MycoCosm
MycoCosm provides data access, visualization, and analysis tools for comparative genomics of fungi. MycoCosm enables users to navigate across sequenced fungal genomes, and to conduct comparative and genome-centric analyses of fungi and community annotation.
Description
More detailed information about this field from each metasource.
MycoCosm provides data access, visualization, and analysis tools for comparative genomics of fungi. MycoCosm enables users to navigate across sequenced fungal genomes, and to conduct comparative and genome-centric analyses of fungi and community annotation.
metasource: Fairsharing.orgversion: None
Genomics resources of the DOE Joint Genome Institute
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2021-04-07T11:50:35.288810
Webpage:
https://mycocosm.jgi.doe.gov/mycocosm/homeWebpage
More detailed information about this field from each metasource.
https://mycocosm.jgi.doe.gov/mycocosm/home
metasource: Fairsharing.orgversion: None
http://jgi.doe.gov/fungi
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2021-04-07T11:50:35.288810
Publications:
Publications
More detailed information about this field from each metasource.
MycoCosm portal: gearing up for 1000 fungal genomes
PMID: 24297253
metasource: Fairsharing.org
version: None
http://dx.doi.org/10.1093/nar/gkt1183
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2021-04-07T11:50:35.288810
Publications
More detailed information about this field from each metasource.
MycoCosm portal: gearing up for 1000 fungal genomes
PMID: 24297253
metasource: Fairsharing.org
version: None
http://dx.doi.org/10.1093/nar/gkt1183
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2021-04-07T11:50:35.288810
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MycoCosm portal: gearing up for 1000 fungal genomes
PubMed citations: 309.
309 articles citing: MycoCosm portal: gearing up for 1000 fungal genomes
The Transcriptomic and Phenotypic Response of the Melanized Yeast Exophiala dermatitidis to Ionizing Particle Exposure. PMID:33510728
Twists and Turns in the Salicylate Catabolism of Aspergillus terreus, Revealing New Roles of the 3-Hydroxyanthranilate Pathway. PMID:33500329
Fungal Treatment for the Valorization of Technical Soda Lignin. PMID:33435491
Bridgin connects the outer kinetochore to centromeric chromatin. PMID:33420015
Phylogenetic diversity of 200+ isolates of the ectomycorrhizal fungus Cenococcum geophilum associated with Populus trichocarpa soils in the Pacific Northwest, USA and comparison to globally distributed representatives. PMID:33406078
Comparative Genomic Analysis of Ochratoxin A Biosynthetic Cluster in Producing Fungi: New Evidence of a Cyclase Gene Involvement. PMID:33391201
Shed Light in the DaRk LineagES of the Fungal Tree of Life-STRES. PMID:33352712
Unconventional Secretion of Nigerolysins A from Aspergillus Species. PMID:33322461
Fungi.guru: Comparative genomic and transcriptomic resource for the fungi kingdom. PMID:33304470
Purification and Characterization of Two Novel Laccases from Peniophora lycii. PMID:33291231
Mycena genomes resolve the evolution of fungal bioluminescence. PMID:33229585
Phosphate availability and ectomycorrhizal symbiosis with Pinus sylvestris have independent effects on the Paxillus involutus transcriptome. PMID:33200348
Anaerobic Fungi: Past, Present, and Future. PMID:33193229
Agrobacterium tumefaciens-Mediated Genetic Transformation of the Ect-endomycorrhizal Fungus Terfezia boudieri. PMID:33143066
Plant invasion impacts on fungal community structure and function depend on soil warming and nitrogen enrichment. PMID:33141324
Transcriptome Profiling-Based Analysis of Carbohydrate-Active Enzymes in Aspergillus terreus Involved in Plant Biomass Degradation. PMID:33123513
Phylogeny and character evolution in the Dacrymycetes, and systematics of Unilacrymaceae and Dacryonaemataceae fam. nov. PMID:33116340
KITSUNE: A Tool for Identifying Empirically Optimal K-mer Length for Alignment-Free Phylogenomic Analysis. PMID:33072720
Aspergillus sydowii: Genome Analysis and Characterization of Two Heterologous Expressed, Non-redundant Xylanases. PMID:33071998
Gene Copy Number Variation Does Not Reflect Structure or Environmental Selection in Two Recently Diverged California Populations of Suillus brevipes. PMID:33051263
Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits. PMID:33046698
Independent accretion of TIM22 complex subunits in the animal and fungal lineages. PMID:33014348
BiG-FAM: the biosynthetic gene cluster families database. PMID:33010170
Proteome specialization of anaerobic fungi during ruminal degradation of recalcitrant plant fiber. PMID:32929206
Molecular Dialogues between Early Divergent Fungi and Bacteria in an Antagonism versus a Mutualism. PMID:32900811
Functional Genomics, Transcriptomics, and Proteomics Reveal Distinct Combat Strategies Between Lineages of Wood-Degrading Fungi With Redundant Wood Decay Mechanisms. PMID:32849338
