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ORIGINAL RESEARCH article

Front. Plant Sci.
Sec. Functional and Applied Plant Genomics
Volume 15 - 2024 | doi: 10.3389/fpls.2024.1523745
This article is part of the Research Topic Plant Genotyping: From Traditional Markers to Modern Technologies, Volume II View all articles

Genomic insights into genetic diversity and seed coat color change in common bean composite populations

Provisionally accepted
Eva Plestenjak Eva Plestenjak 1,2Mohamed Neji Mohamed Neji 1Lovro Sinkovič Lovro Sinkovič 1Vladimir Meglic Vladimir Meglic 1Barbara Pipan Barbara Pipan 1*
  • 1 Agricultural institute of Slovenia, Ljubljana, Slovenia
  • 2 Biotechnical Faculty, University of Ljubljana, Ljubljana, Slovenia

The final, formatted version of the article will be published soon.

    on chromosomes 4, 9, 10 and 11. Phosphatidylinositol signaling pathways were highly enriched in candidate regions, indicating that cellular transport mechanisms play a critical role in seed coat pigmentation. Key GO terms included phosphatidylinositol-biphosphate binding, exocytosis, and vesicle-mediated transport, suggesting a link between cellular transport and pigment deposition in the seed coat. Discussion: The study demonstrates significant genetic diversity within and among common bean composite populations, with KIS_Amand and SRGB_00366 exhibiting the highest phenotypic and genetic variability. The identification of selective sweeps and the enrichment of phosphatidylinositolrelated pathways provide new insights into the molecular mechanisms controlling seed coat color variation. The strong genetic differentiation between standard varieties and composite populations highlights the role of selective breeding in shaping the genetic landscape of common bean. The results suggest that variation in seed coat color is controlled by both regulatory and structural genetic changes, providing valuable information for breeding programs.This study provides a detailed analysis of the genetic architecture of seed coat color variation in common bean. The identification of key genomic regions and pathways associated with seed pigmentation improves our understanding of the complex genetic interactions underlying this trait. These results provide valuable genomic resources for future breeding efforts aimed at improving seed color and other important traits in common bean.

    Keywords: Phaseolus vulgaris, Seed coat color, Phenotypic variation, Composite populations, whole genome sequencing

    Received: 06 Nov 2024; Accepted: 26 Dec 2024.

    Copyright: © 2024 Plestenjak, Neji, Sinkovič, Meglic and Pipan. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

    * Correspondence: Barbara Pipan, Agricultural institute of Slovenia, Ljubljana, Slovenia

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