Advances in the Microbiome: Applications to Clostridium difficile Infection

RecurrentClostridium difficileinfection associates with distinct bile acid and microbiome profiles

(2016) J. R. Allegretti et al.   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

Secreted Compounds of the Probiotic Bacillus clausii Strain O/C Inhibit the Cytotoxic Effects Induced by Clostridium difficile and Bacillus cereus Toxins

(2016) Gabrielle Ripert et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Nosocomial transmission of Clostridium difficile ribotype 027 in a Chinese hospital, 2012–2014, traced by whole genome sequencing

(2016) Hongbing Jia et al.   BMC GENOMICS

Comparative genomic analysis of toxin-negative strains of Clostridium difficile from humans and animals with symptoms of gastrointestinal disease

(2016) Piklu Roy Chowdhury et al.   BMC MICROBIOLOGY

Are We Really Vastly Outnumbered? Revisiting the Ratio of Bacterial to Host Cells in Humans

(2016) Ron Sender et al.   CELL

Implementation of Nationwide Real-time Whole-genome Sequencing to Enhance Listeriosis Outbreak Detection and Investigation

(2016) Brendan R. Jackson et al.   CLINICAL INFECTIOUS DISEASES

Real-Time Genome Sequencing of Resistant Bacteria Provides Precision Infection Control in an Institutional Setting

(2016) Alexander Mellmann et al.   JOURNAL OF CLINICAL MICROBIOLOGY

The Future of Whole-Genome Sequencing for Public Health and the Clinic

(2016) Marc W. Allard   JOURNAL OF CLINICAL MICROBIOLOGY

Adverse events in faecal microbiota transplant: a review of the literature

(2016) M. Baxter et al.   JOURNAL OF HOSPITAL INFECTION

A Novel Microbiome Therapeutic Increases Gut Microbial Diversity and Prevents RecurrentClostridium difficileInfection

(2016) Sahil Khanna et al.   JOURNAL OF INFECTIOUS DISEASES

Human commensals producing a novel antibiotic impair pathogen colonization

(2016) Alexander Zipperer et al.   NATURE

Real-time, portable genome sequencing for Ebola surveillance

(2016) Joshua Quick et al.   NATURE

Microbiome-wide association studies link dynamic microbial consortia to disease

(2016) Jack A. Gilbert et al.   NATURE

Synchronized cycles of bacterial lysis for in vivo delivery

(2016) M. Omar Din et al.   NATURE

Real-time selective sequencing using nanopore technology

(2016) Matthew Loose et al.   NATURE METHODS

Fecal Transplants: What Is Being Transferred?

(2016) Diana P. Bojanova et al.   PLOS BIOLOGY

Clostridium difficile Toxins A and B: Insights into Pathogenic Properties and Extraintestinal Effects

(2016) Stefano Di Bella et al.   Toxins

Systematic review with meta-analysis: long-term outcomes of faecal microbiota transplantation forClostridium difficileinfection

(2015) Y.-T. Li et al.   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

Randomised clinical trial: faecal microbiota transplantation by colonoscopy vs. vancomycin for the treatment of recurrentClostridium difficileinfection

(2015) G. Cammarota et al.   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

A large scale prediction of bacteriocin gene blocks suggests a wide functional spectrum for bacteriocins

(2015) James T. Morton et al.   BMC BIOINFORMATICS

In silico identification of bacteriocin gene clusters in the gastrointestinal tract, based on the Human Microbiome Project’s reference genome database

(2015) Calum J. Walsh et al.   BMC MICROBIOLOGY

Small Molecule Inhibitors of Clostridium difficile Toxin B-Induced Cellular Damage

(2015) John Tam et al.   CHEMISTRY & BIOLOGY

A Decade of Experience in Primary Prevention of Clostridium difficile Infection at a Community Hospital Using the Probiotic Combination Lactobacillus acidophilus CL1285, Lactobacillus casei LBC80R, and Lactobacillus rhamnosus CLR2 (Bio-K+)

(2015) Pierre-Jean Maziade et al.   CLINICAL INFECTIOUS DISEASES

Genome-Based Infection Tracking Reveals Dynamics ofClostridium difficileTransmission and Disease Recurrence

