Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Motif-driven interactions between RNA and PRC2 regulate transcription elongation of target genes

ABSTRACT: Motif-driven interactions between RNA and PRC2 regulate transcription elongation of target genes

PROVIDER: PRJNA594392 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10612093_1.fastq.gz	Fastqsanger.gz
	SRR10612093_2.fastq.gz	Fastqsanger.gz
	SRR10612094_1.fastq.gz	Fastqsanger.gz
	SRR10612094_2.fastq.gz	Fastqsanger.gz
	SRR10612095_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Motif-driven interactions between RNA and PRC2 regulate transcription elongation of target genes

Project description:the nature of the interaction between RNA and Polycomb repressive complex 2 (PRC2) has been an area of intensive investigation. Although PRC2 is now established as a bona fide RNA-binding protein, specific motifs have not been fully elucidated, nor has the association of PRC2-RNA complexes with active genes been reconciled. Here we employ denaturing CLIP to identify RNA motifs demonstrating high-affinity binding to PRC2 (Kd 11-80 nM). Mutating the motifs diminishes binding affinity in vitro and attenuates PRC2’s repressive function in vivo. A large fraction of interactions occurs at promoter-proximal regions and associates with POL-II pausing. Furthermore, although PRC2-associated nascent transcripts are highly expressed, ablating PRC2 further increases their expression. Thus, PRC2-RNA interactions are rheostats that operate at the level of transcription elongation to fine-tune gene activity, explaining why they frequently occur within active genes. PRC2-RNA interactions also impact expression of neighboring genes, supporting the classical model that RNA targets PRC2 to gene in cis. Our study supports a model in which RNA specifically targets PRC2 for two repressive functions — (i) control of POL-II pausing, and (ii) marking chromatin with H3K27me3.

2021-01-24 | GSE141700 | GEO

Motif-driven interactions between RNA and PRC2 are rheostats that regulate transcription elongation.

Project description:Although polycomb repressive complex 2 (PRC2) is now recognized as an RNA-binding complex, the full range of binding motifs and why PRC2-RNA complexes often associate with active genes have not been elucidated. Here, we identify high-affinity RNA motifs whose mutations weaken PRC2 binding and attenuate its repressive function in mouse embryonic stem cells. Interactions occur at promoter-proximal regions and frequently coincide with pausing of RNA polymerase II (POL-II). Surprisingly, while PRC2-associated nascent transcripts are highly expressed, ablating PRC2 further upregulates expression via loss of pausing and enhanced transcription elongation. Thus, PRC2-nascent RNA complexes operate as rheostats to fine-tune transcription by regulating transitions between pausing and elongation, explaining why PRC2-RNA complexes frequently occur within active genes. Nascent RNA also targets PRC2 in cis and downregulates neighboring genes. We propose a unifying model in which RNA specifically recruits PRC2 to repress genes through POL-II pausing and, more classically, trimethylation of histone H3 at Lys27.

| S-EPMC8050941 | biostudies-literature

The PRC1 and PRC2 proximal interactome

Project description:Polycomb Repressive Complexes PRC1 and PRC2 play a crucial role in silencing lineage-specific genes during early embryogenesis. To provide new insights in polycomb biology, we profiled the proximal interactome (proxeome) of the catalytic subunits RNF2 (PRC1) and EZH2 (PRC2) in mouse embryonic stem cells (mESCs). This revealed >100 proteins proximal to PRC2 and PRC1, which mainly comprise transcription factors, transcriptional regulators and RNA binding proteins. Interestingly, the EZH2 proxeome included both PRC complexes, while the RNF2 proxeome only identified PRC1 subunits. More than half of the PRC2 proximal proteins are shared with PRC1, revealing the molecular constitution of polycomb chromatin domains. We identified several pluripotency-associated transcription factors, including NANOG, for which we confirmed genomic co-localisation with PRC2. Upon PRC2 disruption, NANOG redistributes to specific sites containing its DNA binding motif. Finally, we compared PRC2 proximal interactomes between naïve mESCs, serum-cultured mESCs and embryoid bodies, altogether providing a comprehensive resource in different cellular contexts that may help to further decipher Polycomb biology.

2025-02-25 | PXD047569 | Pride

The PRC1 and PRC2 proximal interactome

2025-02-25 | PXD058327 | Pride

PRC2

Project description:PRC2

| PRJNA761389 | ENA

Interactions between JARID2 and noncoding RNAs regulate PRC2 recruitment to chromatin.

Project description:JARID2 is an accessory component of Polycomb repressive complex-2 (PRC2) required for the differentiation of embryonic stem cells (ESCs). A role for JARID2 in the recruitment of PRC2 to target genes silenced during differentiation has been put forward, but the molecular details remain unclear. We identified a 30-amino-acid region of JARID2 that mediates interactions with long noncoding RNAs (lncRNAs) and found that the presence of lncRNAs stimulated JARID2-EZH2 interactions in vitro and JARID2-mediated recruitment of PRC2 to chromatin in vivo. Native and crosslinked RNA immunoprecipitations of JARID2 revealed that Meg3 and other lncRNAs from the imprinted Dlk1-Dio3 locus, an important regulator of development, interacted with PRC2 via JARID2. Lack of MEG3 expression in human induced pluripotent cells altered the chromatin distribution of JARID2, PRC2, and H3K27me3. Our findings show that lncRNAs facilitate JARID2-PRC2 interactions on chromatin and suggest a mechanism by which lncRNAs contribute to PRC2 recruitment.

| S-EPMC4026005 | biostudies-literature

i-motif studies

Project description:i-motif studies

| PRJNA1044026 | ENA

Interactions between JARID2 and noncoding RNAs regulate PRC2 recruitment to chromatin

Project description:Interactions between JARID2 and noncoding RNAs regulate PRC2 recruitment to chromatin

| PRJNA210415 | ENA

Histone deacetylases positively regulate transcription through the elongation machinery

Project description:Chromatin immunoprecipitation sequencing (ChIP-seq) analysis of elongation factors in breast cancer cells upon HDAC inhibition.

2015-10-20 | E-MTAB-3631 | biostudies-arrayexpress