|
| Status |
Public on Dec 05, 2021 |
| Title |
WT - R. solani AG5 (BC) [dcr2_AG2_BC_34] |
| Sample type |
SRA |
| |
|
| Source name |
WT - R. solani AG5 (BC)
|
| Organism |
Trichoderma atroviride |
| Characteristics |
genotype: Wild type
time point: Before contact
tissue: Mycelium
replicate: Replicate 2
|
| Treatment protocol |
Mycelium frozen in liquid nitrogen
|
| Growth protocol |
PDA medium in Petri dishes, complete darkness at 27°C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol RNA extraction
Illumina TruSeq RNA sample prep V2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Preprocessing with FastQC and Trimmomatic
Alingment to T. atroviride genome with Hisat2
Normalization
Differential expresion analysis with EdgeR and Limma packages
Genome_build: Trichoderma atroviride v2.0 (https://mycocosm.jgi.doe.gov/Triat2/Triat2.home.html)
Supplementary_files_format_and_content: Gene matrix in csv format
|
| |
|
| Submission date |
Dec 02, 2021 |
| Last update date |
Dec 05, 2021 |
| Contact name |
Alfredo Herrera Estrella |
| E-mail(s) |
alfredo.herrera@cinvestav.mx
|
| Organization name |
CINVESTAV
|
| Department |
LANGEBIO
|
| Lab |
Gene expression and development in fungi
|
| Street address |
Libr. Norte carr. León, Km 9.6
|
| City |
Irapuato |
| State/province |
Guanajuato |
| ZIP/Postal code |
36821 |
| Country |
Mexico |
| |
|
| Platform ID |
GPL31022 |
| Series (1) |
| GSE190033 |
RNAi components regulate the micoparasitism in Trichoderma atroviride |
|
| Relations |
| BioSample |
SAMN23569622 |
| SRA |
SRX13287686 |
