Commensal Bacteria in the Cystic Fibrosis Airway Microbiome Reduce P. aeruginosa Induced Inflammation

Relationship between airway dysbiosis, inflammation and lung function in adults with cystic fibrosis

(2021) Dario L. Frey et al.   Journal of Cystic Fibrosis

Changes in the Cystic Fibrosis Airway Microbiome in Response to CFTR Modulator Therapy

(2021) Buqing Yi et al.   Frontiers in Cellular and Infection Microbiology

Rothia mucilaginosa is an anti-inflammatory bacterium in the respiratory tract of patients with chronic lung disease

(2021) Charlotte Rigauts et al.   EUROPEAN RESPIRATORY JOURNAL

Revisiting the intrageneric structure of the genus Pseudomonas with complete whole genome sequence information: Insights into diversity and pathogen-related genetic determinants

(2021) Buqing Yi et al.   INFECTION GENETICS AND EVOLUTION

Early Life Microbiota and Respiratory Tract Infections

(2020) Wouter A.A. de Steenhuijsen Piters et al.   Cell Host & Microbe

Cell-free supernatant of Streptococcus salivarius M18 impairs the pathogenic properties of Pseudomonas aeruginosa and Klebsiella pneumonia

(2020) Sinem Tunçer et al.   ARCHIVES OF MICROBIOLOGY

Toll like Receptor signalling by Prevotella histicola activates alternative NF-κB signalling in Cystic Fibrosis bronchial epithelial cells compared to P. aeruginosa

(2020) Anne Bertelsen et al.   PLoS One

Community-led, integrated, reproducible multi-omics with anvi’o

(2020) A. Murat Eren et al.   Nature Microbiology

Critical role of TLR2 in triggering protective immunity with cyclophilin entrapped in oligomannose-coated liposomes against Neospora caninum infection in mice

(2019) Ragab M. Fereig et al.   VACCINE

Heme Uptake and Utilization by Gram-Negative Bacterial Pathogens

(2019) Kaylie L. Richard et al.   Frontiers in Cellular and Infection Microbiology

The Yin and Yang of Streptococcus Lung Infections in Cystic Fibrosis: A Model for Studying Polymicrobial Interactions

(2019) Jessie E. Scott et al.   JOURNAL OF BACTERIOLOGY

Comparative genomic analysis reveals a high prevalence of inter-species in vivo transfer of carbapenem-resistance plasmids in patients with haematological malignancies

(2019) K. Kocer et al.   CLINICAL MICROBIOLOGY AND INFECTION

CORK Study in Cystic Fibrosis

(2018) Nicola J. Ronan et al.   CHEST

Establishing the diagnosis of chronic colonization with Pseudomonas aeruginosa of cystic fibrosis patients: Comparison of the European consensus criteria with genotyping of P. aeruginosa isolates

(2018) Leander Jonckheere et al.   Journal of Cystic Fibrosis

Initial acquisition and succession of the cystic fibrosis lung microbiome is associated with disease progression in infants and preschool children

(2018) Marianne S. Muhlebach et al.   PLoS Pathogens

Linking pangenomes and metagenomes: the Prochlorococcus metapangenome

(2018) Tom O. Delmont et al.   PeerJ

Sputum microbiota is predictive of long-term clinical outcomes in young adults with cystic fibrosis

(2018) Nicole Acosta et al.   THORAX

Microevolution in response to transient heme-iron restriction enhances intracellular bacterial community development and persistence

(2018) Rachael L. Hardison et al.   PLoS Pathogens

Chronic but not intermittent infection withPseudomonas aeruginosais associated with global changes of the lung microbiome in cystic fibrosis

(2017) Sébastien Boutin et al.   EUROPEAN RESPIRATORY JOURNAL

Airway microbiota across age and disease spectrum in cystic fibrosis

(2017) Edith T. Zemanick et al.   EUROPEAN RESPIRATORY JOURNAL

The impact of impaired macrophage functions in cystic fibrosis disease progression

(2017) Manuella Lévêque et al.   Journal of Cystic Fibrosis

The microbiota of the respiratory tract: gatekeeper to respiratory health

(2017) Wing Ho Man et al.   NATURE REVIEWS MICROBIOLOGY

A commensal streptococcus hijacks a Pseudomonas aeruginosa exopolysaccharide to promote biofilm formation

(2017) Jessica A. Scoffield et al.   PLoS Pathogens

Modulation of behaviour and virulence of a high alginate expressing Pseudomonas aeruginosa strain from cystic fibrosis by oral commensal bacterium Streptococcus anginosus

(2017) Richard D. Waite et al.   PLoS One

Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens

(2016) Leighton Pritchard et al.   Analytical Methods

Clinical Significance of Commensal Gram-Positive Rods Routinely Isolated from Patient Samples

(2016) Sixto M. Leal et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Heme Synthesis and Acquisition in Bacterial Pathogens

