title: Phylogenetic analysis using E2 gene of classical swine fever virus reveals a new subgenotype in China.
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.
authors.affiliation: College of Veterinary Medicine, Hunan Agricultural University, Changsha, Hunan 410128, China.
authors.forename: Da-Liang
authors.initials: DL
authors.lastname: Jiang
authors.forename: Wen-Jie
authors.initials: WJ
authors.lastname: Gong
authors.forename: Run-Cheng
authors.initials: RC
authors.lastname: Li
authors.forename: Guo-Hua
authors.initials: GH
authors.lastname: Liu
authors.forename: Yun-Fei
authors.initials: YF
authors.lastname: Hu
authors.forename: Meng
authors.initials: M
authors.lastname: Ge
authors.forename: Shu-Qin
authors.initials: SQ
authors.lastname: Wang
authors.forename: Xing-Long
authors.initials: XL
authors.lastname: Yu
authors.forename: Changchun
authors.initials: C
authors.lastname: Tu
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D002681:China / Q000453:epidemiology; D006691:Classical Swine Fever / Q000453:epidemiology / Q000821:virology; D006692:Classical Swine Fever Virus / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification; D005838:Genotype; D008969:Molecular Sequence Data; D010802:Phylogeny; D016415:Sequence Alignment; D013552:Swine; D014759:Viral Envelope Proteins / Q000737:chemistry / Q000235:genetics*
chemical_list: D014759:Viral Envelope Proteins; C087086:glycoprotein E2, classical swine fever virus