Molecular characterization of rare G3P[9] rotavirus strains isolated from children hospitalized with acute gastroenteritis

J Med Virol. 2007 Jun;79(6):843-51. doi: 10.1002/jmv.20840.


In 2004, an epidemiological survey of human rotavirus infection in Chiang Mai, Thailand detected two uncommon human rotavirus strains (CMH120/04 and CMH134/04) bearing AU-1-like G3P[9] genotypes in 1 year old children hospitalized with acute gastroenteritis. The CMH120/04 and CMH134/04 rotavirus strains were characterized by molecular analyses of their VP6, VP7, VP8*, and NSP4 gene segments as well as the determination of RNA patterns by polyacrylamide gel electrophoresis (PAGE). Analysis of the VP8* gene revealed a high level of amino acid sequence identities with those of P[9] rotavirus reference strains, ranging from 94.9% to 98.3%. The highest identities were shared with the human rotavirus AU-1 strain at 97.8% and 98.3% for CMH120/04 and CMH134/04 strains, respectively. Analysis of the VP7 gene sequence revealed the highest identities with G3 human rotavirus strain KC814 at 96.6% and 96.2% for CMH120/04 and CMH134/04 strains, respectively. Based on the analyses of VP7 and VP8* genes, CMH120/04 and CMH134/04 belonged to G3P[9] genotypes. In addition, analyses of VP6 and NSP4 sequences revealed a VP6 subgroup (SG) I, with NSP4 genetic group C specificities. Moreover, both strains displayed a long RNA electrophoretic pattern. The finding of uncommon G3P[9] rotaviruses in pediatric patients provided additional evidence of the genetic/antigenic diversities of human group A rotaviruses in the Chiang Mai area of Thailand.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Child, Preschool
  • DNA Fingerprinting
  • Electrophoresis, Polyacrylamide Gel
  • Gastroenteritis / virology*
  • Genetic Variation
  • Humans
  • Infant
  • Infant, Newborn
  • Inpatients
  • Molecular Sequence Data
  • Phylogeny
  • RNA, Viral / genetics
  • RNA, Viral / isolation & purification
  • Rotavirus / classification*
  • Rotavirus / genetics
  • Rotavirus / isolation & purification*
  • Rotavirus Infections / virology*
  • Sequence Analysis, DNA
  • Sequence Homology, Amino Acid
  • Thailand
  • Viral Proteins / genetics


  • RNA, Viral
  • Viral Proteins

Associated data

  • GENBANK/DQ923796
  • GENBANK/DQ923797
  • GENBANK/DQ923798
  • GENBANK/DQ923799
  • GENBANK/DQ923800
  • GENBANK/DQ923801
  • GENBANK/DQ923802
  • GENBANK/DQ923803