Molecular detection and Smoothing spline clustering of the IBV strains detected in China during 2011-2012
Molecular detection and Smoothing spline clustering of the IBV strains detected in China during 2011-2012
复制标题
2011-2012年中国检出IBV毒株的分子检测及平滑样条聚类
DOI：
10.1016/j.virusres.2015.10.015
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发表时间：
2016-01-04
期刊：
影响因子：
5
通讯作者：
Zhang, Anyun
中科院分区：
文献类型：
--
作者：
Zhang, Zhikun;Zhou, Yingshun;Zhang, Anyun
传染性支气管炎病毒（IBV）是一种高度变异的病毒，具有大量的基因型。2011-2012年，我国共分离到19株IBV野毒株。序列分析表明，这些菌株可分为5个亚群：A2-like、CKCHLDL 08 I-like、SAIBK-like、KM 91-like和TW 97/4-like。基于1118个序列的系统发育分析表明，所有IBV分为6个簇。流行株（包括所有分离株）与Mass型疫苗的遗传距离在0.194-0.259之间，属于第VI群。此外，我们引入了平滑样条聚类（SSC）方法来估计一些子集群的高度可变的网站。结果表明，高变异位点分布在不同的亚群中，其中4/91-like、TW 97/4-like和Arkansas-like的N端序列变异较大。这是首次将SSC方法用于IBV的进化研究。(C)2015 Elsevier B. V.版权所有。
Infectious bronchitis virus (IBV) is a highly variable virus with a large number of genotypes. During 2011-2012, nineteen wild IBV strains were isolated in China. Sequence analysis showed that these isolates were divided into five sub-clusters: A2-like, CKCHLDL08I-like, SAIBK-like, KM91-like and TW97/4-like. Phylogenetic analysis based on the 1118 sequences available on line suggested that all IBVs were classified into six clusters. The prevalent strains including all the isolates were in cluster VI with a 0.194-0.259 genetic distance to Mass type vaccines. In addition, we introduced the smoothing spline clustering (SSC) method to estimate the highly variable sites for some sub-clusters. The results showed that highly variable sites range from sub-clusters, the N-terminal sequences of 4/91-like, TW97/4-like and Arkansas-like are more variable than other sub-clusters. This is the first time that the SSC method has been used for the evolution study of IBV. (C) 2015 Elsevier B.V. All rights reserved.