Quantitative Trait Loci Sequencing-Derived Molecular Markers For Selection Of Stem Rot Resistance In Peanut

Developing markers linked to key traits has been a focus of peanut (Arachis hypogaea L.) genomics in the postgenome era. Multiple disease resistance traits have been found to be qualitative and controlled by major quantitative trait loci (QTL) or even single genes while others are more complex. Southern stem rot (stem rot in short) is a devastating disease of peanut caused by the fungus Sclerotium rolfsii. It has been one of the most damaging diseases of peanut with regard to both cost of control and yield loss in the southeastern United States for the last decade. The disease is initiated annually from sclerotia in the soil. The nonuniform distribution of these propagules leads to the nonuniform development of disease, which makes phenotyping and genetic mapping of resistance difficult. Here we report the mapping of two QTL regions controlling stem rot resistance in peanut. Using careful field evaluation, resistant and susceptible bulks were identified from a recombinant inbred line (RIL) population and subjected to QTL sequencing (QTL-seq). Developed SNP markers linked to the QTL were validated in a blind selection test by selecting only with markers in a part of the population not used for initial analysis. The lines selected for bulk sequencing also were shown to have strong separation for resistance in an independent field experiment. This work not only delivers markers for marker-assisted selection (MAS) for an important disease in peanut but shows that QTL-seq can work effectively even when considering highly complex, and quantitative traits.