Complete nucleotide sequence of a human coxsackievirus B3 strain A103/KM/09 isolated in Yunnan province, 2009.

Hui-juan Yang; Jian-sheng Liu; Yun-kun Zhang; Zhong-fei MA; Wei-zhong Zhao; Yue Pan; Jun-ying Chen; Cong-wen Shao; Shao-hui MA

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Complete nucleotide sequence of a human coxsackievirus B3 strain A103/KM/09 isolated in Yunnan province, 2009.

Author: Hui-juan YANG ¹ ; Jian-sheng LIU ¹ ; Yun-kun ZHANG ¹ ; Zhong-fei MA ¹ ; Wei-zhong ZHAO ¹ ; Yue PAN ¹ ; Jun-ying CHEN ¹ ; Cong-wen SHAO ¹ ; Shao-hui MA ²
Author Information

1. 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.
2. 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. Email: haohuima70@hotmail.com.
Publication Type:Journal Article
MeSH: Base Sequence; Child, Preschool; China; epidemiology; Encephalitis, Viral; epidemiology; virology; Enterovirus B, Human; genetics; isolation & purification; Enterovirus Infections; epidemiology; virology; Genome, Viral; Humans; Male; Phylogeny; Viral Proteins; genetics
From:Chinese Journal of Epidemiology 2013;34(12):1208-1212
CountryChina
Language:Chinese
Abstract:
OBJECTIVETo analyze the genetic characterization of the complete genome from a human coxsackievirus B3 strain A103/KM/09 isolated in Yunnan province, 2009.
METHODSBy using RT-PCR, all the eight fragments which containing about 1000 nucleotides and covering full viral genome, were sequenced. By using Mega 5.05,Geneious, RDP 3 and SimPlot 3.5.1 software, sequences were aligned with other enterovirus reference sequences. Phylogenetic and recombination analysis were also carried out.
RESULTSThe A103/KM/09 isolate genome showed 7389 nucleotides in length , encoding for 2185 amino acids. In the complete genome, the homology of nucleotide and amino acid among the seven coxsackievirus B3 isolates were 81.0%-88.0% and 95.7%-98.0%, respectively. There appeared 81.0% and 95.7% homology when compared with that of Nancy prototype strain. Results from the Phylogenetic analysis showed that the coxsackievirus B3 formed five distinct clades, I-V. Nucleotide divergence rates between clades were 16.2%-24.3% . The A103/KM/09 strain belonged to clade V. Clade V was further divided into four sub-clades,A-D. The nucleotide divergence between sub-clades was 4.3%-11.4%. Putative recombinant event for A103/ KM/09 was detected.
CONCLUSIONAll coxsackievirus B3 isolates could be divided into five clades, with A103/KM/09 strain belonged to Clade V-D. Evolution of coxsackievirus B3 had occurred in China.