Comparative systems analysis of the secretome of the opportunistic pathogen Aspergillus fumigatus and other Aspergillus species

Mixed colonies of Aspergillus niger and Aspergillus oryzae cooperatively degrading wheat bran

(2017) I. Benoit-Gelber et al.   FUNGAL GENETICS AND BIOLOGY

A comparative secretome analysis of industrial Aspergillus oryzae and its spontaneous mutant ZJGS-LZ-21

(2017) Yuanyuan Zhu et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species

(2017) Paul Julian Kersey et al.   NUCLEIC ACIDS RESEARCH

BepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes

(2017) Martin Closter Jespersen et al.   NUCLEIC ACIDS RESEARCH

20 years of the SMART protein domain annotation resource

(2017) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

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

Secretome Prediction of Two M. tuberculosis Clinical Isolates Reveals Their High Antigenic Density and Potential Drug Targets

(2017) Fernanda Cornejo-Granados et al.   Frontiers in Microbiology

Lytic polysaccharide monooxygenases and other oxidative enzymes are abundantly secreted by Aspergillus nidulans grown on different starches

(2016) Laura Nekiunaite et al.   Biotechnology for Biofuels

Mapping N-linked glycosylation of carbohydrate-active enzymes in the secretome of Aspergillus nidulans grown on lignocellulose

(2016) Marcelo Ventura Rubio et al.   Biotechnology for Biofuels

Practice Guidelines for the Diagnosis and Management of Aspergillosis: 2016 Update by the Infectious Diseases Society of America

(2016) Thomas F. Patterson et al.   CLINICAL INFECTIOUS DISEASES

Insight into Enzymatic Degradation of Corn, Wheat, and Soybean Cell Wall Cellulose Using Quantitative Secretome Analysis of Aspergillus fumigatus

(2016) Prakriti Sharma Ghimire et al.   JOURNAL OF PROTEOME RESEARCH

Do cultural conditions induce differential protein expression: Profiling of extracellular proteome of Aspergillus terreus CM20

(2016) Saritha M. et al.   MICROBIOLOGICAL RESEARCH

Computational protein–ligand docking and virtual drug screening with the AutoDock suite

(2016) Stefano Forli et al.   Nature Protocols

CDD/SPARCLE: functional classification of proteins via subfamily domain architectures

(2016) Aron Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

The SWISS-MODEL Repository—new features and functionality

(2016) Stefan Bienert et al.   NUCLEIC ACIDS RESEARCH

InterPro in 2017—beyond protein family and domain annotations

(2016) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

UniProt: the universal protein knowledgebase

(2016)   NUCLEIC ACIDS RESEARCH

PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements

(2016) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

Identification of hydrolytic activities expressed by Aspergillus flavus grown on cotton carpel tissue

(2016) J.E. Mellon et al.   PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY

Kingdom-Wide Analysis of Fungal Small Secreted Proteins (SSPs) Reveals their Potential Role in Host Association

(2016) Ki-Tae Kim et al.   Frontiers in Plant Science

Computational Prediction of Effector Proteins in Fungi: Opportunities and Challenges

(2016) Humira Sonah et al.   Frontiers in Plant Science

Secretion of small proteins is species-specific withinAspergillussp

(2016) Nicolas Valette et al.   Microbial Biotechnology

Ecology of aspergillosis: insights into the pathogenic potency ofAspergillus fumigatusand some otherAspergillusspecies

(2016) Caroline Paulussen et al.   Microbial Biotechnology

Interplay between Gliotoxin Resistance, Secretion, and the Methyl/Methionine Cycle in Aspergillus fumigatus

(2015) Rebecca A. Owens et al.   EUKARYOTIC CELL

Exoproteome of Aspergillus flavus corneal isolates and saprophytes: Identification of proteoforms of an oversecreted alkaline protease

(2015) Ramu Muthu Selvam et al.   Journal of Proteomics

Quantitative proteomic study of Aspergillus Fumigatus secretome revealed deamidation of secretory enzymes

(2015) Sunil S. Adav et al.   Journal of Proteomics

Production and characterization of two major Aspergillus oryzae secreted prolyl endopeptidases able to efficiently digest proline-rich peptides of gliadin

