Genetic mapping identifies genomic regions and candidate genes for seed weight and shelling percentage in groundnut

    Gangurde, S S and Pasupuleti, J and Parmar, S and Variath, M T and Bomireddy, D and Manohar, S S and Varshney, R K and Singam, P and Guo, B and Pandey, M K (2023) Genetic mapping identifies genomic regions and candidate genes for seed weight and shelling percentage in groundnut. Frontiers in Genetics (TSI), 14. 01-15. ISSN 1664-8021

    [img] PDF - Updated Version
    Available under License Creative Commons Attribution.
    Download (4MB)

    Abstract

    Seed size is not only a yield-related trait but also an important measure to determine the commercial value of groundnut in the international market. For instance, small size is preferred in oil production, whereas large-sized seeds are preferred in confectioneries. In order to identify the genomic regions associated with 100-seed weight (HSW) and shelling percentage (SHP), the recombinant inbred line (RIL) population (Chico × ICGV 02251) of 352 individuals was phenotyped for three seasons and genotyped with an Axiom_Arachis array containing 58K SNPs. A genetic map with 4199 SNP loci was constructed, spanning a map distance of 2708.36 cM. QTL analysis identified six QTLs for SHP, with three consistent QTLs on chromosomes A05, A08, and B10. Similarly, for HSW, seven QTLs located on chromosomes A01, A02, A04, A10, B05, B06, and B09 were identified. BIG SEED locus and spermidine synthase candidate genes associated with seed weight were identified in the QTL region on chromosome B09. Laccase, fibre protein, lipid transfer protein, senescence-associated protein, and disease-resistant NBS-LRR proteins were identified in the QTL regions associated with shelling percentage. The associated markers for major-effect QTLs for both traits successfully distinguished between the small- and largeseeded RILs. QTLs identified for HSW and SHP can be used for developing potential selectable markers to improve the cultivars with desired seed size and shelling percentage to meet the demands of confectionery industries.

    Item Type: Article
    Divisions: Center of Excellence in Genomics and Systems Biology
    Global Research Program - Accelerated Crop Improvement
    CRP: UNSPECIFIED
    Uncontrolled Keywords: candidate gene discovery, peanut, diagnostic markers, high-density genotyping, Axiom_Arachis array
    Subjects: Mandate crops > Groundnut
    Others > Genetics and Genomics
    Depositing User: Mr Nagaraju T
    Date Deposited: 22 Jan 2024 05:29
    Last Modified: 22 Jan 2024 05:29
    URI: http://oar.icrisat.org/id/eprint/12388
    Official URL: https://www.frontiersin.org/articles/10.3389/fgene...
    Projects: UNSPECIFIED
    Funders: Indian Council of Agricultural Research, Department of Biotechnology (DBT), Government of India, MARS-Wrigley, Bill and Melinda Gates Foundation (BMGF), United States
    Acknowledgement: SSG acknowledges the Department of Science and Technology, Government of India for DST-INSPIRE Fellowship and SP acknowledges Council of Scientific and Industrial Research (CSIR), and Govt. of India for the award of CSIR Junior Research Fellowship (JRF). The authors are thankful to the Indian Council of Agricultural Research (ICAR) and Department of Biotechnology (DBT) of Government of India, MARS-Wrigley and Bill and Melinda Gates Foundation (BMGF), United States for partial financial assistance.
    Links:
    View Statistics

    Actions (login required)

    View Item View Item
    Altmetric
    OAR@ICRISAT is powered by EPrints 3 which is developed by the School of Electronics and Computer Science at the University of Southampton. More information and software credits.