Self-tunable engineered yeast probiotics for the treatment of inflammatory bowel disease

In Situ Biomanufacturing of Small Molecules in the Mammalian Gut by Probiotic Saccharomyces boulardii

(2021) Deniz Durmusoglu et al.   ACS Synthetic Biology

Yeasts as probiotics: Mechanisms, outcomes, and future potential

(2020) Swastik Sen et al.   FUNGAL GENETICS AND BIOLOGY

Genetic circuit design automation for yeast

(2020) Ye Chen et al.   Nature Microbiology

Engineering probiotics for therapeutic applications: recent examples and translational outlook

(2020) Nikhil Aggarwal et al.   CURRENT OPINION IN BIOTECHNOLOGY

Engineering a Model Cell for Rational Tuning of GPCR Signaling

(2019) William M. Shaw et al.   CELL

Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases

(2019) Jason Lloyd-Price et al.   NATURE

The pros, cons, and many unknowns of probiotics

(2019) Jotham Suez et al.   NATURE MEDICINE

Control of tumor-associated macrophages and T cells in glioblastoma via AHR and CD39

(2019) Maisa C. Takenaka et al.   NATURE NEUROSCIENCE

The role of integrins in the pathogenesis of inflammatory bowel disease: Approved and investigational anti-integrin therapies

(2019) Iris Dotan et al.   MEDICINAL RESEARCH REVIEWS

Targeting immune cell circuits and trafficking in inflammatory bowel disease

(2019) Markus F. Neurath   NATURE IMMUNOLOGY

Therapeutic Opportunities in Inflammatory Bowel Disease: Mechanistic Dissection of Host-Microbiome Relationships

(2019) Damian R. Plichta et al.   CELL

Calorie restriction slows age-related microbiota changes in an Alzheimer’s disease model in female mice

(2019) Laura M. Cox et al.   Scientific Reports

Microglial control of astrocytes in response to microbial metabolites

(2018) Veit Rothhammer et al.   NATURE

Eosinophil depletion suppresses radiation-induced small intestinal fibrosis

(2018) Naoki Takemura et al.   Science Translational Medicine

Coupling of Human Rhodopsin to a Yeast Signaling Pathway Enables Characterization of Mutations Associated with Retinal Disease

(2018) Benjamin M. Scott et al.   GENETICS

Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies

(2017)   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Molecular Recognition of Agonists and Antagonists by the Nucleotide-Activated G Protein-Coupled P2Y2 Receptor

(2017) Muhammad Rafehi et al.   JOURNAL OF MEDICINAL CHEMISTRY

Fine-mapping inflammatory bowel disease loci to single-variant resolution

(2017) Hailiang Huang et al.   NATURE

A member of the gut mycobiota modulates host purine metabolism exacerbating colitis in mice

(2017) Tyson R. Chiaro et al.   Science Translational Medicine

Engineered probiotic Escherichia coli can eliminate and prevent Pseudomonas aeruginosa gut infection in animal models

(2017) In Young Hwang et al.   Nature Communications

The gut mycobiome of the Human Microbiome Project healthy cohort

(2017) Andrea K. Nash et al.   Microbiome

Dysbiosis of the fecal microbiota in the TNBS-induced Crohn’s disease mouse model

(2016) Qing He et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Fungal microbiota dysbiosis in IBD

(2016) Harry Sokol et al.   GUT

Fungal Chitin Induces Trained Immunity in Human Monocytes during Cross-talk of the Host withSaccharomyces cerevisiae

(2016) Lisa Rizzetto et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Diverse activation pathways in class A GPCRs converge near the G-protein-coupling region

(2016) A. J. Venkatakrishnan et al.   NATURE

Galaxy7TM: flexible GPCR–ligand docking by structure refinement

(2016) Gyu Rie Lee et al.   NUCLEIC ACIDS RESEARCH

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update

(2016) Maxim V. Kuleshov et al.   NUCLEIC ACIDS RESEARCH

Heatmapper: web-enabled heat mapping for all

(2016) Sasha Babicki et al.   NUCLEIC ACIDS RESEARCH

Regulation of the T Cell Response by CD39

(2016) Maisa C. Takenaka et al.   TRENDS IN IMMUNOLOGY

Directed evolution of G protein-coupled receptors in yeast for higher functional production in eukaryotic expression hosts

(2016) Marco Schütz et al.   Scientific Reports

AHR Activation Is Protective against Colitis Driven by T Cells in Humanized Mice

(2016) Jeremy A. Goettel et al.   Cell Reports

Extracellular ATP mediates inflammatory responses in colitis via P2 × 7 receptor signaling

(2016) Ping Wan et al.   Scientific Reports

“Off-Spotter”: very fast and exhaustive enumeration of genomic lookalikes for designing CRISPR/Cas guide RNAs

(2015) Venetia Pliatsika et al.   Biology Direct

Effect of Saccharomyces cerevisiae strain UFMG A-905 in experimental model of inflammatory bowel disease

(2015) F.C.P. Tiago et al.   Beneficial Microbes

CRISPR MultiTargeter: A Web Tool to Find Common and Unique CRISPR Single Guide RNA Targets in a Set of Similar Sequences

(2015) Sergey V. Prykhozhij et al.   PLoS One

Nucleotide signalling during inflammation

(2014) Marco Idzko et al.   NATURE

TU-100 (Daikenchuto) and Ginger Ameliorate Anti-CD3 Antibody Induced T Cell-Mediated Murine Enteritis: Microbe-Independent Effects Involving Akt and NF-κB Suppression

(2014) Nobuhiro Ueno et al.   PLoS One

Functional Heterologous Protein Expression by Genetically Engineered Probiotic Yeast Saccharomyces boulardii

(2014) Lauren E. Hudson et al.   PLoS One

Selection of chromosomal DNA libraries using a multiplex CRISPR system

(2014) Owen W Ryan et al.   eLife

Anti-Saccharomyces cerevisiae Autoantibodies in Autoimmune Diseases: from Bread Baking to Autoimmunity

(2013) Maurizio Rinaldi et al.   CLINICAL REVIEWS IN ALLERGY & IMMUNOLOGY

A decrease of the butyrate-producing speciesRoseburia hominisandFaecalibacterium prausnitziidefines dysbiosis in patients with ulcerative colitis

(2013) Kathleen Machiels et al.   GUT

IL-27 acts on DCs to suppress the T cell response and autoimmunity by inducing expression of the immunoregulatory molecule CD39

(2013) Ivan D Mascanfroni et al.   NATURE IMMUNOLOGY

p53 Mediates TNF-Induced Epithelial Cell Apoptosis in IBD

(2012) Tatiana Goretsky et al.   AMERICAN JOURNAL OF PATHOLOGY

Dextran sulfate sodium-induced ulcerative colitis leads to increased hematopoiesis and induces both local as well as systemic genotoxicity in mice

(2012) P.P. Trivedi et al.   MUTATION RESEARCH-GENETIC TOXICOLOGY AND ENVIRONMENTAL MUTAGENESIS

Host–microbe interactions have shaped the genetic architecture of inflammatory bowel disease

(2012) Luke Jostins et al.   NATURE

Activation of neuronal P2X7 receptor–pannexin-1 mediates death of enteric neurons during colitis

(2012) Brian D Gulbransen et al.   NATURE MEDICINE

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Molecular Mechanisms Deployed by Virally Encoded G Protein–Coupled Receptors in Human Diseases

(2011) Silvia Montaner et al.   Annual Review of Pharmacology and Toxicology

Oral treatment with Saccharomyces cerevisiae strain UFMG 905 modulates immune responses and interferes with signal pathways involved in the activation of inflammation in a murine model of typhoid fever

(2011) Flaviano S. Martins et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Commensal microbiota and myelin autoantigen cooperate to trigger autoimmune demyelination

(2011) Kerstin Berer et al.   NATURE

Border patrol: regulation of immunity, inflammation and tissue homeostasis at barrier surfaces by IL-22

(2011) Gregory F Sonnenberg et al.   NATURE IMMUNOLOGY

Saccharomyces cerevisiae Modulates Immune Gene Expressions and Inhibits ETEC-Mediated ERK1/2 and p38 Signaling Pathways in Intestinal Epithelial Cells

(2011) Galliano Zanello et al.   PLoS One

The GDA1_CD39 superfamily: NTPDases with diverse functions

(2011) Aileen F. Knowles   Purinergic Signalling

Metagenomic biomarker discovery and explanation

(2011) Nicola Segata et al.   GENOME BIOLOGY

UniFrac: an effective distance metric for microbial community comparison

(2010) Catherine Lozupone et al.   ISME Journal

Graft-versus-host disease is enhanced by extracellular ATP activating P2X7R

(2010) Konrad Wilhelm et al.   NATURE MEDICINE

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Key Determinants of Nucleotide-Activated G Protein-Coupled P2Y2Receptor Function Revealed by Chemical and Pharmacological Experiments, Mutagenesis and Homology Modeling

(2009) Petra Hillmann et al.   JOURNAL OF MEDICINAL CHEMISTRY

ATP drives lamina propria TH17 cell differentiation

(2008) Koji Atarashi et al.   NATURE

Using Engineered Scaffold Interactions to Reshape MAP Kinase Pathway Signaling Dynamics

(2008) C. J. Bashor et al.   SCIENCE