1,005
Views
36
CrossRef citations to date
0
Altmetric
Systematics

The diversity of Trichoderma species from soil in South Africa, with five new additions

ORCID Icon, ORCID Icon, , & ORCID Icon
Pages 559-583 | Received 31 Jul 2017, Accepted 06 Apr 2018, Published online: 14 Jun 2018

LITERATURE CITED

  • Askew DJ, Laing MD. 1994. The in vitro screening of 118 Trichoderma isolates for antagonism to Rhizoctonia solani and an evaluation of different environmental sites of Trichoderma as sources of aggressive strains. Plant and Soil 159:277–281.
  • Atanasova L. 2014. Ecophysiology of Trichoderma in genomic perspective. In: Gupta V, Schmoll M, Herrera-Estrella AR, Upadhyay, Druzhinina IS, Tuohy M, eds. Biotechnology and biology of Trichoderma. Amsterdam, The Netherlands: Elsevier, p. 25–40.
  • Atanasova L, Druzhinina IS, Jaklitsch WM. 2013. Two hundred Trichoderma species recognized on the basis of molecular phylogeny. In: Trichoderma biology and applications. Mukherjee PK, Horwitz BA, Singh US, Mukherjee M, Schmoll M, eds. Wallingford, UK: CABI. p. 10–42.
  • Atanasova L, Jaklitsch WM, Komoń-Zelazowska M, Kubicek CP, Druzhinina IS. 2010. Clonal species Trichoderma parareesei sp. nov. likely resembles the ancestor of the cellulase producer Hypocrea jecorina/T. reesei. Applied and Environmental Microbiology 76:7259–7267.
  • Bissett J. 1984. A revision of the genus Trichoderma: I. Section Longibrachiatum, new section. Canadian Journal of Botany 62:924–931.
  • Bissett J. 1991a. A revision of the genus Trichoderma: II. Infrageneric classification. Canadian Journal of Botany 69:2357–2372.
  • Bissett J. 1991b. A revision of the genus Trichoderma: IV. Additional notes on section Longibrachiatum. Canadian Journal of Botany 69:1418–1420.
  • Bissett J, Gams W, Jaklitsch W, Samuels GJ. 2015. Accepted Trichoderma names in the year 2015. IMA Fungus 6:263–295.
  • Burrell R. 1991. Microbiological agents as health risks in indoor air. Environmental Health Perspectives 95:29–34.
  • Carbone I, Kohn LM. 1999. A method for designing primer sets for speciation studies in filamentous ascomycetes. Mycologia 91:553–556.
  • Castresana J. 2000. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Molecular Biology and Evolution 17:540–52.
  • Chaverri P, Branco-Rocha F, Jaklitsch WM, Gazis RO, Degenkolb T, Samuels GJ. 2015. Systematics of the Trichoderma harzianum species complex and the re-identification of commercial biocontrol strains. Mycologia 107:558–590.
  • Chaverri P, Samuels GJ. 2004. Hypocrea/Trichoderma (Ascomycota, Hypocreales, Hypocreaceae): species with green ascospores. Studies in Mycology 48:1–116.
  • Crous PW, Verkley GJM, Groenewald JZ, Samson RA, eds. 2009. Fungal biodiversity. Utrecht, The Netherlands: Centraalbureau voor Schimmelcultures, Koninklijke Nederlandse Akademie van Wetenschappen Fungal Biodiversity Center. p. 210.
  • De Respins S, Vogel G, Benagli C, Tonolla M, Petrini O, Samuels GJ. 2010. MALDI-TOF MS of Trichoderma: a model system for the identification of microfungi. Mycological Progress 9:79–100.
  • Derntl C, Rassinger A, Srebotnik E, Mach RL, Mach-Aigner AR. 2016. Identification of the main regulator responsible for synthesis of the typical yellow pigment produced by Trichoderma reesei. Applied and Environmental Microbiology 82:6247–6257.
  • Druzhinina IS, Komoń-Zelazowska M, Ismaiel A, Jaklitsch WM, Mullaw T, Samuels GJ, Kubicek CP. 2012. Molecular phylogeny and species delimitation in the section Longibrachiatum of Trichoderma. Fungal Genetics and Biology 49: 358–368.
  • Druzhinina IS, Komon-Zelanovska M, Kredics L, Hatvani L, Antal Z, Belayneh T, Kubicek CP. 2008. Alternative reproductive strategies of Hypocrea orientale and genetically close but clonal Trichoderma longibrachiatum, both capable of causing invasive mycoses of humans. Microbiology 154:3447–3459.
  • Druzhinina IS, Kopchinskiy AG, Komoń-Zelazowska M, Bissett J, Szakacs G, Kubicek CP. 2005. An oligonucleotide barcode for species identification in Trichoderma and Hypocrea. Fungal Genetics and Biology 42:813–828.
