Home

Integrative Biology 200B Spring 2007

"PRINCIPLES OF PHYLOGENETICS: ECOLOGY AND EVOLUTION"

Most important recommended readings are in bold face; required readings also have two asterisks

March 22: SPECIES & SPECIATION

Species:

Avise, J. C. and K. Wollenberg. 1997. Phylogenetics and the origin of species. Proc. Nat. Acad. Sci., U.S.A 94: 7748-7755.

Barraclough, T.G. 2001. Phylogenetics and Speciation. TREE. 16(7):391-399.

Bremer, K. and H. E. Wanntorp. 1979. Geographic populations or biological species in phylogeny reconstruction? Syst. Zool. 28:220-224.

Cracraft, J. 1983. Species concepts and speciation analysis. Curr. Ornith. 1:159-187.

Cronquist, A. 1978. Once again, what is a species? Pp. 3-20 in Biosystematics in agriculture, ed. J. A. Romberger. Montclair, New Jersey: Allanheld & Osmun.

Davis, J. I. 1995. Species concepts and phylogenetic analysis -- introduction. Syst. Bot. 20: 555-559. [Introduction to a symposium -- several relevant papers here]

De Queiroz, K. 1998. The general lineage concept of species, species criteria, and the process of speciation: A conceptual unification and terminological recommendations. Pages 57-75 in Endless forms: Species and speciation (D. J. Howard and S. H. Berlocher, eds.). Oxford Univ. Press, Oxford, England.

Donoghue, M. J. 1985. A critique of the biological species concept and recommendations for a phylogenetic alternative. Bryologist 88:172-181.

Ehrlich, P. R. and P. H. Raven. 1969. Differentiation of populations. Science 165:1228-1232.

Ehrlich, P. R. and R. R. White. 1980. Colorado Checkerspot Butterflies: isolation, neutrality, and the biospecies. Am. Nat. 115:328-341.

Eldredge, N. and J. Cracraft. 1980. Phylogenetic patterns and the evolutionary process. New York: Columbia Univ. Press.

Frost, D. R., and D. M. Hillis 1990. Species in concept and practice: Herpetological

applications. Herpetologica 46:87-104.

Frost, D. R. and J. W. Wright. 1988. The taxonomy of uniparental species, with special reference to parthenogenetic Cnemidophorus (Squamata: Teiidae). Syst. Zool. 37:200-209.

Frost D.R. and Kluge, A.G.. 1994. A consideration of epistemology in systematic biology, with special reference to species. Cladistics 10(3): 259-294

Ghiselin, M. T. 1987. Species concepts, individuality, and objectivity. Biol. Phil. 2:127-143.

Gould, S. J. 1980. A Quahog is a Quahog. Pages 204-213 in The Pandas Thumb. Norton.

Grant, V. 1981. Plant speciation. New York: Columbia Univ. Press.

Graybeal, A. 1995. Naming species. Systematic Biology 44(2):237-250.

Häuser, C. L. 1987. The debate about the biological species concept -- a review. Z. Zool. Syst. Evolut.-forsch. 25:241-257.

Holman, E. W. 1987. Recognizability of sexual and asexual species of rotifers. Syst. Zool. 36:381-386.

Hull, D. L. 1987. Genealogical actors in ecological roles. Biol. Phil. 2:168-184.

Lawrence, J. G. 2002. Gene transfer in bacteria: Speciation without species? Theoretical Population Biology. 61(4):449-460.

Levin, D. A. and H. W. Kerster. 1974. Gene flow in seed plants. Evol. Biol. 7: 139-220.

Levin, D. A. 1979. The nature of plant species. Science 204:381-384.

Lidén, M. and B. Oxelman. 1989. Species -- pattern or process? Taxon 38: 228-232.

Mayden, R. L. 1997. A hierarchy of species concepts: the denouement in the saga of the species problem. Pages 381-424 in Species: the units of biodiversity (Claridge, M. F., H. A. Hawah and M. R. Wilson, ed.). Chapman and Hall, London.

Mayr, E. 1970. Populations, species, and evolution. Cambridge, Mass.: Harvard Univ. Press.

