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Regulation of cohesin-mediated chromosome structure by PDS5 in mammals [RNA-seq]

ABSTRACT: Regulation of cohesin-mediated chromosome structure by PDS5 in mammals [RNA-seq]

PROVIDER: PRJNA862702 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR20665024_1.fastq.gz	Fastqsanger.gz
	SRR20665024_2.fastq.gz	Fastqsanger.gz
	SRR20665025_1.fastq.gz	Fastqsanger.gz
	SRR20665025_2.fastq.gz	Fastqsanger.gz
	SRR20665026_1.fastq.gz	Fastqsanger.gz

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Regulation of cohesin-mediated chromosome structure by PDS5 in mammals

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Regulation of cohesin-mediated chromosome structure by PDS5 in mammals [ChIP-seq]

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Regulation of cohesin-mediated chromosome structure by PDS5 in mammals [RNA-seq]

Project description:Cohesin regulates sister chromatids cohesion but also contributes to chromosome folding by promoting the formation of chromatin loops, a process proposed to be mediated by loop extrusion. PDS5 plays a crucial role in regulating the cohesin dynamic on chromatin, mainly through WAPL-mediated release activity and the opponent ESCO1/2-sororin dependent pathway. However, the exact function of PDS5 on cohesin-mediated chromatin looping remains ambiguous. Two versions of PDS5 exist in vertebrates, PDS5A and PDS5B. Here, we construct cells for rapid PDS5A or PDS5B degradation in PLC/PRF/5 cell line with the FKBP12F36V-dTAG degron system to perform loss of function studies. Combining Hi-C, ChIP-seq for cohesin regulators, and RNA-seq data, we describe the redundant and discrete roles of PDS5A and PDS5B in three-dimensional genome organization and gene expression.

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Regulation of cohesin-mediated chromosome structure by PDS5 in mammals [Hi-C]

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Regulation of cohesin-mediated chromosome structure by PDS5 in mammals [ChIP-seq]

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Regulation of cohesin-mediated chromosome folding by PDS5 in mammals.

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PDS5 proteins control genome architecture by limiting the lifetime of cohesin-NIPBL complexes [Hi-C]

Project description:Cohesin-NIPBL complexes extrude genomic DNA into loops that are constrained by CTCF boundaries. This process has important regulatory functions and weakens the separation between euchromatic and heterochromatic compartments. Cohesin can also bind PDS5A or PDS5B, which do not support loop extrusion but are required for the formation of CTCF boundaries. How PDS5 proteins perform this function is unknown. Here we show by in vitro single-molecule imaging that PDS5 proteins stop loop extrusion by facilitating the dissociation of NIPBL from cohesin. Hi-C experiments suggest that this function is required for the establishment of CTCF boundaries in cells. In silico modelling indicates that PDS5 proteins enable the separation between compartments by limiting cohesin’s velocity and chromatin-residence time. The degree of this compartmentalization depends on the frequency with which chromatin is extruded relative to the time it takes for compartments to form. These results identify PDS5 proteins as key regulators of genome organization.

2026-04-22 | GSE314272 | GEO

PDS5 proteins control genome architecture by limiting the lifetime of cohesin-NIPBL complexes [ChIP-Seq]

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Regulation of cohesin-mediated chromosome structure by PDS5 in mammals

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

2022-10-08 | GSE209849 | GEO