Coconut genome assembly enables evolutionary analysis of palms and highlights signaling pathways involved in salt tolerance - INRAE - Institut national de recherche pour l’agriculture, l’alimentation et l’environnement Accéder directement au contenu
Article Dans Une Revue Communications Biology Année : 2021

Coconut genome assembly enables evolutionary analysis of palms and highlights signaling pathways involved in salt tolerance

Na Liu
  • Fonction : Auteur
  • PersonId : 767138
  • IdRef : 181628139

Résumé

Coconut (Cocos nucifera) is the emblematic palm of tropical coastal areas all around the globe. It provides vital resources to millions of farmers. In an effort to better understand its evolutionary history and to develop genomic tools for its improvement, a sequence draft was recently released. Here, we present a dense linkage map (8402 SNPs) aiming to assemble the large genome of coconut (2.42 Gbp, 2n=32) into 16 pseudomolecules. As a result, 47% of the sequences (representing 77% of the genes) were assigned to 16 linkage groups and ordered. We observed segregation distortion in chromosome Cn15, which is a signature of strong selection among pollen grains, favouring the maternal allele. Comparing our results with the genome of the oil palm Elaeis guineensis allowed us to identify major events in the evolutionary history of palms. We find that coconut underwent a massive transposable element invasion in the last million years, which could be related to the fluctuations of sea level during the glaciations at Pleistocene that would have triggered a population bottleneck. Finally, to better understand the facultative halophyte trait of coconut, we conducted an RNA-seq experiment on leaves to identify key players of signaling pathways involved in salt stress response. Altogether, our findings represent a valuable resource for the coconut breeding community. Yaodong Yang et al. report a chromosome-scale genome assembly of the coconut and transcriptome analysis of coconut leaves. Their analysis reveals important steps along the evolutionary trajectory of palms and identifies genes that may play a key role in tolerance to salt stress.
Fichier principal
Vignette du fichier
2021_Yang_Communications-Biology.pdf (2.98 Mo) Télécharger le fichier
Origine : Fichiers éditeurs autorisés sur une archive ouverte

Dates et versions

hal-03161818 , version 1 (08-03-2021)

Licence

Paternité

Identifiants

Citer

Yaodong Yang, Stéphanie Bocs, Haikuo Fan, Alix Armero, Luc Baudouin, et al.. Coconut genome assembly enables evolutionary analysis of palms and highlights signaling pathways involved in salt tolerance. Communications Biology, 2021, 4 (1), ⟨10.1038/s42003-020-01593-x⟩. ⟨hal-03161818⟩
310 Consultations
88 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More