Metabolic Responses of Carotenoid and Cordycepin Biosynthetic Pathways in Cordyceps militaris under Light-Programming Exposure through Genome-Wide Transcriptional Analysis. PMID:32825642
Securing a furan-based biorefinery: disclosing the genetic basis of the degradation of hydroxymethylfurfural and its derivatives in the model fungus Aspergillus nidulans. PMID:32813320
Phylogenetic origins and family classification of typhuloid fungi, with emphasis on Ceratellopsis, Macrotyphula and Typhula (Basidiomycota). PMID:32774511
Advances in understanding the evolution of fungal genome architecture. PMID:32765832
Phylogenomic Analyses of Non-Dikarya Fungi Supports Horizontal Gene Transfer Driving Diversification of Secondary Metabolism in the Amphibian Gastrointestinal Symbiont, Basidiobolus. PMID:32727924
Global Reprogramming of Gene Transcription in Trichoderma reesei by Overexpressing an Artificial Transcription Factor for Improved Cellulase Production and Identification of Ypr1 as an Associated Regulator. PMID:32719779
Glucose counteracts wood-dependent induction of lignocellulolytic enzyme secretion in monokaryon and dikaryon submerged cultures of the white-rot basidiomycete Pleurotus ostreatus. PMID:32709970
Functional Validation of Two Fungal Subfamilies in Carbohydrate Esterase Family 1 by Biochemical Characterization of Esterases From Uncharacterized Branches. PMID:32671051
Metabolomic Analysis of Aspergillus niger Isolated From the International Space Station Reveals Enhanced Production Levels of the Antioxidant Pyranonigrin A. PMID:32670208
Draft genomic sequence of Armillaria gallica 012m: insights into its symbiotic relationship with Gastrodia elata. PMID:32572836
The GTPase-activating protein p120RasGAP has an evolutionarily conserved "FLVR-unique" SH2 domain. PMID:32540970
Oak displays common local but specific distant gene regulation responses to different mycorrhizal fungi. PMID:32532205
Conserved white-rot enzymatic mechanism for wood decay in the Basidiomycota genus Pycnoporus. PMID:32531032
The Architecture of Metabolism Maximizes Biosynthetic Diversity in the Largest Class of Fungi. PMID:32421770
Description of a Novel Mycovirus in the Phytopathogen Fusarium culmorum and a Related EVE in the Yeast Lipomyces starkeyi. PMID:32397544
EffHunter: A Tool for Prediction of Effector Protein Candidates in Fungal Proteomic Databases. PMID:32375409
Pathogenomics and Management of Fusarium Diseases in Plants. PMID:32369942
The Dark Side of Orchid Symbiosis: Can Tulasnella calospora Decompose Host Tissues? PMID:32365577
Genome sequencing and comparison of five Tilletia species to identify candidate genes for the detection of regulated species infecting wheat. PMID:32355611
Structural basis of ER-associated protein degradation mediated by the Hrd1 ubiquitin ligase complex. PMID:32327568
Unravelling the Role of Melanin in Cd and Zn Tolerance and Accumulation of Three Dark Septate Endophytic Species. PMID:32276491
Distinct Life Histories Impact Dikaryotic Genome Evolution in the Rust Fungus Puccinia striiformis Causing Stripe Rust in Wheat. PMID:32271913
Seeking the Roles for Fungal Small-Secreted Proteins in Affecting Saprophytic Lifestyles. PMID:32265881
Genome sequencing of Rigidoporus microporus provides insights on genes important for wood decay, latex tolerance and interspecific fungal interactions. PMID:32251355
Genomic Features of Cladobotryum dendroides, Which Causes Cobweb Disease in Edible Mushrooms, and Identification of Genes Related to Pathogenicity and Mycoparasitism. PMID:32245129
101 Dothideomycetes genomes: A test case for predicting lifestyles and emergence of pathogens. PMID:32206138
Unmatched Level of Molecular Convergence among Deeply Divergent Complex Multicellular Fungi. PMID:32191325
Fungal communities associated with Heterodera glycines and their potential in biological control: a current update. PMID:32180383
Genome-wide annotation, comparison and functional genomics of carbohydrate-active enzymes in legumes infecting Fusarium oxysporum formae speciales. PMID:32128282
Systematic metadata analysis of brown rot fungi gene expression data reveals the genes involved in Fenton's reaction and wood decay process. PMID:32128279
A comparative genomics study of 23 Aspergillus species from section Flavi. PMID:32107379
Draft Genome Assemblies of Ionic Liquid-Resistant Yarrowia lipolytica PO1f and Its Superior Evolved Strain, YlCW001. PMID:32107299
A Resequencing-Based Ultradense Genetic Map of Hericium erinaceus for Anchoring Genome Sequences and Identifying Genetic Loci Associated With Monokaryon Growth. PMID:32082271
Diversity, structure, and synteny of the cutinase gene of Colletotrichum species. PMID:32076525
Comparative genomics applied to Mucor species with different lifestyles. PMID:32039703
Evolutionary Histories of Type III Polyketide Synthases in Fungi. PMID:32038517
Quantitative global studies reveal differential translational control by start codon context across the fungal kingdom. PMID:32020195
DIX Domain Polymerization Drives Assembly of Plant Cell Polarity Complexes. PMID:32004461
