[中国云南分离的柯萨奇病毒B5 A210/KM/09株的基因组特征]

[Genomic characteristics of coxsackievirus B5 A210/KM/09 strain isolated in Yunnan, China].

作者信息

Liu Jiansheng, Shao Congwen, Zhao Weizhong, Zhang Yunkun, Ji Ma, Zhu Yanju, Ma Zhongfei, Ma Shaohui

机构信息

Yunnan Key Laboratory of Vaccine Research and Development on Severe Infectious Disease, Institute of Medical Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Kunming 650118, China.

出版信息

Zhonghua Liu Xing Bing Xue Za Zhi. 2014 Mar;35(3):307-11.

PMID:24831633

Abstract

OBJECTIVE

To characterize the complete genome sequence of coxsackievirus B5 (CVB5)A210/KM/09 strain which was isolated from Yunnan, China, 2009.

METHODS

Eight overlapping clones covering the whole viral genome (excluding the poly-A tail)were obtained by RT-PCR and sequenced, with their nucleotide and amino acid sequences compared with other known CVB5 strains.

RESULTS

The genome of the CVB5 A210/KM/09 strain had 7 372 nucleotides in length, and containing a 742-nt non-translated region (NTR) at the 5' end and a 98-nt NTR at the 3' end. The entire open reading frame contained 6 555 nt, encoding a 2 185-aa polyprotein. In the coding region, there appeared no nucleotide deletion or insertion, but some changes of amino acid seemed unique. Based on the complete genome sequence alignments, CVB5 isolate A210/KM/09 strain showed the highest nucleotide (92.5%) and amino acid (97.3%) identities to the CVB5/CC10/10. It also shared nucleotide (80.1%-92.5%) and amino acid (95.0%-97.3%) homology with other CVB5 strains: 17Y, 19CSF, 20CSF, 1954/85/US, 2000/CSF/KOR, 03001N, CoxB5/Henan/2010, VB5/SD/09 and Faulkner. Blast between genome fragments, A210/KM/09 showed similarity on nucleotide (80.1%-92.5%) and amino acid (95.0%-97.3%) identities with other CVB5 strains. The phylogenetic tree, constructed on the complete VP1 regions, indicated that CVB5 could be divided into genotype A, B, C and D. while Genotype C and D could be further divided into C1-C4 and D1-D4 subgenotypes.

CONCLUSION

A210/KM/09 and other CVB5 predominant strains isolated in China belonged to CVB5 subgenotype C4.

摘要

目的

对2009年从中国云南分离出的柯萨奇病毒B5（CVB5）A210/KM/09株的全基因组序列进行特征分析。

方法

通过逆转录聚合酶链反应（RT-PCR）获得覆盖整个病毒基因组（不包括聚腺苷酸尾）的8个重叠克隆并进行测序，将其核苷酸和氨基酸序列与其他已知CVB5株进行比较。

结果

CVB5 A210/KM/09株基因组长度为7372个核苷酸，5'端有一个742个核苷酸的非翻译区（NTR），3'端有一个98个核苷酸的NTR。整个开放阅读框包含6555个核苷酸，编码一个2185个氨基酸的多聚蛋白。在编码区，未出现核苷酸缺失或插入，但一些氨基酸变化似乎是独特的。基于全基因组序列比对，CVB5分离株A210/KM/09株与CVB5/CC10/10的核苷酸同一性最高（92.5%），氨基酸同一性最高（97.3%）。它与其他CVB5株：17Y、19CSF、20CSF、1954/85/US、2000/CSF/KOR、03001N、CoxB5/河南/2010、VB5/SD/09和福克纳也具有核苷酸（80.1%-92.5%）和氨基酸（95.0%-97.3%）同源性。基因组片段之间的比对显示，A210/KM/09与其他CVB5株在核苷酸（80.1%-92.5%）和氨基酸（95.0%-97.3%）同一性上具有相似性。基于完整的VP1区域构建的系统发育树表明，CVB5可分为A、B、C和D基因型。而基因型C和D可进一步分为C1-C4和D1-D4亚基因型。