Significant population structure and asymmetric gene flow patterns amidst expanding populations of Clinus cottoides (Perciformes, Clinidae): Application of molecular data to marine conservation planning in South Africa

Molecular Ecology

Volumn 17, Issue 22, 2008, Pages 4812-4826

  Von Der Heyden, Sophie ^a   Prochazka, Kim ^b,d   Bowie, Rauri C K ^a,c  

^a STELLENBOSCH UNIVERSITY   (South Africa)

^b UNIVERSITY OF THE WESTERN CAPE   (South Africa)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d Branch: Marine and Coastal Management ^*  (South Africa)

Author keywords

Clinidae; Gene flow; Marine protected areas; Mitochondrial DNA; Nuclear DNA; Phylogeography; South Africa

Indexed keywords

MITOCHONDRIAL DNA; RIBOSOMAL PROTEIN S7; RIBOSOME PROTEIN;

ALLELE; ANIMAL; ARTICLE; BIOLOGICAL MODEL; DNA SEQUENCE; ENVIRONMENTAL PROTECTION; GENE FLOW; GENETIC VARIABILITY; GENETICS; GEOGRAPHY; HAPLOTYPE; INDIAN OCEAN; PERCIFORMES; PHYLOGENY; POPULATION GENETICS; SEQUENCE ALIGNMENT; SOUTH AFRICA; WATER FLOW;

ALLELES; ANIMALS; CONSERVATION OF NATURAL RESOURCES; DNA, MITOCHONDRIAL; GENE FLOW; GENETIC VARIATION; GENETICS, POPULATION; GEOGRAPHY; HAPLOTYPES; INDIAN OCEAN; MODELS, GENETIC; PERCIFORMES; PHYLOGENY; RIBOSOMAL PROTEINS; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SOUTH AFRICA; WATER MOVEMENTS;

CLINIDAE; CLINUS COTTOIDES; PERCIFORMES;

EID: 55849095544     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2008.03959.x     Document Type: Article

References (58)

