Comparative phylogeography of Atlantic reef fishes indicates both origin and accumulation of diversity in the Caribbean

BMC Evolutionary Biology

Volumn 8, Issue 1, 2008, Pages

  Rocha, Luiz A ^a   Rocha, Claudia R ^a   Robertson, D Ross ^b   Bowen, Brian W ^a  

^a UNIVERSITY OF HAWAII   (United States)

^b SMITHSONIAN TROPICAL RESEARCH INSTITUTE   (Panama)

Author keywords

[No Author keywords available]

Indexed keywords

CYTOCHROME B; MITOCHONDRIAL DNA;

ARTICLE; ATLANTIC ISLANDS; BIOGEOGRAPHY; CENTRAL AMERICA; GENETIC DATABASE; HAPLOTYPE; NONHUMAN; PHYLOGENY; PHYLOGEOGRAPHY; STATISTICAL SIGNIFICANCE; TROPICS; ANIMAL; BIODIVERSITY; CLASSIFICATION; COMPARATIVE STUDY; DNA SEQUENCE; FISH; GENETICS; GEOGRAPHY; POPULATION MIGRATION; SPECIES DIFFERENTIATION;

CHROMIS MULTILINEATA; LABRIDAE; PISCES; POMACENTRIDAE; SCARIDAE;

ANIMAL MIGRATION; ANIMALS; BIODIVERSITY; CARIBBEAN REGION; FISHES; GENETIC SPECIATION; GEOGRAPHY; HAPLOTYPES; PHYLOGENY; SEQUENCE ANALYSIS, DNA;

EID: 44949141463     PISSN: None     EISSN: 14712148     Source Type: Journal    
DOI: 10.1186/1471-2148-8-157     Document Type: Article

References (93)

