Ronald P. de Vries
A5102928197- Biofuel production and bioconversion
- Methane Hydrates and Related Phenomena
- Seismic Waves and Analysis
- Enzyme Production and Characterization
- Fungal and yeast genetics research
- Plant Pathogens and Fungal Diseases
- Microbial Metabolic Engineering and Bioproduction
- Earthquake Detection and Analysis
- Polysaccharides and Plant Cell Walls
- Fungal Biology and Applications
- Mycotoxins in Agriculture and Food
- Mycorrhizal Fungi and Plant Interactions
- Ionosphere and magnetosphere dynamics
- Geophysics and Gravity Measurements
- Enzyme-mediated dye degradation
- Solar and Space Plasma Dynamics
- Microbial Metabolites in Food Biotechnology
- Plant-Microbe Interactions and Immunity
- Fermentation and Sensory Analysis
- Biochemical and biochemical processes
- Plant Disease Resistance and Genetics
- Enzyme Catalysis and Immobilization
- Microbial Metabolism and Applications
- Microbial Natural Products and Biosynthesis
- Astrophysics and Cosmic Phenomena
Westerdijk Fungal Biodiversity Institute
2016-2025
Utrecht University
2015-2024
University Medical Center
2022
Amsterdam UMC Location University of Amsterdam
2022
University of Helsinki
2016-2020
Biocenter Finland
2019-2020
Janssen (Belgium)
2002-2019
Janssen (United States)
2019
Technical University of Denmark
2016
Brazilian Center for Research in Energy and Materials
2016
Wood is a major pool of organic carbon that highly resistant to decay, owing largely the presence lignin. The only organisms capable substantial lignin decay are white rot fungi in Agaricomycetes, which also contains non-lignin-degrading brown and ectomycorrhizal species. Comparative analyses 31 fungal genomes (12 generated for this study) suggest lignin-degrading peroxidases expanded lineage leading ancestor reconstructed as species, then contracted parallel lineages mycorrhizal Molecular...
Ustilago maydis is an important fungal pathogen of maize, causing corn smut. It well adapted to its host and proliferates in living plant tissue without inducing a defence response. The genome sequence U. has now been determined, the first for biotrophic parasite. Several gene clusters that encode secreted proteins unknown function were identified: genome-wide expression analysis shows clustered genes are upregulated during disease. Mutations these frequently affect virulence, ranging from...
The filamentous fungus Aspergillus niger is widely exploited by the fermentation industry for production of enzymes and organic acids, particularly citric acid. We sequenced 33.9-megabase genome A. CBS 513.88, ancestor currently used enzyme strains. A high level synteny was observed with other aspergilli sequenced. Strong function predictions were made 6,506 14,165 open reading frames identified. detailed description components protein secretion pathway striking differences in hydrolytic...
Sclerotinia sclerotiorum and Botrytis cinerea are closely related necrotrophic plant pathogenic fungi notable for their wide host ranges environmental persistence. These attributes have made these species models understanding the complexity of necrotrophic, broad host-range pathogenicity. Despite similarities, two differ in mating behaviour ability to produce asexual spores. We sequenced genomes one strain S. strains B. cinerea. The comparative analysis relative another other fungal is...
The plant-pathogenic fungus Mycosphaerella graminicola (asexual stage: Septoria tritici) causes septoria tritici blotch, a disease that greatly reduces the yield and quality of wheat. This is economically important in most wheat-growing areas worldwide threatens global food production. Control has been hampered by limited understanding genetic biochemical bases pathogenicity, including mechanisms infection resistance host. Unlike other plant pathogens, M. long latent period during which it...
Comparative genomic analysis of “dry rot” fungus shows both convergent evolution and divergence among fungal decomposers.
Much remains to be learned about the biology of mushrooms, which are an important source food as well secondary metabolites and enzymes biotechnological importance. Ohm et al. report sequence genetically tractable species Schizophyllum commune identify genes involved in formation fruiting bodies degradation lignocellulose. mushroom-forming fungi, food, industrial enzymes. The wood-degrading fungus is both a model for studying mushroom development likely capable efficient lignocellulosic...
The fungal genus Aspergillus is of critical importance to humankind. Species include those with industrial applications, important pathogens humans, animals and crops, a source potent carcinogenic contaminants food, an genetic model. genome sequences eight aspergilli have already been explored investigate aspects biology, raising questions about evolution specialization within this genus.We generated for ten novel, highly diverse species compared these in detail sister more distant genera....
