2018
DOI: 10.1111/mec.14917
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Genomic signatures of experimental adaptive radiation in Drosophila

Abstract: Abiotic environmental factors play a fundamental role in determining the distribution, abundance and adaptive diversification of species. Empowered by new technologies enabling rapid and increasingly accurate examination of genomic variation in populations, researchers may gain new insights into the genomic background of adaptive radiation and stress resistance. We investigated genomic variation across generations of large-scale experimental selection regimes originating from a single founder population of Dro… Show more

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Cited by 45 publications
(67 citation statements)
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“…This was particularly obvious at the level of REAs, where we found 444 of these genomic regions to be shared among all replicates and many additional shared among most but not all replicates (Figure a). This is in stark contrast to the observations of Michalak et al () who found almost no intersection of selected SNPs among different treatments in Drosophila .…”
Section: Discussioncontrasting
confidence: 99%
“…This was particularly obvious at the level of REAs, where we found 444 of these genomic regions to be shared among all replicates and many additional shared among most but not all replicates (Figure a). This is in stark contrast to the observations of Michalak et al () who found almost no intersection of selected SNPs among different treatments in Drosophila .…”
Section: Discussioncontrasting
confidence: 99%
“…We think this constitutes evidence that selection on standing genetic variation fixed or nearly fixed alleles (or haplotypes) at many of these causal loci. Our results differ from other recent evolve‐and‐resequence experiments in eukaryotes (mostly involving Drosophila ) where adaptation occurred by more subtle shifts in allele frequencies and incomplete selective sweeps (Burke, Liti, & Long, ; Burke et al., ; Graves et al., ; Orozco‐terWengel et al., ; Tobler et al., ) (but see, Michalak, Kang, Schou, Garner, & Loeschcke, ). For example, in an experiment where flies evolved under novel laboratory conditions with elevated and fluctuating temperatures, SNPs that showed the most pronounced evolutionary change during the first 15 generations of evolution (median change = 0.28), exhibited little allele frequency change after that (median change = 0.03) with only 9% reaching a frequency >0.9 after 37 generations (Orozco‐terWengel et al., ).…”
Section: Discussioncontrasting
confidence: 99%
“…We classified the allele frequency trajectories as sweep signature and small shifts (Hancock et al 2010; Berg and Coop 2014; Bourret et al 2014; Höllinger et al 2019). In several E&R experiments, the genomic response was studied after about 60 generations of adaptation and strong selection response was identified (Mallard et al 2018; Barghi et al 2019; Michalak et al 2019; SimĂ”es et al 2019). Our standard simulations match this experimental time scale to investigate the adaptive architecture.…”
Section: Resultsmentioning
confidence: 99%
“…While some studies detected only a small number of selection targets (Magwire et al 2012; Mallard et al 2018), others suggested a polygenic response (Barghi et al, 2019; Jha et al, 2015). While some E&R studies found highly parallel selection response among replicates (Burke et al 2010; Burke et al 2016; Graves et al 2017; Fragata et al 2018; Mallard et al 2018; Rebolleda-GĂłmez and Travisano 2018; Michalak et al 2019) in other studies selection signatures were much less concordant (Cohan and Hoffmann 1986; TeotĂłnio et al 2004; SimĂ”es et al 2008; Griffin et al 2017; Barghi et al 2019). A particularly striking difference has been observed for natural Drosophila simulans populations exposed to the same hot environment.…”
Section: Introductionmentioning
confidence: 96%