Published in Nature on March 28, 2010
Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea. PLoS Genet (2011) 3.52
Finished genome of the fungal wheat pathogen Mycosphaerella graminicola reveals dispensome structure, chromosome plasticity, and stealth pathogenesis. PLoS Genet (2011) 2.58
Mechanisms underlying beneficial plant-fungus interactions in mycorrhizal symbiosis. Nat Commun (2010) 2.50
Genome of an arbuscular mycorrhizal fungus provides insight into the oldest plant symbiosis. Proc Natl Acad Sci U S A (2013) 1.94
Genome evolution in filamentous plant pathogens: why bigger can be better. Nat Rev Microbiol (2012) 1.93
Comparative analysis of fungal genomes reveals different plant cell wall degrading capacity in fungi. BMC Genomics (2013) 1.62
Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. PLoS Genet (2014) 1.21
Next-generation sequencing techniques for eukaryotic microorganisms: sequencing-based solutions to biological problems. Eukaryot Cell (2010) 1.18
The evolution and pathogenic mechanisms of the rice sheath blight pathogen. Nat Commun (2013) 1.16
Comparative genomics of the white-rot fungi, Phanerochaete carnosa and P. chrysosporium, to elucidate the genetic basis of the distinct wood types they colonize. BMC Genomics (2012) 1.14
Correction: Comparative analysis of fungal genomes reveals different plant cell wall degrading capacity in fungi. BMC Genomics (2014) 1.13
Metatranscriptomics reveals the diversity of genes expressed by eukaryotes in forest soils. PLoS One (2012) 1.12
Mitogen-activated protein kinase signaling in plant-interacting fungi: distinct messages from conserved messengers. Plant Cell (2012) 1.11
A novel mode of chromosomal evolution peculiar to filamentous Ascomycete fungi. Genome Biol (2011) 1.08
Leaf-cutting ant fungi produce cell wall degrading pectinase complexes reminiscent of phytopathogenic fungi. BMC Biol (2010) 1.07
The genome of Ganoderma lucidum provides insights into triterpenes biosynthesis and wood degradation [corrected]. PLoS One (2012) 1.05
Survey and analysis of simple sequence repeats in the Laccaria bicolor genome, with development of microsatellite markers. Curr Genet (2010) 1.02
Biotrophic transportome in mutualistic plant-fungal interactions. Mycorrhiza (2013) 1.00
Genome sequencing of four Aureobasidium pullulans varieties: biotechnological potential, stress tolerance, and description of new species. BMC Genomics (2014) 1.00
Characterization of transposable elements in the ectomycorrhizal fungus Laccaria bicolor. PLoS One (2012) 0.99
Quantification of extraradical mycelium of Tuber melanosporum in soils from truffle orchards in northern Spain. Mycorrhiza (2012) 0.98
Genome-wide transcriptome and proteome analysis on different developmental stages of Cordyceps militaris. PLoS One (2012) 0.97
Causes and consequences of genome expansion in fungi. Genome Biol Evol (2011) 0.97
Survival trade-offs in plant roots during colonization by closely related beneficial and pathogenic fungi. Nat Commun (2016) 0.96
Indifferent, affectionate, or deceitful: lifestyles and secretomes of fungi. PLoS Pathog (2012) 0.95
Ectomycorrhizal fungi contribute to soil organic matter cycling in sub-boreal forests. ISME J (2013) 0.95
The irreversible loss of a decomposition pathway marks the single origin of an ectomycorrhizal symbiosis. PLoS One (2012) 0.93
The genome and development-dependent transcriptomes of Pyronema confluens: a window into fungal evolution. PLoS Genet (2013) 0.93
Sex in cheese: evidence for sexuality in the fungus Penicillium roqueforti. PLoS One (2012) 0.93
Mycorrhiza analyses in New Zealand truffières reveal frequent but variable persistence of Tuber melanosporum in co-existence with other truffle species. Mycorrhiza (2012) 0.93
Symbiosis with an endobacterium increases the fitness of a mycorrhizal fungus, raising its bioenergetic potential. ISME J (2015) 0.92
Comparative genomics and transcriptomics analyses reveal divergent lifestyle features of nematode endoparasitic fungus Hirsutella minnesotensis. Genome Biol Evol (2014) 0.91
A major invasion of transposable elements accounts for the large size of the Blumeria graminis f.sp. tritici genome. Funct Integr Genomics (2011) 0.90
Whole genome comparative analysis of transposable elements provides new insight into mechanisms of their inactivation in fungal genomes. BMC Genomics (2015) 0.89
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Microsatellites in the genome of the edible mushroom, Volvariella volvacea. Biomed Res Int (2014) 0.89
Carbon transfer from the host to Tuber melanosporum mycorrhizas and ascocarps followed using a 13C pulse-labeling technique. PLoS One (2013) 0.88
