Biological and biomedical implications of the co-evolution of pathogens and their hosts (original) (raw)

• Stearns, S.C. Evolution in Health & Disease (Oxford University Press, Oxford, 1999).
  Google Scholar
• Rainey, P.B., Buckling, A., Kassen, R. & Travisano, M. The emergence and maintenance of diversity: insights from bacterial populations. Trends Microbiol. 15, 243–247 (2000).
  CAS Google Scholar
• Thompson, J.N. & Burdon, J.J. Gene-for-gene coevolution between plants and parasites. Nature 360, 121–125 (1992).
  Article Google Scholar
• Thompson, J.N. The Coevolutionary Process (University of Chicago Press, Chicago, 1994).
  Book Google Scholar
• Flor, H.H. The complementary genic systems in flax and flax rust. Adv. Genet. 8, 29–54 (1956).
  Article Google Scholar
• Chao, L., Levin, B.R. & Stewart, F.M. A complex community in a simple habitat: an experimental study with bacteria and phage. Ecology 58, 369–378 (1977).
  Article Google Scholar
• Lenski, R.E. & Levin, B.R. Constraints on the coevolution of bacteria and virulent phage: a model, some experiments, and predictions for natural communities. Am. Nat. 125, 585–602 (1985).
  Article Google Scholar
• Kniskern, J. & Rausher, M.D. Two modes of host–enemy evolution. Popul. Ecol. 43, 3–14 (2001).
  Article Google Scholar
• Little, T.J. The evolutionary significance of parasitism: do parasite-driven dynamics occur ex silico? J. Evol. Biol. 15, 1–9 (2002).
  Article Google Scholar
• Satta, Y., Ohuigin, C., Takahata, N. & Klein, J. Intensity of natural selection at the major histocompatibility complex loci. Proc. Natl Acad. Sci. USA 91, 7184–7188 (1994).
  Article CAS PubMed PubMed Central Google Scholar
• Ebert, D. Virulence and local adaptation of a new horizontally transmitted parasite. Science 265, 1084–1086 (1994).
  Article CAS PubMed Google Scholar
• Frank, S.A. Models of parasite virulence. Q. Rev. Biol. 71, 37–78 (1996).
  Article CAS PubMed Google Scholar
• Levin, B.R. The evolution and maintenance of virulence in microparasites. Emerg. Infect. Dis. 2, 93–102 (1996).
  Article CAS PubMed PubMed Central Google Scholar
• Mode, C.J. A mathematical model for the coevolution of obligate parasites and their hosts. Evolution 12, 138–165 (1958).
  Article Google Scholar
• Hamilton, W.D., Axelrod, R. & Tanese, R. Sexual reproduction as an adaptation to resist parasites (a review). Proc. Natl Acad. Sci. USA 87, 3566–3573 (1990).
  Article CAS PubMed PubMed Central Google Scholar
• Morand, S., Manning, S.D. & Woolhouse, M.E.J. Parasite–host coevolution and geographic patterns of parasite infectivity and host susceptibility. Proc. R. Soc. Lond. B Biol. Sci. 263, 119–128 (1996).
  Article CAS Google Scholar
• Lively, C.M. & Apanius, V. Genetic diversity in host-parasite interactions. in Ecology of Infectious Diseases in Natural Populations (eds Grenfell, B.T. & Dobson, A.P.) 421–449 (Cambridge University Press, Cambridge, 1995).
  Chapter Google Scholar
• Anderson, R.M. & May, R.M. Infectious Diseases of Humans: Dynamics and Control (Oxford University Press, Oxford, 1991).
  Google Scholar
• Sasaki, A. & Godfray, H.C.J. A model for the coevolution of resistance and virulence in coupled host–parasitoid interactions. Proc. R. Soc. Lond. B Biol. Sci. 266, 455–463 (1999).
  Article Google Scholar
• Gandon, S. & Michalakis, Y. Evolution of parasite virulence against qualitative or quantitative resistance. Proc. R. Soc. Lond. B Biol. Sci. 267, 985–990 (2000).
  Article CAS Google Scholar
• Sasaki, A. Host–parasite coevolution in a multilocus gene-for-gene system. Proc. R. Soc. Lond. B Biol. Sci. 267, 2183–2188 (2000).
  Article CAS Google Scholar
• Gandon, S. Local adaptation and the geometry of host–parasite coevolution. Ecol. Lett. 5, 246–256 (2002).
  Article Google Scholar
• Kreitman, M. Methods to detect selection in populations with applications to humans. Ann. Rev. Genomics Hum. Genet. 1, 539–559 (2000).
