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Revisiting the genotyping scheme for varicella-zoster viruses based on whole-genome comparisons.
Jensen, Nancy J; Rivailler, Pierre; Tseng, Hung Fu; Quinlivan, Mark L; Radford, Kay; Folster, Jennifer; Harpaz, Rafael; LaRussa, Philip; Jacobsen, Steven; Scott Schmid, D.
Afiliación
  • Jensen NJ; Centers for Disease Control and Prevention, National Center for Immunizations and Respiratory Diseases, Division of Viral Diseases, Atlanta, GA, USA.
  • Rivailler P; Centers for Disease Control and Prevention, National Center for Immunizations and Respiratory Diseases, Division of Viral Diseases, Atlanta, GA, USA.
  • Tseng HF; Kaiser Permanente of Southern California, Department of Research and Evaluation, Pasadena, CA, USA.
  • Quinlivan ML; Centers for Disease Control and Prevention, National Center for Immunizations and Respiratory Diseases, Division of Viral Diseases, Atlanta, GA, USA.
  • Radford K; Present address: Labtech International Ltd, Uckfield, East Sussex, UK.
  • Folster J; Centers for Disease Control and Prevention, National Center for Immunizations and Respiratory Diseases, Division of Viral Diseases, Atlanta, GA, USA.
  • Harpaz R; Centers for Disease Control and Prevention, National Center for Immunizations and Respiratory Diseases, Division of Viral Diseases, Atlanta, GA, USA.
  • LaRussa P; Centers for Disease Control and Prevention, National Center for Immunizations and Respiratory Diseases, Division of Viral Diseases, Atlanta, GA, USA.
  • Jacobsen S; Department of Pediatrics, Columbia University, College of Physicians and Surgeons,, New York, NY, USA.
  • Scott Schmid D; Kaiser Permanente of Southern California, Department of Research and Evaluation, Pasadena, CA, USA.
J Gen Virol ; 98(6): 1434-1438, 2017 06.
Article en En | MEDLINE | ID: mdl-28613146
ABSTRACT
We report whole-genome sequences (WGSs) for four varicella-zoster virus (VZV) samples from a shingles study conducted by Kaiser Permanente of Southern California. Comparative genomics and phylogenetic analysis of all published VZV WGSs revealed that strain KY037798 is in clade IX, which shall henceforth be designated clade 9. Previously published single nucleotide polymorphisms (SNP)-based genotyping schemes fail to discriminate between clades 6 and VIII and employ positions that are not clade-specific. We provide an updated list of clade-specific positions that supersedes the list determined at the 2008 VZV nomenclature meeting. Finally, we propose a new targeted genotyping scheme that will discriminate the circulating VZV clades with at least a twofold redundancy. Genotyping strategies using a limited set of targeted SNPs will continue to provide an efficient 'first pass' method for VZV strain surveillance as vaccination programmes for varicella and zoster influence the dynamics of VZV transmission.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Filogenia / Variación Genética / Herpesvirus Humano 3 / Genómica / Técnicas de Genotipaje / Genotipo Límite: Humans País/Región como asunto: America do norte Idioma: En Revista: J Gen Virol Año: 2017 Tipo del documento: Article País de afiliación: Estados Unidos
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Filogenia / Variación Genética / Herpesvirus Humano 3 / Genómica / Técnicas de Genotipaje / Genotipo Límite: Humans País/Región como asunto: America do norte Idioma: En Revista: J Gen Virol Año: 2017 Tipo del documento: Article País de afiliación: Estados Unidos