A framework for microbiome science in public health

The gut microbiome modulates the protective association between a Mediterranean diet and cardiometabolic disease risk

(2021) Dong D. Wang et al.   NATURE MEDICINE

Gut microbiota and human NAFLD: disentangling microbial signatures from metabolic disorders

(2020) Judith Aron-Wisnewsky et al.   Nature Reviews Gastroenterology & Hepatology

The microbe-derived short-chain fatty acids butyrate and propionate are associated with protection from chronic GVHD

(2020) Kate A. Markey et al.   BLOOD

Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage

(2019) Rene S. Hendriksen et al.   Nature Communications

Gut Microbiota Metabolite Indole Propionic Acid Targets Tryptophan Biosynthesis in Mycobacterium tuberculosis

(2019) Dereje Abate Negatu et al.   mBio

Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases

(2019) Jason Lloyd-Price et al.   NATURE

Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation

(2019) Andrew Maltez Thomas et al.   NATURE MEDICINE

Precision Medicine Goes Microscopic: Engineering the Microbiome to Improve Drug Outcomes

(2019) Kathy N. Lam et al.   Cell Host & Microbe

Dynamic Modulation of the Gut Microbiota and Metabolome by Bacteriophages in a Mouse Model

(2019) Bryan B. Hsu et al.   Cell Host & Microbe

The gut microbiota and colon cancer

(2019) Wendy S. Garrett   SCIENCE

Antibiotics-Driven Gut Microbiome Perturbation Alters Immunity to Vaccines in Humans

(2019) Thomas Hagan et al.   CELL

Diet–microbiota interactions and personalized nutrition

(2019) Aleksandra A. Kolodziejczyk et al.   NATURE REVIEWS MICROBIOLOGY

The Microbiota-Gut-Brain Axis

(2019) John F. Cryan et al.   PHYSIOLOGICAL REVIEWS

Effects of microbiota-directed foods in gnotobiotic animals and undernourished children

(2019) Jeanette L. Gehrig et al.   SCIENCE

Drug-Resistant E. coli Bacteremia Transmitted by Fecal Microbiota Transplant

(2019) Zachariah DeFilipp et al.   NEW ENGLAND JOURNAL OF MEDICINE

Prospective virome analyses in young children at increased genetic risk for type 1 diabetes

(2019) Kendra Vehik et al.   NATURE MEDICINE

Microbiota, a Third Player in the Host–Plasmodium Affair

(2019) Debanjan Mukherjee et al.   TRENDS IN PARASITOLOGY

The Gut Microbiota and Healthy Aging: A Mini-Review

(2018) Sangkyu Kim et al.   GERONTOLOGY

Making Millennial Medicine More Meta

(2018) Peter J. Turnbaugh   mSystems

Post-Antibiotic Gut Mucosal Microbiome Reconstitution Is Impaired by Probiotics and Improved by Autologous FMT

(2018) Jotham Suez et al.   CELL

Extensive impact of non-antibiotic drugs on human gut bacteria

(2018) Lisa Maier et al.   NATURE

Harnessing genomic information for livestock improvement

(2018) Michel Georges et al.   NATURE REVIEWS GENETICS

A Candida auris Outbreak and Its Control in an Intensive Care Setting

(2018) David W. Eyre et al.   NEW ENGLAND JOURNAL OF MEDICINE

Targeting the microbiome: from probiotics to fecal microbiota transplantation

(2018) Alexander Khoruts   Genome Medicine

The role of the microbiota in infectious diseases

(2018) Josie Libertucci et al.   Nature Microbiology

Antimicrobial Chemicals Associate with Microbial Function and Antibiotic Resistance Indoors

(2018) Ashkaan K. Fahimipour et al.   mSystems

The AGA’s Fecal Microbiota Transplantation National Registry: An Important Step Toward Understanding Risks and Benefits of Microbiota Therapeutics

(2017) Colleen R. Kelly et al.   GASTROENTEROLOGY

Lactobacillus -Deficient Cervicovaginal Bacterial Communities Are Associated with Increased HIV Acquisition in Young South African Women

