|
| Status |
Public on Mar 07, 2012 |
| Title |
cat2-SD4-Rep2 |
| Sample type |
RNA |
| |
|
| Source name |
cat2, transferred to air (400 ppm) for 4 days in short day regime (8h light/16h dark)
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype: cat2
treatment group: transferred to air (400 ppm) for 4 days in short day regime (8h light/16h dark)
tissue: rosette leaf material
age: five-week-old plants
|
| Biomaterial provider |
Institute de Biologie de Plantes, Universite de Paris sud, Guillaume Queval
|
| Treatment protocol |
Transfer to air (400 ppm CO2) for 4 days in short day regime (8h light/16h dark)
|
| Growth protocol |
Plants were grown for five weeks in soil at high CO2 concentration (3000 ppm) in a short day regime (8h light/16h dark), 20 °C/18 °C, 65% relative humidity, 200 umol.m-2.s-1 irradiance at the leaf surface.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using TRIzol Reagent (Invitrogen, Carlsbad, CA) and further purified using Qiagen RNeasy MiniElute Columns. Concentration and quality of the RNA was determined with a Nanodrop ND 1000 spectrophotometer and quality was examined using the RNA 6000 Nano Assay (Agilent Technologies 2100 Bioanalyzer).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45 °C and at 60 rounds/min. The GeneChips were washed and stained in the Affymetrix Fluidics Station 400 and 450.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 7G.
|
| Description |
Sample was harvested 7h into the light period to ensure identical exposure to light at time of sampling
|
| Data processing |
RMA-normalized expression values as obtained with the affy package of BioConductor. The reported values are on log2-scale.
|
| |
|
| Submission date |
Mar 16, 2011 |
| Last update date |
Aug 15, 2018 |
| Contact name |
Rekin's Janky |
| E-mail(s) |
Nucleomics.Bioinformatics@vib.be
|
| Organization name |
VIB
|
| Department |
Nucleomics Core
|
| Street address |
Herestraat 49 Box 816
|
| City |
Leuven |
| ZIP/Postal code |
B-3000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE27985 |
Microarray analysis of Arabidopsis Col-0 and catalase 2 mutant define interactions between CO2, daylength and H2O2 |
|
| Relations |
| Reanalyzed by |
GSE118579 |
