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  • 1 University of Veterinary Medicine, István u. 2, H-1078 Budapest, Hungary
  • 2 Veterinary Diagnostic Directorate, Budapest, Hungary
  • 3 Semmelweis University, Budapest, Hungary
  • 4 University of Veterinary Medicine, István u. 2, H-1078 Budapest, Hungary
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Complete genome sequences of bovine viral diarrhoea virus types 1 and 2 (BVDV-1 and 2) deposited in the GenBank were submitted to bioinformatic analysis using a recombination-detecting software. The results indicate that recombination events are not rare in the case of BVDV, which frequently causes immunotolerance and, consequently, persistent infection in calves. The lack of specific immunity provides an ideal possibility for multiple infections by antigenically related but genetically different BVDV strains, and hence recombinations may occur. Among the 62 BVDV-1 genomes five recombinants and their possible parent strains, while among the 50 BVDV-2 genomes one simple recombinant and its parent strains were identified, which were supported by extremely strong probability values (P values varying between 1.26 × 10–4 and 1.58 × 10–310). Besides the newly identified recombinants, recombination events described previously were confirmed, but in some of these cases former information was completed with new data, or different parent(s) were suggested by the programme (RDP 4.46 BETA) used in this study.

  • Altschul, S. F., Gish, W., Miller, W., Myers, E. W. and Lipman, D. J. (1990): Basic local alignment search tool.. J. Mol. Biol. 215, 403410.

    • Search Google Scholar
    • Export Citation
  • Becher, P. and Tautz, N. (2011): RNA recombination in pestiviruses: Cellular RNA sequences in viral genomes highlight the role of host factors for viral persistence and lethal disease.. RNA Biol. 8, 216224.

    • Search Google Scholar
    • Export Citation
  • Becher, P., Orlich, M., Konig, M. and Thiel, H. J. (1999): Nonhomologous RNA recombination in bovine viral diarrhea virus: Molecular characterization of a variety of subgenomic RNAs isolated during an outbreak of fatal mucosal disease.. J. Virol. 73, 56465653.

    • Search Google Scholar
    • Export Citation
  • Boni, M. F., Posada, D. and Feldman, M. W. (2007): An exact nonparametric method for inferring mosaic structure in sequence triplets.. Genetics 176, 10351047.

    • Search Google Scholar
    • Export Citation
  • Deng, Y., Shan, T. L., Tong, W., Zheng, X. C., Guo, Y. Y., Zheng, H., Cao, S. J., Wen, X. T. and Tong, G. Z. (2014): Genomic characterization of a bovine viral diarrhea virus 1 isolate from swine.. Arch. Virol. 159, 25132517.

    • Search Google Scholar
    • Export Citation
  • Frey, H. R., Flebbe, U. and Liess, B. (1996): Prevalence and clinical symptoms of persistent BVDvirus infection in cattle herds of Lower Saxony.. Prakt. Tierarzt 77, 4952.

    • Search Google Scholar
    • Export Citation
  • Fulton, R. W., Step, D. L., Ridpath, J. F., Saliki, J. T., Confer, A. W., Johnson, B. J., Briggs, R. E., Hawley, R. V., Burge, L. J. and Payton, M. E. (2003): Response of calves persistently infected with noncytopathic bovine viral diarrhea virus (BVDV) subtype 1b after vaccination with heterologous BVDV strains in modified live virus vaccines and Mannheimia haemolytica bacterin-toxoid.. Vaccine 21, 29802985.

    • Search Google Scholar
    • Export Citation
  • Gibbs, M. J., Armstrong, J. S. and Gibbs, A. J. (2000): Sister-scanning: a Monte Carlo procedure for assessing signals in recombinant sequences.. Bioinformatics 16, 573582.

    • Search Google Scholar
    • Export Citation
  • Holmes, E. C., Worobey, M. and Rambaut, A. (1999): Phylogenetic evidence for recombination in dengue virus.. Mol. Biol. Evol. 16, 405409.

    • Search Google Scholar
    • Export Citation
  • Jones, L. R. and Weber, E. L. (2004): Homologous recombination in bovine pestiviruses: Phylogenetic and statistic evidence.. Infect. Genet. Evol. 4, 335343.

