Identification and genetic variation of internal transcribed spacer (ITS) in Lasiodiplodia theobromae isolated from durian (Durio sp.)
Article Sidebar
Main Article Content
Abstract
Twenty isolates of Lasiodiplodia were recovered from durian dieback samples collected from Chanthaburi, Chumphon and Trat provinces. A combination of morphology and ITS sequence analysis is a robust of the internal transcribed spacer (ITS) were analyzed and identified as Lasiodiplodia theobromae. Genetic variation of all isolations of L. theobromae isolated from durian compared with L. theobromae isolated from eight other plants was revealed. The nucleotide sequence of the ITS region differed in 7 bp from 510 bp, representing 0.00. – 0.78% of nucleotide difference, and related to the pairwise sequence comparison. It was found that L. theobromae invading durian was closely associated to L. theobromae destroying mango, coconut, avocado, papaya and passion fruit. Furthermore, genetic relationship of L. theobromae was closely related to L. parva and L. pseudotheobromae with 89% bootstrap value by the unweighted pair-group method with arithmetic mean (UPGMA). Genetic diversity by single primer amplification reaction (SPAR) technique, using ISSR-PCR technique was investigated. Six primers, such as (AG8)C, (CAG)5, (GACA)4, (GTG). 5, UBC809 and UBC891 were used and found that 20 isolates of L. theobromae was variable within the population. Moreover, the DNA fingerprint analysis of this fungi was separated into 5 groups at r=0.35. This research indicated the genetic relationship of L. theobromae from durian and other plants using ITS technique. Meanwhile, the ISSR technique was useful to inspect genetic variability of this fungus.
Article Details
This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.
References
พัทยา จำปีเรือง. 2557. ผลของเชื้อยีสต์ Saccharomycopsis fibuligera ต่อการควบคุมเชื้อรา Lasiodiplodia theobromae สาเหตุโรคขั้วผลเน่าบนมะละกอ. วิทยานิพนธ์ ปริญญาวิทยาศาสตรมหาบัณฑิต (โรคพืช) มหาวิทยาลัยเกษตรศาสตร์. นครปฐม.
รังสิมันตุ์ ธีระวงค์ภิญโญ, สมศิริ แสงโชติ และปัฐวิภา สงกุมาร. 2562. การระบุชนิดของเชื้อรา Lasiodiplodia species สาเหตุโรคผลเน่าทุเรียนในประเทศไทย. วารสารวิทยาศาสตร์เกษตร. 50 (พิเศษ3): 147-150.
สมศิริ แสงโชติ, รัติยา พงศ์พิสุทธา และรณภพ บรรเจิดเชิดชู. 2539. โรคที่เกิดกับผลทุเรียนหลังการเก็บเกี่ยว. รายงานการประชุมทางวิชาการของมหาวิทยาลัยเกษตรศาสตร์ ครั้งที่ 34: 148-152.
Alves, A., P. W. Crous, A. Correia, and A.J.L. Phillips. 2008. Morphological and molecular data reveal cryptic speciation in Lasiodiplodia theobromae. Fungal Diversity. 28: 1-13.
Baird, R.E., T.B. Brenneman, D.K. Bell, D.R. Sumner, N.A. Minton, B.G. Mullinix, and A.B. Peery. 1995. Influence of crop rotation and flutolanil on the diversity of fungi on peanut shells. Phytoprotection. 76(3): 101-113.
Biju, C.N., A. Jeevalatha, M.F. Peeran, R.S. Bhai, F. Basima, V.A. Nissar, V. Srinivasan, and L Thomas. 2021. Association of Lasiodiplodia theobromae with die-back and decline of nutmeg as revealed through phenotypic pathogenicity and phylogenetic analyses. 3 Biotech. 11(9): 1-10.
Bincader, S., R. Pongpisutta, and C. Rattanakreetakul. 2022. Diversity of Colletotrichum species causing anthracnose disease from mango cv. Nam Dork Mai See Tong based on ISSR-PCR. Indian Journal of Agricultural Research. 56: 81-90.
Blackwell, M. 2011. The fungi: 1, 2, 3 ... 5.1 million species. American Journal of Botany. 98: 426–438.
Centre for Agriculture and Bioscience International. 2022. Lasiodiplodia theobromae. Available: https://www.cabi.org/isc/abstract/20103281413. Accessed April.27, 2022.
Chen, J., Z. Zhu, Y. Fu, J. Cheng, J. Xie, and Y. Lin. 2021. Identification of Lasiodiplodia pseudotheobromae causing fruit rot of citrus in China. Plants. 10(2): 1-8.
Correia, K.C., M.A. Silva, M.A. de Morais Jr, J. Armengol, A.J. Phillips, M.P.S. Cômara, and S.J. Michereff. 2016. Phylogeny distribution and pathogenicity of Lasiodiplodia species associated with die-back of table grape in the main Brazilian exporting region. Plant pathology. 65: 92-103.
de Silva, N.I., A.J. Phillips, J.K. Liu, S. Lumyong, and K.D. Hyde. 2019. Phylogeny and morphology of Lasiodiplodia species associated with magnolia forest plants. Scientific Reports. 9(1): 1-11.
Gupta, M., Y-S. Chyi, J. Romero-Severson, and J.L. Owen. 1994. Amplification of DNA markers from evolutionarily diverse genomes using single primers of simple-sequence repeats. Theoretical and Applied Genetics. 89: 998–1006.
Gupta, P.K., and R.K. Varshney. 2000. The development and use of microsatellite markers for genetic analysis and plant breeding with emphasis on bread wheat. Euphytica. 113: 163–185.
