12种蔷薇科植物叶绿体基因组密码子偏好性分析  

Codon Preference Analysis of Chloroplast Genome in 12 Rosaceae Plants

作　　者：张冬冬 韩宏伟[2] 余镇藩 曾斌[1] 杨佳惠 高雯雯 马昕彤 ZHANG Dongdong;HAN Hongwei;YU Zhenfan;ZENG Bin;YANG Jiahui;GAO Wenwen;MA Xintong(College of Horticulture,Xinjiang Agricultural University,Urumqi 830000,China;Research Institute of Economic Forestry,Xinjiang Academy of Forestry Sciences,Urumqi 830000,China)

机构地区：[1]新疆农业大学园艺学院,乌鲁木齐830000 [2]新疆林业科学院经济林研究所,乌鲁木齐830000

出　　处：《中国农业科技导报》2023年第8期65-75,共11页Journal of Agricultural Science and Technology

基　　金：新疆维吾尔自治区自然科学基金项目(2019D01A56);国家自然科学基金项目(31660557);新疆维吾尔自治区园艺学重点学科项目(2016-10758-3)。

摘　　要：为研究蔷薇科植物叶绿体基因组密码子偏好性,对12种蔷薇科植物进行叶绿体基因组密码子使用模式分析。结果表明,12种蔷薇科植物叶绿体基因组的GC含量为36.54%~37.23%,密码子第3位碱基的平均GC含量为28.27%~28.61%,平均有效密码子数为47.87~49.17。筛选到32个高频密码子,主要以A/U结尾。中性绘图分析、ENC-plot分析、PR2-plot分析表明自然选择是蔷薇科植物密码子偏好性形成的主要因素。基于同义密码子相对使用度(relative synonymous codon usage,RSCU)构建的进化树与基于编码基因和叶绿体基因组构建的进化树聚类差异较大,说明基于密码子偏好特征的进化关系可能损失了一些信息。以上结果为深入探究蔷薇科植物进化规律奠定了理论基础。To study the structure characteristics,phylogeny and codon usage bias of chloroplast genome in Rosaceae plants,12 Rosaceae species were selected for pattern analysis of chloroplast genome codon usage.The results showed that the GC contents of chloroplast genome in 12 Rosaceae species were 36.54%~37.23%,and the average GC contents of the third base in codon were 28.27%~28.61%,and the average effective number of codons was 47.87~49.17.32 highfrequency codons were screened,which mainly ended with A/U.The neutral plot analysis,ENC-plot analysis and PR2-plot analysis showed that natural selection was the main factor for codon bias formation in Rosaceae plants.The clustering tree constructed based on RSCU(relative synonymous codon usage)value was different with the evolutionary trees constructed based on coding genes and chloroplast genome,which indicated some informations was lost based on codon preference characteristics.The above results laid foundation for further exploration of the evolution law of Rosaceae plants.

关 键 词：蔷薇科 叶绿体基因组 密码子使用特征 系统进化树 

分 类 号：Q78[生物学—分子生物学]