DNA Polymorphism in Population Genetics

Russian Journal of Genetics

Volumn 38, Issue 9, 2002, Pages 989-1008

  Altukhov, Yu P ^a   Salmenkova, E A ^a  

^a VAVILOV INSTITUTE OF GENERAL GENETICS   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 0346355322     PISSN: 10227954     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1020288812170     Document Type: Review

References (177)

1. Altukhov, Yu.P., Korochkin, L.I., and Rychkov, Yu.G., Genetic Biochemical Diversity in Evolution and Individual Development, Genetika (Moscow), 1996, vol. 32, no. 11, pp. 1450-1473.
2. Rychkov, Yu.G., Zhukova, O.V., Sheremet'eva, V.A., et al., Genofond i genogeografiya narodonaseleniya (Gene Pool and Gene Geography of Population: 1. Gene Pool of Populations of Russia and Contiguous Countries), Rychkov, Yu.G., Ed., St. Petersburg: Nauka, 2001.
3. Manchenko, G.H., Handbook of Detection of Enzymes on Electrophoretic Gels, Boca Raton: CRC, 1994.
4. Altukhov, Yu.P., Geneticheskie protsessy v populyatsiyakh (Genetic Processes in Populations), Moscow: Nauka, 1983.
5. Sozinov, A.A., Polimorfizm belkov i ego znachenie v genetike i selektsii (Protein Polymorphism and Its Importance for Genetics and Breeding), Moscow: Nauka, 1985.
6. Nevo, E., Beiles, A., and Ben-Shlomo, R., The Evolutionary Significance of Genetic Diversity: Ecological, Demographic, and Life-History Correlates, Evolutionary Dynamics of Genetic Diversity, Mani, G.S., Ed., Berlin: Springer-Verlag, 1984, pp. 13-213.
7. Ward, R.D., Skibinski, D.O.F., and Woodwark, M., Protein Heterozygosity, Protein Structure and Taxonomic Differentiation, Evolutionary Biology, Hecht, M.K., et al., Eds., New York: Plenum, 1992, vol. 26, pp. 73-159.
8. Altukhov, Yu.P., Intraspecific Genetic Diversity: Monitoring and Principles of Conservation, Genetika (Moscow), 1995, vol. 31, no. 10, pp. 1331-1357.
9. Altukhov, Yu.P., Salmenkova, E.A., and Omel'chenko, V.T., Populyatsionnaya genetika lososevykh ryb (Population Genetics of Salmonids), Moscow: Nauka, 1997.
10. Allendorf, F.W. and Seeb, L.W., Concordance of Genetic Divergence among Sockeye Salmon Populations at Allozyme, Nuclear, DNA, and Mitochondrial DNA Markers, Evolution, 2000, vol. 54, no. 2, pp. 640-651.
11. Beaumout, M.A. and Nichols, R.A., Evaluating Loci for Use in the Genetic Analysis of Population Structure, Proc. R. Soc. London, B, 1996, vol. 263, pp. 1619-1626.
12. Hedrick, P.W., Highly Variable Loci and Their Interpretation in Evolution and Conservation, Evolution, 1999, vol. 53, no. 2, pp. 313-318.
13. Vogel, F. and Motulsky, A.G., Human Genetics: Problems and Approaches, Berlin: Springer-Verlag, 1997, 3rd ed.
14. Southern, E.M., Detection of Specific DNA Fragments Separated by Gel Electrophoresis, J. Mol. Biol., 1975, vol. 98, pp. 503-517.
15. Jeffreys, A.J., Royle, N.J., Wilson, V., and Wong, Z., Spontaneous Mutation Rates to New Length Alleles at Tandem Repetitive Hypervariable Loci in Human DNA, Nature, 1988, vol. 332, pp. 278-281.
16. Wright, J., DNA Fingerprinting in Fishes, Biochemistry and Molecular Biology of Fishes, Hochachka, P. and Mommsen, T., Eds., Amsterdam: Elsevier, 1993, vol. 2, pp. 57-91.
17. Jin, L. and Chakraborty, R., Estimation of Genetic Distance and Coefficient of Gene Diversity from Single-Probe Multilocus DNA Fingerprinting Data, Mol. Biol. Evol., 1994, vol. 11, pp. 12-127.
18. Lynch, M., The Similarity Index and DNA Fingerprinting, Mol. Biol. Evol., 1990, vol. 7, pp. 478-484.
19. Bentzen, P., Harris, A.S., and Wright, J.M., Cloning of Hypervariable Minisatellite and Simple Sequence Microsatellite Repeats for DNA Fingerprinting of Important Aquacultural Species of Salmonids and Tilapia, DNA Fingerprinting Approaches and Applications, Burke, T., Dolf, G., Jeffreys, A.J., and Wolf, R., Eds., Birkhauser, 1991, pp. 243-262.
20. Heath, D.D., Iwama, G.K., and Delvin, R.H., DNA Fingerprinting Used to Test for Family Effects on Precocious Sexual Maturation in Two Populations of Oncorhynchus tshawytscha (Chinook Salmon), Heredity, 1994, vol. 73, pp. 616-624.
