Using maximum likelihood method to detect adaptive evolution of HCV envelope protein-coding genes  

作　　者：ZHANG Wenjuan ZHANG Yuan ZHONG Yang 

机构地区：[1]School of Life Sciences, Fudan University, Shanghai 200433, China [2]Shanghai Center for Bioinformation Technology, Shanghai 201203, China

出　　处：《Chinese Science Bulletin》2006年第18期2236-2242,共7页

摘　　要：Nonsynonymous-synonymous substitu- tion rate ratio (dN/dS) is an important measure for evaluating selective pressure based on the pro- tein-coding sequences. Maximum likelihood (ML) method with codon-substitution models is a powerful statistic tool for detecting amino acid sites under positive selection and adaptive evolution. We ana- lyzed the hepatitis C virus (HCV) envelope pro- tein-coding sequences from 18 general geno/ sub- types worldwide,and found 4 amino acid sites under positive selection. Since these sites are located in different immune epitopes,it is reasonable to antici- pate that our study would have potential values in biomedicine. It also suggests that the ML method is an effective way to detect adaptive evolution in virus proteins with relatively high genetic diversity.Nonsynonymous-synonymous substitu- tion rate ratio （dN/ds） is an important measure for evaluating selective pressure based on the protein-coding sequences. Maximum likelihood （ML） method with codon-substitution models is a powerful statistic tool for detecting amino acid sites under positive selection and adaptive evolution. We analyzed the hepatitis C virus （HCV） envelope protein-coding sequences from 18 general geno/subtypes worldwide, and found 4 amino acid sites under positive selection. Since these sites are located in different immune epitopes, it is reasonable to anticipate that our study would have potential values in biomedicine. It also suggests that the ML method is an effective way to detect adaptive evolution in virus proteins with relatively high genetic diversity.

关 键 词：适应进化 阳性选择 氨基酸 肝炎病毒 包膜蛋白 HCV 

分 类 号：R512.6[医药卫生—内科学]