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Sample GSM6226205 Query DataSets for GSM6226205
Status Public on Jun 13, 2024
Title ZH11_Seedling_HS_rep2_RNAseq
Sample type SRA
 
Source name 4-leaf stage seedling
Organism Oryza sativa Japonica Group
Characteristics tissue: 4-leaf stage seedling
genotype: ZH11
treatment: Heat
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_HS_rep2
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 SAMN28943103
SRA SRX15651266

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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