|
| Status |
Public on Aug 03, 2022 |
| Title |
Combined water deficit and heat stress replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
Buds
|
| Organism |
Glycine max |
| Characteristics |
treatment: Combined water deficit and heat stress replicate 2
tissue: Buds
cultivar: Magellan
|
| Treatment protocol |
At R1 developmental stage, plants in the WD and WD+HS treatments were supplied with 30% of the water available for transpiration, while plants in the CT and HS treatments were well watered. Plants in the HS and WD+HS treatments were further subjected to HS 38 °C.
|
| Growth protocol |
Soybean (Glycine max, cv Magellan) seeds were inoculated with Bradyrhizobium japonicum inoculum and germinated in Promix under short day growth condition (12-h light/12-h dark), 500 μmol photons m-2 s-1, at 28/24 ℃ day/night temperature for a week in growth chambers BDR16, Conviron. After a week, seedlings from trays were transplanted into pots containing 1 kg of Promix HP soaked in 1 l of water-fertilizer, Zack’s classic blossom booster 10-30-20. Plants were then grown for the next 16-18 days (until start of first open flower, R1 developmental stage) under 28/24 ℃ day/night temperatures as above, but the light intensity (12-h light/12-h dark photoperiod) was increased to 1000 μmol photons m-2 s-1. Plants were fertilized twice a week.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Soybean flowers (Stage II and III, from R2 plants) were collected from plants and immediately frozen in liquid nitrogen. About 30-40 flowers were pooled together from 8-10 different plants for each biological repeat and total RNA was isolated using Qigen Plant RNeasy mini kit.
RNA libraries for sequencing were prepared using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
WD+HS2
|
| Data processing |
Sequencing, and bioinformatic analyses were performed by Novogene, Inc.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to G_max V2.1 whole genome using Hisat2 V2.2.1
Fragments Per Kilobase of exon per Megabase of library size (FPKM) were calculated using a protocol from Trapnell et al., Nature Biotechnology, 20110.
Genome_build: Glycine_max_v2.1.51
Supplementary_files_format_and_content: Matrix tables for raw counts & FPKM values for all samples
|
| |
|
| Submission date |
Oct 21, 2021 |
| Last update date |
Aug 03, 2022 |
| Contact name |
Sidharth Sen |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Missouri
|
| Department |
The Division of Plant Sciences and Technology
|
| Lab |
Sharp Lab
|
| Street address |
Agriculture Bldg, University of Missouri
|
| City |
Columbia |
| State/province |
Missouri |
| ZIP/Postal code |
65201 |
| Country |
USA |
| |
|
| Platform ID |
GPL28801 |
| Series (1) |
| GSE186317 |
Differential regulation of flower transpiration during abiotic stress in plants |
|
| Relations |
| BioSample |
SAMN22481314 |
| SRA |
SRX12722952 |
