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Defining the genome-wide role of CRE1 during carbon catabolite repression in Trichoderma reesei using RNA-Seq analysis.
Fungal Genet Biol. 2014 Dec; 73:93-103.FG

Abstract

The ascomycete Trichoderma reesei is one of the most well-studied cellulolytic fungi and is widely used by the biotechnology industry in the production of second generation bioethanol. The carbon catabolite repression (CCR) mechanism adopted by T. reesei is mediated by the transcription factor CRE1. CCR represses genes related to cellulase production when a carbon source is readily available in the medium. Using RNA sequencing, we investigated CCR during the synthesis of cellulases, comparing the T. reesei Δcre1 mutant strain with its parental strain, QM9414. Of 9129 genes in the T. reesei genome, 268 genes were upregulated and 85 were downregulated in the presence of cellulose (Avicel). In addition, 251 genes were upregulated and 230 were downregulated in the presence of a high concentration of glucose. Genes encoding cellulolytic enzymes and transcription factors and genes related to the transport of nutrients and oxidative metabolism were also targets of CCR, mediated by CRE1 in a carbon source-dependent manner. Our results also suggested that CRE1 regulates the expression of genes related to the use of copper and iron as final electron acceptors or as cofactors of enzymes that participate in biomass degradation. As a result, the final effect of CRE1-mediated transcriptional regulation is to modulate the access of cellulolytic enzymes to cellulose polymers or blocks the entry of cellulase inducers into the cell, depending on the glucose content in the medium. These results will contribute to a better understanding of the mechanism of carbon catabolite repression in T. reesei, thereby enhancing its application in several biotechnology fields.

Authors+Show Affiliations

Department of Biochemistry and Immunology, Ribeirão Preto Medical School, University of São Paulo, 14049-900 Ribeirão Preto, SP, Brazil.Department of Biochemistry and Immunology, Ribeirão Preto Medical School, University of São Paulo, 14049-900 Ribeirão Preto, SP, Brazil.Department of Biochemistry and Immunology, Ribeirão Preto Medical School, University of São Paulo, 14049-900 Ribeirão Preto, SP, Brazil.Laboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE), Centro Nacional de Pesquisa em Energia e Materiais (CNPEM), Campinas, São Paulo, Brazil.Department of Biochemistry and Immunology, Ribeirão Preto Medical School, University of São Paulo, 14049-900 Ribeirão Preto, SP, Brazil. Electronic address: rsilva@fmrp.usp.br.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

25459535

Citation

Antoniêto, Amanda Cristina Campos, et al. "Defining the Genome-wide Role of CRE1 During Carbon Catabolite Repression in Trichoderma Reesei Using RNA-Seq Analysis." Fungal Genetics and Biology : FG & B, vol. 73, 2014, pp. 93-103.
Antoniêto AC, dos Santos Castro L, Silva-Rocha R, et al. Defining the genome-wide role of CRE1 during carbon catabolite repression in Trichoderma reesei using RNA-Seq analysis. Fungal Genet Biol. 2014;73:93-103.
Antoniêto, A. C., dos Santos Castro, L., Silva-Rocha, R., Persinoti, G. F., & Silva, R. N. (2014). Defining the genome-wide role of CRE1 during carbon catabolite repression in Trichoderma reesei using RNA-Seq analysis. Fungal Genetics and Biology : FG & B, 73, 93-103. https://doi.org/10.1016/j.fgb.2014.10.009
Antoniêto AC, et al. Defining the Genome-wide Role of CRE1 During Carbon Catabolite Repression in Trichoderma Reesei Using RNA-Seq Analysis. Fungal Genet Biol. 2014;73:93-103. PubMed PMID: 25459535.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Defining the genome-wide role of CRE1 during carbon catabolite repression in Trichoderma reesei using RNA-Seq analysis. AU - Antoniêto,Amanda Cristina Campos, AU - dos Santos Castro,Lílian, AU - Silva-Rocha,Rafael, AU - Persinoti,Gabriela Felix, AU - Silva,Roberto Nascimento, Y1 - 2014/10/18/ PY - 2014/07/07/received PY - 2014/10/09/revised PY - 2014/10/10/accepted PY - 2014/12/3/entrez PY - 2014/12/3/pubmed PY - 2015/10/6/medline KW - CRE1 KW - Carbon catabolite repression KW - RNA-Seq KW - Trichoderma reesei SP - 93 EP - 103 JF - Fungal genetics and biology : FG & B JO - Fungal Genet. Biol. VL - 73 N2 - The ascomycete Trichoderma reesei is one of the most well-studied cellulolytic fungi and is widely used by the biotechnology industry in the production of second generation bioethanol. The carbon catabolite repression (CCR) mechanism adopted by T. reesei is mediated by the transcription factor CRE1. CCR represses genes related to cellulase production when a carbon source is readily available in the medium. Using RNA sequencing, we investigated CCR during the synthesis of cellulases, comparing the T. reesei Δcre1 mutant strain with its parental strain, QM9414. Of 9129 genes in the T. reesei genome, 268 genes were upregulated and 85 were downregulated in the presence of cellulose (Avicel). In addition, 251 genes were upregulated and 230 were downregulated in the presence of a high concentration of glucose. Genes encoding cellulolytic enzymes and transcription factors and genes related to the transport of nutrients and oxidative metabolism were also targets of CCR, mediated by CRE1 in a carbon source-dependent manner. Our results also suggested that CRE1 regulates the expression of genes related to the use of copper and iron as final electron acceptors or as cofactors of enzymes that participate in biomass degradation. As a result, the final effect of CRE1-mediated transcriptional regulation is to modulate the access of cellulolytic enzymes to cellulose polymers or blocks the entry of cellulase inducers into the cell, depending on the glucose content in the medium. These results will contribute to a better understanding of the mechanism of carbon catabolite repression in T. reesei, thereby enhancing its application in several biotechnology fields. SN - 1096-0937 UR - https://www.unboundmedicine.com/medline/citation/25459535/Defining_the_genome_wide_role_of_CRE1_during_carbon_catabolite_repression_in_Trichoderma_reesei_using_RNA_Seq_analysis_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S1087-1845(14)00194-7 DB - PRIME DP - Unbound Medicine ER -