Differentiation among populations with migration, mutation, and drift: Implications for genetic inference

Evolution

Volumn 60, Issue 1, 2006, Pages 1-12

  Song, Seongho ^a   Dey, Dipak K ^b   Holsinger, Kent E ^b  

^a UNIVERSITY OF CINCINNATI   (United States)

^b UNIVERSITY OF CONNECTICUT   (United States)

Author keywords

F statistics; Genetic drift; Migration; Mutation; Population structure

Indexed keywords

BAYESIAN ANALYSIS; DIFFERENTIATION; DRIFT BEHAVIOR; HIERARCHICAL SYSTEM; MUTATION; POPULATION MIGRATION;

ANIMAL; ARTICLE; BIOLOGICAL MODEL; EVOLUTION; GENETIC DRIFT; MUTATION; POPULATION MIGRATION; STATISTICAL MODEL;

ANIMAL MIGRATION; ANIMALS; EVOLUTION; GENETIC DRIFT; MODELS, GENETIC; MODELS, STATISTICAL; MUTATION;

EID: 33646710406     PISSN: 00143820     EISSN: 15585646     Source Type: Journal    
DOI: 10.1554/05-315.1     Document Type: Article

References (39)

1. Balding, D. J. 2003. Likelihood-based inference for genetic correlation coefficients. Theor. Popul. Biol. 63:221-230.
2. Balding, D. J., and R. A. Nichols. 1995. A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity. Genetica 96:3-12.
3. Cann, H. M., C. de Toma, L. Cazes, M.-F. Legrand, V. Morel, L. Piouffre, J. Bodmer, W. F. Bodmer, B. Bonne-Tamir, A. Cambon-Thomsen, Z. Chen, J. Chu, C. Carcassi, L. Contu, R. Du, L. Excoffier, J. S. Friedlaender, H. Groot, D. Gurwitz, R. J. Herrera, X. Huang, J. Kidd, K. K. Kidd, A. Langaney, A. A. Lin, S. Q. Mehdi, P. Parham, A. Piazza, M. P. Pistillo, Y. Qian, Q. Shu, J. Xu, S. Zhu, J. L. Weber, H. T. Greely, M. W. Feldman, G. Thomas, J. Dausset, and L. L. Cavalli-Sforza. 2002. A human genome diversity cell line panel. Science 296:261-262.
4. Cockerham, C. C. 1969. Variance of gene frequencies. Evolution 23:72-84.
5. Crow, J. F., and K. Aoki. 1984. Group selection for a polygenic behavioral trait: estimating the degree of population subdivision. Proc. Natl. Acad. Sci. USA 81:6073-6077.
6. Crow, J. F., and M. Kimura. 1970. An introduction to population genetics theory. Harper and Row, New York.
7. Dyer, R. J., and J. D. Nason. 2004. Population graphs: the graph theoretic shape of genetic structure. Mol. Ecol. 13:1713-1727.
8. Epperson, B. K., and T.-Q. Li. 1997. Gene dispersal and spatial genetic structure. Evolution 51:672-681.
9. Ewens, W. J. 1979. Mathematical population genetics. Springer, New York.
10. Felsenstein, J. 1975. A pain in the torus: some difficulties with models of isolation by distance. Am. Nat. 109:359-368.
11. Fu, R., A. E. Gelfand, and K. E. Holsinger. 2003. Exact moment calculations for genetic models with migration, mutation, and drift. Theor. Popul. Biol. 63:231-243.
12. Fu, R., D. K. Dey, and K. E. Holsinger. 2005. Bayesian models for the analysis of genetic structure when populations are correlated. Bioinformatics 21:1516-1529.
13. Gilks, W. R., S. Richardson, and D. J. Spiegelhalter. 1996. Introducing Markov chain Monte Carlo. Pp. 1-19 in W. R. Gilks, S. Richardson, and D. J. Spiegelhalter, eds. Markov chain Monte Carlo in practice. Chapman and Hall/CRC, New York.
14. Griffiths, R. C. 1979. A transition density expression for a multi-allele diffusion model. Adv. Appl. Prob. 11:310-325.
