|
| Status |
Public on May 01, 2017 |
| Title |
seeds harvested at stage 7.2 and dried, replica 1 |
| Sample type |
SRA |
| |
|
| Source name |
seed
|
| Organism |
Glycine max |
| Characteristics |
genetic background: BRS284
developmental stage: stage 7.2
treatment: dried
|
| Treatment protocol |
Seeds were freshly harvested and frozen inLN2 or subjected to fast drying by incubation at 40% RH at 30 ° C until they reached a moisture content of 10% (dry weight basis).
|
| Growth protocol |
Soybean plants (Glycine max L. cv. BRS284) were grown using standard planting and cultural techniques in the experimental farm of São Paulo State University in Botucatu (Brazil) in two consecutive years (2012/2013; 2013/2014).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from while seeds using the NucleoSpin® RNA Plant kit (Macherey-Nagel)
cDNA libraries were generated using the TruSeq RNA sample preparation kit (Illumina, San Diego, CA, USA) to obtain single-end 100-bp long inserts
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Gm_7.2da
|
| Data processing |
Sequencing adaptors and low complexity reads were removed in an initial filtering step.
After quality control, reads were mapped to the ‘Williams 82’ soybean reference genome (assembly Glyma.Wm82.a1.0, annotation v2.0) using Bowtie2
Three lanes of a sequencing flowcell were clustered using the TruSeq PE Cluster kit v3-cBot-HS kit (Illumina)
Genome_build: Glyma.Wm82.a1.0
|
| |
|
| Submission date |
Apr 25, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Julia Buitink |
| E-mail(s) |
julia.buitink@inrae.fr
|
| Phone |
+33241225544
|
| Organization name |
INRAE
|
| Department |
BAP
|
| Lab |
SEED
|
| Street address |
42 rue Georges Morel
|
| City |
Beaucouze |
| ZIP/Postal code |
49070 |
| Country |
France |
| |
|
| Platform ID |
GPL19246 |
| Series (1) |
| GSE98199 |
Expression profiling of Glycine max seed maturation by high throughput sequencing |
|
| Relations |
| BioSample |
SAMN06830779 |
| SRA |
SRX2764640 |
