Molecular identification of Trichoderma strains collected to develop plant growth-promoting and biocontrol agents

• Autorzy: Oskiera M. , Szczech M. , Bartoszewski G.
• Języki publikacji: EN

Abstrakty

EN

Słowa kluczowe

EN

Trichoderma; strain; molecular identification; biological control agent; multilocus sequence typing; phylogenesis; species identification; DNA isolation

• Wydawca: -
• Czasopismo: Journal of Horticultural Research
• Rocznik: 2015
• Tom: 23
• Numer: 1
• Opis fizyczny: p.75-86,fig.,ref.

Twórcy

autor

Oskiera M.

• Department of Microbiology, Research Institute of Horticulture, 96-100 Skierniewice, Poland

autor

Szczech M.

• Department of Microbiology, Research Institute of Horticulture, 96-100 Skierniewice, Poland

autor

Bartoszewski G.

• Department of Plant Genetics Breeding and Biotechnology, Warsaw University of Life Sciences (SGGW), Nowoursynowska 159, 02-776 Warsaw, Poland

Bibliografia

• Aldrich J., Cullis C.A. 1993. RAPD analysis in flax: optimization of yield and reproducibility using KlenTaq 1 DNA polymerase, Chelex 100, and gel purification of genomic DNA. Plant Molecular Biology Reporter 11: 128-141. DOI: 10.1007/BF02670471.
• Altschul S.F., Madden T.L., Schäffer A.A., Zhang J., Zhang Z., Miller W., Lipman D.J. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research 25: 3389-3402. DOI: 10.1093/nar/25.17.3389.
• Atanasova L., Druzhinina I.S., Jaklitsch W.M. 2013. Two hundred Trichoderma species recognized on the basis of molecular phylogeny. In: Mukher-jee P.K., Horwitz B.A., Singh U.S., Mukherjee M., Schmoll M. (Eds.), Trichoderma: biology and ap-plications. CABI, Wallingford, UK, pp. 10-42. DOI: 10.1079/9781780642475.0010.
• Benítez T., Rincón A.M., Limón M.C., Codón A.C. 2004. Biocontrol mechanisms of Trichoderma strains. International Microbiology 7: 249-260.
• Błaszczyk L., Popiel D., Chełkowski J., Koczyk G., Samuels G.J., Sobieralski K., Siwulski M. 2011. Species diversity of Trichoderma in Poland. Journal of Applied Genetics 52: 233-243. DOI: 10.1007/s13353-011-0039-z.
• Carbone I., Kohn L.M. 1999. A method for designing primer sets for speciation studies in filamentous ascomycetes. Mycologia 91: 553-556. DOI: 10.2307/3761358.
• Chaverri P., Branco-Rocha F., Jaklitsch W.M., Gazis R.O., Degenkolb T., Samuels G.J. 2015. System-atics of the Trichoderma harzianum species com-plex and the re-identification of commercial bio-control strains. Mycologia 107: 558-590. DOI: 10.3852/14-147.
• Chaverri P., Castlebury L.A., Samuels G.J., Geiser D.M. 2003. Multilocus phylogenetic structure within the Trichoderma harzianum/Hypocrea lixii complex. Molecular Phylogenetics and Evolution 27: 302-313. DOI: 10.1016/S1055-7903(02)00400-1.
• Chaverri P., Gazis R.O., Samuels G.J. 2011. Tricho-derma amazonicum, a new endophytic species on Heveabrasiliensis and H. guianensis from the Am-azon basin. Mycologia 103: 139-151. DOI: 10.3852/10-078.
• Cooke D.E.L., Duncan J.M. 1997. Phylogenetic analysis of Phytophthora species based on ITS1 and ITS2 sequences of the ribosomal RNA gene repeat. My-cological Research 101: 667-677. DOI: 10.1017/S0953756296003218.
• Darriba D., Taboada G.L., Doallo R., Posada D. 2012. jModelTest 2: more models, new heuristics and parallel computing. Nature Methods 9: 772. DOI: 10.1038/nmeth.2109.
• Dodd S.L., Lieckfeldt E., Samuels G.J. 2003. Hypocrea atroviridis sp. nov., the teleomorph of Trichoderma atroviride. Mycologia 95: 27-40. DOI: 10.2307/3761959.
• Druzhinina I.S., Kopchinskiy A.G., Komoń M., Bis-sett J., Szakacs G., Kubicek C.P. 2005. An oligonu-cleotide barcode for species identification in Trichoderma and Hypocrea. Fungal Genetics and Biology 42: 813-828. DOI: 10.1016/j.fgb.2005.06.007.
• Druzhinina I.S., Kubicek C.P., Komoń-Żelazowska M., Mulaw T.B., Bissett J. 2010. The Trichoderma har-zianum demon: complex speciation history result-ing in coexistence of hypothetical biological spe-cies, recent agamospecies and numerous relict lin-eages. BMC Evolutionary Biology 10: 94. DOI: 10.1186/1471-2148-10-94.