1. Zoogeography of the Sea. S Ekman, London, Sidgwick and Jackson 1953
2. Operation of zoogeographic barriers. JC Briggs, Syst Zool 1974 23 248 256
3. Corals in space and time: biogeography and evolution of the Scleractinia. JE Veron, Ithaca, NY, Cornell University Press 1995 321
4. What can molecular genetics contribute to marine biogeography? An urchin's tale. SR Palumbi, J Exp Mar Biol Ecol 1996 203 1 75 92
5. Diversity and distribution of reef organisms. G Paulay, Life and death on coral reefs New York, Chapman & Hall, Birkeland CE, 1997 298 353
6. Zoogeography of shore fishes of the Indo-Pacific region. JE Randall, Zool Studies 1998 37 4 227 268
7. Regional-scale assembly rules and biodiversity of coral reefs. DR Bellwood TP Hughes, Science 2001 292 5521 1532 1535 11375488
8. Environmental and geometric constraints on Indo-Pacific coral reef biodiversity. DR Bellwood TP Hughes SR Connoly J Tanner, Ecol Lett 2005 8 6 643 651
9. On the origin of species by means of natural selection or preservation of favoured races in the struggle for life. C Darwin, London, Murray 1859
10. The marine East Indies: diversity and speciation. JC Briggs, J Biogeogr 2005 32 1517 1522
11. Do centers of origin have a center? JC Briggs, Paleobiology 1981 7 4 305 307
12. Centers of origin in biogeography. JC Briggs, Biogeography Monograph Leeds, University of Leeds 1984 1
13. Historical biogeography of the Indo-western Pacific coral reef biota: is the Indonesian region a centre of origin? F Santini R Winterbottom, J Biogeogr 2002 29 189 205
14. Patterns and processes in reef fish diversity. C Mora PM Chittaro PF Sale JP Kritzer SA Ludsin, Nature 2003 421 933 936 12606998
15. Origin of the Pacific island molluscan fauna. HS Ladd, Am J Sci 1960 258A 137 150
16. The vortex model of coral reef biogeography. PL Jokiel FJ Martinelli, J Biogeogr 1992 19 449 458
17. Indo-Pacific biodiversity of coral reefs: Deviations from a mid-domain model. RC Connolly DR Bellwood GH Hughes, Ecology 2003 84 8 2178 2190
18. Speciation and diversity on tropical rocky shores: a global phylogeny of snails of the genus Echinolittorina. ST Williams DG Reid, Evolution 2004 58 10 2227 2251 15562687
19. Fine scale endemism on coral reefs: Archipelagic differentiation in turbinid gastropods. CP Meyer JB Geller G Paulay, Evolution 2005 59 1 113 125 15792232
20. Evolution of coral reef fish Thalassoma spp. (Labridae). 1. Molecular phylogeny and biogeography. G Bernardi G Bucciarelli D Costagliola DR Robertson JB Heiser, Mar Biol 2004 144 369 375
21. Biodiversity hotspots: evolutionary origins of biodiversity in wrasses (Halichoeres: Labridae) in the Indo-Pacific and new world tropics. PH Barber DR Bellwood, Mol Phylogenet Evol 2005 35 235 253 15737594
22. Molecular biogeography of the Pacific. SR Palumbi, Coral Reefs 1997 16 S47 S52
23. Population growth makes waves in the distribution of pairwise genetic distances. AR Rogers HC Harpending, Mol Biol Evol 1992 9 552 569 1316531
24. Phylogeography: the history and formation of species. JC Avise, Cambridge, Harvard University Press 2000 447
25. Methods in comparative phylogeography, and their application to studying evolution in the North American Aridlands. RM Zink, Integr Comp Biol 2002 42 5 953 959
26. Mitochondrial DNA variation in Indo-Pacific populations of the giant tiger prawn, Penaeus monodon. JAH Benzie E Ballment AT Forbes NT Demetriades K Sugama Haryanti S Moria, Mol Ecol 2002 11 2553 2569 12453239
27. Marine Zoogeography. JC Briggs, New York, McGraw-Hill 1974
28. Phylogeography and the conservation of coral reef fishes. LA Rocha MT Craig BW Bowen, Coral Reefs 2007 26 3 501 512
29. Reef fishes of St. Pauls Rocks: new records and notes on biology and zoogeography. BM Feitoza LA Rocha OJ Luiz-Junior SR Floeter JL Gasparini, aqua, J Ichthyol Aquat Biol 2003 7 2 61 82
30. Patterns of distribution and processes of speciation in Brazilian reef fishes. LA Rocha, J Biogeogr 2003 30 1161 1171
31. Phylogeography of Ophioblennius: the role of ocean currents and geography in reef fish evolution. A Muss DR Robertson CA Stepien P Wirtz BW Bowen, Evolution 2001 55 3 561 572 11327163
32. Phylogeography of the pantropical sea urchin Tripneustes: contrasting patterns of population structure between oceans. HA Lessios J Kane DR Robertson, Evolution 2003 57 9 2026 2036 14575324
33. Population structure and speciation in tropical seas: global phylogeography of the sea urchin Diadema. HA Lessios BD Kessing JS Pearse, Evolution 2001 55 5 955 975 11430656
34. Adult habitat preferences, larval dispersal, and the comparative phylogeography of three Atlantic surgeonfishes (Teleostei: Acanthuridae). LA Rocha AL Bass DR Robertson BW Bowen, Mol Ecol 2002 11 243 252 11856425
