Use of sequence analysis of the VP4 gene to classify recent Vietnamese rotavirus isolates

T A Nguyen; L P Hoang; L D Pham; K T Hoang; S Okitsu; M Mizuguchi; H Ushijima

doi:10.1111/j.1469-0691.2007.01918.x

Use of sequence analysis of the VP4 gene to classify recent Vietnamese rotavirus isolates

Clin Microbiol Infect. 2008 Mar;14(3):235-41. doi: 10.1111/j.1469-0691.2007.01918.x. Epub 2008 Jan 10.

Authors

T A Nguyen¹, L P Hoang, L D Pham, K T Hoang, S Okitsu, M Mizuguchi, H Ushijima

Affiliation

¹ Department of Developmental Medical Sciences, Institute of International Health, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.

PMID: 18190567
DOI: 10.1111/j.1469-0691.2007.01918.x

Abstract

Twenty-eight strains of P(8), four of P(4) and one of P(19) rotavirus, isolated in Ho Chi Minh City, Vietnam, during 2002-2003, were investigated by sequence analysis of the VP4 gene. Seven of the 28 P(8) rotavirus VP4 sequences clustered in the P(8)-3 lineage, or the rare, so-called OP354-like lineage. Amino-acid sequence comparison revealed that Vietnamese P(8)-3 rotaviruses were generally very similar to Malawian strains, including the prototype OP354 strain. The numerical severity scores of diarrhoeal disease caused by the Vietnamese P(8)-3 rotaviruses were statistically higher than those of diarrhoeal disease caused by rotaviruses in the more common P(8)-2 lineage. Sequence and phylogenetic analysis of the VP4 gene of a Vietnamese G9P(19) rotavirus isolate showed a high degree of homology with the cognate genes of other human and porcine rotaviruses, including the prototype 4F strain.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Capsid Proteins / genetics*
Child, Preschool
Cluster Analysis
Diarrhea / pathology
Diarrhea / virology
Humans
Infant
Molecular Sequence Data
Phylogeny
Rotavirus / classification*
Rotavirus / genetics
Rotavirus / isolation & purification*
Rotavirus Infections / virology*
Sequence Analysis
Sequence Homology, Amino Acid
Severity of Illness Index
Vietnam

Substances

Capsid Proteins
VP4 protein, Rotavirus

Associated data

GENBANK/EF042135
GENBANK/EF063154
GENBANK/EF673752
GENBANK/EF673753
GENBANK/EF673754
GENBANK/EF673755
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GENBANK/EF673783