Keeping it local: evidence for positive selection in Swedish Arabidopsis thaliana.
Bottom Line: The model plant Arabidopsis thaliana exemplifies this problem: In spite of the large amounts of data, little evidence for classic selective sweeps has been found.Moreover, it affects the power differently for northern Sweden (more false positives) as compared with southern Sweden (more false negatives).This study demonstrates the necessity of combining demographic analyses and sweep scans for the detection of selection, particularly when selection acts predominantly local.
Affiliation: Mathematics and BioSciences Group, Max F. Perutz Laboratories, University of Vienna, Vienna, Austria Vienna Graduate School of Population Genetics, Vetmeduni Vienna, Vienna, Austria.Show MeSH
Related in: MedlinePlus
Mentions: Additional evidence in support of this model comes from comparing linkage disequilibrium (LD) between the data and coalescent simulations under the secondaryContact6 demography. This model recapitulates the ratio of LD between South and North very well (fig. 3): The estimated population recombination rate is 7.9-fold larger in southern Sweden than in northern Sweden and the simulations predict a comparable ratio of 8.3. For this reason, all subsequent simulation results are based on the secondary contact model.Fig. 3.
Affiliation: Mathematics and BioSciences Group, Max F. Perutz Laboratories, University of Vienna, Vienna, Austria Vienna Graduate School of Population Genetics, Vetmeduni Vienna, Vienna, Austria.