1. Attwood CG, Mann BQ, Beaumont J et al 1997) Review of the state of marine protected areas in South Africa. South African Journal of Marine Science, 18, 341 367.
2. Awad AA, Griffiths CL, Turpie JK (2002) Distribution of South African marine benthic invertebrates applied to the selection of priority conservation areas. Diversity and Distributions, 8, 129 145.
3. Bazin E, Glémin S, Gaultier N (2006) Population size does not influence mitochondrial genetic diversity in animals. Science, 312, 570 572.
4. Beerli P, Felsenstein J (1999) Maximum likelihood estimation of a migration matrix and effective population sizes in two populations using a coalescent approach. Genetics, 152, 763 773.
5. Beerli P, Felsenstein J (2001) Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. Proceedings of the National Academy of Sciences, USA, 98, 4563 4568.
6. Bernardi G (2000) Barriers to gene flow in Embiotoca jacksoni, a marine fish lacking a pelagic larval stage. Evolution, 54, 226 237.
7. Bernardi G, Vagelli A (2004) Population structure in Banggai cardinalfish, Pterapogon kauderni, a coral reef species lacking a pelagic larval phase. Marine Biology, 145, 803 810.
8. 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.
9. Bowie RCK, Fjeldså J, Hackett SJ, Bates JM, Crowe TM (2006) Coalescent models reveal the relative roles of ancestral polymorphism, vicariance and dispersal in shaping phylogeographical structure of an African montane forest robin. Molecular Phylogenetics and Evolution, 38, 171 188.
10. Branch GM, Griffiths CL, Branch ML, Beckley LE (1994) Two Oceans - A Guide to the Marine Life of Southern Africa. David Philip, Cape Town & Johannesburg.
11. Castelloe J, Templeton AR (1994) Root probabilities for intraspecific gene trees under neutral coalescent theory. Molecular Phylogenetics and Evolution, 3, 102 113.
12. Chow S, Hazama K (1998) Universal PCR primers for S7 ribosomal gene introns in fish. Molecular Ecology, 7, 1247 1263.
13. Clement M, Posada D, Crandall KA (2000) tcs: a computer program to estimate gene genealogies. Molecular Ecology, 9, 1657 1660.
14. Cowen RK, Paris CB, Srinivasan A (2006) Scaling of connectivity in marine populations. Science, 311, 522 527.
15. Coyer JA (1982) Observations on the reproductive behavior of the giant kelpfish, Heterostichus rostratus (Pisces: Clinidae). Copeia, 1982, 344 350.
16. Donaldson KA, Wilson RW (1999) Amphi-panamaic germinates of snook (Percoidei: Centropomidae) provide a calibration of the divergence rate in the mitochondrial DNA control region of fishes. Molecular Phylogenetics and Evolution, 13, 208 213.
17. Dupanloup I, Schneider S, Excoffier L (2002) A simulated annealing approach to define the genetic structure of populations. Molecular Ecology, 11, 2571 2581.
18. Emanuel BP, Bustamante RH, Branch GM, Eekhout S, Odendaal FJ (1992) A zoogeographic and functional approach to the selection of marine reserves on the west coast of South Africa. In : Benguela Trophic Functioning (eds Payne AIL, Brink KH, Mann KH, Hilborn R vol. 12, pp. 341 354. South African Journal of Marine Science, Grahamstown, South Africa.
19. Evans BS, Sweijd NA, Bowie RCK, Cook PA, Elliott NG (2004) Population genetic structure of the perlemoen Haliotis midae in South Africa: evidence of range expansion and founder effects. Marine Ecology Progress Series, 270, 163 172.
20. Excoffier L, Laval G, Schneider S (2005) Arlequin version 3: an integrated software package for population genetics data analysis. Evolutionary Biology Online, 1, 47 50.
21. Fu Y-X (1997) Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics, 147, 915 925.
22. Grant WS, Bowen BW (1998) Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. Journal of Heredity, 89, 415 126.
23. Grant WS, Spies I, Canino MF (2006) Biogeographic evidence for selection on mitochondrial DNA in North Pacific Walleye Pollock Theragra chalcogramma. Journal of Heredity, 97, 571 580.
24. Hall TA (1999) BIOEDIT: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41, 95 98.
25. Harpending RC (1994) Signature of ancient population growth in a low-resolution mitochondrial DNA mismatch distribution. Human Biology, 66, 591 600.
26. Harrison TD (2002) Preliminary assessment of the biogeography of fishes in South African estuaries. Marine Freshwater Research, 53, 479 490.
27. Lee W-J, Conroy J, Howell WH, Kocher TD (1995) Structure and evolution of teleost mitochondrial control regions. Journal of Molecular Evolution, 41, 54 66.
28. Leis JM, Hay AC, Trnski T (2005) In situ ontogeny behaviour in pelagic larvae of three temperate, marine, demeral fishes. Marine Biology, 148, 655 669.
29. Lourie SA, Vincent ACJ (2004) Using biogeography to help set priorities in marine conservation. Conservation Biology, 18, 1004 1020.
30. Lubchenco J, Palumbi SR, Gaines SD, Andelman S (2003) Plugging a hole in the ocean: the emerging science of marine reserves. Ecological Applications, 13, S3 S7.
