Impact of Latently Infected Cells on Strain Archiving Within HIV Hosts

Bulletin of Mathematical Biology

Volumn 74, Issue 9, 2012, Pages 1985-2003

  Ward, Zoë ^a   White, Jane ^a  

^a UNIVERSITY OF BATH   (United Kingdom)

Author keywords

Drug resistance; Latent cells; Low level viral load; Mathematical model; Strain archiving

Indexed keywords

HUMAN IMMUNODEFICIENCY VIRUS;

EID: 84864773912     PISSN: 00928240     EISSN: 15229602     Source Type: Journal    
DOI: 10.1007/s11538-012-9742-0     Document Type: Article

References (43)

1. Arnaout, R. A., Martin, A., et al. (2000). HIV-1 dynamics revisited: biphasic decay by cytotoxic T lymphocyte killing? Proc. R. Soc. Lond. Ser. B, Biol. Sci., 267, 1347-1354.
2. Bennett, D. E., Camacho, R. J., Otelea, D., Kuritzkes, D. R., Fleury, H., Kiuchi, M., Heneine, W., Kantor, R., Jordan, M. R., Schapiro, J. M., Vandamme, A.-M., Sandstrom, P., Boucher, C. A. B., van de Vijver, D., Rhee, S.-Y., Liu, T. F., Pillay, D., & Shafer, R. W. (2009). Drug resistance mutations for surveillance of transmitted HIV-1 drug-resistance: 2009 update. PLoS ONE, 4(3), e4724. doi: 10. 1371/journal. pone. 0004724.
3. Bonhoeffer, S., May, R. M., Shaw, G. M., & Nowak, M. A. (1997). Virus dynamics and drug therapy. Proc. Natl. Acad. Sci. USA, 94, 6971-6976.
4. Callaway, D. S., & Perelson, A. S. (2002). HIV-1 infection and low steady state viral loads. Bull. Math. Biol., 64, 29-64.
5. Chun, T. W., Finzi, D., Margolick, J., Chadwick, K., Schwartz, D., & Siliciano, R. F. (1995). In vivo fate of HIV-1-infected T cells: quantitative analysis of the transition to stable latency. Nat. Med., 1, 1284-1290.
6. Chun, T. W., Carruth, L., Finzi, D., Shen, X., DiGiuseppe, J. A., Taylor, H., Hermankova, M., Chadwick, K., Margolick, J., Quinn, T. C., et al. (1997a). Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection. Nature, 387, 183-188.
7. Chun, T. W., Stuyver, L., Mizell, S. B., Ehler, L. A., Mican, J. A. M., Baseler, M., Lloyd, A. L., Nowak, M. A., & Fauci, A. S. (1997b). Proc. Natl. Acad. Sci. USA, 94(24), 13193-13197.
8. Chun, T. W., Engel, D., Mizell, S. B., Ehler, L. A., & Fauci, A. S. (1998). Induction of HIV-1 replication in latently infected CD4+ T cells using a combination of cytokines. J. Exp. Med., 188(1), 83-91.
9. Di Mascio, M., Markowitz, M., Louie, M., Hogan, C., Hurley, A., Chung, C., Ho, D. D., & Perelson, A. S. (2003). Viral blip dynamics during highly active antiretroviral therapy. J. Virol., 77, 12165.
10. Embretson, J., Zupancic, M., Ribas, J. L., Burke, A., Racz, P., Tenner-Racz, K., & Haase, A. T. (1993). Massive covert infection of helper t lymphocytes and macrophages by hiv during the incubation period of aids. Nature, 362(6418), 359-362.
11. Finzi, D., & Siliciano, R. F. (1998). Viral dynamics in HIV-1 infection. Cell, 93(5), 665-671.
12. Heffernan, J. M., Smith, R. J., & Wahl, L. M. (2005). Perspectives on the basic reproductive ratio. J. R. Soc. Interface, 2, 281-293.
13. Ho, D. D., Neumann, A. U., Perelson, A. S., Chen, W., Leonard, J. M., Markowitz, M., et al. (1995). Rapid turnover of plasma virions and CD4 lymphocytes in HIV-1 infection. Nature, 373, 123-126.
