|
| Status |
Public on Apr 27, 2006 |
| Title |
opr3_JA_22 hrs_Rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Stamens
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
A mutation in the gene encoding 12-oxophytodienoic acid reductase (OPR3) results in male sterility in Arabidopsis due to defects in anther development and pollen maturation. Described in Stintzi, A., and Browse, J. (2000). Proc. Natl. Acad. Sci. USA 97, 10625-10630
|
| Biomaterial provider |
Browse lab
|
| Treatment protocol |
Flower buds at developmental stage 12 from opr3 mutants were treated with 0.03% methyl jasmonate and stamens were harvested 22 hrs after treatment and immediately frozen in liquid nitrogen
|
| Growth protocol |
Plants were grown on soil under continuous illumination of 130 mmol m-2s-1 at 22 0C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from stamens using Trizol reagent following instructions from the manufacturer (Invitrogen Corporation, Carlsbad, CA) and was then purified on RNeasy columns (Qiagen, Valencia, CA).
|
| Label |
Biotin
|
| Label protocol |
Labeling and hybridization of RNA was carried out according to standard Affymetrix protocols (Affymetrix, Santa Clara, CA). In brief, ten micrograms of total RNA for each replicate was converted to cDNA, from which biotinylated cRNA target was synthesized. The resulting cRNA was purified on RNeasy columns and then fragmented for hybridization to ATH1 Arabidopsis GeneChips (Affymetrix, Santa Clara, CA).
|
| |
|
| Hybridization protocol |
Array was hybridized for 15 hrs, washed and stained with a streptavidin-phycoerythrin conjugate on the Affymetrix Fluidics Station 400 according to the standard Affymetrix protocol.
|
| Scan protocol |
GeneChips were scanned on an Agilent GeneArray Scanner 2500A (Agilent, Palo Alto, CA).
|
| Description |
Target value (TGT value) was set to 125 global scaling
|
| Data processing |
Gene chip data files were processed using Affymetrix Microarray Suite MAS 5.0
|
| |
|
| Submission date |
Apr 27, 2006 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Ajin D Mandaokar |
| E-mail(s) |
ajin@mail.wsu.edu
|
| Phone |
509-335-2337
|
| Fax |
509-335-7643
|
| Organization name |
Washington State University
|
| Department |
Institute of Biological Chemistry
|
| Lab |
Browse lab
|
| Street address |
447, Clark hall
|
| City |
Pullman |
| State/province |
WA |
| ZIP/Postal code |
99164-6340 |
| Country |
USA |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE4733 |
Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling |
|
| Relations |
| Reanalyzed by |
GSE119083 |
