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ChIP-seq analysis of Ssrp1 and Usp7 in mESCs

ABSTRACT: ChIP-seq analysis of Ssrp1 and Usp7 in mESCs

PROVIDER: PRJNA594736 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12395618_1.fastq.gz	Fastqsanger.gz
	SRR12395618_2.fastq.gz	Fastqsanger.gz
	SRR12395619_1.fastq.gz	Fastqsanger.gz
	SRR12395619_2.fastq.gz	Fastqsanger.gz
	SRR12395620_1.fastq.gz	Fastqsanger.gz

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Project description:Endogenous retrovirus MERVL is specifically expressed in a minority of embryonic stem cells. To determine the restrain mechanism of MERVL, we knocked out Ssrp1 and analyzed the effect on the expression of transposable elements and coding genes. Ssrp1 further interacts with ubiquitin specific protease Usp7. We knocked down usp7 and analyzed the effect on the expression of MERVL. It turns out the deletion of ssrp1 or usp7 would lead to upregulation of MERVL. This study extends our understandings of the machanism by novel factors regulates MERVL.

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Project description:USP7, a ubiquitin-specific peptidase (USP), plays an important role in many cellular processes through its catalytic deubiquitination of various substrates. However, its nuclear function to regulate gene expression in mouse embryonic stem cells (mESCs) remains largely unknown. Here, we report that USP7 maintains mESCs identity through both catalytic activity-dependent and -independent repression of lineage differentiation genes. Usp7 depletion attenuates SOX2 level and derepresses lineage differentiation genes thereby compromising mESCs identity. Mechanistically, USP7 deubiquitinates and stabilizes SOX2 to repress mesoendodermal (ME) lineage genes. Moreover, USP7 assembles into RYBP-variant polycomb repressive complex 1 (vPRC1) and contributes to Polycomb chromatin domain-mediated repression of ME lineage genes in a catalytic activity-dependent manner. However, USP7 deficient in its deubiquitination function is able to maintain RYBP binding on chromatin to represses primitive endoderm-associated genes in mESCs. Overall, our study demonstrates that USP7 harbors both catalytic and non-catalytic scaffold activity to repress lineage differentiation genes thereby revealing a previously unrecognized role in controlling gene expression and maintaining mESCs identity.

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USP7 represses lineage differentiation genes of mouse embryonic stem cells through both catalytic and non-catalytic activity [CUT&Tag]

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USP7 cooperates with SCML2 to regulate the activity of PRC1

Project description:In this experiment, we sought to identify the distribution of USP7 on chromatin relative to other PRC1 components ChIP-seq for USP7 in 293T-REx cells

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USP7 represses lineage differentiation genes in mouse embryonic stem cells by both catalytic and non-catalytic activity

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