Using isolation by distance and effective density to estimate dispersal scales in anemonefish

Evolution

Volumn 64, Issue 9, 2010, Pages 2688-2700

  Pinsky, Malin L ^a   Montes Jr , Humberto R ^b   Palumbi, Stephen R ^a  

^a STANFORD UNIVERSITY   (United States)

^b VISAYAS STATE UNIVERSITY   (Philippines)

Author keywords

Amphiprion clarkii; Continuous population; Habitat patchiness; Marine larvae

Indexed keywords

MICROSATELLITE DNA;

CENSUS; COHORT ANALYSIS; CORAL REEF; DISPERSAL; FREQUENCY ANALYSIS; GENERATION TIME; GENETIC ISOLATION; GENETIC MARKER; GENOTYPE; HABITAT TYPE; LOCAL ADAPTATION; PATCHINESS; PERCIFORM; POPULATION DENSITY; POPULATION DYNAMICS; QUANTITATIVE ANALYSIS; RECRUITMENT (POPULATION DYNAMICS); TEMPORAL VARIATION; UNCERTAINTY ANALYSIS;

ANIMAL; ARTICLE; GENETIC LINKAGE; GENETICS; GENOTYPE; PERCIFORMES; PHYSIOLOGY; POPULATION DENSITY; POPULATION DYNAMICS; POPULATION MIGRATION;

ANIMAL MIGRATION; ANIMALS; GENETIC LINKAGE; GENOTYPE; MICROSATELLITE REPEATS; PERCIFORMES; POPULATION DENSITY; POPULATION DYNAMICS;

AMPHIPRION CLARKII; ANTHOZOA;

EID: 77956089473     PISSN: 00143820     EISSN: 15585646     Source Type: Journal    
DOI: 10.1111/j.1558-5646.2010.01003.x     Document Type: Article

References (75)

