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

Frontiers in Genetics

Genetics

Murali T. Variath¹  Deekshitha Bomireddy¹  Surendra S. Manohar¹  Janila Pasupuleti¹  Sejal Parmar²  Manish K. Pandey²  Sunil S. Gangurde³  Rajeev K. Varshney⁴  Prashant Singam⁵  Baozhu Guo⁶ 

[1] Center of Excellence in Genomics & Systems Biology (CEGSB), International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India;Center of Excellence in Genomics & Systems Biology (CEGSB), International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India;Department of Genetics, Osmania University, Hyderabad, India;Center of Excellence in Genomics & Systems Biology (CEGSB), International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India;Department of Genetics, Osmania University, Hyderabad, India;USDA-ARS, Crops Genetics and Breeding Research Unit, Tifton, GA, United States;Center of Excellence in Genomics & Systems Biology (CEGSB), International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India;State Agricultural Biotechnology Centre, Centre for Crop & Food Innovation, Food Futures Institute, Murdoch University, Murdoch, WA, Australia;Department of Genetics, Osmania University, Hyderabad, India;USDA-ARS, Crops Genetics and Breeding Research Unit, Tifton, GA, United States;

关键词: candidate gene discovery;    peanut;    diagnostic markers;    high-density genotyping;    Arachis;   

DOI  :  10.3389/fgene.2023.1128182

 received in 2022-12-20, accepted in 2023-02-20,  发布年份 2023

来源: Frontiers

【 摘 要 】

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 large-seeded 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.

【 授权许可】

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Copyright © 2023 Gangurde, Pasupuleti, Parmar, Variath, Bomireddy, Manohar, Varshney, Singam, Guo and Pandey.