Isolation by distance across the Hawaiian Archipelago in the reef-building coral Porites lobata

Molecular Ecology

Volumn 19, Issue 21, 2010, Pages 4661-4677

  Polato, Nicholas R ^a   Concepcion, Gregory T ^b   Toonen, Robert J ^b   Baums, Iliana B ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

^b UNIVERSITY OF HAWAII   (United States)

Author keywords

gene flow; Hawaii; isolation by distance; microsatellite; Porites lobata; Wahlund effect

Indexed keywords

MICROSATELLITE DNA;

ANIMAL; ANTHOZOA; ARTICLE; ASEXUAL REPRODUCTION; CLUSTER ANALYSIS; CORAL REEF; DNA SEQUENCE; GENE FLOW; GENETIC VARIABILITY; GENETICS; GENOTYPE; GEOGRAPHY; MULTILOCUS SEQUENCE TYPING; POPULATION GENETICS; UNITED STATES;

ANIMALS; ANTHOZOA; CLUSTER ANALYSIS; CORAL REEFS; GENE FLOW; GENETIC VARIATION; GENETICS, POPULATION; GENOTYPE; GEOGRAPHY; HAWAII; MICROSATELLITE REPEATS; MULTILOCUS SEQUENCE TYPING; REPRODUCTION, ASEXUAL; SEQUENCE ANALYSIS, DNA;

ANTHOZOA; PORITES LOBATA;

EID: 78149440967     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2010.04836.x     Document Type: Article

References (109)

