Identificação e caracterização de genes e regiões genômicas de Trichoderma harzianum IOC3844 relacionados à degradação da biomassa vegetal   Identification and characterization of genes and genomic regions of Trichoderma harzianum IOC3844 related to plant biomass degradation  

2019 ◽  
Author(s):  
Jaire Alves Ferreira Filho
Keyword(s):  
Trichoderma Harzianum ◽  
Plant Biomass ◽  
Biomass Degradation ◽  
Plant Biomass Degradation ◽  
Genomic Regions ◽  
Identification And Characterization

scholarly journals “Integrative Genomic Analysis for the Bioprospection of Regulators and Accessory Enzymes Associated with Cellulose Degradation in a Filamentous Fungus (Trichoderma harzianum)”

2019 ◽  
Author(s):  
Jaire A. Ferreira Filho ◽  
Maria Augusta C. Horta ◽  
Clelton A. dos Santos ◽  
Deborah A. Almeida ◽  
Natália F. Murad ◽  
...  
Keyword(s):  
Trichoderma Harzianum ◽  
Plant Biomass ◽  
Cellulose Degradation ◽  
Genome Structure ◽  
Hydrolytic Enzyme ◽  
Differentially Expressed ◽  
Fungal Genome ◽  
Biomass Degradation ◽  
Plant Biomass Degradation ◽  
Genomic Regions

AbstractBackgroundUnveiling 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.ResultsWe 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 multi-omics 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 CAZymes. CLR2, a transcription factor physically and phylogenetically conserved in T. harzianum 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.ConclusionsOur 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 for the production of hydrolytic enzymes.

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

BMC Genomics ◽  
2020 ◽  
Vol 21 (1) ◽  
Author(s):  
Jaire A. Ferreira Filho ◽  
Maria Augusta C. Horta ◽  
Clelton A. dos Santos ◽  
Deborah A. Almeida ◽  
Natália F. Murad ◽  
...  
Keyword(s):  
Trichoderma Harzianum ◽  
Plant Biomass ◽  
Cellulose Degradation ◽  
Genome Structure ◽  
Hydrolytic Enzyme ◽  
Differentially Expressed ◽  
Fungal Genome ◽  
Biomass Degradation ◽  
Plant Biomass Degradation ◽  
Genomic Regions

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.

scholarly journals The synergistic actions of hydrolytic genes reveal the mechanism of Trichoderma harzianum for cellulose degradation

2020 ◽  
Author(s):  
Déborah Aires Almeida ◽  
Maria Augusta Crivelente Horta ◽  
Jaire Alves Ferreira Filho ◽  
Natália Faraj Murad ◽  
Anete Pereira de Souza
Keyword(s):  
Trichoderma Harzianum ◽  
Plant Biomass ◽  
Cellulose Degradation ◽  
Differentially Expressed ◽  
Secreted Proteins ◽  
Enzymatic Reactions ◽  
Potential Candidate ◽  
Biomass Degradation ◽  
Plant Biomass Degradation ◽  
Coexpression Networks

AbstractBioprospecting genes and proteins related to plant biomass degradation is an attractive approach for the identification of target genes for biotechnological purposes, especially genes with potential applications in the biorefinery industry that can enhance second-generation ethanol production technology. Trichoderma harzianum is a potential candidate for cellulolytic enzyme prospection and production. Herein, the enzymatic activities, transcriptome, exoproteome, and coexpression networks of the T. harzianum strain CBMAI-0179 were examined under biomass degradation conditions. We used RNA-Seq to identify differentially expressed genes (DEGs) and carbohydrate-active enzyme (CAZyme) genes related to plant biomass degradation and compared them with the genes of strains from congeneric species (T. harzianum IOC-3844 and T. atroviride CBMAI-0020). T. harzianum CBMAI-0179 harbors strain- and treatment-specific CAZyme genes and transcription factors. We detected important proteins related to biomass degradation, including β-glucosidases, endoglucanases, cellobiohydrolases, lytic polysaccharide monooxygenases, endo-1,4-β-xylanases and β-mannanases, in the exoproteome under cellulose growth conditions. Coexpression networks were constructed to explore the relationships among the genes and corresponding secreted proteins that act synergistically for cellulose degradation. An enriched cluster with degradative enzymes was described, and the subnetwork of CAZymes revealed strong correlations among the secreted proteins (AA9, GH6, GH10, GH11 and CBM1) and differentially expressed CAZyme genes (GH45, GH7, AA7 and GH1). Our results provide valuable information for future studies on the genetic regulation of plant cell wall-degrading enzymes. This knowledge can be exploited for the improvement of enzymatic reactions in biomass degradation for bioethanol production.Key pointsDifferent biotechnological approaches were used to understand the mechanism of cellulose degradation of Trichoderma spp.T. harzianum CBMAI-0179 is a potential candidate for the production of cellulolytic enzymes.Coexpression networks revealed genes and proteins acting synergistically for cellulose hydrolysis.

scholarly journals Identification and characterization of genomic regions associated with nitrogen dynamics in rice plants (Oryza sativa L.)

