1887

Abstract

Complete genome sequences were determined for two distinct strains of slow bee paralysis virus (SBPV) of honeybees (). The SBPV genome is approximately 9.5 kb long and contains a single ORF flanked by 5′- and 3′-UTRs and a naturally polyadenylated 3′ tail, with a genome organization typical of members of the family . The two strains, labelled ‘Rothamsted’ and ‘Harpenden’, are 83 % identical at the nucleotide level (94 % identical at the amino acid level), although this variation is distributed unevenly over the genome. The two strains were found to co-exist at different proportions in two independently propagated SBPV preparations. The natural prevalence of SBPV for 847 colonies in 162 apiaries across five European countries was <2 %, with positive samples found only in England and Switzerland, in colonies with variable degrees of infestation.

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2010-10-01
2019-09-18
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References

  1. Allen, M. F. & Ball, B. V. ( 1996; ). The incidence and world distribution of honey bee viruses. Bee World 77, 141–162.[CrossRef]
    [Google Scholar]
  2. Anderson, D. L. ( 1990; ). Pests and pathogens of the honeybee (Apis mellifera L.) in Fiji. J Apic Res 29, 53–59.
    [Google Scholar]
  3. Bailey, L. & Ball, B. V. ( 1991; ). Honey Bee Pathology, 2nd edn. London. : Academic Press.
    [Google Scholar]
  4. Bailey, L. & Woods, R. D. ( 1974; ). Three previously undescribed viruses from the honey bee. J Gen Virol 25, 175–186.[CrossRef]
    [Google Scholar]
  5. Belsham, G. J. ( 2009; ). Divergent picornavirus IRES elements. Virus Res 139, 183–192.[CrossRef]
    [Google Scholar]
  6. Bustin, S. A., Benes, V., Garson, J. A., Hellemans, J., Huggett, J., Kubista, M., Mueller, R., Nolan, T., Pfaffl, M. W. & other authors ( 2009; ). The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments. Clin Chem 55, 611–622.[CrossRef]
    [Google Scholar]
  7. Carreck, N. L., Ball, B. V. & Martin, S. J. ( 2010; ). Honey bee colony collapse and changes in viral prevalence associated with Varroa destructor. J Apic Res 49, 93–94.[CrossRef]
    [Google Scholar]
  8. Chantawannakul, P., Ward, L., Boonham, N. & Brown, M. ( 2006; ). A scientific note on the detection of honeybee viruses using real-time PCR (TaqMan) in Varroa mites collected from a Thai honeybee (Apis mellifera) apiary. J Invertebr Pathol 91, 69–73.[CrossRef]
    [Google Scholar]
  9. de Miranda, J. R. & Genersch, E. ( 2010; ). Deformed wing virus. J Invertebr Pathol 103, S48–S61.[CrossRef]
    [Google Scholar]
  10. de Miranda, J. R., Cordoni, G. & Budge, G. ( 2010; ). The acute bee paralysis virus–Kashmir bee virus–Israeli acute paralysis virus complex. J Invertebr Pathol 103 (Suppl. 1), S30–S47.[CrossRef]
    [Google Scholar]
  11. Denholm, C. H. ( 1999; ). Inducible honey bee viruses associated with Varroa jacobsoni. PhD thesis, Keele University, Keele, UK.
  12. Glaser, W., Cencic, R. & Skern, T. ( 2001; ). Foot-and-mouth disease virus leader proteinase: involvement of C-terminal residues in self-processing and cleavage of eIF4GI. J Biol Chem 276, 35473–35481.[CrossRef]
    [Google Scholar]
  13. Gorbalenya, A. E., Donchenko, A. P., Blinov, V. M. & Koonin, E. V. ( 1989; ). Cysteine proteases of positive strand RNA viruses and chymotrypsin-like serine proteases: a distinct protein superfamily with a common structural fold. FEBS Lett 243, 103–114.[CrossRef]
    [Google Scholar]
  14. Gorbalenya, A. E., Pringle, F. M., Zeddam, J. L., Luke, B. T., Cameron, C. E., Kalmakoff, J., Hanzlik, T. N., Gordon, K. H. & Ward, V. K. ( 2002; ). The palm subdomain-based active site is internally permuted in viral RNA-dependent RNA polymerases of an ancient lineage. J Mol Biol 324, 47–62.[CrossRef]