14. Hockett, R. D., Kilby, J. M., Derdeyn, C. A., Saag, M. S., Sillers, M., Squires, K., Chiz, S., Nowak, M. A., Shaw, G. M., & Bucy, R. P. (1999). Constant mean viral copy number per infected cell in tissues regardless of high, low, or undetectable plasma HIV RNA. J. Exp. Med., 189(10), 1545.
15. Igarashi, T., Brown, C. R., Endo, Y., Buckler-White, A., Plishka, R., Bischofberger, N., Hirsch, V., & Martin, M. A. (2001). Macrophage and the principal reservoir and sustain high virus loads in rhesus macaques after the depletion of CD4+ T cells by a highly pathogenic simian immunodeficiency virus/HIV type 1 chimera (SHIV): implications for HIV-1 infections of humans. Proc. Natl. Acad. Sci. USA, 98(2), 658-663.
16. Jones, L. E., & Perelson, A. S. (2005). Opportunistic infection as a cause of transient viremia in chronically infected HIV patients under treatment with HAART. Bull. Math. Biol., 67, 1227-1251.
17. Jones, L. E., & Perelson, A. S. (2007). Transient viremia, plasma viral load, and reservoir replenishment in HIV-infected patients on antiretroviral therapy. J. Acquir. Immune Defic. Syndr., 45(5), 483.
18. Kepler, T. B., & Perelson, A. S. (1998). Drug concentration heterogeneity facilitates the evolution of drug resistance. Proc. Natl. Acad. Sci. USA, 95, 11514-11519.
19. Kim, H., & Perelson, A. S. (2006). Viral and latent reservoir persistence in HIV-1-infected patients on therapy. PLoS Comput. Biol., 2, 1232-1247.
20. Markowitz, M., Louie, M., Hurley, A., Sun, E., Di Mascio, M., Perelson, A. S., & Ho, D. D. (2003). A novel antiviral intervention results in more accurate assessment of human immunodeficiency virus type 1 replication dynamics and T-cell decay in vivo. J. Virol., 77(8), 5037.
21. McLean, A. R., & Nowak, M. A. (1992). Competition between zidovudine-sensitive and zidovudine-resistant strains of HIV. AIDS, 6, 71-79.
22. McLean, A. R., Emery, V. C., Webster, A., & Griffiths, P. D. (1991). Population dynamics of HIV within an individual after treatment with zidovudine. AIDS, 5, 485-489.
23. Mohri, H., Bonhoeffer, S., Monard, S., Perelson, A. S., & Ho, D. D. (1998). Rapid turnover of T lymphocytes in SIV-infected rhesus macaques. Science, 279(5354), 1223.
24. Müller, V., Vigueras-Gòmez, J. V., & Bonhoeffer, S. (2002). Decelerating decay of latently infected cells during prolonged therapy for human immunodeficiency virus type 1 infection. J. Virol., 76, 8963-8965.
25. Nowak, M. A., Bonhoeffer, S., Shaw, G. M., & May, R. M. (1997). Anti-viral drug treatment: dynamics of resistance in free virus and infected cell populations. J. Theor. Biol., 184(2), 203-217.
26. Perelson, A. S., & Ribeiro, R. M. (2008). Estimating drug efficacy and viral dynamic parameters: HIV and HCV. Stat. Med., 27(23), 4647-4657.
27. Perelson, A. S., Kirschner, D. E., & De Boer, R. (1993). Dynamics of HIV infection of CD4+ T cells. Math. Biosci., 114(1), 81-125.
28. Perelson, A. S., Essunger, P., Cao, Y., Vesaneir, M., Hurley, A., Sakselat, K., Markowitz, M., & Ho, D. D. (1995). Decay characteristics of HIV-1-infected compartments during combination therapy. Nature, 267, 483-489.
29. Perno, C. F., Newcomb, F. M., Davis, D. A., Aquaro, S., Humphrey, R. W., Calio, R., & Yarchoan, R. (1998). Relative potency of protease inhibitors in monocytes/macrophages acutely and chronically infected with human immunodeficiency virus. J. Infect. Dis., 178(2), 413-422.