Novel phylogenetic methods are needed for understanding gene function in the era of mega-scale genome sequencing. PMID:31943056
Fungal community assembly in drought-stressed sorghum shows stochasticity, selection, and universal ecological dynamics. PMID:31911594
Enzyme Activity Profiles Produced on Wood and Straw by Four Fungi of Different Decay Strategies. PMID:31906600
Characterization of a Maltase from an Early-Diverged Non-Conventional Yeast Blastobotrys adeninivorans. PMID:31906253
Genomic biosurveillance of forest invasive alien enemies: A story written in code. PMID:31892946
In silico definition of new ligninolytic peroxidase sub-classes in fungi and putative relation to fungal life style. PMID:31889110
Insight into plant cell wall degradation and pathogenesis of Ganoderma boninense via comparative genome analysis. PMID:31879570
Network analysis exposes core functions in major lifestyles of fungal and oomycete plant pathogens. PMID:31878885
Draft Genome Sequence of the Ectomycorrhizal Ascomycete Sphaerosporella brunnea. PMID:31831604
Integrative Activity of Mating Loci, Environmentally Responsive Genes, and Secondary Metabolism Pathways during Sexual Development of Chaetomium globosum. PMID:31822585
Site-Selective C-H Halogenation Using Flavin-Dependent Halogenases Identified via Family-Wide Activity Profiling. PMID:31807686
Genomic and proteomic biases inform metabolic engineering strategies for anaerobic fungi. PMID:31799118
Collaborative Annotation Redefines Gene Sets for Crucial Phytopathogens. PMID:31787936
Endo-β-1,3-glucanase (GH16 Family) from Trichoderma harzianum Participates in Cell Wall Biogenesis but Is Not Essential for Antagonism Against Plant Pathogens. PMID:31779176
PHI-base: the pathogen-host interactions database. PMID:31733065
Functional exploration of co-expression networks identifies a nexus for modulating protein and citric acid titres in Aspergillus niger submerged culture. PMID:31728200
Fungal Adaptation to the Advanced Stages of Wood Decomposition: Insights from the Steccherinum ochraceum. PMID:31694151
Early Diverging Fungus Mucor circinelloides Lacks Centromeric Histone CENP-A and Displays a Mosaic of Point and Regional Centromeres. PMID:31679929
Purification and characterization of an endo-xylanase from Trichoderma sp., with xylobiose as the main product from xylan hydrolysis. PMID:31673786
CRISPR/Cas9-Mediated Gene Replacement in the Fungal Keratitis Pathogen Fusarium solani var. petroliphilum. PMID:31623147
Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger. PMID:31612133
Differential interaction of the dark septate endophyte Cadophora sp. and fungal pathogens in vitro and in planta. PMID:31609451
Comparative Genomics and Transcriptomics To Analyze Fruiting Body Development in Filamentous Ascomycetes. PMID:31604798
Comparative transcriptomics of Gymnosporangium spp. teliospores reveals a conserved genetic program at this specific stage of the rust fungal life cycle. PMID:31597570
Genome expansion by allopolyploidization in the fungal strain Coniochaeta 2T2.1 and its exceptional lignocellulolytic machinery. PMID:31572496
Identification of a Polyketide Synthase Gene Responsible for Ascochitine Biosynthesis in Ascochyta fabae and Its Abrogation in Sister Taxa. PMID:31554725
Soil Metatranscriptomes Under Long-Term Experimental Warming and Drying: Fungi Allocate Resources to Cell Metabolic Maintenance Rather Than Decay. PMID:31551941
Myceliophthora thermophila Xyr1 is predominantly involved in xylan degradation and xylose catabolism. PMID:31534479
Phyllosticta citricarpa and sister species of global importance to Citrus. PMID:31512371
Insights into an unusual Auxiliary Activity 9 family member lacking the histidine brace motif of lytic polysaccharide monooxygenases. PMID:31471321
Molecular Dating of the Emergence of Anaerobic Rumen Fungi and the Impact of Laterally Acquired Genes. PMID:31455637
Heterologous Production and Functional Characterization of Ageritin, a Novel Type of Ribotoxin Highly Expressed during Fruiting of the Edible Mushroom Agrocybe aegerita. PMID:31444206
New perspectives on the plant PARP family: Arabidopsis PARP3 is inactive, and PARP1 exhibits predominant poly (ADP-ribose) polymerase activity in response to DNA damage. PMID:31426748
A RID-like putative cytosine methyltransferase homologue controls sexual development in the fungus Podospora anserina. PMID:31412020
MycopathologiaGENOMES: The New 'Home' for the Publication of Fungal Genomes. PMID:31399887
Appressorium: The Breakthrough in Dikarya. PMID:31382649
Molecular Detection of the Seed-Borne Pathogen Colletotrichum lupini Targeting the Hyper-Variable IGS Region of the Ribosomal Cluster. PMID:31337095
Enzymes of early-diverging, zoosporic fungi. PMID:31309267
ParaDB: A manually curated database containing genomic annotation for the human pathogenic fungi Paracoccidioides spp. PMID:31306428
The fungal gene cluster for biosynthesis of the antibacterial agent viriditoxin. PMID:31304040
GeneHunt for rapid domain-specific annotation of glycoside hydrolases. PMID:31300677
