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Series GSE121089 Query DataSets for GSE121089
Status Public on Feb 20, 2020
Title Genome wide identification of circRNAs, miRNAs and their targets in tomatoes at heat, drought and their combination
Organism Solanum lycopersicum
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary Purpose: Circular RNAs (circRNAs) and microRNAs (miRNAs) play important roles in abiotic stress responses in plants. The aims of this study are to genome-widely identify the circRNAs, miRNAs and their targets in tomatoes at single heat, drought and their combination by high-throughput sequencing. Results: Following high-throughput sequencing, 765 miRNAs were identified in total with 335 conserved and 430 novel miRNAs in the 12 small-RNA libraries. Of these miRNAs, 32, 74 and 61 miRNAs were responsive to drought, heat and their combination, respectively. Following degradome sequencing, 50 sequences were identified as targets of 34 miRNAs in tomatoes at combined stress. Moreover, 467 circRNAs were identified in the 12 samples.
Overall design Methods: Tomato seedlings were treated at control, single heat, drought and their combination. Leaves from the tomato seedlings at four treatments were collected, frozen in liquid nitrogen and stored at -80 degrees Celsius before sequencing. Afterwards, the sRNA libraries of samples were constructed and sequenced with Illumina Hiseq2500 (LC-BIO, Hangzhou, China).
Contributor(s) Zhou R
Citation(s) 32143575
Submission date Oct 10, 2018
Last update date Mar 16, 2020
Contact name Rong Zhou
Organization name Jiangsu Academy of Agricultural Sciences
Street address 50 Zhongling Street
City Nanjing
ZIP/Postal code 210014
Country China
Platforms (2)
GPL19694 Illumina HiSeq 2500 (Solanum lycopersicum)
GPL25655 Illumina HiSeq 4000 (Solanum lycopersicum)
Samples (36)
GSM3425859 Control_1 (miRNA)
GSM3425860 Control_2 (miRNA)
GSM3425861 Control_3 (miRNA)
BioProject PRJNA495618
SRA SRP164931

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE121089_Degradome_result.xlsx 203.2 Kb (ftp)(http) XLSX
GSE121089_circRNA_expression.xlsx 131.8 Kb (ftp)(http) XLSX
GSE121089_miRNA-Expressed.xlsx 132.3 Kb (ftp)(http) XLSX
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Raw data are available in SRA
Processed data are available on Series record

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