1887

Abstract

Varicella-zoster virus (VZV), the cause of chickenpox and zoster, was the first human herpesvirus to be sequenced fully and the first for which vaccines have been licensed and widely used. Three groups have published genotyping schemes based on single nucleotide polymorphisms (SNPs) and, between them, have identified five distinct phylogenetic clades, with an additional two putative clades. Sequencing of over 23 whole VZV genomes from around the world further refined the phylogenetic distinctions between SNP genotypes. Widespread surveillance in countries in which the varicella vaccine is now in use and the difficulties posed by three unique genotyping approaches prompted an international meeting, at which a common nomenclature based on phylogenetic clades was agreed upon. In this paper, we review the original genotyping schemes and discuss the basis for a novel common nomenclature for VZV strains. We propose a minimum set of SNPs that we recommend should be used to genotype these viruses. Finally, we suggest criteria by which novel clades can be recognized.

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2010-04-01
2019-08-19
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References

  1. Barrett-Muir, W., Hawrami, K., Clarke, J. & Breuer, J. ( 2001; ). Investigation of varicella-zoster virus variation by heteroduplex mobility assay. Arch Virol Suppl 17, 17–25.
    [Google Scholar]
  2. Bonanni, P., Breuer, J., Gershon, A., Gershon, M., Hryniewicz, W., Papaevangelou, V., Rentier, B., Rumke, H., Sadzot-Delvaux, C. & other authors ( 2009; ). Varicella vaccination in Europe – taking the practical approach. BMC Med 7, 26 [CrossRef]
    [Google Scholar]
  3. Brookes, A. J. ( 1999; ). The essence of SNPs. Gene 234, 177–186.[CrossRef]
    [Google Scholar]
  4. Collins, F. S. ( 1997; ). Sequencing the human genome. Hosp Pract (Minneap) 32, 35–54.
    [Google Scholar]
  5. Dangler, C. A., Henderson, L. M., Bowman, L. A. & Deaver, R. E. ( 1993; ). Direct isolation and identification of recombinant pseudorabies virus strains from tissues of experimentally co-infected swine. Am J Vet Res 54, 540–545.
    [Google Scholar]
  6. Davison, A. J. & Scott, J. E. ( 1986; ). The complete DNA sequence of varicella-zoster virus. J Gen Virol 67, 1759–1816.[CrossRef]
    [Google Scholar]
  7. Dworkin, R. H., Johnson, R. W., Breuer, J., Gnann, J. W., Levin, M. J., Backonja, M., Betts, R. F., Gershon, A. A., Haanpaa, M. L. & other authors ( 2007; ). Recommendations for the management of herpes zoster. Clin Infect Dis 44 (Suppl. 1), S1–S26.[CrossRef]
    [Google Scholar]
  8. Faga, B., Maury, W., Bruckner, D. A. & Grose, C. ( 2001; ). Identification and mapping of single nucleotide polymorphisms in the varicella-zoster virus genome. Virology 280, 1–6.[CrossRef]
    [Google Scholar]
  9. Gomi, Y., Sunamachi, H., Mori, Y., Nagaike, K., Takahashi, M. & Yamanishi, K. ( 2002; ). Comparison of the complete DNA sequences of the Oka varicella vaccine and its parental virus. J Virol 76, 11447–11459.[CrossRef]
    [Google Scholar]
  10. Grose, C., Tyler, S., Peters, G., Hiebert, J., Stephens, G. M., Ruyechan, W. T., Jackson, W., Storlie, J. & Tipples, G. A. ( 2004; ). Complete DNA sequence analyses of the first two varicella-zoster virus glycoprotein E (D150N) mutant viruses found in North America: evolution of genotypes with an accelerated cell spread phenotype. J Virol 78, 6799–6807.[CrossRef]
    [Google Scholar]
  11. Hawrami, K., Hart, I. J., Pereira, F., Argent, S., Bannister, B., Bovill, B., Carrington, D., Ogilvie, M., Rawstorne, S. & other authors ( 1997; ). Molecular epidemiology of varicella-zoster virus in East London, England, between 1971 and 1995. J Clin Microbiol 35, 2807–2809.
    [Google Scholar]
  12. Hope-Simpson, R. E. ( 1965; ). The nature of herpes zoster: a long-term study and a new hypothesis. Proc R Soc Med 58, 9–20.
