INVITED REVIEW: What is a population? An empirical evaluation of some genetic methods for identifying the number of gene pools and their degree of connectivity

@article{Waples2006INVITEDRW,
  title={INVITED REVIEW: What is a population? An empirical evaluation of some genetic methods for identifying the number of gene pools and their degree of connectivity},
  author={Robin S. Waples and Oscar E. Gaggiotti},
  journal={Molecular Ecology},
  year={2006},
  volume={15}
}
We review commonly used population definitions under both the ecological paradigm (which emphasizes demographic cohesion) and the evolutionary paradigm (which emphasizes reproductive cohesion) and find that none are truly operational. We suggest several quantitative criteria that might be used to determine when groups of individuals are different enough to be considered ‘populations’. Units for these criteria are migration rate (m) for the ecological paradigm and migrants per generation (Nm… 
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References

SHOWING 1-10 OF 125 REFERENCES
Dispersal, Gene Flow, and Population Structure
  • A. Bohonak
  • Biology, Environmental Science
    The Quarterly Review of Biology
  • 1999
The accuracy of gene flow estimates is unknown in most natural populations because direct estimates of dispersal are often not possible. These estimates can be highly imprecise or even biased because
The estimation of population differentiation with microsatellite markers
TLDR
This review discusses the consequences of different temporal and spatial sampling strategies on differentiation estimation, and moves to statistical problems directly associated with the estimation of population structuring itself, with particular emphasis on the effects of high mutation rates and mutation patterns of microsatellite loci.
Mitochondrial DNA Polymorphism and a Connection Between Genetics and Demography of Relevance to Conservation
TLDR
A special demographic significance is suggested for the perspectives that have been provided by another genetic systemmitochondrial (mt) DNA, such as within-population heterozygosity, between-population gene flow, and the genetic distinctiveness of taxonomic units.
Detecting the number of clusters of individuals using the software structure: a simulation study
TLDR
It is found that in most cases the estimated ‘log probability of data’ does not provide a correct estimation of the number of clusters, K, and using an ad hoc statistic ΔK based on the rate of change in the log probability between successive K values, structure accurately detects the uppermost hierarchical level of structure for the scenarios the authors tested.
Group selection for a polygenic behavioral trait: estimating the degree of population subdivision.
  • J. Crow, K. Aoki
  • Biology
    Proceedings of the National Academy of Sciences of the United States of America
  • 1984
TLDR
Nei's GST, defined by (F0-F)/(1-F), is a measure of population subdivision that depends mainly on the absolute number of migrants per generation, moves rapidly to near equilibrium, and is independent of the number of alleles.
Separating the wheat from the chaff: patterns of genetic differentiation in high gene flow species
TLDR
This article discusses strategies to maximize the signal:nolse ratio in genetic studies of marine species and suggests a quantitative method to correct for bias due to a common sampling problem.
Inference of population structure using multilocus genotype data.
TLDR
A model-based clustering method for using multilocus genotype data to infer population structure and assign individuals to populations that can be applied to most of the commonly used genetic markers, provided that they are not closely linked.
Assignment methods: matching biological questions with appropriate techniques.
Multilocus Methods for Estimating Population Sizes, Migration Rates and Divergence Time, With Applications to the Divergence of Drosophila pseudoobscura and D. persimilis
TLDR
A Markov chain Monte Carlo method for estimating the posterior probability distribution of model parameters is applied to a large multilocus data set from Drosophila pseudoobscura and D. persimilis, with considerable variation in gene flow estimates among loci, in both directions between the species.
Bayesian analysis of genetic differentiation between populations.
TLDR
A Bayesian method for estimating hidden population substructure using multilocus molecular markers and geographical information provided by the sampling design is introduced, suggesting that this method is capable of estimating a population subst structure, while not artificially enforcing a substructure when it does not exist.
...
...