Whole Genome and Global Gene Expression Analyses of the Model Mushroom Flammulina velutipes Reveal a High Capacity for Lignocellulose Degradation

Expansion of the enzymatic repertoire of the CAZy database to integrate auxiliary redox enzymes

(2013) Anthony Levasseur et al.   Biotechnology for Biofuels

Regulation of Cellulase and Hemicellulase Gene Expression in Fungi

(2013) Antonella Amore et al.   CURRENT GENOMICS

Ethanol production from high cellulose concentration by the basidiomycete fungus Flammulina velutipes

(2013) Tomoko Maehara et al.   Fungal Biology

Composition and Expression of Genes Encoding Carbohydrate-Active Enzymes in the Straw-Degrading Mushroom Volvariella volvacea

(2013) Bingzhi Chen et al.   PLoS One

Sequencing and Comparative Analysis of the Straw Mushroom (Volvariella volvacea) Genome

(2013) Dapeng Bao et al.   PLoS One

Abundance, distribution and potential impact of transposable elements in the genome of Mycosphaerella fijiensis

(2012) Mateus F Santana et al.   BMC GENOMICS

The mitochondrial genome of the white-rot fungus Flammulina velutipes

(2012) Hyeokjun Yoon et al.   JOURNAL OF GENERAL AND APPLIED MICROBIOLOGY

dbCAN: a web resource for automated carbohydrate-active enzyme annotation

(2012) Yanbin Yin et al.   NUCLEIC ACIDS RESEARCH

Genome sequence of the button mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche

(2012) E. Morin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes

(2012) D. Floudas et al.   SCIENCE

Two Nuclear Life Cycle-Regulated Genes Encode Interchangeable Subunits c of Mitochondrial ATP Synthase in Podospora anserina

(2011) M. Dequard-Chablat et al.   MOLECULAR BIOLOGY AND EVOLUTION

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Comparative Genomics of the Mating-Type Loci of the Mushroom Flammulina velutipes Reveals Widespread Synteny and Recent Inversions

(2011) Arend F. van Peer et al.   PLoS One

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Development of a Gene Transfer System for the Mycelia ofFlammulina velutipesFv-1 Strain

(2010) Tomoko MAEHARA et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

Basidiomycete Mating Type Genes and Pheromone Signaling

(2010) Marjatta Raudaskoski et al.   EUKARYOTIC CELL

The mitochondrial genome of the wood-degrading basidiomycete Trametes cingulata

(2010) Sajeet Haridas et al.   FEMS MICROBIOLOGY LETTERS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Protein expression during Flammulina velutipes fruiting body formation

(2010) Yuichi Sakamoto   MYCOSCIENCE

Genome sequence of the model mushroom Schizophyllum commune

(2010) Robin A Ohm et al.   NATURE BIOTECHNOLOGY

Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus)

(2010) J. E. Stajich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genes regulated by AoXlnR, the xylanolytic and cellulolytic transcriptional regulator, in Aspergillus oryzae

(2009) Yuji Noguchi et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

DEGseq: an R package for identifying differentially expressed genes from RNA-seq data

(2009) Likun Wang et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Use of Whole Crop Sorghums as a Raw Material in Consolidated Bioprocessing Bioethanol Production UsingFlammulina velutipes

(2009) Ryoji MIZUNO et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

Properties of Ethanol Fermentation byFlammulina velutipes

(2009) Ryoji MIZUNO et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

Metabolic engineering strategies for the improvement of cellulase production by Hypocrea jecorina

(2009) Christian P Kubicek et al.   Biotechnology for Biofuels

Electrophoretic karyotyping and construction of a bacterial artificial chromosome library of the winter mushroom Flammulina velutipes

(2009) Young-Jin Park et al.   MICROBIOLOGICAL RESEARCH

Genome, transcriptome, and secretome analysis of wood decay fungusPostia placentasupports unique mechanisms of lignocellulose conversion

(2009) Diego Martinez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of transcription of cellulases- and hemicellulases-encoding genes in Aspergillus niger and Hypocrea jecorina (Trichoderma reesei)

(2008) Astrid R. Stricker et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

The mitochondrial genome of the Basidiomycete fungusPleurotus ostreatus(oyster mushroom)

(2008) Yong Wang et al.   FEMS MICROBIOLOGY LETTERS

Isolation and characterization of a gene coding for chitin deacetylase specifically expressed during fruiting body development in the basidiomyceteFlammulina velutipesand its expression in the yeastPichia pastoris

(2008) Masato Yamada et al.   FEMS MICROBIOLOGY LETTERS

The alcohol dehydrogenases ofSaccharomyces cerevisiae: a comprehensive review

(2008) Olga de Smidt et al.   FEMS YEAST RESEARCH

Molecular evolution of mitochondrial ribosomal DNA in the fungal genus Tricholoma: Barcoding implications

(2008) Bello Mouhamadou et al.   FUNGAL GENETICS AND BIOLOGY

FOLy: An integrated database for the classification and functional annotation of fungal oxidoreductases potentially involved in the degradation of lignin and related aromatic compounds

(2008) Anthony Levasseur et al.   FUNGAL GENETICS AND BIOLOGY

The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis

(2008) F. Martin et al.   NATURE

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics

(2008) B. L. Cantarel et al.   NUCLEIC ACIDS RESEARCH

The mitochondrial genome of the phytopathogenic basidiomycete Moniliophthora perniciosa is 109kb in size and contains a stable integrated plasmid

(2008) Eduardo F. Formighieri et al.