Phylogeography of the frog Leptodactylus validus (Amphibia: Anura): Patterns and timing of colonization events in the Lesser Antilles

Molecular Phylogenetics and Evolution

Volumn 53, Issue 2, 2009, Pages 571-579

  Camargo, Arley ^a   Heyer, W Ronald ^c   de Sá, Rafael O ^b  

^a BRIGHAM YOUNG UNIVERSITY   (United States)

^b UNIVERSITY OF RICHMOND   (United States)

^c DEPARTMENT OF PALEOBIOLOGY   (United States)

Author keywords

Biogeography; Coalescent; Dating; Leptodactylus; Mitochondrial DNA; Phylogeography; West Indies

Indexed keywords

MITOCHONDRIAL DNA; RIBOSOME RNA; RNA 16S; RNA, RIBOSOMAL, 12S;

ANIMAL; ARTICLE; CARIBBEAN ISLANDS; CLASSIFICATION; DNA SEQUENCE; FROGS AND TOADS; GENETICS; GEOGRAPHY; HAPLOTYPE; MOLECULAR EVOLUTION; PHYLOGENY; POPULATION GENETICS;

ANIMALS; ANURA; DNA, MITOCHONDRIAL; EVOLUTION, MOLECULAR; GENETICS, POPULATION; GEOGRAPHY; HAPLOTYPES; PHYLOGENY; RNA, RIBOSOMAL; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; WEST INDIES;

AMPHIBIA; ANURA; LEPTODACTYLUS; LEPTODACTYLUS VALIDUS; MYA;

EID: 69049113760     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2009.07.004     Document Type: Article

References (50)