Cell wall remodeling in mycorrhizal symbiosis: a way towards biotrophism. Front Plant Sci (2014) 0.87
Genetic diversity and mating type distribution of Tuber melanosporum and their significance to truffle cultivation in artificially planted truffieres in Australia. Appl Environ Microbiol (2012) 0.86
Composition and expression of genes encoding carbohydrate-active enzymes in the straw-degrading mushroom Volvariella volvacea. PLoS One (2013) 0.86
Oak root response to ectomycorrhizal symbiosis establishment: RNA-Seq derived transcript identification and expression profiling. PLoS One (2014) 0.86
Widespread genome reorganization of an obligate virus mutualist. PLoS Genet (2014) 0.85
Prevalence of transcription factors in ascomycete and basidiomycete fungi. BMC Genomics (2014) 0.85
Specificity of plant-microbe interactions in the tree mycorrhizosphere biome and consequences for soil C cycling. Front Microbiol (2014) 0.84
Abundance, distribution and potential impact of transposable elements in the genome of Mycosphaerella fijiensis. BMC Genomics (2012) 0.84
Secondary metabolism and biotrophic lifestyle in the tomato pathogen Cladosporium fulvum. PLoS One (2014) 0.84
Complete mitochondrial genome of the medicinal fungus Ophiocordyceps sinensis. Sci Rep (2015) 0.84
Impact of the competition between mating types on the cultivation of Tuber melanosporum: Romeo and Juliet and the matter of space and time. Mycorrhiza (2014) 0.83
Optimized assay and storage conditions for enzyme activity profiling of ectomycorrhizae. Mycorrhiza (2011) 0.83
The role of mycorrhizal associations in plant potassium nutrition. Front Plant Sci (2014) 0.83
Non-exhaustive DNA methylation-mediated transposon silencing in the black truffle genome, a complex fungal genome with massive repeat element content. Genome Biol (2014) 0.83
Highly expressed captured genes and cross-kingdom domains present in Helitrons create novel diversity in Pleurotus ostreatus and other fungi. BMC Genomics (2014) 0.83
Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles. PLoS Genet (2016) 0.83
Mating type locus of Chinese black truffles reveals heterothallism and the presence of cryptic species within the T. indicum species complex. PLoS One (2013) 0.83
Intraspecific genotypic variability determines concentrations of key truffle volatiles. New Phytol (2012) 0.82
Transposable element dynamics among asymbiotic and ectomycorrhizal Amanita fungi. Genome Biol Evol (2014) 0.82
De Novo Assembly and Genome Analyses of the Marine-Derived Scopulariopsis brevicaulis Strain LF580 Unravels Life-Style Traits and Anticancerous Scopularide Biosynthetic Gene Cluster. PLoS One (2015) 0.81
The transcriptional response to nonself in the fungus Podospora anserina. G3 (Bethesda) (2013) 0.81
Functional and evolutionary analysis of the genome of an obligate fungal symbiont. Genome Biol Evol (2013) 0.81
Unearthing the roots of ectomycorrhizal symbioses. Nat Rev Microbiol (2016) 0.81
A Survey of the Gene Repertoire of Gigaspora rosea Unravels Conserved Features among Glomeromycota for Obligate Biotrophy. Front Microbiol (2016) 0.81
Genome-wide analysis of cell wall-related genes in Tuber melanosporum. Curr Genet (2012) 0.80
Truffle brûlés have an impact on the diversity of soil bacterial communities. PLoS One (2013) 0.80
Genomic and transcriptomic analysis of the endophytic fungus Pestalotiopsis fici reveals its lifestyle and high potential for synthesis of natural products. BMC Genomics (2015) 0.79
A new omics data resource of Pleurocybella porrigens for gene discovery. PLoS One (2013) 0.79
A meta-analysis approach for assessing the diversity and specificity of belowground root and microbial volatiles. Front Plant Sci (2015) 0.79
Secretome of Trichoderma interacting with maize roots: role in induced systemic resistance. Mol Cell Proteomics (2015) 0.79
Genomes of obligate plant pathogens reveal adaptations for obligate parasitism. Proc Natl Acad Sci U S A (2011) 0.78
The Role of the Microbiome of Truffles in Aroma Formation: a Meta-Analysis Approach. Appl Environ Microbiol (2015) 0.78
Mushrooms: morphological complexity in the fungi. Proc Natl Acad Sci U S A (2010) 0.78
Annotation of a hybrid partial genome of the coffee rust (Hemileia vastatrix) contributes to the gene repertoire catalog of the Pucciniales. Front Plant Sci (2014) 0.78
Pattern of Tuber melanosporum extramatrical mycelium expansion over a 20-year chronosequence in Quercus ilex-truffle orchards. Mycorrhiza (2014) 0.77
Soil metaproteomics reveals an inter-kingdom stress response to the presence of black truffles. Sci Rep (2016) 0.77
