六盘水师范学院学报2024，Vol.36Issue(6)：58-68,11.DOI:10.16595/j.1671-055X.2024.06.006
罂粟基因组密码子使用模式和偏好性分析
Analysis of Codon Usage Pattern and Bias in Genomes of Papaver somniferum L.
摘要
Abstract
The study aimed to investigate the codon usage preference characteristics and influencing factors in the whole ge-nome ofpoppy(Papaver somniferum L.).The research focused on analyzing the 68,828 protein coding sequences(CDS)of poppy us-ing CodonW and the online software CUSP.Results revealed that the average GC content of the codons in the poppy encoding gene was 41.52%,with the GC3s content of the third base at 33.61%.Further analysis indicated a preference for four bases at the third position of the codon in the order of T>A>G>C,with an average ENC(Effective Number of Codons)of 50.60.This suggests a ten-dency for poppy genes to use codons ending in A or T,albeit weakly.Neutral plot,PR2-plot,and ENC-plot analysis demonstrated that natural selection can influence codon usage preference in the poppy genome and mutations and gene expression levels as well.Based on the Relative Synonymous Codon Usage(RSCU)values,22 optimal codons were identified,predominantly ending in A and T.These findings offer a theoretical foundation for selecting gene expression systems for bioactive ingredients in poppy and its genetic engineering.关键词
罂粟/基因组/密码子偏好性Key words
Papaver somniferum L./Genome/Codon Usage Bias分类
医药卫生引用本文复制引用
凌立贞,王琴,杨桃,张书东..罂粟基因组密码子使用模式和偏好性分析[J].六盘水师范学院学报,2024,36(6):58-68,11.基金项目
六盘水市科技计划项目"六盘水市生物多样性保护和利用科技创新人才团队"(52020[2022]PT-20). （52020[2022]PT-20）
