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Secondary structure analysis of swine pasivirus (family Picornaviridae) RNA reveals a type-IV IRES and a parechovirus-like 3’ UTR organization

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Abstract

The potential RNA structures of the 5’ and 3’ untranslated regions (UTRs) and cis-acting replication elements (CREs) of a novel pasivirus (PaV) genotype (family Picornaviridae) were analysed. PaV-A3 (KM259923) was identified in a faecal sample from a domestic pig in Hungary with posterior paraplegia of unknown etiology. Based on likely structural features of the 5’ UTR, the pasiviruses were inferred to possess Hepacivirus/Pestivirus-like type-IV IRES. The pasivirus CRE was mapped to the 2B genome region, similar to Ljungan virus. The secondary RNA structure of the pasivirus 3’ UTR was structurally similar to that of human parechoviruses. The genome, CRE, and 3’ UTR of pasiviruses provide further evidence of the common origin of the members of the genera Parechovirus and Pasivirus, although their different 5’ UTR IRES types suggest that a recombination event occurred during the divergence these viruses.

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Acknowledgments

This work was supported by grants from the Hungarian Scientific Research Fund (OTKA K83013 and OTKA/NKFIH K111615) and by NHLBI R01-HL105770.

Conflict of interest

The authors declare that they have no conflict of interest.

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Authors and Affiliations

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

    Ákos Boros, Hajnalka Fenyvesi, Péter Pankovics & Gábor Reuter

  2. SHP Ltd., Nagyváthy köz 2, 7400, Kaposvár, Hungary

    Hunor Biró

  3. Blood Systems Research Institute, San Francisco, CA, USA

    Tung Gia Phan & Eric Delwart

  4. University of California, San Francisco, CA, USA

    Tung Gia Phan & Eric Delwart

Authors
  1. Ákos Boros
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  2. Hajnalka Fenyvesi
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  3. Péter Pankovics
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  4. Hunor Biró
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  5. Tung Gia Phan
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  6. Eric Delwart
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  7. Gábor Reuter
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Corresponding author

Correspondence to Gábor Reuter.

Additional information

Nucleotide sequence data reported are available in the GenBank database under accession number: KM259923.

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Boros, Á., Fenyvesi, H., Pankovics, P. et al. Secondary structure analysis of swine pasivirus (family Picornaviridae) RNA reveals a type-IV IRES and a parechovirus-like 3’ UTR organization. Arch Virol 160, 1363–1366 (2015). https://doi.org/10.1007/s00705-015-2371-9

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  • DOI: https://doi.org/10.1007/s00705-015-2371-9

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