2种羌活药用植物的叶绿体基因组密码子使用偏性分析  

Codon Usage Bias in Chloroplast Genomes of Two Medicinal Species of Notopterygium H.de Boissieu

作　　者：王琳璇 王高烽 谷威 赵志敏 马永贵 WANG Lin-xuan;WANG Gao-feng;GU Wei(College of Life Sciences,Qinghai Normal University,Xining,Qinghai 810000)

机构地区：[1]青海师范大学生命科学学院,青海西宁810000

出　　处：《安徽农业科学》2022年第3期95-101,共7页Journal of Anhui Agricultural Sciences

基　　金：青海省基础研究计划项目(2018-ZJ-741)。

摘　　要：对羌活(Notopterygium incisum)与宽叶羌活(N.franchetii)的叶绿体编码基因的密码子使用偏性(codon usage bias)及其影响因素进行了分析。结果表明:羌活和宽叶羌活的叶绿体基因组总ENC值分别为49.79和49.70,偏性较弱,密码子第3位碱基倾向于使用A/T。PR2-plot分析表明,选择压力和突变都是影响2种羌活叶绿体密码子使用偏性的主要因素;而中性绘图分析和ENC-plot分析表明选择压力是影响2种羌活叶绿体密码子使用偏性的主要因素。相对同义密码子使用度(RSCU)分析确定了2种羌活中使用频率较高的30个高频密码子,几乎都以A或U结尾,只有UUG以G结尾。羌活的最优密码子9个,宽叶羌活的最优密码子7个。2种羌活有5个最优密码子相同,分别是UUG、CAU、CGU、AGU、GGA。该研究结果为后续药用羌活植物的基因表达、蛋白质翻译和遗传育种研究提供了研究依据和基础数据。This study analyzed the codon usage bias and affecting factors of the protein coding genes(CDS)of the chloroplast genomes of two medicinal plants,Notopterygium incisum and N.franchetii.The results showed that the chloroplast genomes of N.incisum and N.franchetii had a total ENC value of 49.79 and 49.70,respectively,indicating weak codon usage bias.The third base of the codon of the two chloroplast genomes preferred to use A/T.The analysis of PR2-plot showed that selection pressure and nutation were the main factors affecting the bias of codon usage in N.incisum and N.franchetii CDS,while neutrality plot and ENC-plot analyses both illustrated selection pressure was the main factors affecting codon usage bias in the two species.Relative Synonymous Codon Usage(RSCU)analysis determined 30 high-frequency codons used in N.incisum and N.franchetii,almost all ending with A or U,with only UUG ends with G.There were nine optimal codons identified in N.incisum,and seven optimal codons found in N.franchetii.The five optimal codons shared by N.incisum and N.franchetii were namely UUG,CAU,CGU,AGU,GGA.The results provide important basal data for the future study of gene expression,protein translation and molecular breeding of medicinal Notopterygium plants.

关 键 词：羌活 宽叶羌活 叶绿体基因组 密码子使用偏性 最优密码子 

分 类 号：Q943.2[生物学—植物学]