(2015) Philippe J. Eugster et al.   MICROBIOLOGY-SGM

Molecular Docking and Structure-Based Drug Design Strategies

(2015) Leonardo Ferreira et al.   MOLECULES

Effector P: predicting fungal effector proteins from secretomes using machine learning

(2015) Jana Sperschneider et al.   NEW PHYTOLOGIST

The Pfam protein families database: towards a more sustainable future

(2015) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Genome-wide analysis of excretory/secretory proteins in Echinococcus multilocularis: insights into functional characteristics of the tapeworm secretome

(2015) Shuai Wang et al.   Parasites & Vectors

Aspergillus flavus-secreted proteins during an in vivo fungal-cotton carpel tissue interaction

(2015) J.E. Mellon et al.   PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY

Genome analysis of Excretory/Secretory proteins in Taenia solium reveals their Abundance of Antigenic Regions (AAR)

(2015) Sandra Gomez et al.   Scientific Reports

Characterization of AnNce102 and its role in eisosome stability and sphingolipid biosynthesis

(2015) Alexandros Athanasopoulos et al.   Scientific Reports

Evaluation of Secretion Prediction Highlights Differing Approaches Needed for Oomycete and Fungal Effectors

(2015) Jana Sperschneider et al.   Frontiers in Plant Science

Comparative Secretome Analysis of Trichoderma reesei and Aspergillus niger during Growth on Sugarcane Biomass

(2015) Gustavo Pagotto Borin et al.   PLoS One

FungiFun2: a comprehensive online resource for systematic analysis of gene lists from fungal species

(2014) S. Priebe et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

Functional characterization of a xylose transporter in Aspergillus nidulans

(2014) Ana Colabardini et al.   Biotechnology for Biofuels

Compositions of fungal secretomes indicate a greater impact of phylogenetic history than lifestyle adaptation

(2014) Jorrit-Jan Krijger et al.   BMC GENOMICS

Elucidating how the saprophytic fungus Aspergillus nidulans uses the plant polyester suberin as carbon source

(2014) Isabel Martins et al.   BMC GENOMICS

Exploring azole antifungal drug resistance in Aspergillus fumigatus with special reference to resistance mechanisms

(2014) Anuradha Chowdhary et al.   Future Microbiology

SECRETOOL: integrated secretome analysis tool for fungi

(2013) Ana R. Cortázar et al.   AMINO ACIDS

Secretome diversity and quantitative analysis of cellulolytic Aspergillus fumigatus Z5 in the presence of different carbon sources

(2013) Dongyang Liu et al.   Biotechnology for Biofuels

Toward better drug repositioning: prioritizing and integrating existing methods into efficient pipelines

(2013) Guangxu Jin et al.   DRUG DISCOVERY TODAY

FigA, a Putative Homolog of Low-Affinity Calcium System Member Fig1 in Saccharomyces cerevisiae, Is Involved in Growth and Asexual and Sexual Development in Aspergillus nidulans

(2013) Shizhu Zhang et al.   EUKARYOTIC CELL

Proteomic Analysis of Temperature Dependent Extracellular Proteins from Aspergillus fumigatus Grown under Solid-State Culture Condition

(2013) Sunil S. Adav et al.   JOURNAL OF PROTEOME RESEARCH

Investigating Aspergillus nidulans secretome during colonisation of cork cell walls

(2013) Isabel Martins et al.   Journal of Proteomics

The carbohydrate-active enzymes database (CAZy) in 2013

(2013) Vincent Lombard et al.   NUCLEIC ACIDS RESEARCH

DrugBank 4.0: shedding new light on drug metabolism

(2013) Vivian Law et al.   NUCLEIC ACIDS RESEARCH

The Structure–Function Linkage Database

(2013) Eyal Akiva et al.   NUCLEIC ACIDS RESEARCH

TheAspergillusGenome Database: multispecies curation and incorporation of RNA-Seq data to improve structural gene annotations

(2013) Gustavo C. Cerqueira et al.   NUCLEIC ACIDS RESEARCH

ModBase, a database of annotated comparative protein structure models and associated resources

