|
| Status |
Public on Oct 20, 2022 |
| Title |
CS13 |
| Sample type |
SRA |
| |
|
| Source name |
S001FFF
|
| Organism |
Triticum turgidum |
| Characteristics |
tissue: embryo
developmental stage: transition
maternal ploidy: tetraploid
paternal ploidy: tetraploid
line: C×S
|
| Treatment protocol |
Spikelets were emasculated and pollinated at the heading stage to ensure sufficient and developmentally coordinated F1 seed production for embryo and endosperm isolation.
|
| Growth protocol |
Wheat plants were grown in growth chambers under long-day conditions of 16 h of light, 22°C and 8 h of dark, 20°C, with light intensity of 100 to 120 μmol m−2 s−1 (Philips high-output F54T5/835-841 bulbs) for the whole life cycle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from crowns were extracted using a Plant RNA Isolation Mini Kit (Agilent Technologies, Mississauga, ON).
144 cDNA libraries were constructed using the TruSeq RNA Sample Preparation Kit v2 (Illumina) with two replicates for each sample at each stage.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Trimming using Trimmomatics
Read mapping using STAR
Alignment using Cufflinks
featureCounts was then employed to count the reads spread across the exonic regions of each gene model.
Differentially expression analysis using DESeq2
Genome_build: IWGSC RefSeq 1.1
Supplementary_files_format_and_content: featureCounts was then employed to count the reads of each gene model.
|
| |
|
| Submission date |
Nov 05, 2021 |
| Last update date |
Oct 20, 2022 |
| Contact name |
Qiang Li |
| Organization name |
Huazhong Agricultural University
|
| Street address |
#1 Shizishan Street
|
| City |
Wuhan |
| State/province |
Saskatchewan |
| ZIP/Postal code |
430070 |
| Country |
China |
| |
|
| Platform ID |
GPL26493 |
| Series (1) |
| GSE188277 |
Transcriptomic analysis of hybrid embryos in polyploid wheat |
|
| Relations |
| BioSample |
SAMN22929713 |
| SRA |
SRX13009663 |
