Advances in modelling the human microbiome–gut–brain axis in vitro

Quantitative prediction of human pharmacokinetic responses to drugs via fluidically coupled vascularized organ chips

(2020) Anna Herland et al.   Nature Biomedical Engineering

Organ-On-A-Chip in vitro Models of the Brain and the Blood-Brain Barrier and Their Value to Study the Microbiota-Gut-Brain Axis in Neurodegeneration

(2020) Ilaria Raimondi et al.   Frontiers in Bioengineering and Biotechnology

The Microbiome and the Gut‐Liver‐Brain Axis for Central Nervous System Clinical Pharmacology: Challenges in Specifying and Integrating In Vitro and In Silico Models

(2020) Kyle G. Hawkins et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

Materials for blood brain barrier modeling in vitro

(2020) Magali P. Ferro et al.   MATERIALS SCIENCE & ENGINEERING R-REPORTS

A 3D human brain–like tissue model of herpes-induced Alzheimer’s disease

(2020) Dana M. Cairns et al.   Science Advances

Organ-on-a-chip engineering: Toward bridging the gap between lab and industry

(2020) Qasem Ramadan et al.   Biomicrofluidics

Three-dimensional bioprinted glioblastoma microenvironments model cellular dependencies and immune interactions

(2020) Min Tang et al.   CELL RESEARCH

Microbiome definition re-visited: old concepts and new challenges

(2020) Gabriele Berg et al.   Microbiome

Homeostatic mini-intestines through scaffold-guided organoid morphogenesis

(2020) Mikhail Nikolaev et al.   NATURE

Species-specific enhancement of enterohemorrhagic E. coli pathogenesis mediated by microbiome metabolites

(2019) Alessio Tovaglieri et al.   Microbiome

iPSC-Derived Brain Endothelium Exhibits Stable, Long-Term Barrier Function in Perfused Hydrogel Scaffolds

(2019) Shannon L. Faley et al.   Stem Cell Reports

Controlling Epithelial Polarity: A Human Enteroid Model for Host-Pathogen Interactions

(2019) Julia Y. Co et al.   Cell Reports

Cerebral organoids at the air–liquid interface generate diverse nerve tracts with functional output

(2019) Stefano L. Giandomenico et al.   NATURE NEUROSCIENCE

Zika virus infection induces RNAi-mediated antiviral immunity in human neural progenitors and brain organoids

(2019) Yan-Peng Xu et al.   CELL RESEARCH

Nanofibrous Scaffolds Support a 3D in vitro Permeability Model of the Human Intestinal Epithelium

(2019) Jamie D. Patient et al.   Frontiers in Pharmacology

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

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

Human iPSC-Derived Blood-Brain Barrier Chips Enable Disease Modeling and Personalized Medicine Applications

(2019) Gad D. Vatine et al.   Cell Stem Cell

Disease modelling in human organoids

(2019) Madeline A. Lancaster et al.   Disease Models & Mechanisms

Bioengineered in vitro enteric nervous system

(2019) Eleana Manousiouthakis et al.   Journal of Tissue Engineering and Regenerative Medicine

Human Cytomegalovirus Compromises Development of Cerebral Organoids

(2019) Rebecca M. Brown et al.   JOURNAL OF VIROLOGY

Hypoxia-enhanced Blood-Brain Barrier Chip recapitulates human barrier function and shuttling of drugs and antibodies

(2019) Tae-Eun Park et al.   Nature Communications

Advances and Current Challenges in Intestinal in vitro Model Engineering: A Digest

(2019) Joana Costa et al.   Frontiers in Bioengineering and Biotechnology

A higher throughput and physiologically relevant two-compartmental human ex vivo intestinal tissue system for studying gastrointestinal processes

(2019) Lianne J. Stevens et al.   EUROPEAN JOURNAL OF PHARMACEUTICAL SCIENCES

A library of human gut bacterial isolates paired with longitudinal multiomics data enables mechanistic microbiome research

