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Series GSE150434 Query DataSets for GSE150434
Status Public on Feb 10, 2021
Title ChIP-seq for Histone Variant H2A.W, H2A.X, H1 and H3K9me2 in WT and ddm1(-/-) to quantify loss of H2A.W in ddm1 1st generation
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Silencing of transposons by the chromatin remodeler DDM1 is mediated by the deposition of heterochromatic H2A variants.
Transposon mobility and silencing participates in genome evolution but also threaten genome integrity. DECREASED DNA METHYLATION 1 (DDM1) belongs to a conserved family of chromatin remodelers that are required to silence transposons, yet the underlying molecular mechanism has remained unknown. Here we show that DDM1 binds the histone variant H2A.W through two conserved domains that are required to deposit H2A.W and maintain transposon silencing. The mechanism of transcriptional silencing described here is likely shared among chromatin remodelers of the DDM1 family and heterochromatic H2A variants that have evolved in mammals.
 
Overall design ChIP-seq for Histone Variant H2A.W, H2A.X, H1 and H3K9me2 in WT and ddm1(-/-) was performed with 2 biological replicates each.
 
Contributor(s) Jamge B, Osakabe A
Citation(s)
  • Osakabe A, Jamge B, Axelsson E, Montgomery SA et al. The chromatin remodeler DDM1 prevents transposon mobility through deposition of histone variant H2A.W. Nat Cell Biol 2021 Apr;23(4):391-400. PMID: 33833428
Submission date May 12, 2020
Last update date Jul 21, 2021
Contact name Bhagyshree Babasaheb Jamge
E-mail(s) bhagyshree.jamge@gmi.oeaw.ac.at
Organization name Gregor Mendel Institute
Street address Dr. Bohr Gasse -3
City Vienna
ZIP/Postal code 1030
Country Austria
 
Platforms (1)
GPL17639 Illumina HiSeq 2500 (Arabidopsis thaliana)
Samples (28)
GSM4550558 Col_Input_Rep1
GSM4550559 Col_H3_Rep1
GSM4550560 Col_H2AX_Rep1
This SubSeries is part of SuperSeries:
GSE150436 The chromatin remodeler DDM1 silences transposons through deposition of the histone variant H2A.W
Relations
BioProject PRJNA632032
SRA SRP261341

Download family Format
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Supplementary file Size Download File type/resource
GSE150434_RAW.tar 742.6 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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