Quantitative Methods for Ecology and Evolutionary Biology (Cambridge, 2006) - References pdf

References Abrahams, M. V. and Healey, M. C. (1993). Some consequences of variation in vessel density: a manipulative field experiment. Fisheries Research, 15, 315–322. Abramowitz, M. and Stegun, I. (1974). Handbook of Mathematical Functions. New York: Dover Publications. Acosta, C. A. (2002). Spatially explicit dispersal dynamics and equilibrium popu- lation sizes in marine harvest refuges. ICES Journal of Marine Science, 59, 458–468. Ade, R. (1989). The Trout and Salmon Handbook. New York: Facts on File. Adkison, M. D. and Zhenming, S. (2001). A comparison of salmon escapement estimates using a hierarchical Bayesian approach versus separate maximum likelihood estimation of each year’s return. Canadian Journal of Fisheries and Aquatic Sciences, 58, 1663–1671. Adler, F. R. (1993). Migration alone can produce persistence of host–parasitoid models. American Naturalist, 141, 642–650. Ahmed, A. M., Baggot, S. L., Maingon, R. and Hurd, H. (2002). The costs of mounting an immune response are reflected in the reproductive fitness of the mosquito Anopheles gambiae. Oikos, 97, 371–377. Allen, J. E. and Maizels, R. M. (1997). Th1-Th2: reliable paradigm or dangerous dogma? Immunology Today, 18, 387–392. Alpatov, W. W. and Pearl, R. (1929). Experimental studies on the duration of life. XII. Influence of temperature during the larval period and adult life on the duration of the life of the imago of drosophila melanogaster. American Naturalist, 63, 37–67. Anand, P. (2002). Decision-making when science is ambiguous. Science , 295, 1839. Anderson, J. J. (1992). A vitality-based stochastic model for organism survival. In D. L. DeAngelis and L. J. Gross (editors) Individual-Based Models and Approaches in Ecology. New York: Chapman and Hall, pp. 256–277. Anderson, J. J. (2000). A vitality-based model relating stressors and environmental properties to organismal survival. Ecological Monographs, 70, 445–470. Anderson, L. G. (1991a). Efficient policies to maintain total allowable catches in ITQ fisheries with at-sea processing. Land Economics, 67, 141–157. 323 Anderson, L. G. (1991b). A note on market power in ITQ fisheries. Journal of Environmental Economics and Management, 21, 291–296. Anderson, R. M. (editor) (1982). Population Dynamics of Disease: Theory and Applications. London: Chapman and Hall. Anderson, R. M. (1991). The Kermack–McKendrick epidemic threshold theorem. Bulletin of Mathematical Biology, 53, 3–32. Anderson, R. M. and May, R. M. (1978). Regulation and stability of host–parasite population interactions. I Regulatory processes. Journal of Animal Ecology, 47, 219–247. Anderson, R. M. and May, R. M. (1991). Infectious Diseases of Humans. Dynamics and Control. Oxford: Oxford University Press. Anonymous, (2002). The State of the World Fisheries and Aquaculture. Rome: Food and Agriculture Organization of the United Nations. Anscombe, F. J. (1950). Sampling theory of the negative binomial and logarithmic series distributions. Biometrika, 37, 358–382. Antia, R. and Lipsitch, M. (1997). Mathematical models of parasite responses to host immune defenses. Parasitology, 115, S115–S167. Antia, R., Levin, B. R. and May, R. M. (1994). Within-host population dynamics and the evolution and maintenance of microparasite virulence. American Naturalist, 144, 457–472. Antia, R., Nowak, M. A. and Anderson, R. M. (1996). Antigenic variation and the within-host dynamics of parasites. Proceedings of the National Academy of Sciences, 93, 985–989. Apollonio, S. (1994). The use of ecosystem characteristics in fisheries management. Reviews in Fisheries Science, 2, 157–180. Apostolaki, P., Milner-Gulland, E. J., McAllister, M. K. and Kirkwood, G. P. (2002). Modelling the effects of establishing a marine reserve for mobile species. Canadian Journal of Fisheries and Aquatic Sciences, 59, 405–415. Arnold, L. (1973). Stochastic Differential Equations. New York: John Wiley and Sons. Arnold, L. (1974). Stochastic Differential Equations: Theory and Applications. London: Wiley Interscience. Austin, D. J., White, N. J. and Anderson, R. M. (1998). The dynamics of drug action on the within-host population growth of infectious agents: melding pharmacokinetics with pathogen population dynamics. Journal of Theoretical Biology, 194, 313–339. Babcock, E. A. and Pikitch, E. K. (2000). A dynamic programming model of fishing strategy choice in a multispecies trawl fishery with trip limits. Canadian Journal of Fisheries and Aquatic Sciences, 57, 357–370. Bailey, N. T. J. (1953). The total size of a general stochastic epidemic. Biometrika, 40, 177–185. Bakun, A. (1996). Patterns in the Ocean. Oceanic Process and Marine Population Dynamics. La Jolla, CA: California Sea Grant. Barlow, N. D. (1993). A model for the spread of bovine Tb in New Zealand possum populations. Journal of Applied Ecology, 30, 156–164. Barlow, N. D. (2000). Non-linear transmission and simple models for bovine tuberculosis. Journal of Animal Ecology, 69, 703–713. 324 References Barnard, G. A. and Bayes, T. (1958). Studies in the history of probability and statistics. IX. Thomas Bayes’s essay towards solving a problem in the doctrine of chances. Biometrika, 45, 293–315. Barrowman, N. J. and Myers, R. A. (2000). Still more spawner-recruitment curves: the hockey stick and its generalizations. Canadian Journal of Fisheries and Aquatic Sciences, 57, 665–676. Bartlett, B. R. (1964). Patterns in the host-feeding habit of adult parasite hymenoptera. Annals of the Entomological Society of America, 57, 344–350. Bartlett, M. S. (1957). Measles periodicity and community size. Journal of the Royal Statistical Society A, 120, 48–70. Basar, T. and Olsder, G. J. (1982). Dynamic Noncooperative Game Theory. New York: Academic Press. Bazykin, A. D. (1998). Nonlinear Dynamics of Interacting Populations. Singapore and River Edge, NJ: World Scientific. Beamish, R. J. (2002). Obituary. William Edwin Ricker OC, FRSC, LLD, DSc. Journal of Fish Biology, 60, 285–287. Begon, M., Bowers, R. G., Kadianakis, N. and Hodgkinson, D. E. (1992). Disease and community structure: the importance of host self-regulation in a host–host pathogen model. The American Naturalist, 139, 1131–1150. Begon, M., Feore, S. M., Brown, K., et al. (1998). Population and transmission dynamics of cowpox in bank voles: testing fundamental assumptions. Ecology Letters, 1, 82–86. Begon, M., Hazel, S. M., Baxby, D., et al. (1999). Transmission dynamics of a zoonotic pathogen within and between wildlife host species. Proceedings of the Royal Society of London,B266, 1939–1945. Behnke, R. J. (1992). Native Trout of Western North America. Bethesda, MD: American Fisheries Society. Behnke, R. J. (2002). Trout and Salmon of North America. New York: Free Press. Belew, R. K. and Mitchell, M. (editors) (1996). Adaptive Individual in Evolving Populations: Models and Algorithms. Reading, MA: Addison Wesley. Bellman, R. E. (1984). Eye of the Hurricane: An Autobiography. Singapore: World Scientific. Bellman, R. and Cooke, K. L. (1963). Differential-Difference Equations. New York: Academic Press. Bellows, T. S. and Hassell, M. P. (1988). The dynamics of age-structured host- parasitoid interactions. Journal of Animal Ecology, 57, 259–268. Bender, C. M. and Orszag, S. A. (1978). Advanced Mathematical Methods for Scientists and Engineers. New York: McGraw Hill. Berger, R., Quack, M. and Tschumper, G. S. (2000). Electroweak quantum chemistry for possible precursor molecules in the evolution of biomolecular homochirality. Helvetica Chimica Acta, 83, 1919–1950. Bernoulli, D. (1738/1954). Exposition of a new theory on the measurement of risk. Economietrica, 22, 23–36. Bertsekas, D. P (1976). Dynamic Programming and Stochastic Control. New York: Academic Press. References 325 Bertsekas, D. P. (1995). Dynamic Programming and Optimal Control. Volumes One and Two. Belmont, MA: Athena Scientific. Beverton, R. J. H. (1992). Patterns of reproductive strategy parameters in some marine teleost fishes. Journal of Fish Biology, 41 (Supplement B), 137–160. Beverton, R. J. H. (1994). Notes on the Use of Theoretical Models in the Study of the Dynamics