|
| Status |
Public on Nov 13, 2018 |
| Title |
Col-0_8 h PEG plate_biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Col-0, whole seedlings, 8 h PEG
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype: Col-0 wild-type
tissue: Whole seedlings
developmental stage: 2 weeks after germination
treatment: 8 h polyethylene glycol (PEG)
|
| Treatment protocol |
For osmotic stress treatment, two-week old seedlings were transferred onto 1/2MS infused by PEG8000 (-1.2 MPa) for 8 h under continuous light conditions.
|
| Growth protocol |
Seeds were germinated and the seedlings were grown aseptically on solid 1/2MS media plus 1% sucrose at 23C under long-day (16 h light / 8 h darkness) photoperiodic conditions.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from three biological replicates by using the Plant RNA Purification 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 chips were scanned by Agilent DNA Microarray Scanner G2505B and raw data was extracted using Feature Extraction program ver 9.1.
|
| Data processing |
Image data were normalized by RMA statistical algorithms for signals of microarray probes using limma package (Ritchie et al., 2015) on R 3.4.0. program.
|
| |
|
| Submission date |
Feb 02, 2018 |
| Last update date |
Nov 13, 2018 |
| Contact name |
Shunsuke Watanabe |
| E-mail(s) |
shunsuke.watanabe@riken.jp
|
| Phone |
+81-45-503-9664
|
| Organization name |
RIKEN
|
| Department |
Center for Sustainable Resource Science
|
| Lab |
Dormancy and Adaptation Research Unit
|
| 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) |
| GSE110079 |
Comparative analysis of transcriptome profiles between wild-type Arabidopsis and two ABA deficit mutants aba3-1 and aba2-2 in osmotic stress conditions |
|
