Mechanisms of Speciation—Links

Bibliography

We will link and read many of these during the course
  1. Agapow, P. M., O. R. Bininda-Emonds, K. A. Crandall, J. L. Gittleman, G. M. Mace, J. C. Marshall, and A. Purvis. 2004. The impact of species concept on biodiversity studies. Q Rev Biol 79 (2):161-179.
  2. Agassiz, Louis. 1860. [Review of] On the Origin of species. American Journal of Science and Arts (Ser. 2) 30:142-154.
  3. Ankeny, Rachel A. 2000. Fashioning Descriptive Models in Biology: Of Worms and Wiring Diagrams. Philosophy of Science 67 (Supplement. Proceedings of the 1998 Biennial Meetings of the Philosophy of Science Association. Part II: Symposia Papers):S260-S272.
  4. Arnold, Michael L. 1992. Natural Hybridization as an Evolutionary Process. Annual Review of Ecology and Systematics 23:237-261.
  5. Arnold, Michael L., and Axel Meyer. 2006. Natural hybridization in primates: One evolutionary mechanism. Zoology 109 (4):261-276.
  6. Atran, Scott. 1985. The early history of the species concept: an anthropological reading. In Histoire du Concept D’Espece dans les Sciences de la Vie. Paris: Fondation Singer-Polignac:1-36.
  7. Barrington, D. S., C. H. Haufler, and C. R. Werth. 1989. Hybridization, reticulation, and species concepts in the ferns. American Fern Journal 79 (2):55-64.
  8. Bergman, Thore J., and Jacinta C. Beehner. 2004. Social System of a Hybrid Baboon Group (Papio anubis × P. hamadryas). International Journal of Primatology 25 (6):1313-1330.
  9. Berlocher, Stewart H. 1999. Host race or species? Allozyme characterization of the ‘flowering dogwood fly’, a member of the Rhagoletis pomonella complex. Heredity 83 (Pt 6):652-662.
  10. ———. 2000. Radiation and divergence in the Rhagoletis pomonella species group: inferences from allozymes. Evolution Int J Org Evolution 54 (2):543-557.
  11. Berlocher, Stewart H., and J. L. Feder. 2002. Sympatric speciation in phytophagous insects: moving beyond controversy? Annu Rev Entomol 47:773-815.
  12. Birkhead, T. R., and S. Van Balen. 2007. Unidirectional hybridization in birds: an historical review of bullfinch (Pyrrhula pyrrhula) hybrids. Archives of Natural History 34 (1):20-29.
  13. Braddon-Mitchell, David, and Robert Nola. 2009. Conceptual analysis and philosophical naturalism. Cambridge, MA: MIT Press.
  14. Brigandt, Ingo. 2003. Species pluralism does not imply species eliminativism. Philosophy of Science 70 (5):1305-1316.
  15. Brittan, Gordon G. . 1986. Towards a Theory of Theoretical Objects. PSA: Proceedings of the Biennial Meeting of the Philosophy of Science Association 1986:384-393.
  16. Claridge, Michael F., H. A. Dawah, and M. R. Wilson. 1997. Species: the units of biodiversity. London; New York: Chapman & Hall.
  17. Cortes-Ortiz, Liliana, Thomas F. Duda, Domingo Canales-Espinosa, Francisco Garcia-Orduna, Ernesto Rodriguez-Luna, and Eldredge Bermingham. 2007. Hybridization in Large-Bodied New World Primates. Genetics 176 (4):2421-2425.
  18. Coulson, T., E. A. Catchpole, S. D. Albon, B. J. T. Morgan, J. M. Pemberton, T. H. Clutton-Brock, M. J. Crawley, and B. T. Grenfell. 2001. Age, Sex, Density, Winter Weather, and Population Crashes in Soay Sheep. Science 292 (5521):1528-1531.
  19. Coyne, Jerry A., and H. Allen Orr. 2004. Speciation. Sunderland, Mass.: Sinauer Associates.
  20. Darwin, Charles Robert. 1888. The life and letters of Charles Darwin: including an autobiographical chapter. Edited by F.Darwin. Lond.: Murray.
  21. de Queiroz, Kevin. 2005. Different species problems and their resolution. BioEssays 27 (12):1263-1269.
  22. ———. 2007. Species Concepts and Species Delimitation. Systematic Biology 56 (6):879-886.
  23. Detwiler, Kate M. 2003. Hybridization between Red-tailed Monkeys (Cercopithecus ascanius) and Blue Monkeys (C. mitis) in East African Forests. In The Guenons: Diversity and Adaptation in African Monkeys:79-97.
  24. Dobzhansky, Theodosius. 1951. Genetics and the origin of species. 3rd rev. ed. New York: Columbia University Press.
  25. Dowling, Thomas E., and Carol L. Secor. 1997. The role of hybridization and introgression in the diversification of animals. Annu. Rev. Ecol. Syst. 28:593–619.
  26. Fisher, Ronald Aylmer. 1930. The genetical theory of natural selection. Oxford UK: Clarendon Press,  (rev. ed. Dover, New York, 1958).
  27. French, Steven, and James Ladyman. 2003. Remodelling Structural Realism: Quantum Physics and the Metaphysics of Structure. Synthese 136-141 (1):31-56.
  28. Gannett, Lisa. 2003. Making populations: Bounding genes in space and in time. Philosophy of Science 70 (5):989-1001.
  29. Gavrilets, Sergey. 2004. Fitness landscapes and the origin of speciesMonographs in population biology; v. 41. Princeton, N.J.; Oxford, England: Princeton University Press.
  30. Gayon, Jean. 1996. The individuality of the species: A Darwinian theory? – from Buffon to Ghiselin, and back to Darwin. Biology and Philosophy 11:215-244.
  31. Ghiselin, Michael T. 1969. The triumph of the Darwinian method. Berkeley: University of California Press.
  32. Godfrey-Smith, Peter. 2009. Darwinian populations and natural selection. Oxford: Oxford University Press.
  33. Gould, Stephen Jay, and Elisabeth A. Lloyd. 1999. Individuality and adaptation across levels of selection: how shall we name and generalize the unit of Darwinism? Proc Natl Acad Sci U S A 96 (21):11904-11909.
  34. Grandy, Richard. 2008. Sortals. In The Stanford Encyclopedia of Philosophy, edited by E. N. Zalta.
  35. Grantham, Todd. 1995. Hierarchical approaches to macroevolution – recent work on species selection and the Effect Hypothesis. Annual Review of Ecology and Systematics 26:301–321.
  36. Greig, D., E. J. Louis, R. H. Borts, and M. Travisano. 2002. Hybrid speciation in experimental populations of yeast. Science 298 (5599):1773-1775.
  37. Griffiths, Paul  E, and Karola Stotz. 2007. Gene. In Cambridge Companion to Philosophy of Biology, edited by M. Ruse and D. Hull. Cambridge: Cambridge University Press:85-102.
  38. Griffiths, Paul  E, and John S. Wilkins. In Press. When do evolutionary explanations of belief debunk belief? In Darwin in the 21st Century: Nature, Humanity, and God, edited by P. R. Sloan. Notre Dame, IN: Notre Dame University Press.
  39. Grutzner, Frank, Willem Rens, Enkhjargal Tsend-Ayush, Nisrine El-Mogharbel, Patricia C. M. O’Brien, Russell C. Jones, Malcolm A. Ferguson-Smith, and Jennifer A. Marshall Graves. 2004. In the platypus a meiotic chain of ten sex chromosomes shares genes with the bird Z and mammal X chromosomes. Nature 432 (7019):913-917.
  40. Hacking, Ian. 1983. Representing and intervening: introductory topics in the philosophy of natural science. Cambridge UK: Cambridge University Press.
  41. Haldane, J. B. S. 1930. A mathematical theory of natural and artificial selection (Part VI. Isolation). Proc. Cambr. Philos. Soc 26:220-230.
  42. Hey, Jody. 2001. The mind of the species problem. Trends in Ecology & Evolution 16 (7):326-329.
  43. Hey, Jody, Robin S. Waples, Michael L. Arnold, Roger K. Butlin, and Richard G. Harrison. 2003. Understanding and confronting species uncertainty in biology and conservation. Trends in Ecology & Evolution 18 (11):597-603.
