Allele fixation in a dynamic metapopulation: Founder effects vs refuge effects

Theoretical Population Biology

Volumn 76, Issue 2, 2009, Pages 105-117

  Aguilée, Robin ^a   Claessen, David ^a   Lambert, Amaury ^a  

^a SORBONNE UNIVERSITÉ   (France)

Author keywords

Allele fixation probability; Bottleneck; Coalescent effective size; Dynamic landscape; Founder effect; Fragmentation; Fusion; Refuge effect; Subdivided population; Time to fixation; Variance effective size

Indexed keywords

ALLELE; FOUNDER EFFECT; FRAGMENTATION; LANDSCAPE CHANGE; METAPOPULATION; MUTATION; POPULATION BOTTLENECK; POPULATION SIZE; POPULATION STRUCTURE; REFUGE;

ALLELE; ARTICLE; FOUNDER EFFECT; POPULATION DYNAMICS; PROBABILITY; THEORETICAL MODEL;

ALLELES; FOUNDER EFFECT; MODELS, THEORETICAL; POPULATION DYNAMICS; PROBABILITY;

EID: 67651045831     PISSN: 00405809     EISSN: 10960325     Source Type: Journal    
DOI: 10.1016/j.tpb.2009.05.003     Document Type: Article

References (55)

1. Barton N.H. The probability of fixation of a favoured allele in a subdivided population. Genetical Research 62 (1993) 149-158
2. Barton N.H., and Whitlock M.C. Metapopulation biology: Ecology, genetics and evolution. The Evolution of Metapopulations (1997), Academic Press, San Diego 183-210
3. Batzli O. Dynamics of Small Mammal Populations: A Review (1992), Elsevier Applied Science, London
4. Bohme M.U., Schneeweiss N., Fritz U., Schlegel M., and Berendonk T.U. Small edge populations at risk: Genetic diversity of the green lizard (Lacerta viridis viridis) in Germany and implications for conservation management. Conservation Genetics 8 (2007) 555-563
5. Charlesworth B., Charlesworth D., and Barton N.H. The effects of genetic and greographic structure on neutral variation. Annual Review of Ecology, Evolution, and Systematics 34 (2003) 99-125
6. Colas B., Thomas C.D., and Hanski I. Evolutionary responses to landscape fragmentation. Evolutionary Conservation Biology (2002), Cambridge University Press 284-300
7. Cook L.M. Species richness in Madeiran land snails, and its causes. Journal of Biogeography 35 (2008) 647-653
8. Davies R.G., Orme C.D.L., Olson V., Thomas G.H., Ross S.G., Ding T.-S., Rasmussen P.C., Stattersfield A.J., Bennett P.M., Blackburn T.M., Owens I.P.F., and Gaston K.J. Human impacts and the global distribution of extinction risk. Proceedings of the Royal Society of London, Series B 273 (2006) 2127-2133
9. DeHeer C.J., and Kamble S.T. Colony genetic organization, fusion and inbreeding in Reticulitermes flavipes from the midwestern US. Sociobiology 51 (2008) 307-325
10. Delvaux, D., 1999. Age of Lake Malawi (Nyasa) and water level fluctuations. Tech. rep., Musée royal de l'Afrique Centrale (Tervuren). Département de Géologie et Minéralogie, rapport annuel. 1993-1999. pp. 99-108
11. Ewens W.J. The probability of survival of a new mutant in a fluctuating environment. Heredity 22 (1967) 438-443
12. Ewens W.J. Mathematical Population Genetics (2004), Springer, New York
13. Fisher R.A. On the dominance ratio. Proceedings of the Royal Society of Edinburgh, Section A 42 (1922) 321-341
14. Galis F., and Metz J.A.J. Why are so many cichlid species. Trends in Ecology and Evolution 13 (1998) 1-2
15. Gao L.Z., and Zhang C.H. Comparisons of microsatellite variability and population genetic structure of two endangered wild rice species, Oryza rufipogon and O-officinalis, and their conservation implications. Biodiversity Conservation 14 (2005) 1663-1679
16. Gillespie J. Population Genetics - A Concise Guide (2004), Johns Hopkins University Press
17. Haldane J.B.S. A mathematical theory of natural and artificial selection. V. Selection and mutation. Proceedings of the Cambridge Philosophical Society 23 (1927) 838-844
18. Hanski I., and Gaggiotti O.E. Ecology, Genetics, and Evolution of Metapopulations (2004), Elsevier Academic Press
19. Heffernan J., and Wahl L. The effects of genetic drift in experimental evolution. Theoretical Population Biology 62 (2002) 349-356
20. Heinemann J.A. How antibiotics cause antibiotic resistance. Drug Discovery Today 4 (1999) 72-79
21. Iizuka M. The effective size of fluctuating populations. Theoretical Population Biology 59 (2001) 281-286
22. Iizuka M., Tachida H., and Matsuda H. A neutral model with fluctuating population size and its effective size. Genetics 161 (2002) 381-388
23. Jesus F., Wilkins J., Solferini V., and Wakeley J. Expected coalescence times and segregating sites in a model of glacial cycles. Genetics and Molecular Research 5 (2006) 466-474
24. Karlin S., and Taylor H. A Second Course in Stochastic Processes (1981), Academic Press
