Phylogenetics and biogeography of the broad-nosed bats, genus Platyrrhinus (Chiroptera: Phyllostomidae)

Molecular Phylogenetics and Evolution

Volumn 49, Issue 3, 2008, Pages 749-759

  Velazco, Paúl M ^a,b   Patterson, Bruce D ^a  

^a FIELD MUSEUM OF NATURAL HISTORY   (United States)

^b UNIVERSITY OF ILLINOIS AT CHICAGO   (United States)

Author keywords

Biogeography; Broad nosed bat; Chiroptera; mtDNA; nDNA; Neotropics; Phyllostomidae; Platyrrhinus; Systematics

Indexed keywords

CYTOCHROME B; MITOCHONDRIAL DNA; REDUCED NICOTINAMIDE ADENINE DINUCLEOTIDE DEHYDROGENASE;

ANIMAL; ARTICLE; BAT; BAYES THEOREM; CENTRAL AMERICA; CLASSIFICATION; DNA SEQUENCE; GENETICS; GEOGRAPHY; MITOCHONDRIAL GENE; MITOCHONDRION; MOLECULAR EVOLUTION; PHYLOGENY; SEQUENCE ALIGNMENT; SOUTH AMERICA; SPECIES DIFFERENTIATION; STATISTICAL MODEL;

ANIMALS; BAYES THEOREM; CENTRAL AMERICA; CHIROPTERA; CYTOCHROMES B; DNA, MITOCHONDRIAL; EVOLUTION, MOLECULAR; GENES, MITOCHONDRIAL; GENETIC SPECIATION; GEOGRAPHY; LIKELIHOOD FUNCTIONS; MITOCHONDRIA; NADH DEHYDROGENASE; PHYLOGENY; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SOUTH AMERICA;

CHIROPTERA; PHYLLOSTOMIDAE; PLATYRRHINUS; PLATYRRHINUS BRACHYCEPHALUS; PLATYRRHINUS HELLERI;

EID: 56549130699     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2008.09.015     Document Type: Article

References (74)

