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Journal articles

Oak genome reveals facets of long lifespan

Christophe Plomion 1, * Jean-Marc Aury 2 Joelle Amselem 3 Thibault Leroy 1 Florent Murat 4 Sébastien Duplessis 5 Sébastien Faye 2 Nicolas Francillonne 3 Karine Labadie 2 Grégoire Le Provost 1 Isabelle Lesur Kupin 1 Jérôme Bartholome 1 Patricia Faivre-Rampant 6 Annegret Kohler 5 Jean-Charles Leplé 1 Nathalie Chantret 7 Jun Chen 8 Anne Dievart 7 Tina Alaeitabar 3 Valérie Barbe 2 Caroline Belser 2 Helene Berges 9 Catherine Bodenes 1 Marie-Béatrice Bogeat-Triboulot 10 Marie-Lara Bouffaud 11 Benjamin Brachi 1 Emilie Chancerel 1 David Cohen 10 Arnaud Couloux 2 Corinne da Silva 2 Carole Dossat 2 François Ehrenmann 1 Christine Gaspin 12 Jacqueline Grima Pettenati 13, 14 Erwan Guichoux 1 Arnaud Hecker 5 Sylvie Herrmann 15 Philippe Hugueney 16 Irène Hummel 10 Christophe Klopp 12 Céline Lalanne 1 Martin Lascoux 8 Eric Lasserre 17 Arnaud Lemainque 2 Marie Laure Desprez-Loustau 1 Isabelle Luyten 3 Mohammed-Amin Madoui 2 Sophie Mangenot 2 Clémence Marchal 5 Florian Maumus 3 Jonathan Mercier 2 Célia Michotey 3 Olivier Panaud 17 Nathalie Picault 17 Nicolas Rouhier 5 Olivier Rué 12 Camille Rustenholz 10 Franck Salin 1 Marçal Soler 18, 14, 19 Mika Tarkka 11 Amandine Velt 10 Amy E. Zanne 20 Francis Martin 5 Patrick Wincker 21, 14, 22, 23 Hadi Quesneville 3 Antoine Kremer 1 Jerome Salse 4
* Corresponding author
1 BioGeCo - Biodiversité, Gènes & Communautés
2 GENOSCOPE - Genoscope - Centre national de séquençage [Evry]
3 URGI - Unité de Recherche Génomique Info
4 GDEC - Génétique Diversité et Ecophysiologie des Céréales
5 IAM - Interactions Arbres-Microorganismes
6 EPGV - Etude du Polymorphisme des Génomes Végétaux
7 UMR AGAP - Amélioration génétique et adaptation des plantes méditerranéennes et tropicales
8 EBC - Department of Ecology and Genetics [Uppsala]
9 CNRGV - Centre National de Ressources Génomiques Végétales
10 SVQV - Santé de la vigne et qualité du vin
11 UFZ - Helmholtz Zentrum für Umweltforschung = Helmholtz Centre for Environmental Research
12 MIAT INRA - Unité de Mathématiques et Informatique Appliquées de Toulouse
13 Régulation et Dynamique de la Formation du Bois
LRSV - Laboratoire de Recherche en Sciences Végétales
14 CNRS - Centre National de la Recherche Scientifique
15 iDiv - German Centre for Integrative Biodiversity Research
16 SVQV - Santé de la vigne et qualité du vin
17 LGDP - Laboratoire Génome et développement des plantes
18 LRSV - Laboratoire de Recherche en Sciences Végétales
19 UdG - Universitat de Girona
20 GW - The George Washington University
21 UMR 8030 - Génomique métabolique
22 UEVE - Université d'Évry-Val-d'Essonne
23 Université Paris-Saclay
Abstract : Oaks are an important part of our natural and cultural heritage. Not only are they ubiquitous in our most common landscapes1 but they have also supplied human societies with invaluable services, including food and shelter, since prehistoric times2. With 450 species spread throughout Asia, Europe and America3, oaks constitute a critical global renewable resource. The longevity of oaks (several hundred years) probably underlies their emblematic cultural and historical importance. Such long-lived sessile organisms must persist in the face of a wide range of abiotic and biotic threats over their lifespans. We investigated the genomic features associatedwith such a long lifespan by sequencing, assembling and annotating the oak genome. We then used the growing number of whole-genome sequences for plants (including tree and herbaceous species) to investigate the parallel evolution of genomic characteristics potentially underpinning tree longevity. A further consequence of the long lifespan of trees is their accumulation of somatic mutations during mitotic divisions of stem cells present in the shoot apical meristems. Empirical4 and modelling5 approaches have shown that intra-organismal genetic heterogeneity can be selected for6 and provides direct fitness benefits in the arms race with short-lived pests andpathogens through a patchwork of intra-organismal phenotypes7. However, there is no clear proof that large-statured trees consist of a genetic mosaic of clonally distinct cell lineages within and between branches. Through this case study of oak, we demonstrate the accumulation and transmission of somatic mutations and the expansion of disease-resistance gene families in trees.
Keywords : Sequencing Plant Immunity Plant evolution Genomics Forestry
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Submitted on : Thursday, June 21, 2018 - 8:04:49 PM
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CNRS | UNIV-EVRY | INRA | UNIV-PERP | AGROPOLIS | ACL-SVSAE | UNIV-LORRAINE | CIRAD | GENOMIQUE-METABOLIQUE | GDEC | PRES_CLERMONT | IAM-UL | UNIV-PARIS-SACLAY | CEA | CEA-UPSAY | LGDP | UNIV-TLSE3 | JACOB | CEA-DRF | GENOSCOPE | MONTPELLIER-SUPAGRO | INRAE | SITE-ALSACE | INRAEOCCITANIEMONTPELLIER | A2F-UL | GS-BIOSPHERA | BIOGECO | LRSV | AGAP

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Christophe Plomion, Jean-Marc Aury, Joelle Amselem, Thibault Leroy, Florent Murat, et al.. Oak genome reveals facets of long lifespan. Nature Plants, Nature Publishing Group, 2018, 4 (7), pp.440-452. ⟨10.1038/s41477-018-0172-3⟩. ⟨hal-01820559⟩

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