Distinct N and C Cross-Feeding Networks in a Synthetic Mouse Gut Consortium

Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community

(2021) Sonja Blasche et al.   Nature Microbiology

Long-term evolution and short-term adaptation of microbiota strains and sub-strains in mice

(2021) Bahtiyar Yilmaz et al.   Cell Host & Microbe

A metabolomics pipeline for the mechanistic interrogation of the gut microbiome

(2021) Shuo Han et al.   NATURE

E. coli enhance colonization resistance against Salmonella Typhimurium by competing for galactitol, a context-dependent limiting carbon source

(2021) Claudia Eberl et al.   Cell Host & Microbe

The Capacity to Produce Hydrogen Sulfide (H2S) via Cysteine Degradation Is Ubiquitous in the Human Gut Microbiome

(2021) Domenick J. Braccia et al.   Frontiers in Microbiology

Reproducible Colonization of Germ-Free Mice With the Oligo-Mouse-Microbiota in Different Animal Facilities

(2020) Claudia Eberl et al.   Frontiers in Microbiology

Using Precisely Defined in vivo Microbiotas to Understand Microbial Regulation of IgE

(2020) Madeleine Wyss et al.   Frontiers in Immunology

Import of Aspartate and Malate by DcuABC Drives H2/Fumarate Respiration to Promote Initial Salmonella Gut-Lumen Colonization in Mice

(2020) Bidong D. Nguyen et al.   Cell Host & Microbe

Microbiota-Sourced Purines Support Wound Healing and Mucous Barrier Function

(2020) J. Scott Lee et al.   iScience

Longitudinal Multi-omics Reveals Subset-Specific Mechanisms Underlying Irritable Bowel Syndrome

(2020) Ruben A.T. Mars et al.   CELL

Gut Bacterial Species Distinctively Impact Host Purine Metabolites during Aging in Drosophila

(2020) Toshitaka Yamauchi et al.   iScience

Metabolism the Difficile Way: The Key to the Success of the Pathogen Clostridioides difficile

(2019) Meina Neumann-Schaal et al.   Frontiers in Microbiology

Separating host and microbiome contributions to drug pharmacokinetics and toxicity

(2019) Michael Zimmermann et al.   SCIENCE

The Use of Defined Microbial Communities To Model Host-Microbe Interactions in the Human Gut

(2019) Janneke Elzinga et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Pathogenic E. coli Extracts Nutrients from Infected Host Cells Utilizing Injectisome Components

(2019) Ritesh Ranjan Pal et al.   CELL

Toxicity of hydrogen sulfide toward sulfate-reducing bacteria Desulfovibrio piger Vib-7

(2019) Ivan Kushkevych et al.   ARCHIVES OF MICROBIOLOGY

Mucispirillum schaedleri Antagonizes Salmonella Virulence to Protect Mice against Colitis

(2019) Simone Herp et al.   Cell Host & Microbe

Composition of the Intestinal Microbiota Determines the Outcome of Virus-Triggered Colitis in Mice

(2019) Silvia Bolsega et al.   Frontiers in Immunology

Intestinal gases: influence on gut disorders and the role of dietary manipulations

(2019) Kourosh Kalantar-Zadeh et al.   Nature Reviews Gastroenterology & Hepatology

Gut microbiota-derived succinate: Friend or foe in human metabolic diseases?

(2019) Sonia Fernández-Veledo et al.   REVIEWS IN ENDOCRINE & METABOLIC DISORDERS

Deciphering microbial interactions in synthetic human gut microbiome communities

(2018) Ophelia S Venturelli et al.   Molecular Systems Biology

Capacity for instantaneous catabolism of preferred and non-preferred carbon sources in Escherichia coli and Bacillus subtilis

(2018) Marieke F. Buffing et al.   Scientific Reports

Inferring Metabolic Mechanisms of Interaction within a Defined Gut Microbiota

(2018) Gregory L. Medlock et al.   Cell Systems

Colonocyte metabolism shapes the gut microbiota

(2018) Yael Litvak et al.   SCIENCE

Gut microbiota: Role in pathogen colonization, immune responses, and inflammatory disease

(2017) Joseph M. Pickard et al.   IMMUNOLOGICAL REVIEWS

Generalist species drive microbial dispersion and evolution

(2017) Sira Sriswasdi et al.   Nature Communications

Global metabolic interaction network of the human gut microbiota for context-specific community-scale analysis

(2017) Jaeyun Sung et al.   Nature Communications

Community structure follows simple assembly rules in microbial microcosms

(2017) Jonathan Friedman et al.   Nature Ecology & Evolution

Enterococcal Metabolite Cues Facilitate Interspecies Niche Modulation and Polymicrobial Infection

(2016) Damien Keogh et al.   Cell Host & Microbe

Formation of propionate and butyrate by the human colonic microbiota

(2016) Petra Louis et al.   ENVIRONMENTAL MICROBIOLOGY

Systems-level metabolism of the altered Schaedler flora, a complete gut microbiota

(2016) Matthew B Biggs et al.   ISME Journal

Genome-guided design of a defined mouse microbiota that confers colonization resistance against Salmonella enterica serovar Typhimurium

(2016) Sandrine Brugiroux et al.   Nature Microbiology

Species–function relationships shape ecological properties of the human gut microbiome

(2016) Sara Vieira-Silva et al.   Nature Microbiology

An isotope-labeled chemical derivatization method for the quantitation of short-chain fatty acids in human feces by liquid chromatography–tandem mass spectrometry

(2015) Jun Han et al.   ANALYTICA CHIMICA ACTA

The Altered Schaedler Flora: Continued Applications of a Defined Murine Microbial Community

(2015) Meghan Wymore Brand et al.   ILAR JOURNAL

Real-time metabolome profiling of the metabolic switch between starvation and growth

(2015) Hannes Link et al.   NATURE METHODS

Metabolic cross-feeding via intercellular nanotubes among bacteria

(2015) Samay Pande et al.   Nature Communications

Mucin glycan foraging in the human gut microbiome

(2015) Louise E. Tailford et al.   Frontiers in Genetics

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

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

Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

(2014) Nicole Reichardt et al.   ISME Journal

Succinate is an inflammatory signal that induces IL-1β through HIF-1α

(2013) G. M. Tannahill et al.   NATURE

Extensive exometabolome analysis reveals extended overflow metabolism in various microorganisms

(2012) Nicole Paczia et al.   Microbial Cell Factories

Diversity, stability and resilience of the human gut microbiota

(2012) Catherine A. Lozupone et al.   NATURE

Interactions Between the Microbiota and the Immune System

(2012) L. V. Hooper et al.   SCIENCE

High-Throughput, Accurate Mass Metabolome Profiling of Cellular Extracts by Flow Injection–Time-of-Flight Mass Spectrometry

(2011) Tobias Fuhrer et al.   ANALYTICAL CHEMISTRY

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

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

The Microbiome and Butyrate Regulate Energy Metabolism and Autophagy in the Mammalian Colon

(2011) Dallas R. Donohoe et al.   Cell Metabolism

Anaerobic Respiration of Escherichia coli in the Mouse Intestine

(2011) Shari A. Jones et al.   INFECTION AND IMMUNITY

Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice

(2011) A. L. Goodman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

How to fit nonlinear plant growth models and calculate growth rates: an update for ecologists

(2011) C. E. Timothy Paine et al.   Methods in Ecology and Evolution

The Human Gut Microbiome: Ecology and Recent Evolutionary Changes

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