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ARS Home » Southeast Area » Tifton, Georgia » Crop Genetics and Breeding Research » Research » Publications at this Location » Publication #352230
Research Project: Improvement of Genetic Resistance to Multiple Biotic and Abiotic Stresses in Peanut

Location: Crop Genetics and Breeding Research

Title: Recombination bin-map facilitates QTL mapping of disease resistance traits in peanut (Arachis hypogaea L.) using whole genome re-sequencing

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 KALE, S - 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 - University Of Georgia
item LIU, X - Bgi Shenzhen
item YUAN, M - Shandong Peanut Research Institute
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: The availability of peanut (Arachis hypogaea L.) reference genome information facilitates the identification and development of useful markers, genes, and improvement of peanut disease resistance and quality. A recombination bin-map strategy based on whole-genome re-sequencing (WGRS) could greatly improve mapping accuracy and resolution. In this study, we report a high-density bin-map developed from 141 recombinant inbred lines (RILs) derived from a cross between SunOleic 97R and NC94022. The parents and RILs were evaluated phenotypically for four years in the field for foliar disease ratings including early leaf spot, late leaf spot, and Tomato spotted wilt virus (TSWV), and genotyped by whole genome re-sequencing to a depth >20X and 3-5X, respectively. A total of 11,106 high-quality polymorphic single nucleotide polymorphisms (SNPs) were identified and used to build the first SNP based bin-map for peanut using a sliding window approach, containing 5,816 bins. The total map length was 2,004 cM with 20 linkage groups, and the average bin density was 2.9 bins per cM. A total of 19 quantitative trait loci (QTLs) for resistance to both the leaf spots and TSWV were identified and accounted for 7% to 36.5% of the phenotypic variation explained. The small intervals of the major QTLs contain a cluster of genes, coding for chitinase family protein, strictosidine synthase-like protein and LRR receptor kinase. A major QTL for TSWV resistance on chromosome A01 was located in the small interval of 89.5 Kb, containing several SNPs that have been used to develop and validate Kompetitive Allele Specific PCR (KASP) markers which could be deployed in genomics assisted breeding. This study has not only paved the path to identify the underlying genes for disease resistance in peanut but also provides a basis for marker-assisted selection and map based cloning in further studies.