High gene flow in reef fishes and its implications for ad-hoc no-take marine reserves

References

• Abdussamad E, Joshi K, Balasubramanian T, Zacharia P, Jeyabalan K. 2009. Emergence of triggerfishes (Family: Balistidae) as an alternate lucrative target fishery for trawls along the Tuticorin coast in Gulf of Mannar. Mar Fish Inf Serv Tech Ext Ser. 199:3–6.
   Google Scholar
• Anticamara J, Watson R, Gelchu A, Pauly D. 2011. Global fishing effort (1950–2010): Trends, gaps, and implications. Fish Res. 107:131–136.
   Web of Science ®Google Scholar
• Anticamara JA, Zeller D, Vincent ACJ. 2010. Spatial and temporal variation of abundance, biomass and diversity within marine reserves in the Philippines. Divers Distrib. 16:529–536.
   Google Scholar
• Bay L, Crozier R, Caley M. 2006. The relationship between population genetic structure and pelagic larval duration in coral reef fishes on the Great Barrier Reef. Mar Biol. 149:1247–1256.
   Google Scholar
• Bay L, Caley MJ, Crozier R. 2008. Meta-population structure in a coral reef fish demonstrated by genetic data on patterns of migration, extinction and re-colonisation. BMC Evol Biol. 8:248.
   PubMedGoogle Scholar
• Bernardi G, Vagelli A. 2004. Population structure in Banggai cardinalfish, Pterapogon kauderni, a coral reef species lacking a pelagic larval phase. Mar Biol. 145:803–810.
   Google Scholar
• Bernardi G, Holbrook S, Schmitt R, Crane N. 2003. Genetic evidence for two distinct clades in a French Polynesian population of the coral reef three-spot damselfish Dascyllus trimaculatus. Mar Biol. 143:485–490.
   Google Scholar
• Bowen BW, Bass AL, Muss A, Carlin J, Robertson DR. 2006. Phylogeography of two Atlantic squirrelfishes (Family Holocentridae): Exploring links between pelagic larval duration and population connectivity. Mar Biol. 149:899–913.
   Google Scholar
• Carpenter KE, Springer VG. 2005. The center of the center of marine shore fish biodiversity: The Philippine Islands. Environ Biol Fishes. 72:467–480.
   Web of Science ®Google Scholar
• Chapman MR, Kramer DL. 2000. Movements of fishes within and among fringing coral reefs in Barbados. Environ Biol Fishes. 57:11–24.
   Web of Science ®Google Scholar
• Christie MR, Johnson DW, Stallings CD, Hixon MA. 2010. Self-recruitment and sweepstakes reproduction amid extensive gene flow in a coral reef fish. Mol Ecol. 19:1042–1057.
   PubMed Web of Science ®Google Scholar
• Christie P, White A, Deguit E. 2002. Starting point or solution? Community-based marine protected areas in the Philippines. J Environ Manag. 66:441–454.
   PubMed Web of Science ®Google Scholar
• Cowen R, Paris C, Srinivasan A. 2006. Scaling of connectivity in marine populations. Science. 311:522.
   PubMed Web of Science ®Google Scholar
• Cowen R, Gawarkiewicz G, Pineda J, Thorrold S, Werner F. 2007. Population connectivity in marine systems: An overview. Oceanography. 20:14–21.
   Web of Science ®Google Scholar
• Craig MT, Eble JA, Bowen BW, Robertson DR. 2007. High genetic connectivity across the Indian and Pacific Oceans in the reef fish Myripristis berndti (Holocentridae). Mar Ecol Prog Ser. 334:245–254.
   Web of Science ®Google Scholar
• Curley BG, Gillings MR. 2009. Population connectivity in the temperate damselfish Parma microlepis: Analyses of genetic structure across multiple spatial scales. Mar Biol. 156:381–393.
   Google Scholar
• Domeier ML, Colin PL. 1997. Tropical reef fish spawning aggregations: Defined and reviewed. Bull Mar Sci. 60:698–726.
   Web of Science ®Google Scholar
• Drew J, Allen GR, Kaufman L, Barber PH. 2008. Endemism and regional color and genetic differences in five putatively cosmopolitan reef fishes. Conserv Biol. 22:965–975.
   PubMedGoogle Scholar
• Dubinsky Z, Stambler N. 1996. Marine pollution and coral reefs. Glob Change Biol. 2:511–526.