    • Search Google Scholar
    • Export Citation
  • Lai, V. C. H., Zhong, W. D., Skelton, A., Ingravallo, P., Vassilev, V., Donis, R. O., Hong, Z. and Lau, J. Y. N. (2000): Generation and characterization of a hepatitis C virus NS3 proteasedependent bovine viral diarrhea virus.. J. Virol. 74, 63396347.

    • Search Google Scholar
    • Export Citation
  • Leal, E., Villanova, F. E., Lin, W. C., Hu, F., Liu, Q. F., Liu, Y. B. and Cui, S. J. (2012): Interclade recombination in porcine parvovirus strains (Retracted article.. See vol. 94, pg. 464, 2013). J. Gen. Virol. 93, 26922704.

    • Search Google Scholar
    • Export Citation
  • Martin, D. and Rybicki, E. (2000): RDP: detection of recombination amongst aligned sequences.. Bioinformatics 16, 562563.

  • Martin, D. P., Murrell, B., Golden, M., Khoosal, A. and Muhire, B. (2015): RDP4: Detection and analysis of recombination patterns in virus genomes. Virus. Evol. 1 (1): vev003. DOI: http://dx.doi.org/10.1093/ve/vev003.

  • Martin, D. P., Posada, D., Crandall, K. A. and Williamson, C. (2005): A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints.. AIDS Res. Hum. Retrov. 21, 98102.

    • Search Google Scholar
    • Export Citation
  • Neill, J. D., Dubovi, E. J. and Ridpath, J. F. (2015): Identification of amino acid changes in the envelope glycoproteins of bovine viral diarrhea viruses isolated from alpaca that may be involved in host adaptation.. Vet. Microbiol. 179, 299303.

    • Search Google Scholar
    • Export Citation
  • Padidam, M., Sawyer, S. and Fauquet, C. M. (1999): Possible emergence of new geminiviruses by frequent recombination.. Virology 265, 218225.

    • Search Google Scholar
    • Export Citation
  • Posada, D. (2002): Evaluation of methods for detecting recombination from DNA sequences: Empirical data.. Mol. Biol. Evol. 19, 708717.

    • Search Google Scholar
    • Export Citation
  • Ridpath, J. F. and Bolin, S. R. (1995): The genomic sequence of a virulent bovine viral diarrhea virus (BVDV) from the type-2 genotype –detection of a large genomic insertion in a noncytopathic BVDV.. Virology 212, 3946.

    • Search Google Scholar
    • Export Citation
  • Ridpath, J. F. and Neill, J. D. (2000): Detection and characterization of genetic recombination in cytopathic type 2 bovine viral diarrhea viruses.. J. Virol. 74, 87718774.

    • Search Google Scholar
    • Export Citation
  • Ridpath, J. F., Neill, J. D., Vilcek, S., Dubovi, E. J. and Carman, S. (2006): Multiple outbreaks of severe acute BVDV in North America occurring between 1993 and 1995 linked to the same BVDV-2 strain.. Vet. Microbiol. 114, 196204.

    • Search Google Scholar
    • Export Citation
  • Simon-Loriere, E. and Holmes, E. C. (2011): Why do RNA viruses recombine? Nat.. Rev. Microbiol. 9, 617626.

  • Smith, J. M. (1992): Analyzing the mosaic structure of genes.. J. Mol. Evol. 34, 126129.

  • Tamura, K., Stecher, G., Peterson, D., Filipski, A. and Kumar, S. (2013): MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0.. Mol. Biol. Evol. 30, 27252729.

    • Search Google Scholar
    • Export Citation
  • Toplak, I., Sandvik, T., Barlic-Maganja, D., Grom, J. and Paton, D. J. (2004): Genetic typing of bovine viral diarrhoea virus: most Slovenian isolates are of genotypes 1d and 1f.. Vet. Microbiol. 99, 175185.

    • Search Google Scholar
    • Export Citation
  • Vilcek, S., Durkovic, B., Kolesarova, M., Greiser-Wilke, I. and Paton, D. (2004): Genetic diversity of international bovine viral diarrhoea virus (BVDV) isolates: identification of a new BVDV-1 genetic group.. Vet. Res. 35, 609615.

    • Search Google Scholar
    • Export Citation
  • Weber, M. N., Streck, A. F., Silveira, S., Mosena, A. C. S., da Silva, M. S. and Canal, C. W. (2015): Homologous recombination in pestiviruses: Identification of three putative novel events between different subtypes/genogroups.. Infect. Genet. Evol. 30, 219224.

    • Search Google Scholar
    • Export Citation

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