1887

Abstract

A novel virus was detected from diseased ducks and completely determined. The virus was shown to have a picornavirus-like genome layout. Interestingly, the genome contained a total of up to six 2As, including four 2As (2A1–2A4) each having an NPGP motif, an AIG1-like 2A5, and a parechovirus-like 2A6. The 5′UTR was predicted to possess a hepacivirus/pestivirus-like internal ribosome entry site (IRES). However, the subdomain IIIe consisted of a 3 nt stem and five unpaired bases, distinct from those found in all other HP-like IRESs. The virus was most closely related to duck hepatitis A virus, with amino acid identities of 37.7 %, 39 % and 43.7 % in the P1, P2 and P3 regions, respectively. Based on these investigations, together with phylogenetic analyses, the virus could be considered as the founding member of a novel picornavirus genus that we tentatively named ‘Aalivirus’, with ‘Aalivirus A’ as the type species.

Loading

Article metrics loading...

/content/journal/jgv/10.1099/vir.0.063313-0
2014-06-01
2021-01-19
Loading full text...

Full text loading...

/deliver/fulltext/jgv/95/6/1289.html?itemId=/content/journal/jgv/10.1099/vir.0.063313-0&mimeType=html&fmt=ahah

References

  1. Blom N., Hansen J., Blaas D., Brunak S. 1996; Cleavage site analysis in picornaviral polyproteins: discovering cellular targets by neural networks. Protein Sci 5:2203–2216 [CrossRef][PubMed]
    [Google Scholar]
  2. Boros Á., Nemes C., Pankovics P., Kapusinszky B., Delwart E., Reuter G. 2012; Identification and complete genome characterization of a novel picornavirus in turkey (Meleagris gallopavo). J Gen Virol 93:2171–2182 [CrossRef][PubMed]
    [Google Scholar]
  3. Boros Á., Kiss T., Kiss O., Pankovics P., Kapusinszky B., Delwart E., Reuter G. 2013a; Genetic characterization of a novel picornavirus distantly related to the marine mammal-infecting aquamaviruses in a long-distance migrant bird species, European roller (Coracias garrulus). J Gen Virol 94:2029–2035 [CrossRef][PubMed]
    [Google Scholar]
  4. Boros A., Nemes C., Pankovics P., Kapusinszky B., Delwart E., Reuter G. 2013b; Genetic characterization of a novel picornavirus in turkeys (Meleagris gallopavo) distinct from turkey galliviruses and megriviruses and distantly related to the members of the genus Avihepatovirus . J Gen Virol 94:1496–1509 [CrossRef][PubMed]
    [Google Scholar]
  5. Bullman S., Kearney K., O’ Mahony M., Kelly L., Whyte P., Fanning S., Morgan J. G. 2014; Identification and genetic characterisation of a novel picornavirus from chickens. J Gen Virol [CrossRef][PubMed]
    [Google Scholar]
  6. Ding C., Zhang D. 2007; Molecular analysis of duck hepatitis virus type 1. Virology 361:9–17 [CrossRef][PubMed]
    [Google Scholar]
  7. Fichtner D., Philipps A., Groth M., Schmidt-Posthaus H., Granzow H., Dauber M., Platzer M., Bergmann S. M., Schrudde D.other authors 2013; Characterization of a novel picornavirus isolate from a diseased European eel (Anguilla anguilla). J Virol 87:10895–10899 [CrossRef][PubMed]
    [Google Scholar]
  8. Fu Y., Pan M., Wang X., Xu Y., Yang H., Zhang D. 2008; Molecular detection and typing of duck hepatitis A virus directly from clinical specimens. Vet Microbiol 131:247–257 [CrossRef][PubMed]
    [Google Scholar]
  9. Hales L. M., Knowles N. J., Reddy P. S., Xu L., Hay C., Hallenbeck P. L. 2008; Complete genome sequence analysis of Seneca Valley virus-001, a novel oncolytic picornavirus. J Gen Virol 89:1265–1275 [CrossRef][PubMed]
    [Google Scholar]
  10. Hellen C. U. T., de Breyne S. 2007; A distinct group of hepacivirus/pestivirus-like internal ribosomal entry sites in members of diverse picornavirus genera: evidence for modular exchange of functional noncoding RNA elements by recombination. J Virol 81:5850–5863 [CrossRef][PubMed]
    [Google Scholar]
  11. Honkavuori K. S., Shivaprasad H. L., Briese T., Street C., Hirschberg D. L., Hutchison S. K., Lipkin W. I. 2011; Novel picornavirus in turkey poults with hepatitis, California, USA. Emerg Infect Dis 17:480–487 [CrossRef][PubMed]
    [Google Scholar]
  12. Hughes P. J., Stanway G. 2000; The 2A proteins of three diverse picornaviruses are related to each other and to the H-rev107 family of proteins involved in the control of cell proliferation. J Gen Virol 81:201–207[PubMed]
    [Google Scholar]
