|
Status |
Public on Nov 15, 2019 |
Title |
WT-M4 |
Sample type |
SRA |
|
|
Source name |
Botrytis cinerea B0510_wild-type
|
Organism |
Botrytis cinerea |
Characteristics |
strain: WT B0510
|
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.
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|
|
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 |
SAMN12250404 |
SRA |
SRX6428998 |