The Genome of the Anaerobic Fungus Orpinomyces sp. Strain C1A Reveals the Unique Evolutionary History of a Remarkable Plant Biomass Degrader

A highly efficient β-glucosidase from the buffalo rumen fungus Neocallimastix patriciarum W5

(2012) Hsin-Liang Chen et al.   Biotechnology for Biofuels

Biochemistry and Evolution of Anaerobic Energy Metabolism in Eukaryotes

(2012) M. Muller et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Hybrid error correction and de novo assembly of single-molecule sequencing reads

(2012) Sergey Koren et al.   NATURE BIOTECHNOLOGY

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

(2012) D. Floudas et al.   SCIENCE

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Status of the phylogenetic diversity census of ruminal microbiomes

(2011) Minseok Kim et al.   FEMS MICROBIOLOGY ECOLOGY

Causes and Consequences of Genome Expansion in Fungi

(2011) Yogeshwar D. Kelkar et al.   Genome Biology and Evolution

The Trichomonas vaginalis hydrogenosome proteome is highly reduced relative to mitochondria, yet complex compared with mitosomes

(2011) Rachel E. Schneider et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Extreme genome reduction in symbiotic bacteria

(2011) John P. McCutcheon et al.   NATURE REVIEWS MICROBIOLOGY

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

The Core Components of Organelle Biogenesis and Membrane Transport in the Hydrogenosomes of Trichomonas vaginalis

(2011) Petr Rada et al.   PLoS One

Insights into the oxidative degradation of cellulose by a copper metalloenzyme that exploits biomass components

(2011) R. J. Quinlan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microaerobic steroid biosynthesis and the molecular fossil record of Archean life

(2011) J. R. Waldbauer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metagenomic Discovery of Biomass-Degrading Genes and Genomes from Cow Rumen

(2011) M. Hess et al.   SCIENCE

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Genomic Transition to Pathogenicity in Chytrid Fungi

(2011) Suzanne Joneson et al.   PLoS Pathogens

Hemicelluloses

(2010) Henrik Vibe Scheller et al.   Annual Review of Plant Biology

Sodium Hydroxide Pretreatment of Switchgrass for Ethanol Production

(2010) Jiele Xu et al.   ENERGY & FUELS

Ancient origin of the integrin-mediated adhesion and signaling machinery

(2010) A. Sebe-Pedros et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular cloning and characterization of a bifunctional xylanolytic enzyme from Neocallimastix patriciarum

(2009) Cheng-Kang Pai et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Ethanol production through simultaneous saccharification and fermentation of switchgrass using Saccharomyces cerevisiae D5A and thermotolerant Kluyveromyces marxianus IMB strains

(2009) Brian A. Faga et al.   BIORESOURCE TECHNOLOGY

Pretreatment technologies for an efficient bioethanol production process based on enzymatic hydrolysis: A review

(2009) P. Alvira et al.   BIORESOURCE TECHNOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Perspectives and new directions for the production of bioethanol using consolidated bioprocessing of lignocellulose

(2009) Qi Xu et al.   CURRENT OPINION IN BIOTECHNOLOGY

Fungi evolved right on track

(2009) Robert Lücking et al.   MYCOLOGIA

Genomic Analysis of the Basal Lineage Fungus Rhizopus oryzae Reveals a Whole-Genome Duplication

(2009) Li-Jun Ma et al.   PLoS Genetics

The Cellulase/Hemicellulase System of the Anaerobic FungusOrpinomycesPC-2 and Aspects of Its Applied Use

(2008) Lars G. Ljungdahl   Annals of the New York Academy of Sciences

Xylose isomerase from polycentric fungus Orpinomyces: gene sequencing, cloning, and expression in Saccharomyces cerevisiae for bioconversion of xylose to ethanol

(2008) Anjali Madhavan et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Aggressive assembly of pyrosequencing reads with mates

(2008) Jason R. Miller et al.   BIOINFORMATICS

Simultaneous saccharification and fermentation of Kanlow switchgrass pretreated by hydrothermolysis usingKluyveromyces marxianusIMB4

(2008) Lilis Suryawati et al.   BIOTECHNOLOGY AND BIOENGINEERING

Dynamics of initial colonization of nonconserved perennial ryegrass by anaerobic fungi in the bovine rumen

(2008) Joan E. Edwards et al.   FEMS MICROBIOLOGY ECOLOGY

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Accurate whole human genome sequencing using reversible terminator chemistry

(2008) David R. Bentley et al.   NATURE

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

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

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

Energy metabolism among eukaryotic anaerobes in light of Proterozoic ocean chemistry

(2008) M. Mentel et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Real-Time DNA Sequencing from Single Polymerase Molecules

(2008) J. Eid et al.   SCIENCE

A serpin in the cellulosome of the anaerobic fungus Piromyces sp. strain E2

(2008) Peter J.M. Steenbakkers et al.