Distribution and Diversity of Cytochrome P450 Monooxygenases in the Fungal Class Tremellomycetes. PMID:31200551
Distribution, Characteristics, and Regulatory Potential of Long Noncoding RNAs in Brown-Rot Fungi. PMID:31192251
Evolution and comparative genomics of the most common Trichoderma species. PMID:31189469
Peptide-based functional annotation of carbohydrate-active enzymes by conserved unique peptide patterns (CUPP). PMID:31168320
Cyberbiosecurity Challenges of Pathogen Genome Databases. PMID:31157218
A few Ascomycota taxa dominate soil fungal communities worldwide. PMID:31147554
Genome Analysis of Hypomyces perniciosus, the Causal Agent of Wet Bubble Disease of Button Mushroom (Agaricus bisporus). PMID:31146507
Genome description of Phlebia radiata 79 with comparative genomics analysis on lignocellulose decomposition machinery of phlebioid fungi. PMID:31138126
High-throughput targeted gene deletion in the model mushroom Schizophyllum commune using pre-assembled Cas9 ribonucleoproteins. PMID:31113995
Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts. PMID:31112549
A family AA5_2 carbohydrate oxidase from Penicillium rubens displays functional overlap across the AA5 family. PMID:31091286
Co-cultivation of the anaerobic fungus Anaeromyces robustus with Methanobacterium bryantii enhances transcription of carbohydrate active enzymes. PMID:31089985
Model Choice, Missing Data, and Taxon Sampling Impact Phylogenomic Inference of Deep Basidiomycota Relationships. PMID:31062852
Distribution and Evolution of Nonribosomal Peptide Synthetase Gene Clusters in the Ceratocystidaceae. PMID:31052158
Draft Genome Sequences of Three Monokaryotic Isolates of the White-Rot Basidiomycete Fungus Dichomitus squalens. PMID:31048399
Metadata Analysis Approaches for Understanding and Improving the Functional Involvement of Rumen Microbial Consortium in Digestion and Metabolism of Plant Biomass. PMID:31001361
Moulding the mould: understanding and reprogramming filamentous fungal growth and morphogenesis for next generation cell factories. PMID:30988699
Tracking of enzymatic biomass deconstruction by fungal secretomes highlights markers of lignocellulose recalcitrance. PMID:30976326
Genome sequence analysis of the fairy ring-forming fungus Lepista sordida and gene candidates for interaction with plants. PMID:30971747
Non-canonical fungal G-protein coupled receptors promote Fusarium head blight on wheat. PMID:30934025
Combining microfluidics and RNA-sequencing to assess the inducible defensome of a mushroom against nematodes. PMID:30909884
AYbRAH: a curated ortholog database for yeasts and fungi spanning 600 million years of evolution. PMID:30893420
Megaphylogeny resolves global patterns of mushroom evolution. PMID:30886374
Surveying of acid-tolerant thermophilic lignocellulolytic fungi in Vietnam reveals surprisingly high genetic diversity. PMID:30842513
Mapping the Fungal Battlefield: Using in situ Chemistry and Deletion Mutants to Monitor Interspecific Chemical Interactions Between Fungi. PMID:30837981
In silico analysis of fungal small RNA accumulation reveals putative plant mRNA targets in the symbiosis between an arbuscular mycorrhizal fungus and its host plant. PMID:30832582
Diversity, spatial distribution and activity of fungi in freshwater ecosystems. PMID:30809429
Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics. PMID:30783571
Genome Sequencing of Cladobotryum protrusum Provides Insights into the Evolution and Pathogenic Mechanisms of the Cobweb Disease Pathogen on Cultivated Mushroom. PMID:30744046
Genomic Insights into the Rice Blast Fungus through Estimation of Gene Emergence Time in Phylogenetic Context. PMID:30637144
Genomic and Genetic Insights Into a Cosmopolitan Fungus, Paecilomyces variotii (Eurotiales). PMID:30619145
Assignment of a dubious gene cluster to melanin biosynthesis in the tomato fungal pathogen Cladosporium fulvum. PMID:30596695
Genomic Signals of Adaptation towards Mutualism and Sociality in Two Ambrosia Beetle Complexes. PMID:30583535
The soil organic matter decomposition mechanisms in ectomycorrhizal fungi are tuned for liberating soil organic nitrogen. PMID:30538275
Draft Genome Assemblies of Five Robust Yarrowia lipolytica Strains Exhibiting High Lipid Production, Pentose Sugar Utilization, and Sugar Alcohol Secretion from Undetoxified Lignocellulosic Biomass Hydrolysates. PMID:30533660
Regulation of Yeast-to-Hyphae Transition in Yarrowia lipolytica. PMID:30518677
Updating genome annotation for the microbial cell factory Aspergillus niger using gene co-expression networks. PMID:30496528
Genetically encodable bioluminescent system from fungi. PMID:30478037
Drought increases the frequencies of fungal functional genes related to carbon and nitrogen acquisition. PMID:30462680
The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi. PMID:30425417
Evolution of asexual and sexual reproduction in the aspergilli. PMID:30425416
