SEARCH

SEARCH BY CITATION

LITERATURE CITED

  • Adams, D. C., C. M. Berns, K. H. Kozak, and J. J. Wiens. 2009. Are rates of species diversification correlated with rates of morphological evolution? Proc. R. Soc. Lond. B 276:27292738.
  • Akaike, H. 1974. A new look at the statistical model identification. IEEE Trans. Autom. Contr. 19:716723.
  • Avise, J. C. 2000. Phylogeography: the history and formation of species. Harvard Univ. Press, Cambridge , MA .
  • Avise, J. C., J. Arnold, R. M. Ball, Jr., E. Bermingham, T. Lamb, J. E. Neigel, C. A. Reed, and N. C. Saunders. 1987. Intraspecific phylogeography: the mitochondrial DNA bridge between population genetics and systematics. Annu. Rev. Ecol. Evol. 18:489522.
  • Bickel, R., and J. B. Losos. 2002. Patterns of morphological variation and correlates of habitat use in chameleons. Biol. J. Linn. Soc. 76:91103.
  • Bickford, D., D. J. Lohman, N. S. Sodhi, P. K. L. Ng, R. Meier, K. Winker, K. K. Ingram, and I. Das. 2006. Cryptic species as a window on diversity and conservation. Trends Ecol. Evol. 22:148155.
  • Blomberg, S. P., T. Garland Jr., and A. R. Ives. 2003. Testing for phylogenetic signal in comparative data: behavioral traits are more labile. Evolution 57:717747.
  • Bostwick, K. S., and M. J. Brady. 2002. Phylogenetic analysis of wing feather taxis in birds: macroevolutionary patterns of genetic drift? The AUK 119:943954.
  • Brandley, M. C., A. Schmitz, and T. W. Reeder. 2005. Partitioned Bayesian analyses, partition choice, and the phylogenetic relationships of scincid lizards. Syst. Biol. 54:373390.
  • Bruna, E. M., R. N. Fisher, and T. J. Case. 1996. Morphological and genetic evolution appear decoupled in Pacific skinks (Squamata: Scincidae: Emoia). Proc. R. Soc. Lond. B. 263:681688.
  • Burnham, K. P., and D. R. Anderson. 2002. Model selection and multimodel inference: a practical information-theoretical approach. 2nd ed. New York : Springer-Verlag.
  • Butler, M. A., and A. A. King. 2004. Phylogenetic comparative analysis: a modeling approach for adaptive evolution. Am. Nat. 164:683695.
  • Castellano, S., and E. Balleto. 2002. Is the partial Mantel test inadequate? Evolution 56:18711873.
  • Charlesworth, B., R. Lande, and M. Slatkin. 1982. A neo-Darwinian commentary on macroevolution. Evolution 36:474498.
  • Cogger, H. G. 2000. Reptiles and amphibians of Australia. 6th ed. Reed New Holland, Sydney , Australia .
  • Crisp, M. D., H. P. Linder, and P. H. Weston. 1995. Cladistic biogeography of plants in Australia and New Guinea: congruent pattern reveals two endemic tropical tracks. Syst. Biol. 44:457473.
  • Drummond, A. J., B. Ashton, M. Cheung, J. Heled, M. Kearse, R. Moir, S. Stones-Havas, T. Thierer, and A. Wilson. 2009. Geneious v4.7. Available from http://www.geneious.com/
  • Edwards, S. V., L. Liu, and D. K. Pearl. 2007. High-resolution species trees without concatenation. Proc. Natl. Acad. Sci. USA 104:59365941.
  • Eldredge, N., and S. J. Gould. 1972. Punctuated equilibria: an alternative to phyletic gradualism. Pp. 82115 in T. J. M.Schopf, ed. Models in paleobiology., Freeman Cooper, San Francisco .
  • Farris, J. S., M. Kallersjo, A. G. Kluge, and C. Bult. 1994. Testing significance of incongruence. Cladistics 10, 315319.
  • Futuyma, D. J. 1998. Evolutionary biology. 3rd ed. Sinauer, Sunderland, MA.
  • Glor, R. E., J. J. Kolbe, R. Powell, A. Larson, and J. B. Losos. 2003. Phylogenetic analysis of ecological and morphological diversification in Hispaniolan trunk-ground anoles (Anolis cybotes group). Evolution 57:23832397.
  • Glor, R. E., M. E. Gifford, A. Larson, J. B. Losos, L. R. Schettino, A. R. C. Lara, and T. R. Jackman. 2004. Partial island submergence and speciation in an adaptive radiation: a multilocus analysis of the Cuban green anoles. Proc. R. Soc. Lond. B. 271:22572265.
  • Greer, A. E. 1989. The biology and evolution of Australian lizards. Surrey Beatty & Sons, Chipping Norton , NSW , Australia .
