Investigation of Genetic Diversity in Chickpea (Cicer arietinum L.) Lines Using ISSR Markers

Document Type : Research Paper

Authors

1 Former Graduate Student, Faculty of Agriculture, University of Mohaghegh Ardabili, Aradabil

2 Assisstant Professor, University College of Agriculture and Natural Resources, University of Tehran, Karaj

3 Associate Professor, Faculty of Agriculture, University of Mohaghegh Ardabili, Aradabil

4 Assisstant Professor, Research Center of Agriculture, Kordestan

5 Associate Professor, Faculty of Agriculture, University of Maragheh, Maragheh

Abstract

In this research, ISSR technique was applied to assess genetic diversity among 56 chickpea lines. Out of 34 primers, nine primers produced appropriate banding patterns and produced 35 polymorphic bands in chickpea lines. Mean percentage of polymorphism of the primers was 66.01 with range of 25 to 100 percent. Mean of Nei's genetic diversity and Shannon information index over all primers were 0.325 and 0.492, respectively. Based on Jaccard's similarity coefficient, lines of FLIP01-40C and FLIP02-84 had the lowest similarity (0.166) and lines of FLIP03-6C and FLIP03-8C had the highest similarity coefficient Cluster analysis using UPGMA method and Jaccard's similarity matrix was done. The dendrogram was cut at 0.51 scaled interval and categorized the lines in six distinct groups. Distinct grouping and large genetic distances among the chickpea lines stated a good molecular variation. Showing the lines by a tri-plot based on the three first coordinates from PCoA, verified the clustering and efficiently separated them