(2013) Ursula Pieper et al.   NUCLEIC ACIDS RESEARCH

Ca2+-dependent phospholipid scrambling by a reconstituted TMEM16 ion channel

(2013) Mattia Malvezzi et al.   Nature Communications

A time course analysis of the extracellular proteome of Aspergillus nidulans growing on sorghum stover

(2012) Sayali Saykhedkar et al.   Biotechnology for Biofuels

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

Immunoproteomics based identification of thioredoxin reductase GliT and novel Aspergillus fumigatus antigens for serologic diagnosis of invasive aspergillosis

(2012) Li-ning Shi et al.   BMC MICROBIOLOGY

Expression and secretion of Aspergillus fumigatus proteases are regulated in response to different protein substrates

(2012) Edward Farnell et al.   Fungal Biology

Secretome of Aspergillus oryzae in Shaoxing rice wine koji

(2012) Bo Zhang et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Spatially Resolving the Secretome within the Mycelium of the Cell Factory Aspergillus niger

(2012) Pauline Krijgsheld et al.   JOURNAL OF PROTEOME RESEARCH

Deciphering cell wall integrity signalling in Aspergillus fumigatus: identification and functional characterization of cell wall stress sensors and relevant Rho GTPases

(2012) Karl Dichtl et al.   MOLECULAR MICROBIOLOGY

New and continuing developments at PROSITE

(2012) Christian J. A. Sigrist et al.   NUCLEIC ACIDS RESEARCH

TIGRFAMs and Genome Properties in 2013

(2012) Daniel H. Haft et al.   NUCLEIC ACIDS RESEARCH

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

(2012) Yanbin Yin et al.   NUCLEIC ACIDS RESEARCH

The PRINTS database: a fine-grained protein sequence annotation and analysis resource--its status in 2012

(2012) T. K. Attwood et al.   Database-The Journal of Biological Databases and Curation

Indifferent, Affectionate, or Deceitful: Lifestyles and Secretomes of Fungi

(2012) Rohan G. T. Lowe et al.   PLoS Pathogens

Identification of cavities on protein surface using multiple computational approaches for drug binding site prediction

(2011) Z. Zhang et al.   BIOINFORMATICS

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

Transcriptome analysis of Aspergillus niger grown on sugarcane bagasse

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

Secretome analysis of Aspergillus fumigatus reveals Asp-hemolysin as a major secreted protein

(2011) Dirk Wartenberg et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Mapping N-Linked Glycosylation Sites in the Secretome and Whole Cells of Aspergillus niger Using Hydrazide Chemistry and Mass Spectrometry

(2011) Lu Wang et al.   JOURNAL OF PROTEOME RESEARCH

Identification of virulence factors and diagnostic markers using immunosecretome of Aspergillus fumigatus

(2011) Awanit Kumar et al.   Journal of Proteomics

A Comprehensive Analysis of Genes Encoding Small Secreted Proteins Identifies Candidate Effectors inMelampsora larici-populina(Poplar Leaf Rust)

(2011) Stéphane Hacquard et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

FungiDB: an integrated functional genomics database for fungi

(2011) J. E. Stajich et al.   NUCLEIC ACIDS RESEARCH

Proteomic Analysis of the Secretory Response of Aspergillus niger to D-Maltose and D-Xylose

(2011) José Miguel P. Ferreira de Oliveira et al.   PLoS One

Proteomics of eukaryotic microorganisms: The medically and biotechnologically important fungal genus Aspergillus

(2011) Olaf Kniemeyer   PROTEOMICS

Evaluation of Glycosyl Hydrolases in the Secretome of Aspergillus fumigatus and Saccharification of Alkali-Treated Rice Straw

(2010) Manju Sharma et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

Fungal Secretome Database: Integrated platform for annotation of fungal secretomes

(2010) Jaeyoung Choi et al.   BMC GENOMICS

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

(2010) Machtelt Braaksma et al.   BMC GENOMICS

Extracellular proteome of Aspergillus terreus grown on different carbon sources

(2010) Mee-Jung Han et al.   CURRENT GENETICS

Immuno-Reactive Molecules Identified from the Secreted Proteome ofAspergillus fumigatus

(2010) Bharat Singh et al.   JOURNAL OF PROTEOME RESEARCH

AspergillusProtein Degradation Pathways with Different Secreted Protease Sets at Neutral and Acidic pH

