|Table of Contents|

Codon bias and evolutionary analysis of the AmMYB2 Gene in Amaranthus tricolor L.

Chinese Journal of Applied & Environmental Biology[ISSN:1006-687X/CN:51-1482/Q]

Issue:
2019 03
Page:
679-686
Research Field:
Articles
Publishing date:

Info

Title:
Codon bias and evolutionary analysis of the AmMYB2 Gene in Amaranthus tricolor L.
Author(s):
PENG Liyun1 WANG Yun1 SUN Xueli1 ZHAO Chunli1 WANG Xiao1 LAI Zhongxiong1** & LIU Shengcai1**
Institute of Horticultural Plant Biological Engineering, Fujian Agriculture and Forestry University, Fuzhou 350002, China
Keywords:
Amaranthus tricolor L AmMYB2 gene codon usage bias evolution analysis
CLC:
S668.1: Q78
PACS:
DOI:
10.19675/j.cnki.1006-687x.201809020
DocumentCode:

Abstract:
This study was done to explore the codon usage bias, homology with the R2R3-MYB genes associated with pigment regulation in various species, and genetic transformation receptors of the AmMYB2 gene of amaranth (Amaranthus tricolor L.). The Codon W and EMBOSS online programs and Excel, SPSS, and Origin software were used to analyze the codon usage bias of the amaranth AmMYB2 gene. Correlation analysis was conducted to compare the codon usage bias of the amaranth AmMYB2 gene and the R2R3-MYB genes controlling pigment metabolism in other species with those in model organisms for which relatively mature genetic transformation systems are available. The?results showed that the content of GC, GC1, GC2, and GC3 in the amaranth AmMYB2 gene are all lower than 50%. There are seventeen more strongly favored codons (RSCU > 1) in this gene, seven of which were aggressively favored over others (RSCU > 2). Among these, there are 19 codons ending in A or T, which showed that the genetic codon bias in the amaranth AmMYB2 gene favors codons with A or T as the third bit in the codon, and thus favors the use these highly favored codons in some amino acids. The effective number of codons (ENC) in the amaranth AmMYB2 gene was 49.63, and the locus of the amaranth AmMYB2 gene in the ENC plot was closer to the desired curve, which showed that the codon bias of the amaranth AmMYB2 gene has mainly been affected by mutation pressure. The codons of the R2R3-MYB gene related to the metabolism of beet pigment were similar in their preference parameters to amaranth, and the codon bias parameters of the amaranth AmMYB2 gene were also similar to those of the R2R3-MYB genes of closely related species. Based on the analysis of the frequency of codon usage across species, a yeast expression system was found to be the most suitable for use with the AmMYB2 gene, and the model plants Arabidopsis, tobacco, and tomato could be used as genetic transformation receptors of the AmMYB2 gene. Because of the similarity of its metabolic pathways to those of amaranth, beet can also act as the transient expression receptor of the amaranth AmMYB2 gene. This study provides important reference information for further studies on the function of the AmMYB2 gene in amaranth.

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Last Update: 2019-06-25