Duplications and losses of genes encoding known elements of the stress defence system of the Aspergilli contribute to the evolution of these filamentous fungi but do not directly influence their environmental stress tolerance. PMID:30425415
Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum. PMID:30415838
FlbA-Regulated Gene rpnR Is Involved in Stress Resistance and Impacts Protein Secretion when Aspergillus niger Is Grown on Xylose. PMID:30413474
Hydrolysis of untreated lignocellulosic feedstock is independent of S-lignin composition in newly classified anaerobic fungal isolate, Piromyces sp. UH3-1. PMID:30386430
Genome-wide overview of Trichosporon akiyoshidainum HP-2023, new insights into its mechanism of dye discoloration. PMID:30306009
Induction of antibacterial proteins and peptides in the coprophilous mushroom Coprinopsis cinerea in response to bacteria. PMID:30301946
Leveraging single-cell genomics to expand the fungal tree of life. PMID:30297742
Oxidoreductases and Reactive Oxygen Species in Conversion of Lignocellulosic Biomass. PMID:30257993
Diversity and Evolution of Sensor Histidine Kinases in Eukaryotes. PMID:30252070
Intrinsic cooperativity potentiates parallel cis-regulatory evolution. PMID:30198843
Comparative study of genome-wide plant biomass-degrading CAZymes in white rot, brown rot and soft rot fungi. PMID:30123665
Diverse data supports the transition of filamentous fungal model organisms into the post-genomics era. PMID:30123633
The Evolutionary Conserved γ-Core Motif Influences the Anti-Candida Activity of the Penicillium chrysogenum Antifungal Protein PAF. PMID:30079061
Exploring the biological roles of Dothideomycetes ABC proteins: Leads from their phylogenetic relationships with functionally-characterized Ascomycetes homologs. PMID:30071023
Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass. PMID:30061923
Multiple independent origins for a subtelomeric locus associated with growth rate in Fusarium circinatum. PMID:30018870
Genome Mining of Non-Conventional Yeasts: Search and Analysis of MAL Clusters and Proteins. PMID:30013016
Draft Genome Sequence of the Patulin-Producing Fungus Paecilomyces niveus Strain CO7. PMID:29930063
Draft Genome Sequence of Tuber borchii Vittad., a Whitish Edible Truffle. PMID:29930051
Uncovering global metabolic response to cordycepin production in Cordyceps militaris through transcriptome and genome-scale network-driven analysis. PMID:29915355
The genome of Rhizophagus clarus HR1 reveals a common genetic basis for auxotrophy among arbuscular mycorrhizal fungi. PMID:29914365
MARDy: Mycology Antifungal Resistance Database. PMID:29897419
Distinct Substrate Specificities and Electron-Donating Systems of Fungal Lytic Polysaccharide Monooxygenases. PMID:29896168
Genome-wide analysis of cytochrome P450s of Trichoderma spp.: annotation and evolutionary relationships. PMID:29881631
How a fungus shapes biotechnology: 100 years of Aspergillus niger research. PMID:29850025
The Hydrophobin-Like OmSSP1 May Be an Effector in the Ericoid Mycorrhizal Symbiosis. PMID:29765384
Structure of the DASH/Dam1 complex shows its role at the yeast kinetochore-microtubule interface. PMID:29724956
Characterization of a feruloyl esterase from Aspergillus terreus facilitates the division of fungal enzymes from Carbohydrate Esterase family 1 of the carbohydrate-active enzymes (CAZy) database. PMID:29697197
Comparative genomics provides insights into the lifestyle and reveals functional heterogeneity of dark septate endophytic fungi. PMID:29679020
Evidence for loss and reacquisition of alcoholic fermentation in a fructophilic yeast lineage. PMID:29648535
Massive lateral transfer of genes encoding plant cell wall-degrading enzymes to the mycoparasitic fungus Trichoderma from its plant-associated hosts. PMID:29630596
Sesquiterpene Synthase-3-Hydroxy-3-Methylglutaryl Coenzyme A Synthase Fusion Protein Responsible for Hirsutene Biosynthesis in Stereum hirsutum. PMID:29625976
Draft Genome Sequence of the Basidiomycete White-Rot Fungus Phlebia centrifuga. PMID:29622620
Phylogenomic and comparative analysis of the distribution and regulatory patterns of TPP riboswitches in fungi. PMID:29615754
Robust DNA Isolation and High-throughput Sequencing Library Construction for Herbarium Specimens. PMID:29578505
Trees, fungi and bacteria: tripartite metatranscriptomics of a root microbiome responding to soil contamination. PMID:29562928
Molecular Networks of Postia placenta Involved in Degradation of Lignocellulosic Biomass Revealed from Metadata Analysis of Open Access Gene Expression Data. PMID:29559843
Genome-Wide Analysis of Corynespora cassiicola Leaf Fall Disease Putative Effectors. PMID:29551995
Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides. PMID:29521624
Deciphering lignocellulose deconstruction by the white rot fungus Irpex lacteus based on genomic and transcriptomic analyses. PMID:29507610
Genome-Enhanced Detection and Identification (GEDI) of plant pathogens. PMID:29492338
A Near-Complete Haplotype-Phased Genome of the Dikaryotic Wheat Stripe Rust Fungus Puccinia striiformis f. sp. tritici Reveals High Interhaplotype Diversity. PMID:29463659
Anthropogenic N Deposition Alters the Composition of Expressed Class II Fungal Peroxidases. PMID:29453258
The Functional Specialization of Exomer as a Cargo Adaptor During the Evolution of Fungi. PMID:29437703
ATNT: an enhanced system for expression of polycistronic secondary metabolite gene clusters in Aspergillus niger. PMID:29270299
Spontaneous and CRISPR/Cas9-induced mutation of the osmosensor histidine kinase of the canola pathogen Leptosphaeria maculans. PMID:29270298
Conservation of Nonsense-Mediated mRNA Decay Complex Components Throughout Eukaryotic Evolution. PMID:29192227
Bacterial endosymbionts influence host sexuality and reveal reproductive genes of early divergent fungi. PMID:29184190
The gut mycobiome of the Human Microbiome Project healthy cohort. PMID:29178920
Comparative genomics of Coniophora olivacea reveals different patterns of genome expansion in Boletales. PMID:29145801
A role for small secreted proteins (SSPs) in a saprophytic fungal lifestyle: Ligninolytic enzyme regulation in Pleurotus ostreatus. PMID:29109463
Comparative analysis of genome sequences of the conifer tree pathogen, Heterobasidion annosum s.s. PMID:29085779
Development of fungal cell factories for the production of secondary metabolites: Linking genomics and metabolism. PMID:29062956
A conserved fungal glycosyltransferase facilitates pathogenesis of plants by enabling hyphal growth on solid surfaces. PMID:29020037
PCR and Omics Based Techniques to Study the Diversity, Ecology and Biology of Anaerobic Fungi: Insights, Challenges and Opportunities. PMID:28993761
A Comparison of Microsatellites in Phytopathogenic Aspergillus Species in Order to Develop Markers for the Assessment of Genetic Diversity among Its Isolates. PMID:28979242
The FlbA-regulated predicted transcription factor Fum21 of Aspergillus niger is involved in fumonisin production. PMID:28965153
A silver bullet in a golden age of functional genomics: the impact of Agrobacterium-mediated transformation of fungi. PMID:28955474
Draft genome sequence of a monokaryotic model brown-rot fungus Postia (Rhodonia) placenta SB12. PMID:28831381
A plant pathology perspective of fungal genome sequencing. PMID:28824836
A genome Tree of Life for the Fungi kingdom. PMID:28808018
Fungal Sex: The Basidiomycota. PMID:28597825
A parts list for fungal cellulosomes revealed by comparative genomics. PMID:28555641
Filamentous ascomycete genomes provide insights into Copia retrotransposon diversity in fungi. PMID:28545447
Transcription Factors in Fungi: TFome Dynamics, Three Major Families, and Dual-Specificity TFs. PMID:28523015
Cytochrome P450 diversity in the tree of life. PMID:28502748
Boosting LPMO-driven lignocellulose degradation by polyphenol oxidase-activated lignin building blocks. PMID:28491137
Widespread adenine N6-methylation of active genes in fungi. PMID:28481340
A fungal transcription factor essential for starch degradation affects integration of carbon and nitrogen metabolism. PMID:28467421
Comparative analysis of the predicted secretomes of Rosaceae scab pathogens Venturia inaequalis and V. pirina reveals expanded effector families and putative determinants of host range. PMID:28464870
Comparative Genomics of the Ectomycorrhizal Sister Species Rhizopogon vinicolor and Rhizopogon vesiculosus (Basidiomycota: Boletales) Reveals a Divergence of the Mating Type B Locus. PMID:28450370
Recognition of corn defense chitinases by fungal polyglycine hydrolases. PMID:28383143
Transcription factors of Schizophyllum commune involved in mushroom formation and modulation of vegetative growth. PMID:28331193
Lentinula edodes Genome Survey and Postharvest Transcriptome Analysis. PMID:28314725
Distribution and diversity of enzymes for polysaccharide degradation in fungi. PMID:28302998
Gene expression metadata analysis reveals molecular mechanisms employed by Phanerochaete chrysosporium during lignin degradation and detoxification of plant extractives. PMID:28275822
Genomic Data Quality Impacts Automated Detection of Lateral Gene Transfer in Fungi. PMID:28235827
Genome Sequence of the Basidiomycete White-Rot Fungus Trametes pubescens FBCC735. PMID:28232439
ToxGen: an improved reference database for the identification of type B-trichothecene genotypes in Fusarium. PMID:28229023
Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus. PMID:28196534
Online Databases for Taxonomy and Identification of Pathogenic Fungi and Proposal for a Cloud-Based Dynamic Data Network Platform. PMID:28179406
The Identification of Phytohormone Receptor Homologs in Early Diverging Fungi Suggests a Role for Plant Sensing in Land Colonization by Fungi. PMID:28143977
Distinct Growth and Secretome Strategies for Two Taxonomically Divergent Brown Rot Fungi. PMID:28130302
Draft Genome Sequence of Coniochaeta ligniaria NRRL 30616, a Lignocellulolytic Fungus for Bioabatement of Inhibitors in Plant Biomass Hydrolysates. PMID:28126934
