Genomic and Economic Study for Improvement of Peanut Water Deficit Stress Tolerance

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The Ogallala Aquifer has been depleting rapidly, and this poses a significant long-range challenge to agriculture in the Southern High Plains area of Texas. Peanut is one of the most important crops in this region but requires more water relative to some crops. Therefore, it is important to develop peanut varieties that are tolerant to water deficit for reducing the use of irrigation water. One of the research projects estimated yield, grade, hundred-seed weight, revenue, and gross margin for evaluation of genotypes performed well under water deficit. Some breeding lines and mini core accessions showed overall better performance among all genotypes including some current varieties when under water deficit stress. These genotypes have potential to be released or used as breeding material for developing drought tolerant peanut varieties. To assist with breeding programs, the identification of useful molecular markers could help for selection toward desired traits related to water deficit stress tolerance. Marker identification in this research was done by using two approaches, SNP chip and RAD-Seq. Both approaches were performed using the U.S. peanut mini core collections in different locations and different years. GWAS analyses were performed, and around 300 significant SNPs were identified to be associated with yield, hundred-seed weight, NDVI, flower counts, SPAD, plant width, plant height, leaf closure, leaf wilting, seed grade, and CTD. To make useful markers become a routine tool for breeding programs, developing a suitable and reduced-cost genotyping system was important. In this research, 2,770 SNP targets were selected and designed into custom probes using the Tecan Allegro Targeted Resequencing V2 system, and 48 peanut samples that included some closely related genotypes such as sister lines were used as a trial experiment. Sequencing data from MiSeq were analyzed for identifying SNPs, and the results showed that this genotyping by targeted resequencing approach reduced the cost to around $18.88 per plant sample, with providing several polymorphic markers with accurate SNP calls.

Embargo status: Restricted until 01/2028. To request the author grant access, click on the PDF link to the left.

Peanut, Genotyping, GWAS, Profitability, Water