  44. Isaac, N. J. B., J. Mallet, and G. M. Mace. 2004. Taxonomic inflation: its influence on macroecology and conservation. Trends in Ecology & Evolution 19 (9):464-469.
  45. Jablonski, David. 2008. Species Selection: Theory and Data. Annual Review of Ecology, Evolution, and Systematics 39 (1):501–524.
  46. Jackson, Frank. 1998. From metaphysics to ethics: a defence of conceptual analysis. Oxford; New York: Clarendon Press. (Not available in electronic format)
  47. Jolly, Clifford J., Tamsin Woolley-Barker, Shimelis Beyene, Todd R. Disotell, and Jane E. Phillips-Conroy. 1997. Intergeneric Hybrid Baboons. International Journal of Primatology 18 (4):597-627.
  48. Knobloch, Irving W. 1959. A Preliminary Estimate of the Importance of Hybridization in Speciation. Bulletin of the Torrey Botanical Club 86 (5):296-299.
  49. Koslow, Arnold. 2006. The Representational Inadequacy of Ramsey Sentences. Theoria 72 (2):100–125.
  50. Ladyman, James. 1998. What is structural realism? Studies In History and Philosophy of Science Part A 29 (3):409-424.
  51. Lande, Russell. 1981. Models of speciation by sexual selection on polygenic traits. Proc Natl Acad Sci U S A 78 (6):3721–3725.
  52. Lherminer, Philippe, and Michel Solignac. 2000. L’espèce: définitions d’auters. Sciences de la vie:153-165.
  53. Littlejohn, Murray J., and R. S. Oldham. 1968. Rana pipiens complex: mating call structure and taxonomy. Science 162:1003-1005.
  54. Lloyd, Elisabeth Anne, and Stephen Jay Gould. 1993. Species selection on variability. Proc Natl Acad Sci U S A 90(2):595-599.
  55. Lotsy, J. P. 1916. Evolution by means of hybridization. The Hague: Martinus Nijhoff.
  56. Mallet, James. 2007. Hybrid speciation. Nature 446 (7133):279-283.
  57. ———. 2008. Hybridization, ecological races and the nature of species: empirical evidence for the ease of speciation. Philosophical Transactions of the Royal Society B: Biological Sciences 363 (1506):2971-2986.
  58. Maynard Smith, John. 1958. The theory of evolution. Harmondsworth, UK: Penguin Books.
  59. Mayr, Ernst. 1942. Systematics and the origin of species from the viewpoint of a zoologist. New York: Columbia University Press.
  60. ———. 1970. Populations, species, and evolution: an abridgment of Animal species and evolution. Cambridge MA: The Belknap Press of Harvard University Press.
  61. ———. 1982. The growth of biological thought: diversity, evolution, and inheritance. Cambridge MA: The Belknap Press of Harvard University Press.
  62. Millstein, Roberta L. 2006. Natural Selection As a Population-Level Causal Process. British Journal for the Philosophy of Science 57 (4):627-653.
  63. Mishler, Brent D. 1999. Getting rid of species? In Species, New interdisciplinary essays, edited by R. A. Wilson. Cambridge, MA: Bradford/MIT Press:307-315.
  64. Muir, Graham, Colin Fleming, and Christian Schlötterer. 2000. Species status of hybridizing oaks. Nature 405:1016.
  65. Müller-Wille, Staffan, and Vitezslav Orel. 2007. From Linnaean Species to Mendelian Factors: Elements of Hybridism, 1751-1870. Annals of Science 64 (2):171-215.
  66. Padial, José, and Ignacio De la Riva. 2006. Taxonomic Inflation and the Stability of Species Lists: The Perils of Ostrich’s Behavior. Systematic Biology 55 (5):859-867.
  67. Platz, J. E. 1993. Rana subaquavocalis, a Remarkable New Species of Leopard Frog (Rana pipiens Complex) from Southeastern Arizona That Calls under Water. Journal of Herpetology 27 (2):154-162.
