Cross-Domain and Viral Interactions in the Microbiome

Bacteriophage Transcription Factor Cro Regulates Virulence Gene Expression in Enterohemorrhagic Escherichia coli

(2018) Juan D. Hernandez-Doria et al.   Cell Host & Microbe

Small Intestine Microbiota Regulate Host Digestive and Absorptive Adaptive Responses to Dietary Lipids

(2018) Kristina Martinez-Guryn et al.   Cell Host & Microbe

Malaria and the microbiome: a systematic review

(2018) Matthew M Ippolito et al.   CLINICAL INFECTIOUS DISEASES

Lactobacillus rhamnosus intake can prevent the development of Candidiasis

(2018) Mariella Vieira Pereira Leão et al.   Clinical Oral Investigations

A cell surface aggregation-promoting factor from Lactobacillus gasseri contributes towards inhibition of Trichomonas vaginalis adhesion to human vaginal ectocervical cells

(2018) Niha Phukan et al.   INFECTION AND IMMUNITY

Faecalibacterium prausnitzii Produces Butyrate to Maintain Th17/Treg Balance and to Ameliorate Colorectal Colitis by Inhibiting Histone Deacetylase 1

(2018) Lixing Zhou et al.   INFLAMMATORY BOWEL DISEASES

Skin Commensal Malassezia globosa Secreted Protease Attenuates Staphylococcus aureus Biofilm Formation

(2018) Hao Li et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

The opportunistic human fungal pathogen Candida albicans promotes the growth and proliferation of commensal Escherichia coli through an iron-responsive pathway

(2018) Shanshan Li et al.   MICROBIOLOGICAL RESEARCH

Investigations on the interplays between Schistosoma mansoni, praziquantel and the gut microbiome

(2018) Pierre H. H. Schneeberger et al.   Parasites & Vectors

Combined bacteriophages and antibiotics as an efficient therapy against VRE Enterococcus faecalis in a mouse model

(2018) Daniel Gelman et al.   RESEARCH IN MICROBIOLOGY

Phage therapy against Achromobacter xylosoxidan s lung infection in a patient with cystic fibrosis: a case report

(2018) N. Hoyle et al.   RESEARCH IN MICROBIOLOGY

Gut microbiota utilize immunoglobulin A for mucosal colonization

(2018) G. P. Donaldson et al.   SCIENCE

Enteric bacteria boost defences against oxidative stress in Entamoeba histolytica

(2018) Hugo Varet et al.   Scientific Reports

The Hyr1 protein from the fungus Candida albicans is a cross kingdom immunotherapeutic target for Acinetobacter bacterial infection

(2018) Priya Uppuluri et al.   PLoS Pathogens

Strongyle Infection and Gut Microbiota: Profiling of Resistant and Susceptible Horses Over a Grazing Season

(2018) Allison Clark et al.   Frontiers in Physiology

Intestinal Microbiota Disruption Reduces Regulatory T Cells and Increases Respiratory Viral Infection Mortality Through Increased IFNγ Production

(2018) Mitchell H. Grayson et al.   Frontiers in Immunology

Differential human gut microbiome assemblages during soil-transmitted helminth infections in Indonesia and Liberia

(2018) Bruce A. Rosa et al.   Microbiome

Metatranscriptome of human faecal microbial communities in a cohort of adult men

(2018) Galeb S. Abu-Ali et al.   Nature Microbiology

Murine colitis reveals a disease-associated bacteriophage community

(2018) Breck A. Duerkop et al.   Nature Microbiology

Asymptomatic Intestinal Colonization with Protist Blastocystis Is Strongly Associated with Distinct Microbiome Ecological Patterns

(2018) M. E. Nieves-Ramírez et al.   mSystems

Metagenome analysis of Russian and Georgian Pyophage cocktails and a placebo-controlled safety trial of single phage versus phage cocktail in healthy Staphylococcus aureus carriers

(2018) Shawna McCallin et al.   ENVIRONMENTAL MICROBIOLOGY

Schistosoma mansoni infection is associated with quantitative and qualitative modifications of the mammalian intestinal microbiota

(2018) Timothy P. Jenkins et al.   Scientific Reports

Profiling of Bacterial and Fungal Microbial Communities in Cystic Fibrosis Sputum Using RNA

(2018) Nora Grahl et al.   mSphere

Biology and Taxonomy of crAss-like Bacteriophages, the Most Abundant Virus in the Human Gut

(2018) Emma Guerin et al.   Cell Host & Microbe

Gut microbiota functions: metabolism of nutrients and other food components

(2017) Ian Rowland et al.   EUROPEAN JOURNAL OF NUTRITION

Timely Use of Probiotics in Hospitalized Adults Prevents Clostridium difficile Infection: A Systematic Review With Meta-Regression Analysis

(2017) Nicole T. Shen et al.   GASTROENTEROLOGY

Global Prevalence of Helicobacter pylori Infection: Systematic Review and Meta-Analysis

(2017) James K.Y. Hooi et al.   GASTROENTEROLOGY

Giardia duodenalis induces pathogenic dysbiosis of human intestinal microbiota biofilms

(2017) Jennifer K. Beatty et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

The Fungal Mycobiome and Its Interaction with Gut Bacteria in the Host

(2017) Qi Sam et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome

(2017) Francesco Beghini et al.   ISME Journal

Are Short Chain Fatty Acids in Gut Microbiota Defensive Players for Inflammation and Atherosclerosis?

(2017) Hideo Ohira et al.   Journal of Atherosclerosis and Thrombosis

Microbial-Derived Butyrate Promotes Epithelial Barrier Function through IL-10 Receptor–Dependent Repression of Claudin-2

(2017) Leon Zheng et al.   JOURNAL OF IMMUNOLOGY

Enteric Helminths Promote Salmonella Coinfection by Altering the Intestinal Metabolome

(2017) Lisa A. Reynolds et al.   JOURNAL OF INFECTIOUS DISEASES

The Short-Chain Fatty Acid Sodium Butyrate Functions as a Regulator of the Skin Immune System

(2017) Agatha Schwarz et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Peptic ulcer disease

(2017) Angel Lanas et al.   LANCET

Antigen-specific regulatory T-cell responses to intestinal microbiota

(2017) E V Russler-Germain et al.   Mucosal Immunology

Pseudomonas aeruginosa Inhibits the Growth of Scedosporium and Lomentospora In Vitro

(2017) Sharon C.-A. Chen et al.   MYCOPATHOLOGIA

A randomized synbiotic trial to prevent sepsis among infants in rural India

(2017) Pinaki Panigrahi et al.   NATURE

Enterococcus faecalisbacteriocin EntV inhibits hyphal morphogenesis, biofilm formation, and virulence ofCandida albicans

(2017) Carrie E. Graham et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Trichomonas vaginalis infection in symbiosis with Trichomonasvirus and Mycoplasma

(2017) Raina Fichorova et al.   RESEARCH IN MICROBIOLOGY

Inflammation boosts bacteriophage transfer between Salmonella spp.

