|
| Status |
Public on Sep 27, 2013 |
| Title |
WT_Dark_r2 |
| Sample type |
RNA |
| |
|
| Source name |
Botrytis cinerea B0510_wild-type
|
| Organism |
Botrytis cinerea |
| Characteristics |
genotype: Wild-type
light treatment: Dark
|
| Growth protocol |
Wild type B05.10 and the deltaBcLTF1 mutant were grown for 3 days on solid CM before non-sporulating mycelia were transferred to solid CM covered with cellophane overlays. Cultures were incubated for 52 h in darkness, and then half of the cultures were transferred to white light. After 60 min all four cultures (WT-D; WT-L; deltaBcLTF1-D; deltaBcLTF1-L) were harvested.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the Trizol procedure. Total RNA was treated with the DNA-free kit to remove any trace of DNA (Ambion - Applied Biosystems, France).
|
| Label |
Cy3
|
| Label protocol |
Synthesis of double-stranded cDNA and Cy3-labeling were done by PartnerChip (http://www.partnerchip.fr/) using the procedures established by NimbleGen (Roche) and the reagents from Invitrogen (Life technologies, France)
|
| |
|
| Hybridization protocol |
Hybridization on microarrays were done by PartnerChip (http://www.partnerchip.fr/) using the procedures established by NimbleGen (Roche) and the reagents from Invitrogen (Life technologies, France).
|
| Scan protocol |
Scanning was performed by PartnerChip (http://www.partnerchip.fr/) using NimbleScan.
|
| Description |
This sample is of wild-type Botrytis cinerea B0510, cultured in darkness. It is the second of four wild-type_dark (WT_D) biological replicates used in this experiment, each from separate cultures.
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the ANAIS website (http://anais.versailles.inra.fr/).
|
| |
|
| Submission date |
Sep 26, 2013 |
| Last update date |
Sep 27, 2013 |
| Contact name |
Adeline SIMON |
| Organization name |
INRAE
|
| Lab |
BIOGER
|
| Street address |
22 place de l'agronomie
|
| City |
Palaiseau |
| ZIP/Postal code |
91120 |
| Country |
France |
| |
|
| Platform ID |
GPL17773 |
| Series (1) |
| GSE51192 |
Light and BcLTF1-dependent gene expression profiles in the phytopathogenic fungus Botrytis cinerea |
|
