This proposal will use human gastrointestinal organoids as a model system. We will integrate state-of-the-art methodologies, with collaborative and synergistic research approaches to the study of gastrointestinal diseases. We will develop in vitro gastrointestinal models that replicate the biological structures of the human intestinal tract. These tissues will recapitulate human physiology and disease pathology, and incorporate components critical to disease and human host response. Our focus will span the pipeline from basic research (pathogenesis) to product development. For gastrointestinal pathogens that have no relevant animal models, another long-term goal is to develop model systems that can be used in IND-enabling studies. We will advance the field through the following Specific Aims:
Aim 1. Title: Mechanisms of H. pylori-host infection using human gastric organoids. Research Project 1 will use the newly developed gastric organoid system to study Helicobacter pylori. The proposed studies have the potential to advance our understanding of the mechanisms by which H. pylori alters gastric stem cell fate, and advance our understanding of the role of H. pylori as a carcinogen.
Aim 2. Title: Human Intestinal Organoids to Study Toxigenic Bacterial Pathogens. Research Project II will use human intestinal organoids as a novel model system to study two toxigenic enteric pathogens, Clostridium difficile and Shiga toxin (Stx) producing Escherichia coli (STEC). The proposed studies have the potential to advance our understanding of the pathogenic processes of C. difficile and STEC and create model systems for the evaluation of potential therapeutics.
Aim 3. Title: Human gastroids and colonoids as 4D models of gastrointestinal infection. Research Project III will develop ex vivo models to determine age-dependent and temporal GI epithelial responses to: a) H. pylori infection in human gastric organoids (HGOs) and gastroids and b) Clostridium difficile (CD) and Shiga toxin-producing Escherichia coli (STEC) infection and their major toxins in human colonic organoids (HCOs) and colonoids.
Aim 4. Technology dissemination. We will advance and encourage educational and training activities to investigators currently affiliated with this proposal, investigators funded through other NAMSED awards, and interested members of the scientific community in general.
Aim 5. Organoid Engineering Core. The human organoid core will develop reporter lines in which fluorescent proteins are expressed in specific lineages. shRNA knockdown and CRISPR targeted lines will give rise to human gastro-intestinal organoids lacking specific lineages, and tetracycline-regulated systems will be used to expand specific lineages.

Public Health Relevance

Even in the 21st Century, infectious gastrointestinal diseases remain a significant cause of morbidity and mortality, with billions of cases occurring worldwide annually; however, even though the problem is significant, advancements in research and development of new therapeutics for enteric diseases have not met needs. The overall objective of this proposal is to develop human gastrointestinal organoids as model systems to address transformative questions regarding gastrointestinal infectious diseases.

National Institute of Health (NIH)
National Institute of Allergy and Infectious Diseases (NIAID)
Research Program--Cooperative Agreements (U19)
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Study Section
Special Emphasis Panel (ZAI1)
Program Officer
Ranallo, Ryan
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University of Cincinnati
Schools of Medicine
United States
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Matsu-Ura, Toru; Moore, Sean R; Hong, Christian I (2018) WNT Takes Two to Tango: Molecular Links between the Circadian Clock and the Cell Cycle in Adult Stem Cells. J Biol Rhythms 33:5-14
Rankin, Scott A; McCracken, Kyle W; Luedeke, David M et al. (2018) Timing is everything: Reiterative Wnt, BMP and RA signaling regulate developmental competence during endoderm organogenesis. Dev Biol 434:121-132
Lee, Kang Kug; McCauley, Heather A; Broda, Taylor R et al. (2018) Human stomach-on-a-chip with luminal flow and peristaltic-like motility. Lab Chip 18:3079-3085
Sinagoga, Katie L; McCauley, Heather A; MĂșnera, Jorge O et al. (2018) Deriving functional human enteroendocrine cells from pluripotent stem cells. Development 145:
Trisno, Stephen L; Philo, Katherine E D; McCracken, Kyle W et al. (2018) Esophageal Organoids from Human Pluripotent Stem Cells Delineate Sox2 Functions during Esophageal Specification. Cell Stem Cell 23:501-515.e7
Wells, James M; Watt, Fiona M (2018) Diverse mechanisms for endogenous regeneration and repair in mammalian organs. Nature 557:322-328
Zavros, Yana (2017) Initiation and Maintenance of Gastric Cancer: A Focus on CD44 Variant Isoforms and Cancer Stem Cells. Cell Mol Gastroenterol Hepatol 4:55-63
McCracken, Kyle W; Wells, James M (2017) Mechanisms of embryonic stomach development. Semin Cell Dev Biol 66:36-42
McCauley, Heather A; Wells, James M (2017) Pluripotent stem cell-derived organoids: using principles of developmental biology to grow human tissues in a dish. Development 144:958-962
McCracken, Kyle W; Aihara, Eitaro; Martin, Baptiste et al. (2017) Wnt/?-catenin promotes gastric fundus specification in mice and humans. Nature 541:182-187

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