1. Bahlo M., and Griffiths R.C. Inference from gene trees in a subdivided population. Theor. Popul. Biol. 57 (2000) 79-95
2. Beerli P., and Felsenstein J. Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. Proc. Natl. Acad. Sci. USA 98 (2001) 4563-4568
3. Clark P.U., and Mix A.C. Ice sheets and sea level of the Last Glacial Maximum. Quaternary Sci. Rev. 21 (2002) 1-7
4. Clement M., Posada D., and Crandall K. TCS: a computer program to estimate gene genealogies. Mol. Ecol. 9 (2000) 1657-1660
5. Cole C.J., Dessauer H.C., Townsend C.R., and Arnold M.G. Kentropyx borckiana (Squamata: Teiidae): a unisexual lizard of hybrid origin in the Guiana Region, South America. Am. Mus. Novit. 3145 (1995) 1-23
6. Daudin J., and de Silva M. An annotated checklist of the amphibians and terrestrial reptiles of the Grenadines with notes on their local natural history and conservation. Appl. Herpetol. 4 (2007) 163-175
7. Dixon J.R., and Michaud E.J. Shaw's black-backed snake (Liophis melanotus) (Serpentes: Colubridae) of Northern South America. J. Herpetol. 26 (1992) 250-259
8. Drummond A.J., and Rambaut A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7 (2007) 214
9. Drummond A.J., Ho S.Y.W., Phillips M.J., and Rambaut A. Relaxed phylogenetics and dating with confidence. PLoS Biol. 4 (2006) e88
10. Frost, D.R., 2009. Amphibian species of the world: an online reference. V. 5.3. American Museum of Natural History, New York, USA. (accessed 12.02.09).
11. Galatti U. Population biology of the frog Leptodactylus pentadactylus in a Central Amazonian rainforest. J. Herpetol. 26 (1992) 23-31
12. Garrick R.C., Dyer R.J., Beheregaray L.B., and Sunnucks P. Babies and bathwater: a comment on the premature obituary for nested clade phylogeographical analysis. Mol. Ecol. 17 (2008) 1401-1403
13. Griffiths, R.C., 1994. Genetree v. 9.0. Available from: .
14. Griffiths R.C., and Tavaré S. Simulating probability distributions in the coalescent. Theor. Popul. Biol. 46 (1994) 131-159
15. Griffiths R.C., and Tavaré S. Computational methods for the coalescent. In: Donnelly P., and Tavaré S. (Eds). Progress in Population Genetics and Human Evolution (1997), Springer-Verlag, New York 165-182
16. Hedges S.B. Historical biogeography of West Indian vertebrates. Annu. Rev. Ecol. Syst. 27 (1996) 163-196
17. Hedges S.B. The origin of West Indian amphibians and reptiles. In: Powell R., and Henderson R.W. (Eds). Contributions to West Indian Herpetology: A Tribute to Albert Schwartz Contributions to Herpetology vol. 12 (1996), Society for the Study of Amphibians and Reptiles, Ithaca 95-128
18. Hedges S.B. Paleogeography of the Antilles and origin of West Indian terrestrial vertebrates. Ann. Mo. Bot. Gard. 93 (2006) 231-244
19. Hedges S.B., and Heinicke M.P. Molecular phylogeny and biogeography of West Indian frogs of the genus Leptodactylus (Anura: Leptodactylidae). Mol. Phylogenet. Evol. 44 (2007) 308-314
20. Henderson R.W. A taxonomic review of the Corallus hortulanus complex of neotropical tree boas. Caribb. J. Sci. 33 (1997) 198-221
21. Heyer W.R. Variation within the Leptodactylus podicipinus-wagneri complex of frogs (Amphibia: Leptodactylidae). Smithsonian Contrib. Zool. 301 (1994) 1-43
22. Ho S.Y.W., Larson G., Edwards C.J., Heupink T.H., Lakin K.E., Holland P.W.H., and Shapiro B. Correlating Bayesian date estimates with climatic events and domestication using a bovine case study. Biol. Lett. 4 (2008) 370-374
23. Iturralde-Vinent M., and MacPhee R.D.E. Paleogeography of the Caribbean region: implications for Cenozoic biogeography. Bull. Am. Mus. Nat. Hist. 238 (1999) 1-95
24. Jesus F.F., Wilkins J.F., Solferini V.N., and Wakeley J. Expected coalescence times and segregating sites in a model of glacial cycles. Genet. Mol. Res. 5 (2006) 466-474
25. Kizirian D.A., and Cole C.J. The origin of the unisexual lizard Gymnophthalmus underwoodi (Gymnophthalmidae) inferred from mitochondrial DNA nucleotide sequences. Mol. Phylogenet. Evol. 11 (1999) 394-400
26. Knowles L.L. The burgeoning field of statistical phylogeography. J. Evol. Biol. 17 (2004) 1-10
27. Knowles L.L. Why does a method that fails continue to be used?. Evolution 62 (2008) 2713-2717
28. Knowles L.L., and Maddison W.P. Statistical phylogeography. Mol. Ecol. 11 (2002) 2623-2635
29. Kuhner M.K. Coalescent genealogy samplers: windows into population history. Trends Ecol. Evol. 24 (2008) 86-93
30. Maury R.C., Westbook G.K., Baker P.E., Bouysse Ph., and Westercamp D. Geology of the Lesser Antilles. In: Dengo G., and Case J.E. (Eds). The Geology of North America. The Caribbean Region vol. H (1990), The Geological Society of America, Boulder 141-166
31. Maxson L.R., and Heyer W.R. Molecular systematics of the frog genus Leptodactylus (Amphibia: Leptodactylidae). Fieldiana (Zool.) 41 (1988) 1-13
32. Milot E., Gibbs H.L., and Hobson K.A. Phylogeography and genetic structure of northern populations of the yellow warbler (Dendroica petechia). Mol. Ecol. 9 (2000) 677-681
33. Murphy J.C.E. Amphibians and Reptiles of Trinidad and Tobago (1997), Krieger Publishing Co., Malabar, Florida
34. Nielsen R., and Beaumont M.A. Statistical inferences in phylogeography. Mol. Ecol. 18 (2009) 1034-1047
35. Petit R.J. The coup de grace for the nested clade phylogeographic analysis?. Mol. Ecol. 17 (2008) 516-518
36. Posada D., and Crandall K.A. Modeltest: testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
37. Posada D., Crandall K.A., and Templeton A.R. GeoDis: a program for the cladistic nested analysis of the geographical distribution of genetic haplotypes. Mol. Ecol. 9 (2000) 487-488
38. Pregill G.K., and Olson S.L. Zoogeography of West Indian vertebrates in relation to Pleistocene climatic cycles. Annu. Rev. Ecol. Syst. 12 (1981) 75-98
39. Rambaut, A., Drummond, A.J., 2007. Tracer v1.4. Available from: .
40. Reading C.J., and Jofré G.M. Reproduction in the nest building vizcacheras frog Leptodactylus bufonius in central Argentina. Amphibia-Reptilia 24 (2003) 415-427
41. Ricklefs R., and Bermingham E. West Indies as a laboratory of biogeography and evolution. Philos. Trans. R. Soc. B 363 (2007) 2393-2413
42. Swofford D.L. PAUP*: Phylogenetic Analysis using Parsimony (* and other methods). Version 4.0b10 (2002), Sinauer Associates, Sunderland, Massachusetts
43. Templeton A.R. Statistical phylogeography: methods of evaluating and minimizing inference errors. Mol. Ecol. 13 (2004) 789-809
44. Templeton A.R. Nested clade analysis: an extensively validated method for strong phylogeographic inference. Mol. Ecol. 17 (2008) 1877-1880
45. Templeton A.R. Why does a method that fails continue to be used? The answer. Evolution 63 (2009) 807-812
46. Templeton A.R. Statistical hypothesis testing in intraspecific phylogeography: nested clade phylogeographical analysis vs. approximate Bayesian computation. Mol. Ecol. 18 (2009) 319-331
47. Templeton A.R., Crandall K.A., and Sing C.F. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data: III. Cladogram estimation. Genetics 132 (1992) 619-633
48. Templeton A.R., Routman E., and Phillips C.R. Separating population structure from population history: a cladistic analysis of the geographical distribution of mitochondrial DNA haplotypes in the tiger salamander, Ambystoma tigrinum. Genetics 140 (1995) 767-782
49. Wilson S.M. The Archaeology of the Caribbean (2007), Cambridge University Press, New York
50. Yanek K., Heyer W.R., and de Sá R.O. Genetic resolution of the enigmatic Lesser Antillean distribution of the frog Leptodactylus validus (Anura: Leptodactylidae). S. Am. J. Herpetol. 1 (2006) 192-201