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Complete nucleotide and amino acid sequences and genetic organization of porcine kobuvirus, a member of a new species in the genus Kobuvirus, family Picornaviridae

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Abstract

Kobuvirus is a new genus in the family Picornaviridae. Two species are currently known: Aichi virus (human kobuvirus) and Bovine kobuvirus (U-1). In this study, the complete nucleotide and amino acid sequences and genetic organization of porcine kobuvirus (Kobuvirus/swine/S-1-HUN/2007/Hungary, EU787450) were determined. The structure of the S-1-HUN genome, VPg–5′UTR–leader protein–structural proteins (VP0, VP3, VP1)–non-structural proteins (2A–2C, 3A–3D)–3′UTR–poly(A) tail, was found to be typical of picornavirus. The 8210-nucleotide (nt)-long RNA genome contains a large open reading frame (7467 nt) encoding a potential polyprotein precursor of 2488 amino acids (aa) that has 57/56% and 63/64% nt/aa identity with Aichi virus and U-1, respectively. The 5′UTR contains a hepacivirus/pestivirus-like internal ribosomal entry site (IRES type IV group-B-like) with conserved pseudoknot, II and IIIa–f domains. A tandem repeat (a 30-amino-acid-long motif) was detected in 2B. Thirty-nine (65%) of the 60 fecal samples from pigs under the age of 6 months at the tested farm were positive (the incidence was 90% under the age of 3 weeks). Porcine kobuvirus belongs to a potential new species—the third—in the genus Kobuvirus.

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Acknowledgments

We thank Teruo Yamashita for kindly providing an Aichi virus prototype strain A846/88 in year 2001. We thank István Kiss and Sándor Kecskeméti for animal sampling. We thank Zsuzsanna Kocsis for English editing of the manuscript. This work was supported by grants from the Hungarian Scientific Research Fund (OTKA, F048433), and the project “Enteric Virus Emergence, New Tools” (EVENT, SP22-CT-2004-502571) funded by the European Union.

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Authors and Affiliations

  1. Regional Laboratory of Virology, ÁNTSZ Regional Institute of State Public Health Service, Szabadság út 7, 7623, Pécs, Hungary

    Gábor Reuter, Ákos Boldizsár & Péter Pankovics

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  1. Gábor Reuter
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  2. Ákos Boldizsár
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  3. Péter Pankovics
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Correspondence to Gábor Reuter.

Additional information

Nucleotide sequence data reported are available in the GenBank database under accession number EU787450.

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Reuter, G., Boldizsár, Á. & Pankovics, P. Complete nucleotide and amino acid sequences and genetic organization of porcine kobuvirus, a member of a new species in the genus Kobuvirus, family Picornaviridae . Arch Virol 154, 101–108 (2009). https://doi.org/10.1007/s00705-008-0288-2

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