21. Prodohl, P.A., Taggart, J.B., and Ferguson, A., Single Locus Minisatellite Variation in Brown Trout, Salmo trutta L., Populations, Genetics and Evolution of Aquatic Organisms, Beaumont, A.R., Ed., London: Chapman and Hall, 1994, pp. 263-270.
22. Taggart, J.B. and Ferguson, A., Hypervariable Minisatellite DNA Single Locus Probes for the Atlantic Salmon, Salmo salar L., J. Fish Biol., 1990, vol. 37, pp. 991-993.
23. Goldstein, D.B., Linares, A.R., and Cavalli-Sforza, L.L., An Evaluation of Genetic Distances for Use with Microsatellite Loci, Genetics, 1995, vol. 139, pp. 463-471.
24. Slatkin, M., A Measure of Population Subdivision Based on Microsatellite Allele Frequencies, Genetics, 1995, vol. 139, pp. 457-462.
25. Zhivotovsky, L.A. and Feldman, M.W., Microsatellite Variability and Genetic Distance, Proc. Natl. Acad. Sci. USA, 1995, vol. 92, pp. 11 549-11 552.
26. Mullis, K., Faloona, F., Scharf, S., et al., Specific Enzymatic Amplification of DNA in Vitro: The Polymerase Chain Reaction, Cold Spring Harbor Symp. Quant. Biol., 1986, vol. 51, pp. 263-273.
27. Saiki, R.K., Gelfand, D.H., Stoffel, S., et al., Primer-Directed Enzymatic Amplification of DNA with Thermostable DNA Polymerase, Science, 1988, vol. 239, pp. 487-491.
28. Datta, U., Datta, P., and Mandai, R.K., Cloning and Characterization of Highly Repetitive Fish Nucleotide Sequence, Gene, 1988, vol. 62, pp. 331-336.
29. Kan, Y.W and Dozy, A.M., Polymorphism of DNA Sequence Adjacent to the β-Globin Structural Gene: Its Relation to the sickle Mutation, Proc. Natl. Acad. Sci. USA, 1978, vol. 75, pp. 5631-5635.
30. Nei, M., Molecular Evolutionary Genetics, New York: Columbia Univ. Press, 1987.
31. Levinson, G. and Gutman, G.A., Slipped-Strand Mispairing: A Major Mechanism for DNA Sequence Evolution, Mol. Biol. Evol., 1987, vol. 4, pp. 2203-2221.
32. Jeffreys, A.J., Wilson, V., and Thein, S.L., Hypervariable "Minisatellite" Regions in Human DNA, Nature, 1985, vol. 316, pp. 67-73.
33. Jeffreys, A.J., Wilson, V., and Thein, S.L., Individual Specific "Fingerprints" of Human DNA, Nature, 1985, vol. 316, pp. 76-79.
34. Tautz, D., Hypervariability of Simple Sequences as a General Source for Polymorphic DNA Markers, Nucleic Acids Res., 1989, vol. 17, pp. 6463-6471.
35. Wright, J.M. and Bentzen, P., Microsatellites: Genetic Markers for the Future, Rev. Fish Biol. Fish., 1994, vol. 4, pp. 384-388.
36. Wright, J.M., Mutation at VNTRs: Are Minisatellites the Evolutionary Progeny of Microsatellites?, Genome, 1994, vol. 37, pp. 345-347.
37. Armour, J.A.L., Alegre, S.A., Miles, S., et al., Minisatellites and Mutation Processes in Tandemly Repetitive DNA, Microsatellites. Evolution and Application, Goldstein, D.B. and Schlotterer, C., Eds., New York: Oxford Univ. Press, 1999, pp. 24-33.
38. Microsatellites: Evolution and Application, Goldstein, D.B. and Schlotterer, C., Eds., New York: Oxford Univ. Press, 1999.
39. n Microsatellites: A New Class of Genetic Markers for Salmo trutta L. (Brown Trout), Heredity, 1993, vol. 71, pp. 488-496.
40. Kashi, Y. and Soller, M., Functional Roles of Microsatellites and Minisatellites, Microsatellites: Evolution and Application, Goldstein, D.B. and Schlotterer, C., Eds., New York: Oxford Univ. Press, 1999, pp. 10-23.
41. Hancock, J.M., Microsatellites and Other Simple Sequences: Genomic Context and Mutational Mechanisms, Microsatellites: Evolution and Application, Goldstein, D.B. and Schlotterer, C., Eds., New York: Oxford Univ. Press, 1999, pp. 1-9.
42. Weber, J.L. and Wong, C., Mutation of Human Short Tandem Repeats, Hum. Mol. Genet., 1993, vol. 2, pp. 1123-1128.
43. Neel, J.V., Satoh, Ch., Goriki, K., et al., The Rate with Which Spontaneous Mutation Alters the Electrophoretic Mobility of Polypeptides, Proc. Natl. Acad. Sci. USA, 1986, vol. 83, pp. 389-393.
44. Ward, R.D. and Grewe, P., Appraisal of Molecular Genetic Techniques in Fisheries, Rev. Fish Biol. Fish., 1994, vol. 4, pp. 300-325.
