Abstract
Trichoderma species are widely used in agriculture as biofungicides. These fungi are rich source of secondary metabolites and the mycoparasitic species are enriched in genes for biosynthesis of secondary metabolites. Most often, genes for secondary metabolism are clustered in fungal genomes. Previously, no systematic study was undertaken to identify the secondary-metabolism related gene clusters in Trichoderma genomes. In the present study, a survey of the three Trichoderma genomes viz. T. reesei, T. atroviride and T. virens, was made to identify the putative gene clusters associated with secondary metabolism. In T. reesei genome, we identified one new NRPS and 6 new PKS clusters, which is much less than that found in T. atroviride (4 and 8) and T. virens (8 and 7). This work would pave the way for discovery of novel secondary metabolites and pathways in Trichoderma.
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Baker, S.E., Perrone, G., Richardson, N.M., Gallo, A., and Kubicek, C.P., Phylogenomic analysis of polyketide synthase-encoding genes in Trichoderma, Microbiology (UK), 2012, vol. 158, no. 1, pp. 147–154.
Bergmann, S., Schümann, J., Scherlach, K., Lange, C., Brakhage, A.A., and Hertweck, C., Genomics-driven discovery of PKS-NRPS hybrid metabolites from Aspergillus nidulans, Nat. Chem. Biol., 2007, vol. 3, no. 4, pp. 213–217.
Brakhage, A.A. and Schroeckh, V., Fungal secondary metabolites—strategies to activate silent gene clusters, Fungal Genet. Biol., 2011, vol. 48, no. 1, pp. 15–22.
Brakhage, A.A., Regulation of fungal secondary metabolism, Nat. Rev. Microbiol., 2013, vol. 11, no. 1, pp. 21–32.
Brakhage, A.A., Schuemann, J., Bergmann, S., Scherlach, K., Schroeckh, V., and Hertweck, C., Activation of fungal silent gene clusters: a new avenue to drug discovery, Prog. Drug Res., 2008, vol. 66, no. 1, pp. 3–12.
Druzhinina, I.S., Seidl-Seiboth, V., Herrera-Estrella, A., Horwitz, B.A., Kenerley, C.M., Monte, E., Mukherjee, P.K., Zeilinger, S., Grigoriev, I.V., and Kubicek, C.P., Trichoderma: the genomics of opportunistic success, Nat. Rev. Microbiol., 2011, vol. 9, no. 10, pp. 749–759.
Konig, C.C., Scherlach, K., Schroeckh, V., Horn, F., Nietzsche, S., Brakhage, A.A., and Hertweck, C., Bacterium induces cryptic meroterpenoid pathway in the pathogenic fungus Aspergillus fumigatus, ChemBioChem., 2013, vol. 14, no. 8, pp. 938–942.
Kubicek, C.P., Herrera-Estrella, A., Seidl-Seiboth, V., Martinez, D.A., Druzhinina, I.S., Thon, M., Zeilinger, S., Casas-Flores, S., Horwitz, B.A., Mukherjee, P.K., et al., Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma, Genome Biology, 2011, vol. 12, no. 4, R40.
Mukherjee, P.K., Buensanteai, N., Moran-Diez, M., Druzhinina, I.S., and Kenerley, C.M., Functional analysis of NRPSs in Trichoderma virens reveals a PKS/NRPS hybrid enzyme involved in induced systemic resistance response in maize, Microbiology (UK), 2012b, vol. 158, no. 1, pp. 155–165.
Mukherjee, P.K., Horwitz, B.A., and Kenerley, C.M., Secondary metabolism in Trichoderma—a genomic perspective, Microbiology (UK), 2012a, vol. 158, no. 1, pp. 35–45.
Mukherjee, P.K., Horwitz, B.A., Herrera-Estrella, A., Schmoll, M., and Kenerley, C.M., Trichoderma research in the genome era, Annu. Rev. Phytopathol., 2013b, vol. 51, pp. 105–129.
Mukherjee, P.K., Horwitz, B.A., Singh, U.S., Mukherjee, M., and Schmoll, M., Trichoderma in agriculture, industry and medicine: an overview, in Trichoderma- Biology and Applications, Mukherjee, P.K., Horwitz, B.A., Singh, U.S., Mukherjee, M., and Schmoll, M., Eds. Wallingford: CABI, 2013a, pp. 1–9.
Scharf, D.H., Heinekamp, T., Remme, N., Hortschansky, P., Brakhage, A.A., and Hertweck, C., Biosynthesis and function of gliotoxin in Aspergillus fumigatus, Appl. Microbiol. Biotechnol., 2012, vol. 93, no. 2, pp. 467–472.
Shwab, E.K., Bok, J.W., Tribus, M., Galehr, J., Graessle, S., and Keller, N.P., Histone deacetylase activity regulates chemical diversity in Aspergillus, Eukaryot. Cell, 2007, vol. 6, no. 9, pp. 1656–1664.
Soukup, A.A., Chiang, Y.M., Bok, J.W., Reyes-Dominguez, Y., Oakley, B.R., Wang, C.C., Strauss, J., and Keller, N.P., Overexpression of the Aspergillus nidulans histone 4 acetyltransferase EsaA increases activation of secondary metabolite production, Mol. Microbiol., 2012, vol. 86, no. 2, pp. 314–330.
Welch, T.R. and Williams, R.M., Epidithiodioxopiperazines: occurrence, synthesis and biogenesis, Nat. Prod. Rep., 2014, vol. 31, no. 10, pp. 1376–1404.
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Bansal, R., Mukherjee, P.K. Identification of novel gene clusters for secondary metabolism in Trichoderma genomes. Microbiology 85, 185–190 (2016). https://doi.org/10.1134/S002626171602003X
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DOI: https://doi.org/10.1134/S002626171602003X