  Article CAS Google Scholar
• Haldane, J.B.S. Disease and evolution. Ric. Sci. 19, 68–76 (1949).
  Google Scholar
• Fenner, F. & Fantini, B. Biological Control of Vertebrate Pests (CABI Publishing, Wallingford, 1999).
  Google Scholar
• Lively, C.M. & Dybdahl, M.F. Parasite adaptation to locally common host genotypes. Nature 405, 679–681 (2000).
  Article CAS PubMed Google Scholar
• Dybdahl, M.F. & Lively, C.M. Host–parasite coevolution: evidence for rare advantage and time-lagged selection in a natural population. Evolution 52, 1057–1066 (1998).
  Article PubMed Google Scholar
• de la Torre, J.C. et al. Coevolution of cells and viruses in a persistent infection of foot-and-mouth disease virus in cell culture. J. Virol. 62, 2050–2058 (1988).
  CAS PubMed PubMed Central Google Scholar
• Braun-Breton, C. & Hofnung, M. In vivo and in vitro functional alterations of the bacteriophage lambda receptor in lamB missense mutants of Escherichia coli K-12. J. Bacteriol. 148, 845–852 (1981).
  CAS PubMed PubMed Central Google Scholar
• Hofnung, M., Jezierska, A. & Braun-Breton, C. LamB mutations in E. coli K12: growth of lambda host range mutants and effect of nonsense suppressors. Mol. Gen. Genet. 145, 207–213 (1976).
  Article CAS PubMed Google Scholar
• Woolhouse, M.E.J. et al. A centuries-long epidemic of scrapie in British sheep? Trends Microbiol. 6, 67–70 (2001).
  Article Google Scholar
• Levin, B.R., Bull, J.J. & Stewart, F.M. The intrinsic rate of increase of HIV/AIDS: epidemiological and evolutionary implications. Math. Biosci. 132, 69–96 (1996).
  Article CAS PubMed Google Scholar
• Lively, C.M. Migration, virulence and the geographic mosaic of adaptation by parasites. Am. Nat. 153, S34–S47 (1999).
  Article CAS PubMed Google Scholar
• Carius, H.J., Little, T.J. & Ebert, D. Genetic variation in a host–parasite association: potential for coevolution and frequency-dependent selection. Evolution 55, 1136–1145 (2001).
  Article CAS PubMed Google Scholar
• Thompson, J.N. Specific hypotheses on the geographical mosaic of coevolution. Am. Nat. 153, S1–S14 (1999).
  Article Google Scholar
• Nuismer, S.L., Thompson, J.N. & Gomulkiewicz, R. Gene flow and geographically structured coevolution. Proc. R. Soc. Lond. B Biol. Sci. 266, 605–609 (1998).
  Article Google Scholar
• Kraaijeveld, A.R. & Godfray, H.C.J. Geographic patterns in the evolution of resistance and virulence in Drosophila and its parasitoids. Am. Nat. 153, S61–S74 (1999).
  Article CAS PubMed Google Scholar
• Woolhouse, M.E.J. & Webster, J.P. In search of the Red Queen. Parasitol. Today, 16, 506–508 (2000).
  Article CAS PubMed Google Scholar
• Covacci, A., Telford, J.L., Del Giudice, G., Parsonnet, J. & Rappuoli, R. Helicobacter pylori virulence and genetic geography. Science 284, 1328–1333 (1999).
  Article CAS PubMed Google Scholar
• Ong, C.K. et al. Evolution of human papillomavirus type 18: an ancient phylogenetic root in Africa and intratype diversity reflect coevolution with human ethnic groups. J. Virol. 67, 6424–6423 (1993).
  CAS PubMed PubMed Central Google Scholar
• Agostini, H.T., Yanagihara, R., Davis, V., Ryschkewitsch, C.F. & Stoner, G.L. Asian genotypes of JC virus in native Americans and in a Pacific island population: markers of viral evolution and human migration. Proc. Natl Acad. Sci. USA 94, 14542–14546 (1997).
  Article CAS PubMed PubMed Central Google Scholar
• Harvey, P.H. & Pagel, M.D. The Comparative Method in Evolutionary Biology (Oxford University Press, Oxford, 1991).
  Google Scholar
• Huelsenbeck, J.P., Rannala, B. & Masly, J.P. Accommodating phylogenetic uncertainty in evolutionary studies. Science 288, 2349–2350 (2000).