(2015) Nitin Kumar et al.   CLINICAL INFECTIOUS DISEASES

Prevention of Clostridium difficile Infection With Probiotics

(2015) Charlesnika T. Evans et al.   CLINICAL INFECTIOUS DISEASES

Emergence and spread of predominantly community-onset Clostridium difficile PCR ribotype 244 infection in Australia, 2010 to 2012

(2015) D Eyre et al.   Eurosurveillance

Administration of Spores of NontoxigenicClostridium difficileStrain M3 for Prevention of RecurrentC difficileInfection

(2015) Dale N. Gerding et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

The Long-term Efficacy and Safety of Fecal Microbiota Transplant for Recurrent, Severe, and Complicated Clostridium difficile Infection in 146 Elderly Individuals

(2015) Manasi Agrawal et al.   JOURNAL OF CLINICAL GASTROENTEROLOGY

Whole-genome sequencing improves discrimination of relapse from reinfection and identifies transmission events among patients with recurrent Clostridium difficile infections

(2015) M. Mac Aogáin et al.   JOURNAL OF HOSPITAL INFECTION

Clostridium difficile Drug Pipeline: Challenges in Discovery and Development of New Agents

(2015) Angie M. Jarrad et al.   JOURNAL OF MEDICINAL CHEMISTRY

Bacteriocin production augments niche competition by enterococci in the mammalian gastrointestinal tract

(2015) Sushma Kommineni et al.   NATURE

Whole genome sequencing in clinical and public health microbiology

(2015) J.C. Kwong et al.   PATHOLOGY

A small-molecule antivirulence agent for treating Clostridium difficile infection

(2015) Kristina Oresic Bender et al.   Science Translational Medicine

Toxin Synthesis by Clostridium difficile Is Regulated through Quorum Signaling

(2015) Charles Darkoh et al.   mBio

A Modified R-Type Bacteriocin Specifically Targeting Clostridium difficile Prevents Colonization of Mice without Affecting Gut Microbiota Diversity

(2015) Dana Gebhart et al.   mBio

On Lactococcus lactis UL719 competitivity and nisin (Nisaplin®) capacity to inhibit Clostridium difficile in a model of human colon

(2015) Christophe Le Lay et al.   Frontiers in Microbiology

Comparison of Whole-Genome Sequencing and Molecular-Epidemiological Techniques forClostridium difficileStrain Typing

(2015) Samuel R. Dominguez et al.   Journal of the Pediatric Infectious Diseases Society

Tracing the Spread of Clostridium difficile Ribotype 027 in Germany Based on Bacterial Genome Sequences

(2015) Matthias Steglich et al.   PLoS One

A Systematic Analysis of Biosynthetic Gene Clusters in the Human Microbiome Reveals a Common Family of Antibiotics

(2014) Mohamed S. Donia et al.   CELL

Whole genome sequencing reveals potential spread of Clostridium difficile between humans and farm animals in the Netherlands, 2002 to 2011

(2014) C Knetsch et al.   Eurosurveillance

A high-dose preparation of lactobacilli and bifidobacteria in the prevention of antibiotic-associated and Clostridium difficile diarrhoea in older people admitted to hospital: a multicentre, randomised, double-blind, placebo-controlled, parallel arm trial (PLACIDE)

(2014) SJ Allen et al.   HEALTH TECHNOLOGY ASSESSMENT

Dynamics and Establishment of Clostridium difficile Infection in the Murine Gastrointestinal Tract

(2014) Mark J. Koenigsknecht et al.   INFECTION AND IMMUNITY

A New Type of Toxin A-Negative, Toxin B-Positive Clostridium difficile Strain Lacking a CompletetcdAGene

(2014) Sandra Janezic et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Policy: How to regulate faecal transplants

(2014) Mark B. Smith et al.   NATURE

Precision microbiome reconstitution restores bile acid mediated resistance to Clostridium difficile

(2014) Charlie G. Buffie et al.   NATURE

The International Scientific Association for Probiotics and Prebiotics consensus statement on the scope and appropriate use of the term probiotic

(2014) Colin Hill et al.   Nature Reviews Gastroenterology & Hepatology

Antivirulence Activity of the Human Gut Metabolome

(2014) L. C. M. Antunes et al.   mBio

Seeking the source ofPseudomonas aeruginosainfections in a recently opened hospital: an observational study using whole-genome sequencing