    [Google Scholar]
  15. Guarné, A., Tormo, J., Kirchweger, R., Pfistermueller, D., Fita, I. & Skern, T. ( 1998; ). Structure of the foot-and-mouth disease virus leader protease: a papain-like fold adapted for self-processing and eIF4G recognition. EMBO J 17, 7469–7479.[CrossRef]
    [Google Scholar]
  16. Harlow, E. & Lane, D. P. ( 1988; ). Antibodies: a Laboratory Manual. Cold Spring Harbor, NY. : Cold Spring Harbor Laboratory.
    [Google Scholar]
  17. Hébrard, E., Bessin, Y., Michon, T., Longhi, S., Uversky, V. N., Delalande, F., Van Dorsselaer, A., Romero, P., Walter, J. & other authors ( 2009; ). Intrinsic disorder in viral proteins genome-linked: experimental and predictive analyses. Virol J 16, e23.
    [Google Scholar]
  18. Hinton, T. M., Ross-Smith, N., Warner, S., Belsham, G. J. & Crabb, B. S. ( 2002; ). Conservation of L and 3C protease activities across distantly related aphthoviruses. J Gen Virol 83, 3111–3121.
    [Google Scholar]
  19. Hornitzky, M. A. Z. ( 1987; ). Prevalence of virus infections of honey bees in Eastern Australia. J Apic Res 26, 181–187.
    [Google Scholar]
  20. Jan, E. ( 2006; ). Divergent IRES elements in invertebrates. Virus Res 119, 16–28.[CrossRef]
    [Google Scholar]
  21. Koonin, E. V., Senkevich, T. G. & Dolja, V. V. ( 2006; ). The ancient virus world and evolution of cells. Biol Direct 1, 29.[CrossRef]
    [Google Scholar]
  22. Koonin, E. V., Wolf, Y. I., Nagasaki, K. & Dolja, V. V. ( 2008; ). The Big Bang of picorna-like virus evolution antedates the radiation of eukaryotic supergroups. Nat Rev Microbiol 6, 925–939.[CrossRef]
    [Google Scholar]
  23. Lanzi, G., de Miranda, J. R., Boniotti, M. B., Cameron, C. E., Lavazza, A., Capucci, L., Camazine, S. M. & Rossi, C. ( 2006; ). Molecular and biological characterization of deformed wing virus of honeybees (Apis mellifera). J Virol 80, 4998–5009.[CrossRef]
    [Google Scholar]
  24. Martin, S. J., Hogarth, A., van Breda, J. & Perrett, J. ( 1998; ). A scientific note on Varroa jacobsoni Oudemans and the collapse of Apis mellifera colonies in the United Kingdom. Apidologie (Celle) 29, 369–370.[CrossRef]
    [Google Scholar]
  25. Moretti, S., Armougom, F., Wallace, I. M., Higgins, D. G., Jongeneel, C. V. & Notredame, C. ( 2007; ). The M-Coffee web server: a meta-method for computing multiple sequence alignments by combining alternative alignment methods. Nucleic Acids Res 35, W645–W648.[CrossRef]
    [Google Scholar]
  26. Nakashima, N. & Uchiumi, T. ( 2009; ). Functional analysis of structural motifs in dicistroviruses. Virus Res 139, 137–147.[CrossRef]
    [Google Scholar]
  27. Ng, K. K. S., Arnold, J. J. & Cameron, C. E. ( 2008; ). Structure–function relationships among RNA-dependent RNA polymerases. Curr Top Microbiol Immunol 320, 137–156.
    [Google Scholar]
  28. Nordström, S., Fries, I., Aarhus, A., Hansen, H. & Korpela, S. ( 1999; ). Virus infections in nordic honey bee colonies with no, low or severe Varroa jacobsoni infections. Apidologie (Celle) 30, 475–484.[CrossRef]
    [Google Scholar]
  29. Ongus, J. R., Peters, D., Bonmatin, J.-M., Bengsch, E., Vlak, J. M. & van Oers, M. M. ( 2004; ). Complete sequence of a picorna-like virus of the genus Iflavirus replicating in the mite Varroa destructor. J Gen Virol 85, 3747–3755.[CrossRef]
    [Google Scholar]
  30. Ongus, J. R., Roode, E. C., Pleij, C. W. A., Vlak, J. M. & van Oers, M. M. ( 2006; ). The 5′ nontranslated region of Varroa destructor virus 1 (genus Iflavirus): structure prediction and IRES activity in Lymantria dispar cells. J Gen Virol 87, 3397–3407.[CrossRef]
    [Google Scholar]
