|
| Status |
Public on Jul 08, 2016 |
| Title |
Dtol-50d-DS1 |
| Sample type |
SRA |
| |
|
| Source name |
50 d plants
|
| Organism |
Cicer arietinum |
| Characteristics |
genotype: ICC4958
condition: Drought
days: 50
|
| Treatment protocol |
Root tissues were harsvested from the vegetative and reproductive stage plants subjected to control (water) and drought (water withhelding till transpiration ratio reached 0.2) stress.
|
| Growth protocol |
Plants were grown in the greenhouse.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tissue samples were collected and frozen in liquid nitrogen. Total RNA was isolated using TRI reagent from Sigma
Libraries were prepared using mRNA-Seq Sample Prep kit (Illumina) according to the manufacture’s protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Illumina 1.5/1.8 pipeline used for basecalling
Low-quality reads and reads containg adaptor/primer contamination were filtered using NGS QC Toolkit v2.3
Fragments per exon kilobase per million (FPKM) value was calculated for all the genes in each tissue sample
Website available for access of kabuli genome data: http://www.cicer.info/cgi-bin/gb2/gbrowse/kabuli/
Genome_build: Kabuli chickpea genome (http://www.icrisat.org/gt-bt/ICGGC/genomedata.zip)
Supplementary_files_format_and_content: tab delimited text files include FPKM values for each sample
|
| |
|
| Submission date |
Jun 25, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Mukesh Jain |
| Phone |
91-11-26704686
|
| Organization name |
Jawaharlal Nehru University
|
| Street address |
New Mehrauli Road
|
| City |
New Delhi |
| State/province |
New Delhi |
| ZIP/Postal code |
110067 |
| Country |
India |
| |
|
| Platform ID |
GPL20619 |
| Series (1) |
| GSE70274 |
Transcriptional response to drought stress in chickpea |
|
| Relations |
| BioSample |
SAMN03798192 |
| SRA |
SRX1074623 |