(2017) Médéric Diard et al.   SCIENCE

This Gut Ain’t Big Enough for Both of Us. Or Is It? Helminth–Microbiota Interactions in Veterinary Species

(2017) Laura E. Peachey et al.   TRENDS IN PARASITOLOGY

The Intersection of Immune Responses, Microbiota, and Pathogenesis in Giardiasis

(2017) Marc Y. Fink et al.   TRENDS IN PARASITOLOGY

Helminths as an alternative therapy for intestinal diseases

(2017) Aytan Miranda Sipahi et al.   WORLD JOURNAL OF GASTROENTEROLOGY

The Gut Microbiome of the Vector Lutzomyia longipalpis Is Essential for Survival of Leishmania infantum

(2017) Patrick H. Kelly et al.   mBio

First Insights into the Diverse Human Archaeome: Specific Detection of Archaea in the Gastrointestinal Tract, Lung, and Nose and on Skin

(2017) Kaisa Koskinen et al.   mBio

Novel “Superspreader” Bacteriophages Promote Horizontal Gene Transfer by Transformation

(2017) Eric C. Keen et al.   mBio

A cocktail of three virulent bacteriophages prevents Vibrio cholerae infection in animal models

(2017) Minmin Yen et al.   Nature Communications

Human age and skin physiology shape diversity and abundance of Archaea on skin

(2017) Christine Moissl-Eichinger et al.   Scientific Reports

S. oralis activates the Efg1 filamentation pathway in C. albicans to promote cross-kingdom interactions and mucosal biofilms

(2017) Hongbin Xu et al.   Virulence

Candida albicans mannans mediate Streptococcus mutans exoenzyme GtfB binding to modulate cross-kingdom biofilm development in vivo

(2017) Geelsu Hwang et al.   PLoS Pathogens

Microbiome-mediated neutrophil recruitment via CXCR2 and protection from amebic colitis

(2017) Koji Watanabe et al.   PLoS Pathogens

Cross-modulation of pathogen-specific pathways enhances malnutrition during enteric co-infection with Giardia lamblia and enteroaggregative Escherichia coli

(2017) Luther A. Bartelt et al.   PLoS Pathogens

Interactions of Intestinal Bacteria with Components of the Intestinal Mucus

(2017) Jean-Félix Sicard et al.   Frontiers in Cellular and Infection Microbiology

The Fungal Frontier: A Comparative Analysis of Methods Used in the Study of the Human Gut Mycobiome

(2017) Chloe E. Huseyin et al.   Frontiers in Microbiology

Antimicrobial Compounds Produced by Vaginal Lactobacillus crispatus Are Able to Strongly Inhibit Candida albicans Growth, Hyphal Formation and Regulate Virulence-related Gene Expressions

(2017) Shuai Wang et al.   Frontiers in Microbiology

Helminth Immunomodulation in Autoimmune Disease

(2017) Taylor B. Smallwood et al.   Frontiers in Immunology

Candida albicans alters the bacterial microbiome of early in vitro oral biofilms

(2017) M. M. Janus et al.   Journal of Oral Microbiology

The gut mycobiome of the Human Microbiome Project healthy cohort

(2017) Andrea K. Nash et al.   Microbiome

Discovery of an expansive bacteriophage family that includes the most abundant viruses from the human gut

(2017) Natalya Yutin et al.   Nature Microbiology

Giardia co-infection promotes the secretion of antimicrobial peptides beta-defensin 2 and trefoil factor 3 and attenuates attaching and effacing bacteria-induced intestinal disease

(2017) Anna Manko et al.   PLoS One

Infections by human gastrointestinal helminths are associated with changes in faecal microbiota diversity and composition

(2017) Timothy P. Jenkins et al.   PLoS One

Candida albicans stimulates Streptococcus mutans microcolony development via cross-kingdom biofilm-derived metabolites

(2017) Dongyeop Kim et al.   Scientific Reports

The effects of Lactobacillus plantarum on small intestinal barrier function and mucosal gene transcription; a randomized double-blind placebo controlled trial

(2017) Zlatan Mujagic et al.   Scientific Reports

From Dietary Fiber to Host Physiology: Short-Chain Fatty Acids as Key Bacterial Metabolites

(2016) Ara Koh et al.   CELL

A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility

(2016) Mahesh S. Desai et al.   CELL

Sequential Infection with Common Pathogens Promotes Human-like Immune Gene Expression and Altered Vaccine Response

(2016) Tiffany A. Reese et al.   Cell Host & Microbe

Enemies and brothers in arms:Candida albicansand gram-positive bacteria

(2016) Toni M. Förster et al.   CELLULAR MICROBIOLOGY

A Prospective Longitudinal Cohort to Investigate the Effects of Early Life Giardiasis on Growth and All Cause Diarrhea

(2016) Jeffrey R. Donowitz et al.   CLINICAL INFECTIOUS DISEASES

Associations between common intestinal parasites and bacteria in humans as revealed by qPCR

(2016) L. O’Brien Andersen et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

Metagenomics, Metatranscriptomics, and Metabolomics Approaches for Microbiome Analysis

(2016) Vanessa Aguiar-Pulido et al.   Evolutionary Bioinformatics

Fungal microbiota dysbiosis in IBD

(2016) Harry Sokol et al.   GUT

The Microbiota Contributes to CD8+T Cell Activation and Nutrient Malabsorption following Intestinal Infection with Giardia duodenalis

(2016) Aleksander Keselman et al.   INFECTION AND IMMUNITY

Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses

(2016) François Enault et al.   ISME Journal

Lactobacillusis able to alter the virulence and the sensitivity profile ofCandida albicans

(2016) V.M.C. Oliveira et al.   JOURNAL OF APPLIED MICROBIOLOGY

Streptococcus oralisandCandida albicansSynergistically Activate μ-Calpain to Degrade E-cadherin From Oral Epithelial Junctions

(2016) Hongbin Xu et al.   JOURNAL OF INFECTIOUS DISEASES

Schistosome Soluble Egg Antigen DecreasesMycobacterium tuberculosis–Specific CD4+T-Cell Effector Function With Concomitant Arrest of Macrophage Phago-Lysosome Maturation

(2016) Andrew R. DiNardo et al.   JOURNAL OF INFECTIOUS DISEASES

Diverse Human Skin Fungal Communities in Children Converge in Adulthood

(2016) Jay-Hyun Jo et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Mobile genes in the human microbiome are structured from global to individual scales

(2016) I. L. Brito et al.   NATURE

A practical guide to the oral microbiome and its relation to health and disease

(2016) K Krishnan et al.   ORAL DISEASES

Composition of the gut microbiota modulates the severity of malaria

(2016) Nicolas F. Villarino et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Healthy human gut phageome

(2016) Pilar Manrique et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Temperate phages both mediate and drive adaptive evolution in pathogen biofilms

(2016) Emily V. Davies et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Helminth infection promotes colonization resistance via type 2 immunity

(2016) Deepshika Ramanan et al.   SCIENCE

Resolving the Complexity of Human Skin Metagenomes Using Single-Molecule Sequencing

(2016) Yu-Chih Tsai et al.   mBio

Commensal Protection of Staphylococcus aureus against Antimicrobials by Candida albicans Biofilm Matrix

(2016) Eric F. Kong et al.   mBio

Bacterial viruses enable their host to acquire antibiotic resistance genes from neighbouring cells

(2016) Jakob Haaber et al.   Nature Communications

The effect of helminth infection on the microbial composition and structure of the caprine abomasal microbiome

(2016) Robert W. Li et al.   Scientific Reports

Mining the oral mycobiome: Methods, components, and meaning

(2016) Patricia I. Diaz et al.   Virulence

The vaginal mycobiome: A contemporary perspective on fungi in women's health and diseases

(2016) L. Latéy Bradford et al.   Virulence

Topographical and physiological differences of the skin mycobiome in health and disease

(2016) Jay-Hyun Jo et al.   Virulence

Rapid and Efficient Generation of Regulatory T Cells to Commensal Antigens in the Periphery

(2016) Katherine Nutsch et al.   Cell Reports

The healthy human microbiome

(2016) Jason Lloyd-Price et al.   Genome Medicine

Revised Estimates for the Number of Human and Bacteria Cells in the Body

(2016) Ron Sender et al.   PLOS BIOLOGY

Characterization of the Gut Microbiome Using 16S or Shotgun Metagenomics

(2016) Juan Jovel et al.   Frontiers in Microbiology

Symbiotic Association with Mycoplasma hominis Can Influence Growth Rate, ATP Production, Cytolysis and Inflammatory Response of Trichomonas vaginalis

(2016) Valentina Margarita et al.   Frontiers in Microbiology

Interkingdom cooperation betweenCandida albicans,Streptococcus oralisandActinomyces orismodulates early biofilm development on denture material

(2016) Indira M.G. Cavalcanti et al.   Pathogens and Disease

Candida albicansin oral biofilms could prevent caries

(2016) Hubertine Marjoleine Willems et al.   Pathogens and Disease

Interpreting Prevotella and Bacteroides as biomarkers of diet and lifestyle

(2016) Anastassia Gorvitovskaia et al.   Microbiome

Skin fungal community and its correlation with bacterial community of urban Chinese individuals

