Transcriptomics,Genomics

Dataset Information

38

Expression analysis of Arabidopsis thaliana Col-0 and parg1 with and without PARP inhibitor (3AB, 3MB), with and without MAMP (flg22, elf18)


ABSTRACT: Genome-wide gene expression analysis of the effects of PARP inhibitor (3AB) and, separately, a parg1 knockout, on early microbe-associate molecular pattern (MAMP)-induced gene expression in the plant basal defense response. Arabidopsis thaliana wild-type (Col-0), 3AB-treated and parg1-2 T-DNA knockout plants responding to the MAMP elicitors flg22 or elf18 were studied. The mutant and PARP inhibitors analyzed in this study are further described in Adams-Phillips, L.,C., Briggs, A.,G., Bent, A., F. 2010. Disruption of poly(ADP-ribosyl)ation mechanisms alters responses of Arabidopsis to biotic stress. Planty Physiol. 152(1):267-80 DOI: 10.1104/pp.109.148049. Overall design: A 27 chip study using total RNA recovered from three separate wild-type extracts of Arabidopsis Col-0 and three separate cultures of a parg1-2 knockout strain, in which a TDNA insertion has knocked out expression of At2g31870, treated for 1 hour with vehicle, flg22, elf28, 3AB, or 3MB. Each chip measures the expression level of 30,387 genes from Arabidopsis thaliana Col-0 with 6 60-mer probe pairs (PM/MM) per gene, with two-fold technical redundancy and three-fold biological redundancy.

INSTRUMENT(S): NimbleGen Arabidopsis thaliana expression array [2006-08-28_Arabidopsis_60mer_expr]

SUBMITTER: Amy Graham Briggs  

PROVIDER: GSE100205 | GEO | 2017-06-20

SECONDARY ACCESSION(S): PRJNA390984

REPOSITORIES: GEO

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Publications

A transcriptomics approach uncovers novel roles for poly(ADP-ribosyl)ation in the basal defense response in Arabidopsis thaliana.

Briggs Amy G AG   Adams-Phillips Lori C LC   Keppler Brian D BD   Zebell Sophia G SG   Arend Kyle C KC   Apfelbaum April A AA   Smith Joshua A JA   Bent Andrew F AF  

PloS one 20171228 12


Pharmacological inhibition of poly(ADP-ribose) polymerase (PARP) or loss of Arabidopsis thaliana PARG1 (poly(ADP-ribose) glycohydrolase) disrupt a subset of plant defenses. In the present study we examined the impact of altered poly(ADP-ribosyl)ation on early gene expression induced by the microbe-associate molecular patterns (MAMPs) flagellin (flg22) and EF-Tu (elf18). Stringent statistical analyses and filtering identified 178 genes having MAMP-induced mRNA abundance patterns that were altered  ...[more]

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