E-TABM-51 - Transcription profiling by array of seven ecotypes of Arabidopsis thaliana after time course treatment with salicylic acid

Released on 26 October 2005, last updated on 2 May 2014
Arabidopsis thaliana
Samples (21)
Array (1)
Protocols (7)
The study of natural genetic variation for plant disease resistance responses is a complementary approach to utilizing mutants to elucidate genetic pathways. While some key genes involved in pathways controlling disease resistance, and signaling intermediates such as salicylic acid and jasmonic acid, have been identified through mutational analyses, the use of genetic variation in natural populations permits the identification of change-of-function alleles, which likely act in a quantitative manner. Whole genome microarrays, such as Affymetrix GeneChips, allow for molecular characterization of the disease response at a genomics level and characterization of differences in gene expression due to natural variation. Differences in the level of gene expression, or expression level polymorphisms (ELPs), can be mapped in a segregating population to identify regulatory quantitative trait loci (expression QTLs) affecting host resistance responses. In order to identify an appropriate RIL population to map QTL controlling disease resistance responses, we performed a parental survey of 7 different Arabidopsis accessions. We treated vegetatively grown plants with either salicylic acid or a control solution, and harvested the plants at 3 different time points after chemical treatment. We present Affymetrix GeneChip microarray expression data for 3 biological replications of this parental survey
Experiment types
transcription profiling by array, compound treatment design, growth chamber study, strain or line design, time series design
Dina St. Clair <dastclair@ucdavis.edu>, Daniel J. Kliebenstein, Dina A. St Clair, Hans van Leeuwen, Kyunga Kim, Marilyn A.L. West, R W. Doerge, Richard W. Michelmore
Natural Variation among Arabidopsis thaliana Accessions for Transcriptome Response to Exogenous Salicylic Acid. van Leeuwen H, Kliebenstein DJ, West MA, Kim K, van Poecke R, Katagiri F, Michelmore RW, Doerge RW, St Clair DA. , Europe PMC 17630278
Investigation descriptionE-TABM-51.idf.txt
Sample and data relationshipE-TABM-51.sdrf.txt
Raw data (3)E-TABM-51.raw.1.zip, E-TABM-51.raw.2.zip, E-TABM-51.raw.3.zip
Array designA-AFFY-2.adf.txt