(2016) Jacob E. Choby et al.   JOURNAL OF MOLECULAR BIOLOGY

Cystic fibrosis

(2016) J Stuart Elborn   LANCET

Nitrite reductase is critical for Pseudomonas aeruginosa survival during co-infection with the oral commensal Streptococcus parasanguinis

(2016) Jessica A. Scoffield et al.   MICROBIOLOGY-SGM

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

NCBI prokaryotic genome annotation pipeline

(2016) Tatiana Tatusova et al.   NUCLEIC ACIDS RESEARCH

Rapid Detection of Emerging Pathogens and Loss of Microbial Diversity Associated with Severe Lung Disease in Cystic Fibrosis

(2015) William G. Flight et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Control of local immunity by airway epithelial cells

(2015) M Weitnauer et al.   Mucosal Immunology

Origins of Cystic Fibrosis Lung Disease

(2015)   NEW ENGLAND JOURNAL OF MEDICINE

Environment and Colonisation Sequence Are Key Parameters Driving Cooperation and Competition between Pseudomonas aeruginosa Cystic Fibrosis Strains and Oral Commensal Streptococci

(2015) Robert A. Whiley et al.   PLoS One

Anvi’o: an advanced analysis and visualization platform for ‘omics data

(2015) A. Murat Eren et al.   PeerJ

Comparison of Microbiomes from Different Niches of Upper and Lower Airways in Children and Adolescents with Cystic Fibrosis

(2015) Sébastien Boutin et al.   PLoS One

High Individuality of Respiratory Bacterial Communities in a Large Cohort of Adult Cystic Fibrosis Patients under Continuous Antibiotic Treatment

(2015) Rolf Kramer et al.   PLoS One

Lung microbiota across age and disease stage in cystic fibrosis

(2015) Bryan Coburn et al.   Scientific Reports

CFTR: cystic fibrosis and beyond

(2014) M. A. Mall et al.   EUROPEAN RESPIRATORY JOURNAL

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Expanded microbial genome coverage and improved protein family annotation in the COG database

(2014) Michael Y. Galperin et al.   NUCLEIC ACIDS RESEARCH

TSC1 controls macrophage polarization to prevent inflammatory disease

(2014) Linnan Zhu et al.   Nature Communications

Differential Potentiation of the Virulence of the Pseudomonas aeruginosa Cystic Fibrosis Liverpool Epidemic Strain by Oral Commensal Streptococci

(2013) Robert A. Whiley et al.   JOURNAL OF INFECTIOUS DISEASES

Analysis of the Airway Microbiota of Healthy Individuals and Patients with Chronic Obstructive Pulmonary Disease by T-RFLP and Clone Sequencing

(2013) Tetyana Zakharkina et al.   PLoS One

Airway inflammation in cystic fibrosis: molecular mechanisms and clinical implications

(2013) Malena Cohen-Cymberknoh et al.   THORAX

CFTR, Mucins, and Mucus Obstruction in Cystic Fibrosis

(2013) S. M. Kreda et al.   Cold Spring Harbor Perspectives in Medicine

Pseudomonas aeruginosa: new insights into pathogenesis and host defenses

(2013) Shaan L. Gellatly et al.   Pathogens and Disease

The Lung Tissue Microbiome in Chronic Obstructive Pulmonary Disease

(2012) Marc A. Sze et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Prevalence of Streptococci and Increased Polymicrobial Diversity Associated with Cystic Fibrosis Patient Stability

(2012) L. M. Filkins et al.   JOURNAL OF BACTERIOLOGY

Increase in interleukin-8 production from circulating neutrophils upon antibiotic therapy in cystic fibrosis patients

(2012) Pasqualina Montemurro et al.   Journal of Cystic Fibrosis

Innate immunity in cystic fibrosis lung disease

(2012) D. Hartl et al.   Journal of Cystic Fibrosis

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Neutrophil Extracellular Traps Directly Induce Epithelial and Endothelial Cell Death: A Predominant Role of Histones

(2012) Mona Saffarzadeh et al.   PLoS One

The Role of TLR2 in Infection and Immunity

(2012) Laura Oliveira-Nascimento et al.   Frontiers in Immunology

Does bacterial density in cystic fibrosis sputum increase prior to pulmonary exacerbation?

(2011) Franziska A. Stressmann et al.   Journal of Cystic Fibrosis

Ultrastructural characterization of cystic fibrosis sputum using atomic force and scanning electron microscopy

(2011) Reinhard Manzenreiter et al.   Journal of Cystic Fibrosis

Neutrophil Extracellular Trap (NET)-Mediated Killing of Pseudomonas aeruginosa: Evidence of Acquired Resistance within the CF Airway, Independent of CFTR

(2011) Robert L. Young et al.   PLoS One

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Partitioning core and satellite taxa from within cystic fibrosis lung bacterial communities

(2010) Christopher J van der Gast et al.   ISME Journal

Disordered Microbial Communities in Asthmatic Airways

(2010) Markus Hilty et al.   PLoS One