Phylogeny and biogeographical history of Trogoniformes, a pantropical bird order

Biological Journal of the Linnean Society

Volumn 84, Issue 4, 2005, Pages 725-738

  Moyle, Robert G ^a  

^a DIVISION OF INVERTEBRATE ZOOLOGY   (United States)

Author keywords

Dispersal; Gondwana; Laurasia; Molecular clock; Tertiary; Vicariance

Indexed keywords

PHYLOGENY;

AVES; EUPTILOTIS; PHAROMACHRUS; PRIOTELUS; TROGON; TROGONIDAE; TROGONIFORMES;

EID: 17044368783     PISSN: 00244066     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1095-8312.2005.00435.x     Document Type: Article

References (70)

1. Barker FK, Barrowclough GF, Groth JG. 2002. A phylogenetic hypothesis for passerine birds: taxonomic and biogeographic implications of an analysis of nuclear DNA sequence data. Proceedings of the Royal Society of London B 269: 295-308.
2. Bremer K. 1992. Ancestral areas - a cladistic reinterpretation of the center of origin concept. Systematic Biology 41: 436-445.
3. Bremer K. 1995. Ancestral areas - optimization and probability. Systematic Biology 44: 255-259.
4. Brodkorb P. 1971. Catalogue of fossil birds: part 4 (Columbiformes through Piciformes). Bulletin of the Florida State Museum, Biological Sciences 15: 163-266.
5. Buckley TR, Cunningham CW. 2002. The effects of nucleotide substitution model assumptions on estimates of nonparametric bootstrap support. Molecular Biology and Evolution 19: 394-405.
6. Chanderbali A, van der Werff H, Renner SS. 2001. Phylogeny and historical biogeography of Lauraceae: evidence from chloroplast and nuclear genomes. Annals of the Missouri Botanical Garden 88: 104-134.
7. Cicero C, Johnson NK. 2001. Higher-level phylogeny of New World vireos (Aves: Vireonidae) based on sequences of multiple mitochondrial DNA genes. Molecular Phylogenetics and Evolution 20: 27-40.
8. Cooper A, Penny D. 1997. Mass survival of birds across the Cretaceous-Tertiary boundary: molecular evidence. Science 275: 1109-1113.
9. Courtillot V, Jaupart C, Manighetti I, Tapponnier P, Besse J. 1999. On causal links between flood basalts and continental breakup. Earth and Planetary Science Letters 166: 177-195.
10. Cracraft J. 1973. Continental drift, paleoclimatology, and the evolution and biogeography of birds. Journal of Zoology 169: 455-545.
11. Cracraft J. 1974. Continental drift and vertebrate distribution. Annual Review of Ecology and Systematics 5: 215-261.
12. Cracraft J. 2001. Avian evolution, Gondwana biogeography and the Cretaceous-Tertiary mass extinction event. Proceedings of the Royal Society of London B 268: 459-469.
13. Crowley TJ, North GR. 1991. Paleoclimatology. New York: Oxford University Press.
14. Davis CC, Bell CD, Mathews S, Donoghue MJ. 2002. Laurasian migration explains Gondwanan disjunctions: evidence from Malpighiaceae. Proceedings of the National Academy of Sciences, USA 99: 6833-6837.
15. Espinosa de los Monteros A. 1998. Phylogenetic relationships among the Trogons. Auk 115: 937-954.
16. Espinosa de los Monteros A. 2000. Higher-level phylogeny of Trogoniformes. Molecular Phylogenetics and Evolution 14: 20-34.
17. Farris JS, Kallersjo M, Kluge AG, Bult C. 1994. Testing significance of incongruence. Cladistics 10: 315-319.
18. Farris JS, Kallersjo M, Kluge AG, Bult C. 1995. Constructing a significance test for incongruence. Systematic Biology 44: 570-572.
19. Feduccia A. 1995. Explosive evolution in Tertiary birds and mammals. Science 267: 637-638.
20. Feduccia A. 1999. The origin and evolution of birds. New Haven, CT: Yale University Press.
21. Feduccia A. 2003. 'Big bang' for tertiary birds? Trends in Ecology and Evolution 18: 172-176.
22. Felsenstein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