45. Huang, T., Cottingham, R., Ledbetter, D., and Zoghbi, H., Genetic Mapping of Four Dinucleotide Repeat Loci, DXS453, DXS458, DXS454, and DXS424, on the X Chromosome Using Multiplex Polymerase Chain Reaction, Genomics, 1992, vol. 13, pp. 375-380.
46. Zane, L., Bargelloni, L., and Patarnello, T., Strategies for Microsatellite Isolation: A Review, Mol. Ecol., 2002, vol. 11, no. 1, pp. 1-16.
47. DNA Markers: Protocols, Applications and Overviews, Caetano-Anolles, G. and Gresshoff, P.M., Eds., New York: Wiley, 1997.
48. Ward, R.D., Woodwark, M., and Skibinski, D.O.F., A Comparison of Genetic Diversity Levels in Marine, Freshwater and Anadromous Fishes, J. Fish. Biol., 1994, vol. 44, pp. 213-232.
49. Hughes, C.R. and Queller, D.C., Detection of Highly Polymorphic Microsatellite Loci in a Species with Little Allozyme Polymorphism, Mol. Ecol., 1993, vol. 2, pp. 131-137.
50. De Woody, J.A. and Avise, J.C., Microsatellite Variation in Marine, Freshwater and Anadromous Fishes Compared with Other Animals, J. Fish Biol., 2000, vol. 56, pp. 461-473.
51. Dufresne, F., Bourget, E., and Bernatchez, L., Differential Patterns of Spatial Divergence in Microsatellite and Allozyme Alleles: Further Evidence for Locus-Specific Selection in the Acorn Barnacle, Semibalanus balanoides?, Mol. Ecol., 2002, vol. 11, no. 1, pp. 113-124.
52. Balloux, F. and Lugon-Moulin, N., The Estimation of Population Differentiation with Microsatellite Markers, Mol. Ecol., 2002, vol. 11, pp. 155-165.
53. Shriver, M.D., Jin, L., Boerwinkle, L.E., et al., A Novel Measure of Genetic Distance for Highly Polymorphic Tandem Repeat Loci, Mol. Biol. Evol., 1995, vol. 12, pp. 914-920.
54. Zhivotovsky, L.A., A New Genetic Distance with Application to Constrained Variation at Microsatellite Loci, Mol. Biol. Evol., 1999, vol. 16, pp. 467-471.
55. Ruzzante, D.E., A Comparison of Several Measures of Genetic Distance and Population Structure with Microsatellite Data: Bias and Sampling Variance, Can. J. Fish. Aquat. Sci., 1998, vol. 55, pp. 1-14.
56. Weir, B.S. and Cockerham, C.C., Estimating F-Statistics for the Analysis of Population Structure, Evolution, 1984, vol. 38, pp. 1358-1370.
57. Dubrova, Yu.E., Jeffreys, A.J., and Malashenko, A.M., Mouse Minisatellite Mutations Induced by Ionizing Radiation, Nat. Genet., 1993, vol. 5, pp. 92-94.
58. Dubrova, Yu.E., Nesterov, V.N., Krouchinsky, N.G., et al., Human Minisatellite Mutation Rate after the Chernobyl Accident, Nature, 1996, vol. 380, pp. 683-686.
59. Dubrova, Yu.E., Plumb, M., Brown, J., et al., Stage Specificity, Dose Response, and Doubling Dose for Mouse Minisatellite Germline Mutation Induced by Acute Radiation, Proc. Natl. Acad. Sci. USA, 1998, vol. 95, pp. 6251-6255.
60. Ryskov, A.P., Multilocus DNA Fingerprinting in Population Genetic Studies of Biodiversity, Mol. Biol. (Moscow), 1999, vol. 33, no. 6, pp. 997-1011.
61. Fontaine, P.M., Dodson, J.J., Bernatchez, L., and Slettan, A., A Genetic Test of Metapopulation Structure in Atlantic Salmon (Salmo salar) Using Microsatellites, Can. J. Fish. Aquat. Sci., 1997, vol. 54, pp. 2434-2442.
62. Shaw, P.W., Turan, C., Wright, J.M., et al., Microsatellite DNA Analysis of Population Structure in Atlantic Herring (Clupea harengus), with Direct Comparison to Allozyme and mtDNA RFLP Analysis, Heredity, 1999, vol. 83, pp. 490-499.
63. Wirth, T. and Bernatchez, L., Genetic Evidence against Panmixia in the European Eel, Nature, 2001, vol. 409, pp. 1037-1040.
64. Banks, M.A., Rashbrook, V.K., Calavetta, M.J., et al., Analysis of Microsatellite DNA Resolves Genetic Structure and Diversity of Chinook Salmon (Oncorhynchus tshawytscha) in California's Central Valley, Can. J. Fish. Aquat. Sci., 2000, vol. 57, pp. 915-927.
65. Bernatchez, L., Dempson, J.B., and Martin, S., Microsatellite Gene Diversity Analysis in Anadromous Arctic Charr, Salvelinus alpinus, from Labrador, Canada, Can. J. Fish. Aquat. Sci., 1998, vol. 55, pp. 1264-1272.
