title: Typing of canine parvovirus isolates using mini-sequencing based single nucleotide polymorphism analysis.
abstract: The antigenic types of canine parvovirus (CPV) are defined based on differences in the amino acids of the major capsid protein VP2. Type specificity is conferred by a limited number of amino acid changes and in particular by few nucleotide substitutions. PCR based methods are not particularly suitable for typing circulating variants which differ in a few specific nucleotide substitutions. Assays for determining SNPs can detect efficiently nucleotide substitutions and can thus be adapted to identify CPV types. In the present study, CPV typing was performed by single nucleotide extension using the mini-sequencing technique. A mini-sequencing signature was established for all the four CPV types (CPV2, 2a, 2b and 2c) and feline panleukopenia virus. The CPV typing using the mini-sequencing reaction was performed for 13 CPV field isolates and the two vaccine strains available in our repository. All the isolates had been typed earlier by full-length sequencing of the VP2 gene. The typing results obtained from mini-sequencing matched completely with that of sequencing. Typing could be achieved with less than 100 copies of standard plasmid DNA constructs or ≤10¹ FAID₅₀ of virus by mini-sequencing technique. The technique was also efficient for detecting multiple types in mixed infections.
authors.affiliation: Research and Development Centre, Indian Immunologicals Limited, Gachibowli, Hyderabad 500032, India; Department of Biotechnology, Acharya Nagarjuna University, Guntur 522510, India.
authors.forename: Hariprasad
authors.initials: H
authors.lastname: Naidu
authors.forename: B Mohana
authors.initials: BM
authors.lastname: Subramanian
authors.forename: Shankar Ramchandra
authors.initials: SR
authors.lastname: Chinchkar
authors.forename: Rajan
authors.initials: R
authors.lastname: Sriraman
authors.forename: Samir Kumar
authors.initials: SK
authors.lastname: Rana
authors.forename: V A
authors.initials: VA
authors.lastname: Srinivasan
mesh_terms: D000818:Animals; D004279:DNA, Viral / Q000235:genetics*; D004285:Dogs; D017993:Parvovirus, Canine / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification; D020641:Polymorphism, Single Nucleotide; D017422:Sequence Analysis, DNA / Q000379:methods; D014773:Virology / Q000379:methods*
chemical_list: D004279:DNA, Viral