   Web of Science ®Google Scholar
• Edgar GJ. 2011. Does the global network of marine protected areas provide an adequate safety net for marine biodiversity?. Aquatic Conserv. 21:313–316.
   Google Scholar
• Evans R, Van Herwerden L, Russ G, Frisch A. 2010. Strong genetic but not spatial subdivision of two reef fish species targeted by fishers on the Great Barrier Reef. Fish Res. 102:16–25.
   Google Scholar
• Excoffier L, Lischer HEL. 2010. Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour. 10:564–567.
   PubMed Web of Science ®Google Scholar
• Fauvelot C, Bernardi G, Planes S. 2003. Reductions in the mitochondrial DNA diversity of coral reef fish provide evidence of population bottlenecks resulting from Holocene sea level change. Evolution. 57:1571–1583.
   PubMed Web of Science ®Google Scholar
• Fricke HW. 1980. Mating systems, maternal and biparental care in triggerfish (Balistidae). Z Tierpsychol. 53:105–122.
   Google Scholar
• Froese R, Pauly D. 2000. FishBase 2000: Concepts, design and data sources.. Makati: International Center for Living Aquatic Resources Management.
   Google Scholar
• Gaines SD, White C, Carr MH, Palumbi SR. 2010. Designing marine reserve networks for both conservation and fisheries management. Proc Natl Acad Sci USA. 107:18286–18293.
   PubMed Web of Science ®Google Scholar
• Gaither M, Bowen B, Bordenave TR, Rocha L, Newman S, Gomez J, van Herwerden L, Craig M. 2011. Phylogeography of the reef fish Cephalopholis argus (Epinephelidae) indicates Pleistocene isolation across the Indo-Pacific barrier with contemporary overlap in the coral triangle. BMC Evol Biol. 11:189.
   PubMed Web of Science ®Google Scholar
• Grant W, Bowen B. 1998. Shallow population histories in deep evolutionary lineages of marine fishes: Insights from sardines and anchovies and lessons for conservation. J Hered. 89:415–426.
   Web of Science ®Google Scholar
• Green S, White A, Flores J, Carreon M, Asuncion A. 2003. Philippines fisheries in crisis: A framework for management, Coastal Resource Management Project of the Department of Environment and Natural Resources 77.
   Google Scholar
• Hall TA. 1999. BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic acids Symp Ser. 41:95–98.
   Google Scholar
• Halpern BS. 2003. The impact of marine reserves: Do reserves work and does reserve size matter?. Ecol Appl. 13:117–137.
   Web of Science ®Google Scholar
• Haney R, Silliman B, Rand D. 2007. A multi-locus assessment of connectivity and historical demography in the bluehead wrasse (Thalassoma bifasciatum). Heredity. 98:294–302.
   PubMedGoogle Scholar
• Hickey AJR, Lavery SD, Hannan DA, Baker CS, Clements KD. 2009. New Zealand triplefin fishes (family Tripterygiidae): Contrasting population structure and mtDNA diversity within a marine species flock. Mol Ecol. 18:680–696.
   PubMed Web of Science ®Google Scholar
• Ho ALFC, Pruett CL, Lin J. 2012. Population genetic structure, coloration, and morphometrics of yellowhead jawfish Opistognathus aurifrons (Perciformes: Opistognathidae) in the Caribbean region. Mar Ecol Prog Ser. 444:275–287.
   Google Scholar
• Hoegh-Guldberg O. 1999. Climate change, coral bleaching and the future of the world's coral reefs. Mar Freshw Res. 50:839–866.
   Web of Science ®Google Scholar
• Horne JB, Van Herwerden L, Choat JH, Robertson D. 2008. High population connectivity across the Indo-Pacific: Congruent lack of phylogeographic structure in three reef fish congeners. Mol Phylogenet Evol. 49:629–638.
   PubMed Web of Science ®Google Scholar
• Hu J, Kawamura H, Hong H, Qi Y. 2000. A review on the currents in the South China Sea: Seasonal circulation. South China Sea warm current and Kuroshio intrusion. J Oceanograph. 56:607–624.
   Google Scholar
• Johansson M, Banks M, Glunt K, Hassel-Finnegan H, Buonaccorsi V. 2008. Influence of habitat discontinuity, geographical distance, and oceanography on fine-scale population genetic structure of copper rockfish (Sebastes caurinus). Mol Ecol. 17:3051–3061.
