title: Molecular characterization of Japanese encephalitis virus strains prevalent in Chinese swine herds.
abstract: Japanese encephalitis virus (JEV) is the leading cause of viral encephalitis in Asia and domestic pigs serve as the amplifying hosts. In the present study, the full genomic sequences of two JEV strains (HEN0701 and SH0601) isolated from pigs in China were determined and compared with other 12 JEV strains deposited in GenBank. These two strains had an 88.8% nucleotide sequence similarity and 97.9% deduced amino acid sequence homology. HEN0701 had high nucleotide sequence and high amino acid sequence identity with genotype I (GI) strains, while SH0601 had high nucleotide sequence and high amino acid sequence identity with GIII strains at both the gene and full genome levels. Further phylogenetic analysis showed that HEN0701 belonged to the JEV GI group and SH0601 was classified as a GIII strain. Analysis of codon usage showed there were a few differences between the GI and GIII strains in nucleotide composition and codon usage for the open reading frames.
authors: Department of Swine Infectious Diseases, Shanghai Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Shanghai 200241, China.
authors: Hao
authors: H
authors: Zheng
authors: Tongling
authors: T
authors: Shan
authors: Yu
authors: Y
authors: Deng
authors: Chunqing
authors: C
authors: Sun
authors: Shishan
authors: S
authors: Yuan
authors: Yang
authors: Y
authors: Yin
authors: Guangzhi
authors: G
authors: Tong
mesh_terms: D000818:Animals; D002460:Cell Line; D006224:Cricetinae; D004664:Encephalitis Virus, Japanese / Q000145:classification / Q000235:genetics*; D004672:Encephalitis, Japanese / Q000453:epidemiology / Q000662:veterinary* / Q000821:virology; D015967:Gene Expression Regulation, Viral / Q000502:physiology; D016679:Genome, Viral; D017720:Molecular Epidemiology; D010802:Phylogeny; D013552:Swine; D013553:Swine Diseases / Q000453:epidemiology / Q000821:virology*
keywords: Japanese encephalitis virus; genotype; phylogenetic analysis
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