The marine indo-west pacific break: Contrasting the resolving power of mitochondrial and nuclear genes

Integrative and Comparative Biology

Volumn 42, Issue 5, 2002, Pages 941-952

  Williams, S T ^a   Jara, J ^b   Gomez, E ^b   Knowlton, N ^b,c  

^a DEPARTMENT OF LIFE SCIENCES   (United Kingdom)

^b SMITHSONIAN TROPICAL RESEARCH INSTITUTE   (Panama)

^c UNIVERSITY OF CALIFORNIA SAN DIEGO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALPHEIDAE; ALPHEUS; ALPHEUS LOTTINI; ASTEROIDEA; DECAPODA (CRUSTACEA); INVERTEBRATA; LINCKIA; LINCKIA LAEVIGATA;

EID: 0036876165     PISSN: 00031569     EISSN: None     Source Type: Journal    
DOI: 10.1093/icb/42.5.941     Document Type: Conference Paper

References (76)

1. Alvarado Bremer, J. R., B. Stequert, N. W. Robertson, and B. Ely. 1998. Genetic evidence for inter-oceanic subdivision of bigeye tuna (Thunnus obesus Lowe) populations. Mar. Biol. 132:547-557.
2. Arndt, A., C. Marquez, P. Lambert, and M. J. Smith. 1996. Molecular phylogeny of eastern Pacific sea cucumbers (Echinodermata: Holothuroidea) based on mitochondrial DNA sequence. Mol. Phy. Evol. 6:425-437.
3. Avise, J. C. 1994. Molecular markers, natural history and evolution. Chapman and Hall, New York.
4. Avise, J. C. and D. Walker. 1998. Pleistocene phylogeographic effects on avian populations and the speciation process. Proc. R. Soc. Lond. B 265:457-463.
5. Avise, J. C., D. Walker, and G. C. Johns. 1998. Speciation durations and Pleistocene effects on vertebrate phylogeography. Proc. R. Soc. London B 265:1707-1712.
6. Baldwin, J. D., A. L. Bass, B. W. Bowen, and W. H. Clark, Jr. 1998. Molecular phylogeny and biogeography of the marine shrimp Penaeus. Mol. Phy. Evol. 10:399-407.
7. Barber, P. H., S. R. Palumbi, M. V. Erdmann, and M. K. Moosa. 2000. Biogeography: A marine Wallace's line? Nature 406:692-693.
8. Barber, P. H., S. R. Palumbi, M. V. Erdmann, and M. K. Moosa. 2002. Sharp genetic breaks among populations of Haptosquilla pulchella (Stomatopoda) indicate limits to larval transport: Patterns, causes, and consequences. Mol. Ecol. 11:659-674.
9. Benzie, J. A. H. 1999. Major genetic differences between crown-of-thorns starfish (Acanthaster planci) populations in the Indian and Pacific Oceans. Evolution 53:1782-1795.
10. Benzie, J. A. H., S. Frusher, and E. Ballment. 1992. Geographical variation in allozyme frequencies of populations of Penaeus monodon (Crustacea: Decapoda) in Australia. Aust. J. Mar. Freshwater Res. 43:715-725.
11. Benzie, J. A. H. and S. T. Williams. 1995. Gene flow among giant clam (Tridacna gigas) populations in Pacific does not parallel ocean circulation. Mar. Biol. 123:781-787.
12. Benzie, J. A. H. and S. T. Williams. 1997. Genetic structure of giant clam (Tridacna maxima) populations in the West Pacific is not consistent with dispersal by present-day ocean currents. Evolution 51:768-783.
13. Brooker, A. L., J. A. H. Benzie, D. Blair and J.-J. Versini. 2000. Population structure of the giant tiger prawn Penaeus monodon in Australian waters, determined using microsatellite markers. Mar. Biol. 136:149-157.
14. Buroker, N. E. 1983. Population genetics of the American oyster Crassostrea virginica along the Atlantic coast and the Gulf of Mexico. Mar. Biol. 75:99-112.
15. Cane, M. A. and P. Molnar. 2001. Closing of the Indonesian seaway as a precursor to east African aridification around 3-4 million years ago. Nature 411:157-162.
16. Chappell, J. and N. J. Shackleton. 1986. Oxygen isotopes and sea level. Nature. 324:137-140.
17. Chenoweth, S. F., J. M. Hughes, C. P, Keenan, and S. Lavery. 1998. When oceans meet: A teleost shows secondary intergradation at an Indian-Pacific interface. Proc. R. Soc. London B 265:415-420.
