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DNA replication-coupled histone modification maintains Polycomb gene silencing in plants [ChIP-Rx]

ABSTRACT: DNA replication-coupled histone modification maintains Polycomb gene silencing in plants [ChIP-Rx]

PROVIDER: PRJNA393892 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5818180_1.fastq.gz	Fastqsanger.gz
	SRR5818180_2.fastq.gz	Fastqsanger.gz
	SRR5818190_1.fastq.gz	Fastqsanger.gz
	SRR5818190_2.fastq.gz	Fastqsanger.gz
	SRR5818181_1.fastq.gz	Fastqsanger.gz

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Similar Datasets

DNA replication-coupled histone modification maintains Polycomb gene silencing in plants

Project description:DNA replication-coupled histone modification maintains Polycomb gene silencing in plants

| PRJNA393888 | ENA

DNA replication-coupled histone modification maintains Polycomb gene silencing in plants [ChIP-Rx]

Project description:Propagation of patterns of gene expression through the cell cycle requires prompt restoration of epigenetic marks after the twofold dilution caused by DNA replication. Here, we show that the transcriptional repressive mark histone H3K27 trimethylation (H3K27me3) is restored in replicating plant cells through DNA replication-coupled modification of histone variant H3.1. Plants evolved a mechanism for efficient K27 trimethylation on H3.1, which is essential for inheritance of the silencing memory from mother to daughter cells. We illustrate how this mechanism establishes H3K27me3 mediated silencing during the developmental transition to flowering. Our study reveals transmission of H3K27me3 in plant cells through cell divisions, enabling H3K27me3 to function as an epigenetic mark.

2017-08-20 | GSE101220 | GEO

DNA replication-coupled histone modification maintains Polycomb gene silencing in plants [RNA-seq]

2017-08-20 | GSE101219 | GEO

DNA replication-coupled histone modification maintains Polycomb gene silencing in plants

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

2017-08-20 | GSE101221 | GEO

Interaction between Lactiplantibacillus plantarum RX-8 and Wickerhamomyces anomalus Y-5 under co-culture by proteomics analysis

Project description:In present study, it was found that the co-culture of Wickerhamomyces anomalus Y-5 and L. plantarum RX-8 could enhance bacteriocin production. To analyze the interaction between W. anomalus Y-5 and L. plantarum RX-8, a quantitative proteomic approach was used to analyze and compare the proteome in L. plantarum RX-8 and W. anomalus Y-5 under mono-culture and co-culture. In total, 339 differently expressed proteins (DEPs) were screened in comparison of L. plantarum RX-8 under mono-culture and co-culture, 645 proteins of W. anomalus Y-5 changed in mono-culture and co-culture. The Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis indicated that DEPs participated in various metabolic pathways such as PTS system, glycolysis, galactose metabolism, glutamate, aspartate, arginine and cysteine metabolism etc. These pathways were related to inducing mechanism on improving bacteriocin production by co-culture. Quantitative proteomic analysis-based strategies can therefore provide further evidence for new regulated targets to improve the production of bacteriocins.

2022-12-04 | PXD038315 | Pride

Chromatin-associated RNA degradation contributes to silencing of Polycomb target genes

Project description:Polycomb Repressive Complexes 1 and 2 (PRC1 and PRC2) are histone-modifying and -binding complexes that mediate the formation of facultative heterochromatin and are required for silencing of developmental genes and maintenance of cell fate. Multiple pathways of RNA decay work together to establish and maintain heterochromatin in fission yeast, including a recently identified role for a conserved RNA degradation complex called the rixosome or RIX1 complex. Whether RNA degradation also plays a role in the stability of mammalian heterochromatin remains unknown. Here we show that the rixosome contributes to silencing of many Polycomb targets in human cells. The rixosome associates with human PRC complexes and is enriched at promoters of Polycomb target genes. Importantly, depletion of either the rixosome or Polycomb results in accumulation of paused and elongating RNA polymerase at Polycomb-target genes. We identify point mutations in the RING1B subunit of PRC1 that disrupt the interaction between PRC1 and the rixosome and result in diminished silencing, suggesting that direct recruitment of the rixosome to chromatin is required for silencing. Finally, we show that the RNA kinase activity of the rixosome and the XRN2 exoribonuclease, which degrades RNAs with 5’ mono-phosphate groups generated by the rixosome, are required for silencing. Our findings suggest that rixosome-mediated degradation of nascent RNA is conserved from fission yeast to human, although in human cells the rixosome degrades RNA in facultative rather than constitutive heterochromatin.

2022-01-19 | PXD027966 | Pride

Chromatin-associated RNA degradation contributes to silencing of Polycomb target genes

2022-01-20 | PXD029403 | Pride

Lysosome-coupled mRNA transport maintains mitochondrial and ribosomal homeostasis in the axon

Project description:Lysosome-coupled mRNA transport maintains mitochondrial and ribosomal homeostasis in the axon

| PRJNA935762 | ENA

Polycomb Ezh1 maintains muscle stem cells quiescence through non-canonical regulation of the Notch signaling

Project description:Organismal homeostasis and regeneration are predicated on committed stem cells which, in tissues and organs with low turnover, reside for long periods in a reversible cell cycle arrest, defined as quiescence. Inability to exit or premature escape from quiescence, as occurring in pathological conditions and aging, is detrimental as it results in either lack of stem cell mobilization or pool depletion with consequent defective tissue homeostatis and regeneration. It is therefore unsurprising that quiescence is safeguarded by multilayered regulatory mechanisms. Here, we report that Polycomb Ezh1 confers quiescence to muscle stem cells (MuSCs) through a non-canonical function. In the absence of Ezh1, MuSCs spontaneously exit quiescence and, following repeated injuries, the stem cell pool is depleted resulting in failure to sustain appropriate muscle regeneration. Rather than regulating repressive Polycomb-dependent histone H3K27 methylation, Ezh1 actively maintains the Notch signaling pathway in MuSCs. Accordingly, selective genetic reconstitution of the Notch signaling corrects stem cell number and re-establishes quiescence of Ezh1-/- MuSCs.

2023-04-04 | GSE219232 | GEO

dKDM2 couples histone H2A ubiquitylation to histone H3 demethylation during Polycomb group silencing.

Project description:Transcription regulation involves enzyme-mediated changes in chromatin structure. Here, we describe a novel mode of histone crosstalk during gene silencing, in which histone H2A monoubiquitylation is coupled to the removal of histone H3 Lys 36 dimethylation (H3K36me2). This pathway was uncovered through the identification of dRING-associated factors (dRAF), a novel Polycomb group (PcG) silencing complex harboring the histone H2A ubiquitin ligase dRING, PSC and the F-box protein, and demethylase dKDM2. In vivo, dKDM2 shares many transcriptional targets with Polycomb and counteracts the histone methyltransferases TRX and ASH1. Importantly, cellular depletion and in vitro reconstitution assays revealed that dKDM2 not only mediates H3K36me2 demethylation but is also required for efficient H2A ubiquitylation by dRING/PSC. Thus, dRAF removes an active mark from histone H3 and adds a repressive one to H2A. These findings reveal coordinate trans-histone regulation by a PcG complex to mediate gene repression. Microarray analysis of dKDM2, dRING, PC, PH and PSC target genes in Drosophila S2 cells Expression profiles of Drosophila S2 cells RNAi depleted (KD) for dKDM2, dRING, PC, PH or PSC were compared with expression profile of untreated S2 cells (Mock)

2011-12-13 | E-GEOD-34390 | biostudies-arrayexpress

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