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ARS Home » Southeast Area » Tifton, Georgia » Crop Genetics and Breeding Research » Research » Publications at this Location » Publication #352232
Research Project: Improvement of Genetic Resistance to Multiple Biotic and Abiotic Stresses in Peanut

Location: Crop Genetics and Breeding Research

Title: Peanut high-desity genetic map using whole-genome re-sequencing for fine mapping and candidate gene discovery for disease resistance

Author
item AGARWAL, G - University Of Georgia
item WANG, H - University Of Georgia
item CULBREATH, A - University Of Georgia
item CLEVENGER, J. - University Of Georgia
item JACKSON, S - University Of Georgia
item SHASIDHAR, Y - International Crops Research Institute For Semi-Arid Tropics (ICRISAT) - India
item PANDEY, M - International Crops Research Institute For Semi-Arid Tropics (ICRISAT) - India
item VARSHNEY, R - International Crops Research Institute For Semi-Arid Tropics (ICRISAT) - India
item CHU, Y - University Of Georgia
item OZIAS-AKINS, P - International Crops Research Institute For Semi-Arid Tropics (ICRISAT) - India
item LUI, X - Bgi Shenzhen
item WANG, X - Shandong Peanut Research Institute
item Holbrook, Carl - Corley
item Guo, Baozhu

Submitted to: American Peanut Research and Education Society Abstracts
Publication Type: Abstract Only
Publication Acceptance Date: 6/1/2018
Publication Date: N/A
Citation: N/A

Interpretive Summary:

Technical Abstract: Whole genome re-sequencing (WGRS) of mapping populations has facilitated the development of high-density genetic linkage maps essential for fine mapping and candidate gene discovery for traits of interest in crop species. Leaf spots, including early leaf spot (ELS) and late leaf spot (LLS), and Tomato spotted wilt virus (TSWV) are devastating diseases in peanut causing significant yield loss. We generated WGRS data on a recombinant inbred line population, developed a SNP-based high-density genetic map, and conducted fine mapping, candidate gene discovery and marker validation for ELS, LLS, and TSWV. The first sequence-based high-density map was constructed with 8,869 SNPs assigned to 20 linkage groups, representing 20 chromosomes for the “T” population (Tifrunner × GT-C20) with a map length of 3,120 cM and an average distance of 1.45 cM/loci. The quantitative trait locus (QTL) analysis using high-density genetic map and multiple season phenotyping data identified 35 main-effect QTLs with phenotypic variation explained (PVE) ranging from 6.32 to 47.63%. Among major effect QTLs mapped, there were two QTLs for ELS on B05 with 47.42% PVE and B03 with 47.38% PVE, two QTLs for LLS on A05 with 47.63% and B03 with 34.03% PVE, and one QTL for TSWV on B09 with 40.71% PVE. The epistasis and environment interaction analyses identified significant environmental effects on these traits. The identified QTL regions had disease resistance genes including R-genes and transcription factors. The Kompetitive Allele Specific PCR (KASP) markers were developed for major QTLs and validated in the population, and are ready for further deployment in genomics-assisted breeding in peanut.