NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE99329 Query DataSets for GSE99329
Status Public on Sep 08, 2017
Title Small RNA transcriptome of Hibiscus syriacus provides insights into the potential influence of microRNAs in flower development and terpene synthesis
Organism Hibiscus syriacus
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary MicroRNAs (miRNAs) are essential small RNA molecules that regulate the expression of target mRNAs in plants and animals. Here, we aimed to identify miRNAs and their putative targets in Hibiscus syriacus, the national flower of South Korea. Therefore, we employed high-throughput sequencing of small RNAs obtained from four different tissues (i.e., leaf, root, flower, and ovary) and identified 33 conserved and 30 novel miRNA families, many of which showed differential tissue-specific expressions. In addition, we computationally predicted novel targets of miRNAs and validated some of them using 5′ rapid amplification of cDNA ends analysis. One of the validated novel targets of miR477 was a terpene synthase, the primary gene involved in the formation of disease-resistant terpene metabolites such as sterols and phytoalexins. In addition, a predicted target of conserved miRNAs, miR396, is SHORT VEGETATIVE PHASE, which is involved in flower initiation and is duplicated in Hibiscus syriacus. Collectively, this study provides the first reliable draft of the Hibiscus syriacus miRNA transcriptome that should constitute a basis for understanding the biological roles of miRNAs in Hibiscus syriacus.
 
Overall design Total RNAs were extracted from H. syriacus tissue samples (leaf, root, flower, and ovary).
 
Contributor(s) Kim T, Park J, Lee S, Kim S, Kim J, Lee J, Shin C
Citation(s) 28835019
doi: 10.14348/molcells.2017.0086
Submission date May 25, 2017
Last update date Jul 25, 2021
Contact name Chanseok Shin
E-mail(s) [email protected]
Organization name Seoul National University
Department Agricultural Biotechnology
Lab Biochemistry
Street address 1, Gwanak-ro, Gwanak-gu
City Seoul
ZIP/Postal code 08826
Country South Korea
 
Platforms (1)
GPL23518 Illumina HiSeq 2500 (Hibiscus syriacus)
Samples (4)
GSM2641678 Small RNAs in Hibiscus syriacus (Flower)
GSM2641680 Small RNAs in Hibiscus syriacus (Leaf)
GSM2641682 Small RNAs in Hibiscus syriacus (Root)
Relations
BioProject PRJNA388107
SRA SRP108075

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
GSE99329_RAW.tar 202.7 Mb (http)(custom) TAR (of FA)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap