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Browse RicePLEX Experiment Data

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affy_xoo_rice-Transcriptomics-based identification of Xoo strain BAI3 Talc targets in rice
Sandrine Balzergue, Unité de Recherche en Génomique Végétale (URGV), UMR INRA 1165-CNRS 8114-UEVE, Evry Cedex, France (balzerg@evry.inra.fr,saez@univ-perp.fr)
Experiment design (9 hybridizations)
pathogen inoculation
•Xoo(BAI3 delta talc) •mock •Xoo(BAI3)

This experiment has been imported by PLEXdb from NCBI GEO (GSE19844) Series_summary: affy_xoo_rice - affy_xoo_rice - The Bacterial Leaf Blight ...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: affy_xoo_rice-Transcriptomics-based identification of Xoo strain BAI3 Talc targets in rice
Accession No: OS38
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
pathogen inoculation
•Xoo(BAI3 delta talc)   •mock   •Xoo(BAI3)
Quality Control: biological replicates
Treatment summary:
 pathogen inoculation  # replicates
 Xoo(BAI3 delta talc)  3
 mock  3
 Xoo(BAI3)  3
Total hybridizations: 9
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE19844)

Series_summary:
affy_xoo_rice - affy_xoo_rice - The Bacterial Leaf Blight disease of rice is due to Xanthomonas oryzae pv. oryzae. As for many pathogenic bacteria, it relies on a type 3 secretion system that is devoted to the injection of type 3 effectors into the eukaryotic host cell. These proteins are meant to suppress host basal defense responses and/or mimic some host regulatory function promoting bacterial survey in the plant. We are interested in the functional analysis of a subgroup of Xoo T3Es, that are specialized in host cell transcriptome remodelling. These effectors, therefore called TAL for Transcription Activator-Like proteins (also named AvrBs3/PthA-like), are often key virulence factors essential to Xoo pathogenicity such as the effector protein Talc of african Xoo strain BAI3. Our goal is to understand its function during disease development, by identifying rice host genes that are being directly up- or down-regulated by Talc. To that end, we aim at performing Affymetrix transcriptomic analysis, comparing leaf samples of a susceptible rice line inoculated with Xoo to leaves challenged with a Talc-deficient mutant and water-treated leaves. Highly induced genes are likely to be Talc primary targets and therefore potentially good susceptibility gene candidates.-The goal of the experiment is to identify the rice genes up- or down-regulated by the type III effector Talc from Xoo African strain BAI3, upon the inoculation of susceptible rice leaves 24 hours post-infection. To that end, the experimental design includes the inoculation of Nipponbare rice leaves with the virulent Xoo strain BAI3, that will be compared to Nipponbare rice leaves inoculated with a talc K.O. mutant strain and water.

Keywords: wt vs virulence mutant

Series_overall_design:
9 arrays - rice
Publication: none
Created: 2011-03-10 11:19:49
Last Update: 2011-03-10 12:05:34
Released: 2011-03-15
GEO Accession GSE19844
Submitter: PLEXdb Curator
Name: Sandrine Balzergue
Institution: Unité de Recherche en Génomique Végétale (URGV), UMR INRA 1165-CNRS 8114-UEVE, Evry Cedex, France
Head of Laboratory: J. Sáez-Vásquez
email(s):
Homepage:

 
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