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| Status |
Public on Mar 30, 2006 |
| Title |
Difference in expression between SA- and mock-treated leaves 2 hours after application |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by array
|
| Summary |
Arabidopsis plants, ecotype Columbia, were sprayed with surfactant alone (0.01% Silwet) or surfactant and 1mM salicylic acid until all leaves were wet, 3 to 4 weeks after germination (before flowering). Leaves were harvested and frozen in liquid nitrogen. Three biological replicates were obtained over a period of 6 months. For each replicate, RNA was extracted using standard phenol/chloroform protocol and biotin-labeled cRNA was synthesized. cRNA was hybridized to 6 ATH1 GeneChip arrays. Cel files produced by the Affymetrix software were imported into R. Background subtraction, normalization and probe summaries were performed with the rma, quantile.normalization and median polish options of the rma function. Comparison of the SA- versus mock-treated tissue provides insight on the genes involved in systemic acquired resistance in Arabidopsis.
Keywords: salicylic acid, Arabidopsis, stress response, defense,
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| |
|
| Overall design |
3 mock-treated and 3 SA-treated biological replicates were analyzed (one array each)
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| |
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| Contributor(s) |
Thibaud-Nissen F, Redman JC, Johnson C, Arias J, Town CD |
| Citation(s) |
16824183 |
| |
| Submission date |
Jan 06, 2006 |
| Last update date |
Jun 12, 2017 |
| Contact name |
Francoise Thibaud-Nissen |
| E-mail(s) |
[email protected]
|
| Phone |
301-795-7608
|
| Fax |
301-838-0208
|
| Organization name |
The Institute for Genomic Research
|
| Lab |
Arabidopsis Lab
|
| Street address |
9712 Medical Center Dr
|
| City |
Rockville |
| State/province |
MD |
| ZIP/Postal code |
20850 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
|
| Samples (6)
|
| GSM90867 |
2-hour mock-treated leaf material biological replicate 1 |
| GSM90868 |
2-hour mock-treated leaf material biological replicate 2 |
| GSM90869 |
2-hour mock-treated leaf material biological replicate 3 |
| GSM90870 |
leaf material harvested 2 hours after spraying of 1 mM salicylic acid biological replicate 1 |
| GSM90871 |
leaf material harvested 2 hours after spraying of 1 mM salicylic acid biological replicate 2 |
| GSM90872 |
leaf material harvested 2 hours after spraying of 1 mM salicylic acid biological replicate 3 |
|
| Relations |
| BioProject |
PRJNA94251 |
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