  68. Pleijel, Frederik, and G. W. Rouse. 2000. Least-inclusive taxonomic unit: a new taxonomic concept for biology. Proceedings of the Royal Society of London – Series B: Biological Sciences 267 (1443):627-630.
  69. Psillos, Stathis. 1999. Scientific Realism: How Science Tracks Truth. London, New York: Routledge.
  70. ———. 2000. Carnap, the Ramsey-Sentence and Realistic Empiricism. Erkenntnis 52 (2):253.
  71. Psillos, Stathos. 2006. Ramsey’s Ramsey-sentences. In Cambridge and Vienna: Frank P Ramsey and the Vienna Circle, edited by M. C. Galavotti. New York: Springer International:67-90.
  72. Quine, Willard Van Orman. 1948. On What There Is. Review of Metaphysics 2 (5):21-38.
  73. Rens, Willem, Frank Grützner, Patricia C. M. O’Brien, Helen Fairclough, Jennifer A. M. Graves, and Malcolm A. Ferguson-Smith. 2004. Resolution and evolution of the duck-billed platypus karyotype with an X1Y1X2Y2X3Y3X4Y4X5Y5 male sex chromosome constitution. Proceedings of the National Academy of Sciences of the United States of America 101 (46):16257-16261.
  74. Rice, Sean H. 1995. A genetical theory of species selection. Journal of Theoretical Biology 177 (3):237-245.
  75. Rieseberg, Loren H., and John H. Willis. 2007. Plant Speciation. Science 317 (5840):910-914.
  76. Rosen, Donn E. 1978. Vicariant patterns and historical explanation in biogeography. Systematic Zoology 27:159-188.
  77. Salzburger, W., S. Baric, and C. Sturmbauer. 2002. Speciation via introgressive hybridization in East African cichlids? Mol Ecol 11 (3):619-625.
  78. Sneath, P. H. A., and Robert R. Sokal. 1973. Numerical taxonomy: the principles and practice of numerical classificationA Series of books in biology. San Francisco: W. H. Freeman.
  79. Sokal, Robert R., and P. H. A. Sneath. 1963. Principles of numerical taxonomyA Series of books in biology. San Francisco,: W. H. Freeman. (Amazon.com)
  80. Stidd, Benton M., and David L. Wade. 1995. Is species selection dependent upon emergent characters? Biology and Philosophy 10:55-76. (Available through CPP library)
  81. Turesson, Göte. 1922. The species and variety as ecological units. Hereditas 3:10-113.
  82. ———. 1925. The plant species in relation to habitat and climate. Hereditas 6:147-236.
  83. ———. 1929. Zur natur und begrenzung der artenheiten. Hereditas 12:323-334.
  84. Van Valen, L. 1976. Ecological species, multispecies, and oaks. Taxon 25:233-239.
  85. Vandamme, P., B. Pot, M. Gillis, P. de Vos, K. Kersters, and J. Swings. 1996. Polyphasic taxonomy, a consensus approach to bacterial systematics. Microbiol Rev. 60 (2):407–438.
  86. Veyrunes, Frédéric, Paul D. Waters, Pat Miethke, Willem Rens, Daniel McMillan, Amber E. Alsop, Frank Grützner, Janine E. Deakin, Camilla M. Whittington, Kyriena Schatzkamer, Colin L. Kremitzki, Tina Graves, Malcolm A. Ferguson-Smith, Wes Warren, and Jennifer A. Marshall Graves. 2008. Bird-like sex chromosomes of platypus imply recent origin of mammal sex chromosomes. Genome Research 18 (6):965-973.
  87. Vos, Michiel. A species concept for bacteria based on adaptive divergence. Trends in Microbiology In Press, Corrected Proof. Published as Vos, Michiel. 2011. A species concept for bacteria based on adaptive divergence. Trends in Microbiology 19 (1): 1-7.