(2016) Marcus H. Y. Leung et al.   Microbiome

Metatranscriptomic analysis of diverse microbial communities reveals core metabolic pathways and microbiome-specific functionality

(2016) Yue Jiang et al.   Microbiome

Oral Phage Therapy of Acute Bacterial Diarrhea With Two Coliphage Preparations: A Randomized Trial in Children From Bangladesh

(2016) Shafiqul Alam Sarker et al.   EBioMedicine

Prevention ofClostridium difficileInfection withSaccharomyces boulardii: A Systematic Review

(2016) Jennifer M Tung et al.   CANADIAN JOURNAL OF GASTROENTEROLOGY

Body Site Is a More Determinant Factor than Human Population Diversity in the Healthy Skin Microbiome

(2016) Guillermo I. Perez Perez et al.   PLoS One

Impact of Helminth Infections and Nutritional Constraints on the Small Intestine Microbiota

(2016) Isabella M. Cattadori et al.   PLoS One

Piphillin: Improved Prediction of Metagenomic Content by Direct Inference from Human Microbiomes

(2016) Shoko Iwai et al.   PLoS One

Phage selection restores antibiotic sensitivity in MDR Pseudomonas aeruginosa

(2016) Benjamin K. Chan et al.   Scientific Reports

Colonization with the enteric protozoa Blastocystis is associated with increased diversity of human gut bacterial microbiota

(2016) Christophe Audebert et al.   Scientific Reports

Enterohemorrhagic Escherichia coli promotes the invasion and tissue damage of enterocytes infected with Candida albicans in vitro

(2016) Weiming Yang et al.   Scientific Reports

Changes in duodenal tissue-associated microbiota following hookworm infection and consecutive gluten challenges in humans with coeliac disease

(2016) Paul Giacomin et al.   Scientific Reports

Giardia duodenalis-induced alterations of commensal bacteria kill Caenorhabditis elegans: a new model to study microbial-microbial interactions in the gut

(2015) Teklu K. Gerbaba et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Impact of a Cross-Kingdom Signaling Molecule of Candida albicans on Acinetobacter baumannii Physiology

(2015) Xenia Kostoulias et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Fungal β-1,3-Glucan Increases Ofloxacin Tolerance of Escherichia coli in a Polymicrobial E. coli/Candida albicans Biofilm

(2015) Katrijn De Brucker et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Bacteriophage Combinations Significantly Reduce Clostridium difficile GrowthIn Vitroand ProliferationIn Vivo

(2015) Janet Y. Nale et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Virulence and pathogenicity ofCandida albicansis enhanced in biofilms containing oral bacteria

(2015) Yuri Wanderley Cavalcanti et al.   BIOFOULING

Stool microbiota composition is associated with the prospective risk of Plasmodium falciparum infection

(2015) Shibu Yooseph et al.   BMC GENOMICS

Human helminth therapy to treat inflammatory disorders- where do we stand?

(2015) Helena Helmby   BMC IMMUNOLOGY

Vaginal colonisation by probiotic lactobacilli and clinical outcome in women conventionally treated for bacterial vaginosis and yeast infection

(2015) Sonal Pendharkar et al.   BMC INFECTIOUS DISEASES

Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease

(2015) Jason M. Norman et al.   CELL

Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells

(2015) Koji Atarashi et al.   CELL

Quantitative Imaging of Gut Microbiota Spatial Organization

(2015) Kristen A. Earle et al.   Cell Host & Microbe

Filamentous Bacteriophage Promote Biofilm Assembly and Function

(2015) Patrick R. Secor et al.   Cell Host & Microbe

Inhibition of Dectin-1 Signaling Ameliorates Colitis by Inducing Lactobacillus-Mediated Regulatory T Cell Expansion in the Intestine

(2015) Ce Tang et al.   Cell Host & Microbe

Crosstalk between Microbiota-Derived Short-Chain Fatty Acids and Intestinal Epithelial HIF Augments Tissue Barrier Function

(2015) Caleb J. Kelly et al.   Cell Host & Microbe

FOXP3+ regulatory T cells and their functional regulation

(2015) Zhiyuan Li et al.   Cellular & Molecular Immunology

Prevention of Clostridium difficile Infection With Probiotics

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

Fungi inhabiting the healthy human gastrointestinal tract: a diverse and dynamic community

(2015) Heather E. Hallen-Adams et al.   Fungal Ecology

Spatial variation of the colonic microbiota in patients with ulcerative colitis and control volunteers

(2015) A Lavelle et al.   GUT

The Intestinal Microbiota Contributes to the Ability of Helminths to Modulate Allergic Inflammation

(2015) Mario M. Zaiss et al.   IMMUNITY

Fungal Signature in the Gut Microbiota of Pediatric Patients With Inflammatory Bowel Disease

(2015) Christel Chehoud et al.   INFLAMMATORY BOWEL DISEASES

The microbiota in inflammatory bowel disease

(2015) Donal Sheehan et al.   JOURNAL OF GASTROENTEROLOGY

Induction of Th17 cells by segmented filamentous bacteria in the murine intestine

(2015) Adam M. Farkas et al.   JOURNAL OF IMMUNOLOGICAL METHODS

Mycobiome: Approaches to analysis of intestinal fungi

(2015) Jie Tang et al.   JOURNAL OF IMMUNOLOGICAL METHODS

Role of the Gut Microbiota of Children in Diarrhea Due to the Protozoan ParasiteEntamoeba histolytica

(2015) Carol A. Gilchrist et al.   JOURNAL OF INFECTIOUS DISEASES

Move Over, Bacteria! Viruses Make Their Mark as Mutualistic Microbial Symbionts

(2015) Marilyn J. Roossinck   JOURNAL OF VIROLOGY

Deciphering the human microbiome using next-generation sequencing data and bioinformatics approaches

(2015) Yihwan Kim et al.   METHODS

Streptococcus gordonii comCDE (competence) operon modulates biofilm formation with Candida albicans

(2015) Alison A. Jack et al.   MICROBIOLOGY-SGM

Systemic Staphylococcus aureus infection mediated by Candida albicans hyphal invasion of mucosal tissue

(2015) Lisa Marie Schlecht et al.   MICROBIOLOGY-SGM

Activation of HIF-1α and LL-37 by commensal bacteria inhibits Candida albicans colonization

(2015) Di Fan et al.   NATURE MEDICINE

Early life dynamics of the human gut virome and bacterial microbiome in infants

(2015) Efrem S Lim et al.   NATURE MEDICINE

Gut biogeography of the bacterial microbiota

(2015) Gregory P. Donaldson et al.   NATURE REVIEWS MICROBIOLOGY

Indigenous microbiota and Leishmaniasis

(2015) M. E. M. Lopes et al.   PARASITE IMMUNOLOGY

Interactions between the intestinal microbiome and helminth parasites

(2015) M. M. Zaiss et al.   PARASITE IMMUNOLOGY

Subdiffusive motion of bacteriophage in mucosal surfaces increases the frequency of bacterial encounters

(2015) Jeremy J. Barr et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Temperate and lytic bacteriophages programmed to sensitize and kill antibiotic-resistant bacteria

(2015) Ido Yosef et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fitness cost of antibiotic susceptibility during bacterial infection

(2015) Damien Roux et al.   Science Translational Medicine

Inhibition of miR122a by Lactobacillus rhamnosus GG culture supernatant increases intestinal occludin expression and protects mice from alcoholic liver disease

(2015) Haiyang Zhao et al.   TOXICOLOGY LETTERS

Metabolic control of regulatory T cell development and function

(2015) Hu Zeng et al.   TRENDS IN IMMUNOLOGY

The gut microbiome in the helminth infected host

(2015) Francisca Mutapi   TRENDS IN PARASITOLOGY

The Human Skin Double-Stranded DNA Virome: Topographical and Temporal Diversity, Genetic Enrichment, and Dynamic Associations with the Host Microbiome