(2014) Joshua Quick et al.   BMJ Open

The synthetic biology future

(2014) Roy D Sleator   Bioengineered

Guidelines for Diagnosis, Treatment and Prevention of Clostridium difficile Infections

(2013) Christina M Surawicz et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Probiotics for the Prevention ofClostridium difficile–Associated Diarrhea

(2013) Bradley C. Johnston et al.   ANNALS OF INTERNAL MEDICINE

Site-Directed Mutations in the Lanthipeptide Mutacin 1140

(2013) Shaorong Chen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Lactobacilli and bifidobacteria in the prevention of antibiotic-associated diarrhoea and Clostridium difficile diarrhoea in older inpatients (PLACIDE): a randomised, double-blind, placebo-controlled, multicentre trial

(2013) Stephen J Allen et al.   LANCET

Bioavailability of the anti-clostridial bacteriocin thuricin CD in gastrointestinal tract

(2013) M. C. Rea et al.   MICROBIOLOGY-SGM

Bacterial genome sequencing in the clinic: bioinformatic challenges and solutions

(2013) W. Florian Fricke et al.   NATURE REVIEWS GENETICS

Duodenal Infusion of Donor Feces for Recurrent Clostridium difficile

(2013) Els van Nood et al.   NEW ENGLAND JOURNAL OF MEDICINE

Horizontal gene transfer converts non-toxigenic Clostridium difficile strains into toxin producers

(2013) Michael S.M. Brouwer et al.   Nature Communications

Reprogramming Microbes to Be Pathogen-Seeking Killers

(2013) In Young Hwang et al.   ACS Synthetic Biology

Stool substitute transplant therapy for the eradication of Clostridium difficile infection: ‘RePOOPulating’ the gut

(2013) Elaine O Petrof et al.   Microbiome

Saccharomyces boulardii for the Prevention of Antibiotic-Associated Diarrhea in Adult Hospitalized Patients: A Single-Center, Randomized, Double-Blind, Placebo-Controlled Trial

(2012) Pietro Pozzoni et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Long-Term Follow-Up of Colonoscopic Fecal Microbiota Transplant for Recurrent Clostridium difficile Infection

(2012) Lawrence J Brandt et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Generation of an actagardine A variant library through saturation mutagenesis

(2012) Steven Boakes et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Is primary prevention of Clostridium difficile infection possible with specific probiotics?

(2012) Stuart Johnson et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

Evaluation of NVB302 versus vancomycin activity in an in vitro human gut model of Clostridium difficile infection

(2012) G. S. Crowther et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

An evaluation of the impact of antibiotic stewardship on reducing the use of high-risk antibiotics and its effect on the incidence of Clostridium difficile infection in hospital settings

(2012) M. A. Aldeyab et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Novel High-Molecular-Weight, R-Type Bacteriocins of Clostridium difficile

(2012) D. Gebhart et al.   JOURNAL OF BACTERIOLOGY

Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study

(2012) Simon R Harris et al.   LANCET INFECTIOUS DISEASES

Bacteriocins — a viable alternative to antibiotics?

(2012) Paul D. Cotter et al.   NATURE REVIEWS MICROBIOLOGY

Tracking a Hospital Outbreak of Carbapenem-Resistant Klebsiella pneumoniae with Whole-Genome Sequencing

(2012) E. S. Snitkin et al.   Science Translational Medicine

Targeted Restoration of the Intestinal Microbiota with a Simple, Defined Bacteriotherapy Resolves Relapsing Clostridium difficile Disease in Mice

(2012) Trevor D. Lawley et al.   PLoS Pathogens

Clostridium difficile: Changing Epidemiology, Treatment and Infection Prevention Measures

(2012) Jane A. Cecil   Current Infectious Disease Reports

Digital biology

(2012) Roy D. Sleator   Bioengineered

Effect of Antibiotic Treatment on the Intestinal Metabolome

(2011) L. Caetano M. Antunes et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Treating Clostridium difficile Infection With Fecal Microbiota Transplantation

(2011) Johan S. Bakken et al.   Clinical Gastroenterology and Hepatology

Systematic Review of Intestinal Microbiota Transplantation (Fecal Bacteriotherapy) for Recurrent Clostridium difficile Infection

