A major challenge for mammalian hosts is to maintain symbiotic relationships with the vast bacterial communities that colonize the intestines. The intestinal epithelium is the primary barrier between the intestinal microbiota and internal host tissues, yet little is known about how epithelial cells control bacterial interactions with the mucosal surface and limit microbial penetration of the intestinal barrier. Filling this knowledge gap is crucial, as many gastrointestinal diseases of humans originate with pathogenic invasions of the intestinal epithelium, or involve dysregulated interactions between the commensal microbiota and epithelial cells. In the previous project period, we showed that intestinal epithelil cell autophagy limits tissue invasion by opportunistically invasive commensals and the invasive intestinal pathogen, Salmonella typhimurium. We found that autophagy activation by S. typhimurium requires the innate immune signaling adaptor MyD88, and is regulated by interactions between the anti-autophagy factor BCL2 and the essential autophagy protein Beclin 1. Our initial findings thus identify autophagy as an important epithelial cell-autonomous mechanism of antibacterial defense and indicate that epithelial autophagy activation is tightly regulated. During the next project period, we propose to build upon these findings to gain a deeper understanding of how antibacterial autophagy is regulated in the intestinal epithelium, and to elucidate the physiological significance of epithelial autophagy for maintaining homeostasis with the microbiota.
In Aim 1, we will use in vivo mouse models to further delineate the role of BCL2 in regulating antibacterial autophagy in the intestinal epithelium.
In Aim 2, we will use in vivo approaches to determine how MyD88 regulates antibacterial autophagy in intestinal epithelial cells.
In Aim 3, we will use mice harboring epithelial cell-specific autophag defects to test the hypothesis that autophagy promotes the clearance of opportunistically-invasive commensal bacteria. These studies will significantly advance our understanding of how intestinal epithelial cells promote homeostasis with the diverse bacterial community in the intestine. Further, our findings should suggest novel strategies for enhancing intestinal epithelia cell autophagy to protect against intestinal infections and inflammatory diseases.

Public Health Relevance

Humans harbor 100 trillion bacteria that make important contributions to health, but can invade host tissues and cause diseases such as inflammatory bowel disease and bacteremia. This proposal will explore how the cellular process of autophagy is regulated in intestinal epithelial cells and how epithelial autophagy promotes the clearance of bacteria that invade the intestinal barrier. Our findings should yield novel strategies for enhancing intestinal epithelial cell autophagy to protect against intestinal infections and inflammatory bowel disease.

National Institute of Health (NIH)
National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK)
Research Project (R01)
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Gastrointestinal Mucosal Pathobiology Study Section (GMPB)
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Perrin, Peter J
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University of Texas Sw Medical Center Dallas
Schools of Medicine
United States
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McAleer, Jeremy P; Nguyen, Nikki L H; Chen, Kong et al. (2016) Pulmonary Th17 Antifungal Immunity Is Regulated by the Gut Microbiome. J Immunol 197:97-107
Fan, Di; Coughlin, Laura A; Neubauer, Megan M et al. (2015) Activation of HIF-1α and LL-37 by commensal bacteria inhibits Candida albicans colonization. Nat Med 21:808-14
Hooper, Lora V (2015) Epithelial cell contributions to intestinal immunity. Adv Immunol 126:129-72
Sturge, Carolyn R; Burger, Elise; Raetz, Megan et al. (2015) Cutting Edge: Developmental Regulation of IFN-γ Production by Mouse Neutrophil Precursor Cells. J Immunol 195:36-40
Kleiner, Manuel; Hooper, Lora V; Duerkop, Breck A (2015) Evaluation of methods to purify virus-like particles for metagenomic sequencing of intestinal viromes. BMC Genomics 16:7
Mukherjee, Sohini; Zheng, Hui; Derebe, Mehabaw G et al. (2014) Antibacterial membrane attack by a pore-forming intestinal C-type lectin. Nature 505:103-7
Mirpuri, Julie; Raetz, Megan; Sturge, Carolyn R et al. (2014) Proteobacteria-specific IgA regulates maturation of the intestinal microbiota. Gut Microbes 5:28-39
Derebe, Mehabaw G; Zlatkov, Clare M; Gattu, Sureka et al. (2014) Serum amyloid A is a retinol binding protein that transports retinol during bacterial infection. Elife 3:e03206
Yu, Xiaofei; Wang, Yuhao; Deng, Mi et al. (2014) The basic leucine zipper transcription factor NFIL3 directs the development of a common innate lymphoid cell precursor. Elife 3:
Raetz, Megan; Hwang, Sun-Hee; Wilhelm, Cara L et al. (2013) Parasite-induced TH1 cells and intestinal dysbiosis cooperate in IFN-γ-dependent elimination of Paneth cells. Nat Immunol 14:136-42

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