• Fekete C., Weszely T., Hornok L. 1996. Assignment of a PCR-amplified chitinase sequence cloned from Trichodermahamatum to resolved chromosomes of potential biocontrol species of Trichoderma. FEMS Microbiology Letters 145: 385-391. DOI: 10.1111/j.1574-6968.1996.tb08605.x.
• Gal-Hemed I., Atanasova L., Komoń-Żelazowska M., Druzhinina I.S., Viterbo A., Yarden O. 2011. Ma-rine isolates of Trichoderma spp. as potential halo-tolerant agents of biological control for arid-zone agriculture. Applied and Environmental Microbiol-ogy 77: 5100-5109. DOI: 10.1128/AEM.00541-11.
• Gazis R., Chaverri P. 2010. Diversity of fungal endo-phytes in leaves and stems of wild rubber trees (He-veabrasiliensis) in Peru. Fungal Ecology 3: 240-254. DOI: 10.1016/j.funeco.2009.12.001.
• Harman G.E. 2006. Overview of mechanisms and uses of Trichoderma spp. Phytopathology 96: 190-194. DOI: 10.1094/PHYTO-96-0190.
• Harman G.E., Howell C.R., Viterbo A., Chet I., Lorito M. 2004. Trichoderma species – opportunistic, aviru-lent plant symbionts. Nature Reviews Microbiol-ogy 2: 43-56. DOI: 10.1038/nrmicro797.
• Hermosa M.R., Grondona I., Iturriaga E.A., Diaz-Minguez J.M., Castro C., Monte E., Garcia-Acha I. 2000. Molecular characterization and identification of biocontrol isolates of Trichoderma spp. Applied and Environmental Microbiology 66: 1890-1898. DOI: 10.1128/AEM.66.5.1890-1898.2000.
• Hermosa R., Rubio M.B., Cardoza R.E., Nicolás C., Monte E., Gutiérrez S. 2013. The contribution of Trichoderma to balancing the costs of plant growth and defense. International Microbiology 16: 69-80. DOI: 10.2436/20.1501.01.181.
• Hoyos-Carvajal L., Orduz S., Bissett J. 2009. Genetic and metabolic biodiversity of Trichoderma from Co-lombia and adjacent neotropic regions. Fungal Ge-netics and Biology 46: 615-631. DOI: 10.1016/j.fgb.2009.04.006.
• Jaklitsch W.M. 2011. European species of Hypocrea part II: species with hyaline ascospores. Fungal Di-versity 48: 1-250. DOI: 10.1007/s13225-011-0088-y.
• Jaklitsch W.M., Samuels G.J., Dodd S.L., Lu B.S., Dru-zhinina I.S. 2006. Hypocrea rufa/Trichoderma viride: a reassessment, and description of five closely related species with and without warted co-nidia. Studies in Mycology 56: 135-177. DOI: 10.3114/sim.2006.56.04.
• Jaklitsch W.M., Samuels G.J., Ismaiel A., Voglmayr H. 2013. Disentangling the Trichoderma viridescens complex. Persoonia 31: 112-146. DOI: 10.3767/003158513X672234.
• Jaklitsch W.M., Voglmayr H. 2015. Biodiversity of Trichoderma (Hypocreaceae) in Southern Europe and Macaronesia. Studies in Mycology 80: 1-87. DOI: 10.1016/j.simyco.2014.11.001.
• Kancelista A., Tril U., Stempniewicz R., Piegza M., Szczech M., Witkowska D. 2013. Application of lignocellulosic waste materials for the production and stabilization of Trichoderma biomass. Polish Journal of Environmental Studies 22: 1083-1090.
• Kindermann J., El-Ayouti Y., Samuels G.J., Kubicek C.P. 1998. Phylogeny of the genus Trichoderma based on sequence analysis of the internal transcribed spacer region 1 of the rDNA cluster. Fungal Ge-netics and Biology 24: 298-309. DOI: 10.1006/fgbi.1998.1049.
• Komoń-Żelazowska M., Bissett J., Zafari D., Hatvani L., Manczinger L., Woo S., Lorito M., Kredics L., Ku-bicek C.P., Druzhinina I.S. 2007. Genetically closely related but phenotypically divergent Trichoderma species cause green mold disease in oyster mushroom farms worldwide. Applied and Environmental Microbiology 73: 7415-7426. DOI: 10.1128/AEM.01059-07.
• Kopchinskiy A., Komoń M., Kubicek C.P., Dru-zhinina I.S. 2005. TrichoBLAST: A multilocus da-tabase for Trichoderma and Hypocrea identifica-tions. Mycological Research 109: 658-660. DOI: 10.1017/S0953756205233397.
• Kredics L., Hatvani L., Naeimi S., Körmöczi P., Manczinger L., Vágvölgyi C., Druzhinina I. 2014. Biodiversity of the genus Hypocrea/Trichoderma in different habitats. In: Gupta V.K., Schmoll M., Herrera-Estrella A., Upadhyay R.S., Druzhinina I., Tuohy M.G. (Eds.), Biotechnology and biology of Trichoderma. Elsevier, Amsterdam, pp. 3-24. DOI: 10.1016/B978-0-444-59576-8.00001-1.
