Genetic Resources and Crop Evolution

, Volume 60, Issue 1, pp 165–174 | Cite as

Molecular genetic diversity analysis in emmer wheat (Triticum dicoccon Schrank) from India

  • Arvindkumar Salunkhe
  • Shubhada Tamhankar
  • Sujata Tetali
  • Maria Zaharieva
  • David Bonnett
  • Richard Trethowan
  • Satish Misra
Research Article


Emmer wheat (Triticum dicoccon Schrank) is still largely cultivated in India, and highly appreciated for the preparation of traditional dishes. Moreover, its nutritional characteristics could justify a development of its cultivation. The perspective of genetic improvement however requires a good knowledge of the genetic diversity existing within the eco-geographic group of Indian emmer wheats. A set of 48 emmer wheat accessions from India including 28 from a local collection and 20 Indian accessions obtained from CIMMYT, Mexico, was assessed for genetic variability using 47 microsatellite (SSR) markers, distributed over all the 14 chromosomes. The number of alleles per locus ranged from 2 to 9, with an average of 3.87 alleles per locus. A total of 201 alleles were detected at 52 loci with average polymorphic information content of 0.35 per locus and a mean resolving power of 1. The pair-wise similarity coefficients calculated from binary data matrix based on presence or absence of alleles varied from 0.15 to 0.98, but was greater than 0.5 for most accessions, indicating a high level of similarity. A cluster analysis based on the similarity matrix identified nine distinct accessions and three clusters. All the recently developed commercial varieties were distinctly different from the clusters. Based on the analysis, it appears that Indian emmer wheats are not very diverse. Consequently, there is a need to increase the diversity within the Indian emmer wheat eco-geographic group, by introducing diversity from other eco-geographic groups, or even from other wheat species.


Emmer wheat Genetic diversity India SSR markers Triticum dicoccon 



This work was funded by the CGIAR Generation Challenge Programme (GCP).