  13. Kapoor A., Victoria J., Simmonds P., Wang C., Shafer R. W., Nims R., Nielsen O., Delwart E. 2008; A highly divergent picornavirus in a marine mammal. J Virol 82:311–320 [CrossRef][PubMed]
    [Google Scholar]
  14. Kim M. C., Kwon Y. K., Joh S. J., Kim S. J., Tolf C., Kim J. H., Sung H. W., Lindberg A. M., Kwon J. H. 2007; Recent Korean isolates of duck hepatitis virus reveal the presence of a new geno- and serotype when compared to duck hepatitis virus type 1 type strains. Arch Virol 152:2059–2072 [CrossRef][PubMed]
    [Google Scholar]
  15. Knowles N. J., Hovi T., Hyypiä T., King A. M. Q., Lindberg A. M., Pallansch M. A., Palmenberg A. C., Simmonds P., Skern T.other authors 2012; Picornaviridae. In Virus Taxonomy: Classification and Nomenclature of Viruses: Ninth Report of the International Committee on Taxonomy of Viruses pp. 855–880 Edited by King A. M. Q., Adams M. J., Carstens E. B., Lefkowitz E. J. San Diego, CA: Elsevier;
    [Google Scholar]
  16. Kofstad T., Jonassen C. M. 2011; Screening of feral and wood pigeons for viruses harbouring a conserved mobile viral element: characterization of novel astroviruses and picornaviruses. PLoS ONE 6:e25964 [CrossRef][PubMed]
    [Google Scholar]
  17. Lau S. K., Woo P. C., Lai K. K., Huang Y., Yip C. C., Shek C. T., Lee P., Lam C. S., Chan K. H., Yuen K. Y. 2011; Complete genome analysis of three novel picornaviruses from diverse bat species. J Virol 85:8819–8828 [CrossRef][PubMed]
    [Google Scholar]
  18. Lau S. K., Woo P. C., Yip C. C., Choi G. K., Wu Y., Bai R., Fan R. Y., Lai K. K., Chan K. H., Yuen K. Y. 2012; Identification of a novel feline picornavirus from the domestic cat. J Virol 86:395–405 [CrossRef][PubMed]
    [Google Scholar]
  19. Marchler-Bauer A., Lu S., Anderson J. B., Chitsaz F., Derbyshire M. K., DeWeese-Scott C., Fong J. H., Geer L. Y., Geer R. C.other authors 2011; CDD: a Conserved Domain Database for the functional annotation of proteins. Nucleic Acids Res 39:DatabaseD225–D229 [CrossRef][PubMed]
    [Google Scholar]
  20. Ng T. F., Cheung A. K., Wong W., Lager K. M., Kondov N. O., Cha Y., Murphy D. A., Pogranichniy R. M., Delwart E. 2013; Divergent picornavirus from a turkey with gastrointestinal disease. Genome Announc 1:e00134-e13 [CrossRef][PubMed]
    [Google Scholar]
  21. Pan M., Yang X., Zhou L., Ge X., Guo X., Liu J., Zhang D., Yang H. 2012; Duck hepatitis A virus possesses a distinct type IV internal ribosome entry site element of picornavirus. J Virol 86:1129–1144 [CrossRef][PubMed]
    [Google Scholar]
  22. Pankovics P., Boros Á., Reuter G. 2012; Novel picornavirus in domesticated common quail (Coturnix coturnix) in Hungary. Arch Virol 157:525–530 [CrossRef][PubMed]
    [Google Scholar]
  23. Reuter G., Boldizsár Á., Pankovics P. 2009; 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 [CrossRef][PubMed]
    [Google Scholar]
  24. Ryan M. D., Flint M. 1997; Virus-encoded proteinases of the picornavirus super-group. J Gen Virol 78:699–723[PubMed]
    [Google Scholar]
  25. Sambrook J., Russell D. W. 2001 Molecular Cloning: a Laboratory Manual, 3rd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory;
    [Google Scholar]
  26. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. 2011; mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739 [CrossRef][PubMed]
    [Google Scholar]
  27. Tseng C. H., Tsai H. J. 2007; Molecular characterization of a new serotype of duck hepatitis virus. Virus Res 126:19–31 [CrossRef][PubMed]
    [Google Scholar]
  28. Woo P. C., Lau S. K., Choi G. K., Yip C. C., Huang Y., Tsoi H. W., Yuen K. Y. 2012; Complete genome sequence of a novel picornavirus, canine picornavirus, discovered in dogs. J Virol 86:3402–3403 [CrossRef][PubMed]
    [Google Scholar]
  29. Woolcock P. R. 2003; Duck hepatitis. In Diseases of Poultry, 11th edn. pp. 343–354 Edited by Saif Y. M., Barnes H. J., Glisson J. R., Fadly A. M., McDougald L. R., Swayne D. E. Ames, IA: Iowa State Press;
    [Google Scholar]
  30. Zuker M. 2003; Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 31:3406–3415 [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jgv/10.1099/vir.0.063313-0
Loading
/content/journal/jgv/10.1099/vir.0.063313-0
Loading

Data & Media loading...

Most cited this month Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error