1. Alberico M.S. A new species of pocket gopher (Rodentia: Geomyidae) from South America and its biogeographic significance. In: Peters G., and Hutterer R. (Eds). Vertebrates in the tropics (1990), Museum Alexander Koenig, Bonn 103-111
2. Albuja L. Murciélagos del Ecuador (1999), Quito, Ecuador
3. Baker R.J., Hoofer S.R., Porter C.A., and Van den Bussche R.A. Diversification among New World leaf-nosed bats: An evolutionary hypothesis and classification inferred from digenomic congruence of DNA sequence. Occas. Pap. Mus. Texas Tech University (2003) 230 i+1-32.
4. Baker R.J., Porter C.A., Patton J.C., and Van den Bussche R.A. Systematics of bats of the family Phyllostomidae based on RAG2 DNA sequences. Occas. Pap., Mus. Texas Tech University (2000) 202 i+1-16
5. Barker F.K., and Lutzoni F.M. The utility of the incongruence length difference test. Syst. Biol. 51 (2002) 625-637
6. Bates J.M., Hackett S.J., and Cracraft J. Area-relationships in the Neotropical lowlands: an hypothesis based on raw distributions of passerine birds. J. Biogeogr. 25 (1998) 783-793
7. Bush M.B. Amazonian speciation: a necessarily complex model. J. Biogeogr. 21 (1994) 5-17
8. Cracraft J. Deep-history biogeography: retriving the historical pattern of evolving continental biotas. Syst. Zool. 37 (1988) 221-236
9. Cracraft J., and Prum R.O. Patterns and processes of diversification: speciation and historical congruence in some Neotropical birds. Evolution 42 (1988) 603-620
10. Cunningham C.W. Can three incongruence tests predict when data should be combined? Mol. Biol. Evol. 14 (1997) 733-740
11. Czaplewski N.J., and Cartelle C. Pleistocene bats from cave deposits in Bahia, Brazil. J. Mamm. 79 (1998) 784-803
12. Silva N.J., and Sites J.W. Patterns of diversity of Neotropical squamate reptile species, with emphasis on the Brazilian Amazon and the conservation potential of Indigenous Reserves. Cons. Biol. 9 (1995) 873-901
13. Davis L.G., Dibner D., and Battey J.F. Basic Methods in Molecular Biology (1986), Elsevier, New York
14. Douzery E., and Randi E. The mitochondrial control region of Cervidae: Evolutionary patterns and phylogenetic content. Mol. Biol. Evol. 14 (1997) 1154-1166
15. Eberhard J.R., and Bermingham E. Phylogeny and comparative biogeography of Pionopsitta parrots and Pteroglossus toucans. Mol. Phylogenet. Evol. 36 (2005) 288-304
16. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 (1985) 783-791
17. Ferreira J.M., Martins F.D., Ditchfield A., and Morgante J.S. The use of PCR-RFLP as an identification tool for two closely related species of bats of genus Platyrrhinus. Genet. Mol. Biol. 28 (2005) 120-122
18. Fracasso M.P.D., and Salles L.D. Diversity of Quaternary bats from Serra da Mesa (State of Goias, Brazil). Zootaxa 817 (2005) 1-19
19. Gardner A.L. Two new mammals from southern Venezuela and comments on the affinities of the highland fauna of Cerro de la Neblina. In: Redford K.H., and Eisenberg J.F. (Eds). Advances in Neotropical mammalogy (1989), Sandhill Crane Press, Gainesville, Florida 411-424
20. Goldman N., Anderson J.P., and Rodrigo A.G. Likelihood-based tests of topologies in phylogenetics. Syst. Biol. 49 (2000) 652-670
21. Haffer J. Alternative models of vertebrate speciation in Amazonia: an overview. Biodivers. Conserv. 6 (1997) 451-476
22. Hoffmann F.G., and Baker R.J. Systematics of bats of the genus Glossophaga (Chiroptera: Phyllostomidae) and phylogeography in Glossophaga soricina based on the cytochrome- b gene. J. Mamm. 82 (2001) 1092-1101
23. Hoffmann F.G., Owen J.G., and Baker R.J. mtDNA perspective of chromosomal diversification and hybridization in Peters' tent-making bat (Uroderma bilobatum: Phyllostomidae). Mol. Ecol. 12 (2003) 2981-2993
24. Hoofer S.R., and Baker R.J. Molecular systematics of Vampyressine bats (Phyllostomidae: Stenodermatinae) with comparison of direct and indirect surveys of mitochondrial DNA variation. Mol. Phylogenet. Evol. 39 (2006) 424-438
25. Huchon D., Delsuc F., Catzeflis F.M., and Douzery E.J.P. Armadillos exhibit less genetic polymorphism in North America than in South America: nuclear and mitochondrial data confirm a founder effect in Dasypus novemcinctus (Xenarthra). Mol. Ecol. 8 (1999) 1743-1748
26. Huelsenbeck J.P., and Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17 (2001) 754-755
