Characterization and quantification of the fungal microbiome in serial samples from individuals with cystic fibrosis

VAMPS: a website for visualization and analysis of microbial population structures

(2014) Susan M Huse et al.   BMC BIOINFORMATICS

Use of denaturing high-performance liquid chromatography (DHPLC) to characterize the bacterial and fungal airway microbiota of cystic fibrosis patients

(2014) Jérôme Mounier et al.   JOURNAL OF MICROBIOLOGY

Microbiota Present in Cystic Fibrosis Lungs as Revealed by Whole Genome Sequencing

(2014) Philippe M. Hauser et al.   PLoS One

Analysis of Candida albicans Mutants Defective in the Cdk8 Module of Mediator Reveal Links between Metabolism and Biofilm Formation

(2014) Allia K. Lindsay et al.   PLoS Genetics

Comparison of brush and biopsy sampling methods of the ileal pouch for assessment of mucosa-associated microbiota of human subjects

(2014) Susan M Huse et al.   Microbiome

Multilocus sequence typing of Scedosporium apiospermum and Pseudallescheria boydii isolates from cystic fibrosis patients

(2013) A. Bernhardt et al.   Journal of Cystic Fibrosis

Towards a unified paradigm for sequence-based identification of fungi

(2013) Urmas Kõljalg et al.   MOLECULAR ECOLOGY

Topographic diversity of fungal and bacterial communities in human skin

(2013) Keisha Findley et al.   NATURE

ITS1 Copy Number Varies among Batrachochytrium dendrobatidis Strains: Implications for qPCR Estimates of Infection Intensity from Field-Collected Amphibian Skin Swabs

(2013) Ana V. Longo et al.   PLoS One

A Filtering Method to Generate High Quality Short Reads Using Illumina Paired-End Technology

(2013) A. Murat Eren et al.   PLoS One

Inflammation and Airway Microbiota during Cystic Fibrosis Pulmonary Exacerbations

(2013) Edith T. Zemanick et al.   PLoS One

Fungi of the Murine Gut: Episodic Variation and Proliferation during Antibiotic Treatment

(2013) Serena Dollive et al.   PLoS One

Multiphasic analysis of the temporal development of the distal gut microbiota in patients following ileal pouch anal anastomosis

(2013) Vincent B Young et al.   Microbiome

Unique microbial communities persist in individual cystic fibrosis patients throughout a clinical exacerbation

(2013) Katherine E Price et al.   Microbiome

Lung-enriched Organisms and Aberrant Bacterial and Fungal Respiratory Microbiota after Lung Transplant

(2012) Emily S. Charlson et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Antibiotic Exposure as a Risk Factor for Fluconazole-Resistant Candida Bloodstream Infection

(2012) Ronen Ben-Ami et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

FungiQuant: A broad-coverage fungal quantitative real-time PCR assay

(2012) Cindy M Liu et al.   BMC MICROBIOLOGY

Reducing bias in bacterial community analysis of lower respiratory infections

(2012) Geraint B Rogers et al.   ISME Journal

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

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

Disseminated Trichosporon mycotoxinivorans, Aspergillus fumigatus, and Scedosporium apiospermum Coinfection after Lung and Liver Transplantation in a Cystic Fibrosis Patient

(2012) S. Hirschi et al.   JOURNAL OF CLINICAL MICROBIOLOGY

A Multilocus Sequence Typing Scheme Implies Population Structure and Reveals Several Putative Novel Achromobacter Species

(2012) T. Spilker et al.   JOURNAL OF CLINICAL MICROBIOLOGY

The Airway Microbiota in Cystic Fibrosis: A Complex Fungal and Bacterial Community—Implications for Therapeutic Management

(2012) Laurence Delhaes et al.   PLoS One

A Proposed Taxonomy of Anaerobic Fungi (Class Neocallimastigomycetes) Suitable for Large-Scale Sequence-Based Community Structure Analysis

(2012) Sandra Kittelmann et al.   PLoS One

The Adult Cystic Fibrosis Airway Microbiota Is Stable over Time and Infection Type, and Highly Resilient to Antibiotic Treatment of Exacerbations

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

Decade-long bacterial community dynamics in cystic fibrosis airways

(2012) J. Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Long-term cultivation-independent microbial diversity analysis demonstrates that bacterial communities infecting the adult cystic fibrosis lung show stability and resilience

(2012) Franziska Anne Stressmann et al.   THORAX

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Use of culture and molecular analysis to determine the effect of antibiotic treatment on microbial community diversity and abundance during exacerbation in patients with cystic fibrosis

(2011) M. M. Tunney et al.   THORAX

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Sputum Candida albicans Presages FEV 1 Decline and Hospital-Treated Exacerbations in Cystic Fibrosis

(2010) Sanjay H. Chotirmall et al.   CHEST

Detection and accurate identification of new or emerging bacteria in cystic fibrosis patients

(2010) F. Bittar et al.   CLINICAL MICROBIOLOGY AND INFECTION

Ironing out the wrinkles in the rare biosphere through improved OTU clustering

(2010) Susan M. Huse et al.   ENVIRONMENTAL MICROBIOLOGY

Prevalence and risk factors for recovery of filamentous fungi in individuals with cystic fibrosis

(2010) Christopher R. Sudfeld et al.   Journal of Cystic Fibrosis

Comparison of techniques to examine the diversity of fungi in adult patients with cystic fibrosis

(2010) Yuriko Nagano et al.   MEDICAL MYCOLOGY

Mixed bacterial-fungal infections in the CF respiratory tract

(2010) Laurie Whittaker Leclair et al.   MEDICAL MYCOLOGY

Medically important bacterial–fungal interactions

(2010) Anton Y. Peleg et al.   NATURE REVIEWS MICROBIOLOGY

Risk Factors for Aspergillus Colonization and Allergic Bronchopulmonary Aspergillosis in Children With Cystic Fibrosis

(2010) Virginie Jubin et al.   PEDIATRIC PULMONOLOGY

Characterization of the Oral Fungal Microbiome (Mycobiome) in Healthy Individuals

(2010) Mahmoud A. Ghannoum et al.   PLoS Pathogens

Candida albicans Interactions with Bacteria in the Context of Human Health and Disease

(2010) Diana K. Morales et al.   PLoS Pathogens

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

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

The Effect of Chronic Infection With Aspergillus fumigatus on Lung Function and Hospitalization in Patients With Cystic Fibrosis

(2009) Reshma Amin et al.   CHEST

Trichosporon mycotoxinivorans, a Novel Respiratory Pathogen in Patients with Cystic Fibrosis

(2009) P. W. Hickey et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Pseudomonas aeruginosa-Candida albicans Interactions: Localization and Fungal Toxicity of a Phenazine Derivative

(2008) J. Gibson et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Effect of Antibiotics on Vulvovaginal Candidiasis: A MetroNet Study

(2008) J. Xu et al.   Journal of the American Board of Family Medicine

A polymicrobial perspective of pulmonary infections exposes an enigmatic pathogen in cystic fibrosis patients

(2008) C. D. Sibley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Exploring Microbial Diversity and Taxonomy Using SSU rRNA Hypervariable Tag Sequencing

(2008) Susan M. Huse et al.   PLoS Genetics

Antimicrobials as a contributory factor in oral candidosis – a brief overview

(2007) NS Soysa et al.   ORAL DISEASES