  Article CAS PubMed Google Scholar
• Webster, J.P. & Davies, C.M. Coevolution and compatibility in the snail-schistosome system. Parasitology 123, S42–S56 (2001).
  Article Google Scholar
• Wakelin, D. & Blackwell, J.M. (eds). Genetics of Resistance to Bacterial and Parasitic Infection (Taylor & Francis, London, 1988).
  Google Scholar
• Hill, A.V.S., Jepson, A., Plebanski, M. & Gilbert, S.C. Genetic analysis of host–parasite coevolution in human malaria. Philos. Trans. R. Soc. Lond. B Biol. Sci. 352, 1317–1325 (1997).
  Article CAS PubMed PubMed Central Google Scholar
• Agrawal, A.A. Phenotypic plasticity in the interactions and evolution of species. Science 294, 321–326 (2001).
  Article CAS PubMed Google Scholar
• Yan, G., Severson, D.W. & Christensen, B.M. Costs and benefits of mosquito refractoriness to malaria parasites: implications for genetic variability of mosquitoes and genetic control of malaria. Evolution 51, 441–450 (1997).
  Article PubMed Google Scholar
• Webster, J.P. & Woolhouse, M.E.J. Cost of resistance: relationship between reduced fertility and increased resistance in a Schistosoma host-parasite system. Proc. R. Soc. Lond. B Biol. Sci. 266, 391–396 (1999).
  Article Google Scholar
• Kraaijeveld, A.R. & Godfray, H.C.J. Trade-off between parasitoid resistance and larval competitor ability in Drosophila melanogaster. Nature 389, 278–280 (1997).
  Article CAS PubMed Google Scholar
• Searle, S. & Blackwell, J.M. Evidence for a functional-repeat polymorphism in the promoter of human NRAMP1 gene that correlates with autoimmune versus infectious disease susceptibility. J. Med. Gen. 36, 295–299 (1999).
  CAS Google Scholar
• Falconer, D.S. & Mackay, T.F.C. An Introduction to Quantitative Genetics, 4th Edition (Longman, London, 1996).
  Google Scholar
• Agrawal, A. & Lively, C.M. Infection genetics: gene-for-gene versus matching allele models, and all points in between. Evol. Ecol. Res. 4, 1–12 (2002).
  Google Scholar
• Taylor, L.H., Latham, S.M. & Woolhouse, M.E.J. Risk factors for human disease emergence. Philos. Trans. R. Soc. Lond. B Biol. Sci. 356, 983–990 (2001).
  Article CAS PubMed PubMed Central Google Scholar
• Webster, J.P. & Macdonald, D.W. Parasites of wild brown-rats (Rattus norvegicus) on UK farms. Parasitology 111, 247–255 (1995).
  Article PubMed Google Scholar
• Read, A.F. & Taylor, L.R. The ecology of genetically diverse infections. Science 292, 1099–1102 (2001).
  Article CAS PubMed Google Scholar
• Ochman, H. & Moran, N.A. Genes lost and genes found: evolution of bacterial pathogenesis and symbiosis. Science 292, 1096–1098 (2001).
  Article CAS PubMed Google Scholar
• Fraser, C.M., Eisen, J.A. & Salzberg, S.L. Microbial gene sequencing. Nature 406, 799–803 (2000).
  Article CAS PubMed Google Scholar
• Lord, C.C. et al. Aggregation and distribution of strains in microparasites. Philos. Trans. R. Soc. Lond. B Biol. Sci. 354, 799–807 (1999).
  Article CAS PubMed PubMed Central Google Scholar
• Basanez, M.G. et al. Density-dependent processes in the transmission of human onchocerciasis—relationship between the numbers of microfilariae ingested and successful larval development in the simuliid vector. Parasitology 110, 409–427 (1995).
  Article PubMed Google Scholar
• Woolhouse, M.E.J., Taylor, L.H. & Haydon, D.T. Population biology of multi-host pathogens. Science 292, 1109–1112 (2001).
  Article CAS PubMed Google Scholar
• Bohannan, B.J.M., Travisano, M. & Lenski, R.E. Epistatic interactions can lower the cost of resistance to multiple consumers. Evolution 53, 292–295 (1999).
  Article PubMed Google Scholar
• Ebert, D. Experimental evolution of parasites. Science 282, 1432–1435 (1998).
  Article CAS PubMed Google Scholar
• Weaver, S.C., Brault, A.C., Kang, W.L. & Holland J.J. Genetic and fitness changes accompanying adaptation of an arbovirus to vertebrate and invertebrate cells. J. Virol. 73, 4316–4326 (1999).
