湖北民族大学学报（自然科学版）2025，Vol.43Issue(3)：327-333,7.DOI:10.13501/j.cnki.42-1908/n.2025.06.017
柠檬草叶绿体基因组密码子偏好性分析
Analysis of Codon Usage Bias in the Chloroplast Genome of Cymbopogon Citratus
摘要
Abstract
To analyze the codon usage bias of the chloroplast genome of Cymbopogon citratus(DC.)Stapf and its evolutionary driving factors,the codon patterns were systematically analyzed,providing a basis for subsequent research on the functions of the genome and the development of germplasm resources.The complete sequence of the chloroplast genome of Cymbopogon citratus was obtained from the national center for biotechnology information(NCBI)database,and 50 protein-coding sequences(CDS)were screened.Combined with methods such as effective number of codons plot(ENC-plot),parity rule 2 plot(PR2-plot),and neutrality plot,the codon usage bias and influencing factors were explored.The overall guanine and cytosine(GC)content of the chloroplast genome of Cymbopogon citratus was 38.70%,and the average GC content at the third base position(GC3)was 29.60%,both of which were lower than those of other species in the same family.The average value of the codon adaptation index(CAI)was 0.17,and the average value of the effective number of codons(ENC)was 48.62,indicating that the codon usage bias was weak.The 30 frequently used codons were screened out,among which 26 were highly expressed codons.Furthermore,12 optimal codons with both high frequency and high expression density were determined,such as leucine and alanine.This study indicated that natural selection was the main driving force for the formation of the codon usage bias of the chloroplast genome of Cymbopogon citratus.关键词
柠檬草/叶绿体基因组/密码子使用偏好/蛋白质编码序列/密码子适应指数/有效密码子数量/自然选择Key words
Cymbopogon citratus/chloroplast genome/codon usage bias/protein-coding sequence/codon adaptation index/effective number of codons/natural selection分类
农业科技引用本文复制引用
牟贞才,吴佳奇,李浚朋,肖强..柠檬草叶绿体基因组密码子偏好性分析[J].湖北民族大学学报（自然科学版）,2025,43(3):327-333,7.基金项目
国家自然科学基金项目(31260057). （31260057）
