Hostname: page-component-8448b6f56d-c47g7 Total loading time: 0 Render date: 2024-04-17T13:47:35.059Z Has data issue: false hasContentIssue false
  • English
  • Français

Estimating the recombination parameter of a finite population model without selection

Published online by Cambridge University Press:  14 April 2009

Richard R. Hudson
Richard R. Hudson
Affiliation:
N.I.E.H.S., P.O. Box 12233, Research Triangle Park, N.C. 27709, U.S.A.
Rights & Permissions [Opens in a new window]

Summary

Core share and HTML view are not available for this content. However, as you have access to this content, a full PDF is available via the ‘Save PDF’ action button.

An estimator is proposed for the parameter C = 4Nc. where N is the population size and c is the recombination rate. The estimator is appropriate for use with sequence or restriction site data from random samples from within populations. Properties of the estimator are investigated for an infinite-sites neutral model using Monte Carlo simulations. The median and mode of the distribution of the estimator are close to the true value for all parameter values examined, but large data sets are required to obtain reliable estimates.

Type
Research Article
Information
Genetics Research , Volume 50 , Issue 3 , December 1987 , pp. 245 - 250
Copyright
Copyright © Cambridge University Press 1987

References

Brown, A. H. D., Feldman, M. W. & Nevo, E. (1980). Multilocus structure of natural populations of Hordeum spontaneum. Genetics 96, 523–536.CrossRefGoogle ScholarPubMed
Chakraborty, R. (1984). Detection of nonrandom association of alleles from the distribution of the number of heterozygous loci in a sample. Genetics 108, 719–731.CrossRefGoogle ScholarPubMed
Chakraborty, R. (1981). The distribution of the number of heterozygous loci in an individual in natural populations. Genetics 98, 461–466.CrossRefGoogle Scholar
Chakravarti, A., Buetow, K. H., Antonarakis, S. E., Waber, P. G., Boehm, C. D. & Kazazian, H. H. (1984). Nonuniform recombination within the human β-globin gene cluster. American Journal of Human Genetics 36, 1239–1258.Google ScholarPubMed
Chovnick, A., Gelbart, W. & McCarron, M. (1977). Organization of the Rosy locus in Drosophila melanogaster. Cell 11, 1–10.CrossRefGoogle ScholarPubMed
Ewens, W. J. (1979). Mathematical Population Genetics. New York: Springer-Verlag.Google Scholar
Hill, W. G. (1981). Estimation of effective population size from data on linkage disequilibrium. Genetical Research 38, 209–216.CrossRefGoogle Scholar
Hudson, R. R. (1983). Properties of a neutral allele model with intragenic recombination. Theoretical Population Biology 23, 183–201.CrossRefGoogle ScholarPubMed
Hudson, R. R. (1985). The sampling distribution of linkage disequilibrium under an infinite allele model without selection. Genetics 109, 611–631.CrossRefGoogle ScholarPubMed
Hudson, R. R. & Kaplan, N. L. (1985). Statistical properties of the number of recombination events in the history of a sample of DNA sequences. Genetics 111, 147–164.CrossRefGoogle ScholarPubMed
Hudson, R. R., Kreitman, M. & Aguadé, M. (1987). A test of neutral molecular evolution based on nucleotide data. Genetics 116, 153–159CrossRefGoogle ScholarPubMed
Kreitman, M. (1983). Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster. Nature 304, 412–417.CrossRefGoogle ScholarPubMed
Kreitman, M. & Aguadé, M. (1986 a). Genetic uniformity in two populations of Drosophila melanogaster as revealed by filter hydridization of four-nucleotide-recognizing restriction enzyme digests. Proceedings of the National Academcy of Sciences, USA 83, 3562–3566.CrossRefGoogle Scholar
Kreitman, M. & Aguadé, M. (1986 b). Excess polymorphism at the Adh locus in Drosophila melanogaster. Genetics 114, 93–110.CrossRefGoogle ScholarPubMed
Langley, C. H. (1977). Nonrandom associations between allozymes in natural populations of Drosophila melanogaster. In Lecture Notes in Biomathematics, 19, Measuring Selection in Natural Populations (ed. Christiansen, F. B. and Fenchell, T. M.), pp. 265–273. New York: Springer-Verlag.CrossRefGoogle Scholar
Laurie-Ahlberg, C. & Weir, B. S. (1979). Allozyme variation and linkage disequilibrium in some laboratory populations of Drosophila melanogaster. Genetics 92, 1295–1314.CrossRefGoogle ScholarPubMed
Li, W.-H., Luo, C.-C. & Wu, C.-I. (1985). Evolution of DNA sequences, in Molecular Evolutionary Genetics (ed. Maclntyre, R. J.). New York: PlenumGoogle Scholar
Ohta, T. (1980). Linkage disequilibrium between amino acid sites in immunoglobulin genes and other multigene families. Genetical Research 36, 181–197.CrossRefGoogle ScholarPubMed
Strobeck, C. & Morgan, K. (1978). The effect of intragenic recombination on the number of alleles in a finite population. Genetics 88, 829–844.CrossRefGoogle Scholar
Sved, J. A. (1968). The stability of linked systems of loci with small population size. Genetics 59, 543–563.CrossRefGoogle ScholarPubMed
Tajima, F. (1983). Evolutionary relationships of DNA sequences in finite populations. Genetics 105, 437–460.CrossRefGoogle ScholarPubMed
Weir, B. S. & Hill, W. G. (1980). Effect of mating structure on variation in linkage disequilibrium. Genetics 95, 477–488.CrossRefGoogle ScholarPubMed
Weir, B. S. & Hill, W. G. (1986). Nonuniform recombination within the human β-globin gene cluster. American Journal of Human Genetics 38, 776–778.Google ScholarPubMed