Understanding genetic relationship and population structure of Indian soybean varieties using microsatellite markers

  • Devendra Kumar ChauhanEmail author
  • Javaid Akhter Bhat
  • Ajay Kumar Thakur
  • Zakir Hussain
  • C. Tara Satyavathi
Research Article


Thirty-nine simple sequence repeat markers have been used to estimate the genetic diversity and population structure of 78 soybean varieties released in India. A total of 140 alleles were detected and an average of 3.59 alleles per locus was recorded. Polymorphism information content values for all the polymorphic markers across 78 soybean varieties ranged from 0.073 (Satt415) to 0.931 (Satt084), with an average value of 0.59. Mean similarity coefficient was recorded as 0.41 for all the genotypes. Marker index values ranged from 0.051 (Satt498) to 5.556 (SOYSHP176) with an average value of 2.54. The resolving power value ranged from 0.102 (satt498) to 2.086 (GMABABE) with an average value of 1.64. Both the phylogenetic and population structure analysis classified soybean varieties into five main clusters and five sub-populations, respectively. Principal coordinate analysis results are in agreement with both of these methods, which grouped the varieties on the basis of their origin, pedigree and releasing centre.


Genetic diversity Soybean Simple sequence repeat markers Polymorphism 



The authors are thankful to the Director of ICAR-Directorate of Soybean Research (DSR), Indore for providing the lab facilities and Indian Council of Agricultural research (ICAR), New Delhi for providing the financial assistance.

Compliance with Ethical Standards

Conflict of interest

The authors declare that they have no conflict of interest.


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Copyright information

© The National Academy of Sciences, India 2017

Authors and Affiliations

  1. 1.Division of Plant Breeding and GeneticsSher-e-Kashmir University of Agricultural Sciences and Technology of JammuJammuIndia
  2. 2.ICAR-Directorate of Rapeseed-Mustard ResearchBharatpurIndia
  3. 3.Division of Vegetable SciencesICAR-Indian Agricultural Research InstitutePusaIndia
  4. 4.Division of GeneticsICAR-Indian Agricultural Research InstitutePusaIndia

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