of Exploited Fish Populations. From the Lectures of R. J. H. Beverton presented at U.S. Fishery Laboratory, Beaufort, North Carolina, Bureau of Commercial Fisheries 1951. Beaufort, NC: Marine Fisheries Section, American Fisheries Society. Beverton, R. J. H. and Holt, S. J. (1957). On the Dynamics of Exploited Fish Populations. London: HMSO. Beverton, R. J. H. and Holt, S. J. (1959). A review of the lifespans and mortality rates of fish in nature, and their relation to growth and other physiological characteristics. In G. E. W. Wolstenholme and M. O’Connor (editors) CIBA Foundation Colloquia on Ageing. London: CIBA Foundation, pp. 142–174. Bharucha-Reid, A. T. (1997 (1960)). Elements of Stochastic Processes. New York: Dover. Bjorksted, E. P. (2000). Stock–recruitment relationships for life cycles that exhibit concurrent density dependence. Canadian Journal of Fisheries and Aquatic Sciences, 57, 459–467. Bjørnstad, O. N. and Grenfell, B. T. (2001). Noisy clockwork: time series analysis of population fluctuations in animals. Science, 293, 638–643. Black, F. and Scholes, M. (1972). The pricing of options and corporate liabilities. The Journal of Political Economy, 81, 637–654. Blackmond, D. G., McMillan, C. R., Ramdeechul, S., Schorm, A. and Brown, J. M. (2001). Origins of asymmetric amplifications in autocatalytic alkylzinc additions. Journal of the American Chemical Society, 123, 10 103–10 104. Bleistein, N. and Handelsman, R. A. (1975). Asymptotic Expansions of Integrals. New York: Holt, Rinehart and Winston. Blythe, S. P., Nisbet, R. M. and Gurney, W. S. C. (1984). The dynamics of population models with distributed maturation periods. Theoretical Population Biology, 25, 289–311. Bonsall, M. P. and Hastings, A. (2004). Demographic and environmental stochasticity in predator–prey metapopulation dynamics. Journal of Animal Ecology, 73, 1043–1055. Bonsall, M. B., Hassell, M. P. and Asefa, G. (2002). Ecological trade-offs, resource partitioning, and coexistence in a host–parasitoid assemblage. Ecology, 83, 925–934. Boreman, J., Nakashima, B. S., Wilson, J. A. and Kendall, R. L. (editors) (1997). Northwest Atlantic Groundfish: Perspectives on a Fishery Collapse. Bethesda, MD: American Fisheries Society. Botsford, L. W., Hastings, A. and Gaines, S. D. (2001). Dependence of sustainability on the configuration of marine reserves and larval dispersal distance. Ecology Letters, 4, 144–150. Bouloux, C., Langlais, M. and Silan, P. (1998). A marine host-parasite model with direct biological cycle and age structure. Ecological Modelling, 107, 73–86. 326 References Bradford, M., Myers, R. A. and Irvine, J. R. (2000). Reference points for coho salmon (Oncorhynchus kisutch) harvest rates and escapement goals based on freshwater production. Canadian Journal of Fisheries and Aquatic Sciences, 57, 677–686. Brenner, S. (1999). Theoretical biology in the third millennium. Philosophical Transactions of the Royal Society of London, Series B, Biological Sciences, 354, 1963–1965. Briggs, C. J. (1993). Competition among parasitoid species on a stage-structure host and its effect on host suppression. American Naturalist, 141, 372–397. Briggs, C. J. and Hoopes, M. F. (2004). Stabilizing effects in spatial parasitoid-host and predator-prey models: a review. Theoretical Population Biology, 65, 299–315. Brinkman, H. C. (1956). Brownian motion in a field of force and the diffusion theory of chemical reactions, II. Physica, 22, 149–155. Brodziak, J. K. T., Overholtz, W. J. and Rago, P. J. (2001). Does spawning stock affect recruitment of New England groundfish. Canadian Journal of Fisheries and Aquatic Sciences, 58, 306–318. Brookhart, M. A., Hubbard, A. E., van der Laan, M. J., Colford Jr., J. M. and Eisenberg, J. N. S. (2002). Statistical estimation of parameters in a disease transmission model: analysis of a Cryptosporidium outbreak. Statistics in Medicine, 21, 3627–3638. Brooks, E. N. (2002). Using reproductive values to define optimal harvesting for multisite density-dependent populations: example with a marine reserve. Canadian Journal of Fisheries and Aquatic Sciences, 59, 875–885. Brown, R. (1828). A brief account of microscopical observations made in the months of June, July, and August, 1827, on the particles contained in the pollen of plants; and on the general existence of active molecules in organic and inorganic bodies. The Philosophical Magazine, 4, 161–173. Brunet, L. R., Dunne, D. W. and Pearce, E. J. (1998). Cytokine interaction and immune response during Schistosoma mansoni infection. Parasitology Today, 14, 422–427. Bucklew, J. A. (1990). Large Deviation Techniques in Decision, Simulation, and Estimation. New York: Wiley Interscience. Burnham, K. P. and Anderson, D. R. (1998). Model Selection and Inference. A Practical Information–Theoretic Approach. New York: Springer Verlag. Bynum, W. F. (2002). Mosquitoes bite more than once. Science, 295, 47. Caddy, J. F. (2002). Limit reference points, traffic lights, and holistic approaches to fisheries management with minimal stock assessment input. Fisheries Research, 56, 133–137. Calder, W. A. I. (1984). Size, Function, and Life History. Cambridge, MA: Harvard University Press. Callaway, D. S. and Perelson, A. S. (2002). HIV-1 infection and low steady state viral loads. Bulletin of Mathematical Biology, 64, 29–64. Caraco, T., Duryea, M. C., Glavanakov, S., Maniatty, W. and Szymanski, B. K. (2001). Host spatial heterogeneity and the spread of vector-borne infection. Theoretical Population Biology, 59, 185–206. References 327 Cardinale, M. and Arrhenius, F. (2000). Decreasing weight-at-age of Atlantic herring (Clupea harengus) from the Baltic Sea between 1986 and 1996: a statistical analysis. ICES Journal of Marine Science, 57, 882–893. Cardinale, M. and Modin, J. (1999). Changes in size-at-maturity of Baltic cod (Gadus morhua) during a period of large variations in stock size and environmental conditions. Fisheries Research, 41, 285–295. Carey, J. R. (2001). Insect biodemography. Annual Review of Entomology, 46, 79–110. Carey, J. R. (2003). Longevity. The Biology and Demography of Life Span. Princeton, NJ: Princeton University Press. Carey, J. R. and Judge, D. S. (2001). Principles of biodemography with special reference to human longevity. Population: An English Selection, 13, 9–40. Carpenter, S. R., Ludwig, D. and Brock, W. A. (1999). Management of eutrophication for lakes subject to potentially irreversible change. Ecological Applications, 9, 751–771. Carslaw, H. S. and Jaeger, J. C. (1959). Conduction of Heat in Solids. Oxford: Oxford University Press. Catteruccia, F., Godfray, C. and Crisanti, A. (2003). Impact of genetic manipulation of the fitness of Anopheles stephensi mosquitoes. Science, 299, 1225–1227. Caughley, G. (1994). Directions in conservation biology. Journal of Animal Ecology, 63, 215–244. Chapman, R. N. (1928). The quantitative analysis of environmental factors. Ecology, 9, 111–122. Charles, A. T. (1992). Fishery conflicts. A unified framework. Marine Policy, 16, 379–393. Charles, S., Morand, S., Chasse, J. L. and Auger, P. (2002). Host patch selection induced by parasitism: basic reproduction ratio R 0 and optimal virulence. Theoretical Population Biology, 62, 97–109. Charlesworth, B. (1990). Optimization models, quantitative genetics, and mutation. Evolution, 44, 520–538. Charlesworth, B. (1994). Evolution in Age-Structured Populations. Cambridge: Cambridge University Press. Charnov, E. (1993). Life History Invariants. New York: Oxford University Press. Charnov, E. L. (1976). Optimal foraging, the marginal value theorem. Theoretical Population Biology, 9, 129–136. Charnov, E. L. and Skinner, S. W. (1984). Evolution of host selection and clutch size in parasitoid wasps. Florida Entomologist, 67, 5–21. Charnov, E. L. and Skinner, S. W. (1985). Complementary approaches to the understanding of parasitoid oviposition decisions. Environmental Entomology, 14, 383–391. Charnov, E. L. and Skinner, S. W. (1988). Clutch size in parasitoids: the egg production rate as a constraint. Evolutionary Ecology, 2, 167–174. Chattopadhyay, J. and Sarkar, R. R. (2003). Chaos to order: preliminary experiments with a population dynamics models of three trophic levels. Ecological Modelling, 163, 45–50. Cheever, J. (1978). The Stories of John Cheever. New York: Alfred A. Knopf. 