27. Irwin D.M., Kocher T.D., and Wilson A.C. Evolution of the cytochrome b gene of mammals. J. Mol. Evol. 32 (1991) 128-144
28. Jones K.E., Purvis A., MacLarnon A., Bininda-Emonds O.R.P., and Simmons N.B. A phylogenetic supertree of the bats (Mammalia: Chiroptera). Biol. Rev. 77 (2002) 223-259
29. Koopman K.F. Zoogeography of Peruvian bats with special emphasis on the role of the Andes. Am. Mus. Nov. 2651 (1978) 1-33
30. Koopman K.F. Biogeography of the bats of South America. In: Mares M.A., and Genoways H.H. (Eds). Mammalian biology in South America (1982), University of Pittsburgh, Pittsburgh, Pennsylvania 273-302
31. Koopman K.F. Chiroptera: Systematics (1994), Walter de Gruyter, New York
32. Lim B.K. Cladistic reappraisal of Neotropical stenodermatine bat phylogeny. Cladistics 9 (1993) 147-165
33. Lim B.K. Divergence times and origin of Neotropical sheath-tailed bats (Tribe Diclidurini) in South America. Mol. Phylogenet. Evol. 45 (2007) 777
34. Lim B.K., Engstrom M.D., Lee T.E., Patton J.C., and Bickham J.W. Molecular differentiation of large species of fruit-eating bats (Artibeus) and phylogenetic relationships based on the cytochrome b gene. Acta Chiropterol. 6 (2004) 1-12
35. Lim B.K., Pedro W.A., and Passos F.C. Differentiation and species status of the Neotropical yellow-eared bats Vampyressa pusilla and V. thyone (Phyllostomidae) with a molecular phylogeny and review of the genus. Acta Chiropterol. 5 (2003) 15-29
36. Lloyd B.D. Intra-specific phylogeny of the New Zealand short-tailed bat Mystacina tuberculata inferred from multiple mitochondrial gene sequences. Syst. Biol. 52 (2003) 460-476
37. Maddison D.R. The discovery and importance of multiple islands of most-parsimonious trees. Syst. Zool. 40 (1991) 315-323
38. Marroig G., and Cerqueira R. Plio-pleistocene South American history and the Amazon lagoon hypothesis: a piece in the puzzle of Amazonian diversification. J. Comp. Biol. 2 (1997) 103-119
39. Owen R.D. Phylogenetic analyses of the bat subfamily Stenodermatinae (Mammalia: Chiroptera). Spec. Pub., Mus. Texas Tech University 26 (1987) 1-65
40. Owen R.D. Phenetic analyses of the bat subfamily Stenodermatinae (Chiroptera, Phyllostomidae). J. Mamm. 69 (1988) 795-810
41. Paradis E., Claude J., and Strimmer K. APE: analyses of phylogenetics and evolution in R language. Bioinformatics 20 (2004) 289-290
42. Patterson B.D., Pacheco V., and Ashley M.V. On the origins of the western slope region of endemism: Systematics of fig-eating bats, genus Artibeus. In: Young K.R., and Valencia N. (Eds). Biogeografía, Ecología y Conservación Del Bosque Montano en el Perú (1992), Universidad Nacional Mayor de San Marcos, Lima 189-205
43. Patton J.L., and Da Silva M.N.F. Rivers, refuges, and bridges: the geography of speciation of Amazonian mammals. In: Howard D.J., and Berlocher S.H. (Eds). Endless forms: Species and Speciation (1998), Oxford University Press, Oxford 202-213
44. Patton J.L., Da Silva M.N.F., Lara M.C., and Mustrangi M.A. Diversity, differentiation, and the historical biogeography of nonvolant small mammals of the Neotropical forests. In: Laurence W.F., and Bierregaard R.O.J. (Eds). Tropical Forest Remnants: Ecology. Management, and Conservation of Fragmented Communities (1997), University of Chicago Press, Chicago 455-465
45. Patton J.L., Myers P., and Smith M.F. Vicariant versus gradient models of diversification: the small mammal fauna of eastern Andean slopes of Peru. In: Peters G., and Hutterer R. (Eds). Biogeography and systematics in the tropics, Bonn, June 5-8 1989 (1990), Alexander Koenig Zoological Research Institute and Zoological Museum, Bonn 355-371
46. Porter C.A., and Baker R.J. Systematics of Vampyressa and related genera of phyllostomid bats as determined by cytochrome- b sequences. J. Mamm. 85 (2004) 126-132
47. Posada D., and Crandall K.A. MODELTEST: testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
48. Prum, R.O., 1988. Historical relationships among avian forest areas of endemism in the Neotropics. In: Ouellet, H. (Ed.), Acta XIX Congressus Internationalis Ornithologici,. XIX Internat. Ornithol. Congr., Ottawa, Canada, pp. 2562-2572.
49. R-Development-Core-Team, 2008. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. Available from: ISBN 3-900051-07-0, URL http://www.R-project.org.
