Tracing the genetic history of porcine reproductive and respiratory syndrome viruses derived from the complete ORF 5-7 sequences: a Bayesian coalescent approach

Arch Virol. 2012 Nov;157(11):2143-51. doi: 10.1007/s00705-012-1408-6. Epub 2012 Jul 24.

Abstract

To trace the genetic history of porcine reproductive and respiratory syndrome virus (PRRSV), we determined the complete sequences of ORFs 5 to 7 of four PRRSV isolates. These sequences were analyzed together with published sequences from 146 isolates from various parts of the world using a Bayesian coalescent approach as well as Bayesian inference and maximum-likelihood methods. All of the European-type (EU-type) viruses were classified into one of two groups or unclassified (4 isolates), while all North American-type (NA-type) viruses belonged to one of three major groups or were unclassified (5 isolates). Within each genotype, no apparent periodic and/or geographic influence on the evolution of PRRSVs was observed. The evolutionary rate of PRRSV isolates was estimated to be 1.55 × 10(-3) substitutions/site/year, and the time of the most recent common ancestor (TMRCA) was 491.2 years ago. Here, the TMRCA for the EU- and NA-type viruses was 58.7 and 62.6 years ago, respectively. A Bayesian skyline plot revealed that the viruses evolved at an almost constant population size until the late 1970s, when they experienced a population expansion that continued until the late 1980s. The population size then remained constant again until the early 2000s, when a rapid, sharp decline in the effective number of infections occurred.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Cluster Analysis
  • Evolution, Molecular*
  • Genotype
  • Molecular Sequence Data
  • Mutation Rate
  • Open Reading Frames*
  • Phylogeography*
  • 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
  • Swine

Substances

  • RNA, Viral

Associated data

  • GENBANK/JN809804
  • GENBANK/JN809805
  • GENBANK/JN809806
  • GENBANK/JN809807