Please use this identifier to cite or link to this item: https://doi.org/10.1016/j.meegid.2012.11.008
Title: Bioinformatics of varicella-zoster virus: Single nucleotide polymorphisms define clades and attenuated vaccine genotypes
Authors: Chow, V.T. 
Tipples, G.A.
Grose, C.
Keywords: Herpesviruses
Phylogenetics
Issue Date: Aug-2013
Citation: Chow, V.T., Tipples, G.A., Grose, C. (2013-08). Bioinformatics of varicella-zoster virus: Single nucleotide polymorphisms define clades and attenuated vaccine genotypes. Infection, Genetics and Evolution 18 : 351-356. ScholarBank@NUS Repository. https://doi.org/10.1016/j.meegid.2012.11.008
Abstract: Varicella zoster virus (VZV) is one of the human herpesviruses. To date, over 40 complete VZV genomes have been sequenced and analyzed. The VZV genome contains around 125,000 base pairs including 70 open reading frames (ORFs). Enumeration of single nucleotide polymorphisms (SNPs) has determined that the following ORFs are the most variable (in descending order): 62, 22, 29, 28, 37, 21, 54, 31, 1 and 55. ORF 62 is the major immediate early regulatory VZV gene. Further SNP analysis across the entire genome has led to the observation that VZV strains can be broadly grouped into clades within a phylogenetic tree. VZV strains collected in Singapore provided important sequence data for construction of the phylogenetic tree. Currently five VZV clades are recognized; they have been designated clades 1 through 5. Clades 1 and 3 include European/North American strains; clade 2 includes Asian strains, especially from Japan; and clade 5 includes strains from India. Clade 4 includes some strains from Europe, but its geographic origins need further documentation. Within clade 1, five variant viruses have been isolated with a missense mutation in the gE (ORF 68) glycoprotein; these strains have an altered increased cell spread phenotype. Bioinformatics analyses of the attenuated vaccine strains have also been performed, with a subsequent discovery of a stop-codon SNP in ORFO as a likely attenuation determinant. Taken together, these VZV bioinformatics analyses have provided enormous insights into VZV phylogenetics as well as VZV SNPs associated with attenuation. © 2012 Elsevier B.V.
Source Title: Infection, Genetics and Evolution
URI: http://scholarbank.nus.edu.sg/handle/10635/126709
ISSN: 15671348
DOI: 10.1016/j.meegid.2012.11.008
Appears in Collections:Staff Publications

Show full item record
Files in This Item:
There are no files associated with this item.

SCOPUSTM   
Citations

17
checked on Oct 17, 2019

WEB OF SCIENCETM
Citations

14
checked on Oct 17, 2019

Page view(s)

31
checked on Oct 11, 2019

Google ScholarTM

Check

Altmetric


Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.