Genetic Diversity of Macrophomina phaseolina Populations, the Causal Agent of Sesame Charcoal Rot Using Inter-Simple Sequence Repeat Markers

Authors
R. Salahlou 1
N. Safaie 2
M. Shams-Bakhsh 2
1 Department of Biotechnology, Faculty of Agriculture, Tarbiat Modares University, Tehran, Islamic Republic of Iran.
2 Department of Plant Pathology, Faculty of Agriculture, Tarbiat Modares University, Tehran, Islamic Republic of Iran.
Abstract
Macrophomina phaseolina is an important soil-borne pathogen causing charcoal rot in many important crop plants including sesame, in Iran. A total of 60 isolates of M. phaseolina were collected from the main sesame producing regions in ten provinces of Iran. The genetic diversity among M. phaseolina populations was estimated using Inter-Simple Sequence Repeat (ISSR), focusing particularly on geographic differentiation. Five ISSR primers generated 105 discernible DNA bands, of which 85 (77.11%) were polymorphic. The greatest value of variability (PPB: 60.00%; H: 0.185; I: 0.284) was estimated for Fars population, whereas the least variability (PPB: 9.52%; H: 0.042; I: 0.060) was estimated for Kerman population. Total gene diversity exhibited high levels of variability (HT = 0.186). Analysis of molecular variance indicated a large proportion of genetic variability within populations.

