The intestinal microbiota: Antibiotics, colonization resistance, and enteric pathogens

Commensal microbes provide first line defense againstListeria monocytogenesinfection

(2017) Simone Becattini et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Type VI secretion systems of human gut Bacteroidales segregate into three genetic architectures, two of which are contained on mobile genetic elements

(2016) Michael J. Coyne et al.   BMC GENOMICS

Short- and long-term effects of oral vancomycin on the human intestinal microbiota

(2016) Sandrine Isaac et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Microcins mediate competition among Enterobacteriaceae in the inflamed gut

(2016) Martina Sassone-Corsi et al.   NATURE

Clostridium difficile colitis: pathogenesis and host defence

(2016) Michael C. Abt et al.   NATURE REVIEWS MICROBIOLOGY

Bacteroides fragilistype VI secretion systems use novel effector and immunity proteins to antagonize human gut Bacteroidales species

(2016) Maria Chatzidaki-Livanis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TLR-7 activation enhances IL-22–mediated colonization resistance against vancomycin-resistant enterococcus

(2016) Michael C. Abt et al.   Science Translational Medicine

Microbiome mediation of infections in the cancer setting

(2016) Ying Taur et al.   Genome Medicine

Role of intestinal microbiota in transplantation outcomes

(2015) Ying Taur et al.   BEST PRACTICE & RESEARCH CLINICAL HAEMATOLOGY

Microbiota-Modulated Metabolites Shape the Intestinal Microenvironment by Regulating NLRP6 Inflammasome Signaling

(2015) Maayan Levy et al.   CELL

Innate Immune Defenses Mediated by Two ILC Subsets Are Critical for Protection against Acute Clostridium difficile Infection

(2015) Michael C. Abt et al.   Cell Host & Microbe

The Sactibiotic Subclass of Bacteriocins: An Update

(2015) Harsh Mathur et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Loss of Microbiota-Mediated Colonization Resistance toClostridium difficileInfection With Oral Vancomycin Compared With Metronidazole

(2015) Brittany B. Lewis et al.   JOURNAL OF INFECTIOUS DISEASES

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

(2015) Sushma Kommineni et al.   NATURE

Proteobacteria: microbial signature of dysbiosis in gut microbiota

(2015) Na-Ri Shin et al.   TRENDS IN BIOTECHNOLOGY

Distinct but Spatially Overlapping Intestinal Niches for Vancomycin-Resistant Enterococcus faecium and Carbapenem-Resistant Klebsiella pneumoniae

(2015) Silvia Caballero et al.   PLoS Pathogens

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

(2014) Mohamed S. Donia et al.   CELL

Gut Microbiota-Produced Succinate Promotes C. difficile Infection after Antibiotic Treatment or Motility Disturbance

(2014) Jessica A. Ferreyra et al.   Cell Host & Microbe

Impact of diet and individual variation on intestinal microbiota composition and fermentation products in obese men

(2014) Anne Salonen et al.   ISME Journal

Fecal microbiota transplantation: effectiveness, complexities and lingering concerns

(2014) E G Pamer   Mucosal Immunology

Precision microbiome reconstitution restores bile acid mediated resistance to Clostridium difficile

(2014) Charlie G. Buffie et al.   NATURE

Type VI secretion system effectors: poisons with a purpose

(2014) Alistair B. Russell et al.   NATURE REVIEWS MICROBIOLOGY

Antibiotic Administration Routes Significantly Influence the Levels of Antibiotic Resistance in Gut Microbiota

(2013) Lu Zhang et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The intestinal microbiota and susceptibility to infection in immunocompromised patients

(2013) Ying Taur et al.   CURRENT OPINION IN INFECTIOUS DISEASES

Mouse Paneth cell antimicrobial function is independent of Nod2

(2013) Michael T Shanahan et al.   GUT

Intestinal Microbiota Containing Barnesiella Species Cures Vancomycin-Resistant Enterococcus faecium Colonization

(2013) Carles Ubeda et al.   INFECTION AND IMMUNITY

Microbiota-liberated host sugars facilitate post-antibiotic expansion of enteric pathogens

(2013) Katharine M. Ng et al.   NATURE

Antibacterial membrane attack by a pore-forming intestinal C-type lectin

(2013) Sohini Mukherjee et al.   NATURE

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Control of pathogens and pathobionts by the gut microbiota

(2013) Nobuhiko Kamada et al.   NATURE IMMUNOLOGY

Duodenal Infusion of Donor Feces for Recurrent Clostridium difficile

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

Nutritional Basis for Colonization Resistance by Human Commensal Escherichia coli Strains HS and Nissle 1917 against E. coli O157:H7 in the Mouse Intestine

