|
| Status |
Public on Jan 01, 2014 |
| Title |
pAP1_AP1-GR_2d vs 4d_rep1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
pAP1_AP1-GR_2d_rep1
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype: pAP1:AP1-GR ap1 cal inflorescences
treatment: Dex
time point: 2d
tissue: inflorescences
|
| Treatment protocol |
pAP1:AP1-GR ap1-1 cal-1 plants were induced daily with DEX- induction solution (2 μM Dexamethasone, 0.01% (v/v) ethanol, and 0.01% Silwet L-77). Material was collected before DEX-induction, as well as at 2 days, 4 days and 8 days after the first treatment.
|
| Growth protocol |
All plants were grown at 20 °C under long day condition (16 h light, 8 h dark).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from tissue samples using the Plant Total RNA kit (Sigma-Aldrich) according to the manufacturer’s instructions. Quality of RNA samples was evaluated using a Bioanalyzer and a RNA Nano 6000 kit (Agilent). RNA concentrations were determined using a Nanodrop ND-1000 spectrophotometer (Thermo Fisher Scientific).
|
| Label |
Cy3
|
| Label protocol |
Agilent microarrays were used following manufacturer's instructions. RNA samples were labeled with fluorescent dyes using the Quick Amp Labeling Kit (Agilent).
|
| |
|
| Channel 2 |
| Source name |
pAP1_AP1-GR_4d_rep1
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype: pAP1:AP1-GR ap1 cal inflorescences
treatment: Dex
time point: 4d
tissue: inflorescences
|
| Treatment protocol |
pAP1:AP1-GR ap1-1 cal-1 plants were induced daily with DEX- induction solution (2 μM Dexamethasone, 0.01% (v/v) ethanol, and 0.01% Silwet L-77). Material was collected before DEX-induction, as well as at 2 days, 4 days and 8 days after the first treatment.
|
| Growth protocol |
All plants were grown at 20 °C under long day condition (16 h light, 8 h dark).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from tissue samples using the Plant Total RNA kit (Sigma-Aldrich) according to the manufacturer’s instructions. Quality of RNA samples was evaluated using a Bioanalyzer and a RNA Nano 6000 kit (Agilent). RNA concentrations were determined using a Nanodrop ND-1000 spectrophotometer (Thermo Fisher Scientific).
|
| Label |
Cy5
|
| Label protocol |
Agilent microarrays were used following manufacturer's instructions. RNA samples were labeled with fluorescent dyes using the Quick Amp Labeling Kit (Agilent).
|
| |
|
| |
| Hybridization protocol |
Agilent microarrays were used following manufacturer's instructions. Microarray hybridizations (65ºC, 16h) and washes were performed with Agilent reagents and following standard protocols.
|
| Scan protocol |
Microarrays were scanned using an Agilent DNA Microarray Scanner G2505C, and data were acquired using Agilent's Feature Extraction Software version 10.5.1.1.
|
| Data processing |
Data were processed with the Resolver data analysis system (Rosetta Biosoftware, Seattle, WA).
|
| |
|
| Submission date |
Jun 14, 2013 |
| Last update date |
Jan 01, 2014 |
| Contact name |
Jose Luis Riechmann |
| E-mail(s) |
joseluis.riechmann@cragenomica.es
|
| Organization name |
Center for Research in Agricultural Genomics
|
| Street address |
Campus UAB - Edifici CRAG
|
| City |
Bellaterra |
| State/province |
Barcelona |
| ZIP/Postal code |
08193 |
| Country |
Spain |
| |
|
| Platform ID |
GPL9984 |
| Series (1) |
| GSE47981 |
Expression profile pAP1-AP1-GR ap1cal inflorescences - time series (days) |
|
