|
| Status |
Public on Sep 15, 2016 |
| Title |
V446_sRNAs |
| Sample type |
SRA |
| |
|
| Source name |
Mycellium
|
| Organism |
Botrytis paeoniae |
| Characteristics |
strain: V446
origin: Grapevine
|
| Growth protocol |
Stock cultures were stored in 20% glycerol at -80ºC and in potato dextrose agar (PDA) plates at 4ºC.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Fresh mycelia were dried by pressing with sterile filter paper and total RNA was purified from 1 g of dry mycelia using TRIZOL reagent (Invitrogen) as described (Rodríguez-García et al. 2014)
5-10 ug of total RNA was used for library preparation as described (Al Rwahnih et al. 2011) and subjected to deep-sequencing using the Illumina platform (HiSeq2000, 2 x 100 bp length, IGA Technology Services, Udine, Italy, http://www.igatechnology.com) (Donaire et al. 2016)
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Library strategy: smallRNA-Seq
Illumina Casava1.7 software used for basecalling.
sequence reads were trimmed for adapter sequences using AdapterRemoval
Reads were filtered by length in 18 to 30 nts and unique reads were count using our own Perl scripts
Supplementary_files_format_and_content: unique sequences and their abundance
|
| |
|
| Submission date |
Jun 13, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Livia Donaire |
| E-mail(s) |
ldonaire@cebas.csic.es
|
| Phone |
0034968396200
|
| Organization name |
Centro de Edafología y Biología Aplicada del Segura
|
| Department |
Plant Pathology
|
| Street address |
Campus de Espinardo
|
| City |
Murcia |
| State/province |
Murcia |
| ZIP/Postal code |
30100 |
| Country |
Spain |
| |
|
| Platform ID |
GPL22005 |
| Series (1) |
| GSE83282 |
Deep sequencing of mycovirus-derived small RNAs from the fungi Botrytis spp. |
|
| Relations |
| BioSample |
SAMN05233216 |
| SRA |
SRX1838897 |