(2013) Rosalie Maltby et al.   PLoS One

The Microbial Metabolites, Short-Chain Fatty Acids, Regulate Colonic Treg Cell Homeostasis

(2013) P. M. Smith et al.   SCIENCE

Commensal Clostridia: leading players in the maintenance of gut homeostasis

(2013) Loris R Lopetuso et al.   Gut Pathogens

Imaging Type VI Secretion-Mediated Bacterial Killing

(2013) Yannick R. Brunet et al.   Cell Reports

Promoter Swapping Unveils the Role of the Citrobacter rodentium CTS1 Type VI Secretion System in Interbacterial Competition

(2012) Erwan Gueguen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Clostridium difficile Infection after Allogeneic Hematopoietic Stem Cell Transplantation: Incidence, Risk Factors, and Outcome

(2012) Lise Willems et al.   BIOLOGY OF BLOOD AND MARROW TRANSPLANTATION

Epidemiology and Outcomes of Clostridium difficile Infections in Hematopoietic Stem Cell Transplant Recipients

(2012) C. D. Alonso et al.   CLINICAL INFECTIOUS DISEASES

Current Status of Clostridium difficile Infection Epidemiology

(2012) F. C. Lessa et al.   CLINICAL INFECTIOUS DISEASES

Intestinal Domination and the Risk of Bacteremia in Patients Undergoing Allogeneic Hematopoietic Stem Cell Transplantation

(2012) Ying Taur et al.   CLINICAL INFECTIOUS DISEASES

Interleukin 23 Production by Intestinal CD103+CD11b+ Dendritic Cells in Response to Bacterial Flagellin Enhances Mucosal Innate Immune Defense

(2012) Melissa A. Kinnebrew et al.   IMMUNITY

Critical Role for MyD88-Mediated Neutrophil Recruitment during Clostridium difficile Colitis

(2012) Irene Jarchum et al.   INFECTION AND IMMUNITY

Suppression of Clostridium difficile in the Gastrointestinal Tracts of Germfree Mice Inoculated with a Murine Isolate from the Family Lachnospiraceae

(2012) Angela E. Reeves et al.   INFECTION AND IMMUNITY

Gut microbiome composition is linked to whole grain-induced immunological improvements

(2012) Inés Martínez et al.   ISME Journal

Type VI secretion requires a dynamic contractile phage tail-like structure

(2012) M. Basler et al.   NATURE

Diversity, stability and resilience of the human gut microbiota

(2012) Catherine A. Lozupone et al.   NATURE

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

Bacteriocins — a viable alternative to antibiotics?

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

Regulated Virulence Controls the Ability of a Pathogen to Compete with the Gut Microbiota

(2012) N. Kamada et al.   SCIENCE

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

Eating For Two: How Metabolism Establishes Interspecies Interactions in the Gut

(2011) Michael A. Fischbach et al.   Cell Host & Microbe

Composition and functional role of the mucus layers in the intestine

(2011) Malin E. V. Johansson et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Clinical Practice Guideline for the Use of Antimicrobial Agents in Neutropenic Patients with Cancer: 2010 Update by the Infectious Diseases Society of America

(2011) Alison G. Freifeld et al.   CLINICAL INFECTIOUS DISEASES

Toll-Like Receptor 5 Stimulation Protects Mice from AcuteClostridium difficileColitis

(2011) Irene Jarchum et al.   INFECTION AND IMMUNITY

Profound Alterations of Intestinal Microbiota following a Single Dose of Clindamycin Results in Sustained Susceptibility to Clostridium difficile-Induced Colitis

(2011) Charlie G. Buffie et al.   INFECTION AND IMMUNITY

Type VI secretion delivers bacteriolytic effectors to target cells

(2011) Alistair B. Russell et al.   NATURE

Importance and regulation of the colonic mucus barrier in a mouse model of colitis

(2010) J. Petersson et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

The Human Gut Microbiome: Ecology and Recent Evolutionary Changes

(2010) Jens Walter et al.   Annual Review of Microbiology

The Changing Epidemiology of Vancomycin-Resistant Enterococcus (VRE) Bacteremia in Allogeneic Hematopoietic Stem Cell Transplant (HSCT) Recipients

(2010) Mini Kamboj et al.   BIOLOGY OF BLOOD AND MARROW TRANSPLANTATION

Recent epidemiology of Clostridium difficile infection during hematopoietic stem cell transplantation