2008 ◽  
Vol 58 (2) ◽  
pp. 113-120 ◽  
Author(s):  
Sohei Kobayashi ◽  
Yoshimichi Fukuta ◽  
Hiroshi Takeda ◽  
Tadashi Sato ◽  
Mitsuru Osaki
Keyword(s):  
Oryza Sativa ◽  
Oryza Sativa L ◽  
Nitrogen Dynamics ◽  
Rice Plants ◽  
Genomic Regions ◽  
Identification And Characterization

scholarly journals Mycoparasitic antagonism of a Trichoderma harzianum strain isolated from banana plants in Oaxaca, Mexico

Biotecnia ◽  
2021 ◽  
Vol 23 (1) ◽  
pp. 127-134
Author(s):  
Ana Claudia Sánchez-Espinosa ◽  
José Luis Villarruel-Ordaz ◽  
Luis David Maldonado Bonilla
Keyword(s):  
Biological Control ◽  
Developing Countries ◽  
Trichoderma Harzianum ◽  
Phytopathogenic Fungi ◽  
The Novel ◽  
Panama Disease ◽  
Banana Production ◽  
Biocontrol Potential ◽  
Identification And Characterization

Bananas are important crops in developing countries with tropical climate. In Mexico, the banana production has increased, and it must be guaranteed. The Panama disease, caused by the fungus Fusarium oxysporum f.sp. cubense threatens the current banana production, for what is necessary to implement methods to protect this crop. Fungi from genus Trichoderma are natural residents of the rhizosphere. This genus comprises mycoparasite species used to control diseases caused by phytopathogenic fungi, and also benefit plant development. In this report, we present data of the identification and characterization of the novel strain Trichoderma harzianum M110 that displays antagonism and biocontrol potential in laboratory conditions. Exploration of the rhizosphere and the endophytic microbial communities might help to identify microbes adapted to banana plants that can be incorporated in organic biological control formulations that ensure production of Fusarium-free plants and healthy fruits with export quality.

scholarly journals Inter- and intra-domain functional redundancy in the rumen microbiome during plant biomass degradation

2018 ◽  
Author(s):  
Andrea Söllinger ◽  
Alexander Tøsdal Tveit ◽  
Morten Poulsen ◽  
Samantha Joan Noel ◽  
Mia Bengtsson ◽  
...  
Keyword(s):  
Temporal Dynamics ◽  
Plant Biomass ◽  
Expression Profiles ◽  
Functional Redundancy ◽  
Mitigation Strategies ◽  
Biomass Degradation ◽  
Strong Response ◽  
Plant Biomass Degradation ◽  
Rumen Microbiome ◽  
Domain Functional

AbstractBackgroundRuminant livestock is a major source of the potent greenhouse gas methane (CH4), produced by the complex rumen microbiome. Using an integrated approach, combining quantitative metatranscriptomics with gas- and volatile fatty acid (VFA) profiling, we gained fundamental insights into temporal dynamics of the cow rumen microbiome during feed degradation.ResultsThe microbiome composition was highly individual and remarkably stable within each cow, despite similar gas emission and VFA profiles between cows. Gene expression profiles revealed a fast microbial growth response to feeding, reflected by drastic increases in microbial biomass, CH4emissions and VFA concentrations. Microbiome individuality was accompanied by high inter- and intra-domain functional redundancy among pro- and eukaryotic microbiome members in the key steps of anaerobic feed degradation. Methyl-reducing but not CO2-reducing methanogens were correlated with increased CH4emissions during plant biomass degradation.ConclusionsThe major response of the rumen microbiome to feed intake was a general growth of the whole community. The high functional redundancy of the cow-individual microbiomes was possibly linked to the robust performance of the anaerobic degradation process. Furthermore, the strong response of methylotrophic methanogens is suggesting that they might play a more important role in ruminant CH4emissions than previously assumed, making them potential targets for CH4mitigation strategies.

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