  CAS PubMed PubMed Central Google Scholar
• Davies, N.B. & de L. Brooke, M. An experimental study of co-evolution between the cuckoo, Cuculus canorus, and its hosts. II Host egg markings, chick discrimination and general discussion. J. Anim. Ecol. 58, 225–236 (1989).
  Article Google Scholar
• Schneider-Schaulies, J. Cellular receptors for viruses: links to tropism and pathogenesis. J. Gen. Virol. 81, 1413–1429 (2000).
  Article CAS PubMed Google Scholar
• Woolhouse, M.E.J. Population biology of emerging and re-emerging pathogens. Trends Microbiol. 10, S3–S7 (2002).
  Article CAS PubMed Google Scholar
• Baranowski, E., Ruiz-Jarabo, C.M. & Domingo, E. Evolution of cell recognition by viruses. Science 292, 1102–1105 (2001).
  Article CAS PubMed Google Scholar
• Stebbins, C.E. & Galan, J.E. Structural mimicry in bacterial virulence. Nature 412, 701–705 (2001).
  Article CAS PubMed Google Scholar
• Gilbert, S.C. et al. Association of malaria parasite population structure, HLA, and immunological antagonism. Science 279, 1173–1177 (1998).
  Article CAS PubMed Google Scholar
• Slatkin, M. & Rannala, B. Estimating allele age. Ann. Rev. Genomics Hum. Genet. 1, 225–249 (2000).
  Article CAS Google Scholar
• Altschuler, E.L. Plague as HIV vaccine adjuvant. Med. Hypotheses 54, 1003–1004 (2000).
  Article CAS PubMed Google Scholar
• Schliekelman, P., Garner, C. & Slatkin, M. Natural selection and resistance to HIV. Nature 411, 545–546 (2001).
  Article CAS PubMed Google Scholar
• Berger, E.A., Murphy, P.M. & Farber, J.M. Chemokine receptors as HIV-1 co-receptors: roles in viral entry, tropism and disease. Ann. Rev. Immunol. 17, 657–700 (1999).
  Article CAS Google Scholar
• Moore, C.B. et al. Evidence of HIV-1 adaptation to HLA-restricted immune responses at a population level. Science 296, 1439–1443 (2002).
  Article CAS PubMed Google Scholar
• Day, C.L. et al. Relative dominance of epitope-specific cytotoxic T-lymphocyte responses in human immunodeficiency virus type 1-infected persons with shared HLA alleles. J. Virol. 75, 6279–6291 (2001).
  Article CAS PubMed PubMed Central Google Scholar
• Goulder, P.J.R. et al. Patterns of immunodominance in HIV-1-specific cytotoxic T lymphocyte responses in two human histocompatibility leukocyte antigens (HLA)-identical siblings with HLA-A*0201 are influenced by epitope mutation. J. Exp. Med. 185, 1423–1433 (1997).
  Article CAS PubMed PubMed Central Google Scholar
• Altfeld, M. et al. Cellular immune responses and viral diversity in individuals treated during acute and early HIV-1 infection. J. Exp. Med. 193, 169–180 (2001).
  Article CAS PubMed PubMed Central Google Scholar
• Bergelson, J., Kreitman, M., Stahl, E.A. & Tian, D.C. Evolutionary dynamics of plant _R_-genes. Science 292, 2281–2285 (2001).
  Article CAS PubMed Google Scholar
• Klein, J., Satta, Y., Ohuigin, C. & Takahata, N. The molecular descent of the major histocompatibility complex. Ann. Rev. Immunol. 11, 269–295 (1993).
  Article CAS Google Scholar
• Vogel, T.U. et al. Major histocompatibility complex class I genes in primates: coevolution with pathogens. Immunol. Rev. 167, 327–337 (1999).
  Article CAS PubMed Google Scholar
• Apanius, V., Penn, D., Slev, P.R., Ruff, L.R. & Potts, W.K. The nature of selection on the major histocompatibility complex. Crit. Rev. Immunol. 17, 179–224 (1997).
  Article CAS PubMed Google Scholar
• Yang, Z. & Bielawski, J.P. Statistical methods for detecting molecular adaptation. Trends Ecol. Evol. 15, 496–503 (2000).
  Article CAS PubMed PubMed Central Google Scholar
• Vartanian, J.P., Henry, M. & Wain-Hobson, S. Simulating pseudogene evolution in vitro: determining the true number of mutations in a lineage Proc. Natl Acad. Sci. USA 98, 13172–13176 (2001).