66. Brunner, P.C., Douglas, M.R., and Bernatchez, L., Microsatellite and Mitochondrial DNA Assessment of Population Structure and Stocking Effects in Arctic Charr Salvelinus alpinus (Teliostei, Salmonidae) from Central Alpine Lakes, Mol. Ecol., 1998, vol. 7, pp. 209-223.
67. Primmer, C.R., Aho, T., Piironen, J., et al., Microsatellite Analysis of Hatchery Stocks and Natural Populations of Arctic Charr, Salvelinus alpinus, from the Nordic Region: Implications for Conservation, Hereditas (Lund, Swed.), 1999, vol. 130, pp. 277-289.
68. Burger, C.V., Scribner, K.T., Spearman, W.J., et al., Genetic Contribution of Three Introduced Life History of Sockeye Salmon to Colonization of Frazer Lake, Alaska, Can. J. Fish. Aquat. Sci., 2000, vol. 57, pp. 2096-2111.
69. Ruzzante, D.E., Hansen, M.M., and Meldrup, D., Distribution of Individual Inbreeding Coefficients, Relatedness and Influence of Stocking on Native Anadromous Brown Trout (Salmo trutta) Population Structure, Mol. Ecol., 2001, vol. 10, pp. 2107-2128.
70. Estoup, A. and Angers, B., Microsatellites and Minisatellites for Molecular Ecology: Theoretical and Empirical Considerations, Advances in Molecular Ecology: NATO Sciences Series, Carvalho, G.R., Ed., IOS Press, 1998, pp. 55-86.
71. Luikart, G. and England, P.R., Statistical Analysis of Microsatellite DNA Data, Trends Ecol. Evol., 1999, vol. 14, pp. 253-256.
72. Paetkau, D., Calwert, W., Stirling, I., and Strobeck, C., Microsatellite Analysis of Population Structure in Canadian Polar Bears, Mol. Ecol., 1995, vol. 4, pp. 347-354.
73. Banks, M.A. and Eichert, W., WHICHRUN (Version 3.2): A Computer Program for Population Assignment of Individuals Based on Multilocus Genotype Data, J. Hered., 2000, vol. 91, pp. 87-89.
74. Hansen, M.M., Kenchington, E., and Nielsen, E., Assigning Individual Fish to Populations Using Microsatellite DNA Markers, Fish Fisheries, 2001, vol. 2, no. 2, pp. 93-112.
75. Ferguson, A., Molecular Genetics in Fisheries: Current and Future Perspectives, Molecular Genetics in Fisheries, Carvalho, G.R. and Pitcher, T.G., Eds., London: Chapman and Hall, 1995, pp. 111-115.
76. Mousseau, T.A., Ritland, K., and Heath, D.D., A Novel Method for Estimating Heritability Using Molecular Markers, Heredity, 1998, vol. 80, pp. 218-224.
77. Karp, A. and Edwards, K., DNA Markers: A Global Overview, DNA Markers: Protocols, Applications and Overview, Caetano-Anolles, G. and Gressnoff, P.M., Eds., New York: Wiley, 1977, pp. 1-13.
78. Williams, J.G.K., Hanafey, M.K., Rafalski, J.A., and Tingey, S.V., Genetic Analysis Using Random Amplified Polymorphic DNA Markers, Methods in Enzymology, Wu, R., Ed., San Diego: Academic, 1993, pp. 704-740.
79. Mueller, U.G. and Wolfenbarger, L.L., AFLP Genotyping and Fingerprinting, Trends Ecol. Evol., 1999, vol. 14, pp. 389-394.
80. Krutovskii, K.V., Vollmer, S.S., Sorensen, F.C., et al., RAPD Genome Map of Douglas Fir, J. Hered., 1998, vol. 89, no. 3, pp. 197-205.
81. Schierwater, B., Ender, A., Schroth, W., et al., Arbitrarily Amplified DNA in Ecology and Evolution, DNA Markers: Protocols, Applications and Overview, Caetano-Anolles, G. and Gresshoff, P.M., Eds., New York: Wiley, 1997, pp. 313-330.
82. Paglia, G. and Morgante, M., PCR-Based Multiplex DNA Fingerprinting Techniques for the Analysis of Conifer Genomes, Mol. Breed., 1998, vol. 4, pp 173-177.
83. Altukhov, Yu.P. and Abramova, A.B., Monomorphic Species-Specific DNA Detectable by the Polymerase Chain Reaction with Arbitrary Primers, Genetika (Moscow), 2000, vol. 36, no. 12, pp. 1674-1681.
84. Altukhov, Yu.P., On the Relationship of Monomorphism and Polymorphism of Hemoglobins in Fish Microevolution, Dokl. Akad. Nauk SSSR, 1969, vol. 189, no. 5, pp. 115-117.
85. Altukhov, Yu.P. and Rychkov, Yu.G., Genetic Monomorphism of Species and Its Biological Significance, Zh. Obshch. Biol., 1972, vol. 33, pp. 281-300.
86. Omel'chenko, V.T., Electrophoretic Analysis of Hemoglobin in Fish of the Russian Far East, Genetika (Moscow), 1974, vol. 10, no. 9, pp. 35-43.
