Global Analysis of the Fungal Microbiome in Cystic Fibrosis Patients Reveals Loss of Function of the Transcriptional Repressor Nrg1 as a Mechanism of Pathogen Adaptation

Global analysis of fungal morphology exposes mechanisms of host cell escape

(2015) Teresa R. O’Meara et al.   Nature Communications

Phenotypic diversity within a Pseudomonas aeruginosa population infecting an adult with cystic fibrosis

(2015) Shawn T. Clark et al.   Scientific Reports

Fitness Trade-Offs Associated with the Evolution of Resistance to Antifungal Drug Combinations

(2015) Jessica A. Hill et al.   Cell Reports

Lung microbiota across age and disease stage in cystic fibrosis

(2015) Bryan Coburn et al.   Scientific Reports

Coexistence and Within-Host Evolution of Diversified Lineages of Hypermutable Pseudomonas aeruginosa in Long-term Cystic Fibrosis Infections

(2014) Sofía Feliziani et al.   PLoS Genetics

Ex Uno Plures: Clonal Reinforcement Drives Evolution of a Simple Microbial Community

(2014) Margie Kinnersley et al.   PLoS Genetics

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

(2014) Sven D Willger et al.   Microbiome

Allergic bronchopulmonary mycosis due to fungi other thanAspergillus: a global overview

(2013) Anuradha Chowdhary et al.   CRITICAL REVIEWS IN MICROBIOLOGY

Candida albicans-Staphylococcus aureus Polymicrobial Peritonitis Modulates Host Innate Immunity

(2013) Brian M. Peters et al.   INFECTION AND IMMUNITY

Fungal High-throughput Taxonomic Identification tool for use with Next-Generation Sequencing (FHiTINGS)

(2013) Karen C. Dannemiller et al.   JOURNAL OF BASIC MICROBIOLOGY

Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples

(2013) Kristian Cibulskis et al.   NATURE BIOTECHNOLOGY

Genetic variation of a bacterial pathogen within individuals with cystic fibrosis provides a record of selective pressures

(2013) Tami D Lieberman et al.   NATURE GENETICS

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Phenotypic Heterogeneity of Pseudomonas aeruginosa Populations in a Cystic Fibrosis Patient

(2013) Matthew L. Workentine et al.   PLoS One

Control of Candida albicans Metabolism and Biofilm Formation by Pseudomonas aeruginosa Phenazines

(2013) D. K. Morales et al.   mBio

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

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

(2012) Nicholas A Bokulich et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

(2012) Laurence Delhaes 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

Hidden Killers: Human Fungal Infections

(2012) G. D. Brown et al.   Science Translational Medicine

High Prevalence of Azole-Resistant Aspergillus fumigatus in Adults with Cystic Fibrosis Exposed to Itraconazole

(2011) Pierre-Régis Burgel et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Spatial distribution of microbial communities in the cystic fibrosis lung

(2011) Dana Willner et al.   ISME Journal

Aspergillus Species and Other Molds in Respiratory Samples from Patients with Cystic Fibrosis: a Laboratory-Based Study with Focus on Aspergillus fumigatus Azole Resistance

(2011) Klaus Leth Mortensen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Regulatory Circuitry Governing Fungal Development, Drug Resistance, and Disease

(2011) R. S. Shapiro et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Mucoid morphotype variation of Burkholderia multivorans during chronic cystic fibrosis lung infection is correlated with changes in metabolism, motility, biofilm formation and virulence

(2011) I. N. Silva et al.   MICROBIOLOGY-SGM

Savant: genome browser for high-throughput sequencing data

(2010) M. Fiume et al.   BIOINFORMATICS

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

(2010) Sanjay H. Chotirmall et al.   CHEST

Melanized Fungi in Human Disease

(2010) S. G. Revankar et al.   CLINICAL MICROBIOLOGY REVIEWS

The Changing Microbial Epidemiology in Cystic Fibrosis

(2010) J. J. LiPuma   CLINICAL MICROBIOLOGY REVIEWS

Geosmithia argillacea: an Emerging Pathogen in Patients with Cystic Fibrosis

(2010) S. Giraud et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Systematic screens of a Candida albicans homozygous deletion library decouple morphogenetic switching and pathogenicity

(2010) Suzanne M Noble et al.   NATURE GENETICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Candida albicans and Staphylococcus aureus Form Polymicrobial Biofilms: Effects on Antimicrobial Resistance

(2009) M. M. Harriott et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Molecular identification and susceptibility profile in vitro of the emerging pathogen Candida kefyr

(2009) Alicia Gomez-Lopez et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

Harnessing Hsp90 function as a powerful, broadly effective therapeutic strategy for fungal infectious disease

(2009) Leah E. Cowen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Phenotypic Profile of the Candida albicans Regulatory Network

(2009) Oliver R. Homann et al.   PLoS Genetics

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

Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli

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