  1. Anderson JA, Churchill GA, Autrique JE, Tanksley SD, Sorrells ME (1993) Optimizing parental selection for genetic linkage maps. Genome 36:181–186PubMedCrossRefGoogle Scholar
  2. Annapurna K (2000) Comparative study on protein and storage quality of supplemented uppuma of dicoccum and durum wheat. MSc thesis, University of Agricultural Sciences, Dharwad, IndiaGoogle Scholar
  3. Barcaccia G, Molinari L, Porfiri O, Veronesi F (2002) Molecular characterization of emmer (Triticum dicoccon Schrank) Italian landraces. Genet Resour Crop Evol 49:415–426CrossRefGoogle Scholar
  4. De Vita P, Riefolo C, Codianni P, Cattivelli L, Fares C (2006) Agronomic and qualitative traits of T. turgidum ssp. dicoccum genotypes cultivated in Italy. Euphytica 150:195–205CrossRefGoogle Scholar
  5. Dice LR (1945) Measures of the amount of ecologic association between species. Ecology 26:297–302CrossRefGoogle Scholar
  6. Dorofeev VF, Udachin RA, Semenova LV, Novikova MV, Grazhdaninova OD, Shitova IP, Merezhko AF, Filatenko AA (1987) World wheat. Agropromizdat, Leningrad, p 560 (in Russian)Google Scholar
  7. Elouafi I, Nachit MM (2004) A genetic linkage map of the Durum x Triticum dicoccoides L. backcross population based on SSRs and AFLP markers, and QTL analysis for milling traits. Theor Appl Genet 108:401–413PubMedCrossRefGoogle Scholar
  8. Fernandez ME, Figueras AM, Benito C (2002) The use of ISSR and RAPD markers for detecting DNA polymorphism, genotype identification and genetic diversity among barley cultivars with known origin. Theor Appl Genet 104:845–851PubMedCrossRefGoogle Scholar
  9. Figliuolo G, Perrino P (2004) Genetic diversity and intra-specific phylogeny of Triticum turgidum L. subsp. dicoccon (Schrank) Thell. revealed by RFLPs and SSRs. Genet Resour Crop Evol 51:519–527CrossRefGoogle Scholar
  10. Gadaleta A, Mangini G, Mule G, Blanco A (2007) Characterization of dinucleotide and trinucleotide EST-derived microsatellites in the wheat genome. Euphytica 153:73–85CrossRefGoogle Scholar
  11. Hanchinal RR, Yenagi NB, Bhuvaneswari G, Math KK (2005) Grain quality and value addition of emmer wheat. University of Agricultural Sciences, DharwadGoogle Scholar
  12. Khanjari SA, Hammer K, Buerkert A, Roder MS (2007) Molecular diversity of Omani wheat revealed by microsatellites: I. Tetraploid landraces. Genet Resour Crop Evol 54:1291–1300CrossRefGoogle Scholar
  13. Luo MC, Young ZL, Kawahara T, You F, Waines JG, Dvorak J (2007) The structure of wild and domesticated emmer wheat populations, gene flow between them, and the site of emmer domestication. Theor Appl Genet 114:947–959PubMedCrossRefGoogle Scholar
  14. Mangini G, Taranto F, Giove SL, Gadaleta A, Blanco A (2010) Identification of durum wheat cultivars by a minimum number of microsatellite markers. Cereal Res Commun 38:155–162CrossRefGoogle Scholar
  15. Mani BR (2004) Further evidence on Kashmir Neolithic in the light of recent excavations at Kanishkapura. JISHA 1:137–143Google Scholar
  16. Mithal SK, Kopper MN (1990) Evaluation and conservation of wheat genetic resources in India. In: Srivastava JP, Damania AB (eds) Wheat genetic resources: meeting diverse needs. Wiley, Chichester, pp 201–209Google Scholar
  17. Nagarajan S (2004) Opportunities and strategies to make Indian wheat globally competitive. In: Rao VS, Singh G, Misra SC (eds) Wheat for warmer areas. Anamaya Publishers, New Delhi, pp 11–23Google Scholar
  18. Nayeem KA, Sivasamy M, Nagarajan S (2006) Induced Pusa dwarfing genes in T. turgidum var. dicoccum and their inheritance. Plant Mutation Reports 1:17–20Google Scholar
  19. Nesbitt M, Samuel D (1996) From staple crop to extinction? The archaeology and history of the hulled wheat. In: Padulosi S, Hammer K, Heller J (eds) Hulled wheats, promoting the conservation and use of underutilized and neglected crops. IPGRI, Rome, pp 40–99Google Scholar
  20. Oak MD, Tamhankar SA, Rao VS, Bhosale SB (2002) Polymorphism of gluten proteins in Indian Dicoccum wheat (Triticum turgidum ssp. dicoccum) revealed by SDS and Acid-PAGE. J Genet Breed 56:245–250Google Scholar
