Efficiency of RAPD and SSR markers in assessing genetic diversity in summer onion (Allium cepa L.) genotypes


  • Priyadarshani P. MOHAPATRA Central Agricultural University, College of Community Science, Tura, Meghalaya 794005 (IN)
  • Mahmoud F. SELEIMAN King Saud University, College of Food and Agriculture Sciences, Department of Plant Production, P.O. Box 2460, Riyadh 11451 (SA)
  • Rupsanatan MANDAL Uttar Banga Krishi Viswavidyalaya, Department of Genetics and Plant Breeding, Pundibari 736165, West Bengal (IN)
  • Kartik PRAMANIK Odisha University of Agriculture and Technology, Department of Vegetable Science, Bhubaneswar 751003, Odisha (IN)
  • Tapan Kumar MAITY Central Agricultural University, College of Agriculture, Lembucherra 799210, West, Tripura (IN)
  • Jayanta TARAFDAR Bidhan Chandra Krishi Viswavidyalaya, Department of Plant Pathology, Mohanpur 741252, West Bengal (IN)
  • Subhashree P. DAS Department of Agriculture and Farmers Empowerment, Dasarathpur, Jajpur 755006 (IN)
  • Chandini A. RAJ Dr. Y.S.R. Horticultural University, College of Horticulture, Venkataramannagudem, West Godavari 534006, Andhra Pradesh (IN)
  • Chinmaya JENA Odisha University of Agriculture and Technology, Department of Fruit Science and Horticultural Technology, Bhubaneswar 751003, Odisha (IN)
  • Mekhled M. ALENAZI King Saud University, College of Food and Agriculture Sciences, Department of Plant Production, P.O. Box 2460, Riyadh 11451 (SA)
  • Sumit SOW Dr. Rajendra Prasad Central Agricultural University, Department of Agronomy, Pusa, Samastipur 848125, Bihar (IN)
  • Shivani RANJAN Dr. Rajendra Prasad Central Agricultural University, Department of Agronomy, Pusa, Samastipur 848125, Bihar (IN)
  • Awais AHMAD King Saud University, College of Food and Agriculture Sciences, Department of Plant Production, P.O. Box 2460, Riyadh 11451 (SA)
  • Harun GITARI Kenyatta University, School of Agriculture and Environmental Sciences, Department of Agricultural Science and Technology, Nairobi P.O. Box 43844-00100 (KE)
  • Naeem KHAN University of Florida, Institute of Food and Agricultural Sciences, Agronomy Department, Gainesville FL, 32611 (US)




amplicons, genetic diversity, RAPD, Spearmen rank correlation, SSR, summer onion


The genetic diversity assessment of agricultural crops is crucial for breeding programs aimed at enhancing crop yield, resistance to diseases, and adaptation to changing environmental conditions. In the present investigation, a comparative genetic relationship in sixteen onion genotypes was assessed utilizing dominant (RAPD) and co-dominant (SSR) marker systems. Ten RAPD and nine SSR markers showed genetic diversity remarkably and produced 503 and 107 amplicons respectively. Spearman rank correlation was used to compare the different efficiency parameters in two marker systems with respect to sixteen onion genotypes. The genetic relationship based on similarity matrix values between a pair of cultivars was higher for SSR markers than for the RAPD marker system. OPC-04 (RAPD primer) and ACM-004 (SSR primer) witnessed the highest poly-morphic bands along with other polymorphic markers that proved to be useful in grouping onion genotypes. Finally, dendrograms were constructed and compared following the mantel test to find out the genetic diversity among the germplasms. This study will be effective for a selection of efficient primers and suitable marker systems to distinguish the onion genotypes in the future.


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How to Cite

MOHAPATRA, P. P., SELEIMAN, M. F., MANDAL, R., PRAMANIK, K., MAITY, T. K., TARAFDAR, J., DAS, S. P., RAJ, C. A., JENA, C., ALENAZI, M. M., SOW, S., RANJAN, S., AHMAD, A., GITARI, H., & KHAN, N. (2023). Efficiency of RAPD and SSR markers in assessing genetic diversity in summer onion (Allium cepa L.) genotypes. Notulae Botanicae Horti Agrobotanici Cluj-Napoca, 51(3), 13369. https://doi.org/10.15835/nbha51313369



Research Articles
DOI: 10.15835/nbha51313369

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