Evolution of coadaptation in a subdivided population

Genetics

Volumn 176, Issue 1, 2007, Pages 501-511

  Takahasi, K Ryo ^a  

^a RIKEN YOKOHAMA INSTITUTE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ALLELISM; ARTICLE; CONTROLLED STUDY; EPISTASIS; GENE FLOW; GENE FREQUENCY; GENE MUTATION; HAPLOTYPE; HUMAN; MOLECULAR EVOLUTION; POPULATION MIGRATION; PRIORITY JOURNAL; ADAPTATION; ANIMAL; BIOLOGICAL MODEL; BIRTH; DEATH; EVOLUTION; GENETIC EPISTASIS; GENETIC LINKAGE; GENETIC SELECTION; GENETICS; MUTATION; POPULATION GENETICS; TIME;

ADAPTATION, BIOLOGICAL; ANIMAL MIGRATION; ANIMALS; DEATH; EPISTASIS, GENETIC; EVOLUTION; GENE FREQUENCY; GENETICS, POPULATION; LINKAGE (GENETICS); MODELS, GENETIC; MUTATION; PARTURITION; SELECTION (GENETICS); TIME FACTORS;

EID: 34548588691     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.106.063636     Document Type: Article

References (70)

1. BARTON, N. H., 1993 The probability of fixation of a favoured allele in a subdivided population. Genet. Res. 62: 149-157.
2. BRIGGS, C. J., and M. F. HOOPES, 2004 Stabilizing effects in spatial parasitoid-host and predator-prey models: a review. Theor. Popul. Biol. 65: 299-315.
3. BURCH, C. L., and L. CHAO, 1999 Evolution by small steps and rugged landscapes in the RNA virus φ6. Genetics 151: 921-927.
4. CHAVE, J., H. C. MULLER-LANDAU and S. A. LEVIN, 2002 Comparing classical community models: theoretical consequences for patterns of diversity. Am. Nat. 159: 1-23.
5. CHERRY, J. L., 2003a Selection in a subdivided population with dominance or local frequency dependence. Genetics 163: 1511-1518.
6. CHERRY, J. L., 2003b Selection in a subdivided population with local extinction and recolonization. Genetics 164: 789-795.
7. CHERRY, J. L., 2004 Selection, subdivision and extinction and recolonization. Genetics 166: 1105-1114.
8. CHERRY, J. L., and J. WAKELEY, 2003 A diffusion approximation for selection and drift in a subdivided population. Genetics 163: 421-428.
9. COYNE, J. A., N. H. BARTON and M. TURELLI, 1997 Perspective: a critique of Sewall Wright's shifting balance theory of evolution. Evolution 51: 645-671.
10. COYNE, J. A., N. H. BARTON and M. TURELLI, 2000 Is Wright's shifting balance process important in evolution? Evolution 54: 306-317.
11. DYKHUIZEN, D., and D. L. HARTL, 1980 Selective neutrality of 6PGD allozymes in E. coli and the effects of genetic background. Genetics 96: 801-817.
12. ESHEL, I., and L. L. CAVALLI-SFORZA, 1982 Assortment of encounters and evolution of cooperativeness. Proc. Natl. Acad. Sci. USA 79: 1331-1335 (corrigendum: Proc. Natl. Acad. Sci. USA 80: 1135).
13. EWENS, W. J., 1994 The changing role of population genetics theory, pp. 186-197 in Frontiers in Mathematical Biology, edited by S. A. Levin. Springer, Berlin.
14. EWENS, W. J., 2004 Mathematical Population Genetics I: Theoretical Introduction, Ed. 2. Springer, New York.
15. FISHER, R. A., 1930 The Genetical Theory of Natural Selection. Clarendon Press, Oxford.
16. GAVRILETS, S., 2004 Fitness Landscapes and the Origin of Species. Princeton University Press, Princeton, NJ.
17. GAVRILETS, S., and N. GIBSON, 2002 Fixation probabilities in a spatially heterogeneous environment. Popul. Ecol. 44: 51-58.
18. GIBSON, G., and I. DWORKIN, 2004 Uncovering cryptic genetic variation. Nat. Rev. Genet. 5: 681-690.
19. GILLESPIE, J. H., 1983 A simple stochastic gene substitution process. Theor. Popul. Biol. 23: 202-215.
20. GILLESPIE, J. H., 1984 Molecular evolution over the mutational landscape. Evolution 38: 1116-1129.