    [Google Scholar]
  13. Kruglyak, L. ( 1997; ). The use of a genetic map of biallelic markers in linkage studies. Nat Genet 17, 21–24.[CrossRef]
    [Google Scholar]
  14. Loparev, V. N., Gonzalez, A., Deleon-Carnes, M., Tipples, G., Fickenscher, H., Torfason, E. G. & Schmid, D. S. ( 2004; ). Global identification of three major genotypes of varicella-zoster virus: longitudinal clustering and strategies for genotyping. J Virol 78, 8349–8358.[CrossRef]
    [Google Scholar]
  15. Loparev, V., Martro, E., Rubtcova, E., Rodrigo, C., Piette, J. C., Caumes, E., Vernant, J. P., Schmid, D. S. & Fillet, A. M. ( 2007a; ). Toward universal varicella-zoster virus (VZV) genotyping: diversity of VZV strains from France and Spain. J Clin Microbiol 45, 559–563.[CrossRef]
    [Google Scholar]
  16. Loparev, V. N., Rubtcova, E. N., Bostik, V., Govil, D., Birch, C. J., Druce, J. D., Schmid, D. S. & Croxson, M. C. ( 2007b; ). Identification of five major and two minor genotypes of varicella-zoster virus strains: a practical two-amplicon approach used to genotype clinical isolates in Australia and New Zealand. J Virol 81, 12758–12765.[CrossRef]
    [Google Scholar]
  17. Loparev, V. N., Rubtcova, E. N., Bostik, V., Tzaneva, V., Sauerbrei, A., Robo, A., Sattler-Dornbacher, E., Hanovcova, I., Stepanova, V. & other authors ( 2009; ). Distribution of varicella-zoster virus (VZV) wild-type genotypes in northern and southern Europe: evidence for high conservation of circulating genotypes. Virology 383, 216–225.[CrossRef]
    [Google Scholar]
  18. Lopez, A. S., Burnett-Hartman, A., Nambiar, R., Ritz, L., Owens, P., Loparev, V. N., Guris, D. & Schmid, D. S. ( 2008; ). Transmission of a newly characterized strain of varicella-zoster virus from a patient with herpes zoster in a long-term-care facility, West Virginia, 2004. J Infect Dis 197, 646–653.[CrossRef]
    [Google Scholar]
  19. Marin, M., Watson, T. L., Chaves, S. S., Civen, R., Watson, B. M., Zhang, J. X., Perella, D., Mascola, L. & Seward, J. F. ( 2008; ). Varicella among adults: data from an active surveillance project, 1995–2005. J Infect Dis 197 (Suppl. 2), S94–S100.[CrossRef]
    [Google Scholar]
  20. McGeoch, D. J. ( 2009; ). Lineages of varicella-zoster virus. J Gen Virol 90, 963–969.[CrossRef]
    [Google Scholar]
  21. McGeoch, D. J. & Cook, S. ( 1994; ). Molecular phylogeny of the alphaherpesvirinae subfamily and a proposed evolutionary timescale. J Mol Biol 238, 9–22.[CrossRef]
    [Google Scholar]
  22. Meyer, P. A., Seward, J. F., Jumaan, A. O. & Wharton, M. ( 2000; ). Varicella mortality: trends before vaccine licensure in the United States, 1970–1994. J Infect Dis 182, 383–390.[CrossRef]
    [Google Scholar]
  23. Molyneaux, P. J., Parker, S., Khan, I. H., Millar, C. G. & Breuer, J. ( 2006; ). Use of genomic analysis of varicella-zoster virus to investigate suspected varicella-zoster transmission within a renal unit. J Clin Virol 36, 76–78.[CrossRef]
    [Google Scholar]
  24. Muir, W. B., Nichols, R. & Breuer, J. ( 2002; ). Phylogenetic analysis of varicella-zoster virus: evidence of intercontinental spread of genotypes and recombination. J Virol 76, 1971–1979.[CrossRef]
    [Google Scholar]
  25. Norberg, P., Liljeqvist, J. A., Bergstrom, T., Sammons, S., Schmid, D. S. & Loparev, V. N. ( 2006; ). Complete-genome phylogenetic approach to varicella-zoster virus evolution: genetic divergence and evidence for recombination. J Virol 80, 9569–9576.[CrossRef]
    [Google Scholar]
  26. Oxman, M. N., Levin, M. J., Johnson, G. R., Schmader, K. E., Straus, S. E., Gelb, L. D., Arbeit, R. D., Simberkoff, M. S., Gershon, A. A. & other authors ( 2005; ). A vaccine to prevent herpes zoster and postherpetic neuralgia in older adults. N Engl J Med 352, 2271–2284.[CrossRef]
    [Google Scholar]
  27. Peters, G. A., Tyler, S. D., Grose, C., Severini, A., Gray, M. J., Upton, C. & Tipples, G. A. ( 2006; ). A full-genome phylogenetic analysis of varicella-zoster virus reveals a novel origin of replication-based genotyping scheme and evidence of recombination between major circulating clades. J Virol 80, 9850–9860.[CrossRef]
    [Google Scholar]
