Integration of Genetic and Imaging Data to Detect QTL for Root Traits in Interspecific Soybean Populations

Wild soybean, which has many desirable traits, such as adaptability to climate change-related stresses, is a valuable resource for expanding the narrow genetic diversity of cultivated soybeans. Plants require roots to adapt to different environments and optimize water and nutrient uptake to support growth and facilitate the storage of metabolites; however, it is challenging and costly to evaluate root traits under field conditions. Previous studies of quantitative trait loci (QTL) have been mainly based on cultivated soybean populations. In this study, an interspecific mapping population from a cross between wild soybean 'PI483463' and cultivar 'Hutcheson' was used to investigate QTLs associated with root traits using image data. Our results showed that 39 putative QTLs were distributed across 10 chromosomes (chr.). Seventeen of these were clustered in regions on chr. 8, 14, 15, 16, and 17, accounting for 19.92% of the phenotypic variation. We identified five significant QTL clusters influencing root-related traits, such as total root length, surface area, lateral total length, and number of tips, across five chr., with favorable alleles from both wild and cultivated soybeans. Furthermore, we identified eight candidate genes controlling these traits based on functional annotation. These genes were highly expressed in root tissues and directly or indirectly affected soybean root growth, development, and stress responses. Our results provide valuable insights for breeders aiming to optimize soybean root traits and leveraging genetic diversity from wild soybean species to develop varieties with improved root morphological traits, ultimately enhancing overall plant growth, productivity, and resilience.