(2010) Dev Sriranganadane et al.   JOURNAL OF PROTEOME RESEARCH

Quantitative iTRAQ Secretome Analysis ofAspergillus nigerReveals Novel Hydrolytic Enzymes

(2010) Sunil S. Adav et al.   JOURNAL OF PROTEOME RESEARCH

Acquired antifungal drug resistance inAspergillus fumigatus:epidemiology and detection

(2010) Susan Julie Howard et al.   MEDICAL MYCOLOGY

The intra- and extracellular proteome of Aspergillus niger growing on defined medium with xylose or maltose as carbon substrate

(2010) Xin Lu et al.   Microbial Cell Factories

What makes Aspergillus fumigatus a successful pathogen? Genes and molecules involved in invasive aspergillosis

(2010) Ana Abad et al.   REVISTA IBEROAMERICANA DE MICOLOGIA

Fungal Effector Proteins

(2009) Ioannis Stergiopoulos et al.   Annual Review of Phytopathology

Analysis of Extracellular Proteins ofAspergillus oryzaeGrown on Soy Sauce Koji

(2009) Yanchang LIANG et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

Pathogenesis of Aspergillus fumigatus in Invasive Aspergillosis

(2009) T. R. T. Dagenais et al.   CLINICAL MICROBIOLOGY REVIEWS

Characterization and identification of proteases secreted by Aspergillus fumigatus using free flow electrophoresis and MS

(2009) Madlen Neustadt et al.   ELECTROPHORESIS

AgtA, the Dicarboxylic Amino Acid Transporter ofAspergillus nidulans, Is Concertedly Down-Regulated by Exquisite Sensitivity to Nitrogen Metabolite Repression and Ammonium-Elicited Endocytosis

(2009) Angeliki Apostolaki et al.   EUKARYOTIC CELL

Aspergillus alabamensis, a New Clinically Relevant Species in the SectionTerrei

(2009) S. Arunmozhi Balajee et al.   EUKARYOTIC CELL

Analytical and computational approaches to define the Aspergillus niger secretome

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

Cultivation characteristics and gene expression profiles of Aspergillus oryzae by membrane-surface liquid culture, shaking-flask culture, and agar-plate culture

(2009) Hiroyuki Imanaka et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

Patterns of Susceptibility of Aspergillus Isolates Recovered from Patients Enrolled in the Transplant-Associated Infection Surveillance Network

(2009) J. W. Baddley et al.   JOURNAL OF CLINICAL MICROBIOLOGY

AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading

(2009) Oleg Trott et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility

(2009) Garrett M. Morris et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Immune Sensing of Aspergillus fumigatus Proteins, Glycolipids, and Polysaccharides and the Impact on Th Immunity and Vaccination

(2009) S. Bozza et al.   JOURNAL OF IMMUNOLOGY

Vaccine progress

(2009) James I. Ito et al.   MEDICAL MYCOLOGY

Proteome Analysis of Aspergillus fumigatus Total Membrane Proteins Identifies Proteins Associated with the Glycoconjugates and Cell Wall Biosynthesis Using 2D LC-MS/MS

(2009) Haomiao Ouyang et al.   MOLECULAR BIOTECHNOLOGY

Aspergillosis

(2009) Brahm H. Segal   NEW ENGLAND JOURNAL OF MEDICINE

Terrific Protein Traffic: The Mystery of Effector Protein Delivery by Filamentous Plant Pathogens

(2009) R. Panstruga et al.   SCIENCE

PredGPI: a GPI-anchor predictor

(2008) Andrea Pierleoni et al.   BMC BIOINFORMATICS

Gliotoxin Production inAspergillus fumigatusContributes to Host‐Specific Differences in Virulence

(2008) Sara Spikes et al.   JOURNAL OF INFECTIOUS DISEASES

What do we know about the role of gliotoxin in the pathobiology ofAspergillus fumigatus?

(2008) Kyung J. Kwon-Chung et al.   MEDICAL MYCOLOGY

Sub-Telomere Directed Gene Expression during Initiation of Invasive Aspergillosis

(2008) Andrew McDonagh et al.   PLoS Pathogens