(2011) Ethan Gough et al.   CLINICAL INFECTIOUS DISEASES

The economic burden of Clostridium difficile

(2011) S.M. McGlone et al.   CLINICAL MICROBIOLOGY AND INFECTION

Fecal Transplantation, Through Colonoscopy, Is Effective Therapy for Recurrent Clostridium difficile Infection

(2011) Eero Mattila et al.   GASTROENTEROLOGY

Genomic analysis identifies association of Fusobacterium with colorectal carcinoma

(2011) A. D. Kostic et al.   GENOME RESEARCH

Impact of guidelines and enhanced antibiotic stewardship on reducing broad-spectrum antibiotic usage and its effect on incidence of Clostridium difficile infection

(2011) Moïra Joëlle Talpaert et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Time interval of increased risk for Clostridium difficile infection after exposure to antibiotics

(2011) Marjolein P. M. Hensgens et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

New types of toxin A-negative, toxin B-positive strains among clinical isolates of Clostridium difficile in Australia

(2011) B. Elliott et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Engineering microbes to sense and eradicate Pseudomonas aeruginosa, a human pathogen

(2011) N. Saeidi et al.   Molecular Systems Biology

Clinical Clostridium difficile: Clonality and Pathogenicity Locus Diversity

(2011) Kate E. Dingle et al.   PLoS One

Genome Mining for Radical SAM Protein Determinants Reveals Multiple Sactibiotic-Like Gene Clusters

(2011) Kiera Murphy et al.   PLoS One

Dose–Response Efficacy of a Proprietary Probiotic Formula of Lactobacillus acidophilus CL1285 and Lactobacillus casei LBC80R for Antibiotic-Associated Diarrhea and Clostridium difficile-Associated Diarrhea Prophylaxis in Adult Patients

(2010) Xing Wang Gao et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Clinical Practice Guidelines for Clostridium difficile Infection in Adults: 2010 Update by the Society for Healthcare Epidemiology of America (SHEA) and the Infectious Diseases Society of America (IDSA)

(2010) Stuart H. Cohen et al.   INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY

High-throughput whole-genome sequencing to dissect the epidemiology of Acinetobacter baumannii isolates from a hospital outbreak

(2010) T. Lewis et al.   JOURNAL OF HOSPITAL INFECTION

Economic healthcare costs of Clostridium difficile infection: a systematic review

(2010) S.S. Ghantoji et al.   JOURNAL OF HOSPITAL INFECTION

The role of toxin A and toxin B in Clostridium difficile infection

(2010) Sarah A. Kuehne et al.   NATURE

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Clostridium difficile infection: epidemiology, risk factors and management

(2010) Ashwin N. Ananthakrishnan   Nature Reviews Gastroenterology & Hepatology

Thuricin CD, a posttranslationally modified bacteriocin with a narrow spectrum of activity against Clostridium difficile

(2010) M. C. Rea et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Effect of broad- and narrow-spectrum antimicrobials on Clostridium difficile and microbial diversity in a model of the distal colon

(2010) M. C. Rea et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probiotic therapy - recruiting old friends to fight new foes

(2010) Roy D Sleator   Gut Pathogens

Studies with bioengineered Nisin peptides highlight the broad-spectrum potency of Nisin V

(2010) Des Field et al.   Microbial Biotechnology

Enhancing bile tolerance improves survival and persistence of Bifidobacterium and Lactococcus in the murine gastrointestinal tract

(2009) Debbie Watson et al.   BMC MICROBIOLOGY

European Society of Clinical Microbiology and Infectious Diseases (ESCMID): Data review and recommendations for diagnosing Clostridium difficile-infection (CDI)

(2009) M.J.T. Crobach et al.   CLINICAL MICROBIOLOGY AND INFECTION

Toxin B is essential for virulence of Clostridium difficile

(2009) Dena Lyras et al.   NATURE

Clostridium difficile infection: new developments in epidemiology and pathogenesis

(2009) Maja Rupnik et al.   NATURE REVIEWS MICROBIOLOGY

Probiotics and gastrointestinal disease: successes, problems and future prospects

(2009) Eamonn P Culligan et al.   Gut Pathogens

Designer probiotics: a potential therapeutic for Clostridium difficile?

(2008) R. D. Sleator et al.   JOURNAL OF MEDICAL MICROBIOLOGY