Nucleotide sequence analysis of Vietnamese highly pathogenic porcine reproductive and respiratory syndrome virus from 2013 to 2014 based on the NSP2 and ORF5 coding regions

Arch Virol. 2016 Mar;161(3):669-75. doi: 10.1007/s00705-015-2699-1. Epub 2015 Nov 28.

Abstract

A total of 34 highly pathogenic porcine reproductive and respiratory syndrome virus (HP-PRRSV) strains isolated from Vietnam during 2013-2014 were sequenced and analyzed. A partial sequence of ORF1a corresponding to the nonstructural protein 2 (Nsp2) coding region and the full sequence of open reading frame 5 (ORF5) gene was used for the analysis. The HP-PRRSV strains were isolated from pig herds that had never been vaccinated for PRRSV. Nucleotide sequence identities in the portions of ORF1a corresponding to the nonstructural protein 2 (Nsp2) coding region and ORF5 ranged from 96.4 to 100 % and 83.2 to 100 %, respectively. All of the 34 Vietnamese HP-PRRSV strains showed two discontinuous 30-amino-acid deletions in the Nsp2 coding region as a genetic marker of prototypic Chinese HP-PRRSV. The amino acid arginine (R) was present at positions 13 and 151 in ORF5 in 29 out of 34 Vietnamese HP-PRRSV isolates, as well as in the prototypic Chinese HP-PRRSV. Sequence analysis of the ORF5 genes of all Vietnamese HP-PRRSVs revealed six subgroups: Viet 1 to 4, JAX1-like, and VR-2332-like. Nucleotide and amino acid sequence analysis of 34 Vietnamese HP-PRRSV isolates from 2013-2014 indicated that Vietnamese HP-PRRSV has undergone rapid evolutionary changes in recent years when compared with Vietnamese HP-PRRSV isolated before 2012.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Arginine / genetics
  • Cluster Analysis
  • Evolution, Molecular
  • Genetic Markers
  • Molecular Sequence Data
  • Phylogeny
  • Porcine Reproductive and Respiratory Syndrome / virology*
  • Porcine respiratory and reproductive syndrome virus / classification
  • Porcine respiratory and reproductive syndrome virus / genetics*
  • Porcine respiratory and reproductive syndrome virus / isolation & purification*
  • RNA, Viral / genetics*
  • Sequence Analysis, DNA*
  • Sequence Deletion
  • Sequence Homology
  • Swine
  • Vietnam
  • Viral Envelope Proteins / genetics*
  • Viral Nonstructural Proteins / genetics*

Substances

  • Genetic Markers
  • RNA, Viral
  • Viral Envelope Proteins
  • Viral Nonstructural Proteins
  • glycoprotein 5, PRRSV
  • Arginine