Novel porcine rotavirus of genotype P[27] shares new phylogenetic lineage with G2 porcine rotavirus strain

Virology. 2007 May 10;361(2):243-52. doi: 10.1016/j.virol.2006.12.004. Epub 2007 Jan 9.

Abstract

A novel and unusual strain of porcine rotavirus (PoRV) CMP034 was isolated from a 7-week-old piglet during the epidemiological survey of porcine rotavirus infection in Chiang Mai province, Thailand from June 2000 to July 2001. Molecular characterization of gene VP4 by sequence analysis showed a low level of amino acid sequence identity, ranging from 56.7% to 76.6%, while comparison of VP8* portion showed 41.8% to 69.9% identity, with the 26 P genotypes recognized to date. Phylogenetic analysis of the VP4 sequence revealed that CMP034 was only distantly related to the other 26 P genotypes and was located in a separate branch. Sequence analysis of gene VP7 showed the highest level of amino acid identity (94.7%) with the PoRV G2-like reference strain 34461-4 but a lower level of identity with those of human G2 rotaviruses, ranging from 87.7% to 88.0%. Phylogenetic analysis of gene VP7 revealed two major lineages among G2 rotavirus strains based on the host origin. PoRV strain CMP034 clustered exclusively with G2-like PoRV strain 34461-4 in a novel lineage that is distinct from the major G2 human lineage. Moreover, strain CMP034 displayed a porcine-like VP6 and NSP5/6 with subgroup I specificity, while bearing an NSP4 with some genetic group B human-like characteristics. These findings provide evidence that CMP034 should be considered as a novel VP4 genotype P[27].

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Animals
  • Animals, Suckling
  • Antigens, Viral / genetics
  • Capsid Proteins / genetics
  • Genes, Viral
  • Health Surveys
  • Molecular Sequence Data
  • Phylogeny
  • RNA-Binding Proteins / genetics
  • Rotavirus / classification*
  • Rotavirus / isolation & purification
  • Rotavirus Infections / epidemiology
  • Rotavirus Infections / veterinary*
  • Rotavirus Infections / virology
  • Sequence Alignment
  • Sequence Analysis, Protein
  • Sequence Homology, Amino Acid
  • Swine
  • Swine Diseases / epidemiology
  • Swine Diseases / virology*
  • Thailand / epidemiology
  • Viral Nonstructural Proteins / genetics

Substances

  • Antigens, Viral
  • Capsid Proteins
  • RNA-Binding Proteins
  • VP4 protein, Rotavirus
  • VP7 protein, Rotavirus
  • Viral Nonstructural Proteins
  • NS35 protein, rotavirus

Associated data

  • GENBANK/DQ534015
  • GENBANK/DQ534016
  • GENBANK/DQ534017
  • GENBANK/DQ534018
  • GENBANK/DQ916134