Molecular markers reveal spatially segregated cryptic species in a critically endangered fish, the common skate (Dipt urus batis)

Proceedings of the Royal Society B: Biological Sciences

Volumn 277, Issue 1687, 2010, Pages 1497-1503

  Griffiths, Andrew M ^a   Sims, David W ^a,b   Cotterell, Stephen P ^a,b   El Nagar, Aliya ^a   Ellis, Jim R ^c   Lynghammar, Arve ^d   McHugh, Matthew ^a   Neat, Francis C ^e   Pade, Nicolas G ^a,f   Queiroz, Nuno ^a,g   Serra Pereira, Bárbara ^h   Rapp, Toby ⁱ   Wearmouth, Victoria J ^a   Genner, Martin J ^a,j  

^a THE LABORATORY   (United Kingdom)

^b UNIVERSITY OF PLYMOUTH   (United Kingdom)

^c CENTRE FOR ENVIRONMENT   (United Kingdom)

^d NORWEGIAN UNIVERSITY OF SCIENCE AND TECHNOLOGY   (Norway)

^e MARINE LABORATORY   (United Kingdom)

^f UNIVERSITY OF ABERDEEN   (United Kingdom)

^g CENTRO DE INVESTIGAÇÃO EM BIODIVERSIDADE E RECURSOS GENÉTICOS   (Portugal)

^h INSTITUTO PORTUGUÊS DO MAR E DA ATMOSFERA   (Portugal)

ⁱ MARINE INSTITUTE   (Ireland)

^j UNIVERSITY OF BRISTOL   (United Kingdom)

more..

Author keywords

Biodiversity; Elasmobranch; Extinction; Fisheries; Genetic differences; Marine fishes

Indexed keywords

BIODIVERSITY; CONTINENTAL SHELF; ENDANGERED SPECIES; EXTINCTION; FECUNDITY; GENETIC DIFFERENTIATION; GENETIC MARKER; MITOCHONDRIAL DNA; PHYLOGENETICS; POPULATION DECLINE; TELEOST; TEMPERATURE GRADIENT;

HEBRIDES; OUTER HEBRIDES; ROCKALL; SCOTLAND; UNITED KINGDOM;

BOS TAURUS; CHONDRICHTHYES; DIPTURUS BATIS; LEUCORAJA ERINACEA; PISCES; VERTEBRATA;

EID: 77952699556     PISSN: 09628452     EISSN: 14712970     Source Type: Journal    
DOI: 10.1098/rspb.2009.2111     Document Type: Conference Paper

References (43)

