Chromosome-level genome assembly and population genomic resource to accelerate orphan crop lablab breeding

Isaac Njaci, Bernice Waweru, Nadia Kamal, Meki Shehabu Muktar, David Fisher, Heidrun Gundlach, Collins Muli, Lucy Muthui, Mary Maranga, Davies Kiambi, Brigitte L. Maass, Peter M. F. Emmrich, Jean-Baka Domelevo Entfellner, Manuel Spannagl, Mark A. Chapman (), Oluwaseyi Shorinola () and Chris S. Jones ()
Additional contact information
Isaac Njaci: International Livestock Research Institute
Bernice Waweru: International Livestock Research Institute
Nadia Kamal: Helmholtz Zentrum München, Plant Genome and Systems Biology
Meki Shehabu Muktar: International Livestock Research Institute
David Fisher: University of Southampton, School of Biological Sciences
Heidrun Gundlach: Helmholtz Zentrum München, Plant Genome and Systems Biology
Collins Muli: International Livestock Research Institute
Lucy Muthui: International Livestock Research Institute
Mary Maranga: Jomo Kenyatta University of Agriculture and Technology
Davies Kiambi: Pwani University
Brigitte L. Maass: Georg-August-University Göttingen
Peter M. F. Emmrich: John Innes Centre, Norwich Research Park
Jean-Baka Domelevo Entfellner: International Livestock Research Institute
Manuel Spannagl: Helmholtz Zentrum München, Plant Genome and Systems Biology
Mark A. Chapman: University of Southampton, School of Biological Sciences
Oluwaseyi Shorinola: International Livestock Research Institute
Chris S. Jones: International Livestock Research Institute

Nature Communications, 2023, vol. 14, issue 1, 1-13

Abstract: Abstract Under-utilised orphan crops hold the key to diversified and climate-resilient food systems. Here, we report on orphan crop genomics using the case of Lablab purpureus (L.) Sweet (lablab) - a legume native to Africa and cultivated throughout the tropics for food and forage. Our Africa-led plant genome collaboration produces a high-quality chromosome-scale assembly of the lablab genome. Our assembly highlights the genome organisation of the trypsin inhibitor genes - an important anti-nutritional factor in lablab. We also re-sequence cultivated and wild lablab accessions from Africa confirming two domestication events. Finally, we examine the genetic and phenotypic diversity in a comprehensive lablab germplasm collection and identify genomic loci underlying variation of important agronomic traits in lablab. The genomic data generated here provide a valuable resource for lablab improvement. Our inclusive collaborative approach also presents an example that can be explored by other researchers sequencing indigenous crops, particularly from low and middle-income countries (LMIC).

Date: 2023
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DOI: 10.1038/s41467-023-37489-7

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