  • Druzhinina IS, Kubicek EM, Kubicek CP. 2016. Several steps of lateral gene transfer followed by events of “birth-and-death” evolution shaped a fungal sorbicillinoid biosynthetic gene cluster. BMC Evolutionary Biology 16:269.
  • Druzhinina IS, Kubicek CP. 2016. Familiar stranger: ecological genomics of the model saprotroph and industrial enzyme producer Trichoderma reesei breaks the stereotypes. In: Sariaslani S, Gadd GM, eds. Advances in applied microbiology. San Diego, CA: Elsevier. p. 69–147.
  • Druzhinina IS, Kubicek CP, Komoñ-Zelazowska M, Mulaw TB, Bissett J. 2010. The Trichoderma harzianum demon: complex speciation history resulting in coexistence of hypothetical biological species, recent agamospecies and numerous relict lineages. BMC Evolutionary Biology 10:94.
  • Druzhinina IS, Seidl-Seiboth V, Herrera-Estrella A, Horwitz BA, Kenerley CM, Monte E, Mukherjee PK, Zeilinger S, Grigoriev IV, Kubicek CP. 2011. Trichoderma: the genomics of opportunistic success. Nature Reviews Microbiology 9:749–759.
  • Friedl MA, Druzhinina IS. 2012. Taxon-specific metagenomics of Trichoderma reveals a narrow community of opportunistic species that regulate each other’s development. Microbiology 158:69–83.
  • Gal-Hemed I, Atanasova L, Komoń-Zelazowska M, Druzhinina IS, Viterbo A, Yarden O. 2011. Marine isolates of Trichoderma spp. as potential halotolerant agents of biological control for arid-zone agriculture. Applied and Environmental Microbiology 77:5100–5109.
  • Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W, Gascuel O. 2010. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3. Systems Biology 59:307–321.
  • Huelsenbeck JP, Ronquist F. 2001. MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics 17:754–755.
  • Jacobs K, Bergdahl R, Wingfield MJ, Halik S, Seifert KA, Bright DE, Wingfield BD. 2004. Leptographium wingfieldii introduced into North America and found associated with exotic Tomicus piniperda and native bark beetles. Mycological Research 108:411–418.
  • Jaklitsch WM. 2011. European species of Hypocrea part II: species with hyaline ascospores. Fungal Diversity 48:1–302.
  • Jaklitsch WM. 2009. European species of Hypocrea Part I. The green-spored species. Studies in Mycology 63:1–91.
  • Jaklitsch WM, Samuels GJ, Dodd SL, Lu BS, Druzhinina IS. 2006. Hypocrea rufa/Trichoderma viride: a reassessment, and description of five closely related species with and without warted conidia. Studies in Mycology 56:135–177.
  • Jaklitsch WM, Samuels GJ, Ismaiel A, Voglmayr H. 2013. Disentangling the Trichoderma viridescens complex. Persoonia 31:112–146.
  • Katoh K, Standley DM. 2013. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Molecular Biology and Evolution 30:772–780.
  • Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Drummond A. 2012. Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28:1647–1649.
  • Klein D, Everleigh DE. 1998. Ecology of Trichoderma. In: Kubicek CP, Harman GE, eds. Trichoderma and Gliocladium. Vol. 1. London, UK: Taylor and Francis. p. 57–74.
  • Kratzer C, Tobudic S, Schmoll M, Graninger W, Georgopoulos A. 2006. In vitro activity and synergism of amphotericin B, azoles and cationic antimicrobials against the emerging pathogen Trichoderma spp. Journal of Antimicrobial Chemotherapy 58: 1058–1061.
  • Kubicek CP, Komoñ-Zelazowska M, Druzhinina IS. 2008. Fungal genus Hypocrea/Trichoderma: from barcodes to biodiversity. Journal of Zhejiang University 9:753–763.
  • Kubicek CP, Mikus M, Schuster A, Schmoll M, Seiboth B. 2009. Metabolic engineering strategies for the improvement of cellulase production by Hypocrea jecorina. Biotechnology for Biofuels 2:1–14.
  • Kullnig-Gradinger CM, Szakacs G, Kubicek CP. 2002. Phylogeny and evolution of the genus Trichoderma: a multigene approach. Mycological Research 106:757–767.
  • Liu YJ, Whelen S, Hall BD. 1999. Phylogenetic relationships among ascomycetes: evidence from an RNA polymerse II subunit. Molecular Biology and Evolution 16:1799–1808.
  • López-Quintero CA, Atanasova L, Franco-Molano AE, Gams W, Komon-Zelazowska M, Theelen B, Müller WH, Boekhout T, Druzhinina I. 2013. DNA barcoding survey of Trichoderma diversity in soil and litter of the Colombian lowland Amazonian rainforest reveals Trichoderma strigosellum sp. nov. and other species. Antonie van Leeuwenhoek 104:657–674.