  • Hansen, T. F. 1997. Stabilizing selection and the comparative analysis of adaptation. Evolution 51:13411351.
  • Harmon, L. J., and R. E. Glor. 2010. Poor statistical performance of the Mantel test in phylogenetic comparative analyses. Evolution 64:21732178.
  • Harmon, L. J., J. A. Schulte, II, A. Larson, and J. B. Losos. 2003. Tempo and mode of evolutionary radiation in Iguanian lizards. Science 301:961964.
  • Harmon, L. J., J. J. Kolbe, J. M. Cheverud, and J. B. Losos. 2005. Convergence and the multidimensional niche. Evolution 59:409421.
  • Harmon, L. J., J. Weir, C. Brock, R. E. Glor, and W. Challenger. 2008. GEIGER: Investigating evolutionary radiations. Bioinformatics 24:129131.
  • Harmon, L. J., J. B. Losos, J. Davies, R. G. Gillespie, J. L. Gittleman, W. B. Jennings, K. Kozak, M. A. McPeek, F. Moreno-Roark, T. J. Near, et al. 2010. Early bursts of body size and shape evolution are rare in comparative data. Evolution 64:23852396.
  • Harvey, P. H., and M. D. Pagel. 1991. The comparative method in evolutionary biology. Oxford Univ. Press, Oxford , NY .
  • Hunt, G. 2006. Fitting and comparing models of phyletic evolution: random walks and beyond. Paleobiology 32:578602.
  • Kass, R. E., and A. E. Raftery. 1995. Bayes factors. J. Am. Stat. Assoc. 90:773795.
  • Kearney, M. R., A. Moussalli, J. Strasburg, D. Lindenmayer, and C. Moritz. 2003. Geographic parthenogenesis in the Australian arid zone: I. A climatic analysis of the Heteronotia binoei complex (Gekkonidae). Evol. Ecol. Res. 5:953976.
  • Kembell, S., D. Ackerly, S. Blomberg, P. Cowan, M. Helmus, H. Morlon, and C. Webb. 2009. Picante: R tools for integrating phylogenies and ecology. R package version 0.7-0. Available at http://www.CRAN.R-project.org/package=picante (accessed April 20, 2008).
  • Knowlton, N. 1993. Sibling species in the sea. Annu. Rev. Ecol. Evol. Syst. 24:189216.
  • Kozak, K. H., A. Larson, R. M. Bonett, and L. J. Harmon. 2005. Phylogenetic analysis of ecomorphological divergence, community structure, and diversification rates in dusky salamanders (Plethodontidae: Desmognatus). Evolution 59:20002016.
  • Kozak, K. H., D. W. Weisrock, and A. Larson. 2006. Rapid lineage accumulation in a non-adaptive radiation: phylogenetic analysis of diversification rates in eastern North American woodland salamanders (Plethodontidae: Plethodon). Proc. R. Soc. Lond. B. 273:539546.
  • Larson, A. 1989. The relationship between speciation and morphological evolution. Pp. 579598 in D.Otte and J. A.Endler (Eds.), Speciation and its consequences. Sinauer Associates, Sunderland , MA .
  • Lecompte, E., C. Denys, and L. Granjon. 2005. Confrontation of morphological and molecular data: the Praomys group (Rodentia, Murinae) as a case of adaptive convergences and morphological stasis. Mol. Phylogenet. Evol. 37:899919.
  • Lee, C. E. 2000. Global phylogeography of a cryptic copepod species complex and reproductive isolation between genetically proximate “populations”. Evolution 54:20142027.
  • Legendre, P., and L. Legendre. 1998. Numerical ecology. Elsevier, Amsterdam , NL .
  • Lemos, B., G. Marroig, and R. Cerqueira. 2001. Evolutionary rates and stabilizing selection in large-bodied opossum skulls (Didelphimorphia: Didelphidae). J. Zool. 255:181189.
  • Losos, J. B., and R. E. Glor. 2003. Phylogenetic comparative methods and the geography of speciation. Trends Ecol. Evol. 18:220227.
  • Losos, J. B., and D. B. Miles. 2002. Testing the hypothesis that a clade has adaptively radiated: Iguanid lizard clades as a case study. Am. Nat. 160:147157.
  • Losos, J. B., M. Butler, and T. W. Schoener. 2003. Sexual dimorphism in body size and shape in relation to habitat use among species of Caribbean Anolis lizards. Pp. 356380 in S. F.Fox, J. K.McCoy and T. A.Baird, eds., Lizard social behavior. Johns Hopkins Press, Baltimore .
  • Lynch, M. 1990. The rate of morphological evolution from the standpoint of the neutral expectation. Am. Nat. 136:727741.