Keywords

References

  1. Aggarwal, H., Kumar, V., Kumar, A., Singh, J. & Chhokar, V. (2011). Accessing genetic diversity in chickpea (Cicer arietinum L.) genotypes using ISSR markers. World Congress on Biotechnology, 21-23 March, page 368.
  2. Belaj, A., Satovic, Z., Cipriani, G., Baldoni, L., Testolin, R., Rallo, L. & Trujillo, I. (2003). Comparative study of the discriminating capacity of RAPD, AFLP and SSR markers and of their effectiveness in establishing genetic relationships in olive. Theoretical and Applied Genetics, 107, 736-744.
  3. Clarke, H.J. & Siddique, K.H.M. (2004). Response of chickpea genotypes to low temperature stress during reproductive development. Field Crops Research, 90, 323-334.
  4. Collard, B.C.Y., Jahufer, M.Z.Z., Brouwer, J. & Bandpang, E.C.K. (2005). An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: The basic concept. Euphytica, 142, 169-196.
  5. Datta, J., Lal, N., Kaashyap, M. & Gupta, P.P. (2010). Efficiency of Three PCR based Marker Systems for Detecting DNA Polymorphism in Cicer arietinum L and Cajanus cajan L. Millspaugh. Genetic Engineering and Biotechnology Journal, 5, 1-15.
  6. Doyle, J.J. & Doyle, J.L. (1990). Isolation of plant DNA from fresh tissue. Focus, 12, 11-15.
  7. Dwevdi, K.K. & Gaibriyal, M. (2009). Assessment of genetic diversity of cultivated chickpea (Cicer arietinum L.). Asian Journal of Agriculture science, 1(1), 7-8.
  8. Fazeli, F. & Cheghamirza, K. (2011). Investigation of genetic diversity in iranian landrace chickpea bulks using ISSR marker. Modern Genetic, 6 (2), 97-104. (In Farsi)
  9. Gaure, P. M., Tripathi, S., Gowda, C. L. L., Ranga, R. G. V., Sharma, H. C., Pande, S. & Sharma, M. (2010). Chickpea seed production manual, Andhra Pradesh, India: International Crops Research Institute for the Semi-Arid Tropics.
  10. Jomová, K., Benková, M. & Kraic, J. (2009). Enrichment of Chickpea Genetic Resources Collection Monitored by Microsatellites. Czech Journal of Genetics and Plant Breeding, 45 (1), 11-17.
  11. Lewontin, R.C. (1972). The apportionment of human diversity. Evolution of Biology, 6, 381-398.
  12. Mahmood, Z., Athar, M., Aurangzeb, Khan, M.A., Ali, M., Saima, S. & Dasti, A.A. (2011). Analysis of genetic diversity in chickpea (Cicer arietinum L.) cultivars using random amplified polymorphic DNA (RAPD) markers. African Journal of Biotechnology, 10(2), 140-145.
  13. Mateescu, R.G., Zhang, Z., Tsai, K., Phavaphutanon B., Lust, G., Quaas, R., Murphy, K., Acland, G.M. & Todhunter, R.J. (2005). Analysis of allele fidelity polymorphic information content, and density of microsatellites in a genomewide screening for hip dysplasia in a crossbreed pedigree. Journal of Heredity, 96(7), 847-853
  14. Matus, I.A. & Hayes, P.M. (2002). Genetic diversity in three groups of barley germplasm assessed by simple sequence repeats. Genome, 45, 1095-1106.
  15. Mohammadi, S.A. & Prasanna, B.M. (2003). Analysis of genetic diversity in crop plant- salient statistical tools and consideration. Crop Science, 43, 1235-1248.
  16. Muminovic, J., Melchinger, A.E. & Lubberstedt, T. (2004). Genetic diversity in cornsalad (Valerianella locusta) and related species as determined by AFLP markers. Plant Breeding, 123, 460-466.
  17. Naderi, H., Shokrpour, M., Asghari, A., Kanouni, H. & Esfandiari, E. 2013. Evaluation of cold tolerance in winter sowing of chickpea (Cicer arietinum L.) using morphological and phenological traits in Kurdistan region. Iranian Journal of Pulses Research,  4(1), 69-80. (In Farsi)
  18. Nei, M. (1973). Analysis of gene diversity in subdivided populations. Proceeding National Academic Science, 70, 3321-3323.
  19. Peakall, R. & Smouse, P.E. (2012). GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update. Bioinformatics, 28, 2537-2539.
  20. Powell, W., Morgante, M., Andre, C., Hanafey, M., Vogel, J., Tingey. S. & Refalski, A. (1996). The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis. Molecular Breeding, 2, 225-238.
  21. Rao, L.S., Ran, U.P., Deshmukh, P.S., Kumar, P.A. & Panguluri, S.K. (2007). RAPD and ISSR fingerprinting in cultivated chickpea (Cicer arietinum L.) and its wild progenitor Cicer reticulatum Ladizinsky. Genetic Resource Crop Evolution, 54, 1235-1244.
  22. Reddy, M.P., Sarla, N., Neeraja, C.N. & Siddiq, E.A. (2000). Assessing genetic variation among Asian A-genome Oryza species using inter simple sequence repeat (ISSR) polymorphism. Fourth International Rice Genetics Symposium, 22–27 October 2000, IRRI, Philippines. Abstracts p. 212.