21. GOODNIGHT, C. J., 2000 Modeling gene interactions in structured populations, pp. 129-145 in Epistasis and the Evolutionary Process, edited by J. B. WOLF, E. D. BRODIE III and M. J. WADE. Oxford University Press, New York.
22. GOODNIGHT, C. J., and M. J. WADE, 2000 The ongoing synthesis: a reply to Coyne, Barton and Turelli. Evolution 54: 317-324.
23. GRISWOLD, C. K., and M. C. WHITLOCK, 2003 The genetics of adaptation: the roles of pleiotropy, stabilizing selection and drift in shaping the distribution of bidirectional fixed mutational effects. Genetics 165: 2181-2192.
24. HALDANE, J. B. S., 1927 A mathematical theory of natural and artificial selection. V. Selection and mutation. Proc. Camb. Philos. Soc. 23: 838-844.
25. HAMMERSTEIN, P., 1996 Darwinian adaptation, population genetics and the streetcar theory of evolution. J. Math. Biol. 34: 511-532.
26. HARTL, D. L., and C. H. TAUBES, 1996 Compensatory nearly neutral mutations: selection without adaptation. J. Theor. Biol. 182: 303-309.
27. HARTL, D. L., and C. H. TAUBES, 1998 Towards a theory of evolutionary adaptation. Genetica 102/103: 525-533.
28. HARTL, D. L., D. E. DYKHUIZEN and A. M. DEAN, 1985 Limits of adaptation: the evolution of selective neutrality. Genetics 111: 655-674.
29. HERMISSON, J., and G. P. WAGNER, 2004 The population genetic theory of hidden variation and genetic robustness. Genetics 168: 2271-2284.
30. HEY, J., and C. A. MACHADO, 2003 The study of structured populations - new hope for a difficult and divided science. Nat. Rev. Genet. 4: 535-543.
31. KAUFFMAN, S., and S. LEVIN, 1987 Towards a general theory of adaptive walks on rugged landscapes. J. Theor. Biol. 128: 11-45.
32. KIMURA, M., 1983 The Neutral Theory of Molecular Evolution. Cambridge University Press, Cambridge, UK.
33. KIMURA, M., 1986 DNA and the neutral theory. Philos. Trans. R. Soc. Lond. Ser. B 312: 343-354.
34. KIMURA, M., 1990 Some models of neutral evolution, compensatory evolution, and the shifting balance process. Theor. Popul. Biol. 37: 150-158.
35. KIMURA, M., 1991 Recent development of the neutral theory viewed from the Wrightian tradition of theoretical population genetics. Proc. Natl. Acad. Sci. USA 88: 5969-5973.
36. KIMURA, M., and N. TAKAHATA, 1983 Selective constraint in protein polymorphism: study of the selectively neutral mutation model by using an improved pseudosampling method. Proc. Natl. Acad. Sci. USA 80: 1048-1052.
37. LANDE, R., 1979 Effective deme sizes during long-term evolution estimated from rates of chromosome rearrangement. Evolution 33: 234-251.
38. MARUYAMA, T., 1970 On the fixation probability of mutant genes in a subdivided population. Genet. Res. 15: 221-225.
39. MAYNARD SMITH, J., 1970 Natural selection and the concept of a protein space. Nature 225: 563-564.
40. NISHINO, J., and F. TAJIMA, 2004 Effect of dominance on heterozygosity and the fixation probability in a subdivided population. Genes Genet. Syst. 79: 41-48.
41. NISHINO, J., and F. TAJIMA, 2005 Effect of population structure on the amount of polymorphism and the fixation probability under overdominant selection. Genes Genet. Syst. 80: 287-295.
42. ORR, H. A., 1998 The population genetics of adaptation: the distribution of factors fixed during adaptive evolution. Evolution 52: 935-949.
43. ORR, H. A., 2002 The population genetics of adaptation: the adaptation of DNA sequences. Evolution 56: 1317-1330.
44. PHILLIPS, P. C., 1996 Waiting time for a compensatory mutation: phase zero of the shifting-balance process. Genet. Res. 67: 271-283.
