1887

Abstract

Hepatitis A virus (HAV) is a hepatotropic member of the family Previous studies suggested that HAV may evolve more slowly than other members of the family. To estimate HAV substitution rates precisely, we used a Bayesian Markov chain Monte Carlo (MCMC) approach on temporally sampled HAV VP1 full-length sequences from strains isolated in France. A mean rate of evolutionary change of 9.76×10 nucleotide substitution per site per year was found. The results also revealed that the synonymous rate found for HAV is lower than that of other members of the family. Bayesian skyline plots revealed a sharp decline in the effective number of infections in 1996, coinciding with the introduction of HAV vaccine.

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2007-11-01
2024-03-28
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References

  1. Brown B. A., Oberste M. S., Alexander J. P., Kennett M. L., Pallansh M. A. 1999; Molecular epidemiology and evolution of enterovirus 71 strains isolated from 1970 to 1998. J Virol 73:9969–9975
    [Google Scholar]
  2. Costa-Mattioli M., Cristina J., Perez-Bercoff R., Casane D., Colina R., Garcia L., Vega I., Glikman G., Romanowsky V. other authors 2002; Molecular evolution of hepatitis A virus: a new classification based on the complete VP1 protein. J Virol 76:9516–9525 [CrossRef]
    [Google Scholar]
  3. Costa-Mattioli M., Di Napoli A., Ferre V., Billaudel S., Perez-Bercoff R., Cristina J. 2003; Genetic variability of hepatitis A virus. J Gen Virol 84:3191–3201 [CrossRef]
    [Google Scholar]
  4. Costa-Mattioli M., Domingo E., Cristina J. 2006; Analysis of sequential hepatitis A virus strains reveals coexistence of distinct viral subpopulations. J Gen Virol 87:115–118 [CrossRef]
    [Google Scholar]
  5. Drummond A. J., Rambaut A., Shapiro B., Pybus O. G. 2005; Bayesian coalescent inference of past population dynamics from molecular sequences. Mol Biol Evol 22:1185–1192 [CrossRef]
    [Google Scholar]
  6. Drummond A. J., Ho S. Y. W., Phillips M. J., Rambaut A. 2006; Relaxed phylogenetics and dating with confidence. PLoS Biol 4:e88 [CrossRef]
    [Google Scholar]
  7. Gavrilin G. V., Cherkasova E. A., Lipskaya G. Y., Kew O. M., Agol V. I. 2000; Evolution of circulating wild poliovirus and of vaccine-derived poliovirus in an immunodeficient patient: a unifying model. J Virol 74:7381–7390 [CrossRef]
    [Google Scholar]
  8. Gendrel D., Launay O. 2005; Post-exposure vaccination against hepatitis A. Therapie 60:221–226 [CrossRef]
    [Google Scholar]
  9. Gurumurthy C. B., Sanyal A., Venkataramanan R., Tosh C., George M., Hemadri D. 2002; Genetic diversity in the VP1 gene of foot-and-mouth disease virus serotype Asia 1. Arch Virol 147:85–102 [CrossRef]
    [Google Scholar]
  10. Hanada K., Suzuki Y., Gojobori T. 2004; A large variation in the rates of synonymous substitution for RNA viruses and its relationship to a diversity of viral infection and transmission modes. Mol Biol Evol 21:1074–1080 [CrossRef]
    [Google Scholar]
  11. Keane T. M., Creevey C. J., Pentony M. M., Naughton T. J., McInerney J. O. 2006; Assessment of methods of amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified. BMC Evol Biol 6:29 [CrossRef]
    [Google Scholar]
  12. Lole K. S., Bollinger R. C., Parnjape R. S., Gadkari D., Kulkarni S. S. 1999; Full-length human immunodeficiency virus type I genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol 73:152–160
    [Google Scholar]
  13. Martin A., Lemon S. M. 2006; Hepatitis A virus: from discovery to vaccines. Hepatology 43:S164–S172 [CrossRef]
    [Google Scholar]
  14. Richard V., Haus R., Verret C., Molinier S., Hugard L., Nicand E., Spiegel A., Buisson Y. 2006; Impact and forecasting of hepatitis A immunization in French armed forces, 1990–2004. Rev Epidemiol Sante Publique 54:433–441 [CrossRef]
    [Google Scholar]
  15. Salminen M. O., Carr J. K., Burke D. S., McCutchan F. E. 1995; Identification of breakpoints in intergenotypic recombinants of HIV type I by bootscanning. AIDS Res Hum Retroviruses 11:1423–1425 [CrossRef]
    [Google Scholar]
  16. Sanchez G., Bosch A., Gomez-Mariano G., Domingo E., Pinto R. M. 2003a; Evidence for quasispecies distributions in the human hepatitis A virus genome. Virology 315:34–42 [CrossRef]
    [Google Scholar]
  17. Sanchez G., Bosch A., Pinto R. M. 2003b; Genome variability and capsid structural constraints of hepatitis A virus. J Virol 77:452–459 [CrossRef]
    [Google Scholar]
  18. Simmonds P. 2006; Recombination and selection in the evolution of picornaviruses and other mammalian positive-stranded RNA viruses. J Virol 80:11124–11140 [CrossRef]
    [Google Scholar]
  19. Thompson J. D., Higgins D. G., Gibson T. J. 1994; clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680 [CrossRef]
    [Google Scholar]
  20. Ticehurst J., Cohen J. I., Feinstone S. M., Purcell R. H., Jansen R. W., Lemon S. M. 1989; Replication of hepatitis A virus: new ideas from studies with cloned cDNA. In Molecular Aspects of Picornavirus Infection and Detection pp 27–50 Edited by Semler B. L., Ehrenfeld E. Washington, DC: American Society for Microbiology;
    [Google Scholar]
  21. Wasley A., Fiore A., Bell B. P. 2006; Hepatitis A in the era of vaccination. Epidemiol Rev 28:101–111 [CrossRef]
    [Google Scholar]
  22. Wimmer E., Murdin A. 1991; Hepatitis A and the molecular biology of picornaviruses: a case for a new genus of the family Picornaviridae . In Viral Hepatitis and Liver Disease pp 1–41 Edited by Hollinger F. B., Lemon S. M., Margolis H. S. Baltimore: Williams & Wilkins;
    [Google Scholar]
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