Secondary Evolve and Resequencing : An Experimental Confirmation of Putative Selection Targets without Phenotyping

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Burny , C , Nolte , V , Nouhaud , P , Dolezal , M & Schloetterer , C 2020 , ' Secondary Evolve and Resequencing : An Experimental Confirmation of Putative Selection Targets without Phenotyping ' , Genome Biology and Evolution , vol. 12 , no. 3 , pp. 151-159 . https://doi.org/10.1093/gbe/evaa036

Title: Secondary Evolve and Resequencing : An Experimental Confirmation of Putative Selection Targets without Phenotyping
Author: Burny, Claire; Nolte, Viola; Nouhaud, Pierre; Dolezal, Marlies; Schloetterer, Christian
Contributor organization: Evolution, Sociality & Behaviour
Organismal and Evolutionary Biology Research Programme
Date: 2020-03
Language: eng
Number of pages: 9
Belongs to series: Genome Biology and Evolution
ISSN: 1759-6653
DOI: https://doi.org/10.1093/gbe/evaa036
URI: http://hdl.handle.net/10138/320234
Abstract: Evolve and resequencing (E&R) studies investigate the genomic responses of adaptation during experimental evolution. Because replicate populations evolve in the same controlled environment, consistent responses to selection across replicates are frequently used to identify reliable candidate regions that underlie adaptation to a new environment. However, recent work demonstrated that selection signatures can be restricted to one or a few replicate(s) only. These selection signatures frequently have weak statistical support, and given the difficulties of functional validation, additional evidence is needed before considering them as candidates for functional analysis. Here, we introduce an experimental procedure to validate candidate loci with weak or replicate-specific selection signature(s). Crossing an evolved population from a primary E&R experiment to the ancestral founder population reduces the frequency of candidate alleles that have reached a high frequency. We hypothesize that genuine selection targets will experience a repeatable frequency increase after the mixing with the ancestral founders if they are exposed to the same environment (secondary E&R experiment). Using this approach, we successfully validate two overlapping selection targets, which showed a mutually exclusive selection signature in a primary E&R experiment of Drosophila simulans adapting to a novel temperature regime. We conclude that secondary E&R experiments provide a reliable confirmation of selection signatures that either are not replicated or show only a low statistical significance in a primary E&R experiment unless epistatic interactions predominate. Such experiments are particularly helpful to prioritize candidate loci for time-consuming functional follow-up investigations.
Subject: experimental evolution
Drosophila simulans
repeatability of evolution
evolve and resequence
EXPERIMENTAL EVOLUTION
READ ALIGNMENT
DROSOPHILA
ADAPTATION
HITCHHIKING
POPULATIONS
1181 Ecology, evolutionary biology
Peer reviewed: Yes
Rights: cc_by
Usage restriction: openAccess
Self-archived version: publishedVersion


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