35. Recent invasion of the tropical Atlantic by an Indo-Pacific coral reef fish. LA Rocha DR Robertson CR Rocha JL Van Tassell MT Craig BW Bowen, Mol Ecol 2005 14 13 3921 3928 16262848
36. Ecological speciation in tropical reef fishes. LA Rocha DR Robertson J Roman BW Bowen, Proc Biol Sci 2005 272 1563 573 579 15817431
37. Phylogeography of two Atlantic squirrelfishes (Family Holocentridae): exploring links between pelagic larval duration and population connectivity. BW Bowen AL Bass A Muss JL Carlin DR Robertson, Mar Biol 2006 149 4 899 913
38. Mechanisms of speciation and faunal enrichment in Atlantic parrotfishes. DR Robertson F Karg RL de Moura B Victor G Bernardi, Mol Phylogenet Evol 2006 40 795 807 16759882
39. Genetic evidence for a Pleistocene population explosion. AR Rogers, Evolution 1995 49 608 615
40. Atlantic reef fish biogeography and evolution. SR Floeter LA Rocha DR Robertson JC Joyeux WF Smith-Vaniz P Wirtz A Edwards JP Barreiros CEL Ferreira JL Gasparini A Brito JM Falcon BW Bowen G Bernardi, J Biogeogr 2008 35 1 22 47
41. Mitochondrial DNA and color pattern variation in three western Atlantic Halichoeres (Labridae), with the revalidation of two species. LA Rocha, Copeia 2004 2004 4 770 782
42. Shallow mtDNA coalescence in Atlantic pygmy angelfishes (Genus Centropyge) indicates a recent invasion from the Indian Ocean. BW Bowen A Muss LA Rocha WS Grant, J Hered 2006 97 1 1 12 16394255
43. Marine radiations at small geographic scales: speciation in neotropical reef gobies (Elacatinus). MS Taylor ME Hellberg, Evolution 2005 59 2 374 385 15807422
44. Comparative phylogeography in a genus of coral reef fishes: biogeographic and genetic concordance in the Caribbean. MS Taylor ME Hellberg, Mol Ecol 2006 15 695 707 16499695
45. Genetic detection of cryptic species in the frillfin goby Bathygobius soporator. D Lima JEP Freitas ME Araujo A Sole-Cava M,, J Exp Mar Biol Ecol 2005 320 211 223
46. Variation in larval life-history traits among reef fishes across the Isthmus of Panama. GM Wellington DR Robertson, Mar Biol 2001 138 11 22
47. Decapod and stomatopod Crustacea from Ascension Island, South Atlantic Ocean. RB Manning FA Chace, Smiths Contrib Zool 1990 503 1 91
48. Dispersal of juvenile and adult reef fishes with floating objects and their recruitment into Gorgona Island reefs. C Mora, Bull Mar Sci 2001 68 557 561
49. Spatial and temporal patterns of habitat use by fishes associated with Sargassum mats in the northwestern Gulf of Mexico. RJD Wells JR Rooker, Bull Mar Sci 2004 74 1 81 99
50. On the water masses and mean circulation of the South Atlantic Ocean. L Stramma M England, J Geophys Res 1999 104 C9 20863 20884
51. Sources of the equatorial undercurrent in the Atlantic in a high-resolution ocean model. W Hazeleger P de Vries Y Friocourt, J Phys Oceanogr 2003 33 4 677 693
52. The history and biogeography of fishes on coral reefs. DR Bellwood PC Wainwright, Coral Reef Fishes Dynamics and Diversity on a Complex Ecosystem New York, Academic Press, Sale PF, 2002 5 32
53. Glacial surface temperatures of the southeast Atlantic Ocean. JP Sachs RF Anderson SJ Lehman, Science 2001 293 2077 2079 11557890
54. Phylogeny and species boundaries in the gobiid genus Gnatholepis (Teleostei: Perciformes). CE Thacker, Zool J Linn Soc 2004 142 573 582
55. Evidence for sympatric speciation by host shift in the sea. PL Munday L van Herwerden CL Dudgeon, Curr Biol 2004 14 1498 1504 15324668
56. Coastal fishes of Sao Tome and Principe islands, Gulf of Guinea (Eastern Atlantic Ocean)-an update. P Wirtz CEL Ferreira SR Floeter R Fricke JL Gasparini T Iwamoto LA Rocha CLS Sampaio UK Schliewen, Zootaxa 2007 1523 1 48
57. Rapid speciation and ecological divergence in the American seven-spined gobies (Gobiidae, Gobiosomatini) inferred from a molecular phylogeny. L Rüber JL Van Tassell R Zardoya, Evolution 2003 57 7 1584 1598 12940363
58. New species of Emblemaria (Teleostei: Chaenopsidae) from Northern Brazil. RTC Ramos CR Rocha LA Rocha, Copeia 2003 2003 1 95 98
59. Descriptions of six new Caribbean fish species in the genus Starksia (Labrisomidae). JT Williams JH Mounts, aqua, J Ichthyol Aquat Biol 2003 6 4 145 164
60. Genetic mosaic in a marine species flock. MA McCartney J Acevedo C Heredia C Rico B Quenouille E Bermingham WO McMillan, Mol Ecol 2003 12 2963 2973 14629377
61. Phylogenetic relationships and evolutionary history of the reef fish family Labridae. MW Westneat MA Alfaro, Mol Phylogenet Evol 2005 36 370 390 15955516
62. A molecular phylogeny of the groupers of the subfamily Epinephelinae (Serranidae) with a revised classification of the Epinephelini. MT Craig PA Hastings, Ichthyol Res 2007 54 1 17