Metadata Analysis of Phanerochaete chrysosporium Gene Expression Data Identified Common CAZymes Encoding Gene Expression Profiles Involved in Cellulose and Hemicellulose Degradation. PMID:28123349
Resolved phylogeny and biogeography of the root pathogen Armillaria and its gasteroid relative, Guyanagaster. PMID:28122504
Clinical and biological insights from viral genome sequencing. PMID:28090077
Comparative Transcriptomic Analysis of Virulence Factors in Leptosphaeria maculans during Compatible and Incompatible Interactions with Canola. PMID:27990146
Uniclust databases of clustered and deeply annotated protein sequences and alignments. PMID:27899574
Four Inducible Promoters for Controlled Gene Expression in the Oleaginous Yeast Rhodotorula toruloides. PMID:27818654
Secondary metabolite gene clusters in the entomopathogen fungus Metarhizium anisopliae: genome identification and patterns of expression in a cuticle infection model. PMID:27801295
Unearthing the roots of ectomycorrhizal symbioses. PMID:27795567
Genomes OnLine Database (GOLD) v.6: data updates and feature enhancements. PMID:27794040
EumicrobeDBLite: a lightweight genomic resource and analytic platform for draft oomycete genomes. PMID:27785876
Crystal Structure of Saccharomyces cerevisiae ECM4, a Xi-Class Glutathione Transferase that Reacts with Glutathionyl-(hydro)quinones. PMID:27736955
Draft Genome Sequence of the White-Rot Fungus Obba rivulosa 3A-2. PMID:27634999
Molecular evolutionary dynamics of cytochrome P450 monooxygenases across kingdoms: Special focus on mycobacterial P450s. PMID:27616185
Visual Comparative Omics of Fungi for Plant Biomass Deconstruction. PMID:27605927
Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum. PMID:27601008
All that glitters is not Ramularia. PMID:27570325
Comparative genomics of biotechnologically important yeasts. PMID:27535936
Combating a Global Threat to a Clonal Crop: Banana Black Sigatoka Pathogen Pseudocercospora fijiensis (Synonym Mycosphaerella fijiensis) Genomes Reveal Clues for Disease Control. PMID:27512984
Scaling up discovery of hidden diversity in fungi: impacts of barcoding approaches. PMID:27481788
Emergence of plant and rhizospheric microbiota as stable interactomes. PMID:27468993
Comparative Analysis of Secretome Profiles of Manganese(II)-Oxidizing Ascomycete Fungi. PMID:27434633
IMA Genome-F 6: Draft genome sequences of Armillaria fuscipes, Ceratocystiopsis minuta, Ceratocystis adiposa, Endoconidiophora laricicola, E. polonica and Penicillium freii DAOMC 242723. PMID:27433447
Bioinformatics Prediction of Polyketide Synthase Gene Clusters from Mycosphaerella fijiensis. PMID:27388157
Metagenomics and Bioinformatics in Microbial Ecology: Current Status and Beyond. PMID:27383682
Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles. PMID:27294409
Cloning, expression and characterization of a novel cold-active and organic solvent-tolerant esterase from Monascus ruber M7. PMID:27209523
LAMP Detection Assays for Boxwood Blight Pathogens: A Comparative Genomics Approach. PMID:27199028
Involvement of FST1 from Fusarium verticillioides in virulence and transport of inositol. PMID:27195938
Phosphorylation of spore coat proteins by a family of atypical protein kinases. PMID:27185916
Draft Genome Sequence of Microdochium bolleyi, a Dark Septate Fungal Endophyte of Beach Grass. PMID:27125481
Transcriptome and Secretome Analyses of the Wood Decay Fungus Wolfiporia cocos Support Alternative Mechanisms of Lignocellulose Conversion. PMID:27107121
Horizontally acquired genes in early-diverging pathogenic fungi enable the use of host nucleosides and nucleotides. PMID:27035945
Candida albicans Agglutinin-Like Sequence (Als) Family Vignettes: A Review of Als Protein Structure and Function. PMID:27014205
Improved High-Quality Draft Genome Sequence of the Eurypsychrophile Rhodotorula sp. JG1b, Isolated from Permafrost in the Hyperarid Upper-Elevation McMurdo Dry Valleys, Antarctica. PMID:26988035
Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage. PMID:26973616
Revisiting phylogenetic diversity and cryptic species of Cenococcum geophilum sensu lato. PMID:26968743
Full Genome of Phialocephala scopiformis DAOMC 229536, a Fungal Endophyte of Spruce Producing the Potent Anti-Insectan Compound Rugulosin. PMID:26950333
Maltase protein of Ogataea (Hansenula) polymorpha is a counterpart to the resurrected ancestor protein ancMALS of yeast maltases and isomaltases. PMID:26919272
Genome-Wide Identification of Mitogen-Activated Protein Kinase Gene Family across Fungal Lineage Shows Presence of Novel and Diverse Activation Loop Motifs. PMID:26918378
One fungus, which genes? Development and assessment of universal primers for potential secondary fungal DNA barcodes. PMID:26823635
Biocatalytic portfolio of Basidiomycota. PMID:26812494
Comprehensive curation and analysis of fungal biosynthetic gene clusters of published natural products. PMID:26808821
Enhanced degradation of softwood versus hardwood by the white-rot fungus Pycnoporus coccineus. PMID:26692083
