Evidence for extensive population structure in the white-spotted eagle ray within the Indo-Pacific inferred from mitochondrial gene sequences

Journal of Zoology

Volumn 281, Issue 1, 2010, Pages 46-55

  Schluessel, V ^a,b   Broderick, D ^c   Collin, S P ^d   Ovenden, J R ^c  

^a UNIVERSITY OF QUEENSLAND   (Australia)

^b UNIVERSITY OF BONN   (Germany)

^c DEPARTMENT OF AGRICULTURE AND FISHERIES   (Australia)

^d UNIVERSITY OF WESTERN AUSTRALIA   (Australia)

Author keywords

Aetobatus narinari; Cytochrome b; Elasmobranchs; Indo Pacific; MtDNA; NADH dehydrogenase subunit 4

Indexed keywords

CYTOCHROME; DISPERSAL; FISH; GENE FLOW; GENETIC ANALYSIS; GENETIC VARIATION; MITOCHONDRIAL DNA; NETWORK ANALYSIS; POPULATION STRUCTURE; SAMPLING;

ATLANTIC OCEAN; AUSTRALIA; EAST CHINA SEA; PACIFIC OCEAN; SOUTH AFRICA; SOUTHEAST ASIA;

AETOBATUS NARINARI; ELASMOBRANCHII; MYLIOBATINAE;

EID: 77953604791     PISSN: 09528369     EISSN: 14697998     Source Type: Journal    
DOI: 10.1111/j.1469-7998.2009.00680.x     Document Type: Article

References (56)

