Adaptive fixation in two-locus models of stabilizing selection and genetic drift

Genetics

Volumn 198, Issue 2, 2014, Pages 685-697

  Wollstein, Andreas ^a   Stephan, Wolfgang ^a  

^a UNIVERSITY OF MUNICH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ALLELE; ARTICLE; EFFECT SIZE; ENVIRONMENTAL CHANGE; GENE FREQUENCY; GENE LINKAGE DISEQUILIBRIUM; GENE LOCUS; GENETIC DRIFT; GENETIC LINKAGE; GENETIC MODEL; HUMAN; NONHUMAN; POPULATION GENETICS; QUANTITATIVE GENETICS; SELECTIVE SWEEP; ALGORITHM; BIOLOGICAL MODEL; COMPUTER SIMULATION; GENETIC SELECTION; MOLECULAR EVOLUTION;

ALGORITHMS; COMPUTER SIMULATION; EVOLUTION, MOLECULAR; GENETIC DRIFT; GENETIC LOCI; HUMANS; LINKAGE DISEQUILIBRIUM; MODELS, GENETIC; SELECTION, GENETIC;

EID: 84908031922     PISSN: 00166731     EISSN: 19432631     Source Type: Journal    
DOI: 10.1534/genetics.114.168567     Document Type: Article

References (51)