   PubMed Web of Science ®Google Scholar
• Jones D, Jerry D, McCormick M, Bay L. 2010. The population genetic structure of a common tropical damselfish on the Great Barrier Reef and eastern Papua New Guinea. Coral Reefs. 29:455–467.
   Google Scholar
• Jones G, Almany G, Russ G, Sale P, Steneck R, van Oppen MJH, Willis B. 2009. Larval retention and connectivity among populations of corals and reef fishes: History, advances and challenges. Coral Reefs. 28:307–325.
   Web of Science ®Google Scholar
• Kaunda-Arara B, Rose GA. 2004. Effects of marine reef national parks on fishery CPUE in coastal Kenya. Biol Conserv. 118:1–13.
   Web of Science ®Google Scholar
• Keller LF, Waller DM. 2002. Inbreeding effects in wild populations. Trends Ecol Evol. 17:230–241.
   Web of Science ®Google Scholar
• Klanten OS, Choat JH, Van Herwerden L. 2007. Extreme genetic diversity and temporal rather than spatial partitioning in a widely distributed coral reef fish. Mar Biol. 150:659–670.
   Web of Science ®Google Scholar
• Kritzer JP, Sale PF. 2004. Metapopulation ecology in the sea: From Levins’ model to marine ecology and fisheries science. Fish Fish. 5:131–140.
   Web of Science ®Google Scholar
• Librado P, Rozas J. 2009. DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics. 25:1451–1452.
   PubMed Web of Science ®Google Scholar
• Lipcius RN, Eggleston DB, Schreiber SJ, Seitz RD, Shen J, Sisson M, Stockhausen WT, Wang HV. 2008. Importance of metapopulation connectivity to restocking and restoration of marine species. Rev Fish Sci. 16:101–110.
   Web of Science ®Google Scholar
• Lowry G, White A, Christie P. 2009. Scaling up to networks of marine protected areas in the Philippines: Biophysical, legal, institutional, and social considerations. Coast Manage. 37:274–290.
   Web of Science ®Google Scholar
• Matschiner M, Hanel R, Salzburger W. 2009. Gene flow by larval dispersal in the Antarctic notothenioid fish Gobionotothen gibberifrons. Mol Ecol. 18:2574–2587.
   PubMed Web of Science ®Google Scholar
• McCormick M, Makey L. 1997. Post-settlement transition in coral reef fishes: Overlooked complexity in niche shifts. Mar Ecol Prog Ser. 153:247–257.
   Web of Science ®Google Scholar
• McNeill S. 1994. The selection and design of marine protected areas: Australia as a case study. Biodivers Conserv. 3:586–605.
   Web of Science ®Google Scholar
• Messmer V, Van Herwerden L, Munday PL, Jones GP. 2005. Phylogeography of colour polymorphism in the coral reef fish Pseudochromis fuscus, from Papua New Guinea and the Great Barrier Reef. Coral Reefs. 24:392–402.
   Google Scholar
• Pandolfi JM, Bradbury RH, Sala E, Hughes TP, Bjorndal KA, Cooke RG, McArdle D, McClenachan L, Newman MJH, Paredes G, Warner RR, Jackson JBC. 2003. Global trajectories of the long-term decline of coral reef ecosystems. Science. 301:955–958.
   PubMed Web of Science ®Google Scholar
• Pavlov D, Emel’yanova N, Thuan LTB, Ha VT. 2011. Reproduction and initial development of manybar goatfish Parupeneus multifasciatus (Mullidae). J Ichthyol. 51:604–617.
   Google Scholar
• Pietri D, Christie P, Pollnac RB, Diaz R, Sabonsolin A. 2009. Information diffusion in two marine protected area networks in the Central Visayas region,. Philippines. Coast Manage. 37:331–348.
   Web of Science ®Google Scholar
• Planes S, Parroni M, Chauvet C. 1998. Evidence of limited gene flow in three species of coral reef fishes in the lagoon of New Caledonia. Mar Biol. 130:361–368.
   Google Scholar
• Planes S, Jones GP, Thorrold SR. 2009. Larval dispersal connects fish populations in a network of marine protected areas. Proc Natl Acad Sci USA. 106:5693.