1. Arbogast BS, Edwards SV, Wakeley J, Beerli P, Slowinski JB. Estimating divergence times from molecular data on phylogenetic and population genetic timescales. Annu. Rev. Ecol. Syst. 2002, 33:707-740.
2. Arevalo E, Davis SK, Sites JW. Mitochondrial-DNA sequence divergence and phylogenetic relationships among 8 chromosome races of the Sceloporus-grammicus complex (Phrynosomatidae) in Central Mexico. Syst. Biol. 1994, 43:387-418.
3. Barber PH, Bellwood DR. Biodiversity hotspots: evolutionary origins of biodiversity in wrasses (Halichoeres: Labridae) in the Indo-Pacific and new world tropics. Mol. Phylogenet. Evol. 2005, 35:235-253.
4. Barber PH, Palumbi SR, Erdman MV, Moosa MK. A marine Wallace's line? Nature 2000, 406:692-693.
5. Barker MJ, Schluessel V. Managing global shark fisheries: suggestions for prioritizing management strategies. Aquatic Conserv. - Mar. Freshw. Ecosyst. 2005, 15:325-347.
6. Benzie JAH. Genetic structure of coral reef organisms: ghosts of dispersal past. Am. Zool. 1999, 39:131-145.
7. Bonfield JK, Smith KF, Staden R. A new DNA sequence assembly program. Nucleic Acids Res. 1995, 23:4992-4999.
8. Bonfil R. Overview of world elasmobranch fisheries. FAO Fisheries Technical Paper 341 1994, Rome, Food and Agriculture Organization of the United Nations
9. Bowen BW, Karl SA. Population genetics and phylogeography of sea turtles. Mol. Ecol. 2007, 16:4886-4907.
10. Castro JI, Woodley CM, Brudek RR. A preliminary evaluation of the status of shark species. FAO Fisheries, Technical Paper 38 1999, Rome, Food and Agriculture Organization of the United Nations
11. Chevolot M, Hoarau G, Rijnsdorp AD, Stam WT, Olsen JL. Phylogeography and population structure of thornback rays (Raja clavata L., Rajidae). Mol. Ecol. 2006, 15:3693-3705.
12. Chevolot M, Wolfs PHJ, Palsson J, Rijnsdorp AD, Stam WT, Olsen JL. Population structure and historical demography of the thorny skate (Amblyraja radiata, Rajidae) in the North Atlantic. Mar. Biol. 2007, 151:1275-1286.
13. Clement M, Posada D, Crandall KA. TCS: a computer program to estimate gene genealogies. Mol. Ecol. 2000, 9:1657-1659.
14. Coates AG, Jackson JGC, Collins LS, Cronin TM, Dowsett H, Bybell LM, Jung P, Obando JA. Closure of the Isthmus of Panama: the near-shore marine record of Costa Rica and western Panama. Geol. Soc. Am. Bull. 1992, 104:814-828.
15. Compagno LJV, Last PR. Myliobatidae. Eagle rays. FAO species identification guide for fishery purposes. The living marine resources of the Western Central Pacific. Volume 3. Batoid fishes, chimaeras and bony fishes, Part 1 (Elopidae to Linophrynidae) 1999, 1511-1519. Carpenter KE, Niem VH. In, (Eds), Rome, Food and Agriculture Organisation
16. Cronin TM, Dowsett HJ. Biotic and oceanographic response to the Pliocene closing of the Central American Isthmus. Evolution and environment in tropical America 1996, 76-104. Jackson JBC, Budd AFCoates AG. In, (Eds), Chicago, University of Chicago Press
17. Dudgeon CL, Broderick D, Ovenden JR. IUCN classification zones concord with, but underestimate, the population genetic structure of the zebra shark Stegastoma fasciatum in the Indo-West Pacific. Mol. Ecol. 2009, 18:248-261.
18. Dulvy NK, Metcalfe JD, Glanville J, Pawson MG, Reynolds JD. Fishery stability, local extinctions, and shifts in community structure in skates. Conserv. Biol. 2000, 14:283-293.
19. Duncan KM, Martin AP, Bowen BW, De Couet HG. Global phylogeography of the scalloped hammerhead shark (Sphyrna lewini). Mol. Ecol. 2006, 15:2239-2251.
20. Excoffier L, Laval G, Schneider S. Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evol. Bioinform. Online 2005, 1:47-50.
21. Excoffier L, Smouse PE, Quattro JM. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 1992, 131:479-491.
22. The State of World Fisheries and Aquaculture 2004 2004, FAO., Sofia, State of World Fisheries and Aquaculture (SOFIA)
23. Gordon AL, Fine RA. Pathways of water between the Pacific and Indian Oceans in the Indonesian seas. Nature 1996, 379:146-149.
24. Graves JE. Molecular insights into the population structures of cosmopolitan marine fishes. J. Hered. 1998, 89:427-437.
25. Gudger EW. History of the spotted eagle ray, Aetobatus narinari, together with a study of its external structures. Carnegie Inst. Wash. 1914, 183:241-323.
26. Hanebuth TJJ, Stattegger K, Bojanowski A. Termination of the last glacial maximum sea-level lowstand: the Sunda-Shelf data revisited. Glob .Planet. Change 2009, 66:76-84.
27. Hays JD, Imbrie J, Shackleton NJ. Variations in the Earth's orbit: pacemaker of the ice ages. Science 1976, 194:1121-1132.