23. Fleischer RC, McIntosh CE, Tarr CL. 1998. Evolution on a volcanic conveyor belt: using phylogeographic reconstructions and K-Ar-based ages of the Hawaiian Islands to estimate molecular evolutionary rates. Molecular Ecology 7: 533-545.
24. Frakes LA, Francis JE, Syktus JI. 1992. Climate modes of the Phanerozoic. Cambridge: Cambridge University Press.
25. Goldman N, Anderson JP, Rodrigo AG. 2000. Likelihood-based tests of topologies in phylogenetics. Systematic Biology 49: 652-670.
26. Groth JG, Barrowclough GF. 1999. Basal divergences in birds and the phylogenetic utility of the nuclear RAG-1 gene. Molecular Phylogenetics and Evolution 12: 115-123.
27. Hackett SJ. 1996. Molecular phylogenetics and biogeography of tanagers in the genus Ramphocelus (Aves). Molecular Phylogenetics and Evolution 5: 368-382.
28. Hedges BS, Parker PH, Sibley CG, Kumar S. 1996. Continental breakup and the ordinal diversification of birds and mammals. Nature 381: 226229.
29. Hillis DM, Bull JJ. 1993. An empirical-test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Systematic Biology 42: 182-192.
30. Huelsenbeck JP, Larget B, Miller RE, Ronquist F. 2002. Potential applications and pitfalls of Bayesian inference of phylogeny. Systematic Biology 51: 673-683.
31. Huelsenbeck JP, Ronquist F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755.
32. Johansson US, Ericson PGP. 2003. Molecular support for a sister group relationship between Pici and Galbulae (Piciformes sensu Wetmore 1960). Journal of Avian Biology 34: 185-197.
33. Johansson US. 1998. The early evolution of the Trogonidae. Ostrich 69: 402.
34. Johnson KP, Sorenson MD. 1998. Comparing molecular evolution in two mitochondrial protein coding genes (cytochrome b and ND2) in the dabbling ducks (Tribe: Anatini). Molecular Phylogenetics and Evolution 10: 82-94.
35. Kirchman JJ, Hackett SJ, Goodman SM, Bates JM. 2001. Phylogeny and systematics of ground rollers (Brachypteraciidae) of Madagascar. Auk 118: 849-863.
36. Kishino H, Miyata T, Hasegawa M. 1990. Maximum-likelihood inference of protein phylogeny and the origin of chloroplasts. Journal of Molecular Evolution 31: 151-160.
37. Kristoffersen AV. 2002. An early Paleogene trogon (Aves: Trogoniformes) from the Fur formation, Denmark. Journal of Vertebrate Paleontology 22: 661666.
38. Lavin M, Luckow M. 1993. Origins and relationships of tropical North America in the context of the Boreotropics hypothesis. American Journal of Botany 80: 1-14.
39. Leache AD, Reeder TW. 2002. Molecular systematics of the Eastern Fence Lizard (Sceloporus undulatus): a comparison of parsimony, likelihood, and Bayesian approaches. Systematic Biology 51: 44-68.
40. Maurer D, Raikow RJ. 1981. Appendicular myology, phylogeny, and classification of the avian order Coraciiformes (including Trogoniformes). Annals of the Carnegie Museum of Natural History 50: 417-434.
41. Mayr E. 1946. History of the North American bird fauna. Wilson Bulletin 58: 3-41.
42. Mayr G. 1999. A new trogon from the Middle Oligocene of Cereste, France. Auk 116: 427-434.
43. Mayr G. 2003. On the phylogenetic relationships of trogons (Aves: Trogonidae). Journal of Avian Biology 34 (1): 81-88.
44. Mayr G, Clarke J. 2003. The deep divergences of neornithine birds: a phylogenetic analysis of morphological characters. Cladistics 16 (9): 527-553.
45. Milne-Edwards A. 1867-1871. Recherches anatomiques et paléontologiques pour servir à l'histoire des oiseaux fossiles de la France. Paris: Victor Masson et Fils.
46. Moyle RG. 2002. Molecular systematics of barbets and trogons: pantropical biogeography, African speciation, and issues in phylogenetic inference. Baton Rouge: Department of Biological Sciences, Louisiana State University, 158.
