Complete genome sequence of a coxsackievirus B3 recombinant isolated from an aseptic meningitis outbreak in eastern China
Complete genome sequence of a coxsackievirus B3 recombinant isolated from an aseptic meningitis outbreak in eastern China
复制标题
从中国东部无菌性脑膜炎疫情中分离出的柯萨奇病毒 B3 重组体的完整基因组序列
DOI：
10.1007/s00705-016-2893-9
复制
发表时间：
2016-08-01
影响因子：
2.7
通讯作者：
Wang, Haiyan
中科院分区：
文献类型：
--
作者：
Zhang, Wenqiang;Lin, Xiaojuan;Wang, Haiyan
柯萨奇病毒B3(CV-B3)经常与中国的无菌性脑膜炎暴发有关。为鉴定与无菌性脑膜炎相关的序列基序并构建感染性克隆，测定了2008年山东省一起脑脊液标本中分离到的代表株08TC170的基因组序列，并对P1-P3和VP1的编码区进行了比对。前21个和后20个残基分别为“TTAAAACAGCCTGTGGGGTTTGT”和“ATTCTCCGCATTCGGTGCGG”。全基因组由7401个核苷酸组成，与原型株Nancy的同源性为80.8%，与A-C簇成员的序列相似性较低。与之相反，08TC170与D类群成员有很高的序列相似性，在08TC170与4个中国菌株组成的分支中，序列同源性特别高(≥为97.7%)，在所有的P1-P3系统发育树中都聚在一起。此外，08TC170与VP1中的香港株26362/08也有较近的亲缘关系。相似性图谱分析表明，08TC170在P1和部分P2编码区与中国CV-B3株SSM最相似，而在2C及以下区域与CV-B5或E-6株最相似。在08TC170和其他2008-2010年分离的菌株中发现了T277A突变，而在2008年前分离的菌株中未发现T277A突变，这些菌株具有较高的序列相似性，形成了A277簇。结果提示，08TC170既是型间重组的产物，也是点突变的产物，其对病毒神经毒力的影响有待进一步研究。08TC170与其他毒株的高度同源性揭示了它们在内地中国和香港的共同传播，表明需要进一步监测。
Coxsackievirus B3 (CV-B3) has frequently been associated with aseptic meningitis outbreaks in China. To identify sequence motifs related to aseptic meningitis and to construct an infectious clone, the genome sequence of 08TC170, a representative strain isolated from cerebrospinal fluid (CSF) samples from an outbreak in Shandong in 2008, was determined, and the coding regions for P1-P3 and VP1 were aligned. The first 21 and last 20 residues were “TTAAAACAGCCTGTGGGTTGT” and “ATTCTCCGCATTCGGTGCGG”, respectively. The whole genome consisted of 7401 nucleotides, sharing 80.8 % identity with the prototype strain Nancy and low sequence similarity with members of clusters A-C. In contrast, 08TC170 showed high sequence similarity to members of cluster D. An especially high level of sequence identity (≥97.7 %) was found within a branch constituted by 08TC170 and four Chinese strains that clustered together in all of the P1-P3 phylogenic trees. In addition, 08TC170 also possessed a close relationship to the Hong Kong strain 26362/08 in VP1. Similarity plot analysis showed that 08TC170 was most similar to the Chinese CV-B3 strain SSM in P1 and the partial P2 coding region but to the CV-B5 or E-6 strain in 2C and following regions. A T277A mutation was found in 08TC170 and other strains isolated in 2008-2010, but not in strains isolated before 2008, which had high sequence similarity and formed the cluster A277. The results suggested that 08TC170 was the product of both intertypic recombination and point mutation, whose effects on viral neurovirulence will be investigated in a further study. The high homology between 08TC170 and other strains revealed their co-circulation in mainland China and Hong Kong and indicates that further surveillance is needed.