云南民族大学学报（自然科学版）2025，Vol.34Issue(3)：268-276,9.DOI:10.3969/j.issn.1672-8513.2025.03.003
栽培大麦和野生大麦叶绿体基因组密码子偏好性比较分析
Comparative analysis of chloroplast genome codon usage bias in cultivated and wild of barley
摘要
Abstract
The codon usage preferences and differences among cultivated and wild barley,Hordeum vulgare var.Coleste,H.vulgare ssp.vulgare and H.vulgare ssp.spontaneum,were analyzed based on the coding sequences of their chloroplast genomes.The results demonstrated that the cytosine and guanine(GC)content at different codon positions(GC1,GC2,GC3)exhibited a gradient decrease across the three species(46.74%/46.80%/46.63%,39.47%/39.43%/39.43%,29.80%/29.75%/30.25%).All three species shared 31 highly preferred codons(RSCU>1),with 29 of these codons ending in A/U,indicating a significant preference for NNA/NNU endings.The effective codon number(ENC)values of the chloroplast genomes(47.14,47.02,47.75)and the proportion of genes with ENC>45(39,39,42)suggested a relatively weak overall codon preference.Neutral plotting,ENC-plot,and PR2-plot analyses confirmed that natural selection was the primary driving force behind the formation of codon preferences.Furthermore,two cultivated barley exhibited high convergence in terms of GC composition,ENC distribution,and optimal codons(including specific GCA/AGA).This suggests that artificial selection through purifying selection has enhanced the genetic stability of beneficial traits,offering new insights into the molecular mechanisms underlying barley domestication.关键词
裸大麦/普通大麦/野生大麦/最优密码子/选择作用Key words
H.vulgare var.Coleste/H.vulgare ssp.vulgare/H.vulgare ssp.spontaneum/optimal codons/selection分类
农业科技引用本文复制引用
谢刘义,任璇,应文博,肖焱波,杨青松..栽培大麦和野生大麦叶绿体基因组密码子偏好性比较分析[J].云南民族大学学报（自然科学版）,2025,34(3):268-276,9.基金项目
云南省高层次人才培养支持计划项目(YNWR-QNBJ-2020-287) （YNWR-QNBJ-2020-287）
国家中医药管理局全国中药资源普查项目(GZY-KJS-2018-004). （GZY-KJS-2018-004）
