Differentiation of rainbow trout (Oncorhynchus mykiss) populations in Lake Ontario and the evaluation of the stepwise mutation and infinite allele mutation models using microsatellite variability

Canadian Journal of Fisheries and Aquatic Sciences

Volumn 54, Issue 6, 1997, Pages 1391-1399

  O'Connell, Michael ^a,c   Danzmann, Roy G ^a   Cornuet, Jean Marie ^b   Wright, Jonathan M ^c   Ferguson, Moira M ^a  

^a UNIVERSITY OF GUELPH   (Canada)

^b CNRS   (France)

^c DALHOUSIE UNIVERSITY   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

EFFECTIVE POPULATION SIZE; POPULATION DIFFERENTIATION; POPULATION GENETICS; RAINBOW TROUT;

GREAT LAKES; LAKE ONTARIO; NORTH AMERICA;

MYKISS; ONCORHYNCHUS MYKISS; SALMO SALAR; SALMONIDAE;

EID: 0030800619     PISSN: 0706652X     EISSN: None     Source Type: Journal    
DOI: 10.1139/f97-043     Document Type: Article

References (64)

1. Avise, J.C. 1989. Gene trees and organismal histories: a phylogenetic approach to population biology. Evolution, 43: 1192-1208.
2. Avise, J.C., Giblin-Davidson, C., Laerm, J., Patton, J.C., and Lansman, R. A. 1979. Mitochondrial DNA clones and matriarchal phylogeny within and among geographical populations of the pocket gopher (Geomys pinetis). Proc. Natl. Acad. Sci. U.S.A. 76: 6694-6698.
3. Avise, J.C., Reeb, C.A., and Saunders, N.C. 1987. Geographic population structure and species differences in mitochondrial DNA of mouthbrooding marine catfish (Ariidae) and demersal spawning toadfishes (Batrachoididae). Evolution, 41: 991-1002.
4. Ball, R.M., Freeman, S., Jame, F.C., Bermingham, E., and Avise, J.C. 1988. Phylogenetic population genetic structure of red-winged blackbirds assessed by mitochondrial DNA. Proc. Natl. Acad. Sci. U.S.A. 85: 1558-1562.
5. Barton, N., and Slatkin, M. 1986. A quasi-equilibrium theory of the distribution of rare alleles in a sub-divided population. Heredity, 56: 409-415.
6. Behnke, R.J. 1979. The native trouts of the genus Salmo of Western North America. Monograph for the U.S.D.A. Forest Service, Fish and Wildlife Service, and Bureau of Land Management, Lakewood, Co.
7. Bonnell, M.L., and Selander, R.K. 1974. Elephant seals: genetic variation and near extinction. Science (Washington, D.C.), 184: 908-909.
8. Brooker, A.L., Cook, D., Bentzen, P., Wright, J.M., and Doyle, R.W. 1994. The genomic organization of microsatellites differs between mammals and teleost fishes. Can. J. Fish. Aquat. Sci. 51: 1959-1966.
9. Brown, W.M., George, M. Jr., and Wilson, A.C. 1979. Rapid evolution of animal mitochondrial DNA. Proc. Natl. Acad. Sci. U.S.A. 76: 1967-1971.
10. Carvalho, G.R., and Hauser, L. 1994. Molecular genetics and the stock concept in fisheries. Rev. Fish Biol. Fish. 4: 326-350.
11. Cavalli-Sforza, L.L., and Edwards, A.W.F. 1967. Phylogenetic analysis: models and estimation procedures. Evolution, 21: 550-570.
12. Chakraborty, R., and Neel, J.V. 1989. Description and validation of a method for simultaneous estimation of effective population size and mutation rate from human population data. Proc. Natl. Acad. Sci. U.S.A. 86: 9407-9411.
13. Chakraborty, R., and Weiss, K.M. 1991. Genetic variation of the mitochondrial DNA genome in American Indians is at mutationdrift equilibrium. Am. J. Phys. Anthropol. 86: 497-506.
14. Crow, J., and Kimura, M. 1970. An introduction to population genetics theory. Harper and Row, New York.
15. Dallas, J.F. 1992. Estimation of microsatellite mutation rates in recombinant inbred strains of mouse. Mamm. Genome, 3: 452-456.
16. Dallas, J.F., Dod, B., Boursot, P., Prager, E.M., and Bonhomme, F. 1995. Population sub-division and gene flow in Danish house mice. Mol. Ecol. 4: 311-320.
17. Danzmann, R.G., Ferguson, M.M., and Arndt, S.K.A. 1993. Mitochondrial DNA variability in Ontario and New York rainbow trout (Oncorhynchus mykiss). Can. J. Zool. 71: 1923-1933.
