Effective population size associated with self-fertilization: Lessons from temporal changes in allele frequencies in the selfing annual Medicago truncatula

Journal of Evolutionary Biology

Volumn 20, Issue 6, 2007, Pages 2349-2360

  Siol, M ^a   Bonnin, I ^b   Olivieri, I ^c   Prosperi, J M ^a   Ronfort, J ^a  

^a CEMAGREF   (France)

^b CNRS   (France)

^c INSTITUT DES SCIENCES DE L EVOLUTION   (France)

Author keywords

Effective population size; Genetic drift; Microsatellite; Population structure; Selfing

Indexed keywords

ALLELE; AUTOGAMY; GENETIC DRIFT; GENETIC VARIATION; GENOTYPE; LEGUME; POPULATION SIZE; POPULATION STRUCTURE; TEMPORAL VARIATION;

ARTICLE; BARREL MEDIC; GENE FREQUENCY; GENETIC VARIABILITY; GENETICS; MOLECULAR EVOLUTION; PHYSIOLOGY;

EVOLUTION, MOLECULAR; GENE FREQUENCY; MEDICAGO TRUNCATULA; VARIATION (GENETICS);

MEDICAGO TRUNCATULA;

EID: 35448968970     PISSN: 1010061X     EISSN: 14209101     Source Type: Journal    
DOI: 10.1111/j.1420-9101.2007.01409.x     Document Type: Article

References (51)

