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RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes

ABSTRACT: RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes

PROVIDER: PRJNA849582 | ENA |

REPOSITORIES: ENA

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RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [Hi-C]

Project description:Chicken erythrocytes are nucleated cells often referred to as transcriptionally inactive, although the epigenetic changes and chromatin remodeling that mediate transcriptional repression and the extent of gene silencing during avian terminal erythroid differentiation are not fully understood. Here we characterized the changes in gene expression, chromatin accessibility, genome organization, and chromatin nuclear disposition during the terminal stages of erythropoiesis in chicken and found a complex chromatin reorganization at different genomic scales. We identified a robust decrease in transcription in erythrocytes. Nevertheless, a set of genes maintains their expression in erythrocytes, including genes involved in RNA pol II promoter-proximal pausing. Erythrocytes exhibit an inverted nuclear architecture and reposition euchromatin towards the nuclear periphery together with the paused RNA polymerase. In erythrocytes, chromatin domains are partially lost genome-wide except at mini domains retained around paused promoters. Our results suggest that promoter-proximal pausing of the RNA pol II participates in the transcriptional regulation of the erythroid genome and highlight the role of RNA polymerase in the maintenance of local chromatin organization.

2023-06-08 | GSE206192 | GEO

RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [ATAC-seq]

2023-06-08 | GSE206191 | GEO

RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [ChIP-Seq]

2023-06-08 | GSE228694 | GEO

RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [RNA-seq]

2023-06-08 | GSE206193 | GEO

RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [Hi-C]

Project description:RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [Hi-C]

| PRJNA849655 | ENA

RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [ChIP-Seq]

Project description:RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [ChIP-Seq]

| PRJNA951220 | ENA

RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [ATAC-seq]

Project description:RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [ATAC-seq]

| PRJNA849585 | ENA

RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [RNA-seq]

Project description:RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes [RNA-seq]

| PRJNA849587 | ENA

RNA polymerase II pausing contributes to maintain chromatin organization in erythrocytes

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

2023-06-08 | GSE206194 | GEO

Reduced polymerase pausing compensates for increased chromatin accessibility in the aging liver

Project description:Regulation of gene expression is linked to the organization of the genome. With age, chromatin alterations occur on all levels of genome organization, accompanied by changes in the gene expression profile. However, little is known about the changes on the level of transcriptional regulation. Here, we used a multi-omics approach and integrated ATAC-, RNA- and NET-seq to identify age-related changes in the chromatin landscape of murine liver and to investigate how these are linked to transcriptional regulation. We provide the first systematic inventory of the connection between aging, chromatin accessibility and transcriptional regulation in a whole tissue. Aging in murine liver is characterized by an increase in chromatin accessibility at promoter regions, but not in an increase of transcriptional output. Instead, aging is accompanied by a decrease of promoter-proximal pausing of RNA polymerase II (Pol II). We propose that these changes in transcriptional regulation are due to a reduced stability of the pausing complex and may represent a mechanism to compensate for the age-related increase in chromatin accessibility in order to prevent aberrant transcription.

2022-09-15 | PXD034564 | Pride

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