1887

Abstract

Patients with inherited bleeding disorders who received clotting factor concentrates before 1987 have high rates of hepatitis C virus (HCV) or HCV/human immunodeficiency virus (HIV) infection. To determine whether the persistent nature of HIV affects the genetic diversity of HCV by less selective pressure through the immunosuppression of HIV/HCV-coinfected patients, both the change of genetic diversity and selective pressure were examined in the HCV envelope genes (E1 and E2) of 325 genotype 1a subclones from eight HIV-positive and five HIV-negative patients with two time points (more than 6 years apart). To infer the genetic diversity of HCV in each patient, we used two approaches. One method was to estimate the difference of total evolutionary distances in the phylogenetic tree between the two time points, and another was to estimate the changes of genetic diversity along the time based on the coalescence theory. The two results indicate that the HIV-positive group has significantly more diverse population structure than the HIV-negative group. A comparative analysis of the synonymous and non-synonymous substitutions found that the HIV-positive group was subject to less selective pressure than the HIV-negative group. In conclusion, HIV-positive patients would have a more diversified HCV population than HIV-negative patients due to less selective pressure from the immune system.

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2007-09-01
2019-10-19
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References

  1. Babik, J. M. & Holodniy, M. ( 2003; ). Impact of highly active antiretroviral therapy and immunologic status on hepatitis C virus quasispecies diversity in human immunodeficiency virus/hepatitis C virus-coinfected patients. J Virol 77, 1940–1950.[CrossRef]
    [Google Scholar]
  2. Benhamou, Y., Bochet, M., Di Martino, V., Charlotte, F., Azria, F., Coutellier, A., Vidaud, M., Bricaire, F., Opolon, P. & other authors ( 1999; ). Liver fibrosis progression in human immunodeficiency virus and hepatitis C virus coinfected patients. The Multivirc Group. Hepatology 30, 1054–1058.[CrossRef]
    [Google Scholar]
  3. Bica, I., McGovern, B., Dhar, R., Stone, D., McGowan, K., Scheib, R. & Snydman, D. R. ( 2001; ). Increasing mortality due to end-stage liver disease in patients with human immunodeficiency virus infection. Clin Infect Dis 32, 492–497.[CrossRef]
    [Google Scholar]
  4. Blackard, J. T., Yang, Y., Bordoni, P., Sherman, K. E. & Chung, R. T., AIDS Clinical Trials Group 383 Study Team ( 2004; ). Hepatitis C virus (HCV) diversity in HIV-HCV-coinfected subjects initiating highly active antiretroviral therapy. J Infect Dis 189, 1472–1481.[CrossRef]
    [Google Scholar]
  5. Braitstein, P., Palepu, A., Dieterich, D., Benhamou, Y. & Montaner, J. S. ( 2004; ). Special considerations in the initiation and management of antiretroviral therapy in individuals coinfected with HIV and hepatitis C. AIDS 18, 2221–2234.[CrossRef]
    [Google Scholar]
  6. Devereux, H. L., Brown, D., Dusheiko, G. M., Emery, V. C. & Lee, C. A. ( 1997; ). Long-term evolution of the 5′UTR and a region of NS4 containing a CTL epitope of hepatitis C virus in two haemophilic patients. J Gen Virol 78, 583–590.
    [Google Scholar]
  7. Eyster, M. E., Fried, M. W., Di Bisceglie, A. M. & Goedert, J. J. ( 1994; ). Increasing hepatitis C virus RNA levels in hemophiliacs: relationship to human immunodeficiency virus infection and liver disease. Multicenter Hemophilia Cohort Study. Blood 84, 1020–1023.
    [Google Scholar]
  8. Farci, P., Shimoda, A., Coiana, A., Diaz, G., Peddis, G., Melpolder, J. C., Strazzera, A., Chien, D. Y., Munoz, S. J. & other authors ( 2000; ). The outcome of acute hepatitis C predicted by the evolution of the viral quasispecies. Science 288, 339–344.[CrossRef]
    [Google Scholar]
  9. Farci, P., Strazzera, R., Alter, H. J., Farci, S., Degioannis, D., Coiana, A., Peddis, G., Usai, F., Serra, G. & other authors ( 2002; ). Early changes in hepatitis C viral quasispecies during interferon therapy predict the therapeutic outcome. Proc Natl Acad Sci U S A 99, 3081–3086.[CrossRef]
    [Google Scholar]
  10. Goedert, J. J., Eyster, M. E., Lederman, M. M., Mandalaki, T., De Moerloose, P., White, G. C., II, Angiolillo, A. L., Luban, N. L., Sherman, K. E. & other authors ( 2002; ). End-stage liver disease in persons with hemophilia and transfusion-associated infections. Blood 100, 1584–1589.