25. Keymer J., Marquet P., Velasco-Hernandez J., and Levin S. Extinction thresholds and metapopulation persistence in dynamic landscapes. The American Naturalist 156 (2000) 478-494
26. Kimura M. On the probability of fixation of mutant genes in a population. Genetics 47 (1962) 713-719
27. Kimura M. Stochastic processes in population genetics, with special reference to distribution of gene frequencies and probability of gene fixation. Mathematical Topics in Population Genetics (1970), Springer, New York, NY 178-209
28. Kimura M., and Ohta T. The average number of generations until fixation of a mutant gene in a finite population. Genetics 61 (1969) 763-771
29. Kimura M., and Ohta T. Probability of gene fixation in an expanding finite population. Proceedings of the National Academy of Sciences of the United States of America 71 (1974) 3377-3379
30. Lambert A. Probability of fixation under weak selection: a branching process unifying approach. Theoretical Population Biology 69 (2006) 419-441
31. Malhi Y., Roberts J.T., Betts R.A., Killeen T.J., Li W., and Nobre C.A. Climate change, deforestation, and the fate of the amazon. Science 319 (2008) 169-172
32. McLean A.R. Vaccination, evolution and changes in the efficacy of vaccines: A theoretical framework. Proceedings of the Royal Society of London, Series B 261 (1995) 389-393
33. Moran P.A.P. The Statistical Processes of Evolutionary Theory (1962), Clarendon, Oxford, UK
34. Otto S.P., and Whitlock M.C. The probability of fixation in populations of changing size. Genetics 164 (1997) 723-733
35. Owen R., Crossley R., Johnson T.C., Tweddle D., Kornfield I., Davison S., Eccles D.H., and Engstrom D.E. Major low levels of Lake Malawi and their implication for speciation rates in cichlid fishes. Proceedings of the Royal Society of London Series: B Biological Science 240 (1990) 519-553
36. Patwa Z., and Wahl L. The fixation probability of beneficial mutations. Journal of Royal Society Interface 5 (2008) 1279-1289
37. R Development Core Team,, 2008. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria, ISBN: 3-900051-07-0. URL: http://www.R-project.org
38. Roze D., and Rousset F. Selection and drift in subdivided populations: A straightforward method for deriving diffusion approximations and applications involving dominance, selfing and local extinctions. Genetics 165 (2003) 2153-2166
39. Sano A., Shimizu A., and Iizuka M. Coalescent process with fluctuating population size and its effective size. Theoretical Population Biology 65 (2004) 39-48
40. Slatkin M. Gene flow and genetic drift in species subject to frequent local extinctions. Theoretical Population Biology 12 (1977) 253-262
41. Stiassny M.L.J., and Meyer A. Cichlids of the rift lakes. Scientific American 280 (1999) 44-49
42. The GSL Team,, 2007. GNU Scientific Library - Reference Manual. URL: http://www.gnu.org/software/gsl/
43. Theodorou K., and Couvet D. Genetic load in subdivided populations: Interactions between the migration rate, the size and the number of subpopulations. Heredity 96 (2006) 69-78
44. Turchin P. Complex Population Dynamics - A Theoretical/empirical Synthesis (2003), Princeton University Presss
45. Vasquez G.M., and Silverman J. Intraspecific aggression and colony fusion in the Argentine ant. Animal Behaviour 75 (2008) 583-593
46. Vuilleumier S., Yearsley J.M., and Perrin N. The fixation of locally beneficial alleles in a metapopulation. Genetics 178 (2008) 467-475
47. Wahl L.M., and Gerrish P.J. The probability that beneficial mutations are lost in populations with periodic bottlenecks. Evolution 55 (2001) 2606-2610
48. Whitlock M.C. Selection, load and inbreeding depression in a large metapopulation. Genetics 160 (2002) 1191-1202
49. Whitlock M.C. Fixation probability and time in subdivided populations. Genetics 164 (2003) 767-779
50. Whitlock M.C. Selection and drift in metapopulations. Ecology, Genetics and Evolution of Metapopulations (2004), Elsevier Academic Press 153-174
51. Whitlock M.C., and Barton N.H. The effective size of a subdivided population. Genetics 146 (1997) 427-441
52. Wilcox B.A., and Murphy D.D. Conservation strategy: The effects of fragmentation on extinction. The American Naturalist 125 (1985) 879-887
53. Wright S. Evolution in Mendelian populations. Genetics 16 (1931) 97-159
54. Wright S. Size of population and breeding structure in relation to evolution. Science 87 (1938) 430-431
55. Young A., Torres C., Mack J., and Cunningham C. Morphological and genetic evidence for vicariance and refugium in Atlantic and Gulf of Mexico populations of the hermit crab Pagurus longicarpus. Marine Biology 140 (2002) 1059-1066