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Chromosome-scale assembly of the lablab genome - A model for inclusive orphan crop genomics

View ORCID ProfileIsaac Njaci, View ORCID ProfileBernice Waweru, View ORCID ProfileNadia Kamal, View ORCID ProfileMeki Shehabu Muktar, View ORCID ProfileDavid Fisher, View ORCID ProfileHeidrun Gundlach, View ORCID ProfileCollins Muli, View ORCID ProfileLucy Muthui, View ORCID ProfileMary Maranga, View ORCID ProfileDavies Kiambi, View ORCID ProfileBrigitte L Maass, View ORCID ProfilePeter MF Emmrich, View ORCID ProfileJean-Baka Domelevo Entfellner, View ORCID ProfileManuel Spannagl, View ORCID ProfileMark A Chapman, View ORCID ProfileOluwaseyi Shorinola, View ORCID ProfileChris S Jones
doi: https://doi.org/10.1101/2022.05.08.491073
Isaac Njaci
1International Livestock Research Institute, Nairobi 00100, Kenya
2John Innes Centre, Norwich Research Park Norwich, NR4 7UH, UK
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Bernice Waweru
1International Livestock Research Institute, Nairobi 00100, Kenya
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Nadia Kamal
3Helmholtz Zentrum München, German Research Center for Environmental Health, Plant Genome and Systems Biology, Ingolstädter Landstr. 1, 85764 Neuherberg, Germany
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Meki Shehabu Muktar
4International Livestock Research Institute, Addis Ababa, Ethiopia
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David Fisher
5University of Southampton, School of Biological Sciences, Southampton, SO17 1BJ, UK
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Heidrun Gundlach
3Helmholtz Zentrum München, German Research Center for Environmental Health, Plant Genome and Systems Biology, Ingolstädter Landstr. 1, 85764 Neuherberg, Germany
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Collins Muli
1International Livestock Research Institute, Nairobi 00100, Kenya
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Lucy Muthui
1International Livestock Research Institute, Nairobi 00100, Kenya
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Mary Maranga
6Malopolska Centre of Biotechnology, Jagiellonian University, Gronostajowa 7A, Kraków, Poland
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Davies Kiambi
7Department of Microbiology and Biochemistry, Hochschule Geisenheim University, Von-Lade-Straße 1, 65366 Geisenheim, Germany
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Brigitte L Maass
8Department of Crop Sciences, Georg-August-University Göttingen, Grisebachstr. 6, 37077 Göttingen, Germany
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Peter MF Emmrich
1International Livestock Research Institute, Nairobi 00100, Kenya
2John Innes Centre, Norwich Research Park Norwich, NR4 7UH, UK
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Jean-Baka Domelevo Entfellner
1International Livestock Research Institute, Nairobi 00100, Kenya
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Manuel Spannagl
3Helmholtz Zentrum München, German Research Center for Environmental Health, Plant Genome and Systems Biology, Ingolstädter Landstr. 1, 85764 Neuherberg, Germany
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Mark A Chapman
5University of Southampton, School of Biological Sciences, Southampton, SO17 1BJ, UK
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  • For correspondence: m.chapman@soton.ac.uk shorinolao@gmail.com c.jones@cgiar.org
Oluwaseyi Shorinola
1International Livestock Research Institute, Nairobi 00100, Kenya
2John Innes Centre, Norwich Research Park Norwich, NR4 7UH, UK
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  • For correspondence: m.chapman@soton.ac.uk shorinolao@gmail.com c.jones@cgiar.org
Chris S Jones
1International Livestock Research Institute, Nairobi 00100, Kenya
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  • For correspondence: m.chapman@soton.ac.uk shorinolao@gmail.com c.jones@cgiar.org
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Abstract

Orphan crops (also described as underutilised and neglected crops) hold the key to diversified and climate-resilient food systems. After decades of neglect, the genome sequencing of orphan crops is gathering pace, providing the foundations for their accelerated domestication and improvement. Recent attention has however turned to the gross under-representation of researchers in Africa in the genome sequencing efforts of their indigenous orphan crops. Here we report a radically inclusive approach to orphan crop genomics using the case of Lablab purpureus (L.) Sweet (syn. Dolichos lablab, or hyacinth bean) – a legume native to Africa and cultivated throughout the tropics for food and forage. Our Africa-led South-North plant genome collaboration produced a high-quality chromosome-scale assembly of the lablab genome – the first chromosome-scale plant genome assembly locally produced in Africa. We also re-sequenced cultivated and wild accessions of lablab from Africa confirming two domestication events and examined the genetic diversity in lablab germplasm conserved in Africa. Our approach provides a valuable resource for lablab improvement and also presents a model that could be explored by other researchers sequencing indigenous crops particularly from Low and middle income countries (LMIC).

Competing Interest Statement

The authors have declared no competing interest.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Chromosome-scale assembly of the lablab genome - A model for inclusive orphan crop genomics
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 MF Emmrich, Jean-Baka Domelevo Entfellner, Manuel Spannagl, Mark A Chapman, Oluwaseyi Shorinola, Chris S Jones
bioRxiv 2022.05.08.491073; doi: https://doi.org/10.1101/2022.05.08.491073
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Chromosome-scale assembly of the lablab genome - A model for inclusive orphan crop genomics
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 MF Emmrich, Jean-Baka Domelevo Entfellner, Manuel Spannagl, Mark A Chapman, Oluwaseyi Shorinola, Chris S Jones
bioRxiv 2022.05.08.491073; doi: https://doi.org/10.1101/2022.05.08.491073

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