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

Abstract

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.

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Acknowledgements

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.

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Correspondence to Devendra Kumar Chauhan.

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Chauhan, D.K., Bhat, J.A., Thakur, A.K. et al. Understanding genetic relationship and population structure of Indian soybean varieties using microsatellite markers. Proc. Natl. Acad. Sci., India, Sect. B Biol. Sci. 88, 1091–1100 (2018). https://doi.org/10.1007/s40011-017-0847-y

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Keywords

  • Genetic diversity
  • Soybean
  • Simple sequence repeat markers
  • Polymorphism