The Host-Microbe Core (HMC) is comprised of two components ? the Gnotobiotic component (GBC) and Enteric Microbiology component (EMC). They synergize in the isolation, cultivation and analysis of microbiota by biochemical and sequencing methods with the concomitant analysis of microbes and their communities in vivo using our state-of-the-art gnotobiotic facility. Recent advances in the analysis of the commensal microbiota and an increasing appreciation for the role of the microbiota in the vital functions of the mammalian host have put the studies of host-microbe interactions at the forefront of many areas of the life sciences. This is especially true for studies of the normal physiology of the gut and pathophysiology of disease states such as IBD, which has been linked to disruptions in the host-commensal mutualism. The ability to analyze the composition and structure of the microbiota, as well as its functional properties and ex vivo culturing conditions, is a base requirement for building a successful research center devoted to studying digestive diseases. Moreover, to be in the vanguard of these increasingly inter-disciplinary research fields, DDRCC scientists need access to a reliable mechanism for testing their ideas in in vivo experiments in animals colonized with defined microbiota ? gnotobiotic mice. They are also in need of germ-free (GF) animals to use as controls for studies of the role of microbes in disease development. As a result, the HMC is committed to: (1) Providing DDRCC researchers with services that reflect their needs, are available on campus, and are competitively priced compared to commercial services; and (2) Further development of the HMC to meet both current and anticipated demands. The HMC not only provides valuable expertise to DDRCC users for experiment planning, troubleshooting and discussion of the results but is also integrated with the other DDRCC cores to augment these capabilities. The HMC together with the Integrated Translational Research (ITR) Core are essential for providing cells, tissues, and patient samples to investigators for establishing experimental models. Likewise, the Enteric Microbiology component of the HMC provides high-quality, customized service for cultivation- dependent and -independent analyses of complex gut microbiomes, and in conjunction with the Computational Analysis and Modeling Resource (CAMR) component of the Administrative Core provides assistance and instruction in the analysis of large datasets. Thus, the HM Core has had tremendous impact in enabling DDRCC members to advance knowledge in the DDRCC's thematic areas that focus on the study of IBD, host- microbe interactions, mucosal immunology and inflammation. Of the 306 DDRCC-acknowledged publications over the past funding cycles, 59 (~20%) cited the HMC as the primary core that they used. Further underscoring the integration of DDRCC Cores, the HMC was also listed as a secondary core for an additional 24 pubs, totaling 83 or 28% of the total publications that helped by the DDRCC over the past funding period.

National Institute of Health (NIH)
National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK)
Center Core Grants (P30)
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Special Emphasis Panel (ZDK1)
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University of Chicago
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Lu, Lei; Claud, Erika C (2018) Intrauterine Inflammation, Epigenetics, and Microbiome Influences on Preterm Infant Health. Curr Pathobiol Rep 6:15-21
Lu, Jing; Synowiec, Sylvia; Lu, Lei et al. (2018) Microbiota influence the development of the brain and behaviors in C57BL/6J mice. PLoS One 13:e0201829
Shiloh, Ruth; Gilad, Yuval; Ber, Yaara et al. (2018) Non-canonical activation of DAPK2 by AMPK constitutes a new pathway linking metabolic stress to autophagy. Nat Commun 9:1759
Wang, Haitao; Cheng, Minying; Dsouza, Melissa et al. (2018) Soil Bacterial Diversity Is Associated with Human Population Density in Urban Greenspaces. Environ Sci Technol 52:5115-5124
Khambu, Bilon; Huda, Nazmul; Chen, Xiaoyun et al. (2018) HMGB1 promotes ductular reaction and tumorigenesis in autophagy-deficient livers. J Clin Invest 128:2419-2435
Cason, Cori A; Dolan, Kyle T; Sharma, Gaurav et al. (2018) Plasma microbiome-modulated indole- and phenyl-derived metabolites associate with advanced atherosclerosis and postoperative outcomes. J Vasc Surg 68:1552-1562.e7
Christensen, B; Micic, D; Gibson, P R et al. (2018) Vedolizumab in patients with concurrent primary sclerosing cholangitis and inflammatory bowel disease does not improve liver biochemistry but is safe and effective for the bowel disease. Aliment Pharmacol Ther 47:753-762
Peñalver Bernabé, Beatriz; Cralle, Lauren; Gilbert, Jack A (2018) Systems biology of the human microbiome. Curr Opin Biotechnol 51:146-153
Amin, Ruhul; Asplin, John; Jung, Daniel et al. (2018) Reduced active transcellular intestinal oxalate secretion contributes to the pathogenesis of obesity-associated hyperoxaluria. Kidney Int 93:1098-1107
Lu, Jing; Lu, Lei; Yu, Yueyue et al. (2018) Effects of Intestinal Microbiota on Brain Development in Humanized Gnotobiotic Mice. Sci Rep 8:5443

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