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Series GSE99936 Query DataSets for GSE99936
Status Public on Jun 13, 2017
Title MAPK-triggered chromatin reprogramming by histone deacetylase in plant innate immunity
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary Microbial-associated molecular patterns (MAMPs) activate several MAP Kinases (MAPKs), which are major regulators of the innate immune response in Arabidopsis that induce large-scale changes in gene expression. Here, we determined whether MAMP-triggered gene expression involves chromatin modifications at the chromosomal level. Our results show that histone acetylation and deacetylation are major regulators of MAMP-triggered gene expression and implicate the histone deacetylase HD2B in the reprogramming of defense gene expression and innate immunity. The MAPK MPK3 directly interacts with and phosphorylates HD2B, thereby regulating the intra-nuclear compartmentalization and function of the histone deacetylase. By studying a number of gene loci that undergo MAMP-dependent activation or repression, our data reveal a mechanistic model for how protein kinase signaling directly impacts chromatin reprogramming in plant defense.
Overall design Genome-wide correlation of H3K9ac modification and HD2B binding profile  to transcription.
Contributor(s) Latrasse D, Jégu T, Li H, de Zelicourt A, Raynaud C, Legras S, Gust A, Samajova O, Veluchamy A, Rayapuram N, Ramirez-Prado JS, Kulikova O, Colcombet J, Bigeard J, Genot B, Bisseling T, Benhamed M, Hirt H
Citation(s) 28683804
Submission date Jun 12, 2017
Last update date May 15, 2019
Contact name Alaguraj Veluchamy
Organization name King Abdullah University of Science and Technology
Department BESE
Street address Thuwal
City Thuwal
ZIP/Postal code 23955-6900
Country Saudi Arabia
Platforms (1)
GPL17639 Illumina HiSeq 2500 (Arabidopsis thaliana)
Samples (18)
GSM2665527 HD2B:GFP mock
GSM2665528 HD2B:GFP flg
GSM2665529 col0 - flg treated replicate1
BioProject PRJNA390146
SRA SRP109012

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE99936_HD2B_RPKM_RNAseq.txt.gz 2.1 Mb (ftp)(http) TXT
GSE99936_RAW.tar 122.7 Mb (http)(custom) TAR (of WIG)
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Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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