63. Molecular phylogenetics of the butterflyfishes (Chaetodontidae): Taxonomy and biogeography of a global coral reef fish family. JL Fessler MW Westneat, Mol Phylogenet Evol 2007 45 50 68 17625921
64. Molecular systematics of the damselfishes (Teleostei: Pomacentridae): Bayesian phylogenetic analyses of mitochondrial and nuclear DNA sequences. B Quenouille E Bermingham S Planes, Mol Phylogenet Evol 2004 31 66 88 15019609
65. Phylogenetic systematics of the Scomberomorus regalis (Teleostei: Scombridae) species group: Molecules, morphology and biogeography of Spanish mackerels. HM Banford E Bermingham BB Collette S McCafferty, Copeia 1999 1999 3 596 613
66. Geographic and depth distributional patterns of western Atlantic Porcellanidae (Crustacea: Decapoda: Anomura), with an updated list of species. B Werding A Hiller R Lemaitre, Mem Mus Victoria 2003 60 1 79 85
67. Environmental change preceded Caribbean extinction by 2 million years. A O'Dea JBC Jackson H Fortunato JT Smith L D'Croz KG Johnson JA Todd, Proc Natl Acad Sci USA 2007 104 13 5501 5506 17369359
68. Damselfishes of the World. GR Allen, Melle, Germany, Mergus 1991
69. Reproduction in Reef Fishes. RE Thresher, Neptune City, NJ, TFH Publications 1984 399
70. Lunar reproductive cycles of benthic-brooding reef fishes: reflections of larval-biology or adult-biology? DR Robertson CW Petersen JD Brawn, Ecol Monogr 1990 60 311 329
71. Reef Fish Behavior and Ecology on the Reef and in the Aquarium. RE Thresher, St. Petesburg, Palmetto Publishing Co. 1980
72. Evolution of mitochondrial DNA in fishes. A Meyer, Biochemistry and molecular biology of fishes New York, Elsevier, Hochanchka PW, Mommsen TP, 1993 2 1 38
73. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. L Excoffier PE Smouse JM Quatro, Genetics 1992 131 479 491 1644282
74. Estimating F-statistics for the analysis of population structure. BS Weir CC Cockerham, Evolution 1984 38 1358 1370
75. Molecular Evolutionary Genetics. M Nei, New York, Columbia University Press 1987
76. Model Test: testing the model of DNA substitution. D Posada KA Crandall, Bioinformatics 1998 14 817 818 9918953
77. Estimating the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. K Tamura M Nei, Mol Biol Evol 1993 15 512 526
78. MrBayes 3: Bayesian phylogenetic inference under mixed models. F Ronquist JP Huelsenbeck, Bioinformatics 2003 19 1572 1574 12912839
79. Mrbayes: Bayesian inference of phylogeny. JP Huelsenbeck F Ronquist, Bioinformatics 2001 17 754 11524383
80. Phylogenetic Analysis Using Parsimony (*and other Methods). Version 4.0b10. DL Swofford, Sunderland, MA, Sinauer 2002 12504223
81. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. YX Fu, Genetics 1997 147 915 925 9335623
82. Statistical properties of new neutrality tests against population growth. SE Ramos-Onsins J Rozas, Mol Biol Evol 2002 19 2092-2100 12446801
83. DnaSP, DNA polymorphism analyses by the coalescent and other methods. J Rozas JC Sanchez-DelBarrio X Messegyer R Rozas, Bioinformatics 2003 19 2496 2497 14668244
84. The geological evolution of the Central American Isthmus. AG Coates JA Obando, Evolution and environment in tropical America Chicago, University of Chicago Press, Jackson JBC, Budd AF, Coates AG, 1996
85. Historical colonization and demography of the Mediterranean damselfish, Chromis chromis. VS Domingues G Bucciarelli VC Almada G Bernardi, Mol Ecol 2005 14 13 4051 4063 16262858
86. Divergence in proteins, mitochondrial DNA, and reproductive compatibility across the Isthmus of Panama. N Knowlton LA Weigt LA Solórzano DK Mills E Bermingham, Science 1993 260 1629 1632 8503007
87. Fish biogeography and molecular clocks: Perspectives from the Panamanian Isthmus. E Bermingham SS McCafferty AP Martin, Molecular Systematics of Fishes New York, Academic Press, Kocher TD, Stepien CA, 1997 113 128
88. Dispersal barriers in tropical oceans and speciation in Atlantic and eastern Pacific sea urchins of the genus Echinometra. MA McCartney G Keller HA Lessios, Mol Ecol 2000 9 1391 1400 10972777
89. MIGRATE: documentation and program, part of LAMARC. Version 1.7.6. P Beerli, 2004 http://evolution.genetics.washington.edu/lamarc.html Revised May 10, 2004.
90. Maximum likelihood estimation of migration rates and effective population numbers in two populations using a coalescent approach. P Beerli J Felsenstein, Genetics 1999 152 2 763 773 10353916
91. Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. P Beerli J Felsenstein, Proc Natl Acad Sci USA 2001 98 8 4593 4568 11287638
92. Distinguishing migration from isolation. A Markov chain Monte Carlo approach. R Nielsen J Wakeley, Genetics 2001 158 885 896 11404349
93. TCS: A computer program to estimate gene genalogies. M Clement D Posada KA Crandall, Mol Ecol 2000 9 1657 1659 11050560