(2019) M. Poyet et al.   NATURE MEDICINE

Simple animal models for microbiome research

(2019) Angela E. Douglas   NATURE REVIEWS MICROBIOLOGY

The Microbiota-Gut-Brain Axis

(2019) John F. Cryan et al.   PHYSIOLOGICAL REVIEWS

In vitro Characterization of Gut Microbiota-Derived Bacterial Strains With Neuroprotective Properties

(2019) Suaad Ahmed et al.   Frontiers in Cellular Neuroscience

All Together Now: Modeling the Interaction of Neural With Non-neural Systems Using Organoid Models

(2019) Evelyn Chukwurah et al.   Frontiers in Neuroscience

Fabrication of 3D scaffolds reproducing intestinal epithelium topography by high-resolution 3D stereolithography

(2019) Justine Creff et al.   BIOMATERIALS

An in vitro model maintaining taxon-specific functional activities of the gut microbiome

(2019) Leyuan Li et al.   Nature Communications

The gut-liver-kidney axis: Novel regulator of fatty liver associated chronic kidney disease

(2019) Desh Raj et al.   PHARMACOLOGICAL RESEARCH

A 3D intestinal tissue model supports Clostridioides difficile germination, colonization, toxin production and epithelial damage

(2018) Lamyaa Shaban et al.   ANAEROBE

3D self-organized microvascular model of the human blood-brain barrier with endothelial cells, pericytes and astrocytes

(2018) Marco Campisi et al.   BIOMATERIALS

Organs-on-a-Chip: A Fast Track for Engineered Human Tissues in Drug Development

(2018) Kacey Ronaldson-Bouchard et al.   Cell Stem Cell

Current understanding of the human microbiome

(2018) Jack A Gilbert et al.   NATURE MEDICINE

The gut–liver axis and the intersection with the microbiome

(2018) Anupriya Tripathi et al.   Nature Reviews Gastroenterology & Hepatology

The gut microbiota and the brain–gut–kidney axis in hypertension and chronic kidney disease

(2018) Tao Yang et al.   Nature Reviews Nephrology

Novel Segment- and Host-Specific Patterns of Enteroaggregative Escherichia coli Adherence to Human Intestinal Enteroids

(2018) Anubama Rajan et al.   mBio

Oxidative stress preconditioning of mouse perivascular myogenic progenitors selects a subpopulation of cells with a distinct survival advantage in vitro and in vivo

(2018) Cesare Gargioli et al.   Cell Death & Disease

Role of the gut microbiota in nutrition and health

(2018) Ana M Valdes et al.   BMJ-British Medical Journal

Role of the gut microbiota in nutrition and health

(2018) Ana M Valdes et al.   BMJ-British Medical Journal

Microbiome–host systems interactions: protective effects of propionate upon the blood–brain barrier

(2018) Lesley Hoyles et al.   Microbiome

Salmonella Typhi Colonization Provokes Extensive Transcriptional Changes Aimed at Evading Host Mucosal Immune Defense During Early Infection of Human Intestinal Tissue

(2018) K.P. Nickerson et al.   EBioMedicine

Resolving host–microbe interactions in the gut: the promise of in vitro models to complement in vivo research

(2018) Wilmes Paul et al.   CURRENT OPINION IN MICROBIOLOGY

A linked organ-on-chip model of the human neurovascular unit reveals the metabolic coupling of endothelial and neuronal cells

(2018) Ben M Maoz et al.   NATURE BIOTECHNOLOGY

Interleukin-22 promotes phagolysosomal fusion to induce protection against Salmonella enterica Typhimurium in human epithelial cells

(2018) Jessica L. Forbester et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Development of a primary human Small Intestine-on-a-Chip using biopsy-derived organoids

(2018) Magdalena Kasendra et al.   Scientific Reports

Human Intestinal Organoids Maintain Self-Renewal Capacity and Cellular Diversity in Niche-Inspired Culture Condition

