诺如病毒GⅡ.4型密码子偏爱性及聚类分析
Codon preference and cluster analysis of Norovirus GⅡ.4
王阳 1杨曼清 1单静 1刘奇1
作者信息
- 1. 大理大学基础医学院病原生物学综合实验室,云南大理 671000
- 折叠
摘要
[目的]分析诺如病毒GⅡ.4基因型密码子的偏爱性变化,探索其聚类情况.[方法]从NCBI上下载GⅡ.4型所有完整毒株,使用CodonW、EMBOSS、SigmaPlotl4.0软件对诺如病毒GⅡ.4型密码子偏爱性进行分析,使用SPSS软件对G Ⅱ.4型聚类分析.[结果]诺如病毒G Ⅱ.4型三种编码框的ENC值均＞50;RSCU＞1的密码子以U/C结尾的居多;ENC-Plot显示GⅡ.4型三种编码框绝大多数位于标准曲线之下;PR2分析中,GⅡ.4型三种编码框四个象限分布不均匀;GⅡ.4型按照年份的聚类分析显示不同年份之间存在着一定程度的聚类.[结论]诺如病毒GⅡ.4型三种编码框的偏爱性较弱,密码子使用以U/C结尾为主,其使用偏倚受到突变和自然选择,但以自然选择为主,近年来存在着聚类情况.
Abstract
[Objective]Analyzed the preference changes in the codon of Norovirus GⅡ.4 genotype and explored its clustering situation.[Method]Downloaded all complete strains of G Ⅱ.4 from NCBI,analyzed the codon preference of Norovirus G Ⅱ.4 using CodonW,EMBOSS and SigmaPlot14.0,and performed cluster analysis on G Ⅱ.4 using SPSS software.[Result]The ENC values of the three coding boxes of Norovirus G Ⅱ.4 were all greater than 50;Most codons with RSCU>1 end with U/C;ENC-Plot showed that the vast majority of the three coding boxes of G Ⅱ.4 type were located below the standard curve;In PR2 a-nalysis,the distribution of the four quadrants of the three coding boxes of G Ⅱ.4 type is uneven;The clustering analysis of GⅡ.4 type by year showed that there was a certain degree of clustering between different years.[Conclusion]The preference of the three encoding boxes in GⅡ.4 was weak,and the codon usage was mainly U/C terminated.Its usage bias was mainly in-fluenced by natural selection.In recent years,there had been new clustering situations that need to be taken seriously.
关键词
诺如病毒/密码子/偏爱性/GⅡ.4/聚类分析/突变选择/自然选择/最优密码子Key words
Norovirus/codon/preference/GⅡ.4/cluster analysis/mutation selection/natural selection/optimal codon引用本文复制引用
基金项目
国家自然科学基金(8170357381660337)
出版年
2024
NETL
NSTL
万方数据