  • Migheli Q, Balmas V, Komoń-Zelazowska M, Scherm B, Fiori S, Kopchinskiy AG, Kubicek CP, Druzhinina IS. 2009. Soils of a mediterranean hot spot of biodiversity and endemism (Sardinia, Tyrrhenian Islands) are inhabited by pan-European, invasive species of Hypocrea/Trichoderma. Environmental Microbiology 11:35–46.
  • Möller EM, Bahnweg G, Sandermann H, Geiger HH. 1992. A simple and effective protocol for isolation of high molecular weight DNA from filamentous fungi, fruit bodies, and infected plant tissue. Nucleic Acids Research 20:6115–6116.
  • Mutawila C, Fourie PH, Rancois F, Mostert L. 2011. Grapevine cultivar variation to pruning wound protection by Trichoderma species against trunk pathogens. Phytopathology 50:264–276.
  • Norvell LL. 2011. Fungal nomenclature. 1. Melbourne approves a new Code. Mycotaxon 116:481–490.
  • Nylander JA. 2004. MrModeltest v2. Program distributed by the author. Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden.
  • Paz Z, Komoń-Zelazowska M, Druzhinina IS, Aveskamp MM, Shnaiderman A, Aluma Y, Carmeli S, Ilan M, Yarden O. 2010. Diversity and potential antifungal properties of fungi associated with a Mediterranean sponge. Fungal Diversity 42:17–26.
  • Rifai MA. 1969. A revision of the genus Trichoderma. Mycological Papers 116:1–56.
  • Rossman AY, Seifert KA, Samuels GJ, Minnis AM, Schroers H, Lombard L, Crous PW, Põldmaa K, Cannon PF, Summerbell RC, Geiser DM, Zhuang W, Hirooka Y, Herrera C, Salgado-Salazar C, Chaverri P. 2013. Genera in Bionectriaceae, Hypocreaceae, and Nectriaceae (Hypocreales) proposed for acceptance or rejection. IMA Fungus 4:41–51.
  • Sadfi-Zouaoui N, Hannachi I, Rouaissi M, Hajlaoui MR, Rubio MB, Monte E, Boudabous A, Hermosa MR. 2009. Biodiversity of Trichoderma strains in Tunisia. Canadian Journal of Microbiology 162: 154–162.
  • Samuels GJ. 2006. Trichoderma: systematics, the sexual state, and ecology. Phytopathology 96:195–206.
  • Samuels GJ, Dodd SL, Lu BS, Petrini O, Schroers HJ, Druzhinina IS. 2006. The Trichoderma koningii aggregate species. Studies in Mycology 56:67–133.
  • Samuels GJ, Ismaiel A, Mulaw TB, Szakacs G, Druzhinina IS, Kubicek CP, Jaklitsch WM. 2012. The Longibrachiatum Clade of Trichoderma: a revision with new species. Fungal Diversity 55: 77–108.
  • Samuels GJ, Petrini O, Kühls K, Lieckfeldt E, Kubicek CP. 1998. The Hypocrea schweinitzii complex and Trichoderma sect. Longibrachiatum. Studies in Mycology 41:1–54.
  • Sandoval-Denis M, Sutton DA, Cano-Lira JF, Gené J, Fothergill AW, Wiederhold NP, Guarro J. 2014. Phylogeny of the clinically relevant species of the emerging fungus Trichoderma and their antifungal susceptibilities. Journal of Clinical Microbiology 52:2112–2125.
  • Segarra G, Casanova E, Avilés M, Trillas I. 2010. Trichoderma asperellum strain T34 controls Fusarium wilt disease in tomato plants in soilless culture through competition for iron. Microbial Ecology 59:141–149.
  • Tondje PR, Roberts DP, Bon MC, Widmer T, Samuels GJ, Ismaiel A, Begoude AD, Tchana T, Nyemb-Tshomb E, Ndoumbe-Nkeng M, Bateman R, Fontem D, Hebbar KP. 2007. Isolation and identification of mycoparasitic isolates of Trichoderma asperellum with potential for suppression of black pod disease of cacao in Cameroon. Biological Control 43:202–212.
  • Watanabe S, Kumakura K, Izawa N, Nagayama K, Mitachi T, Kanamori M, Teraoka T, Arie T. 2007. Mode of action of Trichoderma asperellum SKT-1, a biocontrol agent against Gibberella fujikuroi. Journal of Pesticide Science 32:222–228.
  • White T, Burns JT, Lee S, Taylor J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Gelfand DH, Sinsky JJ, White TJ, eds. PCR protocols: a guide to methods and applications. San Diego, California: Academic Press. p. 315–322.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.