The Core Proteome of Biofilm-Grown Clinical Pseudomonas aeruginosa Isolates

Biofilms 2018: A diversity of microbes and mechanisms

(2019) Clay Fuqua et al.   JOURNAL OF BACTERIOLOGY

Establishment of an induced memory response in Pseudomonas aeruginosa during infection of a eukaryotic host

(2019) Adrian Kordes et al.   ISME Journal

In Vivo Proteome of Pseudomonas aeruginosa in Airways of Cystic Fibrosis Patients

(2019) Xia Wu et al.   JOURNAL OF PROTEOME RESEARCH

Comparative bioinformatic and proteomic approaches to evaluate the outer membrane proteome of the fish pathogen Yersinia ruckeri

(2019) Michael J. Ormsby et al.   Journal of Proteomics

Lifestyle transitions and adaptive pathogenesis of Pseudomonas aeruginosa

(2018) Martina Valentini et al.   CURRENT OPINION IN MICROBIOLOGY

Quantitative Proteomics of Strong and Weak Biofilm Formers ofEnterococcus faecalisReveals Novel Regulators of Biofilm Formation

(2018) Tanujaa Suriyanarayanan et al.   MOLECULAR & CELLULAR PROTEOMICS

Secretome profiling of Propionibacterium freudenreichii reveals highly variable responses even among the closely related strains

(2018) Esther Frohnmeyer et al.   Microbial Biotechnology

OUP accepted manuscript

(2018)   NUCLEIC ACIDS RESEARCH

Environment-driven changes of mRNA and protein levels in Pseudomonas aeruginosa

(2018) Jelena Erdmann et al.   ENVIRONMENTAL MICROBIOLOGY

The development of a new parameter for tracking post-transcriptional regulation allows the detailed map of the Pseudomonas aeruginosa Crc regulon

(2018) Fernando Corona et al.   Scientific Reports

Comparative proteomics reveals signature metabolisms of exponentially growing and stationary phase marine bacteria

(2017) Saraladevi Muthusamy et al.   ENVIRONMENTAL MICROBIOLOGY

Pseudomonas aeruginosa Proteome under Hypoxic Stress Conditions Mimicking the Cystic Fibrosis Lung

(2017) Karthik Shantharam Kamath et al.   JOURNAL OF PROTEOME RESEARCH

Targeting microbial biofilms: current and prospective therapeutic strategies

(2017) Hyun Koo et al.   NATURE REVIEWS MICROBIOLOGY

Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry

(2017) Ben C. Collins et al.   Nature Communications

Transcriptional Profiling of Biofilm Regulators Identified by an Overexpression Screen in Saccharomyces cerevisiae

(2017) Gareth A. Cromie et al.   G3-Genes Genomes Genetics

Comparative Proteomics Reveals Differences in Host-Pathogen Interaction between Infectious and Commensal Relationship with Campylobacter jejuni

(2017) Nieves Ayllón et al.   Frontiers in Cellular and Infection Microbiology

Proteomic Response of Pseudomonas aeruginosa PAO1 Adhering to Solid Surfaces

(2017) Morgan Guilbaud et al.   Frontiers in Microbiology

Cyclic-di-GMP regulates lipopolysaccharide modification and contributes to Pseudomonas aeruginosa immune evasion

(2017) Ronan R. McCarthy et al.   Nature Microbiology

Response of Vibrio cholerae to Low-Temperature Shifts: CspV Regulation of Type VI Secretion, Biofilm Formation, and Association with Zooplankton

(2016) Loni Townsley et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Unravelling post-transcriptional PrmC-dependent regulatory mechanisms in Pseudomonas aeruginosa

(2016) Jonas Krueger et al.   ENVIRONMENTAL MICROBIOLOGY

Shedding light on biofilm formation ofHalobacterium salinarumR1 by SWATH-LC/MS/MS analysis of planktonic and sessile cells

(2016) Gerald Losensky et al.   PROTEOMICS

Contribution of Stress Responses to Antibiotic Tolerance in Pseudomonas aeruginosa Biofilms

(2015) Philip S. Stewart et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The Use of Variable Q1 Isolation Windows Improves Selectivity in LC–SWATH–MS Acquisition

(2015) Ying Zhang et al.   JOURNAL OF PROTEOME RESEARCH

Quantitative proteogenomics of human pathogens using DIA-MS

(2015) Lars Malmström et al.   Journal of Proteomics

Extending the Limits of Quantitative Proteome Profiling with Data-Independent Acquisition and Application to Acetaminophen-Treated Three-Dimensional Liver Microtissues

(2015) Roland Bruderer et al.   MOLECULAR & CELLULAR PROTEOMICS

Living in the matrix: assembly and control of Vibrio cholerae biofilms

(2015) Jennifer K. Teschler et al.   NATURE REVIEWS MICROBIOLOGY

2016 update of the PRIDE database and its related tools

(2015) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

Genetically and Phenotypically Distinct Pseudomonas aeruginosa Cystic Fibrosis Isolates Share a Core Proteomic Signature

(2015) Anahit Penesyan et al.   PLoS One

The Pseudomonas aeruginosa Transcriptional Landscape Is Shaped by Environmental Heterogeneity and Genetic Variation

(2015) Andreas Dötsch et al.   mBio

Protein-to-mRNA Ratios Are Conserved between Pseudomonas aeruginosa Strains

(2014) Taejoon Kwon et al.   JOURNAL OF PROTEOME RESEARCH

Major Proteomic Changes Associated with Amyloid-Induced Biofilm Formation in Pseudomonas aeruginosa PAO1

(2014) Florian-Alexander Herbst et al.   JOURNAL OF PROTEOME RESEARCH

A Temporal Examination of the Planktonic and Biofilm Proteome of Whole CellPseudomonas aeruginosaPAO1 Using Quantitative Mass Spectrometry

(2014) Amber J. Park et al.   MOLECULAR & CELLULAR PROTEOMICS

Mapping differential interactomes by affinity purification coupled with data-independent mass spectrometry acquisition

(2013) Jean-Philippe Lambert et al.   NATURE METHODS

Increased proteome coverage by combining PAGE and peptide isoelectric focusing: Comparative study of gel-based separation approaches

(2013) Ilian Atanassov et al.   PROTEOMICS

Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis

(2012) Ludovic C. Gillet et al.   MOLECULAR & CELLULAR PROTEOMICS

Bagging Statistical Network Inference from Large-Scale Gene Expression Data

(2012) Ricardo de Matos Simoes et al.   PLoS One

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads

(2010) G. Lunter et al.   GENOME RESEARCH

The biofilm matrix

(2010) Hans-Curt Flemming et al.   NATURE REVIEWS MICROBIOLOGY

Comparative microarray analysis reveals that the core biofilm-associated transcriptome of Pseudomonas aeruginosa comprises relatively few genes

(2010) Sanaya Patell et al.   Environmental Microbiology Reports

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS