Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis

The microbiota of the respiratory tract: gatekeeper to respiratory health

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

Intestinal commensal bacteria mediate lung mucosal immunity and promote resistance of newborn mice to infection

(2017) Jerilyn Gray et al.   Science Translational Medicine

Bacterial Topography of the Healthy Human Lower Respiratory Tract

(2017) Robert P. Dickson et al.   mBio

Influenza A virus-induced release of interleukin-10 inhibits the anti-microbial activities of invariant natural killer T cells during invasive pneumococcal superinfection

(2016) A Barthelemy et al.   Mucosal Immunology

Lambda Interferon Restructures the Nasal Microbiome and Increases Susceptibility to Staphylococcus aureus Superinfection

(2016) Paul J. Planet et al.   mBio

Host Physiologic Changes Induced by Influenza A Virus Lead to Staphylococcus aureus Biofilm Dispersion and Transition from Asymptomatic Colonization to Invasive Disease

(2016) Ryan M. Reddinger et al.   mBio

Gut microbiome alterations in patients with stage 4 hepatitis C

(2016) AbdelRahman Mahmoud Aly et al.   Gut Pathogens

Influenza Virus Affects Intestinal Microbiota and Secondary Salmonella Infection in the Gut through Type I Interferons

(2016) Elisa Deriu et al.   PLoS Pathogens

The intestinal microbiome, barrier function, and immune system in inflammatory bowel disease: a tripartite pathophysiological circuit with implications for new therapeutic directions

(2016) Stephen M. Vindigni et al.   Therapeutic Advances in Gastroenterology

Genome-guided design of a defined mouse microbiota that confers colonization resistance against Salmonella enterica serovar Typhimurium

(2016) Sandrine Brugiroux et al.   Nature Microbiology

Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals

(2015) James M. Beck et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

TRAIL+ monocytes and monocyte-related cells cause lung damage and thereby increase susceptibility to influenza-Streptococcus pneumoniae coinfection

(2015) G. T. Ellis et al.   EMBO REPORTS

The microbiome in asthma

(2015) Yvonne J. Huang et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Gut biogeography of the bacterial microbiota

(2015) Gregory P. Donaldson et al.   NATURE REVIEWS MICROBIOLOGY

Influence of H7N9 virus infection and associated treatment on human gut microbiota

(2015) Nan Qin et al.   Scientific Reports

Influenza Promotes Pneumococcal Growth during Coinfection by Providing Host Sialylated Substrates as a Nutrient Source

(2014) Steven J. Siegel et al.   Cell Host & Microbe

The gut microbiota engages different signaling pathways to induce Duox2 expression in the ileum and colon epithelium

(2014) F Sommer et al.   Mucosal Immunology

Lung microbiota promotes tolerance to allergens in neonates via PD-L1

(2014) Eva S Gollwitzer et al.   NATURE MEDICINE

The co-pathogenesis of influenza viruses with bacteria in the lung

(2014) Jonathan A. McCullers   NATURE REVIEWS MICROBIOLOGY

Environmentally Determined Differences in the Murine Lung Microbiota and Their Relation to Alveolar Architecture

(2014) Yeojun Yun et al.   PLoS One

Cell-associated bacteria in the human lung microbiome

(2014) Robert P Dickson et al.   Microbiome

Chimeric Hemagglutinin Influenza Virus Vaccine Constructs Elicit Broadly Protective Stalk-Specific Antibodies

(2013) F. Krammer et al.   JOURNAL OF VIROLOGY

Microbiota abnormalities in inflammatory airway diseases — Potential for therapy

(2013) Eva S. Gollwitzer et al.   PHARMACOLOGY & THERAPEUTICS

Role of Tissue Protection in Lethal Respiratory Viral-Bacterial Coinfection

(2013) A. M. Jamieson et al.   SCIENCE

The Cystic Fibrosis Airway Microbiome

(2013) S. V. Lynch et al.   Cold Spring Harbor Perspectives in Medicine

The role of the bacterial microbiome in lung disease

(2013) Robert P Dickson et al.   Expert Review of Respiratory Medicine

Commensal Bacteria Calibrate the Activation Threshold of Innate Antiviral Immunity

(2012) Michael C. Abt et al.   IMMUNITY

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

Models and estimators linking individual-based and sample-based rarefaction, extrapolation and comparison of assemblages

(2012) R. K. Colwell et al.   Journal of Plant Ecology

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

The role of the gut microbiota in nutrition and health

(2012) Harry J. Flint et al.   Nature Reviews Gastroenterology & Hepatology

Global Transcriptome Analysis in Influenza-Infected Mouse Lungs Reveals the Kinetics of Innate and Adaptive Host Immune Responses

(2012) Claudia Pommerenke et al.   PLoS One

The microbiome of the lung

(2012) James M. Beck et al.   Translational Research

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Paneth cells, antimicrobial peptides and maintenance of intestinal homeostasis

(2011) Charles L. Bevins et al.   NATURE REVIEWS MICROBIOLOGY

Microbiota regulates immune defense against respiratory tract influenza A virus infection

(2011) T. Ichinohe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PB1-F2 Expression by the 2009 Pandemic H1N1 Influenza Virus Has Minimal Impact on Virulence in Animal Models

(2010) R. Hai et al.   JOURNAL OF VIROLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Generation of Recombinant Influenza Virus from Plasmid DNA

(2010) Luis Martínez-Sobrido et al.   Jove-Journal of Visualized Experiments

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria

(2009) Ivaylo I. Ivanov et al.   CELL

Live Attenuated Influenza Viruses Containing NS1 Truncations as Vaccine Candidates against H5N1 Highly Pathogenic Avian Influenza

(2008) J. Steel et al.   JOURNAL OF VIROLOGY