Systems Biological Approaches Towards Understanding Cellulase Production by Trichoderma Reesei

Overview

Journal J Biotechnol

Specialties Biomedical Engineering
Biotechnology

Date 2012 Jul 4

PMID 22750088

Citations 47

Authors

Christian P Kubicek

Affiliations

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Abstract

Recent progress and improvement in "-omics" technologies has made it possible to study the physiology of organisms by integrated and genome-wide approaches. This bears the advantage that the global response, rather than isolated pathways and circuits within an organism, can be investigated ("systems biology"). The sequencing of the genome of Trichoderma reesei (teleomorph Hypocrea jecorina), a fungus that serves as a major producer of biomass-degrading enzymes for the use of renewable lignocellulosic material towards production of biofuels and biorefineries, has offered the possibility to study this organism and its enzyme production on a genome wide scale. In this review, I will highlight the use of genomics, transcriptomics, proteomics and metabolomics towards an improved and novel understanding of the biochemical processes that involve in the massive overproduction of secreted proteins.

Citing Articles

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References

Hartl L, Kubicek C, Seiboth B . Induction of the gal pathway and cellulase genes involves no transcriptional inducer function of the galactokinase in Hypocrea jecorina. J Biol Chem. 2007; 282(25):18654-18659. DOI: 10.1074/jbc.M700955200. View

Seiboth B, Gamauf C, Pail M, Hartl L, Kubicek C . The D-xylose reductase of Hypocrea jecorina is the major aldose reductase in pentose and D-galactose catabolism and necessary for beta-galactosidase and cellulase induction by lactose. Mol Microbiol. 2007; 66(4):890-900. DOI: 10.1111/j.1365-2958.2007.05953.x. View

Eastwood D, Floudas D, Binder M, Majcherczyk A, Schneider P, Aerts A . The plant cell wall-decomposing machinery underlies the functional diversity of forest fungi. Science. 2011; 333(6043):762-5. DOI: 10.1126/science.1205411. View

Arvas M, Haiminen N, Smit B, Rautio J, Vitikainen M, Wiebe M . Detecting novel genes with sparse arrays. Gene. 2010; 467(1-2):41-51. PMC: 4175568. DOI: 10.1016/j.gene.2010.07.009. View

Adav S, Ravindran A, Chao L, Tan L, Singh S, Sze S . Proteomic analysis of pH and strains dependent protein secretion of Trichoderma reesei. J Proteome Res. 2011; 10(10):4579-96. DOI: 10.1021/pr200416t. View

Druzhinina I, Seidl-Seiboth V, Herrera-Estrella A, Horwitz B, Kenerley C, Monte E . Trichoderma: the genomics of opportunistic success. Nat Rev Microbiol. 2011; 9(10):749-59. DOI: 10.1038/nrmicro2637. View

Ilmen M, Thrane C, Penttila M . The glucose repressor gene cre1 of Trichoderma: isolation and expression of a full-length and a truncated mutant form. Mol Gen Genet. 1996; 251(4):451-60. DOI: 10.1007/BF02172374. View

Eveleigh D, Montenecourt B . Increasing yields of extracellular enzymes. Adv Appl Microbiol. 1979; 25:57-74. DOI: 10.1016/s0065-2164(08)70146-1. View

Strauss J, Reyes-Dominguez Y . Regulation of secondary metabolism by chromatin structure and epigenetic codes. Fungal Genet Biol. 2010; 48(1):62-9. PMC: 3935439. DOI: 10.1016/j.fgb.2010.07.009. View

10.

Kubicek C, Herrera-Estrella A, Seidl-Seiboth V, Martinez D, Druzhinina I, Thon M . Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma. Genome Biol. 2011; 12(4):R40. PMC: 3218866. DOI: 10.1186/gb-2011-12-4-r40. View

11.

Schuster A, Bruno K, Collett J, Baker S, Seiboth B, Kubicek C . A versatile toolkit for high throughput functional genomics with Trichoderma reesei. Biotechnol Biofuels. 2012; 5(1):1. PMC: 3260098. DOI: 10.1186/1754-6834-5-1. View

12.

Rautio J, Smit B, Wiebe M, Penttila M, Saloheimo M . Transcriptional monitoring of steady state and effects of anaerobic phases in chemostat cultures of the filamentous fungus Trichoderma reesei. BMC Genomics. 2006; 7:247. PMC: 1617104. DOI: 10.1186/1471-2164-7-247. View

13.

Seiboth B, Karimi R, Phatale P, Linke R, Hartl L, Sauer D . The putative protein methyltransferase LAE1 controls cellulase gene expression in Trichoderma reesei. Mol Microbiol. 2012; 84(6):1150-64. PMC: 3370264. DOI: 10.1111/j.1365-2958.2012.08083.x. View

14.

Vitikainen M, Arvas M, Pakula T, Oja M, Penttila M, Saloheimo M . Array comparative genomic hybridization analysis of Trichoderma reesei strains with enhanced cellulase production properties. BMC Genomics. 2010; 11:441. PMC: 3091638. DOI: 10.1186/1471-2164-11-441. View

15.

Foreman P, Brown D, Dankmeyer L, Dean R, Diener S, Dunn-Coleman N . Transcriptional regulation of biomass-degrading enzymes in the filamentous fungus Trichoderma reesei. J Biol Chem. 2003; 278(34):31988-97. DOI: 10.1074/jbc.M304750200. View

16.

Hammel K, Cullen D . Role of fungal peroxidases in biological ligninolysis. Curr Opin Plant Biol. 2008; 11(3):349-55. DOI: 10.1016/j.pbi.2008.02.003. View

17.

REESE E . History of the cellulase program at the U.S. army Natick Development Center. Biotechnol Bioeng Symp. 1976; (6):9-20. View

18.

Jun H, Kieselbach T, Jonsson L . Enzyme production by filamentous fungi: analysis of the secretome of Trichoderma reesei grown on unconventional carbon source. Microb Cell Fact. 2011; 10:68. PMC: 3179704. DOI: 10.1186/1475-2859-10-68. View

19.

Herpoel-Gimbert I, Margeot A, Dolla A, Jan G, Molle D, Lignon S . Comparative secretome analyses of two Trichoderma reesei RUT-C30 and CL847 hypersecretory strains. Biotechnol Biofuels. 2008; 1(1):18. PMC: 2631499. DOI: 10.1186/1754-6834-1-18. View

20.

Hinnebusch A . Translational regulation of GCN4 and the general amino acid control of yeast. Annu Rev Microbiol. 2005; 59:407-50. DOI: 10.1146/annurev.micro.59.031805.133833. View