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Series GSE243965 Query DataSets for GSE243965
Status Public on Sep 28, 2023
Title Integrated analysis of transcriptome and miRNAome reveals the heat stress response of Pinellia ternata seedlings
Organism Pinellia ternata
Experiment type Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary Pinellia ternata (Thunb.) Briet., a valuable herb native to China, is susceptible to the "sprout tumble" phenomenon due to high temperatures, resulting in a significant reduction in yield. The molecular regulatory mechanisms underlying the response of P. ternata to heat stress are not well understood. In this study, we integrated transcriptome and miRNAome sequencing to identify heat response genes, microRNAs (miRNAs), and key miRNA-target pairs in P. ternata under heat stress and room temperature conditions. Transcriptome analysis revealed extensive reprogramming of 4,960 genes across various categories, predominantly associated with cellular and metabolic processes, responses to stimuli, biological regulation, cell parts, organelles, membranes, catalytic and binding activity. miRNAome sequencing identified 1,597 known/conserved miRNAs that were differentially expressed in two test conditions. According to the analysis, genes and miRNAs associated with regulation of transcription, DNA-templated, transcription factor activity and sequence-specific DNA binding pathway, may play a major role in the resistance to heat stress in P. ternata. Integration of expression data of transcriptome and miRNAome determined high confidence 41 miRNA-mRNA pairs forming 25 modules. MYB-like protein and calcium-responsive transcription coactivator may play an integral role in the resistance to heat stress in P. ternata. In addition, the candidate genes and miRNAs were subjected to quantitative real-time PCR to evaluate their expression patterns. These results offer a foundation for future studies exploring the mechanism and critical genes of resistance to heat stress in P. ternata.
 
Overall design In order to examine the gene expression patterns of P. ternata under heat stress, six libraries were constructed from two leaf samples, with three biological replicates each (C: control, G: heat stress).
To comprehensively evaluate how heat stress influenced transcript profiles, six small RNA libraries were also constructed.
 
Contributor(s) Bo C, Xue T, Liu M
Citation(s) 38654150
Submission date Sep 25, 2023
Last update date May 17, 2024
Contact name Mengmeng Liu
E-mail(s) boc@chnu.edu.cn
Phone 8618256160782
Organization name Huaibei Normal University
Department College of Life Science
Lab Biochemistry and Molecular Biology
Street address Dongshan Street
City Huaibei
State/province Anhui
ZIP/Postal code 235000
Country China
 
Platforms (1)
GPL33785 Illumina HiSeq 2500 (Pinellia ternata)
Samples (12)
GSM7802478 C1_RNA-seq
GSM7802479 C2_RNA-seq
GSM7802480 C3_RNA-seq
Relations
BioProject PRJNA1020813

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
GSE243965_gene_TPM.xlsx 13.6 Mb (ftp)(http) XLSX
GSE243965_miRNA_RPM.xlsx 103.1 Kb (ftp)(http) XLSX
GSE243965_transcript.fa.gz 138.8 Mb (ftp)(http) FA
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Raw data are available in SRA

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