西南林业大学学报2025，Vol.45Issue(1)：34-43,10.DOI:10.11929/j.swfu.202403030
葫芦茶叶绿体基因组密码子偏好性分析
Analysis of Codon Usage Bias in the Chloroplast Genome of Tadehagi triquetrum
摘要
Abstract
To investigate the patterns and causes of the codon usage in the chloroplast genome of Tadehagi triquetrum,the complete chloroplast genome of T.triquetrum was sequenced using the Illumina NovaSeq 6000 platform,assembled and annotated,with the analysis of codon usage of the 52 screened CDS was performed by Codon W,CUSP and OriginPro.The results showed that the average GC content of T.triquetrum chloroplast gen-ome codons was GC1(45.64%)＞GC2(38.17%)＞GC3(25.56%),and the content of T3S and A3S in the synonym-ous codons encoding amino acids was significantly higher than that of C3S and G3S.The ENC values ranged from 38.43 to 55.04 with an average of 45.64,and the CAI values ranged from 0.1 to 0.18 with an average of 0.16,in-dicating that their codon bias was weak.Analysis of correlation,neutral plotting,ENC‒plot,and PR2‒plot,indic-ating that mutation and selection jointly affect codon usage bias in the chloroplast genome of T.triquetrum.The optimal 7 codons(CUU,AUU,AUA,GUU,GAU,UCA,GGA)were selected of T.triquetrum by RSCU and ENC values,which were biased to end in A/U.关键词
葫芦茶/叶绿体基因组/密码子偏好性/最优密码子Key words
Tadehagi triquetrum/chloroplast genome/codon bias/optimal codon分类
中医学引用本文复制引用
王芳,周盛茂,赵雪利..葫芦茶叶绿体基因组密码子偏好性分析[J].西南林业大学学报,2025,45(1):34-43,10.基金项目
国家自然科学基金项目(31800170)资助 （31800170）
云南省教育厅科学研究基金项目(2022Y585)资助. （2022Y585）
