|
| Status |
Public on Jun 13, 2024 |
| Title |
ZH11_Seedling_DS_rep1_RNAseq |
| Sample type |
SRA |
| |
|
| Source name |
4-leaf stage seedling
|
| Organism |
Oryza sativa Japonica Group |
| Characteristics |
tissue: 4-leaf stage seedling
genotype: ZH11
treatment: Drought
|
| Treatment protocol |
Drought treatment was carried out by stopping water supply for 7 days until the relative solid water content was below 10%. Heat treatment was performed by placing the seedlings in a growth chamber with the air temperature of 45˚C and relative humidity of 70% for 6 hours.
|
| Growth protocol |
The rice seeds were sprouted on half-strength MS medium in the dark for 2-3 days at 28°C, and then 4-5 days in the greenhouse. The seedlings were then moved to pots with sand/paddy (1:3) soil under natural conditions at Wuhan, China.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNAs were extracted from the seedlings using TRIzol reagent (Invitrogen™) according to the manufacturer’s instructions.
RNA-seq libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
ZH11_Seedling_DS_rep1
GRN_count.txt
|
| Data processing |
Sequencing reads were mapped to rice reference genome (MSU7) using Hisat2. Transcripts were assembled and count by StringTie and the differential expression was determined by R package DESeq2.
Assembly: MSU7
Supplementary files format and content: GRN_count.txt: Sequencing read counts in tab-delimited table.
|
| |
|
| Submission date |
Jun 09, 2022 |
| Last update date |
Jun 13, 2024 |
| Contact name |
Yu Chang |
| E-mail(s) |
yuchang@mail.hzau.edu.cn
|
| Organization name |
Huazhong Agricultural University
|
| Department |
National Key Laboratory of Crop Genetic Improvement
|
| Street address |
No.1, Shizishan Street, Hongshan District
|
| City |
Wuhan |
| State/province |
Hubei |
| ZIP/Postal code |
430070 |
| Country |
China |
| |
|
| Platform ID |
GPL23876 |
| Series (1) |
| GSE183241 |
Stress-induced nuclear translocation of transcription factor ONAC023 improves drought and heat tolerance through integrated regulation of multiple processes in rice |
|
| Relations |
| BioSample |
SAMN28943099 |
| SRA |
SRX15651262 |
