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PR-DUB safeguards Polycomb repression through restricting H2AK119ub1 [RNA-seq]

ABSTRACT: PR-DUB safeguards Polycomb repression through restricting H2AK119ub1 [RNA-seq]

PROVIDER: PRJNA773661 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR16531783_1.fastq.gz	Fastqsanger.gz
	SRR16531783_2.fastq.gz	Fastqsanger.gz
	SRR16531784_1.fastq.gz	Fastqsanger.gz
	SRR16531784_2.fastq.gz	Fastqsanger.gz
	SRR16531785_1.fastq.gz	Fastqsanger.gz

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PR-DUB safeguards Polycomb repression through restricting H2AK119ub1

Project description:PR-DUB safeguards Polycomb repression through restricting H2AK119ub1

| PRJNA773657 | ENA

PR-DUB safeguards Polycomb repression through restricting H2AK119ub1 [ChIP-seq]

Project description:PR-DUB safeguards Polycomb repression through restricting H2AK119ub1 [ChIP-seq]

| PRJNA773660 | ENA

PR-DUB safeguards Polycomb repression through restricting H2AK119ub1 [ChIP-seq]

Project description:Polycomb group (PcG) proteins are critical chromatin regulators for cell fate control. The mono-ubiquitylation on histone H2AK119 (H2AK119ub1) is one of the well-recognized mechanisms for Polycomb Repressive Complex 1 (PRC1)-mediated transcription repression. However, the specific H2AK119 deubiquitylation complex composed by ASX-like proteins (ASXLs) and BAP1 has also been genetically characterized as a Polycomb Repressive complex (PR-DUB). Here we try to provide a rationale for these counterintuitive findings. Through re-examining the genomic distribution of H2AK119ub1, we find that H2AK119ub1 is non-negligibly distributed at non-promoter regions and associated with PRC1 sampling. Upon deletion of Asxl2 in mouse embryonic stem cells (ESCs), H2AK119ub1 is pervasively gained, especially at non-promoter regions, which is associated with increased RING1B occupancy. Meanwhile RING1B is significantly lost from a subset of the target promoters and thereby results in minor derepression in Asxl2-null ESCs. However notably, Asxl2 loss causes aberrant lineage differetiation, similar to PcG mutants. Therefore, our data reconcile seemingly paradoxical roles of PR-DUB on transcription repression and highlight the importance of a balanced H2AK119ub1 dynamics in developmental regulation.

2023-03-31 | GSE186373 | GEO

PR-DUB safeguards Polycomb repression through restricting H2AK119ub1 [RNA-seq]

2023-03-31 | GSE186374 | GEO

PR-DUB safeguards Polycomb repression through H2AK119ub1 restriction.

Project description:Polycomb group (PcG) proteins are critical chromatin regulators for cell fate control. The mono-ubiquitylation on histone H2AK119 (H2AK119ub1) is one of the well-recognized mechanisms for Polycomb repressive complex 1 (PRC1)-mediated transcription repression. Unexpectedly, the specific H2AK119 deubiquitylation complex composed by additional sex comb-like proteins and BAP1 has also been genetically characterized as Polycomb repressive deubiquitnase (PR-DUB) for unclear reasons. However, it remains a mystery whether and how PR-DUB deficiency affects chromatin states and cell fates through impaired PcG silencing. Here through a careful epigenomic analysis, we demonstrate that a bulk of H2AK119ub1 is diffusely distributed away from promoter regions and their enrichment is positively correlated with PRC1 occupancy. Upon deletion of Asxl2 in mouse embryonic stem cells (ESCs), a pervasive gain of H2AK119ub1 is coincident with increased PRC1 sampling at chromatin. Accordingly, PRC1 is significantly lost from a subset of highly occupied promoters, leading to impaired silencing of associated genes before and after lineage differentiation of Asxl2-null ESCs. Therefore, our study highlights the importance of genome-wide H2AK119ub1 restriction by PR-DUB in safeguarding robust PRC1 deposition and its roles in developmental regulation.

| S-EPMC10542648 | biostudies-literature

PR-DUB safeguards Polycomb repression through restricting H2AK119ub1

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-03-31 | GSE186375 | GEO

ChIP-chip of Drosophila Polycomb group proteins Asx and Calypso (PR-DUB) in larvae

Project description:Analysis of binding profile of the Polycomb group proteins Calypso and Asx (PR-DUB) in Drosophila melanogaster larvae.

2010-05-03 | E-TABM-908 | biostudies-arrayexpress

PR-DUB preserves Polycomb repression by preventing excessive accumulation of H2Aub1, an antagonist of nucleosome stacking (ChIP-Seq)

Project description:The Polycomb repression machinery in Drosophila comprises PRC1 that monoubiquitinates histone H2A at lysine 118 (H2Aub1) and PR-DUB, a major H2Aub1 deubiquitinase, but how H2Aub1 levels must be balanced for Polycomb repression remains enigmatic. We show that H2Aub1 is enriched at Polycomb target genes in early embryos but depleted from these genes during developmental stages when PRC1 represses their transcription. Accordingly, Polycomb targets remain repressed in H2Aub1-deficient animals. In PR-DUB catalytic mutants, high-level H2Aub1 accumulation at Polycomb targets increases chromatin accessibility, consistent with disruption of chromatin fiber folding by H2Aub1 in vitro. Consequently, PR-DUB mutants show defective Polycomb repression, while general transcription is largely unperturbed by the genome-wide, low-level H2Aub1 increase. Changes in H2Aub1 levels alter H3K27 methylation-kinetics but PRC2 nevertheless generates canonical H3K27me3 domains in PRC1 or PR-DUB catalytic mutants. PR-DUB therefore acts as a rheostat that removes excessive H2Aub1 that, though deposited by PRC1, antagonizes PRC1-mediated chromatin compaction.

2022-11-09 | GSE210233 | GEO

PR-DUB preserves Polycomb repression by preventing excessive accumulation of H2Aub1, an antagonist of nucleosome stacking (ATAC-Seq)

2022-11-09 | GSE210232 | GEO

PR-DUB preserves Polycomb repression by preventing excessive accumulation of H2Aub1, an antagonist of nucleosome stacking (RNA-Seq)

2022-11-09 | GSE210235 | GEO