18. Chow, S., H. Okamoto, N. Miyabe, K. Hiramatsu, and N. Barut. 2000. Genetic divergence between Atlantic and Indo-Pacific stocks of bigeye tuna (Thunnus obesus) and admixture around South Africa. Mol. Ecol. 9:221-227.
19. Chow, S., H. Okamoto, Y. Uozumi, Y. Takeuchi, and H. Takeyama. 1997. Genetic stock structure of the swordfish (Xiphias gladius) inferred by PCR-RFLP analysis of the mitochondrial DNA control region. Mar. Biol. 127:359-367.
20. Chow, S. and H. Takeyama. 2000. Nuclear and mitochondrial DNA analyses reveal four genetically separated breeding units of the swordfish. J. Fish Biol. 56:1087-1098.
21. Colburn, J., R. E. Crabtree, J. B. Shaklee, E. Pfeiler, and B. W. Bowen. 2001. The evolutionary enigma of bonefishes (Albula spp.): Cryptic species and ancient separations in a globally distributed shorefish. Evolution 55:807-820.
22. Cresswell, G. R. and T. J. Golding. 1980. Observations of a south-flowing current in the southeastern Indian Ocean. Deep Sea Res. 27A:449-466.
23. Duda, T. F. Jr. and S. R. Palumbi. 1999. Population structure of the black tiger prawn, Penaeus monodon, among western Indian Ocean and western Pacific populations. Mar. Biol. 134:705-710.
24. Duke, N. C., J. A. H. Benzie, J. A. Goodall, and E. R. Ballment. 1998. Genetic structure and evolution of species in the mangrove genus Avicennia (Avicenniaceae) in the Indo-West Pacific. Evolution 52:1612-1626.
25. Elliott, N. G. 1996. Allozyme and mitochondrial DNA analysis of the tropical saddle-tail sea perch, Lutjanus malabaricus (Schneider), from Australian waters. Mar. Freshwater Res. 47:869-876.
26. Fleminger, A. 1986. The Pleistocene equatorial barrier between the Indian and Pacific Oceans and a likely cause for Wallace's line. In A. C. Pierrot-Bults, S. van der Spoel, B. J. Zarhuranec, and R. K. Johnson (eds.), Pelagic biogeography, pp. 84-97. UNESCO Technical Papers in Marine Science 49.
27. George, R. W. 1997. Tectonic plate movements and the evolution of Jasus and Panulirus spiny lobsters (Palinuridae). Mar. Freshwater Res. 48:1121-1130.
28. Godfrey, J. S. 1996. The effect of the Indonesian throughflow on ocean circulation and heat exchange with the atmosphere: A review. J. Geophys. Res. 101:12217-12237.
29. Gopurenko, D., J. M. Hughes, and C. P. Keenan. 1999. Mitochondrial DNA evidence for rapid colonisation of the Indo-West Pacific by the mudcrab Scylla serrata. Mar. Biol. 134:227-233.
30. Gordon, A. L. and R. A. Fine. 1996. Pathways of water between the Pacific and Indian oceans in the Indonesian seas. Nature 379:146-149.
31. Grosberg, R. K. and C. W. Cunningham. 2001. Genetic structure in the sea: From populations to communities. In M. D. Bertness, S. Gaines, and M. E. Hay (eds.), Marine community ecology. pp. 61-84. Sinauer Associates, Sunderland, MA.
32. Hare, M. P. 2001. Prospects for nuclear gene phylogeography. TREE 16:700-706.
33. Hatcher, B. G. 1991. Coral reefs in the Leeuwin Current - an ecological perspective. J. Roy. Soc. Western Australia 74:115-127.
34. Karl, S. A. and J. C. Avise. 1992. Balancing selection at allozyme loci in oysters: Implications from nuclear RFLPs. Science 256:100-102.
35. Karns, D. R., A. O'Bannon, H. K. Voris, and L. A. Weigt. 2000. Biogeographical implications of mitochondrial DNA variation in the Bockadum snake (Cerberus rynchops, Serpentes: Homalopsinae) in southeast Asia. J. Biogeog. 27:391-402.
36. Kessing, B., H. Croom, A. Martin, C. McIntosh, W. O. Mc Millan, and S. Palumbi. 1989. The simple fool's guide to PCR, version 1.0. Dept of Zoology, University of Hawaii, Honolulu.