1. Ahonen, H., Harcourt, R. G. & Stow, A. J. 2009 Nuclear and mitochondrial DNA reveals isolation of imperilled grey nurse shark populations (Carcharias taurus). Mol. Ecol. 18, 4409-4421. (doi:10.1111/j.1365-294X.2009. 04377.x)
2. Arkhipkin, A. I., Baumgartner, N., Brickie, P., Laptikhovsky, V. V., Pompert, J. H. W. & Shcherbich, Z. N. 2008 Biology of the skates Bathyraja brachyurops and B. griseocauda in waters around the Falkand Islands, Southwest Atlantic. ICES J. Mar. Sci. 65, 560-570. (doi:10.1093/icesjms/fsn015)
3. Begg, G. A. & Waldman, J. R. 1999 An holistic approach to fish stock identification. Fish. Res. 43, 35-44. (doi:10.1016/S0165-7836(99)00065-X)
4. Bickford, D., Lohman, D. J., Sodhi, N. S., Ng, R. K. L., Meier, R., Winker, K., Ingram, K. K. & Das, I. 2007 Cryptic species as a window on diversity and conservation. Trends Ecol. Evol. 22, 148-155. (doi:10.1016/j.tree. 2006.11.004) (Pubitemid 46273824)
5. Casey, J. M. & Myers, R. A. 1998 Near extinction of a large, widely distributed fish. Science 281, 690-692. (doi:10.1126/science.281.5377.690)
6. Chevolot, M., Ellis, J. R., Hoarau, G., Rijnsdorp, A. D., Stain, W. T. & Olsen, J. L. 2006 Population structure of the thornback ray {Raja clavata L.) in British waters. J. Sea Res. 56, 305-316. (doi:10.1016/j.seares.2006. 05.005) (Pubitemid 44564278)
7. Chevolot, M., Wolfs, P. H. J., Palsson, J., Rijnsdorp, A. D., Stam, W. T. & Olsen, J. L. 2007 Population structure and historical demography of the thorny skate (Amblyraja radiata, Rajidae) in the North Atlantic. Mar. Biol. 151, 1275-1286. (doi:10.1007/s00227-006-0556-1) (Pubitemid 46682905)
8. Clarke, M. W. 2009 Sharks, skates and rays in the northeast Atlantic: population status, advice and management. J. Appl. Ichthyol. 25, 3-8. (doi: 10.1111/j.1439-0426. 2008.01069.x)
9. Clarke, K. R. & Warwick, R. M. 2001 Change in marine communities: an approach to statistical analysis and interpretation, 2nd edn. Plymouth, UK: Plymouth Marine Laboratory.
10. Clement, M., Posada, D. & Crandall, K. A. 2000 TCS: a computer program to estimate gene genealogies. Mol. Ecol 9, 1657-1659. (doi:10.1046/j.1365-294x.2000.01020.x)
11. Connor, D. W., Gilliland, P. M., Golding, N., Robinson, P., Todd, D. & Verling, E. 2006 UKSeaMap: The mapping of seabed and water column features of UK seas. Peterborough, UK: Joint Nature Conservation Committee.
12. Corrigan, S. & Beheregaray, L. B. 2009 A recent shark radiation: molecular phylogeny, biogeography and speciation of wobbegong sharks (family: Orectolobidae). Mol. Phylogenet. Evol. 52, 205-216. (doi:10.1016/j.ympev. 2009.03.007)
13. Corrigan, S., Huveneers, C., Schwartz, T. S., Harcourt, R. G. & Beheregaray, L. B. 2008 Genetic and reproductive evidence for two species of ornate wobbegong shark Orectolobus spp. on the Australian east coast. J. Fish Biol. 73, 1662-1675. (doi:10.1111/j.1095-8649.2008.02039.x)
14. Dolgov, A. V., Drevetnyak, K. V. & Gusev, E. V. 2005 The status of skate stocks in the Barents Sea. J. Northw. Atlantic Fish. Sci. 35, 249-260. (doi:10.2960/J.v35. m522)
15. Dulvy, N. K. & Reynolds, J. D. 2002 Predicting extinction vulnerability in skates. Conserv. Biol. 16, 440-450. (doi:10.1046/j.l523-1739. 2002.00416.x)
16. Ebert, D. A. & Compagno, L. J. V. 2007 Biodiversity and systematics of skates (Chondrichthyes: Rajiformes: Rajoidei). Environ. Biol. Fishes 80, 111-124. (doi:10. 1007/S10641-007-9247-9250)
17. El Nagar, A., Mchugh, M., Rapp, T., Sims, D. W. & Genner, M. J. In press. Characterisation of polymorphic microsatellite markers for skates (Elasmobranchii: Rajidae) from expressed sequence tags. Conserv. Genet. (doi:10.1007/S10592-009-9919-8)
18. Ellis, J. R., Dulvy, N. K., Jennings, S., Parker-Humphreys, M. & Rogers, S. I. 2005 Assessing the status of demersal elasmobranchs in UK waters: a review. J. Mar. Biol. Assoc. UKSS, 1025-1047. (doi:10.1017/S0025315405012099) (Pubitemid 41432736)
19. FAO 2009 The state of world fisheries and aquaculture 2008. Rome, Italy: Food and Agriculture Organization, United Nations.
20. Gardner, M. G. & Ward, R. D. 2002 Taxonomic affinities within Australian and New Zealand Mustelus sharks (Chondrichthyes: Triakidae) inferred from allozymes, mitochondrial DNA and precaudal vertebrae counts. Copeia 2002, 356-363. (doi:10.1643/0045-8511(2002)002[0356:TAWAAN]2.0.CO;2)
21. Gomez, A., Hughes, R. N., Wright, P. J., Carvalho, G. R. & Lunt, D. H. 2007 Mitochondrial DNA phylogeography and mating compatibility reveal marked genetic structuring and speciation in the NE Atlantic bryozoan Celleporella hyalina. Mol. Ecol. 16, 2173-2188. (doi:10.1111/J.1365-294X.2007.03308.x) (Pubitemid 46718922)
