Population structure of bigeye tuna (Thunnus obesus) in the South China Sea, Philippine Sea and western Pacific Ocean inferred from mitochondrial DNA

Fisheries Research

Volumn 79, Issue 1-2, 2006, Pages 219-225

  Chiang, Hsin Chieh ^a   Hsu, Chien Chung ^a   Lin, Hung Du ^b   Ma, Gwo Chin ^c   Chiang, Tzen Yuh ^b   Yang, Hsi Yuan ^c  

^a NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^b NATIONAL CHENG KUNG UNIVERSITY   (Taiwan)

^c NATIONAL TAIWAN UNIVERSITY   (Taiwan)

Author keywords

Bigeye tuna (Thunnus obesus); Control region; Mitochondrial DNA; Population structure; Western Pacific Ocean

Indexed keywords

FISH; GENE FLOW; MITOCHONDRIAL DNA; POPULATION STRUCTURE;

PACIFIC OCEAN; PHILIPPINE SEA; SOUTH CHINA SEA;

SCOMBRIDAE GEN. SP.; THUNNUS OBESUS;

EID: 33646773930     PISSN: 01657836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.fishres.2005.11.026     Document Type: Article

References (39)

1. Ablan M.C.A., McManus J.W., Chen C.A., Shao K.T., Bell J., Cabanban A.S., Tuan V.S., and Arthana I.W. Meso-scale transboundary units for the management of coral reefs in the South China Sea area. Naga 25 (2002) 4-10
2. Alvarado-Bremer J.R., Naseri I., and Ely B. Orthodox and unorthodox phylogenetic relationships among tunas revealed by the nucleotide sequence analysis of the mitochondrial DNA control region. J. Fish Biol. 50 (1997) 540-554
3. Alvarado-Bremer J.R., Stequert B., Robertson N.W., and Ely B. Genetic evidence for inter-oceanic subdivision of bigeye tuna (Thunnus obesus Lowe) populations. Marine Biol. 132 (1998) 547-557
4. Alvarado-Bremer J.R., Vinas J., Mejutoc J., Ely B., and Pla C. Comparative phylogeography of Atlantic bluefin tuna and swordfish: the combined effects of vicariance, secondary contact, introgression, and population expansion on the regional phylogenies of two highly migratory pelagic fishes. Mol. Phylogenet. Evol. 36 (2005) 169-187
5. Appleyard S.A., Grewe P.M., Innes B.H., and Ward R.D. Population structure of yellowfin tuna (Thunnus albacares) in the western Pacific Ocean, inferred from microsatellite loci. Marine Biol. 139 (2001) 383-393
6. Appleyard S.A., Ward R.D., and Grewe P.M. Genetic stock structure of bigeye tuna in the Indian Ocean using mitochondrial DNA and microsatellites. J. Fish Biol. 60 (2002) 767-770
7. Avise J. Phylogeography (1998), Harvard University Press, Cambridge, Mass
8. Brown G.G., Gadaleta G., Pepe G., Saccone C., and Sbisa E. Structural conservation and variation in the D-loop-containing region of vertebrate mitochondrial DNA. J. Mol. Biol. 192 (1986) 503-511
9. Carlsson J., McDowell J.R., Diaz-Jaimes P., Carlsson J.E., Boles S.B., Gold J.R., and Graves J.E. Microsatellite and mitochondrial DNA analyses of Atlantic bluefin tuna (Thunnus thynnus thynnus) population structure in the Mediterranean Sea. Mol. Ecol. 13 (2004) 3345-3356
10. Chen C.A., Ablan M.C.A., McManus J.W., Bell J.D., Tuan V.S., Cabanban A.S., and Shao K.T. Population structure and genetic variability of six bar wrasse (Thallasoma hardwicki) in northern South China Sea revealed by mitochondrial control region sequences. Marine Biotechnol. 6 (2004) 312-326
11. Chow S., Okamoto H., Miyabe N., Hiramatsu K., and Barut N. Genetic divergence between Atlantic and Indo-Pacific stocks of bigeye tuna (Thunnus obesus) and admixture around South Africa. Mol. Ecol. 9 (2000) 221-227
12. Durand J.D., Collet A., Chow S., Guinand B., and Borsa P. Nuclear and mitochondrial DNA markers indicate unidirectional gene flow of Indo-Pacific to Atlantic bigeye tuna (Thunnus obesus) populations, and their admixture off southern Africa. Marine Biol. 147 (2005) 313-322
13. Excoffier L. MINSPNET: Minimum Spanning Network (1993), Department of Anthropology, University of Geneva, Switzerland
