|
| Status |
Public on Oct 15, 2017 |
| Title |
hda19 NaCl stress rep. 1 |
| Sample type |
RNA |
| |
|
| Source name |
hda19 NaCl stress
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype/variation: hda19 mutant
protocol: salt stress
ecotype: Col-0
|
| Treatment protocol |
The salt treatment was performed at 5 day after germination in 125 mM NaCl condition. Samples were collected at 2 h after the NaCl treatment.
|
| Growth protocol |
Seeds of Arabidopsis thaliana (Venus-UBP1b-overexpressing and Venus control, Col-0 ecotype) were grown on liguid MS medium containing 0.1% pure Agar at 22°C under 16-h-light/8-h-dark for 5 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from at least three biological replicates with the RNeasy Plant Mini Kit (QIAGEN) 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 (GPL19830) 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.
|
| Description |
Col-0
|
| 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 |
Nov 27, 2016 |
| Last update date |
Oct 15, 2017 |
| Contact name |
Akihiro Matsui |
| E-mail(s) |
[email protected]
|
| 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 |
GPL22706 |
| Series (1) |
| GSE90562 |
The distinct roles of class I and II RPD3-like histone deacetylases in salinity stress response |
|