   PubMed Web of Science ®Google Scholar
• Posa MRC, Diesmos AC, Sodhi NS, Brooks TM. 2008. Hope for threatened tropical biodiversity: Lessons from the Philippines. Bioscience. 58:231–240.
   Web of Science ®Google Scholar
• Purcell JFH, Cowen RK, Hughes CR, Williams DA. 2006. Weak genetic structure indicates strong dispersal limits: A tale of two coral reef fish. Proc R Soc Lond B Biol Sci. 273:1483.
   Google Scholar
• 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. Mar Biol. 153:1207–1217.
   Web of Science ®Google Scholar
• Ravago-Gotanco R, Juinio-Meñez M. 2010. Phylogeography of the mottled spinefoot Siganus fuscescens: Pleistocene divergence and limited genetic connectivity across the Philippine archipelago. Mol Ecol. 19:4520–4534.
   PubMed Web of Science ®Google Scholar
• Reece JS, Bowen BW, Joshi K, Goz V, Larson A. 2010. Phylogeography of two moray eels indicates high dispersal throughout the Indo-Pacific. J Hered. 101:391.
   PubMed Web of Science ®Google Scholar
• Rhodes K, Tupper M. 2007. A preliminary market-based analysis of the Pohnpei, Micronesia, grouper (Serranidae: Epinephelinae) fishery reveals unsustainable fishing practices. Coral Reefs. 26:335–344.
   Google Scholar
• Riginos C, Nachman M. 2001. Population subdivision in marine environments: The contributions of biogeography, geographical distance and discontinuous habitat to genetic differentiation in a blennioid fish, Axoclinus nigricaudus. Mol Ecol. 10:1439–1453.
   PubMed Web of Science ®Google Scholar
• Roberts C, Reynolds J, Côté I, Hawkins J. 2006. Redesigning coral reef conservationCôté I, Reynolds Jeditors. Cambridge: Cambridge University Press515–537 Coral Reef Conservation.
   Google Scholar
• Roberts CM. 1995. Effects of fishing on the ecosystem structure of coral reefs. Conserv Biol. 9:988–995.
   PubMed Web of Science ®Google Scholar
• Rogers AR, Harpending H. 1992. Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol. 9:552–569.
   PubMed Web of Science ®Google Scholar
• Russ GR, Alcala AC. 2011. Enhanced biodiversity beyond marine reserve boundaries: The cup spillith over. Ecol Appl. 21:241–250.
   Google Scholar
• Russ GR, Alcala AC, Maypa AP. 2003. Spillover from marine reserves: The case of Naso vlamingii at Apo Island, the Philippines. Mar Ecol Prog Ser. 264:15–20.
   Web of Science ®Google Scholar
• Saenz-Agudelo P, Jones GP, Thorrold SR, Planes S. 2011. Connectivity dominates larval replenishment in a coastal reef fish metapopulation. Proc R Soc Biol Sci Ser B. 278:2954–2961.
   PubMedGoogle Scholar
• Sale PF. 2008. Management of coral reefs: Where we have gone wrong and what we can do about it. Mar Pollut Bull. 56:805–809.
   PubMedGoogle Scholar
• Sale PF, Cowen RK, Danilowicz BS, Jones GP, Kritzer JP, Lindeman KC, Planes S, Polunin NVC, Russ GR, Sadovy YJ. 2005. Critical science gaps impede use of no-take fishery reserves. Trends Ecol Evol. 20:74–80.
   PubMed Web of Science ®Google Scholar
• Salm R, Done T, McLeod E. 2006. Coral reefs and climate change: Science and management. In: Phinney J, Hoegh-Guldberg O, Kleypas J, Skirving W, Strong A. editors. Coastal and estuarine studies. Washington, DC: American Geophysical UnionVol. 61207–221.
   Google Scholar
• Samoilys MA, Martin-Smith KM, Giles BG, Cabrera B, Anticamara JA, Brunio EO, Vincent ACJ. 2007. Effectiveness of five small Philippines coral reef reserves for fish populations depends on site-specific factors, particularly enforcement history. Biol Conserv. 136:584–601.
   Web of Science ®Google Scholar
• Shulzitski K, McCartney M, Burton M. 2009. Population connectivity among Dry Tortugas, Florida, and Caribbean populations of mutton snapper (Lutjanus analis), inferred from multiple microsatellite loci. Fish Bull. 107:501–509.
