|
| Status |
Public on Feb 01, 2015 |
| Title |
DeltaBcVEL1_r1 |
| Sample type |
RNA |
| |
|
| Source name |
Botrytis cinerea B0510_deltaBcVEL1
|
| Organism |
Botrytis cinerea |
| Characteristics |
genotype: Mutant deltaBcVEL1
|
| Growth protocol |
Conidial suspensions of wild type B05.10 and mutant strains deltaBcVEL1 and deltaBcLAE1 were spread onto solid grape juice medium with cellophane overlays, and incubated for 48 h.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted according to the total RNA isolation protocol described by Reid et al. (2006), but with 10M rather than 8M LiCl, and resuspended in RNAse/DNAse-free water. The total RNA was then treated with a DNA-freeTM kit to remove any trace of DNA (Ambion – Applied Biosystems).
|
| 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 Botrytis cinerea B0510 mutant deltaBcVEL1, cultured onto solid grape juice medium with cellophane overlays. It is the first of four deltaBcVEL1 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 |
Nov 05, 2014 |
| Last update date |
Feb 01, 2015 |
| 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) |
| GSE63021 |
The VELVET complex in the gray mold fungus Botrytis cinerea: impact of BcLAE1 on differentiation, secondary metabolism and virulence |
|