47. Moyle RG. 2004. Phylogenetics of barbets (Aves: Piciformes) based on nuclear and mitochondrial DNA sequence data. Molecular Phylogenetics and Evolution 30: 187-200.
48. Olson SL. 1976. Oligocene fossils bearing on the origins of the Todidae and Momotidae (Aves: Coraciiformes). Smithosonian Contributions to Paleobiology 27: 111-119.
49. Olson SL. 1989. Apsects of the global avifaunal dynamics during the Cenozoic. In: Oullet H, ed. 19th international ornithological congress. University of Ottawa Press, 2023-2029.
50. Paton T, Haddrath O, Baker AJ. 2002. Complete mitochondrial DNA genome sequences show that modern birds are not descended from transitional shorebirds. Proceedings of the Royal Society of London B 269: 839-846.
51. Posada D, Crandall KA. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817-818.
52. Rambaut A, Bromham L. 1998. Estimating divergence dates from molecular sequences. Molecular Biology and Evolution 15 (4): 442-448.
53. Rambaut A, Charleston MA. 2002. TreeEdit. 1.0a10, ed. Available at http://www.evolve.zoo.oxford.ac.uk
54. Renner SS, Clausing G, Meyer K. 2001. Historical biogeography of Melastomataceae: the roles of Tertiary migration and long-distance dispersal. American Journal of Botany 88: 1290-1300.
55. Ronquist F. 1997. Dispersal-vicariance analysis: a new approach to the quantification of historical biogeography. Systematic Biology 46: 195-203.
56. Sanderson MJ. 1997. A nonparametric approach to estimating divergence times in the absence of rate constancy. Molecular Biology and Evolution 14: 1218-1231.
57. Shimodaira H. 2002. An approximately unbiased test of phylogenetic tree selection. Systematic Biology 51: 492-508.
58. Shimodaira H, Hasegawa M. 1999. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Molecular Biology and Evolution 16: 1114-1116.
59. Sibley CG, Ahlquist JE. 1990. Phylogeny and classification of birds. New Haven, CT: Yale University Press.
60. Smith AG, Smith DG, Funnell BM. 1994. Atlas of Mesozoic and Cenozoic coastlines. Cambridge: Cambridge University Press.
61. Sorenson MD, Oneal E, Garcia-Moreno J, Mindell DP. 2003. More taxa, more characters: the hoatzin problem is still unresolved. Molecular Biology and Evolution 20: 1484-1498.
62. Strimmer K, Rambaut A. 2002. Inferring confidence sets of possibly misspecified gene trees. Proceedings of the Royal Society of London B 269: 137-142.
63. Suzuki Y, Glazko GV, Nei M. 2002. Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics. Proceedings of the National Academy of Sciences, USA 99: 16138-16143.
64. Swofford DL. 2002. PAUP*: phylogenetic analysis using parsimony (*and other methods). Version 4.0b10. Sunderland, MA: Sinauer Associates.
65. van Tuinen M, Hedges BS. 2001. Calibration of avian molecular clocks. Molecular Biology and Evolution 18: 206-213.
66. Whittingham LA, Slikas B, Winkler DW, Sheldon FH. 2002. Phylogeny of the tree swallow genus, Tachycineta (Aves: Hirundinidae), by Bayesian analysis of mitochondrial DNA sequences. Molecular Phylogenetics and Evolution 22: 430-441.
67. Wilkinson M. 1996. Majority-rule reduced consensus trees and their use in bootstrapping. Molecular Biology and Evolution 13: 437-444.
68. Yang Z. 1994a. Estimating the pattern of nucleotide substitution. Journal of Molecular Evolution 39: 105-111.
69. Yang Z. 1994b. Maximum-likelihood phylogenetic estimation from DNA-sequences with variable rates over sites - approximate methods. Journal of Molecular Evolution 39: 306-314.
70. Zharkikh A, Li WH. 1992. Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences. I. Four taxa with a molecular clock. Molecular Biology and Evolution 9: 1119-1147.