Abstract Background Pythium ultimum is a ubiquitous oomycete plant pathogen responsible for variety of diseases on broad range crop and ornamental species. Results The P. genome (42.8 Mb) encodes 15,290 genes has extensive sequence similarity synteny with related Phytophthora species, including the potato blight infestans . Whole transcriptome sequencing revealed expression 86% genes, detectable differential suites under abiotic stress in presence host. predicted proteome includes large...
The Amsterdam Declaration on Fungal Nomenclature was agreed at an international symposium convened in 19-20 April 2011 under the auspices of International Commission Taxonomy Fungi (ICTF). purpose to address issue whether or how current system naming pleomorphic fungi should be maintained changed now that molecular data are routinely available. is urgent as mycologists currently follow different practices, and no consensus achieved by a Special Committee appointed 2005 Botanical Congress...
Agaricus bisporus is the model fungus for adaptation, persistence, and growth in humic-rich leaf-litter environment. Aside from its ecological role, A. has been an important component of human diet over 200 y worldwide cultivation "button mushroom" forms a multibillion dollar industry. We present two genomes, their gene repertoires transcript profiles on compost during mushroom formation. The genomes encode full repertoire polysaccharide-degrading enzymes similar to that wood-decayers....
Abstract Background The dung-inhabiting ascomycete fungus Podospora anserina is a model used to study various aspects of eukaryotic and fungal biology, such as ageing, prions sexual development. Results We present 10X draft sequence P. genome, linked the sequences large expressed tag collection. Similar higher eukaryotes, transcription/splicing machinery generates numerous non-conventional transcripts. Comparison genome orthologous gene set with one its close relatives, Neurospora crassa ,...
We sequenced and compared the genomes of Dothideomycete fungal plant pathogens Cladosporium fulvum (Cfu) (syn. Passalora fulva) Dothistroma septosporum (Dse) that are closely related phylogenetically, but have different lifestyles hosts. Although both fungi grow extracellularly in close contact with host mesophyll cells, Cfu is a biotroph infecting tomato, while Dse hemibiotroph pine. The these similar set genes (70% gene content homologs), differ significantly size (Cfu >61.1-Mb; 31.2-Mb),...
Efficient lignin depolymerization is unique to the wood decay basidiomycetes, collectively referred as white rot fungi. Phanerochaete chrysosporium simultaneously degrades and cellulose, whereas closely related species, Ceriporiopsis subvermispora, also depolymerizes but may do so with relatively little cellulose degradation. To investigate basis for selective ligninolysis, we conducted comparative genome analysis of C. subvermispora P. . Genes encoding manganese peroxidase numbered 13 five...
Significance Old World (sub)tropical fungus-growing termites owe their massive ecological footprints to an advanced symbiosis with Termitomyces fungi. They also have abundant gut bacteria, but the complementarity roles of these symbionts remained unclear. We analyzed genomic potential for biomass decomposition in a farming termite, its fungal symbiont, and bacterial communities. found that plant conversion is mostly multistage complementary cooperation between termite farmers primarily...
Recent publications have argued that there are potentially serious consequences for researchers in recognising distinct genera the terminal fusarioid clade of family Nectriaceae. Thus, an alternate hypothesis, namely a very broad concept genus Fusarium was proposed. In doing so, however, significant body data supports Nectriaceae based on morphology, biology, and phylogeny is disregarded. A DNA 19 orthologous protein-coding genes presented to support at F1 node Here, we demonstrate...
• Parasitism and saprotrophic wood decay are two fungal strategies fundamental for succession nutrient cycling in forest ecosystems. An opportunity to assess the trade-off between these is provided by pathogen decayer Heterobasidion annosum sensu lato. We report annotated genome sequence transcript profiling, as well quantitative trait loci mapping, of one member species complex: H. irregulare. Quantitative critical pathogenicity, rich transposable elements, orphan secreted genes, were...
Species of Pyricularia (magnaporthe-like sexual morphs) are responsible for major diseases on grasses. oryzae (sexual morph Magnaporthe ) is the disease rice called blast disease, and foliar wheat millet, while grisea Digitaria . salvinii, M. poae rhizophila produce asexual spores that differ from those sensu stricto has pyriform, 2-septate conidia produced conidiophores with sympodial proliferation. salvinii was recently allocated to Nakataea , were placed in Magnaporthiopsis To clarify...