   Google Scholar
• Simmons CM, Szedlmayer ST. 2011. Recruitment of age-0 gray triggerfish to benthic structured habitat in the northern Gulf of Mexico. Trans Am Fish Soc. 140:14–20.
   Web of Science ®Google Scholar
• Staden R, Beal KF, Bonfield JK. 2000. The Staden package, 1998. Bioinformatics Methods and Protocols.. 132:115.
   Google Scholar
• Stewart R, Noyce T, Possingham H. 2003. Opportunity cost of ad hoc marine reserve design decisions: An example from South Australia. Mar Ecol Prog Ser. 253:25–38.
   Google Scholar
• Tamura K. 1992. Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G+C-content biases. Mol Biol Evol. 9:678–687.
   PubMed Web of Science ®Google Scholar
• Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. 2011. MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol. 28:2731–2739.
   PubMed Web of Science ®Google Scholar
• Taylor MS, Hellberg ME. 2003. Genetic evidence for local retention of pelagic larvae in a Caribbean reef fish. Science. 299:107.
   PubMed Web of Science ®Google Scholar
• Teske P, Forget FRG, Cowley P, Von der Heyden S, Beheregaray L. 2010. Connectivity between marine reserves and exploited areas in the philopatric reef fish Chrysoblephus laticeps (Teleostei: Sparidae). Mar Biol. 157:2029–2042.
   Web of Science ®Google Scholar
• Timm J, Kochzius M. 2008. Geological history and oceanography of the Indo-Malay Archipelago shape the genetic population structure in the false clown anemonefish (Amphiprion ocellaris). Mol Ecol. 17:3999–4014.
   PubMed Web of Science ®Google Scholar
• Uiblein F. 2007. Goatfishes (Mullidae) as indicators in tropical and temperate coastal habitat monitoring and management. Mar Biol Res. 3:275–288.
   Web of Science ®Google Scholar
• Untergasser A, Nijveen H, Rao X, Bisseling T, Geurts R, Leunissen JAM. 2007. Primer3Plus, an enhanced web interface to Primer3. Nucleic Acids Res. 35:W71–W74.
   PubMed Web of Science ®Google Scholar
• Van Herwerden L, Aspden WJ, Newman SJ, Pegg GG, Briskey L, Sinclair W. A comparison of the population genetics of Lethrinus miniatus and Lutjanus sebae from the east and west coasts of Australia: Evidence for panmixia and isolation. Fish Res. 2009a; 100:148–155.
   Google Scholar
• Van Herwerden L, Choat J Howard, Newman SJ, Leray M, Hillersøy G. Complex patterns of population structure and recruitment of Plectropomus leopardus (Pisces: Epinephelidae) in the Indo-West Pacific: Implications for fisheries management. Mar Biol. 2009b; 156:1595–1607.
   Web of Science ®Google Scholar
• Veilleux HD, van Herwerden L, Evans RD, Travers MJ, Newman SJ. 2011. Strong genetic subdivision generates high genetic variability among eastern and western Australian populations of Lutjanus carponotatus (Richardson). Fish Res. 108:74–80.
   Google Scholar
• Vijay Anand P, Pillai N. 2003. Habitat distribution and species diversity of coral reef fishes in the reefslope of the Kavaratti atoll, Lakshadweep, India. J Mar Biol Assoc India. 45:88–98.
   Google Scholar
• Villegas-Sánchez C, Rivera-Madrid R, Arias-González J. 2010. Small-scale genetic connectivity of bicolor damselfish (Stegastes partitus) recruits in Mexican Caribbean reefs. Coral Reefs. 29:1023–1033.
   Web of Science ®Google Scholar
• Visram S, Yang MC, Pillay RM, Said S, Henriksson O, Grahn M, Chen CA. 2010. Genetic connectivity and historical demography of the blue barred parrotfish (Scarus ghobban) in the western Indian Ocean. Mar Biol. 157:1475–1487.
   Google Scholar
• Weeks R, Russ GR, Alcala AC, White AT. 2010. Effectiveness of marine protected areas in the Philippines for biodiversity conservation. Conserv Biol. 24:531–540.
   PubMed Web of Science ®Google Scholar
• Winters KL, van Herwerden L, Choat JH, Robertson D. 2010. Phylogeography of the Indo-Pacific parrotfish Scarus psittacus: Isolation generates distinctive peripheral populations in two oceans. Mar Biol. 157:1679–1691.
   Google Scholar