|Application:||Gene expression microarray analysis|
|Number of samples:||12|
|Release date:||Sep 23 2016|
|Last update date:||Nov 29 2017|
|Dataset link||Expression data from elicitor-treated Arabidopsis seedling roots [3h]|
RNA was extracted from roots of seedlings treated with cellobiose, chito-oligomers, OGs or a no-elicitor control, for 3 hours using Trizol LS (Invitrogen) according to the manufacturer's recommendations. RNA integrity was checked with an Agilent 2100 BioAnalyzer. An aliquot from each RNA sample was used as a template to make cDNA, which was assessed by qRT-PCR to confirm that samples had the expected WRKY30 expression profile at 3 hours post-treatment. Samples were then analyzed for gene expression with Affymetrix GeneChip Arabidopsis ATH1 Genome Arrays, using standard Affymetrix reagents and protocols at the QB3-Functional Genomics Lab at the University of California, Berkeley. Samples from three biological replicas for each treatment were analyzed. A total of 24 chips were used (4 treatments x 2 time points x 3 biological replicates). Microarray data were analyzed using the GCRMA algorithm as described previously (Fletcher et al., 2011); ratios of normalized probe set intensity values were calculated for each sample pair (in which M value = log2 [elicitor/control]) and then averaged among the three replicates.
Clarice de Azevedo Souza