Phylogenetic analysis using E2 gene of classical swine fever virus reveals a new subgenotype in China |
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Affiliation: | 1. College of Animal Sciences, Zhejiang University, 310058, China;2. Zhejiang Academy of Medical Sciences, Hangzhou 310013, China;1. Postdoctoral Research Base, Henan Institute of Science and Technology, Xinxiang 453003, China;2. College of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang 453003, China;3. College of Veterinary Medicine, Yunnan Agricultural University, Kunming 650201, China |
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Abstract: | Outbreaks of classical swine fever (CSF) have caused serious economic consequences in China. Phylogenetic analysis based on full-length E2 gene sequences showed that five classical swine fever virus (CSFV) isolates collected from Hunan province in 2011 and 2012, together with seven other isolates from neighboring provinces, Guangdong (5) and Guangxi (2), could be classified as a new subgenotype 2.1c, which may have been endemic in the south of China for at least fourteen years. Subgenotype 2.1c isolates share 90.2–94.9% and 89.9–93.8% nucleotide sequence similarity separately with those of subgenotype 2.1a and 2.1b in E2 gene, which are lower than the nucleotide identities between subgenotype 2.1a and 2.1b (91.1–95.7%). Further analysis based on a partial E2 gene sequence (216 nt) indicated that subgenotype 2.1c isolates are also circulating in Thailand. Alignment of E2 amino acid sequences showed that subgenotype 2.1c isolates exhibit a SPA → TPV substitution at positions 777 and 779 compared with subgenotypes 2.1a and 2.1b. |
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Keywords: | Classical swine fever virus Phylogenetic analysis E2 gene Subgenotype |
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