The K = 2 conundrum.
Jasmine K. Janes,Jasmine K. Janes,Joshua M. Miller,Julian R. Dupuis,René M. Malenfant,Jamieson C. Gorrell,Jamieson C. Gorrell,Catherine I. Cullingham,Rose L. Andrew +8 more
Reads0
Chats0
TLDR
This review suggests that many studies may have been over‐ or underestimating population genetic structure; both scenarios have serious consequences, particularly with respect to conservation and management.Abstract:
Assessments of population genetic structure have become an increasing focus as they can provide valuable insight into patterns of migration and gene flow structure, the most highly cited of several clustering-based methods, was developed to provide robust estimates without the need for populations to be determined a priori structure introduces the problem of selecting the optimal number of clusters, and as a result, the ΔK method was proposed to assist in the identification of the "true" number of clusters In our review of 1,264 studies using structure to explore population subdivision, studies that used ΔK were more likely to identify K = 2 (54%, 443/822) than studies that did not use ΔK (21%, 82/386) A troubling finding was that very few studies performed the hierarchical analysis recommended by the authors of both ΔK and structure to fully explore population subdivision Furthermore, extensions of earlier simulations indicate that, with a representative number of markers, ΔK frequently identifies K = 2 as the top level of hierarchical structure, even when more subpopulations are present This review suggests that many studies may have been over- or underestimating population genetic structure; both scenarios have serious consequences, particularly with respect to conservation and management We recommend publication standards for population structure results so that readers can assess the implications of the results given their own understanding of the species biologyread more
Citations
More filters
Journal ArticleDOI
Genome-wide genetic variation coupled with demographic and ecological niche modeling of the dusky-footed woodrat (Neotoma fuscipes) reveal patterns of deep divergence and widespread Holocene expansion across northern California.
TL;DR: This study illustrates how the integration of genome-wide data with spatial and demographic modeling can reveal the timing and spatial extent of historic events that determine patterns of biotic diversity and may help predict biotic response to future change.
Journal ArticleDOI
Genetic trajectories of zebra and quagga mussel invasions across three decades: Lake Erie versus Hudson River populations
TL;DR: Overall findings indicate that invasive populations may undergo significant genetic divergence or remain consistent over time, whose patterns may differ across their ranges and between related species.
Journal ArticleDOI
Nuclear microsatellite and mitochondrial DNA analyses reveal the regional genetic structure and phylogeographical history of a sanguivorous land leech, Haemadipsa japonica, in Japan
Kaori Morishima,Mineaki Aizawa +1 more
TL;DR: The genetic structure and phylogeographical history across the natural range of Haemadipsa japonica, a sanguivorous land leech species endemic to Japan, is understood by using nine polymorphic nuclear microsatellites and cytochrome oxidase subunit one sequences of mitochondrial DNA.
Journal ArticleDOI
Genetic diversity maintained in comparison of captive-propagated and wild populations of lampsilis fasciola and ptychobranchus fasciolaris (Bivalvia: Unionidae)
TL;DR: When comparing captive-reared offspring with the wild population, STRUCTURE analysis revealed strong support for a single genetic population, and further research is needed to assess the male contribution to each glochidial brood, and the variability of genetic diversity in individual glochodial broods.
Journal ArticleDOI
Genetic evidence of the southward founder speciation of Cycas taitungensis from ancestral C. revoluta along the Ryukyu Archipelagos
TL;DR: This study provides new insight into how the speciation process influences the genetic diversity pattern of species with small Nc and Ne, resulting in small differences in genetic diversity and effective population size (Ne), despite a large difference in census population size between two species.
References
More filters
Journal ArticleDOI
Inference of population structure using multilocus genotype data
TL;DR: Pritch et al. as discussed by the authors proposed a model-based clustering method for using multilocus genotype data to infer population structure and assign individuals to populations, which can be applied to most of the commonly used genetic markers, provided that they are not closely linked.
Journal ArticleDOI
Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study.
TL;DR: 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.
Journal ArticleDOI
Estimating F-statistics for the analysis of population structure.
Bruce S. Weir,C. Clark Cockerham +1 more
TL;DR: 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).
Journal ArticleDOI
STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method
Dent Earl,Bridgett M. vonHoldt +1 more
TL;DR: STRUCTURE HARVESTER is presented, a web-based program for collating results generated by the program STRUCTURE, which provides a fast way to assess and visualize likelihood values across multiple values of K and hundreds of iterations for easier detection of the number of genetic groups that best fit the data.
Related Papers (5)
Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study.
Inference of population structure using multilocus genotype data
STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method
Dent Earl,Bridgett M. vonHoldt +1 more