Cytology and Genetics

, Volume 52, Issue 6, pp 467–477 | Cite as

Assessment of the Utility of TRAP and EST-SSRs Markers for Genetic Diversity Analysis of Sugarcane Genotypes

  • Forough Jomeh Farsangi
  • Avinash S. Thorat
  • Rachayya M. DevarumathEmail author


The TRAP and EST-SSRs technique were utilized for assessing the genetic diversity of 55 sugarcane genotypes (28 wildtypes and 27 cultivars). The total number of polymorphic bands amplified by TRAP primers ranged from 7 to 11 with an average of 9 amplified by SuSy + Arb2, SAI + Arb1, PPDK + Arb3 and PPDK+Arb2. The polymorphism was found to be high (≥50%), ranging from 78 to 100% with an average of 87% for all the markers. Polymorphic Information content (PIC) value ranged from 0.11 (SuSy+Arb2) to 0.44 (SuSy + Arb3) primers with an average of 0.27. Also, the highest resolving power (Rp) was found 6.9 in (SAI + Arb1) between nine primers. A total 15 sets of EST-SSRs primers were used for PCR amplification, 179 amplified fragments is produced which 174 were polymorphic. The total numbers of polymorphic alleles amplified by the various EST-SSRs markers were ranged from 5 (ESSR07 and ESSR10) to 22 (ESSR09), with an average of 13.5 alleles. The polymorphism was found to be high (≥50%), ranging from 83.33 to 100% with an average of 97.2% for all the markers Polymorphic Information content (PIC) value ranged from 0.29 (ESSR15) to 0.83 (ESSR04) primers with an average of 0.56. Also, the highest resolving power (Rp) was found in 8.55 ESSR05 between 15 primers. For the TRAP nine combination primers was used for the work. A total 85 amplified fragments were produced which 74 (85%) were polymorphic. In cooperation of both the markers, dendrogram was constructed using UPGMA method from the present study. Hence, the TRAP and EST-SSRs techniques jointly helped to identify the genetic diversity of sugarcane clones/varieties which could be used in breeding program for sugarcane improvement.


sugarcane genetic diversity molecular assisted selection PIC TRAP EST-SSRs 



The authors are grateful to the Director General, Vasantdada Sugar Institute (VSI), Pune for their constant support, encouragement and providing infrastructure facilities during research work and also thankful to Plant Breeding section, VSI for providing sugarcane leaf samples.


Conflict of interests. The authors declare that they have no conflict of interest.

Statement on the welfare of animals. This article does not contain any studies involving animals performed by any of the authors.


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Copyright information

© Allerton Press, Inc. 2018

Authors and Affiliations

  • Forough Jomeh Farsangi
    • 1
    • 2
  • Avinash S. Thorat
    • 2
  • Rachayya M. Devarumath
    • 1
    • 2
    Email author
  1. 1.Department of Biotechnology, Savitribai Phule UniversityPuneIndia
  2. 2.Molecular Biology and Genetic Engineering Division, Vasantdada Sugar Institute, Manjari (Bk)PuneIndia

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