28. Hoenig JM, Gruber SH. Life-history patterns in the elasmobranchs: implications for fisheries management. Elasmobranchs as living resources: advances in the biology, ecology, systematics, and the status of the fisheries. NOAA Technical Report NMFS 90 1990, 1-16. Pratt HL, Gruber SHTaniuchi T. In, (Eds), Seattle, US Department of Commerce
29. Inoue JG, Miya M, Tsukamoto K, Nishida M. A mitogenomic perspective on the basal teleostean phylogeny: resolving higher-level relationships with longer DNA sequences. Mol. Phylogenet. Evol. 2001, 20:275-285.
30. Kyne PM, Ishihara H, Dudley SFJ, White WT. 2006, http://www.iucnredlist.org, 2007 IUCN red list of threatened species. Available at, (accessed 11 September 2009)
31. Last PR, Stevens JD. Sharks and rays of Australia 2009, 2nd edn, Collingwood, CSIRO
32. Lopez JV, Yuhki N, Masuda R, Modi W, Obrien SJ. Numt, a recent transfer and tandem application of mitochondrial DNA to the nuclear genome of the domestic cat. J. Mol. Evol. 1994, 39:174-190.
33. Lourie SA, Vincent ACJ. A marine fish follows Wallace's line: the phylogeography of the three-spot seahorse (Hippocampus trimaculatus, Syngnathidae, Teleostei) in Southeast Asia. J. Biogeogr. 2004, 31:1975-1985.
34. Moritz C. Defining " Evolutionary Significant Units" for conservation. Trends Ecol. Evol. 1994, 9:373-375.
35. Musick JA. Ecology and conservation of long-lived marine animals. Life in the slow lane - ecology and conservation of long-lived marine animals 1999, Vol. 23:1-10. Musick J A. In, (Ed.), Bethesda MD, Amer Fisheries Soc
36. Nei M. Molecular evolutionary genetics 1987, New York, Columbia University Press
37. Nei M, Li W. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. USA 1979, 76:5269-5273.
38. Ovenden JR, Kashiwagi T, Broderick D, Giles J, Salini JP. The extent of population genetic subdivision differs among four co-distributed shark species in the Indo-Australian archipelago. BMC Evol. Biol. 2009, 9:40-54.
39. Ovenden JR, Salini J, O'Connor S, Street R. Pronounced genetic population structure in a potentially vagile fish species (Pristipomoides multidens, Teleostei: Perciformes: Lutjanidae) from the East Indies triangle. Mol. Ecol. 2004, 13:1991-1999.
40. Palumbi SR. Marine speciation on a small planet. Trends Ecol. Evol. 1992, 7:114-118.
41. Richards VP, Henning M, Witzell W, Shivji MS. Species delineation and evolutionary history of the globally distributed spotted eagle ray (Aetobatus narinari). J. Hered. 2009, 100:273-283.
42. Rocha LA, Craig MT, Bowen BW. Phylogeography and the conservation of coral reef fishes. Coral Reefs 2007, 26:501-512.
43. Rose D. Shark fisheries and trade in the Americas 1998, Vol. 1. North America, TRAFFIC
44. Sandoval-Castillo J, Rocha-Olivares A, Villavicencio-Garayzar C, Balart E. Cryptic isolation of Gulf of California shovelnose guitarfish evidenced by mitochondrial DNA. Mar. Biol. 2004, 145:983-988.
45. Schluessel V. 2008, () PhD dissertation, The University of Queensland, Brisbane, 368pp
46. Steeves TE, Anderson DJ, McNally H. Phylogeography of Sula: the role of physical barriers to gene flow in the diversification of tropical seabirds. J. Avian Biol. 2003, 34:217-223.
47. Sulaiman ZH, Ovenden JR. Population genetic evidence for the east-west division of the Spanish mackerel (Scomberomorus commerson, Perciformes, Teleostei) along Wallace's Line. Biodivers. Conserv 2010, 19:563-574.
48. Tajima F. Evolutionary relationship of DNA sequences in finite populations. Genetics 1983, 105:437-460.
49. Tamura K, Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 1993, 10:512-526.
50. Voris HK. Maps of Pleistocene sea levels in Southeast Asia: shorelines, river systems and time durations. J. Biogeogr. 2000, 27:1153-1167.
51. Walsh PS, Metzger DA, Higuchi R. CHELEX-100 as a medium for simple extraction of DNA for PCR-based typing from forensic material. BioTechniques 1991, 10:506-513.
52. Waples RS. Evolutionarily significant units and the conservation of biological diversity under the Endangered Species Act. Evolution and the aquatic ecosystem 1995, 8-27. Nielsen J. In, (Ed.), Bethesda, American Fisheries Society
53. White WT, Last PR, Stevens JD, Yearsley GK, Fahmi, Dharmadi. Economically important sharks and rays of Indonesia 2006, 1st edn, Canberra, Australian Centre for International Agricultural Research
54. Worm B, Barbier EB, Beaumont N, Duffy JE, Folke C, Halpern BS, Jackson JBC, Lotze HK, Micheli F, Palumbi SR, Sala E, Selkoe KA, Stachowicz JJ, Watson R. Impacts of biodiversity loss on ocean ecosystem services. Science 2006, 314:787-790.
55. Wright S. The genetical structure of populations. Ann. Eugen. 1951, 15:323-354.
56. Wright S. The interpretation of population structure by F-statistics with special regard to systems of mating. Evolution 1965, 19:395-342.