Abstract
Seed size is directly involved in determining the yield of groundnut. Here, we report the identification of a main QTL for large seed size using a F2 population of ‘TG 89 × ICGV 15007’. A total of 122 F2 individuals were genotyped with a total 345 markers which included 297 of ddRAD-seq SNP, 37 AhMITE, 9 SSR and 2 gene specific markers to construct a genetic linkage map spanning 3891.3 cM. QTL analysis revealed two major QTLs, one on linkage group A05 explaining 18.07% phenotypic variation and the other on A02 explaining 11.95% phenotypic variation. The major additive effect of qHKW_A05 was contributed by mutant allele. It was located between marker AhMITE470 and SNP_05_103140987 having a map interval 8.6 cM, corresponding to 4.53 Mbp (99.18–103.71 Mbp) in the genome. In close proximity to this QTL peak, an ortholog of BIG SEEDS 1 (Arahy.5M7JWE) located at 102.47 Mbp. Arahy.5M7JWE belongs to AhTIFY protein having key role in regulating organ size and growth. The study also reports generation of allele specific PCR based SNP markers and validation of its usage in marker assisted selection.
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The datasets generated during and/or analysed during the current study are available from the corresponding author on reasonable request.
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Acknowledgements
Authors acknowledge Director, Bioscience Group and Head, Nuclear Agriculture and Biotechnology Division for encouragement and support. This work is a part of an ongoing IAEA-coordinated research project on “Radiation-induced Crop Diversity and Genetic Associations for Accelerating Variety Development” (D24015; IAEA Research Agreement No.: 25064).
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This work is funded by in house funding of Bhabha Atomic Research Centre, Department of Atomic Energy, Government of India.
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All authors developed the plant materials and mapping population used in this study. PGB has performed all the laboratory experiments, linkage map construction, QTL analysis and other data analysis and wrote first draft of the manuscript. SM conceptualize the work, help in data analysis and edited the manuscript. AMB assisted in field experimentations, data analysis and edited the final manuscript.
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Bhad, P.G., Mondal, S. & Badigannavar, A.M. A SNP-based linkage mapping revealed a mutant-origin major quantitative trait locus for seed size in A05 chromosome of groundnut (Arachis hypogaea L.). Euphytica 219, 85 (2023). https://doi.org/10.1007/s10681-023-03212-2
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DOI: https://doi.org/10.1007/s10681-023-03212-2