|
| Status |
Public on Aug 21, 2016 |
| Title |
UBP1b ox heatstress rep. 1 |
| Sample type |
RNA |
| |
|
| Source name |
UBP1b ox heatstress
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Col-0
genotype/variation: UBP1 overexpressing
treatment: heat stress
|
| Treatment protocol |
The heat treatment was performed using 40°C condition. Samples were collected at different time points: 0 h (non-treated) and 1h.
|
| Growth protocol |
Seeds of Arabidopsis thaliana (Venus-UBP1b-overexpressing and Venus control, Col-0 ecotype) were grown on MS medium at 22°C under 16-h-light/8-h-dark for 14 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from at least three biological replicates with the Plant RNA Reagent (Thermo Fisher Scientific) according to the manufacturer’s instructions
|
| Label |
Cy3
|
| Label protocol |
Fluorescent-labeled (Cy3) cRNAs were prepared from 400 ng total RNA from each sample using a Quick Amp labeling kit (Agilent Technologies)
|
| |
|
| Hybridization protocol |
600 ng of cRNAs were hybridized to the microarray (GPL20796) at 65 degree for 17 hours, using Gene Expression Hybridization kit. After hybridization, the microarray was washed with Gene Expression Wash Buffer 1 (Agilent) and Gene Expression Wash Buffer (Agilent), and then dried immediately by brief centrifugation.
|
| Scan protocol |
The microarray was scanned by Agilent DNA Microarray Scanner G2505B and raw data was extracted using Feature Extraction program ver 9.1.
|
| Data processing |
RMA normalization was performed for signals of microarray probes using limma package (Ritchie et al., 2015) on R 2.12.1 program.
|
| |
|
| Submission date |
Feb 26, 2016 |
| Last update date |
Aug 21, 2016 |
| Contact name |
Akihiro Matsui |
| E-mail(s) |
akihiro.matsui@riken.jp
|
| Phone |
+81-45-503-9587
|
| Organization name |
RIKEN
|
| Department |
Center for Sustainable Resource Science
|
| Lab |
Plant Genomic Network Research Team
|
| Street address |
1-7-22 Suehiro-cho, Tsurumi-ku
|
| City |
Yokohama |
| State/province |
Kanagawa |
| ZIP/Postal code |
230-0045 |
| Country |
Japan |
| |
|
| Platform ID |
GPL20796 |
| Series (1) |
| GSE78713 |
Oligouridylate binding protein 1b functions in plant heat stress tolerance |
|
