Seascape continuity plays an important role in determining patterns of spatial genetic structure in a coral reef fish

Molecular Ecology

Volumn 23, Issue 12, 2014, Pages 2902-2913

  D'Aloia, C C ^a   Bogdanowicz, S M ^b   Harrison, R G ^b   Buston, P M ^a  

^a BOSTON UNIVERSITY MARINE PROGRAM   (United States)

^b Department of Obstetrics Gynecology   (United States)

Author keywords

connectivity; ecology; gene flow; marine; metapopulation; spatial genetic structure

Indexed keywords

ANTHOZOA; ELACATINUS LORI; PISCES;

MICROSATELLITE DNA; MITOCHONDRIAL DNA;

ANIMAL; ANIMAL DISPERSAL; ARTICLE; CLUSTER ANALYSIS; CONNECTIVITY; CORAL REEF; ECOLOGY; GENE FLOW; GENETICS; MARINE; METAPOPULATION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PERCIFORMES; POPULATION GENETICS; SPATIAL GENETIC STRUCTURE; STATISTICAL MODEL;

CONNECTIVITY; ECOLOGY; GENE FLOW; MARINE; METAPOPULATION; SPATIAL GENETIC STRUCTURE;

ANIMAL DISTRIBUTION; ANIMALS; CLUSTER ANALYSIS; CORAL REEFS; DNA, MITOCHONDRIAL; GENE FLOW; GENETICS, POPULATION; LINEAR MODELS; LOGISTIC MODELS; MICROSATELLITE REPEATS; MOLECULAR SEQUENCE DATA; PERCIFORMES;

EID: 84902544489     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/mec.12782     Document Type: Article

References (48)

