Estimating F-statistics for the analysis of population structure.
Bruce S. Weir,C. Clark Cockerham +1 more
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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
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Population genetics and objectivity in species diagnosis
Jody Hey,Catarina Pinho +1 more
TL;DR: The two measures of evolutionary independence were similarly correlated with FST estimates, which in turn showed similar distributions for species comparisons relative to population comparisons, and could be used to develop an objective measure for species diagnosis.
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Disentangling hybridization and host colonization in parasitic roundworms of humans and pigs.
Charles D. Criscione,Joel D. Anderson,Dan Sudimack,Weidong Peng,Bharat Jha,Sarah Williams-Blangero,Tim J. Anderson +6 more
TL;DR: The results indicate that there is contemporary cross-transmission between populations of human and pig Ascaris and strong differentiation between populations was primarily driven by geography, with secondary differentiation resulting from host affiliation within locations.
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Gene flow and selection interact to promote adaptive divergence in regions of low recombination
Kieran Samuk,Gregory L. Owens,Kira E. Delmore,Sara E. Miller,Diana J. Rennison,Dolph Schluter +5 more
TL;DR: This study provides the first statistical evidence that the interaction of gene flow and selection biases divergence toward regions of low recombination, potentially favouring divergence and adaptive evolution in these regions over others.
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The microevolution of the Galápagos marine iguana Amblyrhynchus cristatus assessed by nuclear and mitochondrial genetic analyses
TL;DR: A scenario is proposed that explains the marine iguanas' low genetic divergence, notwithstanding their long evolutionary history in the Galápagos archipelago.
Journal ArticleDOI
Ancient and modern DNA reveal dynamics of domestication and cross-continental dispersal of the dromedary.
Faisal Almathen,Faisal Almathen,Pauline Charruau,Elmira Mohandesan,Joram M. Mwacharo,Pablo Orozco-terWengel,Daniel Pitt,A. M. Abdussamad,Margarethe Uerpmann,Hans-Peter Uerpmann,Bea De Cupere,Peter Magee,Majed A. Alnaqeeb,Bashir Salim,Abdul Raziq,Tadelle Dessie,O. M. A. Abdelhadi,Mohammad Hossein Banabazi,M.M. Al-Eknah,Chris Walzer,Bernard Faye,Michael Hofreiter,Joris Peters,Olivier Hanotte,Pamela A. Burger +24 more
TL;DR: Compared with other livestock, which show a long history of gene flow with their wild ancestors, the dromedary finds a high initial diversity relative to the native distribution of the wild ancestor on the Arabian Peninsula and to the brief coexistence of early-domesticated and wild individuals.
References
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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.
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