f Clostridium difficile is the leading cause of infectious nosocomial diarrhea. The pathogenesis of C. difficile infection (CDI) results from the interactions between the pathogen, intestinal epithelium, host immune system, and gastrointestinal microbiota. Previous studies of the host-pathogen interaction in CDI have utilized either simple cell monolayers or in vivo models. While much has been learned by utilizing these approaches, little is known about the direct interaction of the bacterium with a complex host epithelium. Here, we asked if human intestinal organoids (HIOs), which are derived from pluripotent stem cells and demonstrate small intestinal morphology and physiology, could be used to study the pathogenesis of the obligate anaerobe C. difficile. Vegetative C. difficile, microinjected into the lumen of HIOs, persisted in a viable state for up to 12 h. Upon colonization with C. difficile VPI 10463, the HIO epithelium is markedly disrupted, resulting in the loss of paracellular barrier function. Since similar effects were not observed when HIOs were colonized with the nontoxigenic C. difficile strain F200, we directly tested the role of toxin using TcdA and TcdB purified from VPI 10463. We show that the injection of TcdA replicates the disruption of the epithelial barrier function and structure observed in HIOs colonized with viable C. difficile. C lostridium difficile is an anaerobic, spore-forming bacterium that is the leading cause of infectious nosocomial diarrhea and is responsible for over 14,000 deaths annually (1). Human exposure to C. difficile results in a range of manifestations, from asymptomatic colonization, to diarrhea, to lethal toxic megacolon. Various models have been used to study C. difficile infection (CDI), including in vitro models using transformed cell lines and a variety of in vivo models (2-5). In vitro cell culture models are limited in their ability to recapitulate complexities of the human gastrointestinal tract, and detailed, real-time study of the mucosal epithelium during infection in an animal model is technically challenging.Human intestinal organoids (HIOs) are three-dimensional spheroids of human epithelium generated through directed differentiation of human pluripotent stem cells (hPSCs), which include human embryonic stem cells (hESCs) and induced pluripotent stem cells (iPSCs). HIOs contain both mesenchymal and epithelial tissues that are structurally arranged around a central luminal cavity. The epithelial compartment of the HIO possesses an array of small intestinal cell types, including absorptive enterocytes and secretory Paneth, goblet, and enteroendocrine cells, in addition to Lgr5 ϩ intestinal stem cells (6). HIOs have been used to model features of embryonic development, viral infection, and inflammatory bowel disease (7-9). Due to their similarity to the human gastrointestinal tract, HIOs serve as a tractable and physiologically relevant model of the human intestine.We sought to use HIOs to study the interaction between C. difficile and complex human epit...