  Article CAS PubMed PubMed Central Google Scholar
• Domingo, E., Webster, R.G. & Holland, J. Origin and Evolution of Viruses (Academic Press, San Diego, 1999).
  Google Scholar
• Bush, R.M. et al. Predicting the evolution of human influenza A. Science 286, 1921–1925 (1999).
  Article CAS PubMed Google Scholar
• International SNP Map Working Group. A map of human genome sequence variation containing 1.42 million single-nucleotide polymorphisms. Nature 409, 928–933 (2001).
• Domingo, E., Biebricher, C., Eigen, M. & Holland, J.J. Quasispecies and RNA Virus Evolution: Principles and Consequences (Landes Bioscience, Landes, 2001).
  Google Scholar
• Charlesworth, D., Charlesworth, B. & McVean, G. Genome sequences and molecular evolution, a two-way interaction. Trends Ecol. Evol. 16, 235–242 (2001).
  Article CAS PubMed Google Scholar
• Gandon, S., Mackinnon, M.J., Nee, S. & Read, A.F. Imperfect vaccines and the evolution of pathogen virulence. Nature 414, 751–756 (2001).
  Article CAS PubMed Google Scholar
• Woolhouse, M.E.J. & Dye, C. (eds) Population biology of emerging and re-emerging pathogens. Philos. Trans. R. Soc. Lond. B Biol. Sci. 356, 979–1106 (2001).
  Article Google Scholar
• Crow, J.F. & Kimura, M. An Introduction to Population Genetics Theory (Harper and Row, New York, 1970).
  Google Scholar
• Webster, J.P. & Woolhouse, M.E.J. Heritability and strain specificity in compatibility between snail intermediate hosts and their parasitic schistosomes. Evolution 52, 1627–1634 (1998).
  Article CAS PubMed Google Scholar
• Oppliger, A., Vernet, R. & Baez, M. Parasite local maladaptation in the Canarian lizard Gallotia galloti (Reptilia: Lacertidae) parasitized by haemogregarian blood parasite. J. Evol. Biol. 12, 951–955 (1999).
  Article Google Scholar
• Cao, W. et al. Identification of α-dystroglycan as a receptor for lymphocytic choriomeningitis virus and Lassa fever virus. Science 282, 2079–1081 (1998).
  Article CAS PubMed Google Scholar
• Overbaugh, J. & Bangham, C.R.M. Selection forces and constraints on retroviral sequence variation. Science 292, 1106–1109 (2001).
  Article CAS PubMed Google Scholar
• Sorci, G., Moller, A.P. & Boulinier, T. Genetics of host–parasite interactions. Trends Ecol. Evol. 12, 196–200 (1997).
  Article CAS PubMed Google Scholar
• Helmby, H., Kullberg, M. & Troye-Blomberg, M. Altered immune responses in mice with concomitant Schistosoma mansoni and Plasmodium chabaudi infections. Infect. Immun. 66, 5167–5174 (1998).
  CAS PubMed PubMed Central Google Scholar
• Allen, J.E. & Maizels, R.M. Th1-Th2: reliable paradigm or dangerous dogma? Immunol. Today 18, 387–392 (1997).
  Article CAS PubMed Google Scholar
• Sullivan, J.T. et al. Schistosoma mansoni, NIH-SM-PR-2 strain, in non-susceptible _Biomphalaria glabrata_—protection by Echinostoma paraensei. Int. J. Parasitol. 11, 481–484 (1981).
  Article Google Scholar
• Stosor, V. & Wolinsky, S. GB virus C and mortality from HIV infection. N. Engl. J. Med. 345, 761–762 (2001).
  Article CAS PubMed Google Scholar
• Donnenberg, M.S. Pathogenic strategies of enteric bacteria. Nature 406, 768–774 (2000).
  Article CAS PubMed Google Scholar
• Pellizzari, A., Pang, H. & Lingwood, C.A. Binding of verocytotoxin 1 to its receptor is influenced by differences in receptor fatty acid content. Biochemistry 31, 1363–1370 (1992).
  Article CAS PubMed Google Scholar
• McFadden, G. Getting to know you—viruses meet CD40 ligand. Nature Med. 1, 408–409 (1995).
  Article CAS PubMed Google Scholar
• Faure, S. et al. Rapid progression to AIDS in HIV+ individuals with a structural variant of the chemokine receptor CX(3)CR1. Science 287, 2274–2277 (2000).
  Article CAS PubMed Google Scholar