1. Alberto F, Raimondi PT, Reed DC, et al,. (2010) Habitat continuity and geographic distance predict population genetic differentiation in giant kelp. Ecology, 91, 49-56.
2. Almany GR, Hamilton RJ, Bode M, et al,. (2013) Dispersal of grouper larvae drives local resources sharing in a coral reef fishery. Current Biology, 23, 626-630.
3. Avise JC, (2000) Phylogeography. The History and Formation of Species. Harvard University Press, Cambridge, Massachusetts.
4. Billot C, Engel CR, Rousvoal S, Kloareg B, Valero M, (2003) Current patterns, habitat discontinuities and population genetic structure: the case of the kelp Laminaria digitata in the English Channel. Marine Ecology Progress Series, 253, 111-121.
5. Buston PM, Jones GP, Planes S, Thorrold SR, (2012) Probability of successful larval dispersal declines fivefold over 1 km in a coral reef fish. Proceedings of the Royal Society of London, Series B, 279, 1883-1888.
6. Cano JM, Shikano T, Kuparinen A, Merila J, (2008) Genetic differentiation, effective population size and gene flow in marine fishes: implications for stock management. Journal of Integrative Field Biology, 5, 1-10.
7. Clement M, Posada D, Crandall K, (2000) TCS: a computer program to estimate gene genealogies. Molecular Ecology, 9, 1657-1660.
8. Colin PL, (2002) A new species of sponge-dwelling Elacatinus (Pisces: Gobiidae) from the western Caribbean. Zootaxa, 106, 1-7.
9. Corander J, Majander KK, Cheng L, Merila J, (2013) High degree of cryptic population differentiation in the Baltic Sea herring Clupea harengus. Molecular Ecology, 22, 2931-2940.
10. Cowen RK, Paris CB, Srinivasan A, (2006) Scaling of connectivity in marine populations. Science, 311, 522-527.
11. D'Aloia CC, Majoris JE, Buston PM, (2011) Predictors of the distribution and abundance of a tube sponge and its resident goby. Coral Reefs, 30, 777-786.
12. D'Aloia CC, Bogdanowicz SM, Majoris JE, Harrison RG, Buston PM, (2013) Self-recruitment in a Caribbean reef fish: a method for approximating dispersal kernels accounting for seascape. Molecular Ecology, 22, 2563-2572.
13. Earl DA, vonHoldt BM, (2012) STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conservation Genetics Resources, 4, 359-361.
14. 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.
15. Excoffier L, Lischer HE, (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources, 10, 564-567.
16. Firth D, (1993) Bias reduction of maximum likelihood estimates. Biometrika, 80, 27-38.
17. Hanski IA, Gaggiotti OE, (eds) (2004) Ecology, Genetics and Evolution of Metapopulations. Elsevier Academic Press, London.
18. Hedgecock D, (1994) Temporal and spatial genetic structure of marine animal populations in the California Current. California Cooperative Oceanic Fisheries Investigations Reports, 35, 73-81.
19. Hedrick PW, (2005) A standardized genetic differentiation measure. Evolution, 59, 1633-1638.
20. Hellberg ME, (2007) Footprints on water: the genetic wake of dispersal among reefs. Coral Reefs, 26, 463-473.
21. 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, 1801-1806.
22. Johnson MS, Black R, (1991) Genetic subdivision of the intertidal snail Bembicium vittatum (Gastropoda: Littorinidae) varies with habitat in the Houtman Abrolhos Islands, Western Australia. Heredity, 67, 205-213.
23. Johnson MS, Watts RJ, Black R, (1994) High levels of genetic subdivision in peripherally isolated populations of the atherinid fish Craterocephalus capreoli in the Houtman Abrolhos Islands, Western Australia. Marine Biology, 119, 179-184.
24. Jones GP, Almany GR, Russ GR, et al,. (2009) Larval retention and connectivity among populations of corals and reef fishes: history, advances and challenges. Coral Reefs, 28, 307-325.
25. Manel S, Holderegger R, (2013) Ten years of landscape genetics. Trends in Ecology and Evolution, 28, 614-621.
26. Manel S, Schwartz MK, Luikart G, Taberlet P, (2003) Landscape genetics: combining landscape ecology and population genetics. Trends in Ecology and Evolution, 18, 189-197.
27. Martin TG, Wintle BA, Rhodes JR, et al,. (2005) Zero tolerance ecology: improving ecological inference by modelling the source of zero observations. Ecology Letters, 8, 1235-1246.
28. 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.
29. Pelc RA, Warner RR, Gaines SD, (2009) Geographical patterns of genetic structure in marine species with contrasting life histories. Journal of Biogeography, 36, 1881-1890.
30. Pritchard JK, Stephens M, Donnelly P, (2000) Inference of population structure using multilocus genotype data. Genetics, 155, 945-959.
31. Purcell JFH, Cowen RK, Hughes CR, Williams DA, (2006) Weak genetic structure indicates strong dispersal limits: a tale of two coral reef fish. Proceedings of the Royal Society of London, Series B, 273, 1483-1490.
32. Reitzel AM, Herrera S, Layden MJ, Martindale MQ, Shank TM, (2013) Going where traditional markers have not gone before: utility of and promise for RAD sequencing in marine invertebrate phylogeography and population genomics. Molecular Ecology, 22, 2953-2970.
33. Riginos C, Nachman MW, (2001) Population subdivision in marine environments: the contributions of biogeography, geographical distance and discontinuous habitat to genetic differentiation in a blennioid fish, Axoclinus nigricaudus. Molecular Ecology, 10, 1439-1453.
34. Roberts CM, (1997) Connectivity and management of Caribbean coral reefs. Science, 278, 1454-1457.
35. Rocha LA, Craig MT, Bowen BW, (2007) Phylogeography and the conservation of coral reef fishes. Coral Reefs, 26, 501-512.
36. Rosenberg NA, (2004) Distruct: a program for the graphical display of population structure. Molecular Ecology Notes, 4, 137-138.
37. Schwartz MK, Luikart G, Waples RS, (2007) Genetic monitoring as a promising tool for conservation and management. Trends in Ecology and Evolution, 22, 25-33.
38. Selkoe KA, Gaines SD, Caselle JE, Warner RR, (2006) Current shifts and kin aggregation explain genetic patchiness in fish recruits. Ecology, 87, 3082-3094.
39. Selkoe KA, Henzler CM, Gaines SD, (2008) Seascape genetics and the spatial ecology of marine populations. Fish and Fisheries, 9, 363-377.
40. Shulman MJ, Bermingham E, (1995) Early life histories, ocean currents, and the population genetics of Caribbean reef fishes. Evolution, 49, 897-910.
41. Taylor MS, Hellberg ME, (2003) genetic evidence for local retention of pelagic larvae in a Caribbean reef fish. Science, 299, 107-109.
42. 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.
43. Thompson JD, Higgins DG, Gibson TJ, (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Research, 2, 4673-4680.
44. Vekemans X, Hardy OJ, (2004) New insights from fine-scale spatial genetic structure analyses in plant populations. Molecular Ecology, 13, 921-935.
45. Victor BC, (1984) Coral reef fish larvae: patch size estimation and mixing in the plankton. Limnology and Oceanography, 29, 1116-1119.
46. White C, Selkoe KA, Watson J, Siegel DA, Zacherl DC, Toonen RJ, (2010) Ocean currents help explain population genetic structure. Proceedings of the Royal Society of London, Series B, 277, 1685-1694.
47. Whitlock MC, McCauley DE, (1999) Indirect measures of gene flow and migration: FST≠ 1/(4Nm+ 1). Heredity, 82, 117-125.
48. Wright S, (1943) Isolation by distance. Genetics, 28, 114-138.