Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass

Multiplicity of enzymatic functions in the CAZy AA3 family

(2018) Leander Sützl et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

A revised family-level classification of the Polyporales ( Basidiomycota )

(2017) Alfredo Justo et al.   Fungal Biology

Biological wheat straw valorization: Multicriteria optimization of Polyporus brumalis pretreatment in packed bed bioreactor

(2017) Simeng Zhou et al.   MicrobiologyOpen

The integrative omics of white-rot fungus Pycnoporus coccineus reveals co-regulated CAZymes for orchestrated lignocellulose breakdown

(2017) Shingo Miyauchi et al.   PLoS One

Activities of Secreted Aryl Alcohol Quinone Oxidoreductases from Pycnoporus cinnabarinus Provide Insights into Fungal Degradation of Plant Biomass

(2016) Yann Mathieu et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Comparative analysis of the secretomes of Schizophyllum commune and other wood-decay basidiomycetes during solid-state fermentation reveals its unique lignocellulose-degrading enzyme system

(2016) Ning Zhu et al.   Biotechnology for Biofuels

Time-scale dynamics of proteome and transcriptome of the white-rot fungus Phlebia radiata: growth on spruce wood and decay effect on lignocellulose

(2016) Jaana Kuuskeri et al.   Biotechnology for Biofuels

Comparative and transcriptional analysis of the predicted secretome in the lignocellulose-degrading basidiomycete fungus Pleurotus ostreatus

(2016) Manuel Alfaro et al.   ENVIRONMENTAL MICROBIOLOGY

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Extracellular electron transfer systems fuel cellulose oxidative degradation

(2016) D. Kracher et al.   SCIENCE

Visual Comparative Omics of Fungi for Plant Biomass Deconstruction

(2016) Shingo Miyauchi et al.   Frontiers in Microbiology

Single-domain flavoenzymes trigger lytic polysaccharide monooxygenases for oxidative degradation of cellulose

(2016) Sona Garajova et al.   Scientific Reports

Independent evolution of four heme peroxidase superfamilies

(2015) Marcel Zámocký et al.   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

Solid-state anaerobic digestion of fungal pretreated Miscanthus sinensis harvested in two different seasons

(2015) Juliana Vasco-Correa et al.   BIORESOURCE TECHNOLOGY

Enhanced degradation of softwood versus hardwood by the white-rot fungus Pycnoporus coccineus

(2015) Marie Couturier et al.   Biotechnology for Biofuels

A PCR-based method to quantify fungal growth during pretreatment of lignocellulosic biomass

(2015) Zhou Simeng et al.   JOURNAL OF MICROBIOLOGICAL METHODS

A survey of genes encoding H2O2-producing GMC oxidoreductases in 10 Polyporales genomes

(2015) P. Ferreira et al.   MYCOLOGIA

Solid-state fermentation in multi-well plates to assess pretreatment efficiency of rot fungi on lignocellulose biomass

(2015) Simeng Zhou et al.   Microbial Biotechnology

Genome-Wide Annotation and Comparative Analysis of Cytochrome P450 Monooxygenases in Basidiomycete Biotrophic Plant Pathogens

(2015) Lehlohonolo Benedict Qhanya et al.   PLoS One

Temporal Alterations in the Secretome of the Selective Ligninolytic Fungus Ceriporiopsis subvermispora during Growth on Aspen Wood Reveal This Organism's Strategy for Degrading Lignocellulose

(2014) Chiaki Hori et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A novel glucose dehydrogenase from the white-rot fungus Pycnoporus cinnabarinus: production in Aspergillus niger and physicochemical characterization of the recombinant enzyme

(2014) François Piumi et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Variation in the chemical composition of wheat straw: the role of tissue ratio and composition

(2014) Samuel RA Collins et al.   Biotechnology for Biofuels

Fast solubilization of recalcitrant cellulosic biomass by the basidiomycete fungus Laetisaria arvalisinvolves successive secretion of oxidative and hydrolytic enzymes

(2014) David Navarro et al.   Biotechnology for Biofuels

The genome of the white-rot fungus Pycnoporus cinnabarinus: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown

