Genetic circuit design automation for the gut resident species Bacteroides thetaiotaomicron

A complex human gut microbiome cultured in an anaerobic intestine-on-a-chip

(2019) Sasan Jalili-Firoozinezhad et al.   Nature Biomedical Engineering

Bacterial variability in the mammalian gut captured by a single-cell synthetic oscillator

(2019) David T. Riglar et al.   Nature Communications

An exclusive metabolic niche enables strain engraftment in the gut microbiota

(2018) Elizabeth Stanley Shepherd et al.   NATURE

Next-generation biocontainment systems for engineered organisms

(2018) Jeong Wook Lee et al.   Nature Chemical Biology

Engineering bacteria for diagnostic and therapeutic applications

(2018) David T. Riglar et al.   NATURE REVIEWS MICROBIOLOGY

A selective gut bacterial bile salt hydrolase alters host metabolism

(2018) Lina Yao et al.   eLife

A Gut Commensal-Produced Metabolite Mediates Colonization Resistance to Salmonella Infection

(2018) Amanda Jacobson et al.   Cell Host & Microbe

Development of a synthetic live bacterial therapeutic for the human metabolic disease phenylketonuria

(2018) Vincent M Isabella et al.   NATURE BIOTECHNOLOGY

Quorum Sensing Can Be Repurposed To Promote Information Transfer between Bacteria in the Mammalian Gut

(2018) Suhyun Kim et al.   ACS Synthetic Biology

Synthetic Biology and Engineered Live Biotherapeutics: Toward Increasing System Complexity

(2018) Tanel Ozdemir et al.   Cell Systems

Engineering bacterial thiosulfate and tetrathionate sensors for detecting gut inflammation

(2017) Kristina N‐M Daeffler et al.   Molecular Systems Biology

Engineered bacteria can function in the mammalian gut long-term as live diagnostics of inflammation

(2017) David T Riglar et al.   NATURE BIOTECHNOLOGY

In vivo genome editing and organoid transplantation models of colorectal cancer and metastasis

(2017) Jatin Roper et al.   NATURE BIOTECHNOLOGY

Navigating the Gut Buffet: Control of Polysaccharide Utilization in Bacteroides spp.

(2017) Nathan D. Schwalm et al.   TRENDS IN MICROBIOLOGY

In situ click chemistry generation of cyclooxygenase-2 inhibitors

(2017) Atul Bhardwaj et al.   Nature Communications

Digital logic circuits in yeast with CRISPR-dCas9 NOR gates

(2017) Miles W. Gander et al.   Nature Communications

Development and Characterization of a Human and Mouse Intestinal Epithelial Cell Monolayer Platform

(2017) Kenji Kozuka et al.   Stem Cell Reports

An insider's perspective: Bacteroides as a window into the microbiome

(2017) Aaron G. Wexler et al.   Nature Microbiology

Microbiome therapeutics — Advances and challenges

(2016) Mark Mimee et al.   ADVANCED DRUG DELIVERY REVIEWS

Synchronized cycles of bacterial lysis for in vivo delivery

(2016) M. Omar Din et al.   NATURE

Tunable thermal bioswitches for in vivo control of microbial therapeutics

(2016) Dan I Piraner et al.   Nature Chemical Biology

Genetic circuit design automation

(2016) A. A. K. Nielsen et al.   SCIENCE

A microfluidics-based in vitro model of the gastrointestinal human–microbe interface

(2016) Pranjul Shah et al.   Nature Communications

Bile acids as metabolic regulators

(2015) Tiangang Li et al.   CURRENT OPINION IN GASTROENTEROLOGY

Gut biogeography of the bacterial microbiota

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

Programming a Human Commensal Bacterium, Bacteroides thetaiotaomicron, to Sense and Respond to Stimuli in the Murine Gut Microbiota

(2015) Mark Mimee et al.   Cell Systems

A Rule-Based Design Specification Language for Synthetic Biology

(2015) Ernst Oberortner et al.   ACM Journal on Emerging Technologies in Computing Systems

A Type VI Secretion-Related Pathway in Bacteroidetes Mediates Interbacterial Antagonism

(2014) Alistair B. Russell et al.   Cell Host & Microbe

Bile acids and the gut microbiome

(2014) Jason M. Ridlon et al.   CURRENT OPINION IN GASTROENTEROLOGY

Programmable bacteria detect and record an environmental signal in the mammalian gut

(2014) Jonathan W. Kotula et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Synthetic Microbes As Drug Delivery Systems

(2014) Jan Claesen et al.   ACS Synthetic Biology

Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression

(2013) Lei S. Qi et al.   CELL

Deglycosylation as a Mechanism of Inducible Antibiotic Resistance Revealed Using a Global Relational Tree for One-Component Regulators

(2013) Leslie Cuthbertson et al.   CHEMISTRY & BIOLOGY

Bile acid-controlled transgene expression in mammalian cells and mice

(2013) Katrin Rössger et al.   METABOLIC ENGINEERING

Genomic mining of prokaryotic repressors for orthogonal logic gates

(2013) Brynne C Stanton et al.   Nature Chemical Biology

Characterization of 582 natural and synthetic terminators and quantification of their design constraints

(2013) Ying-Ja Chen et al.   NATURE METHODS

The Long-Term Stability of the Human Gut Microbiota

(2013) J. J. Faith et al.   SCIENCE

Engineered Luciferase Reporter from a Deep Sea Shrimp Utilizing a Novel Imidazopyrazinone Substrate

(2012) Mary P. Hall et al.   ACS Chemical Biology

Characterization of BreR Interaction with the Bile Response PromotersbreABandbreRin Vibrio cholerae

(2012) Francisca A. Cerda-Maira et al.   JOURNAL OF BACTERIOLOGY

Engineered E. coli That Detect and Respond to Gut Inflammation through Nitric Oxide Sensing

(2012) Eric J. Archer et al.   ACS Synthetic Biology

Identification of tumor-specific Salmonella Typhimurium promoters and their regulatory logic

(2011) Sara Leschner et al.   NUCLEIC ACIDS RESEARCH

Synthetic Biology Moving into the Clinic

(2011) W. C. Ruder et al.   SCIENCE

Bile acids and colon cancer: Solving the puzzle with nuclear receptors

(2011) Chiara Degirolamo et al.   TRENDS IN MOLECULAR MEDICINE

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

Xylan-regulated delivery of human keratinocyte growth factor-2 to the inflamed colon by the human anaerobic commensal bacterium Bacteroides ovatus

(2009) Z. Z R Hamady et al.   GUT

Measuring the activity of BioBrick promoters using an in vivo reference standard

(2009) Jason R Kelly et al.   Journal of Biological Engineering

Bile Acids: Chemistry, Pathochemistry, Biology, Pathobiology, and Therapeutics

(2008) A. F. Hofmann et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

The Bile Response Repressor BreR Regulates Expression of the Vibrio cholerae breAB Efflux System Operon

(2008) F. A. Cerda-Maira et al.   JOURNAL OF BACTERIOLOGY