VEGETOS: An International Journal of Plant Research & Biotechnology
(Society For Plant Research)

Research Articles

A SOCIETY FOR PLANT RESEARCH PUBLICATION


Volume: 32, Issue: 4, December 2019


Print ISSN : 0970-4078.
Online ISSN : 2229-4473.
Website:www.vegetosindia.org
Pub Email: contact@vegetosindia.org
Page Visits: 30

Doi: 10.1007/s42535-019-00058-9
Doi Link: https://doi.org/10.1007/s42535-019-00058-9
First Page: 547
Last Page: 555
Published: 05 September, 2019

Identification of elite Indian sugarcane varieties through DNA fingerprinting using genic microsatellite markers


Abstract:

Sugarcane is one of the important crops for sustainable economy and global energy security with high phenotypic polymorphism. Precise identification and characterization of plant genetic resources is one of the most essential aspects for breeding programs. Sugarcane popular hybrid varieties and genetic stocks routinely being used as a parent in hybridization program were included in the study. Molecular cataloguing was accomplished using a set of 70 primer pairs, of which ~ 39% were found to be robust polymorphic and unique in all the genotypes used. The number of DNA bands amplified by expressed sequenced tags derived simple sequence repeat (EST-SSR) primers ranged from 1 to 10 with an average of 5 bands per primer pair and their fragment size ranged between 50 and 1690 bp. Polymorphism information content (PIC) values were ranged from 0.17 to 1.00 with an average of 0.58. Unique DNA fingerprints of thirteen elite sugarcane varieties were generated with 27 polymorphic sugarcane specific EST-SSR markers. Analyses of DNA profiles produced by microsatellite markers showed the unique bands specific for individual variety. Generated DNA profiles would facilitate accurate variety identification in the perspective of protection of the breeder’s intellectual property rights, farmer’s rights and their purity testing. In addition, developed reliable DNA fingerprinting system will be able to track a potent parent genotype for breeding programs. The identified genotype specific and unique EST-SSR markers will be valuable for conservation and management of sugarcane genetic resources.

Vegetos

Keywords:


DNA fingerprinting, EST-SSR markers, Morpho-agronomical descriptors, Variety identification, Germplasm conservation and management, Purity testing


References:


  1. Anonymous (2006) Guidelines for the conduct of test for distinctiveness, uniformity and stability on sugarcane (Saccharum L.). Protection of Plant Varieties and Farmers’ Rights Authority (PPV & FRA), Government of India, New Delhi

  2. Anonymous (2012) Louisiana sugarcane variety identification guide. Louisiana State University Agricultural Center, Baton Rouge, pp 1–22

  3. Artschwager E, Brandes EW (1958) Sugarcane (Saccharum officinarum) origin, classification and descriptions of representative clones. Agriculture hand book no. 122. USDA, US Government Priority Office, Washington

  4. Cordeiro GM, Casu RE, McIntyre CL (2001) Microsatellite markers from sugarcane (Saccharum spp.) ESTs cross transferable to erianthus and sorghum. Plant Sci 160:1115–1123

  5. De Souza AC, Carvalho FP, Batista CF, Schwan RF, Dias DR (2013) Sugarcane bagasse hydrolysis using yeast cellulolytic enzymes. J Microbiol Biotechnol 23:1403–1412

  6. Govindaraj P, Ramesh R, Appunu C, Swapna S, Priji PJ (2012) DNA fingerprinting of subtropical sugarcane (Saccharum spp) genotypes using sequence tagged microsatellites sites (STMS) markers. Plant Arch 12:347–352

  7. Hemaprabha G, Krishna JA, Vincy P, Priji P, Swapna S, Govindaraj P (2010) DNA fingerprinting for identification and protection of elite sugarcane (Saccharum spp.) varieties. Electron J Plant Breed 4:420–425

  8. Hoang NV, Furtado A, Botha FC, Simmons BA, Henry RJ (2015) Potential for genetic improvement of sugarcane as a source of biomass for biofuels. Front Bioeng Biotechnol 3:1–15

  9. Hoisington D (1992) Laboratory protocol. CIMMYT Applied Molecular Genetics Laboratory, CIMMYT, Mexico

  10. Jannoo N, Forget L, Dookun A (2001) Contribution of microsatellites to sugarcane breeding program in Mauritius. Proc Int Soc Sugarcane Technol 24:637–639

