Open Access

ARTICLE

Phylogenetic analysis and target gene prediction of miR477 gene family in grape

by HUI-YING JIN^1,2, MAO-SONG PEI^1,2, DA-LONG GUO^1,2,*

1 College of Horticulture and Plant Protection, Henan University of Science and Technology, Luoyang, 471023, China
2 Henan Engineering Technology Research Center of Quality Regulation of Horticultural Plants, Luoyang, 471023, China

* Corresponding Author:DA-LONG GUO. Email:

(This article belongs to the Special Issue: Decoding Gene (including circRNA, lincRNA miRNA and mRNA) Expression)

BIOCELL 2022, 46(4), 941-949. https://doi.org/10.32604/biocell.2022.016718

Received 19 March 2021; Accepted 06 May 2021; Issue published 15 December 2021

Abstract

To understand the molecular characteristics of the miR477 gene family of grape (Vvi-miR477) and to predict its target genes, the Vvi-miR477 genes were identified from previous small RNA sequencing data, then phylogenetic analysis and prediction of target gene were conducted. The Vvi-miR477 family consists of two precursor sequences and three mature sequences. The miR477 family members were mostly 19-22nt in length. The sequence is relatively conservative. Vvi-MIR477a and Vvi-MIR477b are located on chromosomes 1 and 2, respectively. These precursor sequences can form the typical stable stem-loop structure. Their minimum folding free energy is −39.10 kcal/mol and −50.90 kcal/mol, respectively. The MIR477 family can be divided into three groups. The prediction of target genes showed that Vvi-miR477 targets 26S proteasome, DEAD-box, GRAS family protein, Protein Phosphatase 2C, etc. The GO function of target genes was mainly enriched to six categories. The catabolic process, carboxylic ester hydrolase activity is shown to be high. This study provided a theoretical basis for further exploration of the molecular mechanism of miR477 in grape berry ripening.

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Keywords

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