Genome sequencing of Rigidoporus microporus provides insights on genes important for wood decay, latex tolerance and interspecific fungal interactions

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

(2017) Alfredo Justo et al.   Fungal Biology

SMS: Smart Model Selection in PhyML

(2017) Vincent Lefort et al.   MOLECULAR BIOLOGY AND EVOLUTION

Comparative and population genomic landscape of Phellinus noxius : A hypervariable fungus causing root rot in trees

(2017) Chia-Lin Chung et al.   MOLECULAR ECOLOGY

A role for small secreted proteins (SSPs) in a saprophytic fungal lifestyle: Ligninolytic enzyme regulation in Pleurotus ostreatus

(2017) Daria Feldman et al.   Scientific Reports

Small secreted proteins from the necrotrophic conifer pathogen Heterobasidion annosum s.l. (HaSSPs) induce cell death in Nicotiana benthamiana

(2017) Tommaso Raffaello et al.   Scientific Reports

De novo transcriptomic assembly and profiling of Rigidoporus microporus during saprotrophic growth on rubber wood

(2016) Abbot O. Oghenekaro et al.   BMC GENOMICS

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

PHI-base: a new interface and further additions for the multi-species pathogen–host interactions database

(2016) Martin Urban et al.   NUCLEIC ACIDS RESEARCH

OrthoDB v9.1: cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs

(2016) Evgeny M. Zdobnov et al.   NUCLEIC ACIDS RESEARCH

Fungal Effectors and Plant Susceptibility

(2015) Libera Lo Presti et al.   Annual Review of Plant Biology

FinisherSC: a repeat-aware tool for upgradingde novoassembly using long reads

(2015) Ka-Kit Lam et al.   BIOINFORMATICS

Identification of horizontally transferred genes in the genus Colletotrichum reveals a steady tempo of bacterial to fungal gene transfer

(2015) Vinicio D Armijos Jaramillo et al.   BMC GENOMICS

Activity of α-Aminoadipate Reductase Depends on the N-Terminally Extending Domain

(2015) Daniel Kalb et al.   CHEMBIOCHEM

Three Redundant Synthetases Secure Redox-Active Pigment Production in the Basidiomycete Paxillus involutus

(2015) Jana Braesel et al.   CHEMISTRY & BIOLOGY

Genome sequence of a white rot fungus Schizopora paradoxa KUC8140 for wood decay and mycoremediation

(2015) Byoungnam Min et al.   JOURNAL OF BIOTECHNOLOGY

Comparative Genomics of Early-Diverging Mushroom-Forming Fungi Provides Insights into the Origins of Lignocellulose Decay Capabilities

(2015) László G. Nagy et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

(2015) P. Ferreira et al.   MYCOLOGIA

Fungal metabolic gene clusters—caravans traveling across genomes and environments

(2015) Jennifer H. Wisecaver et al.   Frontiers in Microbiology

Horizontal Gene Transfer in Eukaryotic Plant Pathogens

(2014) Darren Soanes et al.   Annual Review of Phytopathology

Plant Cell Wall–Degrading Enzymes and Their Secretion in Plant-Pathogenic Fungi

(2014) Christian P. Kubicek et al.   Annual Review of Phytopathology

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Management of basidiomycete root- and stem-rot diseases in oil palm, rubber and tropical hardwood plantation crops

(2014) C. L. Mohammed et al.   FOREST PATHOLOGY

Molecular phylogeny of Rigidoporus microporus isolates associated with white rot disease of rubber trees (Hevea brasiliensis)

(2014) Abbot O. Oghenekaro et al.   Fungal Biology

SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information

(2014) Marco Biasini et al.   NUCLEIC ACIDS RESEARCH

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

Differential Gene Expression in Pycnoporus coccineus during Interspecific Mycelial Interactions with Different Competitors

(2013) Yonathan Arfi et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Linear fusigen as the major hydroxamate siderophore of the ectomycorrhizal Basidiomycota Laccaria laccata and Laccaria bicolor

(2013) Kurt Haselwandter et al.   BIOMETALS

Draft genome sequence of the rubber tree Hevea brasiliensis

(2013) Ahmad Yamin Abdul Rahman et al.   BMC GENOMICS

The Biodegradation of Latex Rubber: A Minireview

(2013) M. D. Chengalroyen et al.   JOURNAL OF POLYMERS AND THE ENVIRONMENT

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evaluation of potential reference genes for use in gene expression studies in the conifer pathogen (Heterobasidion annosum)

(2013) Tommaso Raffaello et al.   MOLECULAR BIOLOGY REPORTS

The genome portal of the Department of Energy Joint Genome Institute: 2014 updates

(2013) Henrik Nordberg et al.   NUCLEIC ACIDS RESEARCH

MycoCosm portal: gearing up for 1000 fungal genomes

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

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

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

(2012) D. Floudas et al.   SCIENCE

Horizontal gene transfer in fungi

(2011) David A. Fitzpatrick   FEMS MICROBIOLOGY LETTERS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Selectivity of Fungal Sesquiterpene Synthases: Role of the Active Site's H-1  Loop in Catalysis

(2010) F. Lopez-Gallego et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Sidera, a new genus in Hymenochaetales with poroid and hydnoid species

(2010) Otto Miettinen et al.   MYCOLOGICAL PROGRESS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

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

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Isolation of good quality RNA from a medicinal plant seabuckthorn, rich in secondary metabolites

(2009) Rajesh Ghangal et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

Host-specific toxins: effectors of necrotrophic pathogenicity

(2008) Timothy L. Friesen et al.   CELLULAR MICROBIOLOGY

Horizontal gene transfer in eukaryotic evolution

(2008) Patrick J. Keeling et al.   NATURE REVIEWS GENETICS