with an Appendix by J.-L. Foulley
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Moment estimation of population diversity and genetic distance from data on recessive markers†
Article first published online: 29 JAN 2004
DOI: 10.1046/j.1365-294X.2004.02103.x
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How to Cite
Hill, W. G. and Weir, B. S. (2004), Moment estimation of population diversity and genetic distance from data on recessive markers. Molecular Ecology, 13: 895–908. doi: 10.1046/j.1365-294X.2004.02103.x
- †
Publication History
- Issue published online: 29 JAN 2004
- Article first published online: 29 JAN 2004
- Received 9 September 2003; revision received 7 November 2003; accepted 20 November 2003
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Keywords:
- amplified fragment length polymorphism;
- dominant markers;
- F-statistics;
- genetic diversity;
- population structure;
- sampling error
Abstract
A moment-based method for estimating a measure of population diversity, θ or Wright's FST, is given for dominant markers such as amplified fragment length polymorphisms (AFLPs) or RAPDs in noninbred populations. Basic assumptions are that there is random mating, Hardy–Weinberg equilibrium, linkage equilibrium, no mutation from common ancestor and equally distant populations. It is based on the variances between and within populations of genotype frequencies, whereas previously moment methods for dominant markers have been indirect in that they have been based on first estimating allele frequencies and then using the variances of those frequencies. The use of genotype frequencies directly appears to be more robust. Approximate sampling errors of the estimates are given. Methods are extended to estimate genetic distances and their sampling errors. The AFLP data from samples of breeds of pig are used for illustration.