Molecular analysis of Fusarium culmorum isolates caused by crown and root rot of wheat by the SSR marker

Document Type : Research Paper

Authors

1 Associate Professor, Department of Plant Protection, Ilam University, Iran

2 Former M. Sc. Student, Department of Plant Protection, Ilam University, Iran

Abstract

Crown and root rot caused by Fusarium culmorum is one of the most important wheat diseases in Ilam. In order to determine genetic diversity, 66 samples were collected from wheat farms in different regions of Ilam province. The molecular test was carried out with a set of five pairs of SSR primers after purification and identification of the isolates. The SSR primers amplified a total of 25 alleles. The average allele number was 5.2 per each primer. The polymorphism index content value was the highest in primers F3 with 0.409 and the lowest in primers F11 with 0.179. Cluster analysis using the Neighbor-Joining method and Jaccard's coefficient in 50% similarity level divided the isolates into 18 groups. Results of AMOVA showed 78% of the genetic diversity related to isolates and 22% related to different geographical regions. Therefore, there is a high genetic similarity between isolates from different geographic regions. High genetic similarity can be attributed to the emigration of gene or genotype as a result of various factors.

Keywords


  1. Abdei-Satar, M. A., Khalil, M. S., Mohmed, I. N., Abdel-Salam, K. A. & Andverret, J. A. (2003). Molecular phylogeny of Fusarium species by AFLP fingerprint. African Journal of Biotechnology, 2, 51-55.
  2. Akinsmani, O. A., Backhouse, D., Simpfendorfer, F. & Chakraborty, S. (2006). Pathogenic variation Fusarium isolates associated with head blight of wheat is Australian. Journal of Phytopathology, 154, 513-521.
  3. Bogale, M. (2006). Molecular characterization of Fusarium isolates from Ethiopia, Ph.D. thesis, Pretoria University, Pretoria, South Africa.
  4. Carbone, I. & Kohn, L. M. (2001). A microbial population species interface nested cladistics and coalescent inference with moltilocus data. Molecular Ecology, 10, 947- 967.
  5. Corzza, L., Balmas, V., Santori, A., Vitale, S., Luongo, M. & Maccaroni, M. (2002). Head blight and foot rot of wheat in Italy. Petria, 12, 25-36.
  6. Datta, S., Choudhary, R. G., Shamim, M. D., Singh, R. K. & Dhar, V. (2011). Molecular diversity inIndian isolates of Fusarium oxysporum f. sp. lentis inciting wilt disease in lentil (Lens culinaris Medik). (2011). African Journal of Biotechnology, 10, 7314.
  7. Desjardins, A. E. (2006). Fusarium mycotoxines: chemistry, Genetics and biology. APS press, st, Paul, Minnesota, USA.
  8. De Nijs, M., Larsen, J. S., Gams, W., Rombouts, F. M. & Wernarsand, U. (1997). Variation in random amplified polymorphic DNA patterns and secondary metabolite profiles within Fusarium species from cereals from various parts of The Netherlands. Food Microbiology, 14, 449-457.
  9. Draper, M. A. (2000). Common root and crown rots of wheat in South Dakota. Plant science Department South Dakota state University. (SDSU). 3PP.
  10. FakhFakh, M. M., Yahyaoui, A., Rezgui, S., Elias, E. M. & Daaloul, A. (2011). Identification and Pathogenicity assessment of Fusarium spp. Sampled from durum wheat fields in Tunisia. African Journal of Biotechnology, 10(34), 6529-6539.
  11. Giraud, T., Fournier, E., Vautrin, D., Solignac, M., Vercken, E., Bakan, B. & Brygoo, Y. (2002). Isolation of eight polymorphic microsatellite loci using enrichment protocol in the phytopathogenic fungus Fusarium culmorumMolecular Ecology Notes, 2, 121-123.
  12. Gurel, F. G., Albayrak, O., Diken, E. & Tunlai, B. (2010). Use of REP-PCR for genetic diversity analyses in Fusarium culmorumJournal of phytopathology, 92, 781-789.
  13. Hambelton, S., Walker, C. & Kohn, L. M. (2002). Clonal lineages of Sclerotinia sclerotiorum previously known from other predominate in 1999-2000 samples from Ontario and Quebec soybean. Canadian Journal of plant pathology, 24, 309-315.
  14. Khodabandeh, N. (2005). The cultivations of crops. Sepehre Press. (in Farsi)
  15. Leslie, J. F. & Summerell, B. A. (2006). The Fusarium laboratory manual (P. 388). Iowa, Blackwell Publishing.
  16. McDonald, B. A. (1997). The population genetics of fungi: tools and techniques. Phytopathology, 87, 448.
  17. Miedaner, T., Schllind, A. G. & Geiger, H. H. (2001). Molecular genetic diversity and variation for aggressiveness in population of Fusarium graminearum and F. culmorum sampled from wheat filed in different countries. Journal of Phytopathology, 149, 641-642.
  18. Miedaner, T., Cumagun, C. J. R. & Chakraborty, S. (2008). Population genetics of three important head blight pathogens Fusarium graminearumF. pseudograminearum and F. culmorumJournal of Phytopathology, 156, 129-139.
