|
| Status |
Public on Feb 25, 2013 |
| Title |
Genome-wide identification of mis-spliced/intron-retained transcripts in Arabidopsis thaliana rcf1-1 mutant plants under normal growth conditions as determined by tiling array analysis. |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by genome tiling array
|
| Summary |
Cold stress is one of the most severe environmental conditions which cause huge losses in crop production worldwide. We identified a DEAD box RNA helicase, RCF1 (Regulator of CBF gene expression 1) that controls pre-mRNA splicing of cold-stress-responsive genes including positive and negative regulators of CBF genes. We used whole genome tiling array analysis under normal growth conditions to identify transcripts which are mis-spliced/intron-retained in rcf1-1.
|
| |
|
| Overall design |
Fourteen-day-old wild type and rcf1-1 seedlings grown on MS agar medium (1x MS salts, 2% sucrose, 0.6% agar, pH 5.7) under normal conditions were harvested for total RNA isolation. RNA was extracted with Trizol reagent (Invitrogen) and synthesized into double-stranded DNA that was hybridized to whole genome tiling arrays (Affymetrix Arabidopsis Tiling1.0R). All hybridizations were performed with 3 biological replicates.
|
| |
|
| Contributor(s) |
Guan Q, Wu J, Zhang Y, Jiang C, Liu R, Chai C, Zhu J |
| Citation(s) |
23371945 |
| |
| Submission date |
Oct 05, 2012 |
| Last update date |
May 09, 2017 |
| Contact name |
Jianhua Zhu |
| Phone |
3014050920
|
| Organization name |
University of Maryland
|
| Department |
Plant Science and Landscape Architecture
|
| Street address |
2102 Plant Sciences Building
|
| City |
College Park |
| State/province |
MD |
| ZIP/Postal code |
20742 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL10977 |
[At35b_MR] Affymetrix Arabidopsis Tiling 1.0R Array |
|
| Samples (6)
|
|
| Relations |
| BioProject |
PRJNA176717 |
Less...
More...