Mayr, E. 1982. The Growth of Biological Thought. Harvard University Press, Cambridge, Mass. [especially Chapter 6, on "Microtaxonomy, the science of species"]

Mayr, E. 1984. Species concepts and their application. (reprinted) Pages 531-540 in Conceptual Issues in Evolutionary Biology (Sober, E., ed.). MIT press, Cambridge, Mass.

McKitrick, M. C. and R. M. Zink. 1988. Species concepts in ornithology. Condor 90:1-14.

Mishler, B. D. and M. J. Donoghue. 1982. Species concepts: a case for pluralism. Syst. Zool. 31:491-503.

Mishler, B. D. 1985. The morphological, developmental, and phylogenetic basis of species concepts in bryophytes. Bryol. 88:207-214.

Mishler, B. D. and R. N. Brandon. 1987. Individuality, pluralism, and the phylogenetic species concept. Biol. Phil. 2:397-414.

Mishler, B. D. and A. F. Budd. 1990. Species and evolution in clonal organisms -- introduction. Syst. Bot. 15:79-85.

Mishler, B.D. and E. Theriot. In Press. Monophyly, apomorphy, and phylogenetic species concepts. Three chapters in Q.D. Wheeler & R. Meier (eds.), Species Concepts and Phylogenetic Theory: A Debate. Columbia University Press.

Nelson, G. J. and N. I. Platnick. 1981. Systematics and biogeography: cladistics and vicariance. New York: Columbia Univ. Press.

Nichols, R.A. 2001. Gene Trees and Species Trees are not the same. TREE. 16(7):358-364.

Nixon, K. C. and Q. D. Wheeler. 1990. An amplification of the phylogenetic species concept. Cladistics 6:211-223.

Otte, D. and J. A. Endler (eds.). 1989. Speciation and Its Consequences. Sinauer Associates, Sunderland, Mass.

Paterson, H. E. H. 1985. The recognition concept of species. Pp. 21-29 in Species and speciation, ed. E. S. Vrba. Pretoria: Transvaal Museum.

de Queiroz, K. and J. Gauthier. 1992. Phylogenetic taxonomy. Ann. Rev. Ecol. Syst. 23:449-480.

de Queiroz, K. and J. Gauthier. 1994. Toward a phylogenetic system of nomenclature. Trends Ecol. Evol. 9: 27-31.

Ridley, M. 1989. The cladistic solution to the species problem. Biol. Phil. 4:1-16.

Rosen, D. E. 1978. Vicariant patterns and historical explanation in biogeography. Syst. Zool. 27:159-188.

Rosen, D. E. 1979. Fishes from the upland and intermontane basins of Guatemala: revisionary studies and comparative geography. Bull. Amer. Mus. Nat. Hist. 162:267-376.Simpson, G. G. 1961. Principles of animal taxonomy. New York: Columbia Univ. Press.

Schander, C. and M. Thollesson. 1995. Phylogenetic taxonomy - some comments. Zoologica Scripta 24(3):263-268.

Sokal, R. R. and T. J. Crovello. 1984. The biological species concept: a critical evaluation. (reprinted) Pages 541-566 in Conceptual Issues in Evolutionary Biology (Sober, E., ed.). MIT Press, Cambridge, Mass.

Templeton, A.R. 1989. The meaning of species and speciation: a genetic perspective. Pp. 3-27 in Speciation and its consequences, ed. D. Otte and J. A. Endler. Sunderland, Mass.: Sinauer Associates.

Theriot, E. 1992. Custers, species concepts, and morphological evolution of diatoms. Syst. Biol. 41:141-157.

Van Valen, L. M. 1976. Ecological species, multispecies, and oaks. Taxon 25:233-239.

Van Valen, L. M. 1982. Integration of species: stasis and biogeography. Evol. Theory 6:99-112.

Vrba, E. S. (ed.). 1985. Species and Speciation. Transvaal Museum, Pretoria. [a collected work with a number of good papers]

Wiley, E. O. 1978. The evolutionary species concept reconsidered. Syst. Zool. 27:17-26.

Speciation:

Altukhov, Y. P. 1982. Biochemical population genetics and speciation. Evol. 36:1168-1181.

Avise, J. C., J. F. Shapiro, S. W. Danila, C. F. Aquadro, and R. A. Lansman. 1983. Mitochondrial DNA differentiation during the speciation process in Peromyscus. Mol. Biol. Evol. 1:38-56.

