Depletion of microbiome-derived molecules in the host using Clostridium genetics

Gut bacteria selectively promoted by dietary fibers alleviate type 2 diabetes

(2018) Liping Zhao et al.   SCIENCE

A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites

(2017) Dylan Dodd et al.   NATURE

Modulation of a Circulating Uremic Solute via Rational Genetic Manipulation of the Gut Microbiota

(2016) A. Sloan Devlin et al.   Cell Host & Microbe

Bacterial Genome Editing with CRISPR-Cas9: Deletion, Integration, Single Nucleotide Modification, and Desirable “Clean” Mutant Selection in Clostridium beijerinckii as an Example

(2016) Yi Wang et al.   ACS Synthetic Biology

High mass accuracy assay for trimethylamine N-oxide using stable-isotope dilution with liquid chromatography coupled to orthogonal acceleration time of flight mass spectrometry with multiple reaction monitoring

(2015) Liam M. Heaney et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Efficient Genome Editing in Clostridium cellulolyticum via CRISPR-Cas9 Nickase

(2015) Tao Xu et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

MetaQuery: a web server for rapid annotation and quantitative analysis of specific genes in the human gut microbiome

(2015) Stephen Nayfach et al.   BIOINFORMATICS

Markerless chromosomal gene deletion in Clostridium beijerinckii using CRISPR/Cas9 system

(2015) Yi Wang et al.   JOURNAL OF BIOTECHNOLOGY

Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm

(2015) Eli R Zunder et al.   Nature Protocols

Genetic determinants of in vivo fitness and diet responsiveness in multiple human gut Bacteroides

(2015) M. Wu et al.   SCIENCE

Characterization and Detection of a Widely Distributed Gene Cluster That Predicts Anaerobic Choline Utilization by Human Gut Bacteria

(2015) Ana Martínez-del Campo et al.   mBio

High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED

(2015) James Kaminski et al.   PLoS Computational Biology

Measurement of trimethylamine-N-oxide by stable isotope dilution liquid chromatography tandem mass spectrometry

(2014) Zeneng Wang et al.   ANALYTICAL BIOCHEMISTRY

Human Genetics Shape the Gut Microbiome

(2014) Julia K. Goodrich et al.   CELL

Discovery and Characterization of Gut Microbiota Decarboxylases that Can Produce the Neurotransmitter Tryptamine

(2014) Brianna B. Williams et al.   Cell Host & Microbe

Revealing the Bacterial Butyrate Synthesis Pathways by Analyzing (Meta)genomic Data

(2014) M. Vital et al.   mBio

A targeted metabolomic protocol for short-chain fatty acids and branched-chain amino acids

(2013) Xiaojiao Zheng et al.   Metabolomics

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

(2013) Yukihiro Furusawa et al.   NATURE

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

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

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

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

(2013) P. M. Smith et al.   SCIENCE

PePPER: a webserver for prediction of prokaryote promoter elements and regulons

(2012) Anne de Jong et al.   BMC GENOMICS

Histamine Derived from Probiotic Lactobacillus reuteri Suppresses TNF via Modulation of PKA and ERK Signaling

(2012) Carissa M. Thomas et al.   PLoS One

Microbial conversion of choline to trimethylamine requires a glycyl radical enzyme

(2012) S. Craciun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A modular system for Clostridium shuttle plasmids

(2009) John T. Heap et al.   JOURNAL OF MICROBIOLOGICAL METHODS