The Host-Microbe (HM) Core 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 Research Animal Facility (GRAF). 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, the University of Chicago (UChicago) Digestive Diseases Research Core Center (DDRCC) for Interdisciplinary Study of Inflammatory Intestinal Disorders (C-IID) 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 HM Core is committed to: (1) providing C-IID 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 HM Core to meet both current and anticipated demands. The HM Core not only provides valuable expertise to C-IID users for experiment planning, troubleshooting and discussion of the results but is also integrated with the other C-IID cores to augment these capabilities. The HM Core, together with the Integrative Clinical and Biospecimen (ICB) Core, are essential for providing cells, tissues, and patient samples to investigators for establishing experimental models. Likewise, the EMC of the HM Core provides high-quality, customized services for cultivation-dependent and -independent analyses of complex gut microbiomes as well as providing both assistance and instruction in the analysis of large datasets. Thus, the HM Core has had tremendous impact in enabling C-IID members to advance knowledge in the C-IID thematic areas that focus on the study of IBD, host- microbe interactions, mucosal immunology, and inflammation. Of the 322 C-IID acknowledged publications over the past funding cycles, 92 (28.5%) cited the HM Core as the primary core that they used. This represents a 4% increase over the previous funding cycle. Underscoring the integration of C-IID Cores, the HM Core was also listed as a secondary core for an additional 107 publications, totaling 199 or 62% of the total publications that were supported by the C-IID over the past funding period, a 7% increase over the previous funding cycle.

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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Wang, Yunwei; Lin, Fanfei; Zhu, Xiaorong et al. (2018) Distinct roles of intracellular heat shock protein 70 in maintaining gastrointestinal homeostasis. Am J Physiol Gastrointest Liver Physiol 314:G164-G178
Walker, Amy V; Gelb, Lev D; Barry, Grant E et al. (2018) Femtosecond laser desorption ionization mass spectrometry imaging and multivariate analysis of lipids in pancreatic tissue. Biointerphases 13:03B416
Banovich, Nicholas E; Li, Yang I; Raj, Anil et al. (2018) Impact