18. Dollar, A.M., and Katz, M. 1964. Rainbow trout brood stocks and strains in American hatcheries as factors in the occurrence of hepatoma. Prog. Fish-Cult. 26: 167-174.
19. Dueck, L.A. 1994. Population divergence of introduced rainbow trout (Oncorhynchus mykiss) in the Lake Ontario watershed, based on the mitochondrial genome. M.Sc. thesis, University of Guelph, Guelph, Ont.
20. Dueck, L.A., and Danzmann, R.G. 1996. Matriarchal population structure of introduced rainbow trout (Oncorhynchus mykiss) in the Lake Ontario watershed. Can. J. Fish. Aquat. Sci. 53: 2100- 2114.
21. Edwards, A., Hammond, H.A., Jin, L., Caskey, C.T., and Chakraborty, R. 1992. Genetic variation at five trimeric and tetrameric tandem repeat loci in four human population groups. Genomics, 12: 241-253.
22. Ellegren, H. 1995. Mutation rates at porcine microsatellite. Mamm. Genome, 6: 376-377.
23. n microsatellites: a new class of genetic markers for Salmo trutta L. (brown trout). Heredity, 71: 488-496.
24. Estoup, A., Garnery, L., Solignac, M., and Cornuet, J.-M. 1995. Microsatellite variation in the honey bee (Apis mellifera) populations: hierarchical genetic structure and test of the infinite allele and stepwise mutation models. Genetics, 140: 679-695.
25. Ewens, W.J. 1972. The sampling theory of selectively neutral alleles. Theor. Popul. Biol. 3: 87-112.
26. Felsenstein, J. 1993. PHYLIP - Phylogeny Inference Package computer software (version 3.5c). University of Washington, Seattle.
27. Gall, G.A.E., and Crandell, P.A. 1992. The rainbow trout. Aquaculture, 100: 1-10.
28. Goudet, J. 1996. FSTAT, a program for IBM PC compatibles to calculate Weir and Cockerham's (1984) estimators of F-statistics (version 1.2). Institute of Zoology and Animal Ecology, Department of Biology, University of Lausanne, Switzerland.
29. Guo, S.W., and Thompson, E.A. 1992. Performing the exact test of Hardy-Weinberg proportion for multiple alleles. Biometrics, 48: 361-372.
30. Hershberger, W.K. 1992. Genetic variability in rainbow trout populations. Aquaculture, 100: 51-71.
31. Kimura, M., and Ohta, T. 1978. Stepwise mutation model and the distribution of allelic frequencies in a finite population. Proc. Natl. Acad. Sci. U.S.A. 75: 2868-2872.
32. MacCrimmon, H.R. 1971. World distribution of rainbow trout (Salmo gairdneri). 3. Fish. Res. Board. Can. 28: 663-704.
33. Maruyama, T., and Fuerst, P.A. 1984. Population bottlenecks and non-equilibrium models in population genetics. I. Allele numbers when populations evolve from zero variability. Genetics, 108: 745-763.
34. McConnell, S.K.J., O'Reilly, P., Hamilton, L., Wright, J.M., and Bentzen, P. 1995. Polymorphic microsatellite loci from Atlantic salmon (Salmo salar): genetic differentiation of North American and European populations. Can. J. Fish. Aquat. Sci. 52: 1863-1872.
35. Miller, M., LeFleur, C., Marshall, A., and Hirose, P. 1993. Genetic stock identification estimates of spring chinook stock composition in the Columbia river winter gill net fishery 1987-1992. Tech. Rep. 121. Washington Department of Fisheries, Olympia.
36. Needham, P.R., and Behnke, R.J. 1962. The origin of hatchery rainbow trout. Prog. Fish-Cult. 24: 156-158.
37. Nei, M. 1987. Molecular evolutionary genetics. Columbia University Press, New York.
38. Nielsen, J.L., Gan, C., Wright, J.M., Morris, D.B., and Thomas, W.K. 1994. Biogeographic distributions of mitochondrial and nuclear markers for southern steelhead. Mol. Mar. Biol. Biotechnol. 3: 281-293.
39. O'Brien, S.J., Wildt, D.E., Goldman, D., Merril, C.R., and Bush, M. 1983. The cheetah is depauperate in genetic variation. Science (Washington, D.C.), 221: 459-461.
40. Ohta, T., and Kimura, M. 1973. A model of mutation appropriate to estimate the number of electrophoretically detectable alleles in a finite population. Genet. Res. 22: 201-204.
