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Characterization of VP6 genes from rotavirus strains collected in the United States from 1996–2002

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Abstract

We sequenced 22 VP6 genes from common rotavirus strains P[8], G1; P[4], G2; P[8], G3; P[8], G4 and P[8], G9 and uncommon type P[6], G9 collected in the US over a 6-year period. All strains defined as members of VP6 antigenic subgroup (SG) I according to reactivity patterns with monoclonal antibodies formed a genetic cluster (Genogroup I) with SG I reference strains. Similarly, all strains in antigenic SGII formed a group (Genogroup II) with corresponding standard strains of the same SG. Most US strains of each genogroup had diverged by 10–15% from the VP6 gene sequence of reference strains collected >20 years earlier and some recent isolates from other countries. Evolutionary analysis demonstrated that recently isolated US strains of both genogroups have diverged into 2–3 related clusters consistent with other recent findings. Unexpectedly, some recent isolates from other countries have diverged greatly from both older reference isolates and from the recent US isolates characterized here. This finding suggests that genetic diversity in human rotavirus VP6 genes may be greater than previously recognized. These sequences will help in the construction of a VP6 gene database to aid in the development of broadly reactive molecular assays and permit identification of regions where primers and probes for existing assays may need to be redesigned.

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Acknowledgments

The authors thank the members of the National Rotavirus Strain Surveillance System for submitting strains for characterization and Dr. T. N. Naik for providing information on the genotype and year of isolation of rotavirus strains from India.

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Authors and Affiliations

  1. Gastroenteritis and Respiratory Viruses Laboratory Branch, Division of Viral Diseases, National Center for Immunization and Respiratory Diseases, Coordinating Center for Infectious Diseases, Centers for Disease Control and Prevention, 1600 Clifton RD, N.E. MS G-04, Atlanta, GA, 30333, USA

    Tara K. Kerin, Erin M. Kane & Jon R. Gentsch

  2. Fogarty International Center, National Institutes of Health, Bethesda, MD, 20892, USA

    Roger I. Glass

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  1. Tara K. Kerin
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  2. Erin M. Kane
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  3. Roger I. Glass
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  4. Jon R. Gentsch
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Correspondence to Jon R. Gentsch.

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The findings and conclusions in this report are those of the authors and do not necessarily represent the views of CDC.

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Kerin, T.K., Kane, E.M., Glass, R.I. et al. Characterization of VP6 genes from rotavirus strains collected in the United States from 1996–2002. Virus Genes 35, 489–495 (2007). https://doi.org/10.1007/s11262-007-0119-7

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  • DOI: https://doi.org/10.1007/s11262-007-0119-7

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