15. Holsinger, K. E. 1999. Analysis of genetic diversity in geographically structured populations: a Bayesian perspective. Hereditas 130:245-255.
16. _. 2006. Bayesian hierarchical models in geographical genetics. Pp. 25-37 in J. S. Clark and A. E. Gelfand, eds. Applications of computational statistics in the environmental sciences. Oxford Univ. Press, New York.
17. Kimura, M., and G. H. Weiss. 1964. The stepping stone model of population structure and decrease of genetic correlation with distance. Genetics 49:561-576.
18. Li, Y.-J. 1996. Characterizing the structure of genetic populations, Ph.D. diss., North Carolina State University, Raleigh, NC.
19. Malécot, G. 1948. Les Mathématiques de l'Héré dité. Masson et Cie, Paris.
20. Maruyama, T. 1977. Stochastic problems in population genetics. Springer-Verlag, Berlin.
21. McCullagh, P., and J. A. Nelder. 1989. Generalized linear models. 2nd ed. Chapman and Hall, London.
22. Nagylaki, T. 1976. The decay of genetic variability in geographically structured populations. Theor. Popul. Biol. 10:70-82.
23. _. 1992. Geographical invariance in population genetics. J. Theor. Biol. 99:159-172.
24. Nei, M. 1973. Analysis of gene diversity in subdivided populations. Proc. Natl. Acad. Sci. USA 70:3321-3323.
25. Nei, M., and M. W. Feldman. 1972. Identity of genes by descent within and between populations under mutation and migration pressures. Theor. Popul. Biol. 3:460-465.
26. Nicholson, G., A. V. Smith, F. Jonsson, O. Gustafsson, K. Stefansson, and P. Donnelly. 2002. Assessing population differentiation and isolation from single-nucleotide polymorphism data. J. R. Stat. Soc. Ser. B 64:695-715.
27. Notohara, M. 1990. The coalescent and the genealogical process in geographically structured population. J. Math. Biol. 29:59-75.
28. Pritchard, J. K., M. Stephens, and P. Donnelly. 2000. Inference of population structure using multilocus genotype data. Genetics 155:945-959.
29. Roeder, K., M. Escobar, J. B. Kadane, and I. Balazs. 1998. Measuring heterogeneity in forensic databases using hierarchical Bayes models. Biometrika 85:269-287.
30. Rosenberg, N. A., J. K. Pritchard, J. L. Weber, H. M. Cann, K. K. Kidd, L. A. Zhivotovsky, and M. W. Feldman. 2002. Genetic structure of human populations. Science 298:2381-2385.
31. Rousset, F. 1999. Genetic differentiation in populations with different classes of individuals. Theor. Popul. Biol. 55:297-308.
32. _. 2001. Inferences from spatial population genetics. Pp. 239-269 in D. J. Balding, M. Bishop, and C. Cannings, eds. Handbook of statistical genetics. John Wiley and Sons, Chichester, U.K.
33. Slatkin, M. 1991. Inbreeding coefficients and coalescence times. Genet. Res. 58:167-175.
34. Weir, B. S. 1996. Genetic data analysis. II. Sinauer Associates, Sunderland, MA.
35. Weir, B. S., and C. C. Cockerham. 1984. Estimating F-statistics for the analysis of populations structure. Evolution 38:1358-1370.
36. Weir, B. S., and W. G. Hill. 2002. Estimating F-statistics. Annu. Rev. Genet. 36:721-750.
37. Wright, S. 1931. Evolution in Mendelian populations. Genetics 16:97-159.
38. _. 1951. The genetical structure of populations. Ann. Eugenics 15:323-354.
39. _. 1969. Evolution and the genetics of populations. Vol. 2. The theory of gene frequencies. Univ. of Chicago Press, Chicago, IL.