(2015) Geoffrey D. Hannigan et al.   mBio

The outer mucus layer hosts a distinct intestinal microbial niche

(2015) Hai Li et al.   Nature Communications

Experimental hookworm infection and escalating gluten challenges are associated with increased microbial richness in celiac subjects

(2015) Paul Giacomin et al.   Scientific Reports

Plasmodium berghei ANKA causes intestinal malaria associated with dysbiosis

(2015) Tomoyo Taniguchi et al.   Scientific Reports

Inflammation-associated alterations to the intestinal microbiota reduce colonization resistance against non-typhoidal Salmonella during concurrent malaria parasite infection

(2015) Jason P. Mooney et al.   Scientific Reports

A systematic review and meta-analysis of probiotics for the treatment of allergic rhinitis

(2015) Alexander E. Zajac et al.   International Forum of Allergy & Rhinology

Variation in Rural African Gut Microbiota Is Strongly Correlated with Colonization by Entamoeba and Subsistence

(2015) Elise R. Morton et al.   PLoS Genetics

The Interplay of Host Microbiota and Parasitic Protozoans at Mucosal Interfaces: Implications for the Outcomes of Infections and Diseases

(2015) Ann-Katrein Bär et al.   PLoS Neglected Tropical Diseases

Differences in the Faecal Microbiome in Schistosoma haematobium Infected Children vs. Uninfected Children

(2015) Gemma Louise Kay et al.   PLoS Neglected Tropical Diseases

Candida albicans Inhibits Pseudomonas aeruginosa Virulence through Suppression of Pyochelin and Pyoverdine Biosynthesis

(2015) Eduardo Lopez-Medina et al.   PLoS Pathogens

Battling Phages: How Bacteria Defend against Viral Attack

(2015) Kimberley D. Seed   PLoS Pathogens

Phenotypic complementation of genetic immunodeficiency by chronic herpesvirus infection

(2015) Donna A MacDuff et al.   eLife

Lactobacillus protects the integrity of intestinal epithelial barrier damaged by pathogenic bacteria

(2015) Qinghua Yu et al.   Frontiers in Cellular and Infection Microbiology

The human urine virome in association with urinary tract infections

(2015) Tasha M. Santiago-Rodriguez et al.   Frontiers in Microbiology

The human gastric microbiota: Is it time to rethink the pathogenesis of stomach diseases?

(2015) Gerardo Nardone et al.   United European Gastroenterology Journal

Type 2 immunity-dependent reduction of segmented filamentous bacteria in mice infected with the helminthic parasite Nippostrongylus brasiliensis

(2015) W. Florian Fricke et al.   Microbiome

Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome

(2015) Shirley Bikel et al.   Computational and Structural Biotechnology Journal

Chronic Trichuris muris Infection in C57BL/6 Mice Causes Significant Changes in Host Microbiota and Metabolome: Effects Reversed by Pathogen Clearance

(2015) Ashley Houlden et al.   PLoS One

Chronic Trichuris muris Infection Decreases Diversity of the Intestinal Microbiota and Concomitantly Increases the Abundance of Lactobacilli

(2015) Jacob Bak Holm et al.   PLoS One

Isolation of Vaginal Lactobacilli and Characterization of Anti-Candida Activity

(2015) Carola Parolin et al.   PLoS One

Spontaneously Induced Prophages in Lactobacillus gasseri Contribute to Horizontal Gene Transfer

(2014) J. L. Baugher et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Lactobacillus crispatus L1: high cell density cultivation and exopolysaccharide structure characterization to highlight potentially beneficial effects against vaginal pathogens

(2014) Giovanna Donnarumma et al.   BMC MICROBIOLOGY

Gut Microbiota Elicits a Protective Immune Response against Malaria Transmission

(2014) Bahtiyar Yilmaz et al.   CELL

Microbial ‘old friends’, immunoregulation and socioeconomic status

(2014) G. A. W. Rook et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

Helminths in the hygiene hypothesis: sooner or later?

(2014) R. M. Maizels et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

Formic Acid and Acetic Acid Induce a Programmed Cell Death in Pathogenic Candida Species

(2014) Eglė Lastauskienė et al.   CURRENT MICROBIOLOGY

Helminth/Parasite Treatment of Multiple Sclerosis

(2014) Jorge Correale   Current Treatment Options in Neurology

The composition of the gut microbiota shapes the colon mucus barrier

(2014) H. E. Jakobsson et al.   EMBO REPORTS

Meta-analyses of human gut microbes associated with obesity and IBD

(2014) William A. Walters et al.   FEBS LETTERS

Candida albicans and Streptococcus mutans: a potential synergistic alliance to cause virulent tooth decay in children

(2014) Hyun Koo et al.   Future Microbiology

Correlation Between Intraluminal Oxygen Gradient and Radial Partitioning of Intestinal Microbiota

(2014) Lindsey Albenberg et al.   GASTROENTEROLOGY

T-cell selection and intestinal homeostasis

(2014) Teresa L. Ai et al.   IMMUNOLOGICAL REVIEWS

Symbiotic Relationship between Streptococcus mutans and Candida albicans Synergizes Virulence of Plaque BiofilmsIn Vivo

(2014) Megan L. Falsetta et al.   INFECTION AND IMMUNITY

Giardia duodenalis Cathepsin B Proteases Degrade Intestinal Epithelial Interleukin-8 and Attenuate Interleukin-8-Induced Neutrophil Chemotaxis

(2014) James A. Cotton et al.   INFECTION AND IMMUNITY

Clinical Implications of Oral Candidiasis: Host Tissue Damage and Disseminated Bacterial Disease

(2014) Eric F. Kong et al.   INFECTION AND IMMUNITY

Global burden of gastric cancer attributable toHelicobacterpylori

(2014) Martyn Plummer et al.   INTERNATIONAL JOURNAL OF CANCER

Lytic activity by temperate phages of Pseudomonas aeruginosa in long-term cystic fibrosis chronic lung infections

(2014) Chloe E James et al.   ISME Journal

Cross-feeding and interkingdom communication in dual-species biofilms of Streptococcus mutans and Candida albicans

(2014) Helena Sztajer et al.   ISME Journal

Human oral viruses are personal, persistent and gender-consistent

(2014) Shira R Abeles et al.   ISME Journal

Antimicrobial and anti-adhesive properties of biosurfactant produced by lactobacilli isolates, biofilm formation and aggregation ability

(2014) Eman Zakaria Gomaa   JOURNAL OF GENERAL AND APPLIED MICROBIOLOGY

Impact of Experimental Hookworm Infection on the Human Gut Microbiota

(2014) Cinzia Cantacessi et al.   JOURNAL OF INFECTIOUS DISEASES

Metabolic, Immune, and Gut Microbial Signals Mount a Systems Response to Leishmania major Infection

(2014) Sabrina D. Lamour et al.   JOURNAL OF PROTEOME RESEARCH

Innocent until proven guilty: mechanisms and roles ofStreptococcus-Candidainteractions in oral health and disease

(2014) H. Xu et al.   Molecular Oral Microbiology

Border maneuvers: deployment of mucosal immune defenses against Toxoplasma gondii

(2014) S B Cohen et al.   Mucosal Immunology

Biogeography and individuality shape function in the human skin metagenome

(2014) Julia Oh et al.   NATURE

An enteric virus can replace the beneficial function of commensal bacteria

(2014) Elisabeth Kernbauer et al.   NATURE

Of worms, mice and man: An overview of experimental and clinical helminth-based therapy for inflammatory bowel disease

(2014) Marthe Heylen et al.   PHARMACOLOGY & THERAPEUTICS

Redefining the Human Oral Mycobiome with Improved Practices in Amplicon-based Taxonomy: Discovery of Malassezia as a Prominent Commensal

(2014) Amanda K. Dupuy et al.   PLoS One

Relating the metatranscriptome and metagenome of the human gut

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

Characterization of virus-like particles associated with the human faecal and caecal microbiota

(2014) Lesley Hoyles et al.   RESEARCH IN MICROBIOLOGY

Helminth infection reactivates latent  -herpesvirus via cytokine competition at a viral promoter

(2014) T. A. Reese et al.   SCIENCE

Virus-helminth coinfection reveals a microbiota-independent mechanism of immunomodulation

