|
| Status |
Public on Nov 15, 2019 |
| Title |
NP-T1-M1 |
| Sample type |
SRA |
| |
|
| Source name |
Botrytis cinerea B0510_NonPathogenic-T1
|
| Organism |
Botrytis cinerea |
| Characteristics |
strain: Mutant NonPathogenic-T1
|
| Growth protocol |
Wild type B05.10 and 4 non-pathogenic mutants were grown for 48 h at 21°C in liquid cucumber medium at 100 rpm.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using RNeasy plant midi kit (Qiagen). Traces of genomic DNA were removed by DNase treatment.
cDNA single-end libraries were prepared and sequenced (50 pb) on a HiSeq2500 Illumi-na platform at ViroScan-ProfileXpert (France)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Sequenced reads were mapped to BcinB0510 Botrytis cinerea genome (fungi.ensembl.org/Botrytis_cinerea/) using STAR-2.5.1b with parameters --alignIntronMin 20 --alignIntronMax 5000 --quantMode GeneCounts
Raw count data were submitted to DESeq2 for normalization and differential analysis
Genome_build: BcinB0510 Botrytis cinerea genome (fungi.ensembl.org/Botrytis_cinerea/)
Supplementary_files_format_and_content: Matrix tables (tab-delimited text files) with either raw values or normalized values for all features.
|
| |
|
| Submission date |
Jul 10, 2019 |
| Last update date |
Nov 15, 2019 |
| 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 |
GPL20826 |
| Series (1) |
| GSE134112 |
Gene expression profiles of 4 non-pathogenic mutants in the phytopathogenic fungus Botrytis cinerea |
|
| Relations |
| BioSample |
SAMN12250403 |
| SRA |
SRX6428999 |
