Population genomics of apricots unravels domestication history and adaptive events.

Autor: Groppi A; Univ. Bordeaux, Centre de Bioinformatique de Bordeaux (CBiB), Bordeaux, 33076, France.; Univ. Bordeaux, CNRS, IBGC, UMR 5095, Bordeaux, 33077, France., Liu S; Univ. Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, 71 Av. E. Bourlaux, Villenave d'Ornon, 33140, France.; Liaoning Institute of Pomology, Tiedong Street, Xiongyue, Bayuquan District, Yingkou City, 115009, Liaoning, China., Cornille A; Université Paris Saclay, INRAE, CNRS, AgroParisTech, UMR GQE-Le Moulon, Gif-sur-Yvette, 91190, France., Decroocq S; Univ. Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, 71 Av. E. Bourlaux, Villenave d'Ornon, 33140, France., Bui QT; Univ. Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, 71 Av. E. Bourlaux, Villenave d'Ornon, 33140, France., Tricon D; Univ. Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, 71 Av. E. Bourlaux, Villenave d'Ornon, 33140, France., Cruaud C; Genoscope, Institut François Jacob, Commissariat à l'Energie Atomique (CEA), Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France.; Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France., Arribat S; French Plant Genomic Resource Center, INRAE-CNRGV, Castanet Tolosan, France., Belser C; Genoscope, Institut François Jacob, Commissariat à l'Energie Atomique (CEA), Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France.; Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France., Marande W; French Plant Genomic Resource Center, INRAE-CNRGV, Castanet Tolosan, France., Salse J; INRAE/UBP UMR 1095 GDEC Genetique, Diversite et Ecophysiologie des Cereales, Laboratory PaleoEVO Paleogenomics & Evolution, 5 Chemin de Beaulieu, Clermont Ferrand, 63100, France., Huneau C; INRAE/UBP UMR 1095 GDEC Genetique, Diversite et Ecophysiologie des Cereales, Laboratory PaleoEVO Paleogenomics & Evolution, 5 Chemin de Beaulieu, Clermont Ferrand, 63100, France., Rodde N; French Plant Genomic Resource Center, INRAE-CNRGV, Castanet Tolosan, France., Rhalloussi W; French Plant Genomic Resource Center, INRAE-CNRGV, Castanet Tolosan, France., Cauet S; French Plant Genomic Resource Center, INRAE-CNRGV, Castanet Tolosan, France., Istace B; Genoscope, Institut François Jacob, Commissariat à l'Energie Atomique (CEA), Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France.; Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France., Denis E; Genoscope, Institut François Jacob, Commissariat à l'Energie Atomique (CEA), Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France.; Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France., Carrère S; LIPME, Université de Toulouse, INRAE, CNRS, Castanet-Tolosan, France., Audergon JM; INRAE UR1052 GAFL, Domaine Saint Maurice, CS60094, Montfavet, 84143, France., Roch G; INRAE UR1052 GAFL, Domaine Saint Maurice, CS60094, Montfavet, 84143, France.; CEP INNOVATION, 23 Rue Jean Baldassini, Lyon, 69364, Cedex 07, France., Lambert P; INRAE UR1052 GAFL, Domaine Saint Maurice, CS60094, Montfavet, 84143, France., Zhebentyayeva T; The Schatz Center for Tree Molecular Genetics, Department of Ecosystem Science and Management, The Pennsylvania State University, University Park, 16802, PA, USA., Liu WS; Liaoning Institute of Pomology, Tiedong Street, Xiongyue, Bayuquan District, Yingkou City, 115009, Liaoning, China., Bouchez O; INRAE, US 1426, GeT-PlaGe, Genotoul, Castanet-Tolosan, 31326, France., Lopez-Roques C; INRAE, US 1426, GeT-PlaGe, Genotoul, Castanet-Tolosan, 31326, France., Serre RF; INRAE, US 1426, GeT-PlaGe, Genotoul, Castanet-Tolosan, 31326, France., Debuchy R; Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), Gif-sur-Yvette, 91198, France., Tran J; EGFV, Bordeaux Sciences Agro, INRAE, Univ. Bordeaux, ISVV, Villenave d'Ornon, 33882, France., Wincker P; Genoscope, Institut François Jacob, Commissariat à l'Energie Atomique (CEA), Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France.; Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France., Chen X; Université Paris Saclay, INRAE, CNRS, AgroParisTech, UMR GQE-Le Moulon, Gif-sur-Yvette, 91190, France., Pétriacq P; Univ. Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, 71 Av. E. Bourlaux, Villenave d'Ornon, 33140, France., Barre A; Univ. Bordeaux, Centre de Bioinformatique de Bordeaux (CBiB), Bordeaux, 33076, France., Nikolski M; Univ. Bordeaux, Centre de Bioinformatique de Bordeaux (CBiB), Bordeaux, 33076, France.; Univ. Bordeaux, CNRS, IBGC, UMR 5095, Bordeaux, 33077, France., Aury JM; Genoscope, Institut François Jacob, Commissariat à l'Energie Atomique (CEA), Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France.; Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, Evry, 91057, France., Abbott AG; Forest Health Research and Education Center, University of Kentucky, Lexington, KY, USA., Giraud T; Ecologie Systématique et Evolution, CNRS, Université Paris-Saclay AgroParisTech, Orsay, 91400, France. veronique.decroocq@inrae.fr., Decroocq V; Univ. Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, 71 Av. E. Bourlaux, Villenave d'Ornon, 33140, France. tatiana.giraud@u-psud.fr.
Jazyk: angličtina
Zdroj: Nature communications [Nat Commun] 2021 Jun 25; Vol. 12 (1), pp. 3956. Date of Electronic Publication: 2021 Jun 25.
DOI: 10.1038/s41467-021-24283-6
Abstrakt: Among crop fruit trees, the apricot (Prunus armeniaca) provides an excellent model to study divergence and adaptation processes. Here, we obtain nearly 600 Armeniaca apricot genomes and four high-quality assemblies anchored on genetic maps. Chinese and European apricots form two differentiated gene pools with high genetic diversity, resulting from independent domestication events from distinct wild Central Asian populations, and with subsequent gene flow. A relatively low proportion of the genome is affected by selection. Different genomic regions show footprints of selection in European and Chinese cultivated apricots, despite convergent phenotypic traits, with predicted functions in both groups involved in the perennial life cycle, fruit quality and disease resistance. Selection footprints appear more abundant in European apricots, with a hotspot on chromosome 4, while admixture is more pervasive in Chinese cultivated apricots. Our study provides clues to the biology of selected traits and targets for fruit tree research and breeding.
Databáze: MEDLINE
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