martin, Eick, Dirk, Nozaki, Naohito, Kimura, Hiroshi, Ragoussis, Jiannis, Teichmann, Sarah A., Pombo, Ana
Format: Online
Language:English
Published: Cell Press 2012
Online Access:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3682187/
id pubmed-3682187
recordtype oai_dc
spelling pubmed-36821872013-06-19 Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs Brookes, Emily de Santiago, Inês Hebenstreit, Daniel Morris, Kelly J. Carroll, Tom Xie, Sheila Q. Stock, Julie K. Heidemann, Martin Eick, Dirk Nozaki, Naohito Kimura, Hiroshi Ragoussis, Jiannis Teichmann, Sarah A. Pombo, Ana Article Polycomb repressor complexes (PRCs) are important chromatin modifiers fundamentally implicated in pluripotency and cancer. Polycomb silencing in embryonic stem cells (ESCs) can be accompanied by active chromatin and primed RNA polymerase II (RNAPII), but the relationship between PRCs and RNAPII remains unclear genome-wide. We mapped PRC repression markers and four RNAPII states in ESCs using ChIP-seq, and found that PRC targets exhibit a range of RNAPII variants. First, developmental PRC targets are bound by unproductive RNAPII (S5p+S7p−S2p−) genome-wide. Sequential ChIP, Ring1B depletion, and genome-wide correlations show that PRCs and RNAPII-S5p physically bind to the same chromatin and functionally synergize. Second, we identify a cohort of genes marked by PRC and elongating RNAPII (S5p+S7p+S2p+); they produce mRNA and protein, and their expression increases upon PRC1 knockdown. We show that this group of PRC targets switches between active and PRC-repressed states within the ESC population, and that many have roles in metabolism. Cell Press 2012-02-03 /pmc/articles/PMC3682187/ /pubmed/22305566 http://dx.doi.org/10.1016/j.stem.2011.12.017 Text en © 2012 ELL & Excerpta Medica. https://creativecommons.org/licenses/by/3.0/ Open Access under CC BY 3.0 (https://creativecommons.org/licenses/by/3.0/) license
repository_type Open Access Journal
institution_category Foreign Institution
institution US National Center for Biotechnology Information
building NCBI PubMed
collection Online Access
language English
format Online
author Brookes, Emily
de Santiago, Inês
Hebenstreit, Daniel
Morris, Kelly J.
Carroll, Tom
Xie, Sheila Q.
Stock, Julie K.
Heidemann, Martin
Eick, Dirk
Nozaki, Naohito
Kimura, Hiroshi
Ragoussis, Jiannis
Teichmann, Sarah A.
Pombo, Ana
spellingShingle Brookes, Emily
de Santiago, Inês
Hebenstreit, Daniel
Morris, Kelly J.
Carroll, Tom
Xie, Sheila Q.
Stock, Julie K.
Heidemann, Martin
Eick, Dirk
Nozaki, Naohito
Kimura, Hiroshi
Ragoussis, Jiannis
Teichmann, Sarah A.
Pombo, Ana
Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs
author_facet Brookes, Emily
de Santiago, Inês
Hebenstreit, Daniel
Morris, Kelly J.
Carroll, Tom
Xie, Sheila Q.
Stock, Julie K.
Heidemann, Martin
Eick, Dirk
Nozaki, Naohito
Kimura, Hiroshi
Ragoussis, Jiannis
Teichmann, Sarah A.
Pombo, Ana
author_sort Brookes, Emily
title Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs
title_short Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs
title_full Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs
title_fullStr Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs
title_full_unstemmed Polycomb Associates Genome-wide with a Specific RNA Polymerase II Variant, and Regulates Metabolic Genes in ESCs
title_sort polycomb associates genome-wide with a specific rna polymerase ii variant, and regulates metabolic genes in escs
description Polycomb repressor complexes (PRCs) are important chromatin modifiers fundamentally implicated in pluripotency and cancer. Polycomb silencing in embryonic stem cells (ESCs) can be accompanied by active chromatin and primed RNA polymerase II (RNAPII), but the relationship between PRCs and RNAPII remains unclear genome-wide. We mapped PRC repression markers and four RNAPII states in ESCs using ChIP-seq, and found that PRC targets exhibit a range of RNAPII variants. First, developmental PRC targets are bound by unproductive RNAPII (S5p+S7p−S2p−) genome-wide. Sequential ChIP, Ring1B depletion, and genome-wide correlations show that PRCs and RNAPII-S5p physically bind to the same chromatin and functionally synergize. Second, we identify a cohort of genes marked by PRC and elongating RNAPII (S5p+S7p+S2p+); they produce mRNA and protein, and their expression increases upon PRC1 knockdown. We show that this group of PRC targets switches between active and PRC-repressed states within the ESC population, and that many have roles in metabolism.
publisher Cell Press
publishDate 2012
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3682187/
_version_ 1611986456945885184

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