A5042505204- Methane Hydrates and Related Phenomena
- Biofuel production and bioconversion
- Microbial Metabolic Engineering and Bioproduction
- Fungal and yeast genetics research
- Mycotoxins in Agriculture and Food
- Fungal Biology and Applications
- Mycorrhizal Fungi and Plant Interactions
- Microbial Natural Products and Biosynthesis
- Enzyme Production and Characterization
- Plant Disease Resistance and Genetics
- Polysaccharides and Plant Cell Walls
- Enzyme-mediated dye degradation
- Plant Pathogens and Fungal Diseases
- Genomics and Phylogenetic Studies
- Fermentation and Sensory Analysis
- Plant-Microbe Interactions and Immunity
- Bioinformatics and Genomic Networks
- Plant nutrient uptake and metabolism
- Enzyme Structure and Function
- Plant biochemistry and biosynthesis
- Forest Insect Ecology and Management
- Microbial Metabolism and Applications
- Geophysics and Gravity Measurements
- Legume Nitrogen Fixing Symbiosis
- Plant Gene Expression Analysis
University of Córdoba
2014-2024
Concordia University
2020-2024
Westerdijk Fungal Biodiversity Institute
2014-2023
Utrecht University
2014-2022
Radboud University Nijmegen
2014
The fungal kingdom is too large to be discovered exclusively by classical genetics. access omics data opens a new opportunity study the diversity within and how adaptation environments shapes metabolism. Genomes are foundation of modern science but their quality crucial when analysing data. In this study, we demonstrate one gold-standard genome can improve functional prediction across closely related species able identify key enzymes, reactions pathways with focus on primary carbon Based...
Aspergillus niger is one of the most widely used fungi to study conversion lignocellulosic feedstocks into fermentable sugars. Understanding sugar uptake system A. essential improve efficiency process fungal plant biomass degradation. In this study, we report a comprehensive characterization transportome by combining phylogenetic and comparative transcriptomic analyses. We identified 86 putative transporter (ST) genes based on conserved protein domain search. All these candidates were then...
The ability to obtain carbon and energy is a major requirement exist in any environment. For several ascomycete fungi, (post-)genomic analyses have shown that species occupy large variety of habitats possess diverse enzymatic machinery, while with specific habitat more focused enzyme repertoire well-adapted the prevailing substrate. White-rot basidiomycete fungi also live habitat, as they are found exclusively wood. In this study, we evaluated how well machinery white-rot fungus Dichomitus...
Basidiomycete fungi can degrade a wide range of plant biomass, including living and dead trees, forest litter, crops, matter in soils. Understanding the process biomass decay by basidiomycetes could facilitate their application various industrial sectors such as food & feed, detergents biofuels, also provide new insights into essential biological role global carbon cycle. The fast expansion basidiomycete genomic functional genomics data (e.g. transcriptomics, proteomics) has facilitated...
Fungi play a critical role in the global carbon cycle by degrading plant polysaccharides to small sugars and metabolizing them as energy sources. We mapped well-established sugar metabolic network of Aspergillus niger five taxonomically distant species (Aspergillus nidulans, Penicillium subrubescens, Trichoderma reesei, Phanerochaete chrysosporium Dichomitus squalens) using an orthology-based approach. The diversity metabolism correlates well with taxonomic distance fungi. pathways are...
In nature, the fungus Aspergillus niger degrades plant biomass polysaccharides to monomeric sugars, transports them into its cells, and uses catabolic pathways convert biochemical building blocks energy. We show that when grown in liquid cultures, A. takes up plant-biomass derived sugars a largely sequential manner. Interestingly, this uptake was not mediated by fungal general carbon catabolite repressor protein CreA. Furthermore, transcriptome analysis strongly indicated preferential use of...
Carbon catabolite repression enables fungi to utilize the most favourable carbon source in environment, and is mediated by a key regulator, CreA, fungi. CreA-mediated regulation has mainly been studied at high monosaccharide concentrations, an uncommon situation natural biotopes. In nature, many rely on plant biomass as their major producing enzymes degrade cell wall polysaccharides into metabolizable sugars. To determine role of CreA when grow more conditions particular with respect...
