title: Molecular characterization of lapinized classical Swine Fever vaccine strain by full-length genome sequencing and analysis.
abstract: The complete genome of a lapinized classical swine fever virus (CSFV) vaccine strain was amplified into nine overlapping fragments by RT-PCR, and nucleotide sequences were determined. Complete genome sequence alignment and phylogenetic analysis indicated 92.6-98.6% identities at the nucleotide level with other reported CSFV strains and could be grouped into subgroup 1.1 along with other attenuated strains of CSFV. The 5'-UTR demonstrated >97.0% nucleotide similarity with most of vaccine CSFV strains from China. Further, its 3'-UTR sequence indicated a length similar to all the CSFV strains from China with >98.0% nucleotide similarity, although high length heterogeneity of 3'-UTR was reported among different CSFV strains. There was 12 nt (TTTTCTTTTTTT) insertion in 3'-UTR similar to other reported attenuated vaccine strains. However, secondary structure of 3'-UTR indicated that Indian CSFV strain requires further passage to obtain a 3'-UTR structure similar to most of the attenuated strains.
authors.affiliation: Division of Animal Biotechnology, Indian Veterinary Research Institute, Izatnagar, India. praveen.indian@gmail.com
authors.forename: Praveen K
authors.initials: PK
authors.lastname: Gupta
authors.forename: Mohini
authors.initials: M
authors.lastname: Saini
authors.forename: Shyam S
authors.initials: SS
authors.lastname: Dahiya
authors.forename: Chhabi Lal
authors.initials: CL
authors.lastname: Patel
authors.forename: Arvind A
authors.initials: AA
authors.lastname: Sonwane
authors.forename: D V
authors.initials: DV
authors.lastname: Rai
authors.forename: K D
authors.initials: KD
authors.lastname: Pandey
mesh_terms: D020413:3' Untranslated Regions / Q000235:genetics; D020121:5' Untranslated Regions / Q000235:genetics; D000818:Animals; D001483:Base Sequence; D002681:China; D006691:Classical Swine Fever / Q000235:genetics / Q000821:virology*; D006692:Classical Swine Fever Virus / Q000145:classification / Q000235:genetics; D016679:Genome, Viral; D007194:India; D009690:Nucleic Acid Conformation; D009711:Nucleotides / Q000235:genetics; D010802:Phylogeny; D012367:RNA, Viral / Q000235:genetics; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D012689:Sequence Homology, Nucleic Acid; D013552:Swine; D014613:Vaccines, Attenuated / Q000235:genetics*; D014765:Viral Vaccines / Q000145:classification / Q000235:genetics*
chemical_list: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D009711:Nucleotides; D012367:RNA, Viral; D014613:Vaccines, Attenuated; D014765:Viral Vaccines