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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.
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|
|
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.
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|
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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 |