(2018) Masayuki Fujii et al.   Cell Stem Cell

Dietary metabolism, the gut microbiome, and heart failure

(2018) W. H. Wilson Tang et al.   Nature Reviews Cardiology

Intestinal in vitro and ex vivo Models to Study Host-Microbiome Interactions and Acute Stressors

(2018) Sarah C. Pearce et al.   Frontiers in Physiology

Transistor in a tube: A route to three-dimensional bioelectronics

(2018) C. Pitsalidis et al.   Science Advances

Organoids Reveal Clues to Gut-Brain Communication

(2017) Tracy Hampton   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

Goodbye flat biology – time for the 3rd and the 4th dimensions

(2017) Mina J. Bissell   JOURNAL OF CELL SCIENCE

A 3D neurovascular microfluidic model consisting of neurons, astrocytes and cerebral endothelial cells as a blood–brain barrier

(2017) Giulia Adriani et al.   LAB ON A CHIP

Organs-on-chips with integrated electrodes for trans-epithelial electrical resistance (TEER) measurements of human epithelial barrier function

(2017) Olivier Y. F. Henry et al.   LAB ON A CHIP

Assembly of functionally integrated human forebrain spheroids

(2017) Fikri Birey et al.   NATURE

Enteroviruses infect human enteroids and induce antiviral signaling in a cell lineage-specific manner

(2017) Coyne G. Drummond et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Disease Modeling in Stem Cell-Derived 3D Organoid Systems

(2017) Devanjali Dutta et al.   TRENDS IN MOLECULAR MEDICINE

Live Faecalibacterium prausnitzii Does Not Enhance Epithelial Barrier Integrity in an Apical Anaerobic Co-Culture Model of the Large Intestine

(2017) Eva Maier et al.   Nutrients

A primary human macrophage-enteroid co-culture model to investigate mucosal gut physiology and host-pathogen interactions

(2017) Gaelle Noel et al.   Scientific Reports

Self-Organized Cerebral Organoids with Human-Specific Features Predict Effective Drugs to Combat Zika Virus Infection

(2017) Momoko Watanabe et al.   Cell Reports

Bacterial colonization stimulates a complex physiological response in the immature human intestinal epithelium

(2017) David R Hill et al.   eLife

Multifunctional Bioreactor System for Human Intestine Tissues

(2017) Wenda Zhou et al.   ACS Biomaterials-Science & Engineering

Multifunctional Bioreactor System for Human Intestine Tissues

(2017) Wenda Zhou et al.   ACS Biomaterials Science & Engineering

Intestinal organoids model human responses to infection by commensal and Shiga toxin producing Escherichia coli

(2017) Sayali S. Karve et al.   PLoS One

Functional Coupling of Human Microphysiology Systems: Intestine, Liver, Kidney Proximal Tubule, Blood-Brain Barrier and Skeletal Muscle

(2017) Lawrence Vernetti et al.   Scientific Reports

Butyrate-producing bacteria supplemented in vitro to Crohn’s disease patient microbiota increased butyrate production and enhanced intestinal epithelial barrier integrity

(2017) Annelies Geirnaert et al.   Scientific Reports

The SCFA butyrate stimulates the epithelial production of retinoic acid via inhibition of epithelial HDAC

(2016) Ronald Schilderink et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Effect of oligosaccharides on the adhesion of gut bacteria to human HT-29 cells

(2016) M. Altamimi et al.   ANAEROBE

Gut Microbiota Regulate Motor Deficits and Neuroinflammation in a Model of Parkinson’s Disease

(2016) Timothy R. Sampson et al.   CELL

Modeling human disease using organotypic cultures

(2016) Pawel J Schweiger et al.   CURRENT OPINION IN CELL BIOLOGY

Multicenter quality assessment of 16S ribosomal DNA-sequencing for microbiome analyses reveals high inter-center variability

(2016) Andreas Hiergeist et al.   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Brain-on-a-chip model enables analysis of human neuronal differentiation and chemotaxis

(2016) Onur Kilic et al.   LAB ON A CHIP

Culturing of ‘unculturable’ human microbiota reveals novel taxa and extensive sporulation

