Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE169180 | GEO | 2021/06/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [RNA-seq]

Project description:DNA methylation can be established by RNA-directed DNA methylation (RdDM) in plants. The association of RNA polymerase V (Pol V) with chromatin is a critical step for RdDM. While the SRA-domain-containing proteins SUVH2 and SUVH9 and the DDR complex are known to be required for the association of Pol V with chromatin, it is unknown whether the association of Pol V with chromatin requires other unidentified regulators. Here we found that SUVH9 is able to interact with a conserved histone-interaction protein, FVE, and a previously uncharacterized RRM domain-containing protein, which we named RRM1. We demonstrated that FVE facilitates the association of Pol V with chromatin and thus contributes to DNA methylation at a substantial subset of RdDM target loci, while RRM1 is only slightly involved in RdDM. FVE-dependent RdDM target loci are more abundant in gene-rich chromosome arms than FVE-independent RdDM target loci. FVE was previously shown to be a shared subunit of the RPD3-type histone deacetylase complex and the polycomb-type histone H3K27 trimethyltransferase complex, both of which are involved in transcriptional repression. This study reveals a previously uncharacterized role of FVE in RdDM and suggests that FVE may coordinate RdDM, histone deacetylation, and H3K27 trimethylation, thus ensuring transcriptional silencing of TEs in gene-rich chromosome arms to protect genes from harmful effects of potentially transcribed TEs.

2021-06-12 | GSE169174 | GEO

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [ChIP-seq]

2021-06-12 | GSE169179 | GEO

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [Bisulfite-seq]

2021-06-12 | GSE169178 | GEO

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [H3K27me3 ChIP-Seq].

2021-06-01 | GSE173630 | GEO

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin

Project description:FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin

| PRJNA715485 | ENA

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [RNA-seq]

Project description:FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [RNA-seq]

| PRJNA715474 | ENA

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [ChIP-seq]

Project description:FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [ChIP-seq]

| PRJNA715486 | ENA

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [Bisulfite-seq]

Project description:FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [Bisulfite-seq]

| PRJNA715488 | ENA

FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [H3K27me3 ChIP-Seq].

Project description:FVE promotes RNA-directed DNA methylation by facilitating the association of RNA polymerase V with chromatin [H3K27me3 ChIP-Seq].

| PRJNA726434 | ENA

MSI4/FVE is required for accumulation of 24-nt siRNAs and DNA methylation at a subset of target regions of RNA-directed DNA methylation.

Project description:DNA methylation is an important epigenetic mark. In plants, de novo DNA methylation occurs mainly through the RNA-directed DNA methylation (RdDM) pathway. Researchers have previously inferred that a flowering regulator, MULTICOPY SUPPRESSOR OF IRA1 4 (MSI4)/FVE, is involved in non-CG methylation at several RdDM targets, suggesting a role of FVE in RdDM. However, whether and how FVE affects RdDM genome-wide is not known. Here, we report that FVE is required for DNA methylation at thousands of RdDM target regions. In addition, dysfunction of FVE significantly reduces 24-nucleotide siRNA accumulation that is dependent on factors downstream in the RdDM pathway. By using chromatin immunoprecipitation and sequencing (ChIP-seq), we show that FVE directly binds to FVE-dependent 24-nucleotide siRNA cluster regions. Our results also indicate that FVE may function in RdDM by physically interacting with RDM15, a downstream factor in the RdDM pathway. Our study has therefore revealed that FVE, by associating with RDM15, directly regulates DNA methylation and siRNA accumulation at a subset of RdDM targets.

| S-EPMC9292519 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data