1. Anderson, E.C. 2005. An efficient Monte Carlo method for estimating Ne from temporally spaced samples using a coalescent-based likelihood. Genetics 170 : 955 967.
2. Anderson, E.C., Williamson, E.G. Thompson, E.A. 2000. Monte Carlo evaluation of the likelihood for Ne from temporally spaced samples. Genetics 156 : 2109 2118.
3. Arnaud, J.F. Laval, G. 2004. Stability of genetic structure and effective population size inferred from temporal changes of microsatellite DNA polymorphisms in the land snail Helix aspersa (Gastropoda: Helicidae). Biol. J. Linn. Soc. 82 : 89 102.
4. Aspi, J., Roininen, E., Ruokonen, M., Kojola, I. Vila, C. 2006. Genetic diversity, population structure, effective population size and demographic history of the Finnish wolf population. Mol. Ecol. 15 : 1561 1576.
5. Baquerizot-Audiot, E., Desplanques, B., Prosperi, J.M. Santoni, S. 2001. Characterization of microsatellite loci in the diploid legume Medicago truncatula (barrel medic). Mol. Ecol. Notes 1 : 1 3.
6. Barton, N.H. Whitlock, M.C. 1997. The evolution of metapopulations. In : Metapopulation Biology: Ecology, Genetics and Evolution (I. Hanski M. E. Gilpin, eds pp. 183 210. Academic Press, San Diego, CA.
7. Bataillon, T. Ronfort, J. 2006. Evolutionary and ecological genetics of Medicago truncatula. The Medicago Handbook, http://www.noble.org/ medicagoHandbook/EvolutionaryEcologicalGenetics.pdf.
8. Belkhir, K., Borsa, P., Chikhi, L., Raufaste, N. Bonhomme, F. 1996-2004. GENETIX 4.05, logiciel sous Windows TM pour la Génétique des Populations., Laboratoire Génome, Populations, Interactions, CNRS UMR 5171. Université de Montpellier II, Montpellier, France.
9. Berthier, P., Beaumont, M.A., Cornuet, J.M. Luikart, G. 2002. Likelihood-based estimation of the effective population size using temporal changes in allele frequencies: a genealogical approach. Genetics 160 : 741 751.
10. Bonnin, I., Huguet, T., Gherardi, M., Prosperi, J.M. Olivieri, I. 1996a. High level of polymorphism and spatial structure in a selfing plant species, Medicago truncatula (Leguminosae), shown using RAPD markers. Am. J. Bot. 83 : 843 855.
11. Bonnin, I., Prosperi, J.M. Olivieri, I. 1996b. Genetic markers and quantitative genetic variation in Medicago truncatula (Leguminosae): a comparative analysis of population structure. Genetics 143 : 1795 1805.
12. Bonnin, I., Ronfort, J., Wozniak, F. Olivieri, I. 2001. Spatial effects and rare outcrossing events in Medicago truncatula (Fabaceae). Mol. Ecol. 10 : 1371 1383.
13. Caballero, A. 1994. Developments in the prediction of effective population size. Heredity 73 : 657 679.
14. Caballero, A. Hill, W.G. 1992. Effective size of nonrandom mating populations. Genetics 130 : 909 916.
15. Caballero, A. Santiago, E. 1995. Response to selection from new mutations and effective size of partially inbred populations. I. Theoretical results. Genet. Res. Camb. 66 : 213 225.
16. Charlesworth, D. 2003. Effects of inbreeding on the genetic diversity of populations. Philos. Trans. R. Soc. Lond. B 358 : 1051 1070.
17. Charlesworth, B., Morgan, M.T. Charlesworth, D. 1993. The effect of deleterious mutations on neutral molecular variation. Genetics 134 : 1289 1303.
18. Crow, J.F. Kimura, M. 1970. An Introduction to Population Genetics Theory. Alpha editions edn, Burgess, Minneapolis.
19. De Meester, L., Vanoverbeke, J., De Gelas, K., Ortells, R. Spaak, P. 2006. Genetic structure of cyclic parthenogenetic zooplankton populations - a conceptual framework. Arch. Hydrobiol. 167 : 217 244.
20. Excoffier, L. 1998-2006. Arlequin. C. a. M. P. G. Lab, Zoological Institute, University of Berne, Berne.
21. Frankham, R. 1995. Effective population size/adult population ratios in wildlife: a review. Genet. Res. Camb. 66 : 95 107.
22. Goldringer, I. Bataillon, T. 2004. On the distribution of temporal variations in allele frequency: consequences for the estimation of effective population size and the detection of loci undergoing selection. Genetics 168 : 563 568.
23. Goldringer, I., Enjalbert, J., Raquin, A.L. Brabant, P. 2001. Strong selection in wheat populations during ten generations of dynamic management. Genet. Sel. Evol. 33 : S441 S463.
24. Goudet, J. 1995. fstat (vers.1.2): a computer program to calculate F-statistics. J. Hered. 86 : 485 486.
25. Goudet, J., Raymond, M., de Meeus, T. Rousset, F. 1996. Testing differentiation in diploid populations. Genetics 144 : 1933 1940.
26. Hamrick, J.L. Godt, M.J.W. 1990. Allozyme diversity in plant species. In : Plant Population Genetics, Breeding and Genetic Resources (A. H. D. Brown, M. T. Clegg, A. L. Kahter B. S. Weir, eds pp. 43 63. Sinauer Associates Inc., Sunderland, MA.
27. Higgins, K. Lynch, M. 2001. Metapopulation extinction caused by mutation accumulation. Proc. Natl Acad. Sci. USA 98 : 2928 2933.
28. Husband, B.C. Barrett, S.C. 1992. Effective population size and genetic drift in tristylous Eichhornia paniculata (Pontederiaceae). Evolution 46 : 1875 1890.
29. Ingvarsson, P.K. 2002. A metapopulation perspective on genetic diversity and differentiation in partially self-fertilizing plants. Evolution 56 : 2368 2373.
30. Jarne, P. Lagoda, P. 1996. Microsatellites, from molecules to populations and back. Trends Ecol. Evol. 11 : 424 429.
31. Kimura, M. Crow, J.F. 1963. The measurement of effective population number. Evolution 17 : 279 288.
32. Laporte, V. Charlesworth, B. 2002. Effective population size and population subdivision in demographically structured populations. Genetics 162 : 501 519.
33. Lewontin, R.C. Krakauer, J. 1973. Distribution of gene frequency as a test of the theory of the selective neutrality of polymorphisms. Genetics 74 : 175 195.
34. Meunier, C., Hurtrez-Bousses, S., Durand, P., Rondelaud, D. Renaud, F. 2004. Small effective population sizes in a widespread selfing species, Lymnaea truncatula (Gastropoda: Pulmonata). Mol. Ecol. 13 : 2535 2543.
35. Nei, M. Tajima, F. 1981. Genetic drift and estimation of effective population size. Genetics 98 : 625 640.
36. Nordborg, M. Donnelly, P. 1997. The coalescent process with selfing. Genetics 146 : 1185 1195.
37. Nunney, L. 1993. The influence of mating system and overlapping generations on effective population size. Evolution 47 : 1329 1341.
38. Nunney, L. 1999. The effective size of a hierarchically structured population. Evolution 53 : 1 10.
39. Pollak, E. 1987. On the theory of partially inbreeding finite populations. I. Partial selfing. Genetics 117 : 353 360.
40. Poulsen, N.A., Nielsen, E.E., Schierup, M.H., Loeschcke, V. Gronkjaer, P. 2006. Long-term stability and effective population size in North Sea and Baltic Sea cod (Gadus morhua). Mol. Ecol. 15 : 321 331.
41. Schoen, D.J. Brown, A.H. 1991. Intraspecific variation in population gene diversity and effective population size correlates with the mating system in plants. Proc. Natl Acad. Sci. USA 88 : 4494 4497.
42. Sokal, R.R. Rohlf, F.J. 1995. Biometry, 3rd edn. W.H. Freeman and Co., New York, NY.
43. Tavare, S. 1984. Line-of-descent and genealogical processes, and their applications in population genetics models. Theor. Popul. Biol. 26 : 119 164.
44. Thuillet, A.C., Bru, D., David, J., Roumet, P., Santoni, S., Sourdille, P. Bataillon, T. 2002. Direct estimation of mutation rate for 10 microsatellite loci in durum wheat, Triticum turgidum (L.) Thell. ssp durum desf. Mol. Biol. Evol. 19 : 122 125.
45. Vitalis, R. Couvet, D. 2001. Two-locus identity probabilities and identity disequilibrium in a partially selfing subdivided population. Genet. Res. Camb. 77 : 67 81.
46. Wang, J. Caballero, A. 1999. Developments in predicting the effective size of subdivided populations. Heredity 82 : 212 226.
47. Waples, R.S. 1989. A generalized approach for estimating effective population size from temporal changes in allele frequency. Genetics 121 : 379 391.
48. Weir, B.S. Cockerham, C.C. 1984. Estimating F-statistics for the analysis of population structure. Evolution 38 : 1358 1370.
49. Whitlock, M.C. Barton, N.H. 1997. The effective size of a subdivided population. Genetics 146 : 427 441.
50. Wright, S. 1931. Evolution in Mendelian Populations. Genetics 16 : 97 159.
51. Wright, S. 1969. Evolution and the Genetics of Populations. The University of Chicago Press, Chicago and London.