31. Lutjeharms JRE, Ansorge IJ (2001) The Agulhas return current. Journal of Marine Systems, 30, 115 138.
32. Lutjeharms JRE, Ballegooyen RC (1988) Anomalous upstream retroflection in the Agulhas Current. Science, 240, 1770 1772.
33. Maree RC, Whitfield AK, Booth AJ (2000) Effect of water temperature on the biogeography of South African estuarine fishes associated with the subtropical/warm temperate subtraction zone. South African Journal of Science, 96, 184 188.
34. Matthee CA, Cockroft AC, Gopal K, von der Heyden S (2007) Mitochondrial DNA, variation of the west coast rock lobster, Jasus lalandii: marked genetic diversity differences among sampling sites. Marine Freshwater Research, 58, 1130 1135.
35. Moritz C (2002) Strategies to protect biological diversity and the evolutionary processes that sustain it. Systematic Biology, 51, 238 254.
36. Moyer GR, Winemiller KO, McPhee MV, Turner TF (2005) Historical demography, selection, and coalescence of mitochondrial and nuclear genes in Prochilodus species of northern South America. Evolution, 59, 599 610.
37. Neethling M, Matthee CA, Bowie RCK, von der Heyden S (in press) Evidence of successful dispersal across a major oceanographic barrier in the southem African endemic, Caffrogobius caffer (Teleostei: Gobiidae). BMC Evolutionary Biology.
38. Nielsen R, Wakeley JW (2001) Distinguishing migration from isolation: an MCMC approach. Genetics, 158, 885 896.
39. Planes S, Doherty PJ, Bernardi G (2001) Strong genetic divergence among populations of a marine fish with limited dispersal, Acanthochromis polyacanthus, within the Great Barrier Reef and the Coral Sea. Evolution, 55, 2263 2273.
40. Posada D, Crandall KA (2001) Intraspecific gene genealogies: tree grafting into cladograms. Trends in Ecology & Evolution, 16, 37 45.
41. Prochazka K, Griffiths CL (1992) The intertidal fish fauna of the west coast of South Africa - species, community and biogeographic patterns. South African Journal of Zoology, 27, 115 120.
42. Ridgway T, Riginos C, Davis J, Hoegh-Guldberg O (2008) Genetic connectivity patterns of Pocillopora verrucosa in southern African marine protected areas. Marine Ecology Progress Series, 354, 161 168.
43. Rocha LA, Craig MT, Bowen BW (2007) Phylogeography and the conservation of coral reef fishes. Coral Reefs, 26, 501 512.
44. Rogers AR, Harpending H (1992) Population growth makes waves in the distribution of pairwise genetic differences. Molecular Biology and Evolution, 9, 552 569.
45. Roy C, Weeks S, Rouault M et al 2001) Extreme oceanographic events recorded in the southern Benguela during the 1999-2000 summer season. South African Journal of Science, 97, 465 471.
46. Schumann EH, Ross GJB, Goschen WS (1988) Cold water events in Algoa Bay and along the Cape south coast, South Africa, in March/April 1987. South African Journal of Science, 84, 579 584.
47. Shillington FA (1995) Oceanography of the southern African region. In : Smiths' Sea Fishes (eds Smith MM, Heemstra PC pp. 22 28. Struik Publishers, Cape Town.
48. Smith MM (1995) Clinidae. In : Smiths' Sea Fishes (eds Smith MM, Heemstra PC pp. 758 769. Struik Publishers, Cape Town.
49. Stephens M, Scheet P (2005) Accounting for decay of linkage disequilibrium in haplotype inference and missing data imputation. American Journal of Human Genetics, 76, 449 462.
50. Stephens M, Smith NJ, Donnelly P (2001) A new statistical method for haplotype reconstruction from population data. American Journal of Human Genetics, 68, 978 989.
51. Stepien CA (1992) Evolution and biogeography of the Clinidae (Teleostei: Blennioidei). Copeia, 1992, 375 392.
52. Teske PR, McQuaid CD, Froneman PW, Barker NP (2006) Impacts of marine biogeographic boundaries on phylogeographic patterns of three South African estuarine crustaceans. Marine Ecology Progress Series, 314, 283 293.
53. Turpie JK, Beckley LE, Katua SM (2000) Biogeography and the selection of priority areas for conservation of South African coastal fishes. Biological Conservation, 92, 59 72.
54. von der Heyden S, Groeneveld JC, Matthee CA (2007) Long current to nowhere? - Genetic connectivity of Jasus tristani in the southern Atlantic. African Journal of Marine Science, 29, 491 497.
55. Waples RS (1998) Separating the wheat from the chaff: patterns of genetic differentiation in high gene flow species. Journal of Heredity, 89, 438 450.
56. Zhang D-X, Hewitt GM (2003) Nuclear DNA analyses in genetic studies of populations: practice, problems and prospects. Molecular Ecology, 12, 563 584.
57. Zink RM, Barrowclough GF (2008) Mitochondrial DNA under siege in avian phylogeography. Molecular Ecology, doi:.
58. Zsilavecz G (2005) Coastal Fishes of the Cape Peninsula and False Bay: A Divers' Identification Guide. Southern Underwater Research Group, Cape Town.