  19. Miedaner, T., Caixeta, F. & Talas, F. (2013). Head-blighting populations of Fusarium culmorum from Germany, Russia, and Syria analyzed by Microsatellite markers show recombining structure. European Journal of Plant Pathology, 137(4), 743-752.
  20. Mishra, P. K., Fox, R. T. V. & Cutham, A. (2003). Inter-simple sequence repeat and aggressiveness analyses revealed high genetic diversity, recombination and long range dispersal in Fusarium culmorumAnnals of Applied Biology, 143, 291-301.
  21. Mohammadi, S. A. & Prassana, B. M. (2003). Analysis of genetic diversity in crop plant, salient statistical tools and considerations. Crop Science, 43, 1235-1248.
  22. Nei, M. (1972). Genetic distance between populations. American Naturalist, 106, 283-292.
  23. Nei, M. & Li, W. H. (1979). Mathematical model for studying genetic variation in terms of restriction endonucleases. Proceeding of the National Academy of sciences, USA, 76, 5267-5273.
  24. Nicolson, P., Jenkinson, P., Rezanoor, H. N. & Parry, D.W. (1993). Restriction fragment length analysis of variation in Fusarium species causing ear blight of cereals. Plant Pathology, 42, 905-914.
  25. Nourollahi, Kh., Haghi Z. & Mehrabi oladi, A. A. (2014). Study of genetic diversity of Fusarium verticillioides isolates the causal agent of crown and root rot in rice in Ilam province using SSR marker. Iranian journal of plant protection science, 45 (1), 29-37. (in Farsi)
  26. Nourollahi, Kh. & Shahbazi, M. (2015). Study on genetic structure of Pyrenophora graminea populations the causal agent of barley leaf stripe disease using ISSR marker. Iranian Journal of Plant Protection Science, 46(1), 161-177. (in Farsi)
  27. Polley, R. W. & Turner, J. A. (1995). Surveys of stem base diseases and Fusarium ear diseases in winther wheat England, Wales and Scotland, 1989-90. Annals of Applied Biology, 126, 45-49.
  28. Pouzeshimiab, B., Razavi, M., Zamanizadeh, H. R., Zare, R. & Rezaee, S. (2014). Comparison of genetic diversity and pathogenicity among Fusarium culmorum isolates, the causal agent of wheat root and crown rot disease in Varamin fields. Entomology and Phytopatology, 82(1), 67-80. (in Farsi)
  29. Pouzeshimiab, B., Razavi, M., Zare, R., Zamanizadeh, H. R., Rezaee, S., Safaee, D. & Nicol, J. (2012). Taxonomy and distribution of Fusarium spp. Associated with root and crown rot of wheat in Iran. In: 1st International crown rot Workshop for wheat Improvement, NSW, Australia, 85, 31.
  30. Puhalla, J. E. (1981). Genetic considerations of the genus Fusarium. In Fusarium: diseases, biology and Taxonomy 291-305. Eds Nelson, P. E., Toussoun, T. A., Cook, R. J. Pennsylvania USA, The Pennsylvania State University Press.
  31. Ravanlou, A. & Banihashemi, Z. (1999). Taxonomy and pathogenicity of Fusarium spp. Associated with root and crown rot of wheat in Fars province. Iranian Journal of Plant Pathology, 35, 37-45.
  32. Ribichich, K. F., Lopez, S. E. & Vegetti, A. C. (2000). Histopathological spikelet changes produced by Fusarium graminearum in susceptible and resistant wheat cultivars. Plant Disease, 84(7), 794-802.
  33. Rolhf, F. J. (1990). NTSYSPc, Numerical taxonomy and multivariant analysis system. Version 2.02. Applied Biostatistics. New York.
  34. Safaee, D, Younesi, H. & Sheikholeslami, M. (2012). Fusarium species that root and crown rot of wheat in Kermanshah province. Iranian Journal of Plant Pathology, 2, 89-91.
  35. Saremi, H. (2006). Fusarium, biology, ecology and taxonomy. Jehad Daneshgahi Press, 164 pp. (in Farsi)
  36. Saremi, H., Ammarlou, A. & Jafary, H. (2007). Incidence of crown rot disease of wheat caused by F. pseudograminearum as a new soilborn fungal species in North West Iran. Pakistan Journal of Biological Science, 10, 3606-3612.
  37. Scherm, B., Balmas, V., Sponu, F., Pani, G., Delogu, G., Pasqualis, M. & Migheli, Q. (2013). Fusarium culmorum, causal agent of foot and root rot and head blight on wheat. Molecular Plant Pathology, 14, 323-341.
  38. Scott, J. B. & Chakraborty, S. (2010). Genotypic diversity in Fusarium pseudograminearum populations in Australian wheat fields. Plant Pathology, 59, 338-347.
  39. Smiley, R. & Whittaker, R. (2004). Lesion nematodes reduce yield in Annual spring wheat. Columbia basin Agricultural research center annual report in cooperation with USDA. Agricultural research center. 10pp.
  40. Toth, B., Mesterhazy, A., Nicolson, P., Teren, J. & Varga, J. (2004). Mycotoxin production and molecular variability of European and American isolates of Fusarium culmorumEuropean Journal of Plant Pathology, 110, 587-599.