  23. Reif, J.C., Xia, X.C., Melchinger, A.E., Warburton, M.L., Hoisington, D.A., Beck, D., Bohn, M. & Frisch, M. (2004). Genetic diversity determined within and among CIMMYT maize population of tropical, subtropical, and temperate germplasm by SSR markers. Crop Science, 44, 326- 334.
  24. Renganayaki, K., Read, J.C. & Fritz, A.K. (2001). Genetic diversity among tegxas bluegrass (Poa arachnifera Torr.) revealed by AFLP and RAPD markers. Theoritical and Applied Genetics, 2, 1037-1045
  25. Rohlf, F. J. (1987). NTSYS-pc: Micro-computer programs for numerical taxonomy and multivariate analysis. American Statistician, 41, 330.
  26. Roldain-Ruiz, I., Calsyn, E., Gilliand, T.J., Coll., R., van Eijk, M.J.T. & De Loose, M. (2000). Estimating genetic conformity between related ryegrass (Lolium sp.) varieties, 2. AFLP characterization. Molecular Breeding, 6,  593-602.
  27. Samdaliri, M., Saiedsharifi, R. & Esmaielpor, B. (2010). Pulse Crops. Islamic Azad University the unit of Challos Publishers. (In Farsi)
  28. Setty, N. K., Shokeen, B., Edwards, K. J. & Bhatia, S. (2006). Development of microsatellite markers and analysis of intraspecific genetic variability in chickpea (Cicer arietinum L.). Theoretical and Applied Genetics, 112, 1416-1428.
  29. Singh, R., Sharma, P., Varshney, R.K., Sharma, S. & Singh, N.K. (2008). Chickpea improvement: role of wild species and genetic markers. Biotechnology and Genetic Engineering Reviews, 25, 267-314.
  30. Tahir, N.A.R. & Karim, H.F.H. (2011). Determination of genetic relationship among some varieties of chickpea (Cicer arietinum L.) in Sulaimani by RAPD and ISSR markers. Jordan Journal of Biological Sciences, 4, 77-86.
  31. Talebi, R., Babaeian, N.A., Mardi, M., Fayaz, F., Furman, B.J. & Bagheri, N.A. (2009). Phylogenetic diversity and relationship among annual Cicer species using random amplified polymorphic DNA markers. General and Applied Plant Physiology, 35, 3-12.
  32. Talebi, R., Naji, A.M. & Fayaz, F. (2008). Geographical patterns of genetic diversity in cultivated chickpea (Cicer arietinum L.) characterized by amplified fragment length polymorphism. Plant Soil Environment, 54(10), 447-452.
  33. Taylor, P.W.J., Redden, R.J. & Ford, R. (2004). Genetic diversity estimates in Cicer using AFLP analysis. Plant Breeding, 123, 173-179.
  34. Terzopoulos, P. J. & Bebeli, P. J. (2008). Genetic diversity analysis of Mediterranean faba bean (Vicia faba L.) with ISSR markers. Field Crops Research, 108, 39-44.
  35. Upadhyaya, H. D., Dwivedi, S. L., Gowda, C. L. L. & Singh, S. (2007). Identification of diverse germplasm lines for agronomic traits in chickpea (Cicer arietinum L.) core collection for use in crop improvement. Field Crop Research, 100, 320-326.
  36. Varshney, R.K., Horres, R., Molina, C., Nayak, S., Jungmann, R., Swamy, P., Winter, P., Jayashree, B., Kahl, G. & Hoisington, D.A. (2007). Extending the repertoire of microsatellite markers for genetic linkage mapping and germplasm screening in chickpea. Journal of SAT Agricultural Resarch, 5(1), 1-3.
  37. Virk, P.S., Zhu, J., Newbury, H.J., Bryan, G.J., Jackson, M.T. & Ford-Lioyd, B.V. (2000). Effectiveness of different classes of molecular markers for classifying and revealing variations in rice (Oryza sativa) germplasm. Euphytica, 112, 275-284.
  38. Vos, P., Hogers, R., Bleeker, M., Rerjans, M., Van der Lee, T., Hornes, M., Frijters, A., Pot, J., Peleman, J., Kuiper, M. & Zabeau, M. (1995). AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research, 23, 4407-4414.
  39. Vural, H.C. & Akcin, A. (2010). Molecular analysis of chickpea species through molecular markers. Biotechnology and Biotechnology Equipment, 24(2), 1828-1832.
  40. Yeh, F.C. & Yang, R. (1999). Popgene Version 1.31. Microsoft Window-based Freeware for Population Genetic Analysis Quick User Guide. University of Alberta And Tim Boyle, Centre for International Forestry Research.
  41. Zheleva, D., Todorovska, E., Chirstov, N., Ivanov, P., Ivanov, I. & Todorov,  I. (2007). Assessing the genetic variation in Bulgarian bred wheat varieties by biochemical and moleculars. Biotechnology and Biotechnology Equipment, 12, 311-321.

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History

  • Receive Date: 21 October 2013
  • Revise Date: 19 August 2014
  • Accept Date: 17 September 2014
  • Publish Date: 22 December 2014

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