Comparative Analysis of Secretomes from Ectomycorrhizal Fungi with an Emphasis on Small-Secreted Proteins. PMID:26635749
Genome-Wide Annotation and Comparative Analysis of Cytochrome P450 Monooxygenases in Basidiomycete Biotrophic Plant Pathogens. PMID:26536121
Dimensions of Horizontal Gene Transfer in Eukaryotic Microbial Pathogens. PMID:26513155
Lignocellulose-converting enzyme activity profiles correlate with molecular systematics and phylogeny grouping in the incoherent genus Phlebia (Polyporales, Basidiomycota). PMID:26482661
Characterization of Cercospora nicotianae Hypothetical Proteins in Cercosporin Resistance. PMID:26474162
HGT-Finder: A New Tool for Horizontal Gene Transfer Finding and Application to Aspergillus genomes. PMID:26473921
Recombinant protein production facility for fungal biomass-degrading enzymes using the yeast Pichia pastoris. PMID:26441929
Genome sequence of the plant growth promoting endophytic yeast Rhodotorula graminis WP1. PMID:26441909
Pathogen-regulated genes in wheat isogenic lines differing in resistance to brown rust Puccinia triticina. PMID:26438375
A Novel Type Pathway-Specific Regulator and Dynamic Genome Environments of a Solanapyrone Biosynthesis Gene Cluster in the Fungus Ascochyta rabiei. PMID:26342019
Basidioascus undulatus: genome, origins, and sexuality. PMID:26203425
Genomics and Transcriptomics Analyses of the Oil-Accumulating Basidiomycete Yeast Trichosporon oleaginosus: Insights into Substrate Utilization and Alternative Evolutionary Trajectories of Fungal Mating Systems. PMID:26199329
Widespread Polycistronic Transcripts in Fungi Revealed by Single-Molecule mRNA Sequencing. PMID:26177194
Diversity and evolution of cytochrome P450 monooxygenases in Oomycetes. PMID:26129850
Comparative Transcriptome Analysis of the Cosmopolitan Marine Fungus Corollospora maritima Under Two Physiological Conditions. PMID:26116293
Degradation of Bunker C Fuel Oil by White-Rot Fungi in Sawdust Cultures Suggests Potential Applications in Bioremediation. PMID:26111162
Novel Introner-Like Elements in fungi Are Involved in Parallel Gains of Spliceosomal Introns. PMID:26046656
Identification of Allorecognition Loci in Neurospora crassa by Genomics and Evolutionary Approaches. PMID:26025978
Fungal traits that drive ecosystem dynamics on land. PMID:25971588
Polyglycine hydrolases: Fungal β-lactamase-like endoproteases that cleave polyglycine regions within plant class IV chitinases. PMID:25966977
Phytochelatin synthase is required for tolerating metal toxicity in a basidiomycete yeast and is a conserved factor involved in metal homeostasis in fungi. PMID:25926993
The diversity of fungal genome. PMID:25866485
Evolution of novel wood decay mechanisms in Agaricales revealed by the genome sequences of Fistulina hepatica and Cylindrobasidium torrendii. PMID:25683379
Molecular diversity of LysM carbohydrate-binding motifs in fungi. PMID:25589417
PCR primers to study the diversity of expressed fungal genes encoding lignocellulolytic enzymes in soils using high-throughput sequencing. PMID:25545363
The Pathogen-Host Interactions database (PHI-base): additions and future developments. PMID:25414340
Diversity and variability of NOD-like receptors in fungi. PMID:25398782
Solution hybrid selection capture for the recovery of functional full-length eukaryotic cDNAs from complex environmental samples. PMID:25281543
A dipeptide transporter from the arbuscular mycorrhizal fungus Rhizophagus irregularis is upregulated in the intraradical phase. PMID:25232358
Duplications and losses in gene families of rust pathogens highlight putative effectors. PMID:25018762
Genome sequencing of four Aureobasidium pullulans varieties: biotechnological potential, stress tolerance, and description of new species. PMID:24984952
Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi. PMID:24958869
Assessment and refinement of eukaryotic gene structure prediction with gene-structure-aware multiple protein sequence alignment. PMID:24927652
Draft Genome Sequence of a Rare Smut Relative, Tilletiaria anomala UBC 951. PMID:24926052
Secretome analysis reveals effector candidates associated with broad host range necrotrophy in the fungal plant pathogen Sclerotinia sclerotiorum. PMID:24886033
A naturally occurring, noncanonical GTP aptamer made of simple tandem repeats. PMID:24824832 - http://dx.doi.org/10.1093/nar/gkt1183
Tags:
Tags
More detailed information about this field from each metasource.
annotation
metasource: Fairsharing.org
version: None
genomics databases (non-vertebrate)
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2021-04-07T11:50:35.288810
fungal genome databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2021-04-07T11:50:35.288810
Tags
More detailed information about this field from each metasource.
annotation
metasource: Fairsharing.orgversion: None
genomics databases (non-vertebrate)
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2021-04-07T11:50:35.288810
fungal genome databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2021-04-07T11:50:35.288810