(2014) L. C. Osborne et al.   SCIENCE

Commensal microbiota regulates T cell fate decision in the gut

(2014) Yukihiro Furusawa et al.   Seminars in Immunopathology

History ofHelicobacter pylori, duodenal ulcer, gastric ulcer and gastric cancer

(2014) David Y Graham   WORLD JOURNAL OF GASTROENTEROLOGY

Bone Marrow Dendritic Cells from Mice with an Altered Microbiota Provide Interleukin 17A-Dependent Protection against Entamoeba histolytica Colitis

(2014) Stacey L. Burgess et al.   mBio

A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes

(2014) Bas E. Dutilh et al.   Nature Communications

The Human Mycobiome

(2014) P. C. Seed   Cold Spring Harbor Perspectives in Medicine

Helminth Colonization Is Associated with Increased Diversity of the Gut Microbiota

(2014) Soo Ching Lee et al.   PLoS Neglected Tropical Diseases

AI-2 of Aggregatibacter actinomycetemcomitans inhibits Candida albicans biofilm formation

(2014) Endang W. Bachtiar et al.   Frontiers in Cellular and Infection Microbiology

The agricultural antibiotic carbadox induces phage-mediated gene transfer in Salmonella

(2014) Bradley L. Bearson et al.   Frontiers in Microbiology

Studies of mucus in mouse stomach, small intestine, and colon. I. Gastrointestinal mucus layers have different properties depending on location as well as over the Peyer's patches

(2013) Anna Ermund et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Antibiotic Resistance Genes in the Bacteriophage DNA Fraction of Human Fecal Samples

(2013) Pablo Quirós et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Helicobacter pylori and the gastric microbiota

(2013) Lars Engstrand et al.   BEST PRACTICE & RESEARCH IN CLINICAL GASTROENTEROLOGY

Intestinal Microbial Diversity during Early-Life Colonization Shapes Long-Term IgE Levels

(2013) Julia Cahenzli et al.   Cell Host & Microbe

Probiotic Bacteria Reduce Salmonella Typhimurium Intestinal Colonization by Competing for Iron

(2013) Elisa Deriu et al.   Cell Host & Microbe

Streptococcal co-infection augmentsCandidapathogenicity by amplifying the mucosal inflammatory response

(2013) H. Xu et al.   CELLULAR MICROBIOLOGY

Lack of host gut microbiota alters immune responses and intestinal granuloma formation during schistosomiasis

(2013) M. Holzscheiter et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

Infection with the carcinogenic liver fluke Opisthorchis viverrini modifies intestinal and biliary microbiome

(2013) Jordan L. Plieskatt et al.   FASEB JOURNAL

Luminal Bacteria Recruit CD103+ Dendritic Cells into the Intestinal Epithelium to Sample Bacterial Antigens for Presentation

(2013) Julia Farache et al.   IMMUNITY

Candida albicans-Staphylococcus aureus Polymicrobial Peritonitis Modulates Host Innate Immunity

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

Helminth therapy and multiple sclerosis

(2013) J.O. Fleming   INTERNATIONAL JOURNAL FOR PARASITOLOGY

Anti- Candida activity of spent culture filtrate of Lactobacillus plantarum strain LR/14

(2013) A. Sharma et al.   JOURNAL DE MYCOLOGIE MEDICALE

Faecalibacterium prausnitzii upregulates regulatory T cells and anti-inflammatory cytokines in treating TNBS-induced colitis

(2013) Xinyun Qiu et al.   Journal of Crohns & Colitis

Unique Vaginal Microbiota That Includes an Unknown Mycoplasma-Like Organism Is Associated With Trichomonas vaginalis Infection

(2013) David H. Martin et al.   JOURNAL OF INFECTIOUS DISEASES

The role of short-chain fatty acids in the interplay between diet, gut microbiota, and host energy metabolism

(2013) Gijs den Besten et al.   JOURNAL OF LIPID RESEARCH

Can Giardia lamblia Infection Lower the Risk of Acute Diarrhea among Preschool Children?

(2013) K. Muhsen et al.   JOURNAL OF TROPICAL PEDIATRICS

Microbiological Survey of the Human Gastric Ecosystem Using Culturing and Pyrosequencing Methods

(2013) Susana Delgado et al.   MICROBIAL ECOLOGY

Computational meta'omics for microbial community studies

(2013) N. Segata et al.   Molecular Systems Biology

Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells

(2013) Yukihiro Furusawa et al.   NATURE

Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation

(2013) Nicholas Arpaia et al.   NATURE

Antibiotic treatment expands the resistance reservoir and ecological network of the phage metagenome

(2013) Sheetal R. Modi et al.   NATURE

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Topographic diversity of fungal and bacterial communities in human skin

(2013) Keisha Findley et al.   NATURE

Thymus-derived regulatory T cells contribute to tolerance to commensal microbiota

(2013) Anna Cebula et al.   NATURE

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

Revenge of the phages: defeating bacterial defences

(2013) Julie E. Samson et al.   NATURE REVIEWS MICROBIOLOGY

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

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

Secreted aspartic peptidases of Candida albicans liberate bactericidal hemocidins from human hemoglobin

(2013) Oliwia Bocheńska et al.   PEPTIDES

Characterization of the Vaginal Micro- and Mycobiome in Asymptomatic Reproductive-Age Estonian Women

(2013) Tiina Drell et al.   PLoS One

Archaea and Fungi of the Human Gut Microbiome: Correlations with Diet and Bacterial Residents

(2013) Christian Hoffmann et al.   PLoS One

Archaea on Human Skin

(2013) Alexander J. Probst et al.   PLoS One

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

(2013) Serena Dollive et al.   PLoS One

Patent Human Infections with the Whipworm, Trichuris trichiura, Are Not Associated with Alterations in the Faecal Microbiota

(2013) Philip Cooper et al.   PLoS One

Bacterial Community Mapping of the Mouse Gastrointestinal Tract

(2013) Shenghua Gu et al.   PLoS One

Sticky bacteriophage protect animal cells

(2013) J. R. Meyer   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rapid evolution of the human gut virome

(2013) S. Minot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacteriophage adhering to mucus provide a non-host-derived immunity

(2013) J. J. Barr et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2013) P. M. Smith et al.   SCIENCE

The Long-Term Stability of the Human Gut Microbiota

(2013) J. J. Faith et al.   SCIENCE

Gut Microbiota from Twins Discordant for Obesity Modulate Metabolism in Mice

(2013) V. K. Ridaura et al.   SCIENCE

Association Between Trichomonas vaginalis and Vaginal Bacterial Community Composition Among Reproductive-Age Women

(2013) Rebecca M. Brotman et al.   SEXUALLY TRANSMITTED DISEASES

The adherence ofTrichomonas vaginalisto host ectocervical cells is influenced by lactobacilli

(2013) Niha Phukan et al.   SEXUALLY TRANSMITTED INFECTIONS

Association ofTrichomonas vaginaliswith its symbiontMycoplasma hominissynergistically upregulates the in vitro proinflammatory response of human monocytes

(2013) Pier Luigi Fiori et al.   SEXUALLY TRANSMITTED INFECTIONS

The Villain Team-Up or howTrichomonas vaginalisand bacterial vaginosis alter innate immunity in concert

(2013) Raina N Fichorova et al.   SEXUALLY TRANSMITTED INFECTIONS

The emerging world of the fungal microbiome

(2013) Gary B. Huffnagle et al.   TRENDS IN MICROBIOLOGY

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

(2013) D. K. Morales et al.   mBio

Persistent gut barrier damage and commensal bacterial influx following eradication of Giardia infection in mice

(2013) Tzu-Ling Chen et al.   Gut Pathogens

Intra-specific diversity of Serratia marcescens in Anopheles mosquito midgut defines Plasmodium transmission capacity

(2013) Hironori Bando et al.   Scientific Reports

Candida albicanspathogenicity mechanisms

(2013) François L. Mayer et al.   Virulence

The human mycobiome in health and disease

(2013) Lijia Cui et al.   Genome Medicine

Streptococcus mutans, Candida albicans, and the Human Mouth: A Sticky Situation

(2013) Khalid H. Metwalli et al.   PLoS Pathogens

Study of the Viral and Microbial Communities Associated With Crohn’s Disease: A Metagenomic Approach

