strain: NR2 infection: A. euteiches time: 1 dpi tissue: root sample type: medicago truncatula (a17xf83005.5) - harvest date 23-02-11
Treatment protocol
see Djebali et al, MPMI, 2009
Growth protocol
roots - -- In vitro conditions on M medium - 16h light 8h dark 22°C
Extracted molecule
total RNA
Extraction protocol
B1R_2:563ng.
Label
Biotin
Label protocol
labelling Biotin direct, amplification=yes, cRNA 20 ug.
Hybridization protocol
labelled extract quantity: 15ug
Scan protocol
GCOS, Biotin:pmt voltage 570nm,650V,laser power 1
Description
-Aphanomyces euteiches (Ae), a soilborne oomycete, is the causal agent of pea root rot, a major disease on various cultivated legume species. To gain insight into the mechanism underlying partial resistance to this pathogen, a pathosystem has been developed using the model legume Medicago truncatula (Mt). Two Mt accessions A17 and F83005.5 have been shown to display differential responses upon infection with Ae (partially resistance and susceptibility, respectively). Genetic analyses using a RIL population derived from a cross between those two lines lead to the identification of, prAe1, a major QTL involved in the observed partial resistance. Near isogenic lines (NIL) NR2 and NS2 whose genomes are identical except at the prAe1 locus (resistant alleles for NR2, susceptible alleles for NS2) have been generated, and the same differential response toward Ae has been found. The aim of this experiment is to analyse and compare NR2 and NS2 transcriptomes at 1 and 6 days after Ae inoculation to identify gene networks that are regulated in a prAe1 dependent manner.
Data processing
The data were normalized with the gcrma algorithm (Irizarry et al., 2003), available in the Bioconductor package (Gentleman and Carey, 2002).
