title: Maximum likelihood and Bayesian analyses of a combined nucleotide sequence dataset for genetic characterization of a novel pestivirus, SVA/cont-08.
abstract: Bovine viral diarrhoea virus 1 (BVDV-1) and Bovine viral diarrhoea virus 2 (BVDV-2) are two recognised bovine pestivirus species of the genus Pestivirus. Recently, a pestivirus, termed SVA/cont-08, was detected in a batch of contaminated foetal calf serum originating from South America. Comparative sequence analysis showed that the SVA/cont-08 virus shares 15-28% higher sequence identity to pestivirus D32/00_'HoBi' than to members of BVDV-1 and BVDV-2. In order to reveal the phylogenetic relationship of SVA/cont-08 with other pestiviruses, a molecular dataset of 30 pestiviruses and 1,896 characters, comprising the 5'UTR, N(pro) and E2 gene regions, was analysed by two methods: maximum likelihood and Bayesian approach. An identical, well-supported tree topology was observed, where four pestiviruses (SVA/cont-08, D32/00_'HoBi', CH-KaHo/cont, and Th/04_KhonKaen) formed a monophyletic clade that is closely related to the BVDV-1 and BVDV-2 clades. The strategy applied in this study is useful for classifying novel pestiviruses in the future.
authors.affiliation: Department of Biomedical Sciences and Veterinary Public Health, Swedish University of Agricultural Sciences, Uppsala, Sweden. Lihong.Liu@sva.se
authors.forename: Lihong
authors.initials: L
authors.lastname: Liu
authors.forename: Hongyan
authors.initials: H
authors.lastname: Xia
authors.forename: Claudia
authors.initials: C
authors.lastname: Baule
authors.forename: Sándor
authors.initials: S
authors.lastname: Belák
mesh_terms: D020413:3' Untranslated Regions / Q000235:genetics; D020121:5' Untranslated Regions / Q000235:genetics; D000818:Animals; D000866:Antelopes / Q000821:virology; D001499:Bayes Theorem; D002417:Cattle / Q000821:virology; D017931:DNA Primers; D030241:Diarrhea Virus 1, Bovine Viral / Q000235:genetics*; D030242:Diarrhea Virus 2, Bovine Viral / Q000235:genetics; D016679:Genome, Viral; D016013:Likelihood Functions; D016366:Open Reading Frames; D010576:Pestivirus / Q000235:genetics* / Q000302:isolation & purification; D012367:RNA, Viral / Q000235:genetics; D020133:Reverse Transcriptase Polymerase Chain Reaction; D012418:Ruminants / Q000821:virology
chemical_list: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D017931:DNA Primers; D012367:RNA, Viral