41. O'Reilly, P.T., Hamilton, L.C., McConnell, S.K., and Wright, J.M. 1996. Rapid analysis of genetic variation in Atlantic salmon (Salmo salar) by PCR multiplexing of dinucleotide and tetranucleotide microsatellites. Can. J. Fish. Aquat. Sci. 53: 2292-2298.
42. Palumbi, S.R., and Baker, C.S. 1994. Contrasting population structure from nuclear intron sequences and mtDNA of humpback whales. Mol. Biol. Evol. 11: 426-435.
43. Pemberton, J.M, Slate, J., Bancroft, D.R., and Barrett, J.A. 1995. Non-amplifying alleles at microsatellite loci: a caution for parentage and fingerprinting studies. Mol. Ecol. 4: 519-520.
44. Raymond, M., and Roussel, F. 1994. GENEPOP version 1.1. Laboratoire de Génétique et Environment, URA CNRS 327, Institut des Sciences de l'Évolution, CC 065, USTL.
45. Rice, W.R. 1989. Analyzing tables of statistical tests. Evolution, 43: 223-225.
46. Roy, M.S., Geffin, E., Smith, D., Ostrander, E., and Wayne, R.K. 1994. Patterns of differentiation in North American wolf-like canids revealed by analysis of microsatellite loci. Mol. Biol. Evol. 11: 553-570.
47. Saitou, N., and Nei, M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
48. Sakamoto, T., Okamoto, N., Ikeda, Y., Nakamura, Y., and Sato, T. 1994. Dinucleotide-repeat polymorphism in DNA of rainbow trout and its application to fisheries science. J. Fish Biol. 44: 1093-1096.
49. Sambrook, J., Fritsch, E.F., and Maniatis, T. 1989. Molecular cloning: a laboratory manual. 2nd ed. Cold Spring Harbor Laboratory Press, Plainview, N.Y.
50. Schlötterer, C., and Pemberton, J. 1994. The use of microsatellites for genetic analysis of natural populations. In Molecular ecology and evolution: approaches and applications. Edited by B. Shierwater, B. Streit, G.P. Wagner, and R. DeSalle. Birkhaeuser Verlag, Basel, Switzerland, pp. 203-213.
51. Shaklee, J.B., Phelps, S.R., and Salini, J. 1990. Analysis of fish stock structure and mixed-stock fisheries by electrophoretic characterization of allelic isozymes. In Electrophoretic and isoelectric focusing techniques in fisheries management. Edited by D.H. Whitmore. CRC Press, Boca Raton, Fia. pp. 173-196.
52. Shriver, M.D., Jin, L., Chakraborty, R., and Boerwinkle, E. 1993. VNTR allele frequency distribution under the stepwise mutation model. Genetics, 134: 983-993.
53. n repetitive sequences from Atlantic salmon, Salmo salar L. Anim. Genet. 24: 195-197.
54. Tautz, D. 1989. Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res. 17: 6463-6471.
55. Tautz, D., and Renz, M. 1984. Simple sequences are ubiquitous components of eukaryotic genomes. Nucleic Acids Res. 12: 4127-4138.
56. Utter, F.M. 1991. Biochemical genetics and fishery management: an historical perspective. J. Fish Biol. 39(Suppl. A): 1-20.
57. Valdes, A.M., Slatkin, M., and Freiner, N.B. 1993. Allele frequencies at microsatellite loci: the stepwise mutation model revised. Genetics, 133: 737-749.
58. Wahlund, S. 1928. The combination of populations and the appearance of correlation examined from the stand-point of the study of heredity. Hereditas, 11: 65-106. In German.
59. Weber, J.L. 1990. Informativeness of human (dC-dA)n·(dG-dT)n polymorphisms. Genomics, 7: 524-530.
60. Weber, J.L., and Wong, C. 1993. Mutation of human short tandem repeats. Hum. Mol. Genet. 2: 1123-1128.
61. Weir, B.S., and Cockerham, C.C. 1984. Estimating F-statistics for the analysis of population structure. Evolution, 38: 1358-1370.
62. Wilson, A.C., Cann, R.L., Carr, S.M., George, M.,Gyllensten, U.B., Helm-Bychowski, K., Higuchi, R.G., Palumbi, S.R., Prager, E.M., Sage, R.D., and Stoneking, M. 1987. Mitochondrial DNA and two perspectives on evolutionary genetics. Biol. J. Linn. Soc. 26: 375-100.
63. Wright, S. 1978. Evolution and genetics of populations: variability within and among natural populations. Vol. 4. University of Chicago Press, Chicago, 111.
64. Zouros, E. 1979. Mutation rates, population sizes and amounts of electrophoretic variation of enzyme loci in natural populations. Genetics, 92: 623-646.