328 References Chen, D. G., Irvine, J. R. and Cass, A. J. (2002). Incorporating Allee effects in fish stock–recruitment models and applications for determining reference points. Canadian Journal of Fisheries and Aquatic Sciences, 59, 242–249. Chen, Y., Jiao, Y. and Chen, L. (2003). Developing robust frequentist and Bayesian fish stock assessment methods. Fish and Fisheries, 4, 105–120. Christensen, V., Gue´nette, S., Heymans, J. J., et al. (2003). Hundred-year decline of North Atlantic predatory fishes. Fish and Fisheries, 4, 1–24. Clark, C. W. (1973). The economics of overexploitation. Science, 181, 630–634. Clark, C. W. (1985). Bioeconomic Modelling and Fisheries Management. New York: Wiley Interscience. Clark, C. W. (1990). Mathematical Bioeconomics, 2nd edn. New York: Wiley Interscience. Clark, C. W. (2006). The Worldwide Crisis in Fisheries. New York: Cambridge University Press. Clark, C. W. and Mangel, M. (1979). Aggregation and fishery dynamics: a theoretical study of schooling and the purse seine tuna fisheries. Fishery Bulletin, 77, 317–337. Clark, C. W. and Mangel, M. (2000). Dynamic State Variable Models in Ecology. Methods and Applications. New York: Oxford University Press. Clark, W. G. (1991). Groundfish exploitation rates based on life history parameters. Canadian Journal of Fisheries and Aquatic Sciences, 48, 734–750. Clark, W. G. (2002). F35% revisited ten years later. North American Journal of Fisheries Management, 22, 251–257. Cochrane, K. L. (2000). Reconciling sustainability, economic efficiency and equity in fisheries: the one that got away? Fish and Fisheries, 1, 3–21. Codec¸o, C. T. (2000). Endemic and epidemic dynamics of cholera: the role of the aquatic reservoir. BMC Infectious Diseases, 1, 1–14. Cohen, D. (1966). Optimizing reproduction in a randomly varying environment. Journal of Theoretical Biology, 12, 119–129. Cohen, J. E. (1995). Unexpected dominance of high frequencies in chaotic nonlinear population models. Nature, 378, 610–612. Cole-King, A. (1993). Marine conservation: a new policy area. Marine Policy, May 1993, 171–185. Comins, H. N. and Hassell, M. P. (1979). The dynamics of optimally foraging predators and parasitoids. Journal of Animal Ecology, 48, 335–351. Comins, H. N., Hassell, M. P. and May, R. M. (1992). The spatial dynamics of host-parasitoid systems. Journal of Animal Ecology, 61, 735–748. Congdon, P. (2001). Bayesian Statistical Modelling. New York: John Wiley and Sons. Conover, D. O. and Munch, S. B. (2002). Sustaining fisheries yields over evolutionary time scales. Science, 297, 94–96. Cook, R. M. and Hubbard, S. F. (1977). Adaptive searching strategies in insect parasites. Journal of Animal Ecology, 46, 115–125. Cooper, A. B., Hilborn, R. and Unsworth, J. W. (2003). An approach for population assessment in the absence of abundance indices. Ecological Applications, 13, 814–828. Cootner, P. H. (editor) (1964). The Random Character of Stock Market Prices. Cambridge, MA: MIT Press. References 329 Corkett, C. J. (2002). Fish stock assessment as a non-falsifiable science: replacing an inductive and instrumental view with a critical rational one. Fisheries Research, 56, 117–123. Costantino, R. F. and Desharnais, R. A. (1991). Population Dynamics and the Tribolium Model: Genetics and Demography. New York: Springer Verlag. Cote, I. M., Mosqueira, I. and Reynolds, J. D. (2001). Effects of marine reserve characteristics on the protection of fish populations: a meta-analysis. Journal of Fish Biology, 59 (Supplement A), 178–179. Cottingham, K. L., Chiavelli, D. A. and Taylor, R. K. (2003). Environmental microbe and human pathogen: the ecology and microbiology of Vibrio cholerae. Frontiers in Ecology and the Environment, 1, 80–86. Council, N. R. (editor) (2001). Marine Protected Areas. Tools for Sustaining Ocean Ecosystems. Washington, DC: National Academy Press. Courant, R. and Hilbert, D. (1962). Methods of Mathematical Physics. Volume II. Partial Differential