50. Rambaut, A., Drummond, A., 2003. Tracer MCMC trace analysis tool. University of Oxford, Oxford, UK. Available from: http://evolve.zoo.ox.ac.uk/software.html.
51. Ree R.H., Moore B.R., Webb C.O., and Donoghue M.J. A likelihood framework for inferring the evolution of geographic range on phylogenetic trees. Evolution 59 (2005) 2299-2311
52. Ree R.H., and Smith S.A. Maximum likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis. Syst. Biol. 57 (2008) 4-14
53. Ron S.R. Biogeographic area relationships of lowland Neotropical rainforest based on raw distributions of vertebrate groups. Biol. J. Linn. Soc. 71 (2000) 379-402
54. Ronquist, F., 1996. Diva v. 1.1 Computer program and manual. Available by anonymous ftp via Available from: http://www.ebc.uu.se/systzoo/research/diva/diva.html from Uppsala University, Uppsala, Sweden.
55. Ronquist F. Dispersal-vicariance analysis: A new approach to the quantification of historical biogeography. Syst. Biol. 46 (1997) 195-203
56. Russell A.M., and McCracken G.F. Population genetics structuring of very large populations: the Brazilian free-tailed bat (Tadarida brasiliensis). In: Azbar Z., McCracken G.F., and Kunz T.H. (Eds). Functional and Evolutionary Ecology of Bats (2006), Oxford University Press, New York 227-247
57. Salo J. Pleistoicene forest refuges in the Amazon: evaluating of the biostratigraphical, lithostratigraphical and geomorphological data. Ann. Zool. Fennici 24 (1987) 203-211
58. Sanderson M.J. A nonparametric approach to estimating divergence times in the absence of rate constancy. Mol. Biol. Evol. 14 (1997) 1218-1231
59. Shimodaira H., and Hasegawa M. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol. Biol. Evol. 16 (1999) 1114-1116
60. Shimodaira H., and Hasegawa M. CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 17 (2001) 1246-1247
61. Swofford, D.L., 1998. PAUP*: phylogenetic analysis using parsimony (* and other methods), v. 4.0 b10. Sinauer associates Inc., Sunderland, Massachusetts.
62. Teeling E.C., Scally M., Kao D.J., Romagnoli M.L., Springer M.S., and Stanhope M.J. Molecular evidence regarding the origin of echolocation and flight in bats. Nature 403 (2000) 188-192
63. Van Den Bussche R.A., Hudgeons J.L., and Baker R.J. Phylogenetic accuracy. In: Kunz T.H., and Racey P.A. (Eds). Bat Biology and Conservation, Stability, and Congruence: Relationships Within and Among the New World Bat Genera Artibeus, Dermanura, and Koopmania (1998), Smithsonian Institution Press, Washington, DC 59-71
64. Velazco P.M. Morphological phylogeny of the bat genus Platyrrhinus Saussure, 1860 (Chiroptera: Phyllostomidae) with the description of four new species. Fieldiana Zool. 105 (2005) 1-53
65. Velazco P.M., and Solari S. Taxonomy of Platyrrhinus dorsalis and Platyrrhinus lineatus (Chiroptera: Phyllostomidae) in Peru. Mastozool. Neotrop. 10 (2003) 303-319
66. Wallace R.B., Painter R.E.L., Taber A.B., and Ayres J.M. Notes on a distributional river boundary and southern range extension for two species of Amazonian primates. Neotrop. Primates 4 (1996) 149-151
67. Weir J.T. Divergent timing and patterns of species accumulation in lowland and highland neotropical birds. Evolution 60 (2006) 842-855
68. Wetterer A.L., Rockman M.V., and Simmons N.B. Phylogeny of phyllostomid bats (Mammalia: Chiroptera): data from diverse morphological systems, sex chromosomes, and restriction sites. Bull. Am. Mus. Nat. Hist. 248 (2000) 1-200
69. Wilkinson G.S., and Fleming T.H. Migration and evolution of lesser long-nosed bats Leptonycteris curasoae, inferred from mitochondrial DNA. Mol. Ecol. 5 (1996) 329-339
70. Willig M.R., and Hollander R.R. Vampyrops lineatus. Mamm. Species 275 (1987) 1-4
71. Willis S.C., Nunes M.S., Montaña C.G., Farias I.P., and Lovejoy N.R. Systematics, biogeography, and evolution of the Neotropical peacock basses Cichla (Perciformes: Cichlidae). Mol. Phylogenet. Evol. 44 (2007) 291-307
72. Yoder A.D., Irwin J.A., and Payseur B.A. Failure of the ILD to determine data combinability for slow loris phylogeny. Syst. Biol. 50 (2001) 408-424
73. Zamudio K.R., and Greene H.W. Phylogeography of the bushmaster (Lachesis muta: Viperidae): implications for neotropical biogeography, systematics, and conservation. Biol. J. Linn. Soc. 62 (1997) 421-442
74. Zwickl, D.J., 2006. Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion. Ph.D. dissertation, The University of Texas at Austin, Austin.