(2014) Anthony Levasseur et al.   BMC GENOMICS

An alcohol oxidase of Phanerochaete chrysosporium with a distinct glycerol oxidase activity

(2014) Diana Linke et al.   ENZYME AND MICROBIAL TECHNOLOGY

Genomics of wood-degrading fungi

(2014) Robin A. Ohm et al.   FUNGAL GENETICS AND BIOLOGY

Systematic Identification and Evolutionary Analysis of Catalytically Versatile Cytochrome P450 Monooxygenase Families Enriched in Model Basidiomycete Fungi

(2014) Khajamohiddin Syed et al.   PLoS One

Cytochrome P450 Monooxygenase CYP53 Family in Fungi: Comparative Structural and Evolutionary Analysis and Its Role as a Common Alternative Anti-Fungal Drug Target

(2014) Poojah Jawallapersand et al.   PLoS One

Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi

(2014) Robert Riley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural implications of the C-terminal tail in the catalytic and stability properties of manganese peroxidases from ligninolytic fungi

(2014) Elena Fernández-Fueyo et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

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

(2013) Anthony Levasseur et al.   Biotechnology for Biofuels

Estimating Gene Gain and Loss Rates in the Presence of Error in Genome Assembly and Annotation Using CAFE 3

(2013) Mira V. Han et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomewide analysis of polysaccharides degrading enzymes in 11 white- and brown-rot Polyporales provides insight into mechanisms of wood decay

(2013) Chiaki Hori et al.   MYCOLOGIA

Phylogenetic and phylogenomic overview of the Polyporales

(2013) Manfred Binder et al.   MYCOLOGIA

Lignin-degrading peroxidases in Polyporales: an evolutionary survey based on 10 sequenced genomes

(2013) Francisco J. Ruiz-Dueñas et al.   MYCOLOGIA

The carbohydrate-active enzymes database (CAZy) in 2013

(2013) Vincent Lombard et al.   NUCLEIC ACIDS RESEARCH

MycoCosm portal: gearing up for 1000 fungal genomes

(2013) Igor V. Grigoriev et al.   NUCLEIC ACIDS RESEARCH

Transcriptional and Enzymatic Profiling of Pleurotus ostreatus Laccase Genes in Submerged and Solid-State Fermentation Cultures

(2012) Raúl Castanera et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fungal pretreatment of cornstalk with Phanerochaete chrysosporium for enhancing enzymatic saccharification and hydrogen production

(2012) Lei Zhao et al.   BIORESOURCE TECHNOLOGY

Fungal pretreatment of switchgrass for improved saccharification and simultaneous enzyme production

(2012) Jiayang Liu et al.   BIORESOURCE TECHNOLOGY

Fungal pretreatment of lignocellulosic biomass

(2012) Caixia Wan et al.   BIOTECHNOLOGY ADVANCES

Systematic and searchable classification of cytochrome P450 proteins encoded by fungal and oomycete genomes

(2012) Venkatesh Moktali et al.   BMC GENOMICS

Insight into trade-off between wood decay and parasitism from the genome of a fungal forest pathogen

(2012) Åke Olson et al.   NEW PHYTOLOGIST

Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis

(2012) E. Fernandez-Fueyo 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

HMMER web server: interactive sequence similarity searching

(2011) R. D. Finn et al.   NUCLEIC ACIDS RESEARCH

Cytochrome P450 enzymes in the fungal kingdom

(2010) B. Črešnar et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Rnnotator: an automated de novo transcriptome assembly pipeline from stranded RNA-Seq reads

(2010) Jeffrey Martin et al.   BMC GENOMICS

High-quality draft assemblies of mammalian genomes from massively parallel sequence data

(2010) S. Gnerre et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Protein structure homology modeling using SWISS-MODEL workspace

(2009) Lorenza Bordoli et al.   Nature Protocols

Effect of microbial pretreatment on enzymatic hydrolysis and fermentation of cotton stalks for ethanol production

(2008) Jian Shi et al.   BIOMASS & BIOENERGY

Substrate oxidation sites in versatile peroxidase and other basidiomycete peroxidases

(2008) F. J. Ruiz-Duenas et al.   JOURNAL OF EXPERIMENTAL BOTANY