Quorum sensing-based interactions among drugs, microbes, and diseases

Potential of orthogonal and cross-talk quorum sensing for dynamic regulation in cocultivation

(2022) Shengbo Wu et al.   CHEMICAL ENGINEERING JOURNAL

DisBalance: a platform to automatically build balance-based disease prediction models and discover microbial biomarkers from microbiome data

(2021) Fenglong Yang et al.   BRIEFINGS IN BIOINFORMATICS

Vertical and horizontal quorum-sensing-based multicellular communications

(2021) Shengbo Wu et al.   TRENDS IN MICROBIOLOGY

Associations between habitual diet, metabolic disease, and the gut microbiota using latent Dirichlet allocation

(2021) Taylor A. Breuninger et al.   Microbiome

Diet and gut microbiome interactions of relevance for symptoms in irritable bowel syndrome

(2021) Julien Tap et al.   Microbiome

The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice

(2021) Sharon Ann Barretto et al.   Microbiome

Combinational quorum sensing devices for dynamic control in cross-feeding cocultivation

(2021) Shengbo Wu et al.   METABOLIC ENGINEERING

Bioaccumulation of therapeutic drugs by human gut bacteria

(2021) Martina Klünemann et al.   NATURE

Facing small and biased data dilemma in drug discovery with enhanced federated learning approaches

(2021) Zhaoping Xiong et al.   Science China-Life Sciences

The complex relationship between drugs and the microbiome

(2020) Neil Savage   NATURE

Impact of commonly used drugs on the composition and metabolic function of the gut microbiota

(2020) Arnau Vich Vila et al.   Nature Communications

Aspirin Reduces Colorectal Tumor Development in Mice and Gut Microbes Reduce its Bioavailability and Chemopreventive Effects

(2020) Risheng Zhao et al.   GASTROENTEROLOGY

Interaction between drugs and the gut microbiome

(2020) Rinse K Weersma et al.   GUT

RapidAIM: a culture- and metaproteomics-based Rapid Assay of Individual Microbiome responses to drugs

(2020) Leyuan Li et al.   Microbiome

gutMEGA: a database of the human gut MEtaGenome Atlas

(2020) Qingfeng Zhang et al.   BRIEFINGS IN BIOINFORMATICS

A survey on predicting microbe-disease associations: biological data and computational methods

(2020) Zhongqi Wen et al.   BRIEFINGS IN BIOINFORMATICS

Microbes and complex diseases: from experimental results to computational models

(2020) Yan Zhao et al.   BRIEFINGS IN BIOINFORMATICS

Personalized Mapping of Drug Metabolism by the Human Gut Microbiome

(2020) Bahar Javdan et al.   CELL

Gut microbiome-related effects of berberine and probiotics on type 2 diabetes (the PREMOTE study)

(2020) Yifei Zhang et al.   Nature Communications

Antimicrobial drug use in the first decade of life influences saliva microbiota diversity and composition

(2020) Sajan C. Raju et al.   Microbiome

Drug response in association with pharmacogenomics and pharmacomicrobiomics: towards a better personalized medicine

(2020) Radia Hassan et al.   BRIEFINGS IN BIOINFORMATICS

Effects of dietary fat on gut microbiota and faecal metabolites, and their relationship with cardiometabolic risk factors: a 6-month randomised controlled-feeding trial

(2019) Yi Wan et al.   GUT

Advances in Surface Plasmon Resonance Imaging and Microscopy and Their Biological Applications

(2019) Markéta Bocková et al.   Annual Review of Analytical Chemistry

Mapping human microbiome drug metabolism by gut bacteria and their genes

(2019) Michael Zimmermann et al.   NATURE

Quorum sensing for population-level control of bacteria and potential therapeutic applications

(2019) Shengbo Wu et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

gutMDisorder: a comprehensive database for dysbiosis of the gut microbiota in disorders and interventions

(2019) Liang Cheng et al.   NUCLEIC ACIDS RESEARCH

The role of the gut microbiota in the treatment of inflammatory bowel diseases

(2019) Ioanna Aggeletopoulou et al.   MICROBIAL PATHOGENESIS

Current explorations of nutrition and the gut microbiome: a comprehensive evaluation of the review literature

(2019) Leigh A Frame et al.   NUTRITION REVIEWS

Virtual screening of plant compounds and nonsteroidal anti-inflammatory drugs for inhibition of quorum sensing and biofilm formation in Salmonella

(2018) Felipe Alves de Almeida et al.   MICROBIAL PATHOGENESIS

Large-area gold nanohole arrays fabricated by one-step method for surface plasmon resonance biochemical sensing

(2018) Huijie Qi et al.   Science China-Life Sciences

Quorum-Sensing Systems as Targets for Antivirulence Therapy

(2018) Tom Defoirdt   TRENDS IN MICROBIOLOGY

Gut microbiota associations with common diseases and prescription medications in a population-based cohort