1. Addison JA, Hart MW, (2005) Spawning, copulation and inbreeding coefficients in marine invertebrates. Biology Letters, 1, 450.
2. Adjeroud M, Tsuchiya M, (1999) Genetic variation and clonal structure in the scleractinian coral Pocillopora damicornis in the Ryukyu Archipelago, southern Japan. Marine Biology, 134, 753 - 759.
3. Almany GR, Berumen ML, Thorrold SR, Planes S, Jones GP, (2007) Local replenishment of coral reef fish populations in a marine reserve. Science, 316, 742.
4. Amos W, (2006) The hidden value of missing genotypes. Molecular Biology and Evolution, 23, 1995 - 1996.
5. Andrews KR, Karczmarski L, Au WWL, et al. (2010) Rolling stones and stable homes: social structure, habitat diversity and population genetics of the Hawaiian spinner dolphin (Stenella longirostris). Molecular Ecology, 19, 732 - 748.
6. Arnaud-Haond S, Belkhir K, (2007) GENCLONE: a computer program to analyse genotypic data, test for clonality and describe spatial clonal organization. Molecular Ecology Notes, 7, 15 - 17.
7. Ayre DJ, Hughes TP, (2000) Genotypic diversity and gene flow in brooding and spawning corals along the Great Barrier Reef, Australia. Evolution, 54, 1590 - 1605.
8. Ayre DJ, Hughes TP, (2004) Climate change, genotypic diversity and gene flow in reef-building corals. Ecology Letters, 7, 273 - 278.
9. Baums IB, (2008) A restoration genetics guide for coral reef conservation. Molecular Ecology, 17, 2796 - 2811.
10. Baums IB, Miller MW, Hellberg ME, (2005) Regionally isolated populations of an imperiled Caribbean coral, Acropora palmata. Molecular Ecology, 14, 1377 - 1390.
11. Baums IB, Paris CB, Cherubin LM, (2006) A bio-oceanographic filter to larval dispersal in a reef-building coral. Limnology and Oceanography, 51, 1969 - 1981.
12. Bird CE, Holland BS, Bowen BW, Toonen RJ, (2007) Contrasting phylogeography in three endemic Hawaiian limpets (Cellana spp.) with similar life histories. Molecular Ecology, 16, 3173 - 3186.
13. Bohonak AJ, (1999) Dispersal, gene flow, and population structure. Quarterly Review of Biology, 74, 21 - 45.
14. Bowen BW, Bass AL, Rocha LA, Grant WS, Robertson DR, (2001) Phylogeography of the trumpetfishes (Aulostomus): ring species complex on a global scale. Evolution, 55, 1029 - 1039.
15. Bradbury IR, Laurel B, Snelgrove PVR, Bentzen P, Campana SE, (2008) Global patterns in marine dispersal estimates: the influence of geography, taxonomic category and life history. Proceedings of the Royal Society B: Biological Sciences, 275, 1803.
16. Brownstein MJ, Carpten JD, Smith JR, (1996) Modulation of non-templated nucleotide addition by tag DNA polymerase: primer modifications that facilitate genotyping. BioTechniques, 20, 1004 - 1010.
17. Chapuis MP, Estoup A, (2007) Microsatellite null alleles and estimation of population differentiation. Molecular Biology and Evolution, 24, 621.
18. Clague DA, Dalrymple GB, (1989) Tectonics, geochronology, and origin of the Hawaiian-Emperor volcanic chain. In: Eastern Pacific Ocean and Hawaii. The Geology of North America (eds, Winterer EL, Hussong DM, Decker RW,), pp. 188 - 217. Geological Society of America, Boulder, Colorado.
19. Concepcion GT, Polato NR, Baums IB, Toonen RJ, (2009) Development of microsatellite markers from four Hawaiian corals: Acropora cytherea, Fungia scutaria, Montipora capitata and Porites lobata. Conservation Genetics Resources, 1, 1 - 5.
20. Cowen RK, (2002) Larval dispersal and retention and con-sequences for population connectivity. In: Coral Reef Fishes (ed, Sale PF,). pp. 149 - 170, Academic Press, Amsterdam.
21. Cowen RK, Sponaugle S, (2009) Larval dispersal and marine population connectivity. Annual Review of Marine Science, 1, 443 - 466.
22. Cowen RK, Lwiza KMM, Sponaugle S, Paris CB, Olson DB, (2000) Connectivity of marine populations: open or closed? Science, 287, 857 - 859.
23. Cowen RK, Paris CB, Srinivasan A, (2006) Scaling of connectivity in marine populations. Science, 311, 522 - 527.
24. Crawford NG, (2009) SMOGD: software for the measurement of genetic diversity. Molecular Ecology Resources, 10, 556 - 557.
25. David P, Pujol BIT, Viard F, Castella V, Goudet J, (2007) Reliable selfing rate estimates from imperfect population genetic data. Molecular Ecology, 16, 2474 - 2487.
26. Dieringer D, Schlotterer C, (2003) MICROSATELLITE ANA-LYSER (MSA): a platform independent analysis tool for large microsatellite data sets. Molecular Ecology Notes, 3, 167 - 169.
