"Integrative genomic analysis of the bioprospection of regulators and accessory enzymes associated with cellulose degradation in a filamentous fungus (Trichoderma harzianum)"

Author(s)

Ferreira Filho, Jaire A. ; Horta, Maria Augusta C. ; dos Santos, Clelton A. ; Almeida, Deborah A. ; Murad, Natalia F. ; Mendes, Juliano S. ; Sforca, Danilo A. ; Silva, Claudio Benicio C. ; Crucello, Aline ; de Souza, Anete P.

• Document type: Journal article
• Source: BMC Genomics; v. 21, n. 1, p. 14-pg., 2020-11-02.

Abstract

Background Unveiling fungal genome structure and function reveals the potential biotechnological use of fungi. Trichoderma harzianum is a powerful CAZyme-producing fungus. We studied the genomic regions in T. harzianum IOC3844 containing CAZyme genes, transcription factors and transporters. Results We used bioinformatics tools to mine the T. harzianum genome for potential genomics, transcriptomics, and exoproteomics data and coexpression networks. The DNA was sequenced by PacBio SMRT technology for multiomics data analysis and integration. In total, 1676 genes were annotated in the genomic regions analyzed; 222 were identified as CAZymes in T. harzianum IOC3844. When comparing transcriptome data under cellulose or glucose conditions, 114 genes were differentially expressed in cellulose, with 51 being CAZymes. CLR2, a transcription factor physically and phylogenetically conserved in Trichoderma spp., was differentially expressed under cellulose conditions. The genes induced/repressed under cellulose conditions included those important for plant biomass degradation, including CIP2 of the CE15 family and a copper-dependent LPMO of the AA9 family. Conclusions Our results provide new insights into the relationship between genomic organization and hydrolytic enzyme expression and regulation in T. harzianum IOC3844. Our results can improve plant biomass degradation, which is fundamental for developing more efficient strains and/or enzymatic cocktails to produce hydrolytic enzymes. (AU)

• FAPESP's process: 14/18856-1 - Study of global gene expression and genomic regions associated with control expression of enzymes involved in the degradation of lignocellulosic compounds by Trichoderma harzianum
• Grantee: Maria Augusta Crivelente Horta
• Support Opportunities: Scholarships in Brazil - Post-Doctoral
• FAPESP's process: 16/19775-0 - Development and/or improvement of enzymatic cocktails designed for plant biomass hydrolysis: use of site-directed mutagenesis and chimeric proteins design
• Grantee: Clelton Aparecido dos Santos
• Support Opportunities: Scholarships in Brazil - Post-Doctoral
• FAPESP's process: 17/17782-2 - Transcriptional analysis of Trichoderma harzianum CBMAI-0179 during cellulose and glucose degradation
• Grantee: Déborah Aires Almeida
• Support Opportunities: Scholarships in Brazil - Master
• FAPESP's process: 17/26781-0 - Transcriptome survey of sugarcane hybrids (Saccharum spp.) and ancestral species (S. officinarum and S. spontaneum) for gene expression pattern and homoeologous interaction studies
• Grantee: Cláudio Benício Cardoso da Silva
• Support Opportunities: Scholarships abroad - Research Internship - Post-doctor
• FAPESP's process: 18/19660-4 - Elucidation of genetic mechanisms involved in the hydrolysis of plant biomass through functional genomics
• Grantee: Anete Pereira de Souza
• Support Opportunities: Regular Research Grants
• FAPESP's process: 15/09202-0 - Study of Trichoderma harzianum genomic regions associated to the control of the expression of the enzymes involved in the degradation of biomass
• Grantee: Anete Pereira de Souza
• Support Opportunities: Regular Research Grants