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
2020-01-24
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: (Database), D225–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 articles

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