(2010) Teena Chopra et al.   CLINICAL TRANSPLANTATION

Incidence of Clostridium difficile Infection in Patients with Acute Leukemia and Lymphoma after Allogeneic Hematopoietic Stem Cell Transplantation

(2010) Sharon Leung et al.   INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY

Spatial organization of intestinal microbiota in the mouse ascending colon

(2010) Gerardo M Nava et al.   ISME Journal

Dominant and diet-responsive groups of bacteria within the human colonic microbiota

(2010) Alan W Walker et al.   ISME Journal

Consumption of Human Milk Oligosaccharides by Gut-Related Microbes

(2010) Angela Marcobal et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Vancomycin-resistant Enterococcus domination of intestinal microbiota is enabled by antibiotic treatment in mice and precedes bloodstream invasion in humans

(2010) Carles Ubeda et al.   JOURNAL OF CLINICAL INVESTIGATION

Bacterial Flagellin Stimulates Toll‐Like Receptor 5–Dependent Defense against Vancomycin‐ResistantEnterococcusInfection

(2010) Melissa A. Kinnebrew et al.   JOURNAL OF INFECTIOUS DISEASES

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Gut Microbiota in Health and Disease

(2010) Inna Sekirov et al.   PHYSIOLOGICAL REVIEWS

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

The Role of Intestinal Microbiota in the Development and Severity of Chemotherapy-Induced Mucositis

(2010) Michel J. van Vliet et al.   PLoS Pathogens

Isolation and Characterization of Two Members of the Siderophore-Microcin Family, Microcins M and H47

(2009) G. Vassiliadis et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Comparative genomic analysis uncovers 3 novel loci encoding type six secretion systems differentially distributed in Salmonella serotypes

(2009) Carlos J Blondel et al.   BMC GENOMICS

Enterotoxigenic Bacteroides fragilis: a Rogue among Symbiotes

(2009) C. L. Sears   CLINICAL MICROBIOLOGY REVIEWS

Towards the human intestinal microbiota phylogenetic core

(2009) Julien Tap et al.   ENVIRONMENTAL MICROBIOLOGY

Pharmacokinetics and Pharmacodynamics of Antibacterial Agents

(2009) Matthew E. Levison et al.   INFECTIOUS DISEASE CLINICS OF NORTH AMERICA

A human colonic commensal promotes colon tumorigenesis via activation of T helper type 17 T cell responses

(2009) Shaoguang Wu et al.   NATURE MEDICINE

Clostridium difficile infection: new developments in epidemiology and pathogenesis

(2009) Maja Rupnik et al.   NATURE REVIEWS MICROBIOLOGY

Nod2 is required for the regulation of commensal microbiota in the intestine

(2009) T. Petnicki-Ocwieja et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Type VI secretion apparatus and phage tail-associated protein complexes share a common evolutionary origin

(2009) P. G. Leiman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Capacity of Human Nisin- and Pediocin-Producing Lactic Acid Bacteria To Reduce Intestinal Colonization by Vancomycin-Resistant Enterococci

(2008) M. Millette et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Investigations of the MceIJ-Catalyzed Posttranslational Modification of the Microcin E492 C-Terminus: Linkage of Ribosomal and Nonribosomal Peptides To Form “Trojan Horse” Antibiotics†

(2008) Elizabeth M. Nolan et al.   BIOCHEMISTRY

Mucosal Glycan Foraging Enhances Fitness and Transmission of a Saccharolytic Human Gut Bacterial Symbiont

(2008) Eric C. Martens et al.   Cell Host & Microbe

Antimicrobial‐Associated Risk Factors forClostridium difficileInfection

(2008) Robert C. Owens et al.   CLINICAL INFECTIOUS DISEASES

Comparison of Carbon Nutrition for Pathogenic and Commensal Escherichia coli Strains in the Mouse Intestine

(2008) A. J. Fabich et al.   INFECTION AND IMMUNITY

Bile Salts and Glycine as Cogerminants for Clostridium difficile Spores

(2008) J. A. Sorg et al.   JOURNAL OF BACTERIOLOGY

Decreased Diversity of the Fecal Microbiome in RecurrentClostridium difficile–Associated Diarrhea

(2008) Ju Young Chang et al.   JOURNAL OF INFECTIOUS DISEASES

Vancomycin-resistant enterococci exploit antibiotic-induced innate immune deficits

(2008) Katharina Brandl et al.   NATURE

Opposing functions of IKK  during acute and chronic intestinal inflammation

(2008) L. Eckmann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular characterization of a functional type VI secretion system from a clinical isolate of Aeromonas hydrophila

(2007) Giovanni Suarez et al.   MICROBIAL PATHOGENESIS