Genomics Inform.  2017 Sep;15(3):98-107. 10.5808/GI.2017.15.3.98.

Genomic Analysis of miR-21-3p and Expression Pattern with Target Gene in Olive Flounder

• Jo A
• Lee HE
• Kim HS

• KMID: 2394766
• DOI: http://doi.org/10.5808/GI.2017.15.3.98

Abstract

MicroRNAs (miRNAs) act as regulators of gene expression by binding to the 3' untranslated region (UTR) of target genes. They perform important biological functions in the various species. Among many miRNAs, miR-21-3p is known to serve vital functions in development and apoptosis in olive flounder. Using genomic and bioinformatic tools, evolutionary conservation of miR-21-3p was examined in various species, and expression pattern was analyzed in olive flounder. Conserved sequences (5'-CAGUCG-3') in numerous species were detected through the stem-loop structure of miR-21-3p. Thus, we analyzed target genes of miR-21-3p. Among them, 3' UTR region of PPIL2 gene indicated the highest binding affinity with miR-21-3p based on the minimum free energy value. The PPIL2 gene showed high expression levels in testis tissue of the olive flounder, whereas miR-21-3p showed rather ubiquitous expression patterns except in testis tissue, indicating that miR-21-3p seems to control the PPIL2 gene expression in a complementary repression manner in various tissues of olive flounder. Taken together, this current study contributes to infer the target gene candidates for the miR-21-3p using bioinformatics tools. Furthermore, our data offers important information on the relationship between miR-21-3p and target gene for further functional study.

Keyword

conserved sequence; gene expression; microRNAs; minimum free energy; 3’untranslated regions

MeSH Terms

Apoptosis
Computational Biology
Conserved Sequence
Flounder*
Gene Expression
MicroRNAs
Olea*
Repression, Psychology
Testis
Untranslated Regions
MicroRNAs
Untranslated Regions