(2017) Christina Gosmann et al.   IMMUNITY

Correlation between early-life regulation of the immune system by microbiota and allergy development

(2017) Thomas Gensollen et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Strains, functions and dynamics in the expanded Human Microbiome Project

(2017) Jason Lloyd-Price et al.   NATURE

Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium

(2017) Rashmi Sinha et al.   NATURE BIOTECHNOLOGY

Towards standards for human fecal sample processing in metagenomic studies

(2017) Paul I Costea et al.   NATURE BIOTECHNOLOGY

Expert consensus document: The International Scientific Association for Probiotics and Prebiotics (ISAPP) consensus statement on the definition and scope of prebiotics

(2017) Glenn R. Gibson et al.   Nature Reviews Gastroenterology & Hepatology

The commensal lifestyle of Staphylococcus aureus and its interactions with the nasal microbiota

(2017) Bernhard Krismer et al.   NATURE REVIEWS MICROBIOLOGY

Potential role of intratumor bacteria in mediating tumor resistance to the chemotherapeutic drug gemcitabine

(2017) Leore T. Geller et al.   SCIENCE

Gut microbiome modulates response to anti–PD-1 immunotherapy in melanoma patients

(2017) V. Gopalakrishnan et al.   SCIENCE

Childhood undernutrition, the gut microbiota, and microbiota-directed therapeutics

(2016) L. V. Blanton et al.   SCIENCE

Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity

(2016) Alexandra Zhernakova et al.   SCIENCE

Tuft cells, taste-chemosensory cells, orchestrate parasite type 2 immunity in the gut

(2016) M. R. Howitt et al.   SCIENCE

Looking for a Signal in the Noise: Revisiting Obesity and the Microbiome

(2016) Marc A. Sze et al.   mBio

The healthy human microbiome

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

Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights

(2016) Edoardo Pasolli et al.   PLoS Computational Biology

Preservation Methods Differ in Fecal Microbiome Stability, Affecting Suitability for Field Studies

(2016) Se Jin Song et al.   mSystems

The gut microbiota: a major player in the toxicity of environmental pollutants?

(2016) Sandrine P Claus et al.   npj Biofilms and Microbiomes

Fecal Microbiota Transplantation forClostridium difficileInfection

(2015) Dimitri Drekonja et al.   ANNALS OF INTERNAL MEDICINE

Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA

(2015) Brendan J. Kelly et al.   BIOINFORMATICS

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

(2015) Jason M. Norman et al.   CELL

Sequencing and beyond: integrating molecular 'omics' for microbial community profiling

(2015) Eric A. Franzosa et al.   NATURE REVIEWS MICROBIOLOGY

Host lysozyme-mediated lysis ofLactococcus lactisfacilitates delivery of colitis-attenuating superoxide dismutase to inflamed colons

(2015) Sonia A. Ballal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identifying personal microbiomes using metagenomic codes

(2015) Eric A. Franzosa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Small molecules from the human microbiota

(2015) M. S. Donia et al.   SCIENCE

Cancer and the microbiota

(2015) W. S. Garrett   SCIENCE

Host-microbial interactions in the metabolism of therapeutic and diet-derived xenobiotics

(2014) Rachel N. Carmody et al.   JOURNAL OF CLINICAL INVESTIGATION

Bacterial communities on classroom surfaces vary with human contact

(2014) James F Meadow et al.   Microbiome

Staphylococcus epidermidis in the human skin microbiome mediates fermentation to inhibit the growth of Propionibacterium acnes: implications of probiotics in acne vulgaris

(2013) Yanhan Wang et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Predicting and Manipulating Cardiac Drug Inactivation by the Human Gut Bacterium Eggerthella lenta

(2013) H. J. Haiser et al.   SCIENCE

The Human Microbiome Project strategy for comprehensive sampling of the human microbiome and why it matters

(2012) Kjersti Aagaard et al.   FASEB JOURNAL

The Impact of a Consortium of Fermented Milk Strains on the Gut Microbiome of Gnotobiotic Mice and Monozygotic Twins

(2011) N. P. McNulty et al.   Science Translational Medicine