| تعداد نشریات | 284 |
| تعداد نشریات سازمان | 82 |
| تعداد شماره‌ها | 3,037 |
| تعداد مقالات | 33,984 |
| تعداد مشاهده مقاله | 45,771,145 |
| تعداد دریافت فایل اصل مقاله | 77,190,799 |
A cost-effective molecular approach for classification of large Trichoderma collections | ||
| Mycologia Iranica | ||
| دوره 8، شماره 2، اسفند 2021، صفحه 41-50 اصل مقاله (936.46 K) | ||
| نوع مقاله: Original Article | ||
| شناسه دیجیتال (DOI): 10.22092/MI.2022.358333.1213 | ||
| نویسندگان | ||
| Sara Dehghan1؛ Amin Mirshamsi Kakhki* 2؛ Mohammad Farsi1؛ Alireza Seifi1 | ||
| 1Department of Biotechnology and Plant Breeding, Faculty of Agriculture, Ferdowsi University of Mashhad, Iran | ||
| 2Department of Biotechnology and Plant Breeding, Faculty of Agriculture, Ferdowsi University of Mashhad, IRAN | ||
| چکیده | ||
| Molecular techniques are necessary for reliable identification of Trichoderma species. For this, sequencing of several genomic loci, such as ITS, TEF1 and RPB2, are advised, but this is costly when a lot of isolates are to be analyzed. RFLP of the ITS region, on the other hand, is a simple and cost-effective method for differentiation between large numbers of Trichoderma species. In the current work, 77 Trichoderma isolates were classified using the ITS-RFLP technique by combination of three restriction enzymes (MspI, NlaIII and NlaIV). Regarding the results, the isolates were divided into 8 groups. Out of these, 14 representative isolates were selected for sequencing of ITS, TEF1 and RPB2. In order to evaluate the enzymes used in this study, 227 ITS sequences of Trichoderma species from the RefSeq database of NCBI were analyzed. Based on these, about 65% of the tested Trichoderma sequences can be categorized into small groups including less than 10 species and thus allowing a low-cost pre-classification. Our results showed that the ITS-RFLP method and the enzymes used in this study can make easy the differentiation of a large numerous of Trichoderma species. We present the ITS-RFLP method using the combination of three restriction enzymes as an efficient and reliable method for the identification of Trichoderma isolates. | ||
| کلیدواژه‌ها | ||
| ITS-RFLP؛ Trichoderma؛ Classification؛ Cost-effective | ||
| مراجع | ||
|
Atanasova L, Le Crom S, Gruber S, Coulpier F, Seidl-Seiboth V, Kubicek CP, Druzhinina IS. 2013. Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism. BMC genomics. 14(1):1-5. https://doi.org/10.1186/1471-2164-14-121.
Bissett, J.; Gams, W.; Jaklitsch, W.; Samuels, G.J. Accepted Trichoderma names in the year 2015. IMA Fungus 2015, 6, 263–295.
Cai F, Druzhinina IS. 2021. In honor of John Bissett: authoritative guidelines on molecular identification of Trichoderma. Fungal Diversity. 107(1):1-69. https://doi.org/10.1007/s13225-020-00464-4.
Dean TR, Roop B, Betancourt D, Menetrez MY. 2005. A simple multiplex polymerase chain reaction assay for the identification of four environmentally relevant fungal contaminants. Journal of Microbiological Methods. 61(1):9-16. https://doi.org/10.1016/j.mimet.2004.10.015.
Diguta CF, Vincent B, Guilloux-Benatier M, Alexandre H, Rousseaux S. 2011. PCR ITS-RFLP: A useful method for identifying filamentous fungi isolates on grapes. Food Microbiology. 28(6) :1145-54. https://doi.org/10.1016/j.fm.2011.03.006.
Doyle J. DNA protocols for plants. 1991. In Molecular techniques in taxonomy (pp. 283-293). Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-83962-7_18.
Druzhinina IS, Chaverri P, Fallah P, Kubicek CP, and Samuels GJ. 2004. Hypocrea flaviconidia, a new species from Costa Rica with yellow conidia. Studies in Mycology. 50: 401-407.
Druzhinina IS, Kopchinskiy AG, Komoń M, Bissett J, Szakacs G, Kubicek CP. 2005. An oligonucleotide barcode for species identification in Trichoderma and Hypocrea. Fungal Genetics and Biology. 42(10):813-28. https://doi.org/10.1016/j.fgb.2005.06.007.
Druzhinina I, Kubicek CP. 2005. Species concepts and biodiversity in Trichoderma and Hypocrea: from aggregate species to species clusters?. Journal of Zhejiang University. Science. B. 6(2):100. https://doi.org/10.1631/jzus.2005.B0100.
Druzhinina IS, Kopchinskiy AG, Kubicek CP. 2006. The first 100 Trichoderma species characterized by molecular data. Mycoscience. 47(2):55. https://doi.org/10.1007/S10267-006-0279-7.
Dupont J, Dennetière B, Jacquet C, Roquebert MF. 2006. PCR-RFLP of ITS rDNA for the rapid identification of Penicillium subgenus Biverticillium species. Revista iberoamericana de micología. 23(3):145-50. https://doi.org/10.1016/S1130-1406(06)70034-1.
Hagn A, Geue H, Pritsch K, Schloter M. 2002. Assessment of fungal diversity and community structure in agricultural used soils. Kerala, India: Research Signpost. 21:3-5.
Hoyos-Carvajal L, Bissett J. 2011. Biodiversity of Trichoderma in neotropics. The dynamical processes of biodiversity-case studies of evolution and spatial distribution. InTech. 303-20.
Kamala T, Devi SI, Sharma KC, Kennedy K. 2015. Phylogeny and taxonomical investigation of Trichoderma spp. from Indian region of Indo-Burma biodiversity hot spot region with special reference to Manipur. BioMed research international. 2015. https://doi.org/10.1155/2015/285261.
Koffi YF, Diguta CA, Alloue-Boraud MI, Koffi LB, Dje M, Gherghina EV, Matei F. 2019. PCR-ITS-RFLP identification of pineapple spoilage fungi [J]. Rom Biotechnol Lett. 24:418-24.
Kopchinskiy A, Komoń M, Kubicek CP, Druzhinina IS. 2005. TrichoBLAST: a multilocus database for Trichoderma and Hypocrea identifications. Mycological research. 109(6):658-60. https://doi.org/10.1017/S0953756205233397
Kubicek CP, and Harman GE, editors. 2002. Trichoderma and gliocladium: basic biology, taxonomy and genetics. Vol. 1. CRC Press.
Martinez D, Berka RM, Henrissat B, Saloheimo M, Arvas M, Baker SE, Chapman J, Chertkov O, Coutinho PM, Cullen D, Danchin EG. 2008. Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina). Nature biotechnology. 26(5):553-60. https://doi.org/10.1038/nbt1403.
Samuels GJ, Petrini O, Kuhls K, Lieckfeldt E, Kubicek CP. 1998. The Hypocrea schweinitzii complex and Trichoderma sect. Longibrachiatum. Centraalbureau voor Schimmelcultures.
Sivasithamparam K, Ghisalberti EL. 1998. Secondary metabolism in Trichoderma and Gliocladium. Basic biology 1: 139-191.
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Molecular biology and evolution. 28(10):2731-9. https://doi.org/10.1093/molbev/msr121.
White TJ, Bruns T, Lee SJ, Taylor J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications. 18(1):315-22. | ||
|
آمار تعداد مشاهده مقاله: 309 تعداد دریافت فایل اصل مقاله: 308 |
||