Genomic analysis of European Drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses
Abstract
Genetic variation is the fuel of evolution, with standing genetic variation especially important for short-term evolution and local adaptation. To date, studies of spatiotemporal patterns of genetic variation in natural populations have been challenging, as comprehensive sampling is logistically difficult, and sequencing of entire populations costly. Here, we address these issues using a collaborative approach, sequencing 48 pooled population samples from 32 locations, and perform the first continent-wide genomic analysis of genetic variation in European Drosophila melanogaster. Our analyses uncover longitudinal population structure, provide evidence for continent-wide selective sweeps, identify candidate genes for local climate adaptation, and document clines in chromosomal inversion and transposable element frequencies. We also characterize variation among populations in the composition of the fly microbiome, and identify five new DNA viruses in our samples.
Citation
Kapun , M , Barrón , M G , Staubach , F , Obbard , D J , Wiberg , R A W , Vieira , J , Goubert , C , Rota-Stabelli , O , Kankare , M , Bogaerts-Márquez , M , Haudry , A , Waidele , L , Kozeretska , I , Pasyukova , E G , Loeschcke , V , Pascual , M , Vieira , C P , Serga , S , Montchamp-Moreau , C , Abbott , J , Gibert , P , Porcelli , D , Posnien , N , Sánchez-Gracia , A , Grath , S , Sucena , É , Bergland , A O , Guerreiro , M P G , Onder , B S , Argyridou , E , Guio , L , Schou , M F , Deplancke , B , Vieira , C , Ritchie , M G , Zwaan , B J , Tauber , E , Orengo , D J , Puerma , E , Aguadé , M , Schmidt , P , Parsch , J , Betancourt , A J , Flatt , T & González , J 2020 , ' Genomic analysis of European Drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses ' , Molecular Biology and Evolution , vol. 37 , no. 9 , pp. 2661-2678 . https://doi.org/10.1093/molbev/msaa120
Publication
Molecular Biology and Evolution
Status
Peer reviewed
ISSN
0737-4038Type
Journal article
Rights
Copyright © The Author(s) 2020. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
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