1. Barton, N. H., 1986 The maintenance of polygenic variation through a balance between mutation and stabilizing selection. Genet. Res. 47: 209-216.
2. Barton, N. H., 1990 Pleiotropic models of quantitative variation. Genetics 124: 773-782.
3. Barton, N. H., 1998 The effect of hitch-hiking on neutral genealogies. Genet. Res. 72: 123-133.
4. Barton, N. H., and P. D. Keightley, 2002 Understanding quantitative genetic variation. Nat. Rev. Genet. 3: 11-21.
5. Bürger, R., 2000 The Mathematical Theory of Selection, Recombination, and Mutation. Wiley, New York.
6. Bürger, R., and A. Gimelfarb, 1999 Genetic variation maintained in multilocus models of additive quantitative traits under stabilizing selection. Genetics 152: 807-820.
7. Chevin, L. M., and F. Hospital, 2008 Selective sweep at a quantitative trait locus in the presence of background genetic variation. Genetics 180: 1645-1660.
8. Crow, J., and M. Kimura, 1970 An Introduction to Population Genetics Theory. Burgess, Minneapolis.
9. de Vladar, H. P., and N. H. Barton, 2011 The statistical mechanics of a polygenic character under stabilizing selection, mutation and drift. J. R. Soc. Interface 8: 720-739.
10. de Vladar, H. P., and N. Barton, 2014 Stability and response of polygenic traits to stabilizing selection and mutation. Genetics 197: 749-767.
11. Endler, J., 1986 Natural Selection in the Wild. Princeton University Press, Princeton.
12. Falconer, D. S., and T. F. C. Mackay, 1996 Introduction to Quantitative Genetics. Prentice Hall, London.
13. Fisher, R. A., 1930 The Genetical Theory of Natural Selection. Clarendon Press, Oxford.
14. Gavrilets, S., and A. Hastings, 1993 Maintenance of genetic variability under strong stabilizing selection: a two-locus model. Genetics 134: 377-386.
15. Gimelfarb, A., 1996 Some additional results about polymorphisms in models of an additive quantitative trait under stabilizing selection. J. Math. Biol. 35: 88-96.
16. Griffiths, R., and S. Tavaré, 1998 The age of a mutation in a general coalescent tree. Commun. Statist. Stoch. Models 14: 273-295.
17. Haag-Liautard, C., M. Dorris, X. Maside, S. Macaskill, D. L. Halligan et al., 2007 Direct estimation of per nucleotide and genomic deleterious mutation rates in Drosophila. Nature 445: 82-85.
18. Hermisson, J., and P. S. Pennings, 2005 Soft sweeps: molecular population genetics of adaptation from standing genetic variation. Genetics 169: 2335-2352.
19. Innan, H., and Y. Kim, 2004 Pattern of polymorphism after strong artificial selection in a domestication event. Proc. Natl. Acad. Sci. USA 101: 10667-10672.
20. Kaplan, N. L., R. R. Hudson, and C. H. Langley, 1989 The “hitchhiking effect” revisited. Genetics 123: 887-899.
21. Keightley, P. D., and A. Eyre-Walker, 2007 Joint inference of the distribution of fitness effects of deleterious mutations and population demography based on nucleotide polymorphism frequencies. Genetics 177: 2251-2261.
22. Keightley, P. D., and W. G. Hill, 1990 Variation maintained in quantitative traits with mutation-selection balance: pleiotropic side-effects on fitness traits. Proc. Biol. Sci. 242: 95-100.
23. Kim, Y., and W. Stephan, 2000 Joint effects of genetic hitchhiking and background selection on neutral variation. Genetics 155: 1415-1427.
24. Kim, Y., and W. Stephan, 2002 Detecting a local signature of genetic hitchhiking along a recombining chromosome. Genetics 160: 765-777.
25. Kimura, M., 1965a Attainment of quasi linkage equilibrium when gene frequencies are changing by natural selection. Genetics 52: 875-890.
26. Kimura, M., 1965b A stochastic model concerning the maintenance of genetic variability in quantitative characters. Proc. Natl. Acad. Sci. USA 54: 731-736.
27. Lande, R., 1983 The maintainance of genetic variability by mutation in a polygenic character with linked loci. Genet. Res. 26: 221-235.
28. Lynch, M., and B. Walsh, 1998 Genetic Analysis of Quantitative Traits. Sinauer Associates, Sunderland, MA.
29. Mackay, T. F., S. Richards, E. A. Stone, A. Barbadilla, J. F. Ayroles et al., 2012 The Drosophila melanogaster genetic reference panel. Nature 482: 173-178.
30. Maynard Smith, J., and J. Haigh, 1974 The hitch-hiking effect of a favourable gene. Genet. Res. 23: 23-35.
31. Nachman, M. W., and S. L. Crowell, 2000 Estimate of the mutation rate per nucleotide in humans. Genetics 156: 297-304.
32. Nielsen, R., S. Williamson, Y. Kim, M. J. Hubisz, A. G. Clark et al., 2005 Genomic scans for selective sweeps using SNP data. Genome Res. 15: 1566-1575.
33. Ohta, T., 1973 Slightly deleterious mutant substitutions in evolution. Nature 246: 96-98.
34. Orr, H. A., 2005 The genetic theory of adaptation: a brief history. Nat. Rev. Genet. 6: 119-127.
35. Orr, H. A., and A. J. Betancourt, 2001 Haldane’s sieve and adaptation from the standing genetic variation. Genetics 157: 875-884.
36. Pavlidis, P., J. D. Jensen, and W. Stephan, 2010 Searching for footprints of positive selection in whole-genome SNP data from nonequilibrium populations. Genetics 185: 907-922.
37. Pavlidis, P., D. Metzler, and W. Stephan, 2012 Selective sweeps in multilocus models of quantitative traits. Genetics 192: 225-239.
38. Pritchard, J. K., and A. Di Rienzo, 2010 Adaptation: not by sweeps alone. Nat. Rev. Genet. 11: 665-667.
39. Pritchard, J. K., J. K. Pickrell, and G. Coop, 2010 The genetics of human adaptation: hard sweeps, soft sweeps, and polygenic adaptation. Curr. Biol. 20: R208-R215.
40. Robertson, A., 1956 The effect of selection against extreme deviants based on deviation or on homozygosis. J. Genet. 54: 236-248.
41. Stephan, W., 1995 An improved method for estimating the rate of fixation of favorable mutations based on DNA polymorphism data. Mol. Biol. Evol. 12: 959-962.
42. Stephan, W., 2010 Genetic hitchhiking vs. background selection: the controversy and its implications. Philos. Trans. R. Soc. Lond. B Biol. Sci. 365: 1245-1253.
43. Stephan, W., T. H. E. Wiehe, and M. W. Lenz, 1992 The effect of strongly selected substitutions on neutral polymorphism: analytical results based on diffusion theory. Theor. Popul. Biol. 41: 237-254.
44. Tajima, F., 1989 Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595.
45. Turchin, M. C., C. W. Chiang, C. D. Palmer, S. Sankararaman, D. Reich et al., 2012 Evidence of widespread selection on standing variation in Europe at height-associated SNPs. Nat. Genet. 44: 1015-1019.
46. Turelli, M., 1984 Heritable genetic variation via mutation-selection balance: Lerch’s zeta meets the abdominal bristle. Theor. Popul. Biol. 25: 138-193.
47. Turelli, M., 1985 Effects of pleiotropy on predictions concerning mutation-selection balance for polygenic traits. Genetics 111: 165-195.
48. Wagner, G. P., and J. Zhang, 2011 The pleiotropic structure of the genotype-phenotype map: the evolvability of complex organisms. Nat. Rev. Genet. 12: 204-213.
49. Willensdorfer, M., and R. Bürger, 2003 The two-locus model of Gaussian stabilizing selection. Theor. Popul. Biol. 64: 101-117.
50. Zhang, X. S., and W. G. Hill, 2002 Joint effects of pleiotropic selection and stabilizing selection on the maintenance of quantitative genetic variation at mutation-selection balance. Genetics 162: 459-471.
51. Zhang, X. S., and W. G. Hill, 2005 Evolution of the environmental component of the phenotypic variance: stabilizing selection in changing environments and the cost of homogeneity. Evolution 59: 1237-1244.