    [Google Scholar]
  11. Graham, C. S., Baden, L. R., Yu, E., Mrus, J. M., Carnie, J., Heeren, T. & Koziel, M. J. ( 2001; ). Influence of human immunodeficiency virus infection on the course of hepatitis C virus infection: a meta-analysis. Clin Infect Dis 33, 562–569.[CrossRef]
    [Google Scholar]
  12. Hanada, K., Gojobori, T. & Li, W. H. ( 2006; ). Radical amino acid change versus positive selection in the evolution of viral envelope proteins. Gene 385, 83–88.[CrossRef]
    [Google Scholar]
  13. Hanada, K., Tanaka, Y., Mizokami, M., Gojobori, T. & Alter, H. J. ( 2006; ). A reduction in selective immune pressure during the course of chronic hepatitis C correlates with diminished biochemical evidence of hepatic inflammation. Virology 361, 27–33.
    [Google Scholar]
  14. Kato, N., Sekiya, H., Ootsuyama, Y., Nakazawa, T., Hijikata, M., Ohkoshi, S. & Shimotohno, K. ( 1993; ). Humoral immune response to hypervariable region 1 of the putative envelope glycoprotein (gp70) of hepatitis C virus. J Virol 67, 3923–3930.
    [Google Scholar]
  15. Kumar, S., Tamura, K., Jakobsen, I. B. & Nei, M. ( 2001; ). mega2: Molecular Evolutionary Genetics Analysis software. Bioinformatics 17, 1244–1245.[CrossRef]
    [Google Scholar]
  16. Lai, C. L., Ratziu, V., Yuen, M. F. & Poynard, T. ( 2003; ). Viral hepatitis B. Lancet 362, 2089–2094.[CrossRef]
    [Google Scholar]
  17. Lyra, A. C., Fan, X., Lang, D. M., Yusim, K., Ramrakhiani, S., Brunt, E. M., Korber, B., Perelson, A. S. & Di Bisceglie, A. M. ( 2002; ). Evolution of hepatitis C viral quasispecies after liver transplantation. Gastroenterology 123, 1485–1493.[CrossRef]
    [Google Scholar]
  18. Mao, Q., Ray, S. C., Laeyendecker, O., Ticehurst, J. R., Strathdee, S. A., Vlahov, D. & Thomas, D. L. ( 2001; ). Human immunodeficiency virus seroconversion and evolution of the hepatitis C virus quasispecies. J Virol 75, 3259–3267.[CrossRef]
    [Google Scholar]
  19. Martell, M., Esteban, J. I., Quer, J., Genesca, J., Weiner, A., Esteban, R., Guardia, J. & Gomez, J. ( 1992; ). Hepatitis C virus (HCV) circulates as a population of different but closely related genomes: quasispecies nature of HCV genome distribution. J Virol 66, 3225–3229.
    [Google Scholar]
  20. Neumann, A. U., Lam, N. P., Dahari, H., Gretch, D. R., Wiley, T. E., Layden, T. J. & Perelson, A. S. ( 1998; ). Hepatitis C viral dynamics in vivo and the antiviral efficacy of interferon-alpha therapy. Science 282, 103–107.[CrossRef]
    [Google Scholar]
  21. Ohno, T., Mizokami, M., Wu, R. R., Saleh, M. G., Ohba, K., Orito, E., Mukaide, M., Williams, R. & Lau, J. Y. ( 1997; ). New hepatitis C virus (HCV) genotyping system that allows for identification of HCV genotypes 1a, 1b, 2a, 2b, 3a, 3b, 4, 5a, and 6a. J Clin Microbiol 35, 201–207.
