The impact of host immune status on the within-host and population dynamics of antigenic immune escape

Journal of the Royal Society Interface

Volumn 9, Issue 75, 2012, Pages 2603-2613

  Luo, Shishi ^a   Reed, Michael ^a   Mattingly, Jonathan C ^a   Koelle, Katia ^a,b  

^a DUKE UNIVERSITY   (United States)

^b NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

Immune escape; Intra host dynamics; Viral evolution

Indexed keywords

POPULATION STATISTICS; VIRUSES;

CONTROL STRATEGIES; EMPIRICAL RELATIONSHIPS; EXPERIMENTAL STUDIES; IMMUNE ESCAPE; INFLUENZA A; INFLUENZA VIRUS; POPULATION LEVELS; PRODUCTION RATES; SCALING-UP; TARGET CELLS; VIRAL EVOLUTION;

ANTIGENS;

INFLUENZA VACCINE; VIRUS ANTIGEN;

ANTIGENIC IMMUNE ESCAPE; ARTICLE; ESCAPE BEHAVIOR; HERD IMMUNITY; HUMAN; IMMUNE STATUS; IMMUNITY; INFLUENZA A (H3N2); MOLECULAR DYNAMICS; MOLECULAR EVOLUTION; POPULATION DYNAMICS; POPULATION MODEL;

ORTHOMYXOVIRIDAE;

EID: 84866262205     PISSN: 17425689     EISSN: 17425662     Source Type: Journal    
DOI: 10.1098/rsif.2012.0180     Document Type: Article

References (34)