(2016) Hilary P. Browne et al.   NATURE

Engineered human pluripotent-stem-cell-derived intestinal tissues with a functional enteric nervous system

(2016) Michael J Workman et al.   NATURE MEDICINE

A decade of progress in tissue engineering

(2016) Ali Khademhosseini et al.   Nature Protocols

Human mini-guts: new insights into intestinal physiology and host–pathogen interactions

(2016) Julie G. In et al.   Nature Reviews Gastroenterology & Hepatology

Intestinal stem cell growth and differentiation on a tubular scaffold with evaluation in small and large animals

(2016) Shahab A Shaffiey et al.   Regenerative Medicine

Replication of human noroviruses in stem cell-derived human enteroids

(2016) K. Ettayebi et al.   SCIENCE

3D Biomimetic Cultures: The Next Platform for Cell Biology

(2016) Christopher S. Chen   TRENDS IN CELL BIOLOGY

Generation and transplantation of reprogrammed human neurons in the brain using 3D microtopographic scaffolds

(2016) Aaron L. Carlson et al.   Nature Communications

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

(2016) Pranjul Shah et al.   Nature Communications

Gnotobiotic Rodents: An In Vivo Model for the Study of Microbe–Microbe Interactions

(2016) Rebeca Martín et al.   Frontiers in Microbiology

Calcium homeostasis in a local/global whole cell model of permeabilized ventricular myocytes with a Langevin description of stochastic calcium release

(2015) Xiao Wang et al.   AMERICAN JOURNAL OF PHYSIOLOGY-HEART AND CIRCULATORY PHYSIOLOGY

Recreating blood-brain barrier physiology and structure on chip: A novel neurovascular microfluidic bioreactor

(2015) Jacquelyn A. Brown et al.   Biomicrofluidics

In Vitro Expansion of Human Gastric Epithelial Stem Cells and Their Responses to Bacterial Infection

(2015) Sina Bartfeld et al.   GASTROENTEROLOGY

Interaction of Salmonella enterica Serovar Typhimurium with Intestinal Organoids Derived from Human Induced Pluripotent Stem Cells

(2015) Jessica L. Forbester et al.   INFECTION AND IMMUNITY

Human Enteroids/Colonoids and Intestinal Organoids Functionally Recapitulate Normal Intestinal Physiology and Pathophysiology

(2015) Nicholas C. Zachos et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

In vitro bioengineered model of cortical brain tissue

(2015) Karolina Chwalek et al.   Nature Protocols

Contributions of microbiome and mechanical deformation to intestinal bacterial overgrowth and inflammation in a human gut-on-a-chip

(2015) Hyun Jung Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Robust bioengineered 3D functional human intestinal epithelium

(2015) Ying Chen et al.   Scientific Reports

Generation of tissue-engineered small intestine using embryonic stem cell-derived human intestinal organoids

(2015) S. R. Finkbeiner et al.   Biology Open

Cultivation of stable, reproducible microbial communities from different fecal donors using minibioreactor arrays (MBRAs)

(2015) Jennifer M. Auchtung et al.   Microbiome

The HMI™ module: a new tool to study the Host-Microbiota Interaction in the human gastrointestinal tract in vitro

(2014) Massimo Marzorati et al.   BMC MICROBIOLOGY

Persistence and Toxin Production by Clostridium difficile within Human Intestinal Organoids Result in Disruption of Epithelial Paracellular Barrier Function

(2014) Jhansi L. Leslie et al.   INFECTION AND IMMUNITY

Three-dimensional organotypic culture: experimental models of mammalian biology and disease

(2014) Eliah R. Shamir et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Gut-on-a-Chip microenvironment induces human intestinal cells to undergo villus differentiation

(2013) Hyun Jung Kim et al.   Integrative Biology

Cerebral organoids model human brain development and microcephaly

(2013) Madeline A. Lancaster et al.   NATURE

Fighting Obesity with Bacteria

(2013) A. W. Walker et al.   SCIENCE