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Journal Articles Molecular Biology and Evolution Year : 2020

Genomic analysis of European Drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses

1 UNIFR - Université de Fribourg = University of Fribourg
2 UPF - Universitat Pompeu Fabra [Barcelona]
3 University of Freiburg [Freiburg]
4 Edin. - University of Edinburgh
5 University of St Andrews [Scotland]
6 Unibas - Université de Bâle = University of Basel = Basel Universität
7 IBMC - Instituto de Biologia Molecular e Celular - institute for molecular and cell biology [Porto, Portugal]
8 LBBE - Laboratoire de Biométrie et Biologie Evolutive - UMR 5558
9 Fondazione Edmund Mach [San Michele all'Adige]
10 JYU - University of Jyväskylä
11 UKMA - National University of Kyiv-Mohyla Academy
12 Institute of Molecular Genetics of National Research Centre «Kurchatov Institute» [Moscow, Russia]
13 Aarhus University [Aarhus]
14 UB - Universitat de Barcelona
15 Eléments transposables, évolution, populations [LBBE]
16 GINSENG - Département génétique, interactions et évolution des génomes [LBBE]
17 ERABLE - Equipe de recherche européenne en algorithmique et biologie formelle et expérimentale
18 EGCE - Evolution, génomes, comportement et écologie
19 Skane University Hospital [Lund]
20 Génétique et évolution des interactions hôtes-parasites [LBBE]
21 Department of Animal and Plant Sciences [Sheffield]
22 Georg-August-University = Georg-August-Universität Göttingen
23 LMU - Ludwig Maximilian University [Munich] = Ludwig Maximilians Universität München
24 IGC - Instituto Gulbenkian de Ciência [Oeiras]
25 University of Virginia
26 UAB - Universitat Autònoma de Barcelona = Autonomous University of Barcelona = Universidad Autónoma de Barcelona
27 Hacettepe University = Hacettepe Üniversitesi
28 School of Life Sciences [Lausanne]
29 WUR - Wageningen University and Research [Wageningen]
30 University of Haifa [Haifa]
31 University of Pennsylvania
32 University of Liverpool
33 UNIL - Université de Lausanne = University of Lausanne
Marta Pascual
Élio Sucena
Bart Deplancke

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.
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Dates and versions

hal-03014405 , version 1 (19-11-2020)

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Martin Kapun, Maite G Barrón, Fabian Staubach, Darren J Obbard, R Axel W. Wiberg, et al.. Genomic analysis of European Drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses. Molecular Biology and Evolution, 2020, 37 (9), pp.2661-2678. ⟨10.1093/molbev/msaa120⟩. ⟨hal-03014405⟩
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