1. Almany G R, Berumen M L, Thorrold S R, Planes S, Jones G P. Local replenishment of coral reef fish populations in a marine reserve. Science 2007, 316:742-744.
2. Armsworth P R, James M K, Bode L. When to press one or turn back: dispersal strategies for reef fish larvae. Am. Nat. 2001, 157:434-450.
3. Árnason E. Mitochondrial cytochrome b DNA variation in the high-fecundity Atlantic cod: trans-Atlantic clines and shallow gene genealogy. Genetics 2004, 166:1871-1885.
4. Barber P H, Palumbi S R, Erdmann M V, Moosa M K. A marine Wallace's line?. Nature 2000, 406:692-693.
5. Beldade R, Holbrook S J, Schmitt R J, Planes S, Bernardi G. Isolation and characterization of 8 polymorphic microsatellite markers from the orange-fin anemonefish, Amphiprion chrysopterus. Conserv. Genet. Resour. 2009, 1:333-335.
6. Bolker B M. Ecological models and data in R 2008, Princeton Univ. Press, Princeton, NJ
7. Botsford L W, White J W, Coffroth M-A, Paris C B, Planes S, Shearer T L, Thorrold S R, Jones G P. Connectivity and resilience of coral reef metapopulations in marine protected areas: matching empirical efforts to predictive needs. 2009, 28:327-337. Coral Reefs
8. Buonaccorsi V P, Westerman M, Stannard J, Kimbrell C, Lynn E, Vetter R D. Molecular genetic structure suggests limited larval dispersal in grass rockfish, Sebastes rastrelliger. Mar. Biol. 2004, 145:779-788.
9. Burke L, Selig E R, Spalding M. Reefs at risk in Southeast Asia 2002, World Resources Institute, Washington, DC
10. Buston P M, Bogdanowicz S M, Wong A, Harrison R G. Are clownfish groups composed of close relatives? An analysis of microsatellite DNA variation in Amphiprion percula. Mol. Ecol. 2007, 16:3671-3678.
11. Clutton-Brock T H. Reproductive success: studies of individual variation in contrasting breeding systems 1988, The Univ. of Chicago Press, Chicago
12. Davison A C, Hinkley D V. Bootstrap methods and their application 1997, Cambridge Univ. Press, New York
13. Doherty P J, Planes S, Mather P. Gene flow and larval duration in seven species of fish from the Great Barrier Reef. Ecology 1995, 76:2373-2391.
14. Elliott J K, Mariscal R N. Coexistence of nine anemonefish species: differential host and habitat utilization, size and recruitment. Mar. Biol. 2001, 138:23-36.
15. Excoffier L, Laval G, Schneider S. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol. Bioinformatics 2005, 1:47-50.
16. Fautin D G, Allen G R. Field guide to anemonefishes and their host sea anemones 1992, Western Australian Museum, Perth, Australia
17. Frankham R. Effective population size/adult population size ratios in wildlife: a review. Genet. Res. 1995, 66:95-107.
18. Frisch A J, Hobbs J-P A. Rapid assessment of anemone and anemonefish populations at the Keppel Islands [electronic resource]: a report to the Great Barrier Reef Marine Park Authority 2009, QLD, Townsville
19. Gaines S D, White C, Carr M H, Palumbi S R. Designing marine reserve networks for both conservation and fisheries management. Proc. Natl. Acad. Sci. USA 2010, 10.1073/pnas.0906473107, 3 March [Epub ahead of print] doi
20. Gaston K J. Species-range-size distributions: patterns, mechanisms and implications. Trends Ecol. Evol. 1996, 11:197-201.
21. Hardy O J, Vekemans X. Isolation by distance in a continuous population: reconciliation between spatial autocorrelation analysis and population genetics models. Heredity 1999, 83:145-154.
22. Hattori A. Inter-group movement and mate acquisition tactics of the protandrous anemonefish, Amphiphrion clarkii, on a coral reef, Okinawa. Jap. J. Ichthyol. 1994, 41:159-165.
23. Hauser L, Adcock G J, Smith P J, Bernal Ramírez J H, Carvalho G R. Loss of microsatellite diversity and low effective population size in an overexploited population of New Zealand snapper (Pagrus auratus). Proc. Natl. Acad. Sci. USA 2002, 99:11742-11747.
24. Hedgecock D. Does variance in reproductive success limit effective population sizes of marine organisms?. Genetics and evolution of aquatic organisms 1994, 122-134. Beaumont A R. ed., Chapman and Hall, New York