Abstract Thermophily is a trait scattered across the fungal tree of life, with its highest prevalence within three families (Chaetomiaceae, Thermoascaceae, and Trichocomaceae), as well some members phylum Mucoromycota. We examined 37 thermophilic thermotolerant species 42 mesophilic for this study identified thermophily ancestral state all prominent fungi. Thermophilic genomes were found to encode various thermostable enzymes, including carbohydrate-active enzymes such endoxylanases, which...
Aspergillus niger is an important fungus used in industrial applications for enzyme and acid production. To enable rational metabolic engineering of the species, available information can be collected integrated a genome-scale model to devise strategies improving its performance as host organism. In this paper, we update existing A. metabolism include from 876 publications, thereby expanding coverage by 940 reactions, 777 metabolites 454 genes. presented consensus iJB1325 , experimental data...
Trichoderma reesei is used to produce saccharifying enzyme cocktails for biofuels. There limited understanding of the transcription factors (TFs) that regulate genes involved in release and catabolism l-arabinose d-galactose, as main TF XYR1 only partially involved. Here, T. ortholog ARA1 from Pyricularia oryzae regulates releasing catabolic was deleted characterized by growth profiling transcriptomics along with a xyr1 mutant xyr1/ara1 double mutant. Our results show addition...
Summary Next to d ‐glucose, the pentoses l ‐arabinose and ‐xylose are main monosaccharide components of plant cell wall polysaccharides therefore major importance in biotechnological applications that use biomass as a substrate. Pentose catabolism is one best‐studied pathways primary metabolism Aspergillus niger , an initial outline this pathway with individual enzymes covering each step has been previously established. However, although growth on and/or most pentose catabolic (PCP) single...
The unique ability of basidiomycete white rot fungi to degrade all components plant cell walls makes them indispensable organisms in the global carbon cycle. In this study, we analyzed proteomes two closely related fungi, Obba rivulosa and Gelatoporia subvermispora, during eight-week cultivation on solid spruce wood. Plant wall degrading carbohydrate-active enzymes (CAZymes) represented approximately 5% total proteins both species. A core set orthologous CAZymes was shared between these...
The genes of the non-phosphorylative L-rhamnose catabolic pathway have been identified for several yeast species. In Schefferomyces stipitis, all are organized in a cluster, which is conserved Aspergillus niger, except lra-4 ortholog (lraD). A. niger cluster also contains gene encoding responsive transcription factor (RhaR) that has shown to control expression involved release and catabolism.In this paper, we confirmed function first three putative utilisation from through deletion. We...
Trichoderma reesei is one of the major producers enzymes for conversion plant biomass to sustainable fuels and chemicals. Crude can induce production CAZymes in T. reesei, but there limited understanding how transcriptional response crude regulated. In addition, it unknown whether induction on untreated recalcitrant (with a large diversity inducers) be sustained longer. We investigated transcriptomic two industrial feedstocks, corn stover (CS) soybean hulls (SBH), over time (4 h, 24 h 48 h),...
The white button mushroom Agaricus bisporus is one of the most widely produced edible fungus with a great economical value. Its commercial cultivation process often performed on wheat straw and animal manure based compost that mainly contains lignocellulosic material as source carbon nutrients for production. As large portion carbohydrates are left unused in current process, aim this work was to study wild-type A. strains their potential convert components poorly utilized by strain A15. We...
As a late colonizer of herbivore dung, Podospora anserina has evolved an enzymatic machinery to degrade the more recalcitrant fraction plant biomass, suggesting great potential for biotechnology applications. The authors investigated its transcriptome during growth on two industrial feedstocks, soybean hulls (SBH) and corn stover (CS). Initially, CS SBH results in expression hemicellulolytic amylolytic genes, respectively, while at later time points diverse gene set is induced, especially...
Enzymatic plant biomass degradation by fungi is a highly complex process and one of the leading challenges in developing biobased economy. Some industrial (e.g. Aspergillus niger) have long history use with respect to for that reason become 'model' species this topic. A. niger major enzyme producer has broad ability degrade based polysaccharides. wild-type, (hemi-)cellulolytic regulator (xlnR) xylulokinase (xkiA1) mutant strains were grown on monocot (corn stover, CS) dicot (soybean hulls,...