  88. Wagner, Warren H. 1983. Reticulistics: The recognition of hybrids and their role in cladistics and classification. In Advances in cladistics, edited by N. I. Platnick and V. A. Funk. New York: Columbia Univ. Press:63-79. (Not available in electronic format)
  89. Warren, Wesley C., LaDeana W. Hillier, Jennifer A. Marshall Graves, Ewan Birney, Chris P. Ponting, Frank Grützner, Katherine Belov, Webb Miller, Laura Clarke, Asif T. Chinwalla, Shiaw-Pyng Yang, Andreas Heger, Devin P. Locke, Pat Miethke, Paul D. Waters, Frédéric Veyrunes, Lucinda Fulton, Bob Fulton, Tina Graves, John Wallis, Xose S. Puente, Carlos López-Otín, Gonzalo R. Ordóñez, Evan E. Eichler, Lin Chen, Ze Cheng, Janine E. Deakin, Amber Alsop, Katherine Thompson, Patrick Kirby, Anthony T. Papenfuss, Matthew J. Wakefield, Tsviya Olender, Doron Lancet, Gavin A. Huttley, Arian F. A. Smit, Andrew Pask, Peter Temple-Smith, Mark A. Batzer, Jerilyn A. Walker, Miriam K. Konkel, Robert S. Harris, Camilla M. Whittington, Emily S. W. Wong, Neil J. Gemmell, Emmanuel Buschiazzo, Iris M. Vargas Jentzsch, Angelika Merkel, Juergen Schmitz, Anja Zemann, Gennady Churakov, Jan Ole Kriegs, Juergen Brosius, Elizabeth P. Murchison, Ravi Sachidanandam, Carly Smith, Gregory J. Hannon, Enkhjargal Tsend-Ayush, Daniel McMillan, Rosalind Attenborough, Willem Rens, Malcolm Ferguson-Smith, Christophe M. Lefèvre, Julie A. Sharp, Kevin R. Nicholas, David A. Ray, Michael Kube, Richard Reinhardt, Thomas H. Pringle, James Taylor, Russell C. Jones, Brett Nixon, Jean-Louis Dacheux, Hitoshi Niwa, Yoko Sekita, Xiaoqiu Huang, Alexander Stark, Pouya Kheradpour, Manolis Kellis, Paul Flicek, Yuan Chen, Caleb Webber, Ross Hardison, Joanne Nelson, Kym Hallsworth-Pepin, Kim Delehaunty, Chris Markovic, Pat Minx, Yucheng Feng, Colin Kremitzki, Makedonka Mitreva, Jarret Glasscock, Todd Wylie, Patricia Wohldmann, Prathapan Thiru, Michael N. Nhan, Craig S. Pohl, Scott M. Smith, Shunfeng Hou, Marilyn B. Renfree, Elaine R. Mardis, and Richard K. Wilson. 2008. Genome analysis of the platypus reveals unique signatures of evolution. Nature 453 (7192):175-183.
  90. Wheeler, Quentin D., and Norman I. Platnick. 2000. The phylogenetic species concept (sensu Wheeler and Platnick). In Species concepts and phylogenetic theory: A debate, edited by Q. D. Wheeler and R. Meier. New York: Columbia University Press:55-69.
  91. Wilkins, John S. 2003. How to be a chaste species pluralist-realist: The origins of species modes and the Synapomorphic Species Concept. Biology and Philosophy 18:621-638.
  92. ———. 2007a. The Concept and Causes of Microbial Species. Studies in History and Philosophy of the Life Sciences 28 (3):389-408.
  93. ———. 2007b. The dimensions, modes and definitions of species and speciation. Biology and Philosophy 22 (2):247 – 266.
  94. ———. 2009. Species: a history of the ideaSpecies and Systematics. Berkeley: University of California Press.
  95. ———. 2010. What is a species? Essences and generation. Theory in Biosciences 129:141–148.
  96. ———. 2011. Philosophically speaking, how many species concepts are there? Zootaxa 2765:58–60.
  97. Wilkins, John S., and Paul E. Griffiths. In Press. Evolutionary debunking arguments in three domains: Fact, value, and religion. In A New Science of Religion, edited by J. Maclaurin and G. Dawes. Chicago: University of Chicago Press.
  98. Winsor, Mary Pickard. 2000. Species, demes, and the Omega Taxonomy: Gilmour and The New Systematics. Biology and Philosophy 15 (3):349-388.
  99. Zimmer, Carl. 2008. What is a Species? Scientific American (June):72-79.