Revisiting the genotyping scheme for varicella-zoster viruses based on whole-genome comparisons

References

1. Arvin AM, Gilden D. Varicella-zoster virus. In Knipe DM, Howley PM. (editors) Fields Virology Philadelphia, PA: Lippincott Williams & Wilkins; pp. 2015–2057
   [Google Scholar]
2. Harpaz R, Ortega-Sanchez IR, Seward JF. Advisory Committee on Immunization Practices (ACIP) Centers for Disease Control and Prevention (CDC) Prevention of herpes zoster: recommendations of the Advisory Committee on Immunization Practices (ACIP). MMWR Recomm Rep 2008; 57:1–30[PubMed]
   [Google Scholar]
3. Breuer J, Grose C, Norberg P, Tipples G, Schmid DS. A proposal for a common nomenclature for viral clades that form the species varicella-zoster virus: summary of VZV Nomenclature Meeting 2008, Barts and the London School of Medicine and Dentistry, 24-25 July 2008. J Gen Virol 2010; 91:821–828 [View Article][PubMed]
   [Google Scholar]
4. Zell R, Taudien S, Pfaff F, Wutzler P, Platzer M et al. Sequencing of 21 varicella-zoster virus genomes reveals two novel genotypes and evidence of recombination. J Virol 2012; 86:1608–1622 [View Article][PubMed]
   [Google Scholar]
5. Norberg P, Depledge DP, Kundu S, Atkinson C, Brown J et al. Recombination of globally circulating varicella-zoster virus. J Virol 2015; 89:7133–7146 [View Article][PubMed]
   [Google Scholar]
6. Loparev VN, Rubtcova EN, Bostik V, Govil D, Birch CJ et al. 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 2007; 81:12758–12765 [View Article][PubMed]
   [Google Scholar]
7. Lopez AS, Burnett-Hartman A, Nambiar R, Ritz L, Owens P et al. 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 2008; 197:646–653 [View Article][PubMed]
   [Google Scholar]
8. Rota PA, Brown K, Mankertz A, Santibanez S, Shulga S et al. Global distribution of measles genotypes and measles molecular epidemiology. J Infect Dis 2011; 204:S514–S523 [View Article][PubMed]
   [Google Scholar]
9. Tseng HF, Schmid DS, Harpaz R, Larussa P, Jensen NJ et al. Herpes zoster caused by vaccine-strain varicella zoster virus in an immunocompetent recipient of zoster vaccine. Clin Infect Dis 2014; 58:1125–1128 [View Article][PubMed]
   [Google Scholar]
10. Rutherford K, Parkhill J, Crook J, Horsnell T, Rice P et al. Artemis: sequence visualization and annotation. Bioinformatics 2000; 16:944–945 [View Article][PubMed]
    [Google Scholar]
11. Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004; 32:1792–1797 [View Article][PubMed]
    [Google Scholar]
12. Katoh K, Misawa K, Kuma K, Miyata T. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res 2002; 30:3059–3066 [View Article][PubMed]
    [Google Scholar]
13. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
14. Kumar S, Tamura K, Nei M. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 2004; 5:150–163 [View Article][PubMed]
    [Google Scholar]
15. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987 1987; 4:406–425[PubMed]
    [Google Scholar]