Keywords

1. Aboshosha, S. S., Attaalla, S. I., El-Korany, A. E. and El-argawy, E. 2007. Characterization of Macrophomina phaseolina Isolates Affecting Sunflower Growth in El-Behera Governorate Egypt. Int. J. Agric. Biol., 9: 807−815.
2. Aghakhani, M. and Dubey, S.C. 2009. Determination of Genetic Diversity among Indian Isolates of Rhizoctonia bataticola Causing Dry Root Rot of Chickpea. Anton Leeuw Int. J. G., 96: 607−619.
3. Almeida, A. M. R., Abdelnoor, R.V., Arias, C. A. A., Carvalho, V. P., Martin, S. R. R., Benato, L. C., Pinto, M. C. and Carvalho, C. G. P. 2003. Genotypic Diversity among Brazilian Isolates of Macrophomina phaseolina Revealed by RAPD. Fitopatol. Bra.s, 28: 279−285.
4. Almeida, M. R., Sosa-Gomez, D. R., Binneck, E., Marin, S. R. R., Zucchi, M. I., Abdelnoor, R. V. and Souto, E. R. 2008. Effect of Crop Rotation on Specialization and Genetic Diversity of Macrophomina phaseolina. Trop. Plant. Pathol., 33: 257−264.
5. Babu, B. K., Saxena, A. K., Srivastava, A. K. and Arora, D. K. 2007. Identification and Detection of Macrophomina phaseolina by Using Species-Specific Oligonucleotide Primers and Probe. Mycologia., 99: 797−803.
6. Baird, R. E., Wadl, P. A., Allen, T., McNeill, D., Wang, X. W., Moulton, J. K., Rinehart, T. A., Abbas, H. K., Shier, T. and Trigiano, R. N. 2010. Variability of United States Isolates of Macrophomina phaseolina Based on Simple Sequence Repeats and Cross Genus Transferability to Related Genera within Botryosphaeriaceae. Mycopathologia., 170: 169−180.
7. Carlile, M. J. 1986. Genetic Exchange and Gene Flow: Their Promotion and Prevention. In: “Evolutionary Biological of the Fungi.” (Eds.): Rayner A. D. M., Moore D. Cambridge. Cambridge University Press. pp. 203-214.
8. Chakravarthi, B. K. and Naravaneni, R. 2006. SSR Marker Based DNA Fingerprinting and Diversity Study in Rice (Oryza sativa. L.). Afr. J. Biotechnol., 5: 684–688.
9. Dhingra, O. D. and Sinclair, J. B. 1978. Biology and Pathology of Macrophomina phaseolina. Vic¸osa(Brasil): Imprensa Universita´ ria, Universidade Federal de Vic¸osa. Pp. 166
10. Jana, T., Sharma, T. R. and Singh, N. K. 2005a. SSR-Based Detection of Genetic Variability in the Charcoal Root Rot Pathogen Macrophomina phaseolina. Mycol. Res., 109: 81−86.
11. Jana, T., Singh, N., Koundal, K. and Sharma, T. 2005b. Genetic Differentiation of Charcoal Rot Pathogen, Macrophomina phaseolina, Into Specific Groups Using URP-PCR. Can. J. Microbiol., 51: 159−164.
12. Cao, P., Yao, Q., Ding, B., Zeng, H., Zhong, Y. and Fu, C. 2006. Genetic Diversity of Sinojackia dolichocarpa (Styracaceae), A Species Endangered and Endemic to China, Detected by Inter-simple Sequence Repeat (ISSR). Biochem. Syst. Ecol., 34, 231-239.
13. Kimura, M. and Crow, J. F. 1964. The Number of Alleles That Can Be Maintained in a Finite Population. Gent., 49: 725-38.
14. Kohn, L. M. 1995. The Clonal Dynamic in Wild and Agricultural Plant Pathogen Populations. Can. J. Bot., 73: S1231-S140.
15. Lewontin, R. C. 1972. The Apportionment of Human Diversity. Evol. Biol., 6: 381–398.
16. Linhai, W., Yanxin, Z., Donghua, L., Junbin, H., Wenliang, W., Haixia, L. and Xiurong, Z., 2011. Variations in the Isolates of Macrophomina phaseolina from Sesame in China Based on Amplified Fragment Length Polymorphism (AFLP) and Pathogenicity. Afr. J. Microbiol. Res., 5: 5584-5590.
17. Mihail, J. D. and Taylor, S. J. 1995. Interpreting Variability among Isolates of Macrophomina phaseolina in Pathogenicity, Picnidium Production and Chlorate Utilization. Can. J. Microbiol., 73: 1596–1603.
18. Nei, M. 1986. Definition and Estimation of Fixation Indices. Evolution., 40: 643-645.
19. Nei, M., 1972. Genetic Distance between Populations. Nat., 106: 283–292.
20. Nei, M. 1973. Analysis of Gene Diversity in Subdivided Populations. Proc. Natl. Acad. Sci. USA., 70: 3321–3323.
21. Peakall, R., Smouse, P. E., 2006. GENALEX 6: Genetic Analysis in Excel. Population Genetic Software for Teaching and Research. Mol. Ecol. Notes., 6: 288–295.
22. Purkayastha, S., Kaur, B., Arora, P., Bisyer, I., Dilbaghi, N. and Chaudhury, A. 2008. Molecular Genotyping of Macrophomina phaseolina Isolates: Comparison of Microsatellite Primed PCR and Repetitive Element Sequence-based PCR. J. Phytopathol., 156: 372−381.
23. Reyes-Franco, M. C., Hernandez-Delgado, S., Beas-Fernandez, R., Medina-Fernandez, M., Simpson, J. and Mayek-Perez, N. 2006. Pathogenic and Genetic Variability Within Macrophomina phaseolina from Mexico and other countries. J. Phytopathol., 154:447−453.
24. Rohlf, F. J. 2000. NTSYS-pc: Numerical Taxonomy and Multivariate Analysis System. Version 2.1. Setauket, Exeter Biological Software, New York, USA,.
25. Safaie, N., Alizadeh, A., Saidi, A., Rahimian, H. and Adam G. 2005. Molecular Characterization and Genetic Diversity among Iranian Populations of Fusarium graminearum, the Causal Agent of Wheat Head Blight. Iran. J. Plant Pathol., 41: 171-189.
26. Slatkin, M. and Barton N. H. 1989. A Comparison of Three Indirect Methods for Estimating Average Levels of Gene Flow. Evolution., 43: 1349-1368.
27. Trigiano, R. N., Windham, M. T. and Windham, A. S. 2008. Plant Pathology: Concepts and Laboratory Exercises. Boca Raton (FL): CRC Press, 462p.
28. Wright, S. 1951. The Genetics Structure of Populations. Ann. Hum. Genet., 15: 323-782
29. Zietkiewicz, E., Rafalski, A. and Labuda, D. 1994. Genome Fingerprinting by Simple Sequence Repeat (SSR)-anchored Polymerase Chain Reaction Amplification. Genom. Genet. Wkly., 20: 176–183.
Journal of Agricultural Science and Technology
Volume 18, Issue 1
January and February 2016
Pages 277-287