  • Macey, J. R., A. Larson, N. B. Ananjeva, Z. L. Fang, and T. J. Papenfuss. 1997. Two novel gene orders and the role of light-strand replication in rearrangement of the vertebrate mitochondrial genome. Mol. Biol. Evol. 14:91104.
  • Macey, J. R., J. A. Schulte, II, A. Larson, N. B. Ananjeva, Y. Wang, R. Pethiyagoda, N. Rastegar-Pouyani, and T. J. Papenfuss. 2000. Evaluating trans-tethys migration: an example using acrodont lizard phylogenetics. Syst. Biol. 49:233256.
  • Mantel, N. 1967. The detection of disease clustering and a generalized regression approach. Cancer Res. 27:209220.
  • Markgraf, V., M. McGlone, and G. Hope. 1995. Neogene paleoenvironmental and paleoclimatic change in southern temperate ecosystems: a southern perspective. Trends Ecol. Evol. 10:143147.
  • Mathews, L. M., C. D. Schubart, J. E. Neigel, and D. L. Felder. 2002. Genetic, ecological, and behavioural divergence between two sibling snapping shrimp species (Crustacea: Decapoda: Alpheus). Mol. Ecol. 11:14271437.
  • Maynard Smith, J., R. Burian, S. Kauffman, P. Alberch, J. Campbell, B. Goodwin, R. Lande, D. Raup, and L. Wolpert. 1985. Developmental constraints and evolution. Q. Rev. Biol. 60:265567.
  • McMahon, J. P., M. F. Hutchinson, H. A. Nix, and K. D. Ord. 1995. ANUCLIM User's Guide, Version 1. Centre for Resource and Environmental Studies, Australian National University, Canberra .
  • Melville, J., J. A. Schulte II, and A. Larson. 2001. A molecular phylogenetic study of ecological diversification in the Australian lizard genus Ctenophorus. J. Exp. Zool. Part B 291:339353.
  • Melville, J., L. J. Harmon, and J. B. Losos. 2006. Intercontinental community convergence of ecology and morphology in desert lizards. Proc. R. Soc. Lond. B 273:557563.
  • Melville, J., E. G. Richie, S. N. J. Chapple, R. E. Glor, and J. A. Schulte II. 2010a. Evolutionary origins and diversification of dragon lizards in Australia's tropical savannas. Mol. Phyl. Evol., doi:10.1016/j.ympev.2010.11.025 [Epub ahead of print.
  • Melville, J., E. G. Richie, S. N. J. Chapple, R. E. Glor, and J. A. Schulte II. 2010b. Taxonomic revision of Australian agamid lizards from the genera Amphibolurus and Lophognathus (Lacertilia: Agamidae). Zootaxa. In press .
  • Milinkovitch, M. C. 1995. Molecular phylogeny of cetaceans prompts revision of morphological transformations. Trends Ecol. Evol. 10:328334.
  • Minin, V. N., F. Fang, K. S. Dorman, and M. A. Suchard. 2005. Dual multiple change-point model leads to more accurate recombination detection. Bioformatics 21:30343042.
  • Nylander, J. A. A., F. Ronquist, J. P. Huelsenbeck, and J. L. Nieves-Aldrey. 2004. Bayesian phylogenetic analysis of combined data. Syst. Biol. 53:4767.
  • Pfenninger, M., S. Staubach, C. Albrecht, B. Streit, and K. Schwenk. 2003. Ecological and morphological differentiation among cryptic evolutionary lineages in freshwater limpets of the nominal form-group Ancylus fluviatilis (O.F. Muller, 1774). Mol. Ecol. 12:27312745.
  • Posada, D., and K. A. Crandall. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics 14:817818.
  • Rambaut, A., and M. Charleston. 2000. Phylogenetic Tree Editor v1.0 alpha 10. http://evolve.zoo.ox.ac.uk/software/TreeEdit/main.html
  • Raufaste, N., and F. Rousset. 2001. Are partial Mantel tests adequate? Evolution 55:17031705.
  • Revell, L. J., and L. J. Harmon. 2008. Testing quantitative genetic hypotheses about the evolutionary rate matrix for continuous characters. Evol. Ecol. Res. 10:311321.
  • Revell, L. J., L. J. Harmon, and D. C. Collar. 2008. Phylogenetic signal, evolutionary process, and rate. Syst. Biol. 57:591601.
  • Rice, W. R. 1989. Analyzing tables of statistical tests. Evolution 43:223225.
  • Ronquist, F., J. P. Huelsenbeck, and P. Van Der Mark. 2005. MrBayes version 3.1: Bayesian Analysis of Phylogeny: Florida State University : http://mrbayes.csit.fsu.edu.
  • Rosenberg, M. S. 2002.PASSaGE: pattern analysis, spatial statistics and geographic exergesis http://www.passagesoftware.net/.
