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Journal Articles Nature Year : 2023

The giant diploid faba genome unlocks variation in a global protein crop

Murukarthick Jayakodi
Agnieszka A Golicz
Jonathan Kreplak
Lavinia I Fechete
Jana Čížková
Deepti Angra
  • Function : Author
Elesandro Bornhofen
Hailin Zhang
Raphaël Boussageon
Sukhjiwan Kaur
Kwok Cheung
Heidrun Gundlach
Asis Hallab
  • Function : Author
Baptiste Imbert
Gabriel Keeble-Gagnère
  • Function : Author
Andrea Koblížková
  • Function : Author
Lucie Kobrlová
Petra Krejčí
Troels W Mouritzen
Pavel Neumann
Marcin Nadzieja
Linda Kærgaard Nielsen
Petr Novák
Jihad Orabi
  • Function : Author
Sudharsan Padmarasu
Tom Robertson-Shersby-Harvie
  • Function : Author
Laura Ávila Robledillo
  • Function : Author
Andrea Schiemann
  • Function : Author
Jaakko Tanskanen
  • Function : Author
Petri Törönen
  • Function : Author
Ahmed O Warsame
Alexander H J Wittenberg
Axel Himmelbach
  • Function : Author
Grégoire Aubert
Jaroslav Doležel
Liisa U Holm
Luc L Janss
Hamid Khazaei
Jiří Macas
Martin Mascher
Ana M Torres
Petr Smýkal
Rod J Snowdon
Nils Stein
Frederick L Stoddard
Jens Stougaard
  • Function : Author
Nadim Tayeh
Björn Usadel
Ingo Schubert
  • Function : Author
Donal Martin O’sullivan
Alan H Schulman
Stig Uggerhøj Andersen

Abstract

Increasing the proportion of locally produced plant protein in currently meat-rich diets could substantially reduce greenhouse gas emissions and loss of biodiversity1. However, plant protein production is hampered by the lack of a cool-season legume equivalent to soybean in agronomic value2. Faba bean (Vicia faba L.) has a high yield potential and is well suited for cultivation in temperate regions, but genomic resources are scarce. Here, we report a high-quality chromosome-scale assembly of the faba bean genome and show that it has expanded to a massive 13 Gb in size through an imbalance between the rates of amplification and elimination of retrotransposons and satellite repeats. Genes and recombination events are evenly dispersed across chromosomes and the gene space is remarkably compact considering the genome size, although with substantial copy number variation driven by tandem duplication. Demonstrating practical application of the genome sequence, we develop a targeted genotyping assay and use high-resolution genome-wide association analysis to dissect the genetic basis of seed size and hilum colour. The resources presented constitute a genomics-based breeding platform for faba bean, enabling breeders and geneticists to accelerate the improvement of sustainable protein production across the Mediterranean, subtropical and northern temperate agroecological zones.
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Dates and versions

hal-04157768 , version 1 (10-07-2023)

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Murukarthick Jayakodi, Agnieszka A Golicz, Jonathan Kreplak, Lavinia I Fechete, Jana Čížková, et al.. The giant diploid faba genome unlocks variation in a global protein crop. Nature, 2023, 615, pp.652 - 659. ⟨10.1038/s41586-023-05791-5⟩. ⟨hal-04157768⟩
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