New Insights into Human Nostril Microbiome from the Expanded Human Oral Microbiome Database (eHOMD): a Resource for the Microbiome of the Human Aerodigestive Tract

Propionibacterium acnes Abundance Correlates Inversely with Staphylococcus aureus: Data from Atopic Dermatitis Skin Microbiome

(2018) W Francuzik et al.   ACTA DERMATO-VENEREOLOGICA

Bacterial microbiota of the nasal passages across the span of human life

(2018) Lindsey Bomar et al.   CURRENT OPINION IN MICROBIOLOGY

Taxonomy annotation and guide tree errors in 16S rRNA databases

(2018) Robert Edgar   PeerJ

Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis

(2017) Teruaki Nakatsuji et al.   Science Translational Medicine

Severe infections emerge from commensal bacteria by adaptive evolution

(2017) Bernadette C Young et al.   eLife

Determination of nasal and oropharyngeal microbiomes in a multicenter population-based study – findings from Pretest 1 of the German National Cohort

(2017) Manas K. Akmatov et al.   Scientific Reports

The Microbiome and the Respiratory Tract

(2016) Robert P. Dickson et al.   Annual Review of Physiology

Lawsonella clevelandensis gen. nov., sp. nov., a new member of the suborder Corynebacterineae isolated from human abscesses

(2016) Melissa E. Bell et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Re-evaluation of the taxonomy of the Mitis group of the genus Streptococcus based on whole genome phylogenetic analyses, and proposed reclassification of Streptococcus dentisani as Streptococcus oralis subsp. dentisani comb. nov., Streptococcus tigurinus as Streptococcus oralis subsp. tigurinus comb. nov., and Streptococcus oligofermentans as a later synonym of Streptococcus cristatus

(2016) Anders Jensen et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

The natural history of cutaneous propionibacteria, and reclassification of selected species within the genus Propionibacterium to the proposed novel genera Acidipropionibacterium gen. nov., Cutibacterium gen. nov. and Pseudopropionibacterium gen. nov.

(2016) Christian F. P. Scholz et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Staphylococcus aureusvaccines: Deviating from the carol

(2016) Dominique Missiakas et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Skin Microbiome Surveys Are Strongly Influenced by Experimental Design

(2016) Jacquelyn S. Meisel et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Human commensals producing a novel antibiotic impair pathogen colonization

(2016) Alexander Zipperer et al.   NATURE

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Commensal–Pathogen Interactions along the Human Nasal Passages

(2016) Silvio D. Brugger et al.   PLoS Pathogens

High Frequency and Diversity of Antimicrobial Activities Produced by Nasal Staphylococcus Strains against Bacterial Competitors

(2016) Daniela Janek et al.   PLoS Pathogens

Individuality, Stability, and Variability of the Plaque Microbiome

(2016) Daniel R. Utter et al.   Frontiers in Microbiology

Culture of previously uncultured members of the human gut microbiota by culturomics

(2016) Jean-Christophe Lagier et al.   Nature Microbiology

The culturome of the human nose habitats reveals individual bacterial fingerprint patterns

(2015) Ursula Kaspar et al.   ENVIRONMENTAL MICROBIOLOGY

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

(2015) Nuala A. O'Leary et al.   NUCLEIC ACIDS RESEARCH

Staphylococcus aureus and the ecology of the nasal microbiome

(2015) C. M. Liu et al.   Science Advances

Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences

(2014) A Murat Eren et al.   ISME Journal

Biogeography and individuality shape function in the human skin metagenome

(2014) Julia Oh et al.   NATURE

PNAS Plus: From the Cover: Oligotyping analysis of the human oral microbiome

(2014) A. M. Eren et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dynamics of tongue microbial communities with single-nucleotide resolution using oligotyping

(2014) Jessica L. Mark Welch et al.   Frontiers in Microbiology

Characterization of the nasopharyngeal microbiota in health and during rhinovirus challenge

(2014) E Allen et al.   Microbiome

The microbiome of chronic rhinosinusitis: culture, molecular diagnostics and biofilm detection

(2013) Sam Boase et al.   BMC INFECTIOUS DISEASES

Comparing the anterior nare bacterial community of two discrete human populations using Illumina amplicon sequencing

(2013) Amélia Camarinha-Silva et al.   ENVIRONMENTAL MICROBIOLOGY

The altered landscape of the human skin microbiome in patients with primary immunodeficiencies

(2013) J. Oh et al.   GENOME RESEARCH

Novel Fastidious, Partially Acid-Fast, Anaerobic Gram-Positive Bacillus Associated with Abscess Formation and Recovered from Multiple Medical Centers

(2013) S. M. Harrington et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Topographic diversity of fungal and bacterial communities in human skin

(2013) Keisha Findley et al.   NATURE

Ribosomal Database Project: data and tools for high throughput rRNA analysis

(2013) James R. Cole et al.   NUCLEIC ACIDS RESEARCH

The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks

(2013) Pelin Yilmaz et al.   NUCLEIC ACIDS RESEARCH

PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes

(2013) Nicola Segata et al.   Nature Communications

National Burden of Invasive Methicillin-ResistantStaphylococcus aureusInfections, United States, 2011

(2013) Raymund Dantes   JAMA Internal Medicine

Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis

(2012) H. H. Kong et al.   GENOME RESEARCH

A framework for human microbiome research

(2012)   NATURE

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

The “Most Wanted” Taxa from the Human Microbiome for Whole Genome Sequencing

(2012) Anthony A. Fodor et al.   PLoS One

Species-Level Analysis of DNA Sequence Data from the NIH Human Microbiome Project

(2012) Sean Conlan et al.   PLoS One

Shifts in human skin and nares microbiota of healthy children and adults

(2012) Julia Oh et al.   Genome Medicine

Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys

(2011) Jeffrey J Werner et al.   ISME Journal

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Microbial Communities of the Upper Respiratory Tract and Otitis Media in Children

(2011) A. S. Laufer et al.   mBio

Endotracheal tube biofilm inoculation of oral flora and subsequent colonization of opportunistic pathogens

(2010) Sarah D. Perkins et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

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

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

The Human Oral Microbiome

(2010) F. E. Dewhirst et al.   JOURNAL OF BACTERIOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Preventing Surgical-Site Infections in Nasal Carriers ofStaphylococcus aureus

(2010) Lonneke G.M. Bode et al.   NEW ENGLAND JOURNAL OF MEDICINE

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information

(2010) T. Chen et al.   Database-The Journal of Biological Databases and Curation

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

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

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

Topographical and Temporal Diversity of the Human Skin Microbiome

(2009) E. A. Grice et al.   SCIENCE

Detection of Anaerobic Bacteria in High Numbers in Sputum from Patients with Cystic Fibrosis

(2008) Michael M. Tunney et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Changes in the Prevalence of Nasal Colonization withStaphylococcus aureusin the United States, 2001–2004

(2008) Rachel J. Gorwitz et al.   JOURNAL OF INFECTIOUS DISEASES