    [Google Scholar]
  22. Pawlotsky, J. M., Germanidis, G., Frainais, P. O., Bouvier, M., Soulier, A., Pellerin, M. & Dhumeaux, D. ( 1999; ). Evolution of the hepatitis C virus second envelope protein hypervariable region in chronically infected patients receiving alpha interferon therapy. J Virol 73, 6490–6499.
    [Google Scholar]
  23. Poynard, T., Yuen, M. F., Ratziu, V. & Lai, C. L. ( 2003; ). Viral hepatitis C. Lancet 362, 2095–2100.[CrossRef]
    [Google Scholar]
  24. Puoti, M., Bonacini, M., Spinetti, A., Putzolu, V., Govindarajan, S., Zaltron, S., Favret, M., Callea, F., Gargiulo, F. & other authors ( 2001; ). Liver fibrosis progression is related to CD4 cell depletion in patients coinfected with hepatitis C virus and human immunodeficiency virus. J Infect Dis 183, 134–137.[CrossRef]
    [Google Scholar]
  25. Pybus, O. G. & Rambaut, A. ( 2002; ). genie: estimating demographic history from molecular phylogenies. Bioinformatics 18, 1404–1405.[CrossRef]
    [Google Scholar]
  26. Pybus, O. G., Charleston, M. A., Gupta, S., Rambaut, A., Holmes, E. C. & Harvey, P. H. ( 2001; ). The epidemic behavior of the hepatitis C virus. Science 292, 2323–2325.[CrossRef]
    [Google Scholar]
  27. Qin, H., Shire, N. J., Keenan, E. D., Rouster, S. D., Eyster, M. E., Goedert, J. J., Koziel, M. J. & Sherman, K. E. ( 2005; ). HCV quasispecies evolution: association with progression to end-stage liver disease in hemophiliacs infected with HCV or HCV/HIV. Blood 105, 533–541.[CrossRef]
    [Google Scholar]
  28. Rambaut, A. ( 2000; ). Estimating the rate of molecular evolution: incorporating non-contemporaneous sequences into maximum likelihood phylogenies. Bioinformatics 16, 395–399.[CrossRef]
    [Google Scholar]
  29. Ray, S. C., Mao, Q., Lanford, R. E., Bassett, S., Laeyendecker, O., Wang, Y. M. & Thomas, D. L. ( 2000; ). Hypervariable region 1 sequence stability during hepatitis C virus replication in chimpanzees. J Virol 74, 3058–3066.[CrossRef]
    [Google Scholar]
  30. Roque-Afonso, A. M., Robain, M., Simoneau, D., Rodriguez-Mathieu, P., Gigou, M., Meyer, L. & Dussaix, E. ( 2002; ). Influence of CD4 cell counts on the genetic heterogeneity of hepatitis C virus in patients coinfected with human immunodeficiency virus. J Infect Dis 185, 728–733.[CrossRef]
    [Google Scholar]
  31. Sheridan, I., Pybus, O. G., Holmes, E. C. & Klenerman, P. ( 2004; ). High-resolution phylogenetic analysis of hepatitis C virus adaptation and its relationship to disease progression. J Virol 78, 3447–3454.[CrossRef]
    [Google Scholar]
  32. Suzuki, Y. & Gojobori, T. ( 2001; ). Positively selected amino acid sites in the entire coding region of hepatitis C virus subtype 1b. Gene 276, 83–87.[CrossRef]
    [Google Scholar]
  33. Tanaka, Y., Hanada, K., Mizokami, M., Yeo, A. E., Shih, J. W., Gojobori, T. & Alter, H. J. ( 2002; ). A comparison of the molecular clock of hepatitis C virus in the United States and Japan predicts that hepatocellular carcinoma incidence in the United States will increase over the next two decades. Proc Natl Acad Sci U S A 99, 15584–15589.[CrossRef]
    [Google Scholar]
  34. Toyoda, H., Fukuda, Y., Koyama, Y., Takamatsu, J., Saito, H. & Hayakawa, T. ( 1997; ). Effect of immunosuppression on composition of quasispecies population of hepatitis C virus in patients with chronic hepatitis C coinfected with human immunodeficiency virus. J Hepatol 26, 975–982.[CrossRef]
    [Google Scholar]
  35. Yang, Z., Kumar, S. & Nei, M. ( 1995; ). A new method of inference of ancestral nucleotide and amino acid sequences. Genetics 141, 1641–1650.
    [Google Scholar]
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