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Systematic Identification of Factors Crucial for Provirus Silencing in Embryonic Stem Cells

ABSTRACT: Systematic Identification of Factors Crucial for Provirus Silencing in Embryonic Stem Cells

PROVIDER: PRJNA289720 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR2098960.fastq.gz	Fastqsanger.gz
	SRR2098970_1.fastq.gz	Fastqsanger.gz
	SRR2098970_2.fastq.gz	Fastqsanger.gz
	SRR2098980_1.fastq.gz	Fastqsanger.gz
	SRR2098980_2.fastq.gz	Fastqsanger.gz

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Systematic Identification of Factors Crucial for Provirus Silencing in Embryonic Stem Cells (ChIP-seq)

Project description:Our study reports the first genome-wide atlas of functional nodes that mediate proviral silencing in ESCs. It provides evidences for the comprehensive, interconnected and multi-layered genetic/epigenetic machineries by which ESCs maintain the repressive state of provirus and ERVs. ChIP-seq analysis of Chaf1a, Trim28, Sumo2 and Zfp809 to demonstrate the mechanism of the silencing of Endogenous retroviruses

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Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

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Project description:Embryonic stem cells (ESCs) repress the expression of exogenous proviruses and endogenous retroviruses (ERVs). Here, we systematically dissected the cellular factors involved in provirus repression in embryonic carcinomas (ECs) and ESCs by a genome-wide siRNA screen. Histone chaperones (Chaf1a/b), sumoylation factors (Sumo2/Ube2i/Sae1/Uba2/Senp6), and chromatin modifiers (Trim28/Eset/Atf7ip) are key determinants that establish provirus silencing. RNA-seq analysis uncovered the roles of Chaf1a/b and sumoylation modifiers in the repression of ERVs. ChIP-seq analysis demonstrates direct recruitment of Chaf1a and Sumo2 to ERVs. Chaf1a reinforces transcriptional repression via its interaction with members of the NuRD complex (Kdm1a, Hdac1/2) and Eset, while Sumo2 orchestrates the provirus repressive function of the canonical Zfp809/Trim28/Eset machinery by sumoylation of Trim28. Our study reports a genome-wide atlas of functional nodes that mediate proviral silencing in ESCs and illuminates the comprehensive, interconnected, and multi-layered genetic and epigenetic mechanisms by which ESCs repress retroviruses within the genome.

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