Equations. New York: Wiley Interscience. Crank, J. (1975). The Mathematics of Diffusion, 2nd edn. Oxford: Oxford University Press. Crawley, M. J. (2002). Statistical Computing. An Introduction to Data Analysis Using S-Plus. New York: Wiley. Crow, J. F. and Kimura, M. (1970). An Introduction to Population Genetics Theory. Minneapolis, MN: Burgess Publishing Company. Crowder, L. B. and Murawski, S. A. (1998). Fisheries bycatch: Implications for management. Fisheries, 23, 8–17. Daskalov, G. M. (2002). Overfishing drives a trophic cascade in the Black Sea. Marine Ecology – Progress Series, 225, 53–63. Davies, R. (1992). Reading and Writing. Salt Lake City: University of Utah Press. Davis, H. T. (1962). Introduction to Nonlinear Differential and Integral Equations. New York: Dover. Davis, P. J. and Gregerman, R. I. (1995). Occasional Notes: Parse Analysis II: A revised model that accounts for phi. The New England Journal of Medicine, 332, 965–966. Day, T. (2001). Parasite transmission models and the evolution of virulence. Evolution, 55, 2389–2400. Day, T. (2002a). The evolution of virulence in vector-borne and directly transmitted parasites. Theoretical Population Biology, 62, 199–213. Day, T. (2002b). On the evolution of virulence and the relationship between various measures of mortality. Proceedings of the Royal Society of London,B269, 1317–1323. Day, T. (2002c). Virulence evolution via host exploitation and toxin production in spore-producing pathogens. Ecology Letters, 5, 471–476. Day, T. (2003). Virulence evolution and the timing of disease life-history events. Trends in Ecology and Evolution, 18 , 113–118. Day, T. and Proulx, S. (2004). A general theory for the evolutionary dynamics of virulence. American Naturalist, 164, E40–E63. de Bach, P. (1943). The importance of host-feeding by adult parasites in the reduction of host populations. Journal of Economic Entomology, 36, 647–658. 330 References de Bruijn, N. G. (1981). Asymptotic Methods in Analysis. New York: Dover Publications. de Grey, A. D. N. J. (2003a). An engineer’s approach to the development of real anti-aging medicine. Science SAGE KE 2003 (8 January 2003). de Grey, A. D. N. J. (2003b). Overzealous maximum-likelihood fitting falsely convicts the slope heterogeneity hypothesis. Experimental Gerontology, 38, 921–923. de Koeijer, A., Diekmann, O. and Reijnders, P. (1998). Modelling the spread of phocine distemper virus among harbour seals. Bulletin of Mathematical Biology, 60, 585–596. de Koeijer, A., Heesterbeek, H., Schreuder, B., et al. (2004). Quantifying BSE control by calculating the basic reproduction ratio R0 for the infection among cattle. Journal of Mathematical Biology, 48, 1–22. de Roode, J. C. and Read, A. F. (2003). Evolution and ecology, after the malaria genomes. Trends in Ecology and Evolution, 18, 60–61. de Valpine, P. and Hastings, A. (2002). Fitting population models incorporating process noise and observation error. Ecological Monographs, 72, 57–76. DeAngelis, D. L. and Gross, L. J. (1992). Individual-Based Models and Approaches in Ecology. New York: Chapman and Hall. DeGroot, M. H. (1970). Optimal Statistical Decisions. New York: McGraw-Hill. Delbru ¨ ck, M. (1940). Statistical fluctuations in autocatalytic reactions. Journal of Chemical Physics, 8, 120–124. Demetrius, L. (2001). Mortality plateaus and directionality theory. Proceedings of the Royal Society of London,B268, 2029–2037. Denney, N. H., Jennings, S. and Reynolds, J. D. (2002). Life-history correlates of maximum population growth rates in marine fishes. Proceedings of the Royal Society of London,B269, 2229–2237. Dennis, B., Munholland, P. L. and Scott, J. M. (1991). Estimation of growth and extinction parameters for endangered species. Ecological Monographs, 61, 115–143. Dennis, B. and Otten, M. R. M. (2000). The joint effects of density dependence and rainfall on abundance of San Joaquin kit fox. Journal of Wildlife Management, 64, 388–400. Dick, E. J. (2004). Beyond ‘lognormal versus gamma’: discrimination among error distributions for generalized linear models. Fisheries Research, 