22. Guindon, S. & Gascuel, O. 2003 A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol. 52, 696-704. (doi:10.1080/ 10635150390235520)
23. Hansen, M. M. & Hemmer-Hansen, J. 2007 Landscape genetics goes to sea. J. Biol. 6, 6. (doi:10.1186/jbio159)
24. Hart, M. W. & Sunday, J. 2007 Things fall apart: biological species form unconnected parsimony networks. Biol. Lett. 3, 509-512. (doi:10.1098/rsb1.2007.0307)
25. Hewitt, G. M. 1996 Some genetic consequences of ice ages, and their role in divergence and speciation. Biol. J. Linn. Soc. 58, 247-276.
26. Huelsenbeck, J. P. & Ronquist, F. 2001 MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17, 754-755. (doi:10.1093/bioinformatics/17. 8.754) (Pubitemid 32851390)
27. Mucientes, G. R., Queiroz, N., Sousa, L. L., Tarroso, P. & Sims, D. W. 2009 Sexual segregation of pelagic sharks and the potential threat from fisheries. Biol. Lett. 5, 156-159. (doi:10.1098/rsb1.2008.0761)
28. Nikula, R., Strelkov, P. & Vainola, R. 2007 Diversity and trans-Arctic invasion history of mitochondrial lineages in the north Atlantic Macoma complex (Bivalva: Tellinidae). Evolution 61, 928-941. (doi:10.1111/j.1558-5646.2007. 00066.x) (Pubitemid 46537642)
29. Pritchard, J. K., Stephens, M. & Donnelly, P. 2000 Inference of population structure using multilocus genotype data. Genetics 155, 945-959. (Pubitemid 30397141)
30. Quattro, J. M., Stoner, D. S., Driggers, W. B., Anderson, C. A., Priede, K. A., Hoppmann, E. C., Campbell, N. H., Duncan, K. M. & Grady, J. M. 2006 Genetic evidence of cryptic speciation within hammerhead sharks (genus Sphyrna). Mar. Biol. 148, 1143-1155. (doi:10.1007/s00227-005-0151-x)
31. Raymond, M. & Rousset, F. 1995 GENEPOP (version 1.2): population genetics software for exact tests and ecumanicism. J. Hered. 86, 248-249.
32. Reynolds, J. D., Dulvy, N. K., Goodwin, N. B. & Hutchings, J. A. 2005 Biology of extinction risk in marine fishes. Proc. R. Soc. B 272, 2337-2344. (doi:10.1098/rspb.2005.3281)
33. Rutschmann, F. 2004 Bayesian molecular dating using PAML/multidivtime. A step-by-step manual. See http://www.plant.ch.
34. Sims, D. W. In press. Tracking and analysis techniques for understanding free-ranging shark movements and behavior. In The biology of sharks and their relatives: biodiversity, distribution, adaptive physiology, and conservation and management (eds J. C. Carrier, M. R. Heithaus & J. A. Musick). Boca Raton, FL: CRC Press.
35. Smith, P. J., Steinke, D., Mcveagh, S. M., Stewart, A. L., Struthers, C. D. & Roberts, C. D. 2008 Molecular analysis of Southern Ocean skates (Bathyraja) reveals a new species of Antarctic skate. J. Fish Biol. 73, 1170-1182. (doi:10.1111/j.1095-8649.2008.01957.x)
36. Swofford, D. L. 2000 PAUP: phylogenetic analysis using parsimony (and other methods), 4th edn. Sunderland, MA: Sinauer Associates.
37. Tinti, F., Ungaro, N., Pasolini, P., De Panfilis, M., Garoia, F., Guarniero, I., Sabelli, B., Marano, G. & Piccinetti, C. 2003 Development of molecular and morphological markers to improve species-specific monitoring and systematics of Northeast Atlantic and Mediterranean skates (Rajiformes). J. Exp. Mar. Biol. Ecol. 288, 149-165. (doi:10.1016/s0022-0981(03) 00021-2)
38. Turan, C. 2008 Molecular systematic analyses of Mediterranean skates (Rajiformes). Turk. J. Zool. 32, 437-442.
39. Valsecchi, E., Pasolini, P., Bertozzi, M., Garoia, F., Ungaro, N., Vacchi, M., Sabelli, B. & Tinti, F. 2005 Rapid Miocene-Pliocene dispersal and evolution of Mediterranean rajid fauna as inferred by mitochondrial gene variation. J. Evol. Biol 18, 436-446. (doi:10.1111/j.1420-9101.2004. 00829.x) (Pubitemid 40350938)
40. Van Oosterhout, C., Hutchinson, W. F., Wills, D. P. M. & Shipley, P. 2004 MICROCHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol. Ecol. Notes 4, 535-538. (doi:10.1111/j.1471-8286. 2004.00684.x) (Pubitemid 39147523)
41. Wearmouth, V. J. & Sims, D. W. 2009 Movement and behaviour patterns of the critically endangered common skate Dipturus batis revealed by electronic tagging. J. Exp. Mar. Biol. Ecol. 380, 77-87. (doi:10.1016/j.jembe.2009. 07.035)
42. Wheeler, A. 1978 Key to the fishes of Northern Europe. London, UK: Frederick Warne.
43. Wynen, L., Larson, H., Thorburn, D., Peverell, S., Morgan, D., Field, I. & Gibb, K. 2009 Mitochondrial DNA supports the identification of two endangered river sharks (Glyphis glyphis and Glyphis garricki) across northern Australia. Mar. Freshw. Res. 60, 554-562. (doi:10.1071/MF08201)