  31. Palmenberg, A. C. ( 1990; ). Proteolytic processing of picornaviral polyprotein. Annu Rev Microbiol 44, 603–623.[CrossRef]
    [Google Scholar]
  32. Pearl, F. M., Bennet, C. F., Bray, C. E., Harrison, A. P., Martin, N., Shepherd, A., Sillitoe, I., Thornton, J. & Orengo, C. A. ( 2003; ). The cath database: an extended protein family resource for structural and functional genomics. Nucleic Acids Res 31, 452–455.[CrossRef]
    [Google Scholar]
  33. Quevillon, E., Silventoinen, V., Pillai, S., Harte, N., Mulder, N., Apweiler, R. & Lopez, R. ( 2005; ). InterProScan: protein domains identifier. Nucleic Acids Res 33, W116–W120.[CrossRef]
    [Google Scholar]
  34. Ribière, M., Ball, B. V. & Aubert, M. ( 2008; ). Natural history and geographic distribution of honey bee viruses. In Virology and the Honey Bee, pp. 15–84. Edited by Aubert, M., Ball, B., Fries, I., Moritz, R., Milani, N. & Bernardinelli, I.. Luxembourg. : European Communities Press.
    [Google Scholar]
  35. Roberts, L. O. & Groppelli, E. ( 2009; ). An atypical IRES within the 5′ UTR of a dicistrovirus genome. Virus Res 139, 157–165.[CrossRef]
    [Google Scholar]
  36. Roossinck, M. J. ( 1997; ). Mechanisms of plant virus evolution. Annu Rev Phytopathol 35, 191–209.[CrossRef]
    [Google Scholar]
  37. Roossinck, M. J. ( 2002; ). Evolutionary history of Cucumber mosaic virus deduced by phylogenetic analyses. J Virol 76, 3382–3387.[CrossRef]
    [Google Scholar]
  38. Ryan, M. D. & Flint, M. ( 1997; ). Virus-encoded proteases of the picornavirus super-group. J Gen Virol 78, 699–723.
    [Google Scholar]
  39. Salonen, A., Ahola, T. & Kaariainen, L. ( 2005; ). Viral RNA replication in association with cellular membranes. Curr Top Microbiol Immunol 285, 139–173.
    [Google Scholar]
  40. Santillán-Galicia, M. T., Ball, B. V., Clark, S. J. & Alderson, P. G. ( 2010; ). Transmission of deformed wing virus and slow paralysis virus to adult bees (Apis mellifera L.) by Varroa destructor. J Apic Res 49, 141–148.[CrossRef]
    [Google Scholar]
  41. Steil, B. P. & Barton, D. J. ( 2009; ). Cis-active RNA elements (CREs) and picornavirus RNA replication. Virus Res 139, 240–255.[CrossRef]
    [Google Scholar]
  42. Stoltz, D., Shen, X.-R., Boggis, C. & Sisson, G. ( 1995; ). Molecular diagnosis of Kashmir bee virus infection. J Apic Res 34, 153–160.
    [Google Scholar]
  43. Tamura, K., Dudley, J., Nei, M. & Kumar, S. ( 2007; ). mega4: molecular evolutionary genetics analysis (mega) software version 4.0. Mol Biol Evol 24, 1596–1599.[CrossRef]
    [Google Scholar]
  44. Tentcheva, D., Gauthier, L., Zappulla, N., Dainat, B., Cousserans, F., Colin, M. E. & Bergoin, M. ( 2004; ). Prevalence and seasonal variations of six bee virus in Apis mellifera L. and Varroa destructor mite populations in France. Appl Environ Microbiol 70, 7185–7191.[CrossRef]
    [Google Scholar]
  45. Todd, J. H., de Miranda, J. R. & Ball, B. V. ( 2007; ). Incidence and molecular characterization of viruses found in dying New Zealand honey bee (Apis mellifera) colonies infested with Varroa destructor. Apidologie (Celle) 38, 354–367.[CrossRef]
    [Google Scholar]
  46. Topolska, G., Ball, B. V. & Allen, M. F. ( 1995; ). Identification of viruses in bees from two Warsaw apiaries. Med Weter 51, 145–147.
    [Google Scholar]
  47. Wallace, I. M., O'Sullivan, O., Higgins, D. G. & Notredame, C. ( 2006; ). M-Coffee: combining multiple sequence alignment methods with T-Coffee. Nucleic Acids Res 34, 1692–1699.[CrossRef]
    [Google Scholar]
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vol. , part 10, pp. 2524–2530

Primers and performance indicators of several universal and strain-specific RT-qPCR assays [ PDF] (73 KB)



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