30. Ramratnam, B., Bonhoeffer, S., Binley, J., Hurley, A., Zhang, L., Mittler, J. E., Markowitz, M., Moore, J. P., Perelson, A. S., & Ho, D. D. (1999). Rapid production and clearance of HIV-1 and hepatitis C virus assessed by large volume plasma apheresis. Lancet, 354(9192), 1782-1785.
31. Ramratnam, B., Mittler, J. E., Zhang, L., Boden, D., Hurley, A., Fang, F., Macken, C. A., Perelson, A. S., Markowitz, M., & Ho, D. D. (2000). The decay of the latent reservoir of replication-competent HIV-1 is inversely correlated with the extent of residual viral replication during prolonged anti-retroviral therapy. Nat. Med., 6(1), 82-85.
32. Roberts, J. D., Bebenek, K., & Kunkel, T. A. (1998). The accuracy of reverse transcriptase from HIV-1. Science, 242(4882), 1171.
33. Rong, L., & Perelson, A. S. (2009a). Modeling HIV persistence, the latent reservoir, and viral blips. J. Theor. Biol., 260, 308-331.
34. Rong, L., & Perelson, A. S. (2009b). Asymmetric division of activated latently infected cells may explain the decay kinetics of the HIV-1 latent reservoir and intermittent viral blips. Math. Biosci., 217, 77-87.
35. Rong, L., & Perelson, A. S. (2009c). Modeling latently infected cell activation: viral and latent reservoir persistence, and viral blips in HIV-infected patients on potent therapy. PLoS Comput. Biol., 5, e1000533.
36. Rong, L., Feng, Z., & Perelson, A. S. (2007). Emergence of HIV-1 drug resistance during antiretroviral treatment. Bull. Math. Biol., 69, 2027-2060.
37. Ruff, C. T., Ray, S. C., Kwon, P., Zinn, R., Pendelton, A., Hutton, N., Ashworth, R., Gange, S., Quinn, T. C., Siliciano, R. F., & Persaud, D. (2002). Persistence of wild-type virus and lack of temporal structure in the latent reservoir for human immunodeficiency virus type 1 in pediatric patients with extensive antiretroviral exposure. J. Virol., 76, 9481-9492.
38. Sachsenberg, N., Perelson, A. S., Yerly, S., Schockmel, G. A., Leduc, D., Hirschel, B., & Perrin, L. (1998). Turnover of CD4+ and CD8+ T lymphocytes in HIV-1 infection as measured by Ki-67 antigen. J. Exp. Med., 187, 1295-1303.
39. Siliciano, J. D., Kajdas, J., Finzi, D., Quinn, T. C., Chadwick, K., Margolick, J. B., Kovacs, C., Gange, S. J., & Siliciano, R. F. (2003). Long-term follow-up studies confirm the stability of the latent reservoir for HIV-1 in resting CD4+ T cells. Nat. Med., 9, 727-728.
40. Stevenson, M. (1996). Portals of entry: uncovering HIV nuclear transport pathways. Trends Cell Biol., 6, 9-15.
41. Stevenson, M., & Gendelman, H. E. (1994). Cellular and viral determinants that regulate HIV-1 infection in macrophages. J. Leukoc. Biol., 56, 278-288.
42. Ward, Z. D., White, K. A. J., & van Voorn, G. A. K. (2009). Exploring the impact of target cell heterogeneity on hiv loads in a within-host model. Epidemics, 1, 168-174.
43. Zhang, L., Ramratnam, B., Tenner-Racz, K., He, Y., Vesanen, M., Lewin, S., Talal, A., Racz, P., Perelson, A. S., Korber, B. T., et al. (1999). Quantifying residual HIV-1 replication in patients receiving combination antiretroviral therapy. N. Engl. J. Med., 340, 1605-1613.