A comparative systems analysis of polysaccharide-elicited responses inNeurospora crassareveals carbon source-specific cellular adaptations

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

(2013) Anthony Levasseur et al.   Biotechnology for Biofuels

Compositional analysis of Miscanthus giganteus by near infrared spectroscopy

(2013) Fernanda B. Haffner et al.   CELLULOSE

Early Colony Establishment in Neurospora crassa Requires a MAP Kinase Regulatory Network

(2013) Abigail C. Leeder et al.   GENETICS

The Unfolded Protein Response in Secretory Cell Function

(2012) Kristin A. Moore et al.   Annual Review of Genetics

Plant cell walls to ethanol

(2012) Douglas B. Jordan et al.   BIOCHEMICAL JOURNAL

The transcriptomic fingerprint of glucoamylase over-expression in Aspergillus niger

(2012) Min Jin Kwon et al.   BMC GENOMICS

Degradation of different pectins by fungi: correlations and contrasts between the pectinolytic enzyme sets identified in genomes and the growth on pectins of different origin

(2012) Isabelle Benoit et al.   BMC GENOMICS

The carbon starvation response of Aspergillus niger during submerged cultivation: Insights from the transcriptome and secretome

(2012) Benjamin M Nitsche et al.   BMC GENOMICS

Post-genomic analyses of fungal lignocellulosic biomass degradation reveal the unexpected potential of the plant pathogen Ustilago maydis

(2012) Marie Couturier et al.   BMC GENOMICS

Deciphering Transcriptional Regulatory Mechanisms Associated with Hemicellulose Degradation in Neurospora crassa

(2012) Jianping Sun et al.   EUKARYOTIC CELL

Systems biological approaches towards understanding cellulase production by Trichoderma reesei

(2012) Christian P. Kubicek   JOURNAL OF BIOTECHNOLOGY

Re-annotation of the CAZy genes of Trichoderma reesei and transcription in the presence of lignocellulosic substrates

(2012) Mari Häkkinen et al.   Microbial Cell Factories

Transcriptome changes initiated by carbon starvation in Aspergillus nidulans

(2012) M. Szilagyi et al.   MICROBIOLOGY-SGM

Quantitative Secretomic Analysis ofTrichoderma reeseiStrains Reveals Enzymatic Composition for Lignocellulosic Biomass Degradation

(2012) Sunil S. Adav et al.   MOLECULAR & CELLULAR PROTEOMICS

Conserved and essential transcription factors for cellulase gene expression in ascomycete fungi

(2012) S. T. Coradetti et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Induction of lignocellulose-degrading enzymes in Neurospora crassa by cellodextrins

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

Uncovering the Genome-Wide Transcriptional Responses of the Filamentous Fungus Aspergillus niger to Lignocellulose Using RNA Sequencing

(2012) Stéphane Delmas et al.   PLoS Genetics

Cellobiose Dehydrogenase and a Copper-Dependent Polysaccharide Monooxygenase Potentiate Cellulose Degradation byNeurospora crassa

(2011) Christopher M. Phillips et al.   ACS Chemical Biology

Evolution and Diversity of Plant Cell Walls: From Algae to Flowering Plants

(2011) Zoë A. Popper et al.   Annual Review of Plant Biology

Cloning of Two Genes (LAT1,2) Encoding Specific l-Arabinose Transporters of the l-Arabinose Fermenting Yeast Ambrosiozyma monospora

(2011) Ritva Verho et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

Fungal arabinan and l-arabinose metabolism

(2011) Bernhard Seiboth et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

The effect of acetylated xylan and sugar beet pulp on the expression and secretion of enzymes by Penicillium purpurogenum

(2011) Mario Navarrete et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Fungal enzyme sets for plant polysaccharide degradation

(2011) Joost van den Brink et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Identification of novel transcripts in annotated genomes using RNA-Seq

(2011) A. Roberts et al.   BIOINFORMATICS

Improving L-arabinose utilization of pentose fermenting Saccharomyces cerevisiae cells by heterologous expression of L-arabinose transporting sugar transporters