87. Singer, M. and Berg, P., Genes and Genomes, Mill Valley, California Univ. Sci. Books, 1991.
88. Ferris, S.D. and Berg, W.J., The Utility of Mitochondrial DNA in Fish Genetics and Management, Population Genetics and Fishery Management, Ryman, N., and Utter, F., Eds., Seattle: Univ. of Washington Press, 1987, pp. 277-301.
89. Bentzen, P., Wright, J.M., Bryden, L.T., et al., Tandem Repeat Polymorphism in the Mitochondrial Control Region of Redfishes (Sebastes: Scorpaenidae), J. Hered., 1998, vol. 89, pp. 1-7.
90. Eyre-Walker, A., Do Mitochondrial Genomes Recombine in Humans?, Philos. Trans. R. Soc. London, B, 2000, vol. 355, pp. 1573-1580.
91. Wallis, G.P., Do Animal Mitochondrial Genomes Recombine?, Trends Ecol. Evol., 1999, vol. 14, pp. 209-210.
92. Nei, M. and Tajima, F., DNA Polymorphism Detectable by Restriction Endonucleases, Genetics, 1981, vol. 105, pp. 207-217.
93. Moritz, C., Dowling, T.E., and Brown, W.M., Evolution of Animal Mitochondrial DNA: Relevance for Population Biology and Systematics, Annu. Rev. Ecol. Syst., 1987, vol. 18, pp. 269-292.
94. Van Hooft, W.F., Groen, A.F., and Prins, H.H.T., Phylogeography of the African Buffalo Based on Mitochondrial and Y-Chromosomal Loci: Pleistocene Origin and Population Expansion of the Cape Buffalo Subspecies, Mol. Ecol., 2002, vol. 11, pp. 267-279.
95. Wilkinson, G.S. and Ghapman, A.M., Length and Sequence Variation in Evening Bat D-Loop Mitochondrial DNA, Genetics, 1991, vol. 128, pp. 607-617.
96. Park, L.K., Brainard, M.A., Dingman, D.A., and Winans, G.A., Low Levels of Intraspecific Variation in the Mitochondrial DNA of Chum Salmon (Oncorhynchus keta), Mol. Mar. Biol. Biotechnol., 1993, vol. 2, no. 6, pp. 362-370.
97. Churikov, D., Matsuoka, M., Luan, X., et al., Assessment of Concordance among Genealogical Reconstructions from Various mtDNA Segments in Three Species of Pacific Salmon (Genus Oncorhynchus), Mol. Ecol., 2001, vol. 19, no. 9, pp. 2329-2339.
98. Brown, W.M., George, M., and Wilson, A.C., Rapid Evolution of Animal Mitochondrial DNA, Proc. Natl. Acad. Sci. USA, 1979, vol. 76, pp. 1967-1971.
99. Ferris, S.D., Sage, R.D., Prager, E.M., et al., Mitochondrial DNA Evolution in Mice, Genetics, 1983, vol. 105, pp. 681-721.
100. Cann, R.L., Stoneking, M., and Wilson, A.C., Mitochondrial DNA and Human Evolution, Nature, 1987, vol. 325, pp. 31-36.
101. Harrison, R.G., Animal Mitochondrial DNA as a Genetic Marker in Population and Evolutionary Biology, Trends Ecol. Evol., 1989, vol. 4, pp. 6-11.
102. Horai, S., Hoyasaka, K., Kondo, R., et al., Recent African Origin of Modern Humans Revealed by Complete Sequences of Hominoid Mitochondrial DNAs, Proc. Natl. Acad. Sci. USA, 1995, vol. 92, pp. 532-536.
103. Ingman, M., Kaessmann, H., Paabo, S., and Gyllensten, U., Mitochondrial Genome Variation and the Origin of Modern Humans, Nature, 2000, vol. 408, pp. 708-712.
104. Avise, J.C., Molecular Markers, Natural History and Evolution, New York: Chapman and Hall, 1994.
105. Avise, J.C., Phylogeography: The History and Formation of Species, Cambridge, Ma: Harvard Univ. Press, 2000.
106. Bernatchez, L. and Wilson, C.C., Comparative Phylogeography of Nearctic and Palearctic Fishes, Mol. Ecol., 1998, vol. 7, pp. 431-452.
107. Billington, N. and Hebert, P.D.H., Mitochondrial DNA Diversity of Fishes and Its Implications for Introductions, Can. J. Fish. Aquat. Sci., 1991, vol. 48, suppl. 1, pp. 80-94.
108. Wayne, R.K. and Jenks, S.M., Mitochondrial DNA Analysis Supported Extensive Hybridization of the Endangered Wolf (Canis rufus), Nature, 1991, vol. 351, pp. 565-568.
109. Wilson, C.C. and Bernatchez, L., The Ghost of Hybrid Past: Fixation of Arctic Charr (Salvelinus alpinus) Mitochondrial DNA in Introgressed Population of Lake Trout (S. namaycush), Mol. Ecol., 1998, vol. 7, pp. 127-132.
110. Felsenstein, J., PHYLIP (Phylogeny Inference Package), Version 3.4, Department of Genetics, SK-540, Seattle: Washington Univ., 1992.
