Genomic characterization of Zika virus isolated from Indonesia

Virology. 2017 Oct:510:248-251. doi: 10.1016/j.virol.2017.07.026. Epub 2017 Jul 26.

Abstract

Zika virus (ZIKV) JMB-185 strain was isolated from a febrile patient in Jambi, Indonesia in 2014. To understand its genetic characteristics, we performed whole genome sequencing using the Ion Torrent PGM platform on the supernatant of the first passage. The phylogenetic analysis showed that the isolate was not closely related to the Brazilian ZIKV associated with microcephaly or isolates from the recent Singapore Zika outbreak. Molecular evolution analysis indicated that JMB-185 strain may have been circulating in the Southeast Asia region, including Indonesia since 2000. We observed high nucleotide sequence identity between Indonesia, Thailand, Singapore, and American strains although unique amino acid substitutions were also observed. This report provides information on the genomic characteristics of Indonesian ZIKV which may be used for further studies.

Keywords: Amino acid substitution; Genome; Indonesia; Zika virus.

Publication types

  • Research Support, U.S. Gov't, P.H.S.
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Cluster Analysis
  • Evolution, Molecular
  • Genome, Viral*
  • Indonesia
  • Phylogeny
  • RNA, Viral / genetics
  • Sequence Analysis, DNA*
  • Sequence Homology
  • Zika Virus / classification
  • Zika Virus / genetics*
  • Zika Virus / isolation & purification*
  • Zika Virus Infection / virology*

Substances

  • RNA, Viral