Mildew-Omics: How Global Analyses Aid the Understanding of Life and Evolution of Powdery Mildews. Front Plant Sci (2016) 0.77
Autoproteolytic Activation of a Symbiosis-regulated Truffle Phospholipase A2. J Biol Chem (2012) 0.77
Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum. Nat Commun (2016) 0.77
Mobile DNA distributions refine the phylogeny of "matsutake" mushrooms, Tricholoma sect. Caligata. Mycorrhiza (2013) 0.77
You are what you get from your fungi: nitrogen stable isotope patterns in Epipactis species. Ann Bot (2017) 0.76
Screening of the key volatile organic compounds of Tuber melanosporum fermentation by aroma sensory evaluation combination with principle component analysis. Sci Rep (2015) 0.76
Kingdom-Wide Analysis of Fungal Small Secreted Proteins (SSPs) Reveals their Potential Role in Host Association. Front Plant Sci (2016) 0.76
An Ancient Transkingdom Horizontal Transfer of Penelope-Like Retroelements from Arthropods to Conifers. Genome Biol Evol (2016) 0.76
A comprehensive resource of genomic, epigenomic and transcriptomic sequencing data for the black truffle Tuber melanosporum. Gigascience (2014) 0.76
Population genetics of the westernmost distribution of the glaciations-surviving black truffle Tuber melanosporum. Mycorrhiza (2013) 0.76
Post-genomic approaches to understanding interactions between fungi and their environment. IMA Fungus (2011) 0.76
First evidence for truffle production from plants inoculated with mycelial pure cultures. Mycorrhiza (2016) 0.76
Understanding plant cell-wall remodelling during the symbiotic interaction between Tuber melanosporum and Corylus avellana using a carbohydrate microarray. Planta (2016) 0.76
RiPEIP1, a gene from the arbuscular mycorrhizal fungus Rhizophagus irregularis, is preferentially expressed in planta and may be involved in root colonization. Mycorrhiza (2016) 0.76
Integrative gene transfer in the truffle Tuber borchii by Agrobacterium tumefaciens-mediated transformation. AMB Express (2014) 0.75
Somatic transposition and meiotically driven elimination of an active helitron family in Pleurotus ostreatus. DNA Res (2017) 0.75
Clonostachys rosea demethiolase STR3 controls the conversion of methionine into methanethiol. Sci Rep (2016) 0.75
Diversity and evolution of ABC proteins in mycorrhiza-forming fungi. BMC Evol Biol (2015) 0.75
Dissection of genomic features and variations of three pathotypes of Puccinia striiformis through whole genome sequencing. Sci Rep (2017) 0.75
Host-specific transcriptomic pattern of Trichoderma virens during interaction with maize or tomato roots. BMC Genomics (2015) 0.75
The Fast-Evolving phy-2 Gene Modulates Sexual Development in Response to Light in the Model Fungus Neurospora crassa. MBio (2016) 0.75
Proteins from Tuber magnatum Pico fruiting bodies naturally grown in different areas of Italy. Proteome Sci (2013) 0.75
A new diet for yeast to improve biofuel production. Bioeng Bugs (2011) 0.75
Reverse transcriptase and intron number evolution. Stem Cell Investig (2014) 0.75
The transcriptional landscape of basidiosporogenesis in mature Pisolithus microcarpus basidiocarp. BMC Genomics (2017) 0.75
Bacteria of the genus Rhodopseudomonas (Bradyrhizobiaceae): obligate symbionts in mycelial cultures of the black truffles Tuber melanosporum and Tuber brumale. Springerplus (2016) 0.75
The Comparison of Expressed Candidate Secreted Proteins from Two Arbuscular Mycorrhizal Fungi Unravels Common and Specific Molecular Tools to Invade Different Host Plants. Front Plant Sci (2017) 0.75
The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics. Nucleic Acids Res (2008) 27.83
The origins of genome complexity. Science (2003) 12.25
The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis. Nature (2008) 5.42
RIP: the evolutionary cost of genome defense. Trends Genet (2004) 3.13
Dating divergences in the Fungal Tree of Life: review and new analyses. Mycologia (2007) 2.75
Genomics of the fungal kingdom: insights into eukaryotic biology. Genome Res (2005) 2.54
The first structure of a glycoside hydrolase family 61 member, Cel61B from Hypocrea jecorina, at 1.6 A resolution. J Mol Biol (2008) 1.89
Tuber melanosporum outcrosses: analysis of the genetic diversity within and among its natural populations under this new scenario. New Phytol (2008) 1.85
Evolution of fungal sex chromosomes. Mol Microbiol (2004) 1.71
Comparative genome analysis of filamentous fungi reveals gene family expansions associated with fungal pathogenesis. PLoS One (2008) 1.68
Comparative genomics of enzymes in flavor-forming pathways from amino acids in lactic acid bacteria. Appl Environ Microbiol (2008) 1.37
