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Arabidopsis thaliana

ABSTRACT: MethlyC-Seq of WT (35S-SUC2) and anti-silencing mutants (arp6-5, pie1-7, h2a.z-2, idm1-9 and ros1-14)

PROVIDER: PRJNA299803 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR2813633_1.fastq.gz	Fastqsanger.gz
	SRR2813633_2.fastq.gz	Fastqsanger.gz
	SRR2813634_1.fastq.gz	Fastqsanger.gz
	SRR2813634_2.fastq.gz	Fastqsanger.gz
	SRR2813635_1.fastq.gz	Fastqsanger.gz

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MethlyC-Seq of WT (35S-SUC2) and anti-silencing mutants (arp6-5, pie1-7, h2a.z-2, idm1-9 and ros1-14)

Project description:Using MethylC-Seq to provide single-base resolution of DNA methylation status in 35S-SUC2 WT and anti-silencing mutants( arp6-5, pie1-7, h2a.z-2, idm1-9 and ros1-14）

2024-10-11 | GSE74347 | GEO

The SWR1 Complex Regulates Active DNA Demethylation in Arabidopsis

Project description:Using BS-Seq to provide single-base resolution of DNA methylation status in 35S-SUC2 WT and antisilencing mutants (arp6, pie1, h2a.z, idm1, and ros1)

2020-12-06 | GSE107751 | GEO

Histone acetylation recruits the SWR1 complex to regulate active DNA demethylation in Arabidopsis

Project description:The eukaryotic genome is divided into regions of heterochromatin and euchromatin. The histone variant H2A.Z specifically localizes at euchromatin and displays a genome-wide anti-correlation with DNA methylation. DNA methylation plays a central role in the epigenetic regulation of many eukaryotic genomes. Active DNA demethylation is critical for controlling the epigenome in plants and mammals. Yet, little is known about how DNA demethylases are recruited to target loci. Here we report that SWR1, a conserved histone H2A.Z deposition complex, regulates DNA demethylation in Arabidopsis thaliana by recruiting the plant DNA demethylase ROS1. A forward genetic screen for anti-silencing mutants identified two SWR1 components, PIE1 and ARP6, as cellular factors required for ROS1-mediated DNA demethylation. We further discovered two bromodomain-containing proteins, the methyl-DNA-binding protein AtMBD9, and NPX1, a plant homolog of ScBDF1 in yeast, as components of the SWR1 complex in Arabidopsis. AtMBD9 and NPX1 function redundantly in preventing DNA hypermethylation and transcriptional gene silencing by recognizing histone acetylation marks established by IDM1, a known regulator of DNA demethylation. We show that IDM1 is required for H2A.Z deposition in many genomic regions targeted for active DNA demethylation. We found that H2A.Z interacts with ROS1 and is required for locus-specific DNA demethylation and antisilencing. Our results reveal a role of H2A.Z in active DNA demethylation, and a mechanism through which DNA demethylases can be recruited to target regions by specific histone acetylation marks.

2019-08-01 | GSE115170 | GEO

Arabidopsis thaliana

Project description:H2A.Z ChIP-seq of WT, ros1-14, idm1-9, arp6-5 and pie1-7

| PRJNA299802 | ENA

H2A.Z ChIP-seq of WT, ros1-14, idm1-9, arp6-4 and pie1-6

Project description:H2A.Z ChIP-seq of WT, ros1-14, idm1-9, arp6-4 and pie1-6

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MethlyC-Seq of ros1-13 mutant

Project description:Using MethylC-Seq to provide single-base resolution of DNA methylation status in ros1-13 mutant Whole genome methylation maps of ros1-13 (with 35S-SUC2 transgene) was generated using BS-seq

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Arabidopsis thaliana

Project description:MethlyC-Seq of wild type (with 35S-SUC2 transgene) and idm3-1, mbd7-1 mutants (same 35S-SUC2 background)

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35S-SUC2 WT and antisilencing mutants

Project description:35S-SUC2 WT and antisilencing mutants

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Whole genome bisulfite sequencing of arp6-5 and pie1-7 Arabidopsis mutants

Project description:Using whole genome bisulfite sequencing to provide single-base resolution of DNA methylation status in arp6-5 and pie1-7 mutant

2024-10-11 | GSE122373 | GEO

ChIP-seq for Col-0, atchz1ab, and arp6-1 using H2A.Z and H3 antibodies

Project description:To investigate the influence of the AtChz1A/B and ARP6 in H2A.Z incorporation, we analysed genome-wide H2A.Z density in the mutant and wild-type by ChIP-seq. We then performed H2A.Z occupancy analysis using data obtained from ChIP-seq of 3 different plants including mutants and wild-type.

2023-04-01 | GSE215800 | GEO

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