  28. Preblud, S. R. ( 1986; ). Varicella: complications and costs. Pediatrics 78, 728–735.
    [Google Scholar]
  29. Quinlivan, M. & Breuer, J. ( 2006; ). Molecular studies of varicella zoster virus. Rev Med Virol 16, 225–250.[CrossRef]
    [Google Scholar]
  30. Quinlivan, M., Hawrami, K., Barrett-Muir, W., Aaby, P., Arvin, A., Chow, V. T., John, T. J., Matondo, P., Peiris, M. & other authors ( 2002; ). The molecular epidemiology of varicella-zoster virus: evidence for geographic segregation. J Infect Dis 186, 888–894.[CrossRef]
    [Google Scholar]
  31. Rawson, H., Crampin, A. & Noah, N. ( 2001; ). Deaths from chickenpox in England and Wales 1995–7: analysis of routine mortality data. BMJ 323, 1091–1093.[CrossRef]
    [Google Scholar]
  32. Santos, R. A., Hatfield, C. C., Cole, N. L., Padilla, J. A., Moffat, J. F., Arvin, A. M., Ruyechan, W. T., Hay, J. & Grose, C. ( 2000; ). Varicella-zoster virus gE escape mutant VZV-MSP exhibits an accelerated cell-to-cell spread phenotype in both infected cell cultures and SCID-hu mice. Virology 275, 306–317.[CrossRef]
    [Google Scholar]
  33. Sauerbrei, A. & Wutzler, P. ( 2007; ). Different genotype pattern of varicella-zoster virus obtained from patients with varicella and zoster in Germany. J Med Virol 79, 1025–1031.[CrossRef]
    [Google Scholar]
  34. Sauerbrei, A., Zell, R., Philipps, A. & Wutzler, P. ( 2008; ). Genotypes of varicella-zoster virus wild-type strains in Germany. J Med Virol 80, 1123–1130.[CrossRef]
    [Google Scholar]
  35. Sengupta, N., Taha, Y., Scott, F. T., Leedham-Green, M. E., Quinlivan, M. & Breuer, J. ( 2007; ). Varicella-zoster-virus genotypes in East London: a prospective study in patients with herpes zoster. J Infect Dis 196, 1014–1020.[CrossRef]
    [Google Scholar]
  36. Sengupta, N., Booy, R., Schmitt, H. J., Peltola, H., Van-Damme, P., Schumacher, R. F., Campins, M., Rodrigo, C., Heikkinen, T. & other authors ( 2008; ). Varicella vaccination in Europe: are we ready for a universal childhood programme? Eur J Pediatr 167, 47–55.
    [Google Scholar]
  37. Sergeev, N., Rubtcova, E., Chizikov, V., Schmid, D. S. & Loparev, V. N. ( 2006; ). New mosaic subgenotype of varicella-zoster virus in the USA: VZV detection and genotyping by oligonucleotide-microarray. J Virol Methods 136, 8–16.[CrossRef]
    [Google Scholar]
  38. Tang, J. W., Eames, I., Li, Y., Taha, Y. A., Wilson, P., Bellingan, G., Ward, K. N. & Breuer, J. ( 2005; ). Door-opening motion can potentially lead to a transient breakdown in negative-pressure isolation conditions: the importance of vorticity and buoyancy airflows. J Hosp Infect 61, 283–286.[CrossRef]
    [Google Scholar]
  39. Tillieux, S. L., Halsey, W. S., Thomas, E. S., Voycik, J. J., Sathe, G. M. & Vassilev, V. ( 2008; ). Complete DNA sequences of two Oka strain varicella-zoster virus genomes. J Virol 82, 11023–11044.[CrossRef]
    [Google Scholar]
  40. Tipples, G. A., Stephens, G. M., Sherlock, C., Bowler, M., Hoy, B., Cook, D. & Grose, C. ( 2002; ). New variant of varicella-zoster virus. Emerg Infect Dis 8, 1504–1505.[CrossRef]
    [Google Scholar]
  41. Tyler, S. D., Peters, G. A., Grose, C., Severini, A., Gray, M. J., Upton, C. & Tipples, G. A. ( 2007; ). Genomic cartography of varicella-zoster virus: a complete genome-based analysis of strain variability with implications for attenuation and phenotypic differences. Virology 359, 447–458.[CrossRef]
    [Google Scholar]
  42. Wagenaar, T. R., Chow, V. T., Buranathai, C., Thawatsupha, P. & Grose, C. ( 2003; ). The out of Africa model of varicella-zoster virus evolution: single nucleotide polymorphisms and private alleles distinguish Asian clades from European/North American clades. Vaccine 21, 1072–1081.[CrossRef]
    [Google Scholar]
  43. Wang, D. G., Fan, J. B., Siao, C. J., Berno, A., Young, P., Sapolsky, R., Ghandour, G., Perkins, N., Winchester, E. & other authors ( 1998; ). Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science 280, 1077–1082.[CrossRef]
    [Google Scholar]
  44. Wirgart, B. Z., Estrada, V., Jackson, W., Linde, A. & Grose, C. ( 2006; ). A novel varicella-zoster virus gE mutation discovered in two Swedish isolates. J Clin Virol 37, 134–136.[CrossRef]
    [Google Scholar]
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