25. Hedrick P W. Large variance in reproductive success and the Ne/N ratio. Evolution 2005, 59:1596-1599.
26. Hellberg M E. Relationships between inferred levels of gene flow and geographic distance in a philopatric coral, Balanophyllia elegans. Evolution 1994, 48:1829-1854.
27. Hoarau G, Rijnsdorp A D, Van Der Veer H W, Stam W T, Olsen J L. Population structure of plaice (Pleuronectes platessa L.) in northern Europe: microsatellites revealed large-scale spatial and temporal homogeneity. Mol. Ecol. 2002, 11:1165-1176.
28. Hoarau G, Boon E, Jongma D N, Ferber S, Palsson J, Van Der Veer H W, Rijnsdorp A D, Stam W T, Olsen J L. Low effective population size and evidence for inbreeding in an overexploited flatfish, plaice (Pleuronectes platessa L.). Proc. R. Soc B Biol. Sci. 2005, 272:497-503.
29. Jones G P, Milicich M J, Emslie M J, Lunow C. Self-recruitment in a coral reef fish population. Nature 1999, 402:802-804.
30. Jones G P, Planes S, Thorrold S R. Coral reef fish larvae settle close to home. Curr. Biol. 2005, 15:1314-1318.
31. Kaplan D M, Botsford L W, Jorgensen S. Dispersal per recruit: an efficient method for assessing sustainability in marine reserve networks. Ecol. Appl. 2006, 16:2248-2263.
32. Kinlan B P, Gaines S D. Propagule dispersal in marine and terrestrial environments: a community perspective. Ecology 2003, 84:2007-2020.
33. Koenig W D, Van Vuren D, Hooge P N. Detectability, philopatry, and the distribution of dispersal distances in vertebrates. Trends Ecol. Evol. 1996, 11:514-517.
34. Leblois R, Estoup A, Rousset F. Influence of mutational and sampling factors on the estimation of demographic parameters in a " continuous" population under isolation by distance. Mol. Biol. Evol. 2003, 20:491-502.
35. Leblois R, Rousset F, Estoup A. Influence of spatial and temporal heterogeneities on the estimation of demographic parameters in a continuous population using individual microsatellite data. Genetics 2004, 166:1081-1092.
36. Lenormand T. Gene flow and the limits to natural selection. Trends Ecol. Evol. 2002, 17:183-189.
37. Liu S-Y V, Yu H-T, Dai C-F. Eight microsatellite loci in Clark's anemonefish, Amphiprion clarkii. Mol. Ecol. Notes 2007, 7:1169-1171.
38. Lockwood D R, Hastings A, Botsford L W. The effects of dispersal patterns on marine reserves: does the tail wag the dog?. Theor. Popul. Biol. 2002, 61:297-309.
39. Mora C, Sale P F. Are populations of coral reef fish open or closed? Trends Ecol. Evolution 2002, 17:422-428.
40. Moyer J T. Influence of temperate waters on the behavior of the tropical anemonefish Amphiprion clarkii at Miyake-jima, Japan. Bull. Mar. Sci. 1980, 30:261-272.
41. Moyer J T. Longevity of the anemonefish Amphiprion clarkii at Miyake-Jima, Japan with notes on four other species. Copeia 1986, 1986:135-139.
42. Nyström M, Folke C. Spatial resilience of coral reefs. Ecosystems 2001, 4:406-417.
43. Ochi H. Temporal patterns of breeding and larval settlement in a temperate population of the tropical anemonefish, Amphiprion clarkii. Jpn. J. Ichthyol. 1985, 32:248-256.
44. Ochi H. Growth of the anemonefish Amphiprion clarkii in temperate waters, with special reference to the influence of settling time on the growth of 0-year olds. Mar. Biol. 1986, 92:223-229.
45. Ochi H. Mating behavior and sex change of the anemonefish, Amphiprion clarkii, in the temperate waters of southern Japan. Environ. Biol. Fishes 1989, 26:257-275.
46. Palumbi S R. Marine speciation on a small planet. Trends Ecol. Evol. 1992, 7:114-118.
47. Palumbi S R. Population genetics, demographic connectivity, and the design of marine reserves. Ecol. Appl. 2003, 13:S146-S158.
48. Planes S, Jones G P, Thorrold S R. Larval dispersal connects fish populations in a network of marine protected areas. Proc. Natl. Acad. Sci. USA 2009, 106:5693-5697.
49. Puebla O, Bermingham E, Guichard F. Estimating dispersal from genetic isolation by distance in a coral reef fish (Hypoplectrus puella). Ecology 2009, 90:3087-3098.
50. Quenouille B, Bouchenak-Khelladi Y, Hervet C, Planes S. Eleven microsatellite loci for saddleback clownfish Amphiprion polymnus. Mol. Ecol. Notes 2004, 4:291-293.