  • Russell-Smith, J., P. G. Ryan, D. Klessa, G. Waight, and R. Harwood. 1998. Fire regimes and fire-sensitive vegetation of the sandstone Arnhem plateau, monsoonal northern Australia: application of a remotely-sensed fire. J. Appl. Ecol. 35:829846.
  • Sanderson, M. J. 2002. Estimating absolute rates of molecular evolution and divergence times: a penalized likelihood approach. Mol. Biol. Evol. 19:101109.
  • Schlichting, C. D. 1989. Phenotypic integration and environmental change. BioScience 39:460464.
  • Schluter, D. 2000. The ecology of adaptive radiation. Oxford Univ. Press, Oxford , NY .
  • Schluter, D., and J. D. McPhail. 1993. Character displacement and replicate adaptive radiation. Trends Ecol. Evol. 8:197200.
  • Schneider, C., and Moritz  . 1999. Rainforest refugia and evolution in Australia's wet tropics. Proc. R. Soc. Lond. B 266:191196.
  • Schulte, J. A., J. Melville, and A. Larson. 2003. Molecular phylogenetic evidence for ancient divergence of lizard taxa on either side of Wallace's Line. Proc. R. Soc. Lond. B. 270:597603.
  • Schulte, J. A., J. B. Losos, F. B. Cruz, and H. Nunez. 2004. The relationship between morphology, escape behaviour and microhabitat occupation in the lizard clade Liolaemus (Iguanidae : Tropidurinae : Liolaemini). J. Evol. Biol. 17:408420.
  • Sheldon, P. R. 1996. Plus ca change—a model for stasis and evolution in different environments. Paleogeogr. Paleoclimatol. Paleoecol. 127:209227.
  • Shoo, L. P., Rose, R. Doughty, P., Austin, J. J., and Melville, J. 2008. Diversification patterns of pebble-mimic dragons are consistent with historical disruption of important habitat corridors in arid Australia. Mol. Phylogenet. Evol. 48:528542.
  • Smouse, P. E., J. C. Long, and R. R. Sokal. 1986. Multiple regression and correlation extensions of the Mantel test of matrix correspondence. Syst. Zool. 35:627632.
  • Storr, G. M. 1974. Agamid lizards of the genera Caimanops, Physignathus and Diporiphora in Western Australia and Northern Territory. Records of the Western Australia Museum 3:121146.
  • Sturmbauer, C., and A. Meyer. 1993. Mitochondrial phylogeny of the endemic mouthrooding lineages of cichlid fishes from Lake Tanganyika in Eastern Africa. Mol. Biol. Evol. 10:751768.
  • Suchard, M. A., R. E. Weiss, K. S. Dorman, and J. S. Sinsheimer. 2003. Inferring spatial phylogenetic variation along nucleotide sequences: a multiple change-point model. J. Am. Stat. Assoc. 98:427437.
  • Swofford, D. L. 2000. PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods), 4.0 edition. Sinauer Associates, Sunderland , MA .
  • Wainwright, P. C., and S. M. Reilly. 1994. Ecological morphology: integrative organismal biology. Univ. Chicago Press, Chicago , USA .
  • Wake, D. B. 1983. On the problem of stasis in organismal evolution. J. Theor. Biol. 101:211224.
  • Wake, D. B. 1991. The result of natural selection, or evidence of design limitations? Am. Nat. 138:543567.
  • Warheit, K. I., J. D. Forman, J. B. Losos, and D. B. Miles. 1999. Morphological diversification and adaptive radiation: a comparison of two diverse lizard clades. Evolution 53:12261234.
  • Wiens, J. J. 1998. Combining data sets with different phylogenetic histories. Syst. Biol. 47:568581.
  • Wiens, J. J. 2004. Speciation and ecology revisited: phylogenetic niche conservatism and the origin of species. Evolution 58:193197.
  • Wiens, J. J., and C. H. Graham. 2005. Niche conservatism: integrating evolution, ecology and conservation biology. Annu. Rev. Ecol. Evol. Syst. 36:519539.
  • Wiens, J. J., and T. L. Penkrot. 2002. Delimiting species based on DNA and morphological variation and discordant species limits in spiny lizards (Sceloporus). Syst. Biol. 51:6991.
  • Wilson, S. K., and D. G. Knowles. 1988. Australia's reptiles: a photographic reference to the terrestrial reptiles of Australia. Collins, Sydney , Australia .
  • Woinarski, J. C. Z., A. Fisher, and D. Milne. 1999. Distribution patterns of vertebrates in relation to an extensive rainfall gradient and variation in soil texture in the tropical savannas of the Northern Territory, Australia. J. Trop. Ecol. 15:381398.