Avise, J. C. 1994. Molecular markers, natural history and evolution. Chapman & Hall, New York.

Barigozzi, C. (ed.). 1982. Mechanisms of Speciation. Liss, New York.

Barton, N. H. and B. Charlesworth. 1984. Genetic revolutions, founder effects, and speciation. Ann. Rev. Ecol. Syst. 15:133-164.

Budd, A. F. and B. D. Mishler. 1990. Species and evolution in clonal organisms -- summary and discussion. Syst. Bot. 15: 166-171.

Bush, G. L. 1975. Modes of animal speciation. Ann. Rev. Ecol. Syst. 6:339-364.

Carson, H. L. and A. R. Templeton. 1984. Genetic revolutions in relation to speciation phenomena: the founding of new populations. Ann. Rev. Ecol. Syst. 15:97-131.

Cracraft, J. 1983. Species concepts and speciation analysis. Curr. Ornith. 1: 159-187.

Cracraft, J. 1989. Speciation and its ontology: the empirical consequences of alternative species concepts for understanding patterns and processes of differentiation. Pp. 28-59 in Speciation and its consequences, ed. D. Otte and J. A. Endler. Sunderland, Mass.: Sinauer Associates.

Eldredge, N. and J. Cracraft. 1980. Phylogenetic patterns and the evolutionary process. Columbia Univ. Press, New York.

Endler, J. A. 1977. Geographic Variation, Speciation, and Clines. Princeton University Press, Princeton.

Ehrlich, P. R. and P. H. Raven. 1969. Differentiation of populations. Science 165: 1228-1232.

Futuyma, D. J. 1987. On the role of species in anagenesis. Amer. Nat. 130:465-473.

Giddings, L. V., K. Y. Kaneshiro and W. W. Anderson (ed.). 1989. Genetics, Speciation, and the Founder Principle. Oxford University Press, New York.

Grant, V. 1981. Plant Speciation. Columbia University Press, New York.

Hull, D. L. 1980. Individuality and selection. Ann. Rev. Ecol. Syst. 11: 311-332.

Liou, L. W. and T. D. Price. 1994. Speciation by reinforcement of premating isolation. Evol. 48: 1451-1459.

Lynch, J.D. 1989. The gauge of speciation: on the frequencies of modes of speciation. Pp. 527-553 in Speciation and its consequences, ed. D. Otte and J. A. Endler. Sunderland, Mass.: Sinauer Associates.

Mayr, E. 1982. Speciation and macroevolution. Evol. 36:1119-1132.

Mishler, B. D. 1985. The morphological, developmental, and phylogenetic basis of species concepts in bryophytes. Bryol. 88: 207-214.

Mishler, B. D. 1990. Reproductive biology and species distinctions in the moss genus Tortula, as represented in Mexico. Syst. Bot. 15: 86-97.

Mishler, B. D. and A. F. Budd. 1990. Species and evolution in clonal organisms -- introduction. Syst. Bot. 15: 79-85.

Moore, W. S. and D. B. Buchanan. 1985. Stability of the Northern Flicker hybrid zone in historical time: implications for adaptive speciation theory. Evol. 39:135-151.

Otte, D. and J. A. Endler (ed.). 1989. Speciation and Its Consequences. Sinauer Associates, Sunderland, Mass.

Rice, W. R. and E. E. Hostert. 1993. Laboratory experiments on speciation: what have we learned in forty years? Evol. 47: 1637-1653.

Templeton, A. R. 1981. Mechanisms of speciation - a population genetic approach. Ann. Rev. Ecol. Syst. 12:23-48.

Theriot, E. 1992. Custers, species concepts, and morphological evolution of diatoms. Syst. Biol. 41: 141-157.

Thorpe, R. S. 1984. Primary and secondary transition zones in speciation and population differentiation: a phylogenetic analysis of range expansion. Evol. 38: 233-243.

Vrba, E. S. (ed.). 1985. Species and Speciation. Transvaal Museum, Pretoria.

White, M. J. D. 1978. Modes of Speciation. W.H. Freeman, San Francisco. [also has a gigantic bibliography]