37. Kimura, M. 1980. A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16:111-120.
38. Kittiwattanawong, K., J. Nugranad, and T. Srisawat. 2001. High genetic divergence of Tridacna squamosa living at the west and east coasts of Thailand. Phuket Mar. Biol. Center Special Publ. 25:343-347.
39. Knowlton, N. and L. A. Weigt. 1997. Species of marine invertebrates: A comparison of the biological and phylogenetic species concepts. In M. F. Claridge, H. A. Dawah, and M. R. Wilson (eds.), Species: The units of biodiversity, pp. 199-219. Chapman and Hall.
40. Knowlton, N., L. A. Weigt, L. A. Solórzano, D. K. Mills, and E. Bermingham. 1993. Divergence in proteins, mitochondrial DNA, and reproductive compatibility across the Isthmus of Panama. Science 260:1629-1632.
41. Kume, S., Y. Morita, and T. Ogi. 1971. Stock structure of the Indian bigeye tuna, Thunnus obesus (Lowe), on the basis of distribution, size composition and sexual maturity. Bulletin of Far Seas Fisheries Res. Lab. 4:141-164.
42. Lacson, J. M. and S. Clark. 1995. Genetic divergence of Maldivian and Micronesian denies of the damselfishes Stegastes nigricans, Chrysiptera biocellata, C. glauca and C. leucopoma (Pomacentridae). Mar. Biol. 121:585-590.
43. Lavery, S., C. Moritz, and D. R. Fielder. 1995. Changing patterns of population structure and gene flow at different spatial scales in Birgus latro (the coconut crab). Heredity 74:531-541.
44. Lavery, S., C. Moritz, and D. R. Fielder. 1996. Indo-Pacific population structure and evolutionary history of the coconut crab Birgus latro. Mol. Ecol. 5:557-570.
45. Lessios, H. A., B. D. Kessing, and J. S. Pearse. 2001. Population structure and speciation in tropical seas: Global phylogeography of the sea urchin Diadema. Evolution 55:955-975.
46. Lessios, H. A., B. D. Kessing, D. R. Robertson, and G. Paulay. 1999. Phylogeography of the pantropical sea urchin Eucidaris in relation to land barriers and ocean currents. Evolution 53:806-817.
47. Mahdavi, V., M. Periasamy, and B. Nadal-Ginard. 1982. Molecular characterization of two myosin heavy chain genes expressed in the adult heart. Nature 297:659-664.
48. Martínez, J. I., P. De Deckker, and T. T. Barrows. 1999. Palaeoceanography of the last glacial maximum in the eastern Indian Ocean: Planktonic foraminiferal evidence. Palaeogeog. Palaeoclim. Palaeoecol. 147:73-99.
49. McManus, J. W. 1985. Marine speciation, tectonics and sea-level changes in southeast Asia. In Proceedings Fifth International Coral Reef Congress, Vol. 4, pp. 133-138. Moorea, French Polynesia.
50. McMillan, W. O. and S. R. Palumbi. 1995. Concordant evolutionary patterns among Indo-West Pacific butterflyfishes. Proc. R. Soc. London B 260:229-236.
51. Miya, M. and M. Nishida. 1997. Speciation in the open ocean. Nature 389:803-804.
52. Neigel, J. E. 1994. Analysis of rapidly evolving molecules and DNA sequence variants: Alternative approaches for detecting genetic structure in marine populations. CalCOFI Rep. 35:82-89.
53. Neigel, J. E. and J. C. Avise. 1993. Application of a random walk model to geographic distributions of animal mitochondrial DNA variation. Genetics 135:1209-1220.
54. Palumbi, S. R., F. Cipriano, and M. P. Hare. 2001. Predicting nuclear gene coalescence from mitochondrial data: The three times rule. Evolution 55:859-868.
55. Pearce, A. F. 1991. Eastern boundary currents of the southern hemisphere. J. Roy. Soc. Western Australia 74:35-45.
56. Potts, D. C. 1984. Generation times and the Quaternary evolution of reef-building corals. Paleobiology 10:48-58.
57. Raymond, M. and F. Rousset. 1995. GENEPOP (version 1.2): Population genetics software for exact tests und ecumenicism. J. Heredity 86:248-249.
