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Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn [ChIP-Seq]

ABSTRACT: Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) in mouse F1-hybrid trophoblast stem cells for PRC subunits and PRC-induced chromatin modifications.

ORGANISM(S): Mus musculus

PROVIDER: GSE220464 | GEO | 2023/07/01

REPOSITORIES: GEO

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Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn [Hi-C]

Project description:In the developing mouse embryo, expression of the lncRNA Airn induces gene silencing and recruits Polycomb Repressive Complexes (PRCs) to varying extents over a 15 megabase domain, but the mechanisms remain unclear. Using high-resolution approaches, we show in mouse trophoblast stem cells that Airn expression induces long-range changes to chromatin architecture centered around a network of CpG islands occupied by PRCs and SMC1A/Cohesin. Extent of contact with Airn predicts underlying intensity of Polycomb-directed chromatin modifications and Airn-induced changes to chromatin architecture. Deletion of individual CpG islands alternately increase or decrease gene silencing and PRC activity over the domain in a manner predicted by changes in chromatin architecture. We conclude that Airn is a potent repressive lncRNA whose effects are controlled by an equilibratory network of DNA regulatory elements that modulate its frequency of contact with target chromatin.

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Proximity-dependent recruitment of Polycomb repressive complexes by the lncRNA Airn.

Project description:During mouse embryogenesis, expression of the long non-coding RNA (lncRNA) Airn leads to gene repression and recruitment of Polycomb repressive complexes (PRCs) to varying extents over a 15-Mb domain. The mechanisms remain unclear. Using high-resolution approaches, we show in mouse trophoblast stem cells that Airn expression induces long-range changes to chromatin architecture that coincide with PRC-directed modifications and center around CpG island promoters that contact the Airn locus even in the absence of Airn expression. Intensity of contact between the Airn lncRNA and chromatin correlated with underlying intensity of PRC recruitment and PRC-directed modifications. Deletion of CpG islands that contact the Airn locus altered long-distance repression and PRC activity in a manner that correlated with changes in chromatin architecture. Our data imply that the extent to which Airn expression recruits PRCs to chromatin is controlled by DNA regulatory elements that modulate proximity of the Airn lncRNA product to its target DNA.

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Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn

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

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Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn

Project description:Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn

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Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn [Hi-C]

Project description:Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn [Hi-C]

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Project description:Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn [ChIP-Seq]

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Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn [CHART-Seq]

Project description:Proximity-dependent recruitment of Polycomb Repressive Complexes by the lncRNA Airn [CHART-Seq]

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