(2011) Thorsten Subtil et al.   Biotechnology for Biofuels

Transcriptome analysis of Aspergillus niger grown on sugarcane bagasse

(2011) Wagner R de Souza et al.   Biotechnology for Biofuels

Biotechnological potential of pectinolytic complexes of fungi

(2011) Alicia Lara-Márquez et al.   BIOTECHNOLOGY LETTERS

Oxidative Cleavage of Cellulose by Fungal Copper-Dependent Polysaccharide Monooxygenases

(2011) William T. Beeson et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

The cargo and the transport system: secreted proteins and protein secretion in Trichoderma reesei (Hypocrea jecorina)

(2011) M. Saloheimo et al.   MICROBIOLOGY-SGM

Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris

(2011) Randy M Berka et al.   NATURE BIOTECHNOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

The Pfam protein families database

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

Identification of the CRE-1 Cellulolytic Regulon in Neurospora crassa

(2011) Jianping Sun et al.   PLoS One

The Unfolded Protein Response: From Stress Pathway to Homeostatic Regulation

(2011) P. Walter et al.   SCIENCE

Deconstruction of Lignocellulosic Biomass to Fuels and Chemicals

(2011) Shishir P.S. Chundawat et al.   Annual Review of Chemical and Biomolecular Engineering

Improving RNA-Seq expression estimates by correcting for fragment bias

(2011) Adam Roberts et al.   GENOME BIOLOGY

Hemicelluloses

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

Comparative Transcriptome and Secretome Analysis of Wood Decay Fungi Postia placenta and Phanerochaete chrysosporium

(2010) A. Vanden Wymelenberg et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Stimulation of Lignocellulosic Biomass Hydrolysis by Proteins of Glycoside Hydrolase Family 61: Structure and Function of a Large, Enigmatic Family

(2010) Paul V. Harris et al.   BIOCHEMISTRY

Protein translocation across the ER membrane

(2010) Richard Zimmermann et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

(2010) Machtelt Braaksma et al.   BMC GENOMICS

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Biosynthesis of Pectin

(2010) J. Harholt et al.   PLANT PHYSIOLOGY

α-l-Rhamnosidase: A review

(2010) Vinita Yadav et al.   PROCESS BIOCHEMISTRY

Cellodextrin Transport in Yeast for Improved Biofuel Production

(2010) J. M. Galazka et al.   SCIENCE

Feedstocks for Lignocellulosic Biofuels

(2010) C. Somerville et al.   SCIENCE

The structure, function, and biosynthesis of plant cell wall pectic polysaccharides

(2009) Kerry Hosmer Caffall et al.   CARBOHYDRATE RESEARCH

Assessment of the pectin degrading enzyme network of Aspergillus niger by functional genomics

(2009) Elena S. Martens-Uzunova et al.   FUNGAL GENETICS AND BIOLOGY

Genomics of protein folding in the endoplasmic reticulum, secretion stress and glycosylation in the aspergilli

(2009) Steven Geysens et al.   FUNGAL GENETICS AND BIOLOGY

Trifluoromethanesulfonic acid-based proteomic analysis of cell wall and secreted proteins of the ascomycetous fungi Neurospora crassa and Candida albicans

(2009) Abhiram Maddi et al.   FUNGAL GENETICS AND BIOLOGY

Analytical and computational approaches to define the Aspergillus niger secretome

(2009) Adrian Tsang et al.   FUNGAL GENETICS AND BIOLOGY

The ThPG1 Endopolygalacturonase Is Required for theTrichoderma harzianum–Plant Beneficial Interaction

(2009) Eugenia Morán-Diez et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

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

Systems analysis of plant cell wall degradation by the model filamentous fungus Neurospora crassa

(2009) Chaoguang Tian et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A proteomic study of pectin-degrading enzymes secreted by Botrytis cinerea grown in liquid culture

(2009) Punit Shah et al.   PROTEOMICS

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Pectin structure and biosynthesis

(2008) D MOHNEN   CURRENT OPINION IN PLANT BIOLOGY

Submerged Citric Acid Fermentation on Orange Peel Autohydrolysate

(2008) Beatriz Rivas et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Phylogeny.fr: robust phylogenetic analysis for the non-specialist

(2008) A. Dereeper et al.   NUCLEIC ACIDS RESEARCH

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

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

Cell-wall carbohydrates and their modification as a resource for biofuels

(2008) Markus Pauly et al.   PLANT JOURNAL