Genome-wide association mapping dissects the selective breeding of determinacy and photoperiod sensitivity in common bean (Phaseolus vulgaris L.).
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jkaf090.pdf
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Resource type
Journal article
Date published
April 19, 2025
Abstract
The common bean (Phaseolus vulgaris L.) is a legume pulse crop that provides significant dietary and ecosystem benefits globally. We investigated 2 key traits, determinacy and photoperiod sensitivity, that are integral to its management and crop production, and that were early selected during the domestication of both Mesoamerican and Andean gene pools. Still, significant variation exists among common bean landraces for these traits. Since landraces form the basis for trait introgression in prebreeding, understanding these traits’ genetic underpinnings and relation with population structure is vital for guiding breeding and genetic studies. We explored genetic admixture, principal component, and phylogenetic analyses using whole-genome sequencing to define subpopulations and gene pools. We used genome-wide association mapping (GWAS) to identify marker-trait associations in a diversity panel of common bean landraces. We observed a clear correlation between these traits, gene pool, and subpopulation structure. We found extensive admixture between the Andean and Mesoamerican gene pools in some regions. We identified 13 QTLs for determinacy and 10 QTLs for photoperiod sensitivity and underlying causative genes. Our study identified known and novel causative genes and a high proportion of pleiotropic effects for these traits in common bean, and likely translatable to other legume species.
Contributor (person)
Pearce, S
Project(s)
Priority 2: Trait Diversity and Function
Funder
| Funder name | Awards |
British Council, United Kingdom | “2019 Newton Fund Institutional Links binational Bioeconomy” call in grant ID 527023146 |
Biotechnology and Biological Sciences Research Council, United Kingdom | Norwich Research Park Doctoral Training program (#2578607) - Earlham Institute's Grant “Decoding Biodiversity” (BBX011089/1) - BBS/E/ER/230002B (Decode WP2 Genome Enabled Analysis of Diversity to Identify Gene Function, Biosynthetic Pathways, and Variation in Agri/Aquacultural Traits) - “Core Strategic Programme Grant” BB/CSP1720/1 (Genomes to Food Security) - BBS/E/T/000PR9818 (WP1 Signatures of Domestication and Adaptation) - “Core Capability Grant” BB/CCG1720/1 |
Journal title
G3: Genes, Genomes, Genetics
Volume
15
Issue
6
Article number
jkaf090
Publisher
Oxford University Press (OUP)
Place of publication
Oxford, UK
eISSN
2160-1836
Date accepted
April 3, 2025
Official URL
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In Copyright
Additional information
IF = 2.1 (2023)