Phylogenetic and Genome-Wide Deep-Sequencing Analyses of Canine Parvovirus Reveal Co-Infection with Field Variants and Emergence of a Recent Recombinant Strain |
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| Authors: | Ruben Pérez Lucía Calleros Ana Marandino Nicolás Sarute Gregorio Iraola Sofia Grecco Hervé Blanc Marco Vignuzzi Ofer Isakov Noam Shomron Lucía Carrau Martín Hernández Lourdes Francia Katia Sosa Gonzalo Tomás Yanina Panzera |
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| Affiliation: | 1. Sección Genética Evolutiva, Instituto de Biología, Facultad de Ciencias, Universidad de la República, Montevideo, Uruguay.; 2. Institut Pasteur, Viral Populations and Pathogenesis Unit, Centre National de la Recherche Scientifique, Paris, France.; 3. Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel.; University of Nantes, France, |
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| Abstract: | Canine parvovirus (CPV), a fast-evolving single-stranded DNA virus, comprises three antigenic variants (2a, 2b, and 2c) with different frequencies and genetic variability among countries. The contribution of co-infection and recombination to the genetic variability of CPV is far from being fully elucidated. Here we took advantage of a natural CPV population, recently formed by the convergence of divergent CPV-2c and CPV-2a strains, to study co-infection and recombination. Complete sequences of the viral coding region of CPV-2a and CPV-2c strains from 40 samples were generated and analyzed using phylogenetic tools. Two samples showed co-infection and were further analyzed by deep sequencing. The sequence profile of one of the samples revealed the presence of CPV-2c and CPV-2a strains that differed at 29 nucleotides. The other sample included a minor CPV-2a strain (13.3% of the viral population) and a major recombinant strain (86.7%). The recombinant strain arose from inter-genotypic recombination between CPV-2c and CPV-2a strains within the VP1/VP2 gene boundary. Our findings highlight the importance of deep-sequencing analysis to provide a better understanding of CPV molecular diversity. |
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