Hebert, P.D.N., A. Cywinska, S.L. Ball, and J.R. de Waard. 2003. Biological identifications through DNA barcodes, pp. 313-321. In Proceedings of Biological Sciences Conference 8 January 2003. London, UK.
Ismail, A.M., G. Cirvilleri, G. Polizzi, P.W. Crous, J.Z. Groenewald, and L. Lombard. 2012. Lasiodiplodia species associated with dieback disease of mango (Mangifera indica L.) in Egypt. Australasian Plant Pathology. 41: 649-660.
Lafontaine, D.L.J., and D. Tollervey. 2001. The function and synthesis of ribosomes. Nature Reviews Molecular Cell Biology. 2(7): 514–520.
Lim, T.-K., and S. Sangchote. 2003. Disease of durian. pp. 241-251. In R.C. Ploetz (ed.) Diseases of tropical fruit crops. CABI Publishing, Wallingford, UK.
Mohali S, T.I. Burgess, and M.J. Wingfield. 2005. Diversity and host association of the tropical tree endophyte Lasiodiplodia theobromae revealed using simple sequence repeat markers. Forest Pathology. 35: 385–396.
Mora, C., D.P. Tittensor, S. Adl, A.G.B. Simpson, and B. Worm. 2011. How many species are there on Earth and in the Ocean. PLOS Biology. 9: e1001127.
Muhire, B.M., A. Varsani, and D.P. Martin. 2014. SDT: a virus classification tool-based on pairwise sequence alignment and identity calculation. PloS One. 9: e108277.
Peakall, R.O.D., and P.E. Smouse. 2006. GenAlex 6: genetic analysis in excel, population genetic software for teaching and research. Molecular Ecology Notes. 6(1): 288-295.
Phillips, A.J.L., A. Alves, J. Abdollahzadeh, B. Slippers, M.J. Wingfield, J.Z. Groenewald, and P.W. Crous. 2013. The Botryosphaeriaceae: genera and species known from culture. Studies in Mycology. 76: 51–167.
Pongpisutta, R., W. Winyarat, and C. Rattanakreetakul. 2013. RFLP identification of Colletotrichum species isolated from chilli in Thailand. Acta Horticulturae. 973: 181–186.
Punithalingam, E. 1976. Botryodiplodia theobromae. CMI description of pathogenic fungi and bacteria, No 519: Commonwealth Mycological Institute, Kew, UK.
Rohlf, F. 1988. NTSYS-pc – Numerical taxonomy and multivariate analysis system. Applied Biostatistics Inc. New York, US.
Rohlf, F.J., and R.R. Sokal. 1981. Comparing numerical taxonomic studies. Systematic Biology. 30(4): 459–490.
Sathya, K., S. Parthasarathy, G. Thiribhuvanamala, and K. Prabakar. 2017. Morphological and molecular variability of Lasiodiplodia theobromae causing stem end rot of mango in Tamil Nadu India. International Journal of Pure and Applied Bioscience. 5(6): 1024-1031.
Schocha, C.L., K.A. Seifertb, S. Huhndorfc, V. Robertd, J.L. Spougea, C.A. Levesqueb, W. Chen, and Fungal Barcoding Consortium. 2012. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for fungi, pp. 6241-6246. In Proceedings of the National Academy of Sciences Conference 27 March 2012. US.
Stackebrandt, E., and B.M. Goebel. 1994. Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. International Journal of Systematic and Evolutionary Microbiology. 44: 846–849.
Staub, J.E., F.C. Serquen, and M. Gupta, 1996. Genetic markers, map construction, and their application in plant breeding. HortScience. 31(5): 729–739.
Sutton, B.C. 1980. The Coelomycetes: Fungi imperfecti with pycnidia acervuli and stromata. Commonwealth Mycological Institute. Kew, UK.
Suwannarach, N., S. Khuna, J. Kumla, R. Cheewangkoon, P. Suttiprapan, and S. Lumyong. 2022. Morphology characterization molecular identification and pathogenicity of fungal pathogen causing kaffir lime leaf blight in Northern Thailand. Plants. 11(3): 1-13.
Tamura, K., G. Stecher, and S. Kumar. 2021. MEGA11: Molecular evolutionary genetics analysis version 11. Molecular Biology and Evolution. 38(7): 3022–3027.
Thompson, J.D., D.G. Higgins, and T.J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research. 22(22): 4673-4680.
Uddin, M.S., and Q. Cheng. 2015. Recent application of biotechniques for the improvement of mango research, pp. 195-212. In Applied Plant Genomics and Biotechnology. Woodhead Publishing, India.
White, T.J., T. Bruns, S. Lee, and J. Taylor. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics, pp. 315-322. In M.A. Innis, D.H. Gelfand, J. Sninsky and T.J. White, eds. PCR protocols: a guide to method and application. Academic Press, New York, US.
Xie, H.H., J.G. Wei, R.S. Huang, and X.B. Yang. 2016. Genetic diversity analyses of Lasiodiplodia theobromae on morus alba and Agave sisalana based on RAPD and ISSR molecular markers. Mycology. 7(4): 155-164.
Yap, I., and R.J. Nelson. 1996. Winboot: a program for performing bootstrap: analysis of binary data to determine the confidence limits of UPGMA based dendrograms. International Rice Research Institute. Manila, Philippines.
Zietkiewicz, E., A. Rafalski, and D. Labuda, 1994. Genome finger- printing by simple sequence repeat (SSR)–anchored polymerase chain reaction amplification. Genomics. 20: 176–183.
