Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping

Garin Vincent, Diallo Chiaka, Tekete Mohamed Lamine, Thera Mamoutou Korotimi, Guitton Baptiste, Dagno Karim, Diallo Abdoulaye, Kouressy Mamoutou, Leiser Willmar L., Rattunde Fred, Sissoko Ibrahima, Touré Aboubacar, Nébié Baloua, Samaké Moussa, Kholova Jana, Frouin Julien, Pot David, Vaksmann Michel, Weltzien Eva, Témé Niaba, Rami Jean-François. 2024. Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping. Genetics:iyae003, 17 p.

Url - jeu de données - Dataverse Cirad : https://doi.org/10.18167/DVN1/TZVGLS / Url - autres données associées : https://gitlab.cirad.fr/agap/giv/sorghum_ bcnam_analysis / Url - autres données associées : https://github.com/vincentgarin/SQE

Résumé : Identifying the genetic factors impacting the adaptation of crops to environmental conditions is of key interest for conservation and selection purposes. It can be achieved using population genomics, and evolutionary or quantitative genetics. Here we present a sorghum multireference back-cross nested association mapping population composed of 3,901 lines produced by crossing 24 diverse parents to 3 elite parents from West and Central Africa-back-cross nested association mapping. The population was phenotyped in environments characterized by differences in photoperiod, rainfall pattern, temperature levels, and soil fertility. To integrate the multiparental and multi-environmental dimension of our data we proposed a new approach for quantitative trait loci (QTL) detection and parental effect estimation. We extended our model to estimate QTL effect sensitivity to environmental covariates, which facilitated the integration of envirotyping data. Our models allowed spatial projections of the QTL effects in agro-ecologies of interest. We utilized this strategy to analyze the genetic architecture of flowering time and plant height, which represents key adaptation mechanisms in environments like West Africa. Our results allowed a better characterization of well-known genomic regions influencing flowering time concerning their response to photoperiod with Ma6 and Ma1 being photoperiod-sensitive and the region of possible candidate gene Elf3 being photoperiod-insensitive. We also accessed a better understanding of plant height genetic determinism with the combined effects of phenology-dependent (Ma6) and independent (qHT7.1 and Dw3) genomic regions. Therefore, we argue that the West and Central Africa-back-cross nested association mapping and the presented analytical approach constitute unique resources to better understand adaptation in sorghum with direct application to develop climate-smart varieties.

Mots-clés Agrovoc : locus des caractères quantitatifs, carte génétique, génétique des populations, facteur du milieu, Striga hermonthica, phénotype, génomique, impact sur l'environnement

Mots-clés géographiques Agrovoc : Afrique occidentale, Afrique centrale, Mali

Mots-clés libres : Multiparental populations, Quantitative trait loci, MultireferenceBCNAM, Genotype by environment interaction;, Envirotyping, Adaptation

Classification Agris : F30 - Génétique et amélioration des plantes

Champ stratégique Cirad : CTS 2 (2019-) - Transitions agroécologiques

Agences de financement hors UE : Swiss National Science Foundation, Česká Zemědělská Univerzita v Praze

Auteurs et affiliations

• Garin Vincent, CIRAD-BIOS-UMR AGAP (FRA)
• Diallo Chiaka, ICRISAT (MLI)
• Tekete Mohamed Lamine, IER (MLI)
• Thera Mamoutou Korotimi, IER (MLI)
• Guitton Baptiste, Université de Montpellier (FRA)
• Dagno Karim, IER (MLI)
• Diallo Abdoulaye, IER (MLI)
• Kouressy Mamoutou, IER (MLI)
• Leiser Willmar L., ICRISAT (MLI)
• Rattunde Fred, University of Wisconsin (USA)
• Sissoko Ibrahima, ICRISAT (MLI)
• Touré Aboubacar, ICRISAT (MLI)
• Nébié Baloua, CERAAS (SEN)
• Samaké Moussa, USTTB (MLI)
• Kholova Jana, ICRISAT (IND)
• Frouin Julien, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-1591-0755
• Pot David, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0001-6144-8448
• Vaksmann Michel, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0002-5258-1279
• Weltzien Eva, ICRISAT (MLI) - auteur correspondant
• Témé Niaba, IER (MLI) - auteur correspondant
• Rami Jean-François, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0002-5679-3877 - auteur correspondant

Source : Cirad-Agritrop (https://agritrop.cirad.fr/608746/)

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