Identification and Characterization of Marine Microorganisms by Tandem Mass Spectrometry Proteotyping

Quorum sensing disruption regulates hydrolytic enzyme and biofilm production in estuarine bacteria

(2021) Marion Urvoy et al.   ENVIRONMENTAL MICROBIOLOGY

Unraveling the molecular effects of oxybenzone on the proteome of an environmentally relevant marine bacterium

(2021) Clément Lozano et al.   SCIENCE OF THE TOTAL ENVIRONMENT

The Metaproteomics Initiative: a coordinated approach for propelling the functional characterization of microbiomes

(2021) Tim Van Den Bossche et al.   Microbiome

Quick microbial molecular phenotyping by differential shotgun proteomics

(2020) Duarte Gouveia et al.   ENVIRONMENTAL MICROBIOLOGY

Estimating relative biomasses of organisms in microbiota using “phylopeptidomics”

(2020) Olivier Pible et al.   Microbiome

TaxIt: An Iterative Computational Pipeline for Untargeted Strain-Level Identification Using MS/MS Spectra from Pathogenic Single-Organism Samples

(2020) Mathias Kuhring et al.   JOURNAL OF PROTEOME RESEARCH

High-throughput proteotyping of bacterial isolates by double barrel chromatography-tandem mass spectrometry based on microplate paramagnetic beads and phylopeptidomics

(2020) Karim Hayoun et al.   Journal of Proteomics

Seasonal Variation of Bacterial Diversity Along the Marine Particulate Matter Continuum

(2020) Mireia Mestre et al.   Frontiers in Microbiology

Roadmap for naming uncultivated Archaea and Bacteria

(2020) Alison E. Murray et al.   Nature Microbiology

Proteotyping Environmental Microorganisms by Phylopeptidomics: Case Study Screening Water from a Radioactive Material Storage Pool

(2020) Karim Hayoun et al.   Microorganisms

Proteomic Analysis of Resistance of Gram-Negative Bacteria to Chlorhexidine and Impacts on Susceptibility to Colistin, Antimicrobial Peptides, and Ceragenins

(2019) Marjan M. Hashemi et al.   Frontiers in Microbiology

On the Impact of the Pangenome and Annotation Discrepancies While Building Protein Sequence Databases for Bacteria Proteogenomics

(2019) Karla C. T. Machado et al.   Frontiers in Microbiology

Evaluation of Sample Preparation Methods for Fast Proteotyping of Microorganisms by Tandem Mass Spectrometry

(2019) Karim Hayoun et al.   Frontiers in Microbiology

Rapid Classification and Identification of Multiple Microorganisms with Accurate Statistical Significance via High-Resolution Tandem Mass Spectrometry

(2018) Gelio Alves et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Generalist and Specialist Mite Herbivores Induce Similar Defense Responses in Maize and Barley but Differ in Susceptibility to Benzoxazinoids

(2018) Huyen Bui et al.   Frontiers in Plant Science

Single-pot, solid-phase-enhanced sample preparation for proteomics experiments

(2018) Christopher S. Hughes et al.   Nature Protocols

Typing and Characterization of Bacteria Using Bottom-up Tandem Mass Spectrometry Proteomics

(2017) Fredrik Boulund et al.   MOLECULAR & CELLULAR PROTEOMICS

Nutrient recycling facilitates long-term stability of marine microbial phototroph–heterotroph interactions

(2017) Joseph A. Christie-Oleza et al.   Nature Microbiology

Pan-proteomics, a concept for unifying quantitative proteome measurements when comparing closely-related bacterial strains

(2016) James A. Broadbent et al.   Expert Review of Proteomics

Aliifodinibius halophilus sp. nov., a moderately halophilic member of the genus Aliifodinibius, and proposal of Balneolaceae fam. nov.

(2016) Jun Xia et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Chromatin Immunoprecipitation Sequencing Technology Reveals Global Regulatory Roles of Low-Cell-Density Quorum-Sensing Regulator AphA in the Pathogen Vibrio alginolyticus

(2016) Dan Gu et al.   JOURNAL OF BACTERIOLOGY

BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences

(2016) Minoru Kanehisa et al.   JOURNAL OF MOLECULAR BIOLOGY

Genome-Based Taxonomic Classification of Bacteroidetes

(2016) Richard L. Hahnke et al.   Frontiers in Microbiology

Improving the quality of genome, protein sequence, and taxonomy databases: A prerequisite for microbiome meta-omics 2.0

(2015) Olivier Pible et al.   PROTEOMICS

The ins and outs of RND efflux pumps in Escherichia coli

(2015) João Anes et al.   Frontiers in Microbiology

Proteomics meets blue biotechnology: A wealth of novelties and opportunities

(2014) Erica M. Hartmann et al.   Marine Genomics

Estimating relative abundances of proteins from shotgun proteomics data

(2012) Sean McIlwain et al.   BMC BIOINFORMATICS

Proteomic insights into the lifestyle of an environmentally relevant marine bacterium

(2011) Joseph Alexander Christie-Oleza et al.   ISME Journal

Mechanism and Function of the Outer Membrane Channel TolC in Multidrug Resistance and Physiology of Enterobacteria

(2011) Helen I. Zgurskaya et al.   Frontiers in Microbiology

Regulation of Vibrio alginolyticus virulence by the LuxS quorum-sensing system

(2008) J Ye et al.   JOURNAL OF FISH DISEASES

Detoxification of Toxic Heavy Metals by Marine Bacteria Highly Resistant to Mercury

(2008) Jaysankar De et al.   MARINE BIOTECHNOLOGY