|
| Status |
Public on Aug 05, 2018 |
| Title |
jaz9_mock-1 |
| Sample type |
RNA |
| |
|
| Source name |
jaz9_mock
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Col-0
developmental stage: seedling
tissue: whole plant
genotype: jaz9
treatment: mock treated
|
| Treatment protocol |
Six-d-old plants were incubated in autoclaved 1/2 MS liquid medium containing each filtered compound under a 16 h light /8 h dark cycle at 22°C in a Biotron NC-220 growth chamber. The plants were treated with or without ligands (3, ent6 or 8, 1 µM) for 8 h in the same growth chamber.
|
| Growth protocol |
A. thaliana ecotype Col-0 seeds were surface-sterilized in 5% sodium hypochlorite with 0.3% Tween20 and vernalized for 2–4 d at 4 °C. All seedlings were grown under a 16 h light (118 μmol·m−2·s−1; cool-white fluorescent light)/8 h dark cycle at 22 °C in a Biotron NC-220 growth chamber. WT and mutant seedlings were grown in 1/2 Murashige & Skoog (MS) liquid medium.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated with an RNeasy Mini Kit
|
| Label |
Cy3
|
| Label protocol |
Total RNA (400 ng) was labeled with fluorescently-labeled Cy3, 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 |
Gene expression control conditions
|
| Data processing |
Quantile normalization was performed with log transformation and data was processed through one way ANOVA with Gene Spring. Futher Tuckey's HSD test with FDR was applied for individual combinations (Agilent Technology v14.9)
|
| |
|
| Submission date |
Feb 20, 2018 |
| Last update date |
Aug 05, 2018 |
| Contact name |
Khurram Bashir |
| E-mail(s) |
[email protected]
|
| Phone |
+81-
|
| Organization name |
RIKEN
|
| Department |
Center for Sustainable Resource Science
|
| Lab |
Plant Genomics Network Research Team
|
| Street address |
1-7-22 Suehiro-cho
|
| City |
Yokohama-Shi, Tsurumi Ku |
| State/province |
Kanagawa |
| ZIP/Postal code |
230-0045 |
| Country |
Japan |
| |
|
| Platform ID |
GPL19830 |
| Series (1) |
| GSE110858 |
A rationally designed JAZ subtype-selective agonist of jasmonate perception |
|