70, 351–366. Dieckmann, U., Metz, J. A. J., Sabelis, M. W. and Sigmund, K. (2002). Adaptive dynamics of infectious diseases. In Pursuit of Virulence Management. Cambridge: Cambridge University Press. Diserud, O. H. and Engen, S. (2000). A general and dynamic species abundance model, embracing the lognormal and gamma models. The American Naturalist, 155, 497–511. Dixit, A. K. and Pindyck, R. S. (1994). Investment Under Uncertainty. Princeton, NJ: Princeton University Press. Dobson, A. and Foutopoulos, J . (2001) . Emerg ing infe ctious path ogens of wild- life. Philosophical Transactio ns of the Royal Society London,B356, 1001–1012. References 331 Dobson, A. P. and Hudson, P. J. (1992). Regulation and stability of a free-living host–parasite system: Trichostrongylus tenius in red grouse. II. Population models. Journal of Animal Ecology, 61, 487–498. Dorn, M. W. (2002). Advice on west coast rockfish harvest rates from Bayesian meta-analysis of stock–recruit relationships. North American Journal of Fisheries Management, 22, 280–300. Dovers, S. R. and Handmer, J. W. (1995). Ignorance, the precautionary principle, and sustainability. Ambio, 24, 92–97. Dovers, S. R., Norton, T. W. and Handmer, J. W. (1996). Uncertainty, ecology, sustainability and policy. Biodiversity and Conservation, 5, 1143–1167. Driessen, G. and Hemerik, L. (1992). The time and egg budget of Leptopilina clavipes, a parasitoid of Drosophila. Ecological Entomology, 17, 17–27. Dubins, L. E. and Savage, L. J. (1976). Inequalities for Stochastic Processes: How to Gamble if You Must. New York: Dover Publications. Dwyer, G. and Elkinton, J. S. (1993). Using simple models to predict virus epizootics in gypsy moth populations. Journal of Animal Ecology, 62, 1–11. Dyson, F. (1999). The Sun, the Genome, and the Internet. New York: Oxford University Press. Earn, D. J. D., Dushoff, J. and Levin, S. A. (2002). Ecology and evolution of the flu. Trends in Ecology and Evolution, 17, 334–340. Easterling, M. R. and Ellner, S. P. (2000). Dormancy strategies in a random environment: comparing structured and unstructured models. Evolutionary Ecology Research, 2, 387–407. Ebert, D. and Bull, J. J. (2003). Challenging the trade-off model for the evolution of virulence: is virulence management feasible? Trends in Microbiology, 11, 15–20. Edelstein-Keshet, L. (1988). Mathematical Models in Biology. New York: Random House. Edgar, G. and Barrett, N. S. (1999). Effects of the declaration of marine reserves on Tasmanian reef fishes, invertebrates and plants. Journal of Experimental Marine Biology and Ecology, 242, 107–144. Edwards, A. W. F. (1992). Likelihood, expanded edition. Baltimore: Johns Hopkins University Press. Edwards, R. L. (1954). The effect of diet on egg maturation and resorption in Mormoniella vitripennis (Hymenoptera, Pteromalidae). Quarterly Journal of Microscopical Science, 95, 459–469. Efron, B. (2005). Bayesians, frequentists, and scientists. Journal of the American Statistical Association, 100, 1–5. Eigen, M. (1996). Prionics or the kinetic basis of prion diseases. Biophysical Chemistry, 63, A1–A18. Einstein, A. (1956). Investigations on the Theory of Brownian Movement. New York: Dover Publications. Einum, S. and Fleming, I. A. (2000). Highly fecund mothers sacrifice offspring survival to maximize fitness. Nature, 405, 565–567. Ellison, A. M. (1996). An introduction to Bayesian inference for ecological research and environmental decision-making. Ecological Applications, 6, 1036–1046. 332 References [...]... Review of Biology, 65, 43–52 Moerland, T S (1995) Temperature: enzyme and organelle In P Hochackha and T P Mommsen (editors) Biochemistry and Molecular Biology of Fishes Amsterdam: Elsevier Science B.V 351 352 References Moret, Y and Schmid-Hempel, P (2000) Survival for immunity: the price of immune system activation for bumblebee workers Science, 290, 1166–1167 Morgan, E R., Milner-Gulland, E J.,... 130, 624–635 Lande, R., Engen, S and Saether, B.