title: Molecular typing and phylogenetic analysis of classical swine fever virus isolates from Kerala, India.
abstract: Classical swine fever (CSF) is an economically important disease of pigs caused by CSF virus (CSFV) belonging to the genus Pestivirus within the family Flaviviridae. The disease is endemic in many countries including India. A comprehensive study was carried out to assess the type of CSFV circulating in the South Indian state of Kerala. During the period 2013-2014, clinical samples were collected from 19 suspected CSF outbreaks of domestic pigs in different districts of Kerala. The samples were tested using nested reverse transcription PCR (RT-PCR) targeting the E2 gene and RT-PCR for 5'UTR of the virus. Partial 5' UTR and E2 gene regions of six CSFV isolates were sequenced. Phylogenetic analysis revealed that all the CSFV isolates belonged to subgroup 2.2. The isolates showed close resemblance to the other CSFV isolates circulating in India. It was also observed that the CSFV viruses from Kannur district were distinct from those circulating in the other districts as evidenced by their divergence from other Kerala isolates in the phylogenetic tree. Close relationship was seen to the CSFV isolates from South East Asian countries.
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Pookode, Lakkidi P.O., Wayanad, Kerala 673576 India.
authors.forename: Nimisha
authors.initials: N
authors.lastname: Bhaskar
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Pookode, Lakkidi P.O., Wayanad, Kerala 673576 India.
authors.forename: Chintu
authors.initials: C
authors.lastname: Ravishankar
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Pookode, Lakkidi P.O., Wayanad, Kerala 673576 India.
authors.forename: R
authors.initials: R
authors.lastname: Rajasekhar
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Pookode, Lakkidi P.O., Wayanad, Kerala 673576 India.
authors.forename: K
authors.initials: K
authors.lastname: Sumod
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Mannuthy, Thrissur, Kerala 680651 India.
authors.forename: T G
authors.initials: TG
authors.lastname: Sumithra
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Pookode, Lakkidi P.O., Wayanad, Kerala 673576 India.
authors.forename: Koshy
authors.initials: K
authors.lastname: John
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Mannuthy, Thrissur, Kerala 680651 India.
authors.forename: M
authors.initials: M
authors.lastname: Mini
authors.affiliation: Department of Veterinary Parasitology, College of Veterinary and Animal Sciences, Pookode, Lakkidi P.O., Wayanad, Kerala 673576 India.
authors.forename: Reghu
authors.initials: R
authors.lastname: Ravindran
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Pookode, Lakkidi P.O., Wayanad, Kerala 673576 India.
authors.forename: Shiju
authors.initials: S
authors.lastname: Shaji
authors.affiliation: Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, Pookode, Lakkidi P.O., Wayanad, Kerala 673576 India.
authors.forename: J
authors.initials: J
authors.lastname: Aishwarya
keywords: 5′UTR; CSFV; E2; India; Kerala; Phylogeny; Subgroup 2.2