|
| Status |
Public on Apr 11, 2016 |
| Title |
WT_70-15_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Mycelium
|
| Organism |
Pyricularia oryzae |
| Characteristics |
strain: 70-15
developmental stage: Mycelia under starvation
genotype: wild type
|
| Treatment protocol |
The mycelia were collected and incubated in H2O at 25˚C for 4 h
|
| Growth protocol |
The strains were cultured in liquid CM medium at 25˚C with shaking at 180 rpm for 2 d
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from ground mycelia in liquid nitrogen with RNeasy Plant mini kit (QIAGEN)
RNA libraries were prepared for sequencing using NEBNext RNA sample preparation kit (NEB) with standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Magnaporthe oryzae 70-15 (MG8) whole genome using tophat 2.0.8b with default parameters
Fragments Per Kilobase of exon per Megabase of library size (FPKM) were calculated using cufflinks 2.1.1
Genome_build: MG8
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample.
|
| |
|
| Submission date |
Sep 02, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Jianping Lu |
| E-mail(s) |
jplu@zju.edu.cn
|
| Organization name |
Zhejiang University
|
| Department |
College of Life Sciences
|
| Street address |
866 Yuhantang Road
|
| City |
Hangzhou |
| State/province |
Zhejiang |
| ZIP/Postal code |
310058 |
| Country |
China |
| |
|
| Platform ID |
GPL18618 |
| Series (1) |
| GSE61020 |
RNA-seq Analysis of VRF1 and VRF2-dependent Genes in the mycelia of Magnaporthe oryzae 70-15 |
|
| Relations |
| BioSample |
SAMN03015682 |
| SRA |
SRX694987 |