-E (2003) Stochastic Population Dynamics in Ecology and Conservation Oxford: Oxford University Press Lander, A D (2004) A calculus of purpose PLoS Biology, 2, 0712–0714 Laurenson, M K., Norman, R A., Gilbert, L., Reid, H W and Hudson, P J (2003) Identifying disease reservoirs in complex systems: mountain hares as reservoirs of ticks and louping-ill virus,... Mangel, M (1985) Decision and Control in Uncertain Resource Systems New York: Academic Press Mangel, M (1992) Descriptions of superparasitism by optimal foraging theory, evolutionary stable strategies, and quantitative genetics Evolutionary Ecology, 6, 152–169 Mangel, M (1998) No-take areas for sustainability of harvested species and a conservation invariant for marine reserves Ecology Letters, 1, 87–90... Bayesian inference of phylogenetic trees Bioinformatics, 17, 754–755 Huelsenbeck, J P., Ronquist, F., Nielsen, R and Bollback, J P (2001) Bayesian inference of phylogeny and its impact on evolutionary biology Science, 294, 2310–2314 Hughes, B D (1995) Random Walks and Random Environments Volume 1: Random Walks Oxford: Clarendon Press Hur, K., Kim, J.-I., Choi, S.-I., et al (2002) The pathogenic mechanisms... and Babcock, E A (2001) Using demographic methods to construct Bayesian priors for the intrinsic rate of increase in the Schaefer model and implications for stock rebuilding Canadian Journal of Fisheries and Aquatic Sciences, 58, 1871–1890 McCallum, H., Barlow, N and Hone, J (2001) How should pathogen transmission be modelled? Trends in Ecology and Evolution, 16, 295–300 McClanahan, T R and Kaunda-Arara,... N (2001) Modeling multi-drug chemotherapy: tailoring treatment to individuals Journal of Theoretical Biology, 214, 181–207 Gardner, S N and Agrawal, A A (2002) Induced plant defense and the evolution of counter-defenses in herbivores Evolutionary Ecology Research, 4, 1131–1151 Gardner, S N and Thomas, M B (2002) Costs and benefits of fighting infection in locusts Evolutionary Ecology Research, 4, 109–131... disease Ecology Letters, 6, 797–802 Paddack, M J and Estes, J A (2000) Kelp forest fish populations in marine reserves and adjacent exploited areas of Central California Ecological Applications, 10, 855–870 Pandolfini, B (1989) Chess Openings: Traps and Zaps New York: Simon and Schuster Patterson, K., Cook, R., Darby, C., et al (2001) Estimating uncertainty in fish stock assessment and forecasting Fish and. .. and first-passage-time problems In L M Ricciardi, ed., Lectures in Applied Mathematics and Informatics New York: St Martin’s Press, pp 206–284 Richards, L J and Maguire, J.-J (1998) Recent international agreements and the precautionary approach: new directions for fisheries management science Canadian Journal of Fisheries and Aquatic Sciences, 55, 1545–1552 Rickman, S J., Dulvy, N K., Jennings, S and. .. (2001b) Required reading for (ecological) battles (Review of N Eldredge The Triumph of Evolution and the Failure of Creationism) Trends in Ecology and Evolution, 16, 110 Mangel, M and Beder, J H (1985) Search and stock depletion: theory and applications Canadian Journal of Fisheries and Aquatic Sciences, 42, 150–163 Mangel, M and Clark, C W (1988) Dynamic Modeling in Behavioral Ecology Princeton, NJ:... and Hilborn, R (1994) A Bayesian approach to stock assessment and harvest decision using the sampling/ importance resampling algorithm Canadian Journal of Fisheries and Aquatic Sciences, 51, 2673–2687 McAllister, M K., Starr, P J., Restrepo, V R and Kirkwood, G P (1999) Formulating quantitative methods to evaluate fishery-management systems: what fishery processes should be modelled and what trade-offs . , 295, 1839. Anderson, J. J. (1992). A vitality-based stochastic model for organism survival. In D. L. DeAngelis and L. J. Gross (editors) Individual-Based Models and Approaches in Ecology. New. heterogeneity and the spread of vector-borne infection. Theoretical Population Biology, 59, 185–206. References 327 Cardinale, M. and Arrhenius, F. (2000). Decreasing weight-at-age of Atlantic herring. meta-analysis. Journal of Fish Biology, 59 (Supplement A), 178–179. Cottingham, K. L., Chiavelli, D. A. and Taylor, R. K. (2003). Environmental microbe and human pathogen: the ecology and microbiology