(2013) Vicente Pérez-Brocal et al.   Clinical and Translational Gastroenterology

Colonization by Candida Species of the Oral and Vaginal Mucosa in HIV-Infected and Noninfected Women

(2012) Daniel Merenstein et al.   AIDS RESEARCH AND HUMAN RETROVIRUSES

Vaginal Microbiome: Rethinking Health and Disease

(2012) Bing Ma et al.   Annual Review of Microbiology

The ‘Hygiene hypothesis’ and the sharp gradient in the incidence of autoimmune and allergic diseases between Russian Karelia and Finland

(2012) Anita Kondrashova et al.   APMIS

Malaria and related outcomes in patients with intestinal helminths: a cross-sectional study

(2012) Abraham Degarege et al.   BMC INFECTIOUS DISEASES

Real-time analysis of gut flora in Entamoeba histolytica infected patients of Northern India

(2012) Anil Kumar Verma et al.   BMC MICROBIOLOGY

Defining a Healthy Human Gut Microbiome: Current Concepts, Future Directions, and Clinical Applications

(2012) Fredrik Bäckhed et al.   Cell Host & Microbe

A Systematic Review and Meta-analysis of the Association Between Giardia lamblia and Endemic Pediatric Diarrhea in Developing Countries

(2012) Khitam Muhsen et al.   CLINICAL INFECTIOUS DISEASES

Helminth Infections and Host Immune Regulation

(2012) H. J. McSorley et al.   CLINICAL MICROBIOLOGY REVIEWS

Modulation of Toll-like receptor ligands and Candida albicans-induced cytokine responses by specific probiotics

(2012) Theo S. Plantinga et al.   CYTOKINE

Contribution of phage-derived genomic islands to the virulence of facultative bacterial pathogens

(2012) Ben Busby et al.   ENVIRONMENTAL MICROBIOLOGY

Probiotics, their health benefits and applications for developing healthier foods: a review

(2012) Ravinder Nagpal et al.   FEMS MICROBIOLOGY LETTERS

Intestinal Microbes Affect Phenotypes and Functions of Invariant Natural Killer T Cells in Mice

(2012) Gerhard Wingender et al.   GASTROENTEROLOGY

Alterations in the Porcine Colon Microbiota Induced by the Gastrointestinal Nematode Trichuris suis

(2012) Robert W. Li et al.   INFECTION AND IMMUNITY

Enterococcus faecalis Inhibits Hyphal Morphogenesis and Virulence of Candida albicans

(2012) Melissa R. Cruz et al.   INFECTION AND IMMUNITY

Candida albicans and Bacterial Microbiota Interactions in the Cecum during Recolonization following Broad-Spectrum Antibiotic Therapy

(2012) Katie L. Mason et al.   INFECTION AND IMMUNITY

The human small intestinal microbiota is driven by rapid uptake and conversion of simple carbohydrates

(2012) Erwin G Zoetendal et al.   ISME Journal

Increased Diversity of Fungal Flora in the Vagina of Patients with Recurrent Vaginal Candidiasis and Allergic Rhinitis

(2012) Renyong Guo et al.   MICROBIAL ECOLOGY

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

Parasite-induced TH1 cells and intestinal dysbiosis cooperate in IFN-γ-dependent elimination of Paneth cells

(2012) Megan Raetz et al.   NATURE IMMUNOLOGY

How glycan metabolism shapes the human gut microbiota

(2012) Nicole M. Koropatkin et al.   NATURE REVIEWS MICROBIOLOGY

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Worm Burden-Dependent Disruption of the Porcine Colon Microbiota by Trichuris suis Infection

(2012) Sitao Wu et al.   PLoS One

The Relation between Oral Candida Load and Bacterial Microbiome Profiles in Dutch Older Adults

(2012) Eefje A. Kraneveld et al.   PLoS One

Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi

(2012) C. L. Schoch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA signatures allow rapid identification of pathogens and antibiotic susceptibilities

(2012) A. K. Barczak et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Acute Gastrointestinal Infection Induces Long-Lived Microbiota-Specific T Cell Responses

(2012) T. W. Hand et al.   SCIENCE

Compartmentalized Control of Skin Immunity by Resident Commensals

(2012) S. Naik et al.   SCIENCE

Microbial Exposure During Early Life Has Persistent Effects on Natural Killer T Cell Function

(2012) T. Olszak et al.   SCIENCE

Oral T4-like phage cocktail application to healthy adult volunteers from Bangladesh

(2012) Shafiqul Alam Sarker et al.   VIROLOGY

A Crypt-Specific Core Microbiota Resides in the Mouse Colon

(2012) T. Pedron et al.   mBio

Regulatory T Cells in Human Lymphatic Filariasis: Stronger Functional Activity in Microfilaremics

(2012) Linda J. Wammes et al.   PLoS Neglected Tropical Diseases

Therapeutic Helminth Infection of Macaques with Idiopathic Chronic Diarrhea Alters the Inflammatory Signature and Mucosal Microbiota of the Colon

(2012) Mara Jana Broadhurst et al.   PLoS Pathogens

Being born in Sweden increases the risk for type 1 diabetes - a study of migration of children to Sweden as a natural experiment

(2011) Ulf Söderström et al.   ACTA PAEDIATRICA

Reversing Bacterial Resistance to Antibiotics by Phage-Mediated Delivery of Dominant Sensitive Genes

(2011) Rotem Edgar et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Extended antimicrobial treatment of bacterial vaginosis combined with human lactobacilli to find the best treatment and minimize the risk of relapses

(2011) Per-Göran Larsson et al.   BMC INFECTIOUS DISEASES

Dental Caries in Rats Associated with Candida albicans

(2011) T. Klinke et al.   CARIES RESEARCH

Hygiene Hypothesis and Autoimmune Diseases

(2011) Graham A. W. Rook   CLINICAL REVIEWS IN ALLERGY & IMMUNOLOGY

The next generation of bacteriophage therapy

(2011) Timothy K Lu et al.   CURRENT OPINION IN MICROBIOLOGY

Killing of Candida albicans Filaments by Salmonella enterica Serovar Typhimurium Is Mediated by sopB Effectors, Parts of a Type III Secretion System

(2011) Younghoon Kim et al.   EUKARYOTIC CELL

Candida and invasive candidiasis: back to basics

(2011) C. S.-Y. Lim et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

The human gut virome: Inter-individual variation and dynamic response to diet

(2011) S. Minot et al.   GENOME RESEARCH

Intestinal Bacterial Colonization Induces Mutualistic Regulatory T Cell Responses

(2011) Markus B. Geuking et al.   IMMUNITY

Interplay between the Gastric Bacterial Microbiota and Candida albicans during Postantibiotic Recolonization and Gastritis

(2011) Katie L. Mason et al.   INFECTION AND IMMUNITY

Synergistic Interaction between Candida albicans and Commensal Oral Streptococci in a NovelIn VitroMucosal Model

(2011) Patricia I. Diaz et al.   INFECTION AND IMMUNITY

The impact of parasite infections on the course of multiple sclerosis

(2011) Jorge Correale et al.   JOURNAL OF NEUROIMMUNOLOGY

Global burden of human food-borne trematodiasis: a systematic review and meta-analysis

(2011) Thomas Fürst et al.   LANCET INFECTIOUS DISEASES

Bacteriophage-mediated transduction of antibiotic resistance in enterococci

(2011) R. Mazaheri Nezhad Fard et al.   LETTERS IN APPLIED MICROBIOLOGY

Characterization of the skin fungal microbiota in patients with atopic dermatitis and in healthy subjects

(2011) Enshi Zhang et al.   MICROBIOLOGY AND IMMUNOLOGY

Identification of a novel prophage regulator in Escherichia coli controlling the expression of type III secretion

(2011) Allen F. Flockhart et al.   MOLECULAR MICROBIOLOGY

A nationwide survey of the prevalence of multiple sclerosis in immigrant populations of Sweden