111. Schneider, S., Roessli, D., and Excoffier, L., Arlequin: A Software for Population Genetics Data Analysis, Ver. 2000, Geneva: Univ. of Geneva, 2000.
112. Excoffier, L., Smouse, P.E., and Quattro, J.M., Analyses of Molecular Variance Inferred from Metric Distances among DNA Haplotypes: Application to Human Mitochondrial DNA Restriction Data, Genetics, 1992, vol. 131, pp. 479-491.
113. Cavalli-Sforza, L.L., The DNA Revolution in Population Genetics, Trends Genet., 1998, vol. 14, no. 2, pp. 60-65.
114. Santos, F. and Tyler-Smith, C., Reading the Human Y-Chromosome: Emerging DNA Markers and Human Genetic History, Braz. J. Genet., 1996, vol. 18, pp. 669-672.
115. Jobling, M.A. and Tyler-Smith, C., New Uses for New Haplotypes: The Human Y Chromosome, Disease and Selection, Trends Genet., 2000, vol. 16, no. 8, pp. 356-362.
116. Underhill, P.A., Shen, P., Lin, A.A., et al., Y Chromosome Sequence Variation and the History of Human Populations, Nat. Genet., 2000, vol. 26, pp. 358-361.
117. Hammer, M., A Recent Insertion of an Alu Element on the Y Chromosome Is a Useful Marker for Human Population Studies, Mol. Biol. Evol., 1994, vol. 11, pp. 749-761.
118. Underhill, P.A., Jin, L., Zemans, R., et al., A Pre-Columbian Y Chromosome-Specific Transition and Its Implications for Human Evolutionary History, Proc. Natl. Acad. Sci. USA, 1996, vol. 93, pp. 196-200.
119. Seielstad, M.T., Minch, E., and Cavalli-Sforza, L.L., Genetic Evidence for a Higher Female Migration Rate in Humans, Nat. Genet., 1998, vol. 20, pp. 278-280.
120. Ota, H., Settheetham-Ishida, W., Tiwawech, D., et al., Human mtDNA and Y-Chromosome Variation Is Correlated with Matrilocal versus Patrilocal Residence, Nat. Genet., 2001, vol. 29, pp. 20-21.
121. Sinclair, A.H., Berta, P., Palmer, M.S., et al., A Gene From the Human Sex-Determining Region Encodes a Protein with Homology to a Conserved DNA-Binding Motif, Nature, 1990, vol. 346, pp. 240-244.
122. Lahn, B.T. and Page, D.C., Functional Coherence of the Human Y Chromosome, Science, 1997, vol. 278, pp. 675-680.
123. Gibson, G., Microarrays in Ecology and Evolution: A Preview, Mol. Ecol., 2002, vol. 11, no. 1, pp. 17-24.
124. Wang, D.G., Fan, J.-B., Siao, C.J., et al., Large-Scale Identification: Mapping and Genotyping of Single-Nucleotide Polymorphism in the Human Genome, Science, 1998, vol. 280, pp. 1077-1082.
125. Cargill, M., Altshuler, D., Ireland, J., et al., Characterization of Single-Nucleotide Polymorphism in Coding Regions of Human Genes, Nat. Genet., 1999, vol. 22, pp. 231-238.
126. Halushka, M.K., Fan, J.-B., Bentley, K., et al., Pattern of Single-Nucleotide Polymorphism in Candidate Genes for Blood-Pressure Homeostasis, Nat. Genet., 1999, vol. 22, pp. 239-247.
127. Lander, E.S., The New Genomics: Global Views of Biology, Science, 1996, vol. 274, pp. 536-539.
128. Przeworski, M., Hudson, R.R., and Di Rienzo, A., Adjusting the Focus on Human Variation, Trends Genet., 2000, vol. 16, no. 7, pp. 282-290.
129. Krutovskii, K.V. and Neale, D.B., Forest Genomics for Conserving Adaptive Genetic Diversity, Forest Genetics Resources: Working Papers, Rome: Forest Resources Dev. Serv., 2001.
130. Wolfsberg, T.G. and Landsman, D., A Comparison of Expressed Sequence Tags (ESTs) to Human Genomic Sequences, Nucleic Acids Res., 1997, vol. 26, pp. 1626-1632.
131. Chakravarti, A., Population Genetics - Making Sense out of Sequence, Nat. Genet., 1999, vol. 21, pp. 56-60.
132. Singer, M.F., SINEs and LINEs: Highly Repeated Short and Long Interspersed Sequences in Mammalian Genomes, Cell (Cambridge, Mass.), 1982, vol. 28, pp. 433-434.
133. Rogers, J.H., The Origin and Evolution of Retroposons, Int. Rev. Cytol., 1985, vol. 93, pp. 187-279.
134. Okada, N., SINEs: Short Interspersed Repeated Elements of the Eukaryotic Genome, Trends Ecol. Evol., 1991, vol. 6, pp. 358-361.
135. Kocher, T.D., Thomas, W.K., Meyer, A., et al., Dynamics of Mitochondrial DNA Evolution in Animals: Amplification and Sequencing with Conserved Primers, Proc. Natl. Acad. Sci. USA, 1989, vol. 86, pp. 6196-6200.