27. Earl DA, (2009) Structure Harvester v 0.56.3,.
28. Eble JA, Toonen RJ, Bowen BW, (2009) Endemism and dispersal: comparative phylogeography of three surgeonfishes across the Hawaiian Archipelago. Marine Biology, 156, 689 - 698.
29. Eckert CG, Samis KE, Lougheed SC, (2008) Genetic variation across species geographical ranges: the central-marginal hypothesis and beyond. Molecular Ecology, 17, 1170 - 1188.
30. Evanno G, Regnaut S, Goudet J, (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Molecular Ecology, 14, 2611 - 2620.
31. Excoffier L, Smouse PE, Quattro JM, (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes - application to human mitochondrial-DNA restriction data. Genetics, 131, 479 - 491.
32. Fadlallah YH, (1983) Sexual reproduction, development and larval biology in scleractinian corals: a review. Coral reefs. Heidelberg etc., 2, 129 - 150.
33. Falush D, Stephens M, Pritchard JK, (2003) Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics, 164, 1567.
34. Field S, (1998) Settlement biology of larvae of Montipora verrucosa and Porites lobata in Hawaii. Reproduction in Reef Corals: Results of the 1997 Edwin W. Pauley Summer Program in Marine Biology, Technical Report No 42, 111-119.
35. 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.
36. Forsman ZH, Barshis DJ, Hunter CL, Toonen RJ, (2009) Shape-shifting corals: molecular markers show morphology is evolutionarily plastic in Porites. BMC Evolutionary Biology, 9, 45.
37. François O, Durand E, (2010) Spatially explicit Bayesian clustering models in population genetics. Molecular Ecology Resources, DOI:.
38. Gao H, Williamson S, Bustamante CD, (2007) A Markov chain Monte Carlo approach for joint inference of population structure and inbreeding rates from multilocus genotype data. Genetics, 176, 1635.
39. Garner TWJ, Pearman PB, Angelone S, (2004) Genetic diversity across a vertebrate species range: a test of the central-peripheral hypothesis. Molecular Ecology, 13, 1047 - 1053.
40. Glynn PW, Colley SB, Eakin CM, et al. (1994) Reef coral reproduction in the eastern Pacific: Costa Rica, Panamá, and Galápagos Islands (Ecuador). II. Poritidae. Marine Biology, 118, 191 - 208.
41. Goudet J, (1995) FSTAT (Version 1.2): a computer program to calculate F-statistics. Journal of Heredity, 86, 485 - 486.
42. Grigg RW, (1981) Acropora in Hawaii. Part 2. Zoogeography. Pacific Science, 35, 15 - 24.
43. Grigg RW, (1983) Community structure, succession and development of coral reefs in. Marine Ecology. Progress Series, 11, 1 - 14.
44. Grigg RW, (1995) Coral reefs in an urban embayment in Hawaii: a complex case history controlled by natural and anthropogenic stress. Coral Reefs, 14, 253 - 266.
45. Grigg RW, (1997) Paleoceanography of coral reefs in the Hawaiian-Emperor Chain-revisited. Coral Reefs, 16, 33 - 38.
46. Grigg RW, Hey R, (1992) Paleoceanography of the Tropical Eastern Pacific-Ocean. Science, 255, 172 - 178.
47. Hare MP, Karl SA, Avise JC, (1996) Anonymous nuclear DNA markers in the American oyster and their implications for the heterozygote deficiency phenomenon in marine bivalves. Molecular Biology and Evolution, 13, 334.
48. Hedgecock D, Barber PH, Edmands S, (2007) Genetic approaches to measuring connectivity. Oceanography, 20, 70 - 79.
49. Hedrick PW, (2005) A standardized genetic differentiation measure. Evolution, 59, 1633 - 1638.
50. Hellberg ME, (1998) Sympatric sea shells along the seas shore: the geography of speciation in the marine gastropod Tegula. Evolution, 52, 1311 - 1324.
51. Hellberg ME, (2009) Gene flow and isolation among populations of marine animals. Annual Review of Ecology, Evolution, and Systematics, 40, 291 - 310.
52. Holland BS, Hadfield MG, (2004) Origin and diversification of the endemic Hawaiian tree snails (Achatinellidae: Achatinellinae) based on molecular evidence. Molecular Phylogenetics and Evolution, 32, 588 - 600.
53. Hormiga G, Arnedo M, Gillespie RG, (2003a) Speciation on a conveyor belt: sequential colonization of the Hawaiian Islands by Orsonwelles spiders (Araneae, Linyphiidae). Systematic Biology, 52, 70.
54. Hormiga G, Arnedo M, Gillespie RG, (2003b) Speciation on a conveyor belt: sequential colonization of the Hawaiian Islands by Orsonwelles spiders (Araneae, Linyphiidae). Systematic Biology, 52, 70 - 88.
