E-GEOD-51763 - Transcription profiling by high throughput sequencing of Arabidopsis edm2-4 mutant seedlings

Status
Released on 29 October 2013, last updated on 23 February 2016
Organism
Arabidopsis thaliana
Samples (2)
Protocols (4)
Description
A forward genetics screen led to the identification of the putative chromatin regulator EDM2 as a cellular anti-silencing factor and regulator of genome DNA methylation patterns. EDM2 contains a composite PHD finger domain that recognizes both active H3K4 and repressive H3K9 methylation marks at the intronic repeat elements in genes such as the histone H3K9 demethylase gene IBM1, and is necessary for maintaining the expression of these genes by promoting mRNA distal polyadenylation. Because of its role in maintaining IBM1 expression, EDM2 is required for preventing CHG methylation in the bodies of thousands of genes.Our results thus increase the understanding of anti-silencing, genome methylation patterns, and regulation of alternative RNA processing by intronic heterochromatin. Col-0 and edm2-4 total RNA are extracted from leaves and then polyA mRNAs are isolated for mRNA-seq.
Experiment type
RNA-seq of coding RNA 
Contacts
Lan Yang <yanglbio@gmail.com>, Honggui La, Jian-Kang Zhu
Citation
Arabidopsis EDM2 promotes IBM1 distal polyadenylation and regulates genome DNA methylation patterns. Lei M, La H, Lu K, Wang P, Miki D, Ren Z, Duan CG, Wang X, Tang K, Zeng L, Yang L, Zhang H, Nie W, Liu P, Zhou J, Liu R, Zhong Y, Liu D, Zhu JK. , Europe PMC 24248388
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-51763.idf.txt
Sample and data relationshipE-GEOD-51763.sdrf.txt
Links