136. Saccone, C., Pesole, G., and Sbisa, E., The Main Regulatory Region of Mammalian Mitochondrial DNA: Structure-Function Model and Evolutionary Pattern, J. Mol. Evol., 1991, vol. 33, pp. 83-91.
137. Bielawski, J.P. and Gold, J.R., Unequal Synonymous Substitution Rate within and between Two Protein-Coding Mitochondrial Genes, Mol. Biol. Evol., 1996, vol. 13, pp. 889-892.
138. Wise, C.A., Sraml, M., and Easteal, S., Departure from Neutrality at the Mitochondrial NADP Dehydrogenase Subunit 2 Gene in Humans, but Not in Chimpanzees, Genetics, 1998, vol. 148, pp. 400-421.
139. Chinnery, P.F. and Turnbull, D.M., Mitochondrial DNA Mutations in the Pathogenesis of Human Diseases, Mol. Med. Today, 2000, vol. 6, pp. 425-432.
140. Rand, D.M., Endotherms, Ectotherms and Mitochondrial Genome-Size Variation, J. Mol. Evol., 1993, vol. 37, pp. 281-295.
141. Blier, P.U., Dufresne, F., and Burton, R.S., Natural Selection and the Evolution of mtDNA-Encoded Peptides: Evidence for Intergenomic Co-Adaptation, Trends Genet., 2001, vol. 17, no. 7, pp. 400-406.
142. Kimura, M., Genetic Variability Maintained in a Finite Population Due to Mutational Production of Neutral and Nearly Neutral Isoalleles, Genet. Res., 1968, vol. 11, pp. 247-269.
143. King, J.L. and Jukes, T.H., Non-Darwinian Evolution: Random Fixation of Selectively Neutral Mutations, Science, 1969, vol. 164, pp. 788-798.
144. Otto, S.P., Detecting the Form of Selection from DNA Sequence Data, Trends Genet., 2000, vol. 16, no. 12, pp. 526-529.
145. Nielsen, R., Statistical Tests of Selective Neutrality in the Age Genomics, Heredity, 2001, vol. 86, no. 6, pp. 641-647.
146. Sunyaev, S.R., Lathe, W.C. III, Ramensky, V.E., and Bork, P., SNP Frequencies in Human Genes: An Excess of Rare Alleles and Differing Modes of Selection, Trends Genet., 2000, vol. 16, no. 8, pp. 335-337.
147. Balanovskaya, E.V. and Rychkov, Yu.G., Ethnic Genetics: The Adaptive Gene-Pool Structure of the Global Population as Inferred from the Data on Human Polymorphic Genetic Markers, Genetika (Moscow), 1990, vol. 26, no. 4, pp. 739-748.
148. Rychkov, Yu.G. and Balanovskaya, E.V., Ethnic Genetics: The Relationship between Adaptive and Neutral Genetic Differentiation of Ethnic Groups, Genetika (Moscow), 1990, vol. 26, no. 3, pp. 541-549.
149. Rychkov, Yu.G. and Sheremetyeva, V.A., The Genetics of Circumpolar Populations of Eurasia Related to the Problem of Human Adaptation, The Human Biology of Circumpolar Populations, Milan, F.A., Ed., Cambridge: Cambridge Univ. Press, 1979, vol. 21, pp. 37-80.
150. Altukhov, Yu.P., Geneticheskie protsessy v populyatsiyakh (Genetic Processes in Populations), Moscow Nauka, 1989, 2nd ed.
151. Altukhov, Yu.P., Salmenkova, E.A., and Omelchenko, V.T., Salmonid Fishes: Population Biology, Genetics, and Management, Oxford: Blackwell Sci., 2000.
152. Bowcock, A.M., Bucci, C., Hebert, J.M., et al., Study of 47 DNA Markers in Five Populations of Four Continents, Gene Geogr., 1987, no. 1, pp. 47-64.
153. Cooper, D.N. and Schmidke, J., DNA Restrictions Fragment Length Polymorphism and Heterozygosity in Human Genome, Hum. Genet., 1984, vol. 66, pp. 1-16.
154. Rychkov, Yu.G. and Balanovskaya, E.V., Genetic Differentiation of Human Populations: Can DNA Polymorphism Be Predicted from Immunobiochemical Polymorphism?, Molekulyarnye mekhanizmy geneticheskikh protsessov (Molecular Mechanisms of Genetic Processes), Moscow: Nauka, 1990, pp. 67-83.
155. Sanchez, J.A., Clabby, C., Ramos, D., et al., Protein and Microsatellite Single-Locus Variability in Salmo salar L. (Atlantic Salmon), Heredity, 1996, vol. 77, pp. 423-432.
156. Dubreuil, P. and Charcosset, A., Gene Diversity within and among Maize Populations: A Comparison Between Isozyme and Nuclear RFLP Loci, Theor. Appl. Genet., 1998, vol. 96, pp. 577-587.
157. Aagaard, J.E., Krutovsky, K.V., and Strauss, S.H., RAPDs and Allozymes Exhibit Similar Levels of Diversity and Differentiation among Populations and Races of Douglas-Fir, Heredity, 1998, vol. 81, pp. 69-78.