(2011) Cecilia Ahlgren et al.   Multiple Sclerosis Journal

Probiotic helminth administration in relapsing–remitting multiple sclerosis: a phase 1 study

(2011) JO Fleming et al.   Multiple Sclerosis Journal

Peripheral education of the immune system by colonic commensal microbiota

(2011) Stephanie K. Lathrop et al.   NATURE

Ecology drives a global network of gene exchange connecting the human microbiome

(2011) Chris S. Smillie et al.   NATURE

Experimental and analytical tools for studying the human microbiome

(2011) Justin Kuczynski et al.   NATURE REVIEWS GENETICS

The skin microbiome

(2011) Elizabeth A. Grice et al.   NATURE REVIEWS MICROBIOLOGY

Metatranscriptomic Approach to Analyze the Functional Human Gut Microbiota

(2011) María José Gosalbes et al.   PLoS One

Schistosome Infection Intensity Is Inversely Related to Auto-Reactive Antibody Levels

(2011) Francisca Mutapi et al.   PLoS One

The Antibacterial Lectin RegIII  Promotes the Spatial Segregation of Microbiota and Host in the Intestine

(2011) S. Vaishnava et al.   SCIENCE

Natural Microbe-Mediated Refractoriness to Plasmodium Infection in Anopheles gambiae

(2011) C. M. Cirimotich et al.   SCIENCE

Bacterial Vaginosis and Risk for Trichomonas vaginalis Infection: A Longitudinal Analysis

(2011) Sujit D. Rathod et al.   SEXUALLY TRANSMITTED DISEASES

Antibiotics in Feed Induce Prophages in Swine Fecal Microbiomes

(2011) H. K. Allen et al.   mBio

Protection against Diarrhea Associated with Giardia intestinalis Is Lost with Multi-Nutrient Supplementation: A Study in Tanzanian Children

(2011) Jacobien Veenemans et al.   PLoS Neglected Tropical Diseases

Microbial Eukaryotes in the Human Microbiome: Ecology, Evolution, and Future Directions

(2011) Laura Wegener Parfrey et al.   Frontiers in Microbiology

Regulation of human epithelial tight junction proteins by Lactobacillus plantarum in vivo and protective effects on the epithelial barrier

(2010) Jurgen Karczewski et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

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

Neglected tropical diseases

(2010) N. Feasey et al.   BRITISH MEDICAL BULLETIN

Streptococcus mutans Inhibits Candida albicans Hyphal Formation by the Fatty Acid Signaling Molecule trans-2-Decenoic Acid (SDSF)

(2010) Ramiro Vílchez et al.   CHEMBIOCHEM

99th Dahlem Conference on Infection, Inflammation and Chronic Inflammatory Disorders: Darwinian medicine and the ‘hygiene’ or ‘old friends’ hypothesis

(2010) G. A. W. Rook   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

The ‘hygiene hypothesis’ for autoimmune and allergic diseases: an update

(2010) H. Okada et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

Cutaneous Malassezia Microbiota in Atopic Dermatitis Patients Differ by Gender and Body Part

(2010) Narifumi Akaza et al.   DERMATOLOGY

High temporal and inter-individual variation detected in the human ileal microbiota

(2010) Carien C. G. M. Booijink et al.   ENVIRONMENTAL MICROBIOLOGY

Germ-free C57BL/6J mice are resistant to high-fat-diet-induced insulin resistance and have altered cholesterol metabolism

(2010) Sylvie Rabot et al.   FASEB JOURNAL

Pseudomonas aeruginosa and their small diffusible extracellular molecules inhibit Aspergillus fumigatus biofilm formation

(2010) Eilidh Mowat et al.   FEMS MICROBIOLOGY LETTERS

Gut CD103+ dendritic cells express indoleamine 2,3-dioxygenase which influences T regulatory/T effector cell balance and oral tolerance induction

(2010) G. Matteoli et al.   GUT

Alteration of the murine gut microbiota during infection with the parasitic helminth Heligmosomoides polygyrus

(2010) Seth T. Walk et al.   INFLAMMATORY BOWEL DISEASES

Risk of inflammatory bowel disease in first- and second-generation immigrants in Sweden

(2010) Xinjun Li et al.   INFLAMMATORY BOWEL DISEASES

Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases

(2010) Daniel N. Frank et al.   INFLAMMATORY BOWEL DISEASES

Spatial organization of intestinal microbiota in the mouse ascending colon

(2010) Gerardo M Nava et al.   ISME Journal

Quantitation of Major Human Cutaneous Bacterial and Fungal Populations

(2010) Z. Gao et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Helminth secretions induce de novo T cell Foxp3 expression and regulatory function through the TGF-β pathway

(2010) John R. Grainger et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Bacterial Vaginosis Assessed by Gram Stain and Diminished Colonization Resistance to Incident Gonococcal, Chlamydial, and Trichomonal Genital Infection

(2010) Rebecca M. Brotman et al.   JOURNAL OF INFECTIOUS DISEASES

Bacteriophage versus antimicrobial agents for the treatment of murine burn wound infection caused by Klebsiella pneumoniae B5055

(2010) S. Kumari et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Candida albicans-produced farnesol stimulates Pseudomonas quinolone signal production in LasR-defective Pseudomonas aeruginosa strains

(2010) C. Cugini et al.   MICROBIOLOGY-SGM

Antifungal mechanisms by which a novel Pseudomonas aeruginosa phenazine toxin kills Candida albicans in biofilms

(2010) Diana K. Morales et al.   MOLECULAR MICROBIOLOGY

A polysaccharide from the human commensal Bacteroides fragilis protects against CNS demyelinating disease

(2010) J Ochoa-Repáraz et al.   Mucosal Immunology

Viruses in the faecal microbiota of monozygotic twins and their mothers

(2010) Alejandro Reyes et al.   NATURE

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Medically important bacterial–fungal interactions

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

Bacteriophage resistance mechanisms

(2010) Simon J. Labrie et al.   NATURE REVIEWS MICROBIOLOGY

Metagenomic detection of phage-encoded platelet-binding factors in the human oral cavity

(2010) D. Willner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Inducible Foxp3+ regulatory T-cell development by a commensal bacterium of the intestinal microbiota

(2010) J. L. Round et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The two mucus layers of colon are organized by the MUC2 mucin, whereas the outer layer is a legislator of host-microbial interactions

(2010) M. E. V. Johansson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Vaginal microbiome of reproductive-age women

(2010) J. Ravel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa

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

Exploitation of the Intestinal Microflora by the Parasitic Nematode Trichuris muris

(2010) K. S. Hayes et al.   SCIENCE

Induction of Colonic Regulatory T Cells by Indigenous Clostridium Species

(2010) K. Atarashi et al.   SCIENCE

Bacteriophages as potential new therapeutics to replace or supplement antibiotics

(2010) Mzia Kutateladze et al.   TRENDS IN BIOTECHNOLOGY

The human microbiome harbors a diverse reservoir of antibiotic resistance genes

(2010) Morten O.A. Sommer et al.   Virulence

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

Review article: anti-inflammatory mechanisms of action ofSaccharomyces boulardii

(2009) C. POTHOULAKIS   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

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

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

Redefining Chronic Viral Infection

(2009) Herbert W. Virgin et al.   CELL

Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria

(2009) Ivaylo I. Ivanov et al.   CELL

Gut Commensal Bacteria Direct a Protective Immune Response against Toxoplasma gondii

(2009) Alicia Benson et al.   Cell Host & Microbe

The therapeutic potential of the filarial nematode-derived immunodulator, ES-62 in inflammatory disease

(2009) M. M. Harnett et al.   CLINICAL AND EXPERIMENTAL IMMUNOLOGY

Food-Borne Trematodiases

(2009) J. Keiser et al.   CLINICAL MICROBIOLOGY REVIEWS

A controlled clinical trial of a therapeutic bacteriophage preparation in chronic otitis due to antibiotic-resistantPseudomonas aeruginosa; a preliminary report of efficacy

