A review of 10 years of human microbiome research activities at the US National Institutes of Health, Fiscal Years 2007-2016

2017 NIH-wide workshop report on “The Human Microbiome: Emerging Themes at the Horizon of the 21st Century”

(2019)   Microbiome

Differences in fecal microbial metabolites and microbiota of children with autism spectrum disorders

(2018) Dae-Wook Kang et al.   ANAEROBE

Modeling metabolism of the human gut microbiome

(2018) Stefanía Magnúsdóttir et al.   CURRENT OPINION IN BIOTECHNOLOGY

Translocation of a gut pathobiont drives autoimmunity in mice and humans

(2018) S. Manfredo Vieira et al.   SCIENCE

Insights into the Evolution of Host Association through the Isolation and Characterization of a Novel Human Periodontal Pathobiont, Desulfobulbus oralis

(2018) Karissa L. Cross et al.   mBio

Delayed gut microbiota development in high-risk for asthma infants is temporarily modifiable by Lactobacillus supplementation

(2018) Juliana Durack et al.   Nature Communications

Extensive impact of non-antibiotic drugs on human gut bacteria

(2018) Lisa Maier et al.   NATURE

Leveraging sequence-based faecal microbial community survey data to identify a composite biomarker for colorectal cancer

(2017) Manasi S Shah et al.   GUT

Diacylglycerol kinase synthesized by commensal Lactobacillus reuteri diminishes protein kinase C phosphorylation and histamine-mediated signaling in the mammalian intestinal epithelium

(2017) B P Ganesh et al.   Mucosal Immunology

Strains, functions and dynamics in the expanded Human Microbiome Project

(2017) Jason Lloyd-Price et al.   NATURE

Accessible, curated metagenomic data through ExperimentHub

(2017) Edoardo Pasolli et al.   NATURE METHODS

Gut microbiota and IBD: causation or correlation?

(2017) Josephine Ni et al.   Nature Reviews Gastroenterology & Hepatology

Anticancer effects of the microbiome and its products

(2017) Laurence Zitvogel et al.   NATURE REVIEWS MICROBIOLOGY

Spatial organization of a model 15-member human gut microbiota established in gnotobiotic mice

(2017) Jessica L. Mark Welch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Replication and refinement of a vaginal microbial signature of preterm birth in two racially distinct cohorts of US women

(2017) Benjamin J. Callahan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Gut microbiome influences efficacy of PD-1–based immunotherapy against epithelial tumors

(2017) Bertrand Routy et al.   SCIENCE

Emulating Host-Microbiome Ecosystem of Human Gastrointestinal Tract in Vitro

(2017) Gun-Seok Park et al.   Stem Cell Reviews and Reports

High-resolution characterization of the human microbiome

(2017) Cecilia Noecker et al.   Translational Research

Two dynamic regimes in the human gut microbiome

(2017) Sean M. Gibbons et al.   PLoS Computational Biology

Geography, Ethnicity or Subsistence-Specific Variations in Human Microbiome Composition and Diversity

(2017) Vinod K. Gupta et al.   Frontiers in Microbiology

Viral communities of the human gut: metagenomic analysis of composition and dynamics

(2017) Varun Aggarwala et al.   Mobile DNA

Emulating Host-Microbiome Ecosystem of Human Gastrointestinal Tract in Vitro

(2017) Gun-Seok Park et al.   Stem Cell Reviews and Reports

Revised computational metagenomic processing uncovers hidden and biologically meaningful functional variation in the human microbiome

(2017) Ohad Manor et al.   Microbiome

Dynamics of the human gut microbiome in inflammatory bowel disease

(2017) Jonas Halfvarson et al.   Nature Microbiology

Acetate mediates a microbiome–brain–β-cell axis to promote metabolic syndrome

(2016) Rachel J. Perry et al.   NATURE

Diet-induced extinctions in the gut microbiota compound over generations

(2016) Erica D. Sonnenburg et al.   NATURE

The microbiome in early life: implications for health outcomes

(2016) Sabrina Tamburini et al.   NATURE MEDICINE

The microbial pharmacists within us: a metagenomic view of xenobiotic metabolism

(2016) Peter Spanogiannopoulos et al.   NATURE REVIEWS MICROBIOLOGY

Biogeography of a human oral microbiome at the micron scale

(2016) Jessica L. Mark Welch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gut bacteria that prevent growth impairments transmitted by microbiota from malnourished children

(2016) L. V. Blanton et al.   SCIENCE

Association of Early Exposure of Probiotics and Islet Autoimmunity in the TEDDY Study

(2016) Ulla Uusitalo et al.   JAMA Pediatrics

An assessment of US microbiome research

(2016) Elizabeth Stulberg et al.   Nature Microbiology

Inflammation, Antibiotics, and Diet as Environmental Stressors of the Gut Microbiome in Pediatric Crohn’s Disease

(2015) James D. Lewis et al.   Cell Host & Microbe

Effects of Diurnal Variation of Gut Microbes and High-Fat Feeding on Host Circadian Clock Function and Metabolism

(2015) Vanessa Leone et al.   Cell Host & Microbe

Human Microbiota-Associated Swine: Current Progress and Future Opportunities

(2015) M. Wang et al.   ILAR JOURNAL

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

(2015) Duy Tin Truong et al.   NATURE METHODS

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 microbiome of uncontacted Amerindians

(2015) J. C. Clemente et al.   Science Advances

Human Genetics Shape the Gut Microbiome

(2014) Julia K. Goodrich et al.   CELL

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

(2014) Mohamed S. Donia et al.   CELL

The Integrative Human Microbiome Project: Dynamic Analysis of Microbiome-Host Omics Profiles during Periods of Human Health and Disease

(2014)   Cell Host & Microbe

Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle

(2014) Xuesong He et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The dynamics of a family’s gut microbiota reveal variations on a theme

(2014) Patrick D Schloss et al.   Microbiome

Trimethylamine-N-Oxide, a Metabolite Associated with Atherosclerosis, Exhibits Complex Genetic and Dietary Regulation

(2013) Brian J. Bennett et al.   Cell Metabolism

Intestinal microbiota metabolism of l-carnitine, a nutrient in red meat, promotes atherosclerosis

(2013) Robert A Koeth et al.   NATURE MEDICINE

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

(2012) Kjersti Aagaard et al.   FASEB JOURNAL

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

The “Most Wanted” Taxa from the Human Microbiome for Whole Genome Sequencing

(2012) Anthony A. Fodor et al.   PLoS One

Integrated Metagenomics/Metaproteomics Reveals Human Host-Microbiota Signatures of Crohn's Disease

(2012) Alison R. Erickson et al.   PLoS One

The Human Oral Microbiome

(2010) F. E. Dewhirst et al.   JOURNAL OF BACTERIOLOGY

The NIH Human Microbiome Project

(2009) et al.   GENOME RESEARCH