• Kullnig C.M., Krupica T., Woo S.L., Mach R.L., Rey M., Benítez T., Lorito M., Kubicek C.P. 2001. Confu-sion abounds over identities of Trichoderma bio-control isolates. Mycological Research 105: 769-772. DOI: 10.1017/S0953756201229967.
• Kullnig-Gradinger C.M., Szakacs G., Kubicek C.P. 2002. Phylogeny and evolution of the genus Trichoderma: a multigene approach. Mycologi-cal Research 106: 757-767. DOI: 10.1017/S0953756202006172.
• Longa C.M.O., Savazzini F., Tosi S., Elad Y., Pertot I. 2009. Evaluating the survival and environmental fate of the biocontrol agent Trichoderma atroviride SC1 in vineyards in northern Italy. Journal of Ap-plied Microbiology 106: 1549-1557. DOI: 10.1111/j.1365-2672.2008.04117.x.
• López-Quintero C.A., Atanasova L., Franco-Mo-lano A.E., Gams W., Komoń-Żelazowska M., Theelen B., Müller W.H., Boekhout T., Druzhinina I. 2013. DNA barcoding survey of Trichoderma di-versity in soil and litter of the Colombian lowland Amazonian rainforest reveals Trichoderma stri-gosellum sp. nov. and other species. Antonie van Leeuwenhoek, Journal of Microbiology 104: 657-674. DOI: 10.1007/s10482-013-9975-4.
• Monfil V.O., Casas-Flores S. 2014. Molecular mechanisms of biocontrol in Trichoderma spp. and their applica-tions in agriculture. In: Gupta V.K., Schmoll M., Herrera-Estrella A., Upadhyay R.S., Druzhinina I., Tuohy M.G. (Eds.), Biotechnology and biology of Trichoderma. Elsevier, Amsterdam, pp. 429- 453. DOI: 10.1016/B978-0-444-59576-8.00032-1.
• Mulaw T.B., Kubicek C.P., Druzhinina I.S. 2010. The rhizosphere of Coffea arabica in its native highland forests of Ethiopia provides a niche for a distin-guished diversity of Trichoderma. Diversity 2: 527-549. DOI: 10.3390/d2040527.
• Ronquist F., Teslenko M., van der Mark P., Ayres D.L., Darling A., Höhna S., et al. 2012. MrBayes 3.2: ef-ficient Bayesian phylogenetic inference and model choice across a large model space. Systematic Bi-ology 61: 539-542. DOI: 10.1093/sysbio/sys029.
• Samuels G.J., Dodd S.L., Lu B.S., Petrini O., Schroers H.J., Druzhinina I.S. 2006. The Tricho-derma koningii aggregate species. Studies in My-cology 56: 67-133. DOI: 10.3114/sim.2006.56.03.
• Skoneczny D., Oskiera M., Szczech M., Bartoszewski G. 2015. Genetic diversity of Trichoderma atroviride strains collected in Poland and identification of loci useful in detection of within-species diversity. Fo-lia Microbiologica 60: 297-307. DOI: 10.1007/s12223-015-0385-z.
• Smolińska U., Gołębiewska E., Kowalska B., Kow-alczyk W., Szczech M. 2014a. Materiały odpadowe jako nośniki antagonistycznych grzybów Tricho-derma. Inżynieria i Ochrona Środowiska 17: 5-20.
• Smolińska U., Kowalska B., Kowalczyk W., Szczech M. 2014b. The use of agro-industrial wastes as carriers of Trichoderma fungi in the parsley cultivation. Scientia Horticulturae 179: 1-8. DOI: 10.1016/j.scienta.2014.08.023.
• Stewart A., Hill R. 2014. Applications of Trichoderma in plant growth promotion. In: Gupta V.K., Schmoll M., Herrera-Estrella A., Upadhyay R.S., Dru-zhinina I., Tuohy M.G. (Eds.), Biotechnology and biology of Trichoderma. Elsevier, Amsterdam, pp. 415-428. DOI: 10.1016/b978-0-444-59576-8.00031-x.
• Thompson J.D., Gibson T.J., Plewniak F., Jean-mougin F., Higgins D.G. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25: 4876-4882. DOI: 10.1093/nar/25.24.4876.
• Vandroemme J., Baeyen S., Van Vaerenbergh J., De Vos P., Maes M. 2008. Sensitive real-time PCR detection of Xanthomonas fragariae in strawberry plants. Plant Pathology 57: 438-444. DOI: 10.1111/j.1365-3059.2007.01813.x.
• White T.J., Bruns T., Lee S., Taylor J. 1990. Amplifica-tion and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis M.A., Gel-fand D.H., Sninsky J.J., White T.J. (Eds.), PCR pro-tocols: a guide to methods and applications. Aca-demic Press, San Diego, CA, pp. 315-322. DOI: 10.1016/b978-0-12-372180-8.50042-1.

Identyfikatory

DOI

10.2478/johr-2015-0010