  11. Korir NK, Han J, Shangguan L, Wang C, Kayesh E, Zhang Y, Fang J (2012) Plant variety and cultivar identification: advances and prospects. Crit Rev Biotechnol 33:111–125

  12. LaBorde C, Legendre B, Bischoff K, Gravois K, Robert T (2008) Sugarcane variety identification Guide 2008. Louisiana State University Ag Center Publication, Baton Rouge

  13. Piperidis G (2003) Progress towards evaluation of SSR as a tool for sugarcane variety identification. In: ISSCT IV. Molecular biology workshop, Montpellier, France

  14. Ruiz M, Aguiriano E, Giraldo P, Carrillo JM (2011) Genetic redundancy among durum wheat accessions as assessed by SSRs and endosperm proteins. Span J Agric Res 9:156–165

  15. Silva DC, Dos Santos JM, de Souza Barbosa GV, Almeida C (2012) DNA fingerprinting based on simple sequence repeat (SSR) markers in sugarcane clones from the breeding program RIDESA. Afr J Biotechnol 11:4722–4728

  16. Singh RK, Singh RB, Singh SP, Sharma ML (2011) Identification of sugarcane microsatellites associated to sugar content in sugarcane and transferability to other cereal genomes. Euphytica 182:335–354

  17. Singh RK, Singh RB, Singh SP, Mishra N, Rastogi J, Sharma ML, Kumar A (2013) Genetic diversity among Saccharum spontaneum clones and commercial hybrids through SSR markers. Sugar Tech 15:109–115

  18. Singh RB, Srivastava S, Rastogi J, Gupta GN, Tiwari NN, Singh B, Singh RK (2014a) Molecular markers: exploited in crop improvement practices. Res Environ Life Sci 7:223–232

  19. Singh RB, Srivastva S, Verma AK, Singh B, Singh RK (2014b) Importance and progress of microsatellite markers in sugarcane (Saccharum spp. hybrids). J Sugarcane Technol 29:1–12

  20. Singh RB, Singh B, Singh RK (2015) Development of microsatellite (SSRs) markers and evaluation of genetic variability within sugarcane commercial varieties (Saccharum spp. hybrids). Int J Adv Res 3:700–708

  21. Singh RB, Singh B, Singh RK (2017) Study of genetic diversity of sugarcane (Saccharum) species and commercial varieties through TRAP molecular markers. Indian J Plant Physiol 22:332–338

  22. Singh RB, Singh B, Singh RK (2018) Evaluation of Genetic diversity in Saccharum species clones and commercial varieties employing molecular (SSRs) and physiological markers. Indian J Plant Genet Resour 31:17–26

  23. Singh RB, Singh B, Singh RK (2019a) Development of potential dbEST-derived microsatellite markers for genetic evaluation of sugarcane and related cereal grasses. Ind Crops Prod 128:38–47

  24. Singh RB, Singh B, Singh RK (2019b) Cross-taxon transferability of sugarcane expressed sequence tags derived microsatellite (EST-SSR) markers across the related cereal grasses. J Plant Biochem Biotechnol 28(2):176–188

  25. Swapna M, Sivaraju K, Sharma RK, Singh NK, Mohapatra T (2011) Single-strand conformational polymorphism of EST-SSRs: a potential tool for diversity analysis and varietal identification in sugarcane. Plant Mol Biol Rep 29:505–513

  26. Varshney RK, Thiel T, Stein N, Langridge P, Graner A (2002) In silico analysis on frequency and distribution of microsatellites in ESTs of some cereal species. Cell Mol Biol Lett 7:537–546

  27. Zhu YF, Qin GC, Hu J, Wang Y, Wang JC, Zhu SJ (2012) Fingerprinting and variety identification of rice (Oryza sativa L.) based on simple sequence repeat markers. Plant Omics 5:421


  28.  


Acknowledgements :



Authors are thankful to Director, Uttar Pradesh Council of Sugarcane Research (UPCSR), Shahjahanpur, (UP) India for providing necessary facilities to perform this study.


Author Information:



Ram Baran Singh
I.K. Gujral Punjab Technical University (IKG PTU), Kapurthala, India
rbsingh0611@gmail.com




Pdf Download
Share: