Nested‐association mapping (NAM)‐based genetic dissection uncovers candidate genes for seed and pod weights in peanut ( Arachis hypogaea )

    Gangurde, S S and Wang, H and Yaduru, S and Pandey, M K and Fountain, J C and Chu, Y and Isleib, T and Holbrook, C C and Xavier, A and Culbreath, A K and Ozias‐Akins, P and Varshney, R K and Guo, B (2019) Nested‐association mapping (NAM)‐based genetic dissection uncovers candidate genes for seed and pod weights in peanut ( Arachis hypogaea ). Plant Biotechnology Journal (TSI). pp. 1-15. ISSN 1467-7644

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    Abstract

    Multiparental genetic mapping populations such as nested-association mapping (NAM) havegreat potential for investigating quantitative traits and associated genomic regions leading torapid discovery of candidate genes and markers. To demonstrate the utility and power of thisapproach, two NAM populations, NAM_Tifrunner and NAM_Florida-07, were used for dissectinggenetic control of 100-pod weight (PW) and 100-seed weight (SW) in peanut. Two high-densitySNP-based genetic maps were constructed with 3341 loci and 2668 loci for NAM_Tifrunner andNAM_Florida-07, respectively. The quantitative trait locus (QTL) analysis identified 12 and 8major effect QTLs for PW and SW, respectively, in NAM_Tifrunner, and 13 and 11 major effectQTLs for PW and SW, respectively, in NAM_Florida-07. Most of the QTLs associated with PW andSW were mapped on the chromosomes A05, A06, B05 and B06. A genomewide associationstudy (GWAS) analysis identified 19 and 28 highly significant SNP–trait associations (STAs) inNAM_Tifrunner and 11 and 17 STAs in NAM_Florida-07 for PW and SW, respectively. Thesesignificant STAs were co-localized, suggesting that PW and SW are co-regulated by severalcandidate genes identified on chromosomes A05, A06, B05, and B06. This study demonstratesthe utility of NAM population for genetic dissection of complex traits and performing high-resolution trait mapping in peanut.

    Item Type: Article
    Divisions: Research Program : Genetic Gains
    CRP: CGIAR Research Program on Grain Legumes and Dryland Cereals (GLDC)
    Uncontrolled Keywords: Nested-Association Mapping, Pod Weight, Seed Weight, Association Mapping, Linkage Mapping, Candidate Genes, Peanut.
    Subjects: Mandate crops > Groundnut
    Others > Genetics and Genomics
    Others > Legume Crops
    Depositing User: Mr Arun S
    Date Deposited: 14 Feb 2020 05:34
    Last Modified: 14 Feb 2020 05:34
    URI: http://oar.icrisat.org/id/eprint/11371
    Official URL: https://doi.org/10.1111/pbi.13311
    Projects: UNSPECIFIED
    Funders: UNSPECIFIED
    Acknowledgement: We thank Billy Wilson, Xiaohong Guo and Xianyuan Ji for technical assistance in the field and the laboratory. This work is partially supported by the U.S. Department of Agriculture Agricultural Research Service (USDA‐ARS), the Peanut Foundation, the Georgia Peanut Commission, National Peanut Board and CGIAR Research Program on Grain Legumes and Dryland Cereals (CRP‐GLDC) of the CGIAR. SSG acknowledges Department of Science and Technology (DST), Govt. of India, for the award of DST‐INSPIRE fellowship for his Ph.D. research. Mention of trade names or commercial products in this publication is solely for the purpose of providing specific information and does not imply recommendation or endorsement by the USDA. The USDA is an equal opportunity provider and employer.
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