Estimating F-statistics for the analysis of population structure.
Bruce S. Weir,C. Clark Cockerham +1 more
Reads0
Chats0
TLDR
The purpose of this discussion is to offer some unity to various estimation formulae and to point out that correlations of genes in structured populations, with which F-statistics are concerned, are expressed very conveniently with a set of parameters treated by Cockerham (1 969, 1973).Abstract:
This journal frequently contains papers that report values of F-statistics estimated from genetic data collected from several populations. These parameters, FST, FIT, and FIS, were introduced by Wright (1951), and offer a convenient means of summarizing population structure. While there is some disagreement about the interpretation of the quantities, there is considerably more disagreement on the method of evaluating them. Different authors make different assumptions about sample sizes or numbers of populations and handle the difficulties of multiple alleles and unequal sample sizes in different ways. Wright himself, for example, did not consider the effects of finite sample size. The purpose of this discussion is to offer some unity to various estimation formulae and to point out that correlations of genes in structured populations, with which F-statistics are concerned, are expressed very conveniently with a set of parameters treated by Cockerham (1 969, 1973). We start with the parameters and construct appropriate estimators for them, rather than beginning the discussion with various data functions. The extension of Cockerham's work to multiple alleles and loci will be made explicit, and the use of jackknife procedures for estimating variances will be advocated. All of this may be regarded as an extension of a recent treatment of estimating the coancestry coefficient to serve as a mea-read more
Citations
More filters
Journal ArticleDOI
Ascertainment Biases in SNP Chips Affect Measures of Population Divergence
TL;DR: This study investigates the effect of the ascertainment bias on inferences regarding genetic differentiation among populations in one of the common genome-wide genotyping platforms and presents a correction of the spectrum for the widely used Affymetrix SNP chips.
Journal ArticleDOI
Geographic structure of insect populations: gene flow, phylogeography, and their uses.
TL;DR: The numerous case studies described herein illustrate the growing impact of geographic structure on insect science, as well as the importance of insect model systems for understanding general concepts in ecology and evolution.
Journal ArticleDOI
Fragmentation of Landscape as a Cause for Genetic Subdivision in Bank Voles
Gabriele Gerlach,Kerstin Musolf +1 more
TL;DR: This study shows for the first time that not only old geographic barriers but also more recent fragmentation of landscape by highways has an important effect on gene flow and the genetic substructuring of populations, which should be considered in future environmental impact assessments.
Journal ArticleDOI
Can assignment tests measure dispersal
TL;DR: Individual‐based assignment tests are now standard tools in molecular ecology and have several applications, including the study of dispersal, and will provide useful dispersal data in many applied and theoretical situations.
Journal ArticleDOI
Effects of Microsatellite Null Alleles on Assignment Testing
TL;DR: Data presented here, based on simulations, show that the percentage of correctly assigned individuals in model-based clustering and Bayesian assignment methods were slightly reduced and the presence of null alleles caused a small, however, significant overestimation of F(ST).
References
More filters
Journal ArticleDOI
Analysis of Gene Diversity in Subdivided Populations
TL;DR: A method is presented by which the gene diversity (heterozygosity) of a subdivided population can be analyzed into its components, i.e., the gene diversities within and between subpopulations.
Book
The jackknife, the bootstrap, and other resampling plans
TL;DR: The Delta Method and the Influence Function Cross-Validation, Jackknife and Bootstrap Balanced Repeated Replication (half-sampling) Random Subsampling Nonparametric Confidence Intervals as mentioned in this paper.
Journal ArticleDOI
The interpretation of population structure by F-statistics with special regard to systems of mating
TL;DR: It was found that there is no equilibrium in either case short of complete fixation locally, in spite of the linear increase in number of different ancestors with increasing number of ancestral generations, in contrast to systems (half first cousin or second cousin) in which this increase is more than linear and a steady state is rapidly attained with respect to heterozygosis.
Related Papers (5)
Inference of population structure using multilocus genotype data
GENEPOP (Version 1.2): Population Genetics Software for Exact Tests and Ecumenicism
Michel Raymond,François Rousset +1 more