45. POON, A., and S. P. OTTO, 2000 Compensating for our load of mutations: freezing the meltdown of small populations. Evolution 54: 1467-1479.
46. RICE, S. H., 1990 A geometric model for the evolution of development. J. Theor. Biol. 143: 319-342.
47. ROZE, D., and F. ROUSSET, 2003 Selection and drift in subdivided populations: a straightforward method for deriving diffusion approximations and applications involving dominance, selfing and local extinctions. Genetics 165: 2153-2165.
48. RUTHERFORD, S. L., 2000 From genotype to phenotype: buffering mechanisms and the storage of genetic information. BioEssays 22: 1095-1105.
49. SLATKIN, M., 1981 Fixation probabilities and fixation times in a subdivided population. Evolution 35: 477-478.
50. STEPHAN, W., 1996 The rate of compensatory evolution. Genetics 144: 419-426.
51. TAKAHASI, K. R., and F. TAJIMA, 2005 Evolution of coadaptation in a two-locus epistatic system. Evolution 59: 2324-2332.
52. TAKAHATA, N., 1991 Genealogy of neutral genes and spreading of selected mutations in a geographically structured population. Genetics 129: 585-595.
53. THOMPSON, J. N., 1999 Specific hypotheses on the geographic mosaic of coevolution. Am. Nat. 153: S1-S14.
54. VAN NIMWEGEN, E., J. P. CRUTCHFIELD and M. HUYNEN, 1999 Neutral evolution of mutational robustness. Proc. Natl. Acad. Sci. USA 96: 9716-9720.
55. WADE, M. J., 2002 A gene's eye view of epistasis, selection and speciation. J. Evol. Biol. 15: 337-346.
56. WADE, M. J., and C. J. GOODNIGHT, 1998 Perspective: the theories of Fisher and Wright in the context of metapopulations: when nature does many small experiments. Evolution 52: 1537-1553.
57. WAGNER, A., 2005 Robustness and Evolvability in Living Systems. Princeton University Press, Princeton, NJ.
58. WAKELEY, J., 2004 Metapopulation models for historical inference. Mol. Ecol. 13: 865-875.
59. WEINREICH, D. M., R. A. WATSON and L. CHAO, 2005 Perspective: sign epistasis and genetic constraint on evolutionary trajectories. Evolution 59: 1165-1174.
60. WELCH, J. J., and D. WAXMAN, 2003 Modularity and the cost of complexity. Evolution 57: 1723-1734.
61. WHITLOCK, M. C., 2003 Fixation probability and time in subdivided populations. Genetics 164: 767-779.
62. WHITLOCK, M. C., and R. GOMULKIEWICZ, 2005 Probability of fixation in a heterogeneous environment. Genetics 171: 1407-1417.
63. WHITLOCK, M. C., P. C. PHILLIPS and M. J. WADE, 1993 Gene interaction affects the additive genetic variance in subdivided populations with migration and extinction. Evolution 47: 1758-1769.
64. WHITLOCK, M. C., P. C. PHILLIPS, F. B.-G. MOORE and S. J. TONSOR, 1995 Multiple fitness peaks and epistasis. Annu. Rev. Ecol. Syst. 26: 601-629.
65. WHITLOCK, M. C., C. K. GRISWOLD and A. D. PETERS, 2003 Compensating for the meltdown: the critical effective size of a population with deleterious and compensatory mutations. Ann. Zool. Fenn. 40: 169-183.
66. WILKE, C. O., 2001 Adaptive evolution on neutral networks. Bull. Math. Biol. 63: 715-730.
67. WRIGHT, S., 1931 Evolution in Mendelian populations. Genetics 16: 97-159.
68. WRIGHT, S., 1932 The roles of mutation, inbreeding, crossbreeding, and selection in evolution. Proc. 6th Int. Cong. Genet. 1: 356-366.
69. WRIGHT, S., 1980 Genic and organismic selection. Evolution 34: 825-843.
70. ZHANG, J., H. F. ROSENBERG and M. NEI, 1998 Positive Darwinian selection after gene duplication in primate ribonuclease genes. Proc. Natl. Acad. Sci. USA 95: 3708-3713.