58. Reeb, C. A. and J. C. Avise. 1990. A genetic discontinuity in a continuously distributed species: Mitochondrial DNA in the American oyster, Crassostreu virginica. Genetics 124:397-406.
59. Rosel, P. E. and B. A. Block. 1996. Mitochondrial control region variability and global population structure in the swordfish, Xiphias gladius. Mar. Biol. 125:11-22.
60. Rozek, C. E. and N. Davidson. 1986. Differential processing of RNA transcribed from the single-copy Drosophila myosin heavy chain gene produces four mRNAs that encode two polypeptides. Proc. Natl. Acad. Sci. U.S.A. 83:2128-2132.
61. Stepien, C. A., J. E. Randall, and R. H. Rosenblatt. 1994. Genetic and morphological divergence of a circumtropical complex of goatfishes: Mulloidicthys vanicolensis, M. dentatus, and M. martinicus. Pacif. Sci. 48:44-56.
62. Suzuki, A. 1962. On the blood types of yellowfin and bigeye tuna. Am. Nat. 96:239-246.
63. Swofford, D. L. 2001. PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4. Sinauer Associates, Sunderland, Massachusetts.
64. Swofford, D. L. and R. B. Selander. 1981. BIOSYS-1: A FORTRAN program for the comprehensive analysis of electrophoretic data in population genetics and systematics. J. Hered. 72:281-283.
65. Takahashi, K. and H. Okada. 2000. The paleoceanography for the last 30,000 years in the southeastern Indian Ocean by means of calcareous nannofossils. Mar. Micropaleo. 40:83-103.
66. Ward, R. D., N. G. Elliott, B. H. Innes, A. J. Smolenski, and P. M. Grewe. 1997. Global population structure of yellowfin tuna, Thunnus albacares, inferred from allozyme and mitochondrial DNA variation. Fish. Bull. Washington 95:566-575.
67. Weir, B. S. and C. C. Cockerham. 1984. Estimating F-statistics for the analysis of population structure. Evolution 38:1358-1370.
68. Wells, P. E. and G. M. Wells. 1994. Large-scale reorganization of ocean currents offshore Western Australia during the late Quaternary. Mar. Micropaleo. 24:157-186.
69. Williams, S. T. 2000. Species boundaries in the starfish genus Linckia. Mar. Biol. 136:137-148.
70. Williams, S. T. and J. A. H. Benzie. 1996. Genetic uniformity of widely separated populations of the coral reef starfish Linckia laevigata from the East Indian and West Pacific Oceans, revealed by allozyme electrophoresis. Mar. Biol. 126:99-107.
71. Williams, S. T. and J. A. H. Benzie. 1997. Indo-West Pacific patterns of genetic differentiation in the high dispersal starfish Linckia laevigata. Molec. Ecol. 6:559-573.
72. Williams, S. T. and J. A. H. Benzie. 1998. Evidence of a biogeographic break between populations of a high dispersal starfish: Congruent regions within the Indo-West Pacific defined by color morphs, mtDNA and allozyme data. Evolution 52:87-99.
73. Williams, S. T. and N. Knowlton. 2001. Mitochondrial pseudogenes are pervasive and often insidious in the snapping shrimp genus Alpheus. Mol. Biol. Evol. 18:1484-1493.
74. Williams, S. T., N. Knowlton, and L. A. Weigt. 1999. Indo-Pacific molecular biogeography of the coral-dwelling snapping shrimp Alpheus lottini (Decapoda: Caridea: Alpheidae). In C. R. C. Sheppard and M. R. D. Seaward (eds.) Ecology of the Chagos Archipelago, pp. 195-206. Linnean Society Occasional Publications 2, Westbury Press West Yorkshire.
75. Williams, S. T., N. Knowlton, L. A. Weigt, and J. A. Jara. 2001. Evidence for three major clades within the snapping shrimp genus Alpheus inferred from nuclear (GPI and EF-1α) and mitochondrial (COI) sequence data. Mol. Phylo. Evol, 20:375-89.
76. Woodland, D. J. 1983. Zoogeography of the Siganidae (Pisces): An interpretation of distribution and richness patterns. Bull. Mar. Sci. 33:713-717.