  21. Oak MD, Tamhankar SA, Rao VS, Misra SC (2011) Milling and pasta making potential of cultivated dicoccum wheat (Triticum turgidum ssp. dicoccum). Cereal Res Commun 49:426–435CrossRefGoogle Scholar
  22. Pagnotta MA, Mondini L, Atallah MF (2005) Morphological and molecular characterization of Italian emmer wheat accessions. Euphytica 146:29–37CrossRefGoogle Scholar
  23. Pagnotta MA, Mondini L, Codianni P, Fares C (2009) Agronomical quality, and molecular characterization of twenty Italian emmer wheat (Triticum dicoccon) accessions. Genet Resour Crop Evol 56:299–310CrossRefGoogle Scholar
  24. Perrino P, Infantino S, Basso P, Di Marzio A, Volpe N, Laghetti G (1993) Valutazione e selezione di farro in ambienti marginali dell’Appennino molisano (II nota). Informatore Agrario 43:41–44 (in Italian)Google Scholar
  25. Prevost A, Wilkinson MJ (1999) A new system of comparing PCR primers applied to ISSR fingerprinting of potato cultivars. Theor Appl Genet 98:107–112CrossRefGoogle Scholar
  26. Pujar S, Tamhankar SA, Rao VS, Gupta VS, Naik S, Ranjekar PK (1999) Arbitrarily primed-PCR based diversity assessment reflects hierarchical grouping of Indian tetraploid wheat genotypes. Theor Appl Genet 99:868–876CrossRefGoogle Scholar
  27. Pujar S, Tamhankar SA, Gupta VS, Rao VS, Ranjekar PK (2002) Diversity analysis of Indian tetraploid wheat using inter-simple sequence repeat markers reveals their superiority over random amplified polymorphic DNA markers. Biochem Genet 40:63–69PubMedCrossRefGoogle Scholar
  28. Rogers SO, Bendich AJ (1988) Extraction of DNA from milligram amounts of fresh, herbarium and mummified plant tissues. Plant Mol Biol 5:69–76CrossRefGoogle Scholar
  29. Rohlf FJ (2000) NTSYS-pc: 2.1 numerical taxonomy and multivariate analysis system. Exeter Software, New YorkGoogle Scholar
  30. Shewry PR (2009) Wheat. J Exp Bot 60:1537–1553PubMedCrossRefGoogle Scholar
  31. Tatikonda L, Wani SP, Kannan S, Beerelli N, Sreedevi TK, Hoisington DA, Devi P, Varshney RK (2009) AFLP-based molecular characterization of an elite germplasm collection of Jatropha curcas L., a biofuel plant. Plant Sci 176:505–513CrossRefGoogle Scholar
  32. Teklu Y, Hammer K, Huang XQ, Roder MS (2006) Analysis of microsatellite diversity in Ethiopian tetraploid wheat landraces. Genet Resour Crop Evol 53:1115–1126CrossRefGoogle Scholar
  33. Teklu Y, Hammer K, Roder MS (2007) Simple sequence repeats marker polymorphism in emmer wheat (Triticum dicoccon Schrank): Analysis of genetic diversity and differentiation. Genet Resour Crop Evol 54:543–554CrossRefGoogle Scholar
  34. Varshney RK, Chabane K, Hendre PS, Aggarwal RK, Graner A (2007) Comparative assessment of EST-SSR, EST-SNP and AFLP markers for evaluation of genetic diversity and conservation of genetic resources using wild, cultivated and elite barleys. Crop Sci 173:638–649Google Scholar
  35. Vavilov NI (1964) Mirovye resursy sortov khlebnykh zlakov, zernovykh bobovykh, l’na i ikh ispolzovanie v selektzii (world resources of cereals, leguminous seed crops and flax, and their utilization in breeding). Nauka press, Moskow and Leningrad (in Russian)Google Scholar
  36. Weir BS (1996) Genetic data analysis II. Sinauer Publishers, Sunderland, MassachusettsGoogle Scholar
  37. Yap I, Nelson RJ (1996) Winboot: a program for performing bootstrap analysis of binary data to determine the confidence limits of UPGMA-based dendrograms. IRRI Discussion paper series no. 14, International Rice Research Institute, Manila, PhilippinesGoogle Scholar
  38. Zaharieva M, Ayana NG, Al Hakimi A, Misra SC, Monneveux P (2010) Cultivated emmer wheat (Triticum dicoccon Schrank), an old crop with promising future: a review. Genet Resour Crop Evol 57:937–962CrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media Dordrecht 2012

Authors and Affiliations

  • Arvindkumar Salunkhe
    • 1
  • Shubhada Tamhankar
    • 1
  • Sujata Tetali
    • 1
  • Maria Zaharieva
    • 2
  • David Bonnett
    • 2
  • Richard Trethowan
    • 3
  • Satish Misra
    • 1
  1. 1.Genetics GroupAgharkar Research InstitutePuneIndia
  2. 2.Centro Internacional de Maiz y Trigo (CIMMYT)MexicoMexico
  3. 3.Plant Breeding InstituteUniversity of SydneyCobbittyAustralia

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