(2018) Matthew A. Jackson et al.   Nature Communications

Pharmacomicrobiomics: exploiting the drug-microbiota interactions in anticancer therapies

(2018) Concetta Panebianco et al.   Microbiome

Extensive impact of non-antibiotic drugs on human gut bacteria

(2018) Lisa Maier et al.   NATURE

Dietary emulsifiers directly alter human microbiota composition and gene expression ex vivo potentiating intestinal inflammation

(2017) Benoit Chassaing et al.   GUT

Metformin alters the gut microbiome of individuals with treatment-naive type 2 diabetes, contributing to the therapeutic effects of the drug

(2017) Hao Wu et al.   NATURE MEDICINE

aBiofilm: a resource of anti-biofilm agents and their potential implications in targeting antibiotic drug resistance

(2017) Akanksha Rajput et al.   NUCLEIC ACIDS RESEARCH

DrugBank 5.0: a major update to the DrugBank database for 2018

(2017) David S Wishart et al.   NUCLEIC ACIDS RESEARCH

X-ray crystal structures of the pheromone-binding domains of two quorum-hindered transcription factors, YenR of Yersinia enterocolitica and CepR2 of Burkholderia cenocepacia

(2017) Youngchang Kim et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

A Dietary Fiber-Deprived Gut Microbiota Degrades the Colonic Mucus Barrier and Enhances Pathogen Susceptibility

(2016) Mahesh S. Desai et al.   CELL

The microbiota in adaptive immune homeostasis and disease

(2016) Kenya Honda et al.   NATURE

Diet-induced extinctions in the gut microbiota compound over generations

(2016) Erica D. Sonnenburg et al.   NATURE

The ChEMBL database in 2017

(2016) Anna Gaulton et al.   NUCLEIC ACIDS RESEARCH

Cyclic di-GMP mediates a histidine kinase/phosphatase switch by noncovalent domain cross-linking

(2016) B. N. Dubey et al.   Science Advances

Dynamics and Stabilization of the Human Gut Microbiome during the First Year of Life

(2015) Fredrik Bäckhed et al.   Cell Host & Microbe

Proton pump inhibitors affect the gut microbiome

(2015) Floris Imhann et al.   GUT

Proton pump inhibitors alter the composition of the gut microbiota

(2015) Matthew A Jackson et al.   GUT

Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

(2015) Kristoffer Forslund et al.   NATURE

The drug–target residence time model: a 10-year retrospective

(2015) Robert A. Copeland   NATURE REVIEWS DRUG DISCOVERY

SigMol: repertoire of quorum sensing signaling molecules in prokaryotes

(2015) Akanksha Rajput et al.   NUCLEIC ACIDS RESEARCH

PubChem Substance and Compound databases

(2015) Sunghwan Kim et al.   NUCLEIC ACIDS RESEARCH

Structural and Mechanistic Roles of Novel Chemical Ligands on the SdiA Quorum-Sensing Transcription Regulator

(2015) Y Nguyen et al.   mBio

Artificial sweeteners induce glucose intolerance by altering the gut microbiota

(2014) Jotham Suez et al.   NATURE

Recent advances in the development of graphene-based surface plasmon resonance (SPR) interfaces

(2013) Sabine Szunerits et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Surface plasmon resonance spectroscopy for characterisation of membrane protein–ligand interactions and its potential for drug discovery

(2013) Simon G. Patching   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

Structural Basis for Native Agonist and Synthetic Inhibitor Recognition by the Pseudomonas aeruginosa Quorum Sensing Regulator PqsR (MvfR)

(2013) Aravindan Ilangovan et al.   PLoS Pathogens

Data mining the human gut microbiota for therapeutic targets

(2012) M. Collison et al.   BRIEFINGS IN BIOINFORMATICS

Dietary-fat-induced taurocholic acid promotes pathobiont expansion and colitis in Il10 −/− mice

(2012) Suzanne Devkota et al.   NATURE

Quorumpeps database: chemical space, microbial origin and functionality of quorum sensing peptides

(2012) Evelien Wynendaele et al.   NUCLEIC ACIDS RESEARCH

A Strategy for Antagonizing Quorum Sensing

(2011) Guozhou Chen et al.   MOLECULAR CELL

Crystal structure of QscR, a Pseudomonas aeruginosa quorum sensing signal receptor

(2011) M. J. Lintz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Computer-Aided Identification of Recognized Drugs as Pseudomonas aeruginosa Quorum-Sensing Inhibitors

(2009) L. Yang et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Surface plasmon resonance imaging for affinity-based biosensors

(2009) Simona Scarano et al.   BIOSENSORS & BIOELECTRONICS

The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice

(2009) P. J. Turnbaugh et al.   Science Translational Medicine