158. Ross, K.G., Shoemaker, D.D., Krieger, M.J., et al., Assessing Genetic Structure with Multiple Classes of Molecular Markers: A Case Study Involving the Introduced Fire Ant Soenopsis invicta, Mol. Biol. Evol., 1999, vol. 16, pp. 525-543.
159. Raybould, A.F., Goudet, J., Mogg, R.J., et al., Genetic Structure of a Linear Population of Beta vulgaris ssp. maritime (Sugar Beet) Revealed by Isozyme and RFLP Analysis, Heredity, 1996, vol. 76, pp. 111-112.
160. Pogson, G.H., Mesa, K.A., and Boutilier, R.G., Genetic Population Structure and Gene Flow in Atlantic Cod, Gadus morhua: A Comparison of Allozyme and RFLP Loci, Genetics, 1995, vol. 139, pp. 375-385.
161. Latta, R.G. and Mitton, J.B., A Comparison of Population Differentiation across Four Classes of Gene Markers in Limber Pine (Pinus flexilis James), Genetics, 1997, vol. 146, pp. 1153-1163.
162. Karl, S.A. and Avise, J.C., Balancing Selection at Allozyme Loci in Oysters: Implications from Nuclear RFLPs, Science, 1992, vol. 256, pp. 100-102.
163. Scribner, K.T., Arntzen, J.W., and Burke, T., Comparative Analysis of Intra- and Interpopulation Genetic Diversity in Bufo bufo, Using Allozyme, Single-Locus Microsatellite, Minisatellite and Multilocus Minisatellite Data, Mol. Biol. Evol., 1994, vol. 11, pp. 737-748.
164. Altukhov, Yu.P., Balancing Selection as a Factor in Maintaining Allozyme Polymorphism, Usp. Sovrem. Biol., 1989, vol. 107, pp. 323-340.
165. Lewontin, R.C., The Genetic Basis of Evolutionary Change, New York: Columbia Univ. Press, 1974.
166. Politov, D.V., Krutovskii, K.V., and Altukhov, Yu.P., Characterization of the Gene Pools of Cedar Pine Populations with Respect to Several Isozyme Loci, Genetika (Moscow), 1992, vol. 28, no. 1, pp. 93-114.
167. Politov, D.V. and Krutovskii, K.V., Phylogenetics, Phylogeography and Hybridization of Five-Needle Pines in Russia and Neighboring Counties, Breeding and Genetic Resources of Five-Needle Pines: Adaptability and Pest Resistance: Proc. Conf. IUFRO Working Party 2.02.15 (July 23-27, 2001), Medford, Oreg.: USS Forest Serv., publ. no. RMRS-P-000 (in press).
168. Glubokovsky, M.K. and Zhivotovsky, L.A., The Population Structure of Pink Salmon: A System of Fluctuating Stocks, Biol. Morya, 1986, no. 2, pp. 39-44.
169. Zhivotovsky, L.A., Glubokovsky, M.K., Viktorovsky, R.M., et al., Genetic Differentiation of Pink Salmon, Genetika (Moscow), 1989, vol. 25, no. 7, pp. 1261-1274.
170. Glubokovsky, M.K., Zhivotovsky, L.A., Viktorovsky, R.M., et al., Organization of Pink Salmon Populations, Genetika (Moscow), 1989, vol. 25, no. 7, pp. 1275-1284.
171. Brykov, V.A., Polyakova, N.E., Skurikhina, L.A., et al., The Population Genetic Structure of Pink Salmon Oncorhynchus gorbuscha (Walbaum) as Revealed by Restriction Enzyme Analysis of Mitochondrial DNA: Temporal Heterogeneity at the Period of Spawning Run, Genetika (Moscow), 1999, vol. 35, no. 5, pp. 666-673.
172. Brykov, V.A., Polyakova, N., Skurihina, L.A., and Kukhlevsky, A.D., Geographical and Temporal Mitochondrial DNA Variability in Populations of Pink Salmon, J. Fish. Biol., 1996, vol. 48, pp. 899-909.
173. Altukhov, Yu.P., The Role of Balancing Selection and Overdominance in Maintaining Allozyme Polymorphism, Genetics (Netherl.), 1991, vol. 85, pp. 79-90.
174. Rogers, A., Order Emerging from Chaos in Human Evolutionary Genetics, Proc. Natl. Acad. Sci. USA, 2001, vol. 98, no. 3, pp. 779-780.
175. Park, L.K. and Moran, P., Developments in Molecular Genetic Techniques in Fisheries, Rev. Fish Biol., 1994, vol. 4, pp. 272-299.
176. Morris, D.B., Richard, K.R., and Wright, J.M., Microsatellites from Rainbow Trout (Oncorhynchus mykiss) and Their Use for Genetic Study in Salmonids, Can. J. Fish. Aquat. Sci., 1996, vol. 53, pp. 120-126.
177. Ohdachi, S., Dokuchaev, N.B., Hasegava, M., and Masuda, R., Intraspecific Phylogeny and Geographical Variation of Six Species of Northeastern Asiatic Sorex Shrews Based on the Mitochondrial Cytochrome B Sequences, Mol. Ecol., 2001, vol. 10, pp. 2199-2213.