51. Rice W R. Analyzing tables of statistical tests. Evolution 1989, 43:223-225.
52. Richardson D L, Harrison P L, Harriott V J. Timing of spawning and fecundity of a tropical and subtropical anemonefish (Pomacentridae: Amphiprion) on a high latitude reef on the east coast of Australia. Mar. Ecol. Prog. Ser. 1997, 156:175-181.
53. Roughgarden J, Gaines S D, Possingham H. Recruitment dynamics in complex life cycles. Science 1988, 241:1460-1466.
54. Rousset F. Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics 1997, 145:1219-1228.
55. Rousset F. GENEPOP'007: a complete re-implementation of the GENEPOP software for Windows and Linux. Mol. Ecol. Resour. 2008, 8:103-106.
56. Saenz-Agudelo P, Jones G P, Thorrold S R, Planes S. Estimating connectivity in marine populations: an empirical evaluation of assignment tests and parentage analysis under different gene flow scenarios. Mol. Ecol. 2009, 18:1765-1776.
57. Sale P F, Cowen R K, Danilowicz B S, Jones G P, Kritzer J P, Lindeman K C, Planes S, Polunin N V C, Russ G R, Sadovy Y J. Critical science gaps impede use of no-take fishery reserves. Trends Ecol. Evol. 2005, 20:74-80.
58. Scheltema R S. On dispersal and planktonic larvae of benthic invertebrates: an eclectic overview and summary of problems. Bull. Mar. Sci. 1986, 39:290-322.
59. Selkoe K A, Toonen R J. Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecol. Lett. 2006, 9:615-629.
60. Shuman C S, Hodgson G, Ambrose R F. Population impacts of collecting sea anemones and anemonefish for the marine aquarium trade in the Philippines. Coral Reefs 2005, 24:564-573.
61. Slatkin M. Gene flow and the geographic structure of natural-populations. Science 1987, 236:787-792.
62. Slatkin M. Isolation by distance in equilibrium and non-equilibrium populations. Evolution 1993, 47:264-279.
63. Sokal R R, Rohlf F J. Biometry 1995, W. H. Freeman and Company, New York
64. Swearer S E, Caselle J E, Lea D W, Warner R R. Larval retention and recruitment in an island population of a coral-reef fish. Nature 1999, 402:799-802.
65. Taylor M S, Hellberg M E. Genetic evidence for local retention of pelagic larvae in a Caribbean reef fish. Science 2003, 299:107-109.
66. Thresher R E, Colin P L, Bell L J. Planktonic duration, distribution and population structure of western and central Pacific damselfishes (Pomacentridae). Copeia 1989, 1989:420-434.
67. Establishing larval exchange and reef connectivity using larval dispersal models 2007, http://ecogovproject.denr.gov.ph/docs/EcoGov2-TechRep/EstablishingLarvalExchangeandReefConnectivity_FINAL.pdf, USAID, USAID, Cebu City, Cebu, Available online at, Accessed February 9, 2010
68. Vekemans X, Hardy O J. New insights from fine-scale spatial genetic structure analyses in plant populations. Mol. Ecol. 2004, 13:921-935.
69. Wang J, Whitlock M C. Estimating effective population size and migration rates from genetic samples over space and time. Genetics 2003, 163:429-446.
70. Waples R S, Gaggiotti O. What is a population? An empirical evaluation of some genetic methods for identifying the number of gene pools and their degree of connectivity. Mol. Ecol. 2006, 15:1419-1439.
71. Warton D, Ormerod J. smatr: (Standardized) Major Axis estimation and testing routines. R package version 2.1. 2007, http://web.maths.unsw.edu.au/~dwarton, Available at, Accessed January 8, 2010
72. Watts P C, Veltsos P, Soffa B J, Gill A B, Kemp S J. Polymorphic microsatellite loci in the black-and-gold chromis, Neoglyphidodon nigroris (Teleostei: Pomacentridae). Mol. Ecol. Notes 2004, 4:93-95.
73. Watts P C, Rousset F, Saccheri I J, Leblois R, Kemp S J, Thompson D J. Compatible genetic and ecological estimates of dispersal rates in insect (Coenagrion mercuriale: Odonata: Zygoptera) populations: analysis of 'neighborhood size' using a more precise estimator. Mol. Ecol. 2007, 16:737-751.
74. Weir B S, Cockerham C C. Estimating F-statistics for the analysis of population structure. Evolution 1984, 38:1358-1370.
75. Wright S. Evolution and the genetics of populations. Volume 2: the theory of gene frequencies 1969, Univ. of Chicago, Chicago