The relative ages of ectomycorrhizal mushrooms and their plant hosts estimated using Bayesian relaxed molecular clock analyses. BMC Biol (2009) 1.36
Truffles: much more than a prized and local fungal delicacy. FEMS Microbiol Lett (2006) 1.31
The Laccaria genome: a symbiont blueprint decoded. New Phytol (2008) 1.20
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
A core gut microbiome in obese and lean twins. Nature (2008) 52.30
The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics. Nucleic Acids Res (2008) 27.83
Enterotypes of the human gut microbiome. Nature (2011) 24.36
The genome sequence of the malaria mosquito Anopheles gambiae. Science (2002) 20.36
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature (2007) 18.04
Evolution of genes and genomes on the Drosophila phylogeny. Nature (2007) 18.01
GENCODE: producing a reference annotation for ENCODE. Genome Biol (2006) 15.08
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype. Nature (2004) 11.03
Genome evolution in yeasts. Nature (2004) 10.50
The carbohydrate-active enzymes database (CAZy) in 2013. Nucleic Acids Res (2013) 10.24
Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster. Science (2002) 9.43
Genome sequence of Aedes aegypti, a major arbovirus vector. Science (2007) 9.19
Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans. Science (2011) 8.88
Gut microbiota from twins discordant for obesity modulate metabolism in mice. Science (2013) 8.81
Annotating genomes with massive-scale RNA sequencing. Genome Biol (2008) 7.73
Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins. Proc Natl Acad Sci U S A (2010) 7.09
EGASP: the human ENCODE Genome Annotation Assessment Project. Genome Biol (2006) 7.06
The genome sequence of the rice blast fungus Magnaporthe grisea. Nature (2005) 6.95
An evolving hierarchical family classification for glycosyltransferases. J Mol Biol (2003) 6.48
Metabolic reconstruction for metagenomic data and its application to the human microbiome. PLoS Comput Biol (2012) 6.27
Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88. Nat Biotechnol (2007) 6.21
Phylogenomics revives traditional views on deep animal relationships. Curr Biol (2009) 5.89
Evolution of symbiotic bacteria in the distal human intestine. PLoS Biol (2007) 5.79
Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature (2010) 5.79
Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina). Nat Biotechnol (2008) 5.38
Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita. Nat Biotechnol (2008) 5.19
Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia. Nature (2006) 5.06
The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature (2011) 4.94
The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes. Science (2012) 4.93
Genome sequence of the lignocellulose degrading fungus Phanerochaete chrysosporium strain RP78. Nat Biotechnol (2004) 4.85
The Fusarium graminearum genome reveals a link between localized polymorphism and pathogen specialization. Science (2007) 4.43
A role for RNAi in the selective correction of DNA methylation defects. Science (2009) 4.30
The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins. Sci Transl Med (2011) 4.24
Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium. Nucleic Acids Res (2004) 4.19
Dividing the large glycoside hydrolase family 13 into subfamilies: towards improved functional annotations of alpha-amylase-related proteins. Protein Eng Des Sel (2006) 4.13
Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla. Proc Natl Acad Sci U S A (2009) 4.09
Deciphering the evolution and metabolism of an anammox bacterium from a community genome. Nature (2006) 4.06
Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas. Science (2009) 4.05
Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases. Proc Natl Acad Sci U S A (2009) 4.03
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol (2011) 3.97
The implications of alternative splicing in the ENCODE protein complement. Proc Natl Acad Sci U S A (2007) 3.93
Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution. Genome Res (2007) 3.82
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High resolution, on-line identification of strains from the Mycobacterium tuberculosis complex based on tandem repeat typing. BMC Microbiol (2002) 3.61
The Ectocarpus genome and the independent evolution of multicellularity in brown algae. Nature (2010) 3.60
Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome. Proc Natl Acad Sci U S A (2003) 3.55
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Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea. PLoS Genet (2011) 3.52