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. 2024 Sep 21;13(18):2638.
doi: 10.3390/plants13182638.

Genome-Wide Association for Morphological and Agronomic Traits in Phaseolus vulgaris L. Accessions

Stephanie Mariel Alves  1 , Giselly Figueiredo Lacanallo  2 , Maria Celeste Gonçalves-Vidigal  1 , Mariana Vaz Bisneta  1 , Andressa Gonçalves Vidigal Rosenberg  1 , Pedro Soares Vidigal Filho  1
Affiliations

Genome-Wide Association for Morphological and Agronomic Traits in Phaseolus vulgaris L. Accessions

Stephanie Mariel Alves et al. Plants (Basel). .

Abstract

Exploring genetic resources through genomic analyses has emerged as a powerful strategy to develop common bean (Phaseolus vulgaris L.) cultivars that are both productive and well-adapted to various environments. This study aimed to identify genomic regions linked to morpho-agronomic traits in Mesoamerican and Andean common bean accessions and to elucidate the proteins potentially involved in these traits. We evaluated 109 common bean accessions over three agricultural years, focusing on traits including the grain yield (YDSD), 100-seed weight (SW), number of seeds per pod (SDPD), number of pods per plant (PDPL), first pod insertion height (FPIH), plant height (PLHT), days to flowering (DF), and days to maturity (DPM). Using multilocus methods such as mrMLM, FASTmrMLM, FASTmrEMMA, ISIS EM-BLASSO, and pLARmEB, we identified 36 significant SNPs across all chromosomes (Pv01 to Pv11). Validating these SNPs and candidate genes in segregating populations is crucial for developing more productive common bean cultivars through marker-assisted selection.

Keywords: GWAS; common bean; single nucleotide polymorphism.

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Conflict of interest statement

The authors declare that there are no conflicts of interest.

Figures

Figure 1
Figure 1
Precipitation (mm) and minimum and maximum temperature (degrees Celsius) in the experiments conducted at the Technical Irrigation Center (CTI) in Maringá, PR, Brazil, in 2019, 2020, and 2021.
Figure 2
Figure 2
Manhattan and QQ plots obtained in GWAS for the yield and its components and plant architecture: (a) YDSD, grain yield (kg ha−1); (b) SW, 100-seed weight (g); (c) PDPL, number of pods per plant; (d) FPIH, first pod insertion height (cm); (e) PLHT, plant height (cm). The gray threshold line was considered for LOD score ≥ 3. The pink dots indicate the SNPs significantly associated with traits.
Figure 3
Figure 3
Manhattan and QQ plots obtained in GWAS for phenology: (a) DF, number of days for flowering; (b) DPM, number of days for maturity. The gray threshold line was considered for LOD score ≥ 3. The pink dots indicate the SNPs significantly associated with traits.
Figure 4
Figure 4
Accessions of common beans from the Nupagri Germplasm Bank (photos taken by UEM/ASC).
See this image and copyright information in PMC

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