(2009) A. Wright et al.   CLINICAL OTOLARYNGOLOGY

Candida albicans impairs macrophage function and facilitates Pseudomonas aeruginosa pneumonia in rat*

(2009) Damien Roux et al.   CRITICAL CARE MEDICINE

Interaction ofCandida albicanswith an Intestinal Pathogen,Salmonella entericaSerovar Typhimurium

(2009) Emmanouil Tampakakis et al.   EUKARYOTIC CELL

Streptococcus mutansCompetence-Stimulating Peptide InhibitsCandida albicansHypha Formation

(2009) Lucja M. Jarosz et al.   EUKARYOTIC CELL

Cross-kingdom interactions:Candida albicansand bacteria

(2009) Mark E. Shirtliff et al.   FEMS MICROBIOLOGY LETTERS

High-Fat Diet Determines the Composition of the Murine Gut Microbiome Independently of Obesity

(2009) Marie A. Hildebrandt et al.   GASTROENTEROLOGY

The Key Role of Segmented Filamentous Bacteria in the Coordinated Maturation of Gut Helper T Cell Responses

(2009) Valérie Gaboriau-Routhiau et al.   IMMUNITY

Streptococcus gordonii Modulates Candida albicans Biofilm Formation through Intergeneric Communication

(2009) C. V. Bamford et al.   INFECTION AND IMMUNITY

The Acinetobacter baumannii 19606 OmpA Protein Plays a Role in Biofilm Formation on Abiotic Surfaces and in the Interaction of This Pathogen with Eukaryotic Cells

(2009) J. A. Gaddy et al.   INFECTION AND IMMUNITY

Associations of Doctor-Diagnosed Asthma with Immigration Status, Age at Immigration, and Length of Residence in the United States in a Sample of Mexican American School Children in Chicago

(2009) Kamal Eldeirawi et al.   JOURNAL OF ASTHMA

Regulatory T Cells: A Role in the Control of Helminth-Driven Intestinal Pathology and Worm Survival

(2009) R. D'Elia et al.   JOURNAL OF IMMUNOLOGY

Infection with a Helminth Parasite Attenuates Autoimmunity through TGF- -Mediated Suppression of Th17 and Th1 Responses

(2009) K. P. Walsh et al.   JOURNAL OF IMMUNOLOGY

Escherichia coli and its lipopolysaccharide modulate in vitro Candida biofilm formation

(2009) H. M. H. N. Bandara et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Quantitative analysis of the cutaneous Malassezia microbiota in 770 healthy Japanese by age and gender using a real-time PCR assay

(2009) Takashi Sugita et al.   MEDICAL MYCOLOGY

Regulatory T cells exert checks and balances on self tolerance and autoimmunity

(2009) Kajsa Wing et al.   NATURE IMMUNOLOGY

Bacterial Microbiota Profiling in Gastritis without Helicobacter pylori Infection or Non-Steroidal Anti-Inflammatory Drug Use

(2009) Xiao-Xing Li et al.   PLoS One

Metagenomic Analysis of Respiratory Tract DNA Viral Communities in Cystic Fibrosis and Non-Cystic Fibrosis Individuals

(2009) Dana Willner et al.   PLoS One

Engineered bacteriophage targeting gene networks as adjuvants for antibiotic therapy

(2009) T. K. Lu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacteriophages Encode Factors Required for Protection in a Symbiotic Mutualism

(2009) K. M. Oliver et al.   SCIENCE

Topographical and Temporal Diversity of the Human Skin Microbiome

(2009) E. A. Grice et al.   SCIENCE

Phage-Mediated Intergeneric Transfer of Toxin Genes

(2009) J. Chen et al.   SCIENCE

Bacterial Community Variation in Human Body Habitats Across Space and Time

(2009) E. K. Costello et al.   SCIENCE

The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice

(2009) P. J. Turnbaugh et al.   Science Translational Medicine

Filarial Lymphedema Is Characterized by Antigen-Specific Th1 and Th17 Proinflammatory Responses and a Lack of Regulatory T Cells

(2009) Subash Babu et al.   PLoS Neglected Tropical Diseases

Immunologic Responses to Vibrio cholerae in Patients Co-Infected with Intestinal Parasites in Bangladesh

(2009) Jason B. Harris et al.   PLoS Neglected Tropical Diseases

Neglected Tropical Diseases in Sub-Saharan Africa: Review of Their Prevalence, Distribution, and Disease Burden

(2009) Peter J. Hotez et al.   PLoS Neglected Tropical Diseases

Arginase-1–Expressing Macrophages Suppress Th2 Cytokine–Driven Inflammation and Fibrosis

(2009) John T. Pesce et al.   PLoS Pathogens

Implication of the Mosquito Midgut Microbiota in the Defense against Malaria Parasites

(2009) Yuemei Dong et al.   PLoS Pathogens

Cytokines, chemokine receptors, CD4+CD25HIGH+ T-cells and clinical forms of human schistosomiasis

(2008) Andréa Teixeira-Carvalho et al.   ACTA TROPICA

Prevalence of asthma in a large group of Israeli adolescents: influence of country of birth and age at migration

(2008) D. Pereg et al.   ALLERGY

Ecological Role of Lactobacilli in the Gastrointestinal Tract: Implications for Fundamental and Biomedical Research

(2008) J. Walter   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

An Invitation to the Marriage of Metagenomics and Metabolomics

(2008) Peter J. Turnbaugh et al.   CELL

Newly introduced genomic prophage islands are critical determinants of in vivo competitiveness in the Liverpool Epidemic Strain of Pseudomonas aeruginosa

(2008) C. Winstanley et al.   GENOME RESEARCH

Dysbiosis in inflammatory bowel disease: a role for bacteriophages?

(2008) P Lepage et al.   GUT

Secreted enteric antimicrobial activity localises to the mucus surface layer

(2008) U Meyer-Hoffert et al.   GUT

Review series on helminths, immune modulation and the hygiene hypothesis: The broader implications of the hygiene hypothesis

(2008) Graham A. W. Rook   IMMUNOLOGY

Micro-eukaryotic diversity of the human distal gut microbiota: qualitative assessment using culture-dependent and -independent analysis of faeces

(2008) Pauline D Scanlan et al.   ISME Journal

The biofilm life cycle and virulence of Pseudomonas aeruginosa are dependent on a filamentous prophage

(2008) Scott A Rice et al.   ISME Journal

Proteomic, Microarray, and Signature-Tagged Mutagenesis Analyses of Anaerobic Pseudomonas aeruginosa at pH 6.5, Likely Representing Chronic, Late-Stage Cystic Fibrosis Airway Conditions

(2008) M. D. Platt et al.   JOURNAL OF BACTERIOLOGY

Helminth infections: the great neglected tropical diseases

(2008) Peter J. Hotez et al.   JOURNAL OF CLINICAL INVESTIGATION

Colonization of Mice byCandida albicansIs Promoted by Chemically Induced Colitis and Augments Inflammatory Responses through Galectin‐3

(2008) Samir Jawhara et al.   JOURNAL OF INFECTIOUS DISEASES

A microbial symbiosis factor prevents intestinal inflammatory disease

(2008) Sarkis K. Mazmanian et al.   NATURE

Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis

(2008) Harry J. Flint et al.   NATURE REVIEWS MICROBIOLOGY

Polymicrobial Bloodstream Infection in Pediatric Patients

(2008) Deena Sutter et al.   PEDIATRIC INFECTIOUS DISEASE JOURNAL

Prokaryote-eukaryote interactions identified by using Caenorhabditis elegans

(2008) A. Y. Peleg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients

(2008) H. Sokol et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The inner of the two Muc2 mucin-dependent mucus layers in colon is devoid of bacteria

(2008) M. E. V. Johansson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multifaceted transcriptional regulation of the murine intestinal mucus layer by endogenous microbiota

(2007) Elena M. Comelli et al.   GENOMICS

Enhanced susceptibility to Trichuris muris infection of B10Br mice treated with the probiotic Lactobacillus casei

(2007) Ma Auxiliadora Dea-Ayuela et al.   INTERNATIONAL IMMUNOPHARMACOLOGY