Skip to main content
PMC home page
Genetics logoLink to Genetics
. 2001 Dec;159(4):1671–1687. doi: 10.1093/genetics/159.4.1671

Inferring population history from microsatellite and enzyme data in serially introduced cane toads, Bufo marinus.

A Estoup 1, I J Wilson 1, C Sullivan 1, J M Cornuet 1, C Moritz 1
PMCID: PMC1461904  PMID: 11779806

Abstract

Much progress has been made on inferring population history from molecular data. However, complex demographic scenarios have been considered rarely or have proved intractable. The serial introduction of the South-Central American cane toad Bufo marinus in various Caribbean and Pacific islands involves four major phases: a possible genetic admixture during the first introduction, a bottleneck associated with founding, a transitory population boom, and finally, a demographic stabilization. A large amount of historical and demographic information is available for those introductions and can be combined profitably with molecular data. We used a Bayesian approach to combine this information with microsatellite (10 loci) and enzyme (22 loci) data and used a rejection algorithm to simultaneously estimate the demographic parameters describing the four major phases of the introduction history. The general historical trends supported by microsatellites and enzymes were similar. However, there was a stronger support for a larger bottleneck at introductions for microsatellites than enzymes and for a more balanced genetic admixture for enzymes than for microsatellites. Very little information was obtained from either marker about the transitory population boom observed after each introduction. Possible explanations for differences in resolution of demographic events and discrepancies between results obtained with microsatellites and enzymes were explored. Limits of our model and method for the analysis of nonequilibrium populations were discussed.

Full Text

The Full Text of this article is available as a PDF (225.1 KB).

Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Bahlo M., Griffiths R. C. Inference from gene trees in a subdivided population. Theor Popul Biol. 2000 Mar;57(2):79–95. doi: 10.1006/tpbi.1999.1447. [DOI] [PubMed] [Google Scholar]
  2. Beaumont M. A. Detecting population expansion and decline using microsatellites. Genetics. 1999 Dec;153(4):2013–2029. doi: 10.1093/genetics/153.4.2013. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Beerli P., Felsenstein J. Maximum-likelihood estimation of migration rates and effective population numbers in two populations using a coalescent approach. Genetics. 1999 Jun;152(2):763–773. doi: 10.1093/genetics/152.2.763. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Cooper G., Burroughs N. J., Rand D. A., Rubinsztein D. C., Amos W. Markov chain Monte Carlo analysis of human Y-chromosome microsatellites provides evidence of biased mutation. Proc Natl Acad Sci U S A. 1999 Oct 12;96(21):11916–11921. doi: 10.1073/pnas.96.21.11916. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Cornuet J. M., Luikart G. Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics. 1996 Dec;144(4):2001–2014. doi: 10.1093/genetics/144.4.2001. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Dib C., Fauré S., Fizames C., Samson D., Drouot N., Vignal A., Millasseau P., Marc S., Hazan J., Seboun E. A comprehensive genetic map of the human genome based on 5,264 microsatellites. Nature. 1996 Mar 14;380(6570):152–154. doi: 10.1038/380152a0. [DOI] [PubMed] [Google Scholar]
  7. Donnelly P., Tavaré S. Coalescents and genealogical structure under neutrality. Annu Rev Genet. 1995;29:401–421. doi: 10.1146/annurev.ge.29.120195.002153. [DOI] [PubMed] [Google Scholar]
  8. Ellegren H. Heterogeneous mutation processes in human microsatellite DNA sequences. Nat Genet. 2000 Apr;24(4):400–402. doi: 10.1038/74249. [DOI] [PubMed] [Google Scholar]
  9. Feldman M. W., Bergman A., Pollock D. D., Goldstein D. B. Microsatellite genetic distances with range constraints: analytic description and problems of estimation. Genetics. 1997 Jan;145(1):207–216. doi: 10.1093/genetics/145.1.207. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Fu Y. X., Li W. H. Coalescing into the 21st century: An overview and prospects of coalescent theory. Theor Popul Biol. 1999 Aug;56(1):1–10. doi: 10.1006/tpbi.1999.1421. [DOI] [PubMed] [Google Scholar]
  11. Goldstein D. B., Ruiz Linares A., Cavalli-Sforza L. L., Feldman M. W. Genetic absolute dating based on microsatellites and the origin of modern humans. Proc Natl Acad Sci U S A. 1995 Jul 18;92(15):6723–6727. doi: 10.1073/pnas.92.15.6723. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Kimmel M., Chakraborty R., King J. P., Bamshad M., Watkins W. S., Jorde L. B. Signatures of population expansion in microsatellite repeat data. Genetics. 1998 Apr;148(4):1921–1930. doi: 10.1093/genetics/148.4.1921. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Kimmel M., Chakraborty R. Measures of variation at DNA repeat loci under a general stepwise mutation model. Theor Popul Biol. 1996 Dec;50(3):345–367. doi: 10.1006/tpbi.1996.0035. [DOI] [PubMed] [Google Scholar]
  14. Leblois R., Rousset F., Tikel D., Moritz C., Estoup A. Absence of evidence for isolation by distance in an expanding cane toad (Bufo marinus) population: an individual-based analysis of microsatellite genotypes. Mol Ecol. 2000 Nov;9(11):1905–1909. doi: 10.1046/j.1365-294x.2000.01091.x. [DOI] [PubMed] [Google Scholar]
  15. Maruyama T., Fuerst P. A. Population bottlenecks and nonequilibrium models in population genetics. II. Number of alleles in a small population that was formed by a recent bottleneck. Genetics. 1985 Nov;111(3):675–689. doi: 10.1093/genetics/111.3.675. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Mukai T., Cockerham C. C. Spontaneous mutation rates at enzyme loci in Drosophila melanogaster. Proc Natl Acad Sci U S A. 1977 Jun;74(6):2514–2517. doi: 10.1073/pnas.74.6.2514. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Neel J. V., Satoh C., Goriki K., Fujita M., Takahashi N., Asakawa J., Hazama R. The rate with which spontaneous mutation alters the electrophoretic mobility of polypeptides. Proc Natl Acad Sci U S A. 1986 Jan;83(2):389–393. doi: 10.1073/pnas.83.2.389. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Ohta T., Kimura M. A model of mutation appropriate to estimate the number of electrophoretically detectable alleles in a finite population. Genet Res. 1973 Oct;22(2):201–204. doi: 10.1017/s0016672300012994. [DOI] [PubMed] [Google Scholar]
  19. Pritchard J. K., Seielstad M. T., Perez-Lezaun A., Feldman M. W. Population growth of human Y chromosomes: a study of Y chromosome microsatellites. Mol Biol Evol. 1999 Dec;16(12):1791–1798. doi: 10.1093/oxfordjournals.molbev.a026091. [DOI] [PubMed] [Google Scholar]
  20. Schug M. D., Hutter C. M., Wetterstrand K. A., Gaudette M. S., Mackay T. F., Aquadro C. F. The mutation rates of di-, tri- and tetranucleotide repeats in Drosophila melanogaster. Mol Biol Evol. 1998 Dec;15(12):1751–1760. doi: 10.1093/oxfordjournals.molbev.a025901. [DOI] [PubMed] [Google Scholar]
  21. Simonsen K. L., Churchill G. A., Aquadro C. F. Properties of statistical tests of neutrality for DNA polymorphism data. Genetics. 1995 Sep;141(1):413–429. doi: 10.1093/genetics/141.1.413. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Tavaré S., Balding D. J., Griffiths R. C., Donnelly P. Inferring coalescence times from DNA sequence data. Genetics. 1997 Feb;145(2):505–518. doi: 10.1093/genetics/145.2.505. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Voelker R. A., Schaffer H. E., Mukai T. Spontaneous Allozyme Mutations in DROSOPHILA MELANOGASTER: Rate of Occurrence and Nature of the Mutants. Genetics. 1980 Apr;94(4):961–968. doi: 10.1093/genetics/94.4.961. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Weber J. L., Wong C. Mutation of human short tandem repeats. Hum Mol Genet. 1993 Aug;2(8):1123–1128. doi: 10.1093/hmg/2.8.1123. [DOI] [PubMed] [Google Scholar]
  25. Wilson I. J., Balding D. J. Genealogical inference from microsatellite data. Genetics. 1998 Sep;150(1):499–510. doi: 10.1093/genetics/150.1.499. [DOI] [PMC free article] [PubMed] [Google Scholar]

Articles from Genetics are provided here courtesy of Oxford University Press

RESOURCES