1. Andreasen, V., Lin, J. & Levin, S. A. 1997 The dynamics of cocirculating influenza strains conferring partial cross-immunity. J. Math. Biol. 35, 825-842. (doi:10.1007/s002850050079)
2. Gog, J. R. & Grenfell, B. T. 2002 Dynamics and selection of many-strain pathogens. Proc. Natl Acad. Sci. USA 99, 17 209-17 214. (doi:10.1073/pnas.252512799)
3. Ferguson, N. M., Galvani, A. P. & Bush, R. M. 2003 Ecological and immunological determinants of influenza evolution. Nature 422, 428-433. (doi:10.1038/nature01509)
4. Koelle, K., Cobey, S., Grenfell, B. & Pascual, M. 2006 Epochal evolution shapes the phylodynamics of interpandemic influenza A (H3N2) in humans. Science 314, 1898-1903. (doi:10.1126/science.1132745)
5. Archetti, I. & Horsfall, F. L. 1950 Persistent antigenic variation of influenza A viruses after incomplete neutralization in ovo with heterologous immune serum. J. Exp. Med. 92, 441-462. (doi:10.1084/jem.92.5.441)
6. Gerber, P., Loosli, C. G. & Hamre, D. 1955 Antigenic variants of influenza A virus, (PR8 strain). I. Their development during serial passage in the lungs of partially immune mice. J. Exp. Med. 101, 627-638. (doi:10.1084/jem.101.6.627)
7. Gerber, P., Hamre, D. & Loosli, C. G. 1956 Antigenic variants of influenza A virus (PR8 strain). II. Serological and immunological characteristics of variants derived from variants. J. Exp. Med. 103, 413-424. (doi:10.1084/jem.103.4.413)
8. Hamre, D., Loosli, C. G. & Gerber, P. 1958 Antigenic variants of influenza A virus (PR8 strain). III. Serological relationships of a line of variants derived in sequence in mice given homologous vaccine. J. Exp. Med. 107, 829-844. (doi:10.1084/jem.107.6.829)
9. Borrego, B., Novella, I. S., Giralt, E., Andreu, D. & Domingo, E. 1993 Distinct repertoire of antigenic variants of foot-and-mouth disease virus in the presence or absence of immune selection. J. Virol. 67, 6071-6079.
10. Hensley, S. E. et al. 2009 Hemagglutinin receptor binding avidity drives influenza A virus antigenic drift. Science 326, 734-736. (doi:10.1126/science. 1178258)
11. Grenfell, B. T., Pybus, O. G., Gog, J. R., Wood, J. L. N., Daly, J. M., Mumford, J. A. & Holmes, E. C. 2004 Unifying the epidemiological and evolutionary dynamics of pathogens. Science 303, 327-332. (doi:10.1126/science. 1090727)
12. Wiley, D. C., Wilson, I. A. & Skehel, J. J. 1981 Structural identification of the antibody-binding sites of Hong Kong influenza haemagglutinin and their involvement in antigenic variation. Nature 289, 373-378. (doi:10.1038/289373a0)
13. Wilson, I. A. & Cox, N. J. 1990 Structural basis of immune recognition of influenza virus hemagglutinin. Annu. Rev. Immunol. 8, 737-771. (doi:10.1146/annurev.iy.08.040190.003513)
14. Koelle, K., Khatri, P., Kamradt, M. & Kepler, T. B. 2010 A two-tiered model for simulating the ecological and evolutionary dynamics of rapidly evolving viruses, with an application to influenza. J. R. Soc. Interface 7, 1257-1274. (doi:10.1098/rsif.2010.0007)
15. Larson, E. W., Dominik, J. W., Rowberg, A. H. & Higbee, G. A. 1976 Influenza virus population dynamics in the respiratory tract of experimentally infected mice. Infect. Immun. 13, 438-447.
16. Bocharov, G. A. & Romanyukha, A. A. 1994 Mathematical model of antiviral immune response. III. Influenza A virus infection. J. Theor. Biol. 167, 323-360. (doi:10.1006/jtbi.1994.1074)
17. Nowak, M. A. & May, R. 2001 Virus dynamics: mathematical principles of immunology and virology, pp. 16-18. New York, NY: Oxford University Press.
18. Beauchemin, C., Samuel, J. & Tuszynski, J. 2005 A simple cellular automaton model for influenza A viral infections. J. Theor. Biol. 232, 223-234. (doi:10.1016/j.jtbi.2004.08.001)
19. Baccam, P.,Beauchemin, C.,Macken, C.A.,Hayden, F. G. & Perelson, A. S. 2006 Kinetics of influenza A virus infection in humans. J. Virol. 80, 7590-7599. (doi:10.1128/JVI.01623-05)
20. Hancioglu, B., Swigon, D. & Clermont, G. 2007 A dynamical model of human immune response to influenza A virus infection. J. Theor. Biol. 246 , 70-86. (doi:10.1016/j.jtbi.2006.12.015)
21. Handel, A., Longini, I. M. & Antia, R. 2007 Neuraminidase inhibitor resistance in influenza: assessing the danger of its generation and spread. PLoS Comput. Biol. 3, 2456-2464. (doi:10.1371/journal.pcbi.0030240)
22. Handel, A., Longini, I. M. & Antia, R. 2010 Towards a quantitative understanding of the within-host dynamics of influenza A infections. J. R. Soc. Interface 7, 35-47. (doi:10.1098/rsif.2009.0067)
23. Saenz, R. A. et al. 2010 Dynamics of influenza virus infection and pathology. J. Virol. 84, 3974-3983. (doi:10.1128/JVI.02078-09)
24. Volkov, I., Pepin, K. M., Lloyd-Smith, J. O., Banavar, J. R. & Grenfell, B. T. 2010 Synthesizing within-host and population-level selective pressures on viral populations: the impact of adaptive immunity on viral immune escape. J. R. Soc. Interface 7, 1311-1318. (doi:10.1098/rsif.2009.0560)
25. Anderson, D. F., Ganguly, A. & Kurtz, T. G. 2011 Error analysis of tau-leap simulation methods. Ann. Appl. Probab. 21, 2226-2262. (doi:10.1214/10-AAP756)
26. Mann, J. J., Waldman, R. H., Togo, Y., Heiner, G. G., Dawkins, A. T. & Kasel, J. A. 1968 Antibody response in respiratory secretions of volunteers given live and dead influenza virus. J. Immunol. 100, 726-735.
27. Iwasaki, T. & Nozima, T. 1977 Defense mechanisms against primary influenza virus infection in mice. I. The roles of interferon and neutralizing antibodies and thymus dependence of interferon and antibody production. J. Immunol. 118, 256-263.
28. Richman, D. D., Murphy, B. R., Baron, S. & Uhlendorf, C. 1976 Three strains of influenza A virus (H3N2): interferon sensitivity in vitro and interferon production in volunteers. J. Clin. Microbiol. 3, 223-226.
29. Carrat, F., Vergu, E., Ferguson, N. M., Lemaitre, M., Cauchemez, S., Leach, S. & Valleron, A. 2008 Time lines of infection and disease in human influenza: a review of volunteer challenge studies. Am J. Epidemiol. 167, 775-785. (doi:10.1093/aje/kwm375)
30. Koelle, K., Kamradt, M. & Pascual, M. 2009 Understanding the dynamics of rapidly evolving pathogens through modeling the tempo of antigenic change: influenza as a case study. Epidemics 1, 129-137. (doi:10.1016/j.epidem.2009.05. 003)
31. Howat, T. J., Barreca, C., O'Hare, P., Gog, J. R. & Grenfell, B. T. 2006 Modelling dynamics of the type I interferon response to in vitro viral infection. J. R. Soc. Interface 3, 699-709. (doi:10.1098/rsif.2006.0136)
32. Sanders, C. J., Doherty, P. C. & Thomas, P. G. 2011 Respiratory epithelial cells in innate immunity to influenza virus infection. Cell Tissue Res. 343, 13-21. (doi:10.1007/s00441-010-1043-z)
33. Durrett, R. 1999 Essentials of stochastic processes, pp. 140-142. New York, NY: Springer.
34. Koelle, K., Ratmann, O., Rasmussen, D. A., Pasour, V. & Mattingly, J. 2011 A dimensionless number for understanding the evolutionary dynamics of antigenically variable RNA viruses. Proc. R. Soc. B 278, 3723-3730. (doi:10.1098/rspb.2011.0435)