14. Excoffier L., Smouse P.E., and Quattro J.M. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131 (1992) 479-491
15. Felsenstein J. Confidence limits on phylogenies: an approach using bootstrap. Evolution 39 (1985) 783-791
16. Fu Y.-X., and Li W.-H. Statistical tests of neutrality of mutations. Genetics 133 (1993) 693-709
17. Grant W.S., and Bowen B.W. Population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. J. Heredity 89 (1998) 415-426
18. Grewe, P.M., Hampton, J., 1998. An assessment of bigeye (Thunnus obesus) population structure in the Pacific Ocean, based on mitochondrial DNA and DNA microsatellite analysis. SOEST Publication 98-05, JIMAR Contribution 98-320.
19. Hudson R.R., Slatkin M., and Maddison W.P. Estimation of levels of gene flow from DNA sequence data. Genetics 132 (1992) 583-589
20. ICCAT. Collective Volume of Scientific Papers vol. 55 (2003), International Commission for the Conservation of Atlantic Tunas, Madrid pp. 1728-1745
21. Kimura M. A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16 (1980) 111-120
22. Kumar S., Tamura K., and Nei M. MEGA: Molecular Evolutionary Genetics Analysis Version 1.02 (1993), Institute of Molecular Evolutionary Genetics, The Pennsylvania State University, USA
23. Lynch M., and Crease T.J. The analysis of population survey data on DNA sequence variation. Mol. Biol. Evol. 7 (1990) 337-394
24. Martinez, P., Gonzalez, E.G., Castilho, R., Zardoya, R., 2005. Genetic diversity and historical demography of Atlantic bigeye tuna (Thunnus obesus). Mol. Phylogenet. Evol.
25. Nei M. Molecular Evolutionary Genetics (1987), Columbia University Press, New York
26. Rand D.M. Neutrality tests of molecular markers and the connections between DNA polymorphism, demography, and conservation biology. Conserv. Biol. 10 (1996) 665-671
27. Rozas J., Sanchez-DeI, Barrio J.C., Messeguer X., and Rozas R. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19 (2003) 2496-2497
28. Saccone C., Attimonelli M., and Sbisa E. Structural elements highly preserved during the evolution of the D-loop containing region in vertebrate mitochondrial DNA. J. Mol. Evol. 26 (1987) 205-211
29. Sambrook J., Frttsch E.F., and Maniatis T. Molecular Cloning: A Laboratory Manual. 2nd ed. (1989), Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
30. Satiou N., and Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic tree. Mol. Biol. Evol. 4 (1987) 406-425
31. Schneider S., Roessli D., and Excoffier L. ARLEQUIN, Version 2.000: A Software for Population Genetics Data Analysis (2000), University of Geneva, Switzerland
32. Scoles D.R., and Graves J.E. Genetic analysis of the population structure of yellowfin tuna, Thunnus albacares, from the Pacific Ocean. Fish. Bull. (Washington, DC) 91 (1993) 690-698
33. Suzuki A. On the blood types of yellowfin and bigeye tuna. Am. Naturalist 96 (1962) 239-246
34. Tajima F. The effect of change in population size on DNA polymorphism. Genetics 123 (1989) 597-601
35. Tajima F. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123 (1989) 585-595
36. Thompson J.D., Higgins D.G., and Gibson T.J. CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucl. Acids Res. 22 (1994) 4673-4680
37. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., and Higgins D.G. The CLUSTALX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl. Acids Res. 25 (1997) 4876-4882
38. Ward R.D., Elliott N.G., Grewe P.M., and Smolenski A.J. Allozyme and mitochondrial DNA variation in yellowfin tuna (Thunnus albacares) from the Pacific Ocean. Marine Biol. 118 (1994) 531-539
39. Ward R.D., Elliott N.G., Innes B.H., Smolenski A.J., and Grewe P.M. Global population structure of yellowfin tuna Thunnus albacares, inferred from allozyme and mitochondrial DNA variation. Fish. Bull. (Washington, DC) 95 (1997) 566-575