55. Hubisz M, Falush D, Stephens M, Pritchard J, (2009) Inferring weak population structure with the assistance of sample group information. Molecular Ecology Resources, 9, 1322 - 1332.
56. Jakobsson M, Rosenberg NA, (2007) CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure. Bioinformatics, 23, 1801.
57. Johannesson K, Andre C, (2006) Life on the margin: genetic isolation and diversity loss in a peripheral marine ecosystem, the Baltic Sea. Molecular Ecology, 15, 2013 - 2029.
58. Johnson MS, Black R, (1984) The Wahlund effect and the geographical scale of variation in the intertidal limpet Siphonaria sp. Marine Biology, 79, 295 - 302.
59. Jokiel PL, (1987) Ecology, biogeography and evolution of corals in Hawaii. Trends in Ecology & Evolution, 2, 179 - 182.
60. Jokiel P, Martinelli FJ, (1992) The Vortex Model of Coral-Reef Biogeography. Journal of Biogeography, 19, 449 - 458.
61. Jost L, (2008) GST and its relatives do not measure differentiation. Molecular Ecology, 17, 4015 - 4026.
62. Kalinowski ST, (2005) HP-RARE 1. 0: a computer program for performing rarefaction on measures of allelic richness. Molecular Ecology Notes, 5, 187 - 189.
63. Kinlan BP, Gaines SD, (2003) Propagule dispersal in marine and terrestrial environments: a community perspective.
64. Kinlan BP, Gaines SD, Lester SE, (2005) Propagule dispersal and the scales of marine community process. Diversity and Distributions, 11, 139, 148.
65. Klanten OS, Choat JH, Van Herwerden L, (2007) Extreme genetic diversity and temporal rather than spatial partitioning in a widely distributed coral reef fish. Marine Biology, 150, 659 - 670.
66. Kobayashi DR, (2006) Colonization of the Hawaiian Archipelago via Johnston Atoll: a characterization of oceanographic transport corridors for pelagic larvae using computer simulation. Coral Reefs, 25, 407 - 417.
67. Kobayashi DR, Polovina JJ, (2006) Simulated seasonal and interannual variability in larval transport and oceanography in the Northwestern Hawaiian Islands using satellite remotely sensed data and computer modeling. Atoll Research Bulletin, 543, 365 - 390.
68. LaJeunesse TC, Thornhill DJ, Cox EF, et al. (2004) High diversity and host specificity observed among symbiotic dinoflagellates in reef coral communities from Hawaii. Coral Reefs, 23, 596 - 603.
69. Law B, Buckleton JS, Triggs CM, Weir BS, (2003) Effects of population structure and admixture on exact tests for association between loci. Genetics, 164, 381.
70. Leberg PL, (2002) Estimating allelic richness: effects of sample size and bottlenecks. Molecular Ecology, 11, 2445 - 2449.
71. Lesica P, Allendorf FW, (1995) When are peripheral populations valuable for conservation? Conservation Biology, 9, 753 - 760.
72. Miller KJ, Ayre DJ, (2004) The role of sexual and asexual reproduction in structuring high latitude populations of the reef coral Pocillopora damicornis. Heredity, 92, 557 - 568.
73. Nei M, (1972) Genetic distance between populations. The American Naturalist, 106, 283.
74. Nei M, (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics, Austin, Texas, 89, 583 - 590.
75. Paetkau D, Waits LP, Clarkson PL, Craighead L, Strobeck C, (1997) An empirical evaluation of genetic distance statistics using microsatellite data from bear (Ursidae) populations. Genetics, 147, 1943.
76. Paulay G, Meyer C, (2002) Diversification in the tropical pacific: comparisons between marine and terrestrial systems and the importance of founder speciation. Integrative and Comparative Biology, 42, 922 - 934.
77. Peakall ROD, Smouse PE, (2006) GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes, 6, 288 - 295.
78. Pritchard JK, Stephens M, Donnelly P, (2000) Inference of population structure using multilocus genotype data. Genetics, 155, 945 - 959.
79. Ramon ML, Nelson PA, De Martini E, Walsh WJ, Bernardi G, (2008) Phylogeography, historical demography, and the role of post-settlement ecology in two Hawaiian damselfish species. Marine Biology, 153, 1207 - 1217.
80. Raymond M, Rousset F, (1995) Genepop (Version-1.2) - population-genetics software for exact tests and ecumenicism. Journal of Heredity, 86, 248 - 249.
81. Ridgway T, Gates RD, (2006) Why are there so few genetic markers available for coral population analyses? Symbiosis, 41, 1 - 7.
82. Rivera MAJ, Kelley CD, Roderick GK, (2004) Subtle population genetic structure in the Hawaiian grouper, Epinephelus quernus (Serranidae) as revealed by mitochondrial DNA analyses. Biological Journal of the Linnean Society, 81, 449 - 468.
83. Rodgers KS, Jokiel PL, Bird CE, Brown EK, (2009) Quantifying the condition of Hawaiian coral reefs. Aquatic Conservation: Marine and Freshwater Ecosystems, 20, 93 - 105.
84. Rosenberg NA, (2004) DISTRUCT: a program for the graphical display of population structure. Molecular Ecology Notes, 4, 137 - 138.
85. Rozen S, Skaletsky H, (2000) Primer3 on the WWW for general users and for biologist programmers. Methods in Molecular Biology, 132, 365 - 386.
86. Sale PF, (2004) Connectivity, recruitment variation, and the structure of reef fish communities. Integrative and Comparative Biology, 44, 390.
87. Sale PF, Cowen RK, Danilowicz BS, et al. (2005) Critical science gaps impede use of no-take fishery reserves. Trends in Ecology & Evolution, 20, 74 - 80.
88. Scheltema RS, (1986) Long-distance dispersal by planktonic larvae of shoal-water benthic invertebrates among central Pacific islands. Bulletin of Marine Science, 39, 241 - 256.
89. Selkoe KA, Toonen R, (2006) Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecology Letters, 9, 615 - 629.
90. Severance EG, Karl SA, (2006) Contrasting population genetic structures of sympatric, mass-spawning Caribbean corals. Marine Biology, 150, 57 - 68.
91. Shanks AL, (2009) Pelagic larval duration and dispersal distance revisited. The Biological Bulletin, 216, 373.
92. Shanks AL, Grantham BA, Carr MH, (2003) Propagule dispersal distance and the size and spacing of marine reserves. Ecological Applications, 13, 159 - 169.
93. Silberman JD, Sarver SK, Walsh PJ, (1994) Mitochondrial-DNA variation and population-structure in the spiny lobster Panulirus argus. Marine Biology, 120, 601 - 608.
94. Starger CJ, Barber PH, Baker AC, (2010) The recovery of coral genetic diversity in the Sunda Strait following the 1883 eruption of Krakatau. Coral Reefs, 29, 547 - 565.
95. Stoddart JA, (1984) Genetic differentiation amongst populations of the coral Pocillopora damicornis off southwestern Australia. Coral Reefs, 3, 149 - 156.
96. Swearer SE, Caselle JE, Lea DW, Warner RR, (1999) Larval retention and recruitment in an island population of a coral-reef fish. Nature, 402, 799 - 802.
97. Szpiech ZA, Jakobsson M, Rosenberg NA, (2008) ADZE: a rarefaction approach for counting alleles private to combinations of populations. Bioinformatics, 24, 2498.
98. Taylor MS, Hellberg ME, (2003) Genetic evidence for local retention of pelagic larvae in a Caribbean reef fish. Science, 299, 107 - 109.
99. Taylor MS, Hellberg ME, (2006) Comparative phylogeography in a genus of coral reef fishes: biogeographic and genetic concordance in the Caribbean. Molecular Ecology, 15, 695 - 707.
100. Treml EA, Halpin PN, Urban DL, Pratson LF, (2008) Modeling population connectivity by ocean currents, a graph-theoretic approach for marine conservation. Landscape Ecology, 23, 19 - 36.
101. Underwood JN, (2009) Genetic diversity and divergence among coastal and offshore reefs in a hard coral depend on geographic discontinuity and oceanic currents. Evolutionary Applications, 2, 222 - 233.
102. Underwood JN, Smith LD, Van Oppen MJH, Gilmour JP, (2007) Multiple scales of genetic connectivity in a brooding coral on isolated reefs following catastrophic bleaching. Molecular Ecology, 16, 771 - 784.
103. Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P, (2004) Micro-checker: software for identifying and correcting genotyping errors in microsatellite data. Molecular Ecology Notes, 4, 535 - 538.
104. Veron JEN, (1995) Corals in Space and Time. The Biogeography and Evolution of the Scleractinia. Cornell University Press, Ithaca, London.
105. Weersing K, Toonen R, (2009) Population genetics, larval dispersal, and connectivity in marine systems. Marine Ecology Progress Series, 393, 1 - 12.
106. Whitaker K, (2006) Genetic evidence for mixed modes of reproduction in the coral Pocillopora damicornis and its effect on population structure. Marine Ecology-Progress Series, 306, 115 - 124.
107. White C, Selkoe KA, Watson J, et al. (2010) Ocean currents help explain population genetic structure. Proceedings of the Royal Society B: Biological Sciences, doi
108. Wilson GA, Rannala B, (2003) Bayesian inference of recent migration rates using multilocus genotypes. Genetics, 163, 1177 - 1191.
109. Zouros E, Romero-Dorey M, Mallet AL, (1988) Heterozygosity and growth in marine bivalves: further data and possible explanations. Evolution, 42, 1332 - 1341.