Analysis of single nucleotide polymorphism among Varicella-Zoster Virus and identification of vaccine-specific sites

Jeong Seon Jeon, Youn Hee Won, In Kyo Kim, Jin Hyun Ahn, Ok Shin, Jung Hwan Kim, Chan Hee Lee

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

Varicella-zoster virus (VZV) is a causative agent for chickenpox and zoster. Live attenuated vaccines have been developed based on Oka and MAV/06 strains. In order to understand the molecular mechanisms of attenuation, complete genome sequences of vaccine and wild-type strains were compared and single nucleotide polymorphism (SNP) was analyzed. ORF22 and ORF62 contained the highest number of SNPs. The detailed analysis of the SNPs suggested 24 potential vaccine-specific sites. All the mutational events found in vaccine-specific sites were transitional, and most of them were substitution of AT to GC pair. Interestingly, 18 of the vaccine-specific sites of the vaccine strains appeared to be genetically heterogeneous. The probability of a single genome of vaccine strain to contain all 24 vaccine-type sequences was calculated to be less than 4%. The average codon adaptation index (CAI) value of the vaccine strains was significantly lower than the CAI value of the clinical strains.

Original languageEnglish
Pages (from-to)277-286
Number of pages10
JournalVirology
Volume496
DOIs
Publication statusPublished - 2016 Sep 1

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Keywords

  • Genetic heterogeneity
  • Live attenuated vaccine
  • Sequence diversity
  • Single nucleotide polymorphism (SNP)
  • Vaccine-specific sites
  • Varicella-zoster virus (VZV)

ASJC Scopus subject areas

  • Virology

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