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Genome-wide evolutionary response of European oaks since the Little Ice Age

Dounia Saleh, Jun Chen, View ORCID ProfileJean-Charles Leplé, View ORCID ProfileThibault Leroy, Laura Truffaut, Benjamin Dencausse, Céline Lalanne, View ORCID ProfileKarine Labadie, Isabelle Lesur, View ORCID ProfileDidier Bert, Frédéric Lagane, François Morneau, View ORCID ProfileJean-Marc Aury, View ORCID ProfileChristophe Plomion, View ORCID ProfileMartin Lascoux, View ORCID ProfileAntoine Kremer
doi: https://doi.org/10.1101/2021.05.25.445558
Dounia Saleh
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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Jun Chen
bCollege of Life Sciences, Zhejiang University, Hangzhou, Zhejiang 310058, China
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Jean-Charles Leplé
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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  • ORCID record for Jean-Charles Leplé
Thibault Leroy
cDepartment of Botany & Biodiversity Research, University of Vienna, Vienna, Austria
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Laura Truffaut
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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Benjamin Dencausse
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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Céline Lalanne
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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Karine Labadie
dGenoscope, Institut de Biologie François Jacob, Commissariat à l’énergie atomique (CEA), Université de Paris-Saclay, 2 rue Gaston Crémieux, 91057 Evry, France
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  • ORCID record for Karine Labadie
Isabelle Lesur
eHelix Venture, 33 700 Merignac France
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Didier Bert
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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  • ORCID record for Didier Bert
Frédéric Lagane
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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François Morneau
fDépartement Recherche Développement Innovation, Office National des Forêts, 100 Boulevard de la Salle, 45760 Boigny-Sur-Bionne, France
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Jean-Marc Aury
gGénomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 91057 Evry, France
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Christophe Plomion
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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Martin Lascoux
hDepartment of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, 75236 Uppsala, Sweden
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Antoine Kremer
aUMR BIOGECO, INRAE, Université de Bordeaux, 69 Route d’Arcachon, 33612 Cestas, France
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  • For correspondence: antoine.kremer@inrae.fr
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ABSTRACT

The pace of tree microevolution during Anthropocene warming is largely unknown. We used a retrospective approach to monitor genomic changes in oak trees since the Little Ice Age (LIA). Allelic frequency changes were assessed from whole-genome pooled sequences for four age-structured cohorts of sessile oak (Quercus petraea) dating back to 1680, in each of three different oak forests in France. The genetic covariances of allelic frequency changes increased between successive time periods, highlighting genome-wide effects of linked selection. We found imprints of convergent linked selection in the three forests during the late LIA, and a shift of selection during more recent time periods. The changes in allelic covariances within and between forests mirrored the documented changes in the occurrence of extreme events (droughts and frosts) over the last three hundred years. The genomic regions with the highest covariances were enriched in genes involved in plant responses to pathogens and abiotic stresses (temperature and drought). These responses are consistent with the reported sequence of frost (or drought) and disease damage ultimately leading to the oak dieback after extreme events. Our results therefore provide evidence of selection operating on long-lived species during recent climatic changes.

Competing Interest Statement

The authors have declared no competing interest.

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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 27, 2021.
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Genome-wide evolutionary response of European oaks since the Little Ice Age
Dounia Saleh, Jun Chen, Jean-Charles Leplé, Thibault Leroy, Laura Truffaut, Benjamin Dencausse, Céline Lalanne, Karine Labadie, Isabelle Lesur, Didier Bert, Frédéric Lagane, François Morneau, Jean-Marc Aury, Christophe Plomion, Martin Lascoux, Antoine Kremer
bioRxiv 2021.05.25.445558; doi: https://doi.org/10.1101/2021.05.25.445558
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Genome-wide evolutionary response of European oaks since the Little Ice Age
Dounia Saleh, Jun Chen, Jean-Charles Leplé, Thibault Leroy, Laura Truffaut, Benjamin Dencausse, Céline Lalanne, Karine Labadie, Isabelle Lesur, Didier Bert, Frédéric Lagane, François Morneau, Jean-Marc Aury, Christophe Plomion, Martin Lascoux, Antoine Kremer
bioRxiv 2021.05.25.445558; doi: https://doi.org/10.1101/2021.05.25.445558

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