Full genomic sequence analysis of swine genotype 3 hepatitis E virus isolated from Shanghai
文献类型: 外文期刊
作者: Si, Fu-sheng 1 ; Zhu, Yu-min 1 ; Dong, Shi-juan 1 ; Yu, Shui-sheng 1 ; Yu, Rui-song 1 ; Shen, Shi-yuan 1 ; Yang, Qian; 1 ;
作者机构: 1.Shanghai Acad Agr Sci, Inst Anim Sci & Vet Med, Shanghai 201106, Peoples R China
2.Shanghai Key Lab Agr Genet & Breeding, Shanghai 201106, Peoples R China
3.Nanjing Agr
关键词: Hepatitis E virus;Genotype 3;Full genomic sequence;Phylogenetic analysis;Swine viral isolates
期刊名称:VIRUS RESEARCH ( 影响因子:3.303; 五年影响因子:3.445 )
ISSN: 0168-1702
年卷期: 2009 年 144 卷 1-2 期
页码:
收录情况: SCI
摘要: The full genomic nucleotide sequence of a previously identified genotype 3 hepatitis E virus (HEV), strain SAAS-JDY5, was obtained using RT-PCR and rapid amplification of cDNA ends (RACE). The genome consisted of 7225 nucleotides, excluding a poly-A tail at the 3' terminus, and contained three open reading frames (ORFs), ORF-1, ORF-2 and ORF-3, encoding 1702, 660 and 113 amino acids, respectively. Phylogenetic analysis confirmed that SAAS-JDY5 belonged to genotype 3 HEV and was most closely related to the Japanese isolate wbJYG1 (AB222184). SAAS-JDY5 shared approximately 87% nucleotide similarity to human and swine strains from the United States, compared with 74-75% similarity to Asian (genotype 4) and Mexican strains (genotype 2). Alignment of the SAAS-JDY5 genomic sequence with reference sequences of the same genotype revealed one nucleotide substitution and one deletion at positions 5145 and 7189 (3' UTR), respectively. Moreover, SAAS-JDY5 contained two additional nucleotides (AC) at the very end of the T-terminus preceding the poly-A tail of the genome. Comparison of the putative amino acid sequence encoded by the SAAS-JDY5 genome with sequences of other genotype 3 isolates revealed 15 unique amino acid substitutions and one deletion in ORF-1, and three substitutions in ORF-2. (C) 2009 Elsevier B.V. All rights reserved.
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