Genome-wide association studies reveal novel loci controlling tuber flesh color and oxidative browning in Dioscorea alata

Dossa Komivi, Morel Angélique, Houngbo Mahugnon Ezekiel, Zotta Mota Ana, Maledon Erick, Irep Jean-Luc, Diman Jean-Louis, Mournet Pierre, Causse Sandrine, Nguyen Van Kien, Cornet Denis, Chaïr Hâna. 2023. Genome-wide association studies reveal novel loci controlling tuber flesh color and oxidative browning in Dioscorea alata. Journal of the Science of Food and Agriculture, 29 p.

Résumé : Background: Consumers' preferences for food crops are guided by quality attributes. This study aimed at deciphering the genetic basis of quality traits, especially tuber flesh color (FC) and oxidative browning (OB) in Dioscorea alata, based on the genome-wide association studies (GWAS) approach. The D. alata panel was planted at two locations in Guadeloupe. At harvest, the FC was scored visually as white, cream, or purple on longitudinally sliced mature tubers. The OB was scored visually as the presence or absence of browning after 15 minutes of exposure of the sliced samples to ambient air. Results: Phenotypic characterization for FC and OB of a diverse panel of D. alata genotypes highlighted significant variation within the panel and across two locations. The genotypes within the panel displayed a weak structure and could be classified into 3 subpopulations. GWAS identified 14 and 4 significant associations for tuber FC and OB, respectively, with phenotypic variance, explained values ranging from 7.18 to 18.04%. Allele segregation analysis at the significantly associated loci highlighted the favorable alleles for the desired traits, i.e., white FC and no OB. A total of 24 putative candidate genes were identified around the significant signals. A comparative analysis with previously reported quantitative trait loci indicated that numerous genomic regions control these traits in D. alata. Conclusion: Our study provides important insights into the genetic control of tuber FC and OB in D. alata. The major and stable loci can be further utilized to improve selection in breeding programs for developing new cultivars with enhanced tuber quality.

Mots-clés Agrovoc : Dioscorea alata, locus des caractères quantitatifs, génotype, Dioscorea, phénotype, tubercule, marqueur génétique, qualité des aliments, amélioration des plantes, locus, génome, préférence alimentaire, phytogénétique

Mots-clés géographiques Agrovoc : France, Guadeloupe

Mots-clés libres : Yam, Association genetics, Quality traits, Molecular markers, Breeding

Classification Agris : F30 - Génétique et amélioration des plantes
S01 - Nutrition humaine - Considérations générales

Champ stratégique Cirad : CTS 3 (2019-) - Systèmes alimentaires

Agences de financement hors UE : Consortium of International Agricultural Research Centers, Centre de Coopération Internationale en Recherche Agronomique pour le Développement, Bill and Melinda Gates Foundation

Projets sur financement : (FRA) Breeding RTB Products for End User Preferences

Auteurs et affiliations

• Dossa Komivi, CIRAD-BIOS-UMR AGAP (GLP) ORCID: 0000-0003-4894-6279 - auteur correspondant
• Morel Angélique, Université de Montpellier (FRA)
• Houngbo Mahugnon Ezekiel, CIRAD-BIOS-UMR AGAP (FRA)
• Zotta Mota Ana, CIRAD-BIOS-UMR AGAP (FRA)
• Maledon Erick, CIRAD-BIOS-UMR AGAP (GLP)
• Irep Jean-Luc, INRAE (FRA)
• Diman Jean-Louis, INRAE (FRA)
• Mournet Pierre, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0001-8011-8647
• Causse Sandrine, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0002-3877-8788
• Nguyen Van Kien, Plant Resource Center (VNM)
• Cornet Denis, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0001-9297-2680
• Chaïr Hâna, CIRAD-BIOS-UMR AGAP (FRA)

Source : Cirad-Agritrop (https://agritrop.cirad.fr/604780/)

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