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Pleiotropy or linkage? Their relative contributions to the genetic correlation of quantitative traits and detection by multi-trait GWA studies

View ORCID ProfileJobran Chebib, View ORCID ProfileFrédéric Guillaume
doi: https://doi.org/10.1101/656413
Jobran Chebib
*Department of Evolutionary Biology and Environmental Studies, University of Zürich, Winterthurerstrasse 190, Zürich, Switzerland. CH-8057
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Frédéric Guillaume
*Department of Evolutionary Biology and Environmental Studies, University of Zürich, Winterthurerstrasse 190, Zürich, Switzerland. CH-8057
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  • For correspondence: frederic.guillaume@ieu.uzh.ch
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Abstract

Genetic correlations between traits may cause correlated responses to selection. Previous models described the conditions under which genetic correlations are expected to be maintained. Selection, mutation and migration are all proposed to affect genetic correlations, regardless of whether the underlying genetic architecture consists of pleiotropic or tightly-linked loci affecting the traits. Here, we investigate the conditions under which pleiotropy and linkage have differential effects on the genetic correlations between traits by explicitly modeling multiple genetic architectures to look at the effects of selection strength, degree of correlational selection, mutation rate, mutational variance, recombination rate, and migration rate. We show that at mutation-selection(-migration) balance, mutation rates differentially affect the equilibrium levels of genetic correlation when architectures are composed of pairs of physically linked loci compared to architectures of pleiotropic loci. Even when there is perfect linkage (no recombination within pairs of linked loci), a lower genetic correlation is maintained than with pleiotropy, with a lower mutation rate leading to a larger decrease. These results imply that the detection of causal loci in multi-trait association studies will be affected by the type of underlying architectures, whereby pleiotropic variants are more likely to be underlying multiple detected associations. We also confirm that tighter linkage between non-pleiotropic causal loci maintains higher genetic correlations at the traits and leads to a greater proportion of false positives in association analyses.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • 2 Version 3 of this preprint has been peer-reviewed and recommended by Peer Community In Evolutionary Biology (https://doi.org/10.24072/pci.evolbiol.100087)

  • https://zenodo.org/record/3370185#collapseTwo

  • https://sourceforge.net/projects/nemo2/files/Publications-Code/ChebibGuillaume-PleiotropyOrLinkage-2019

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted May 03, 2020.
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Pleiotropy or linkage? Their relative contributions to the genetic correlation of quantitative traits and detection by multi-trait GWA studies
Jobran Chebib, Frédéric Guillaume
bioRxiv 656413; doi: https://doi.org/10.1101/656413
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Pleiotropy or linkage? Their relative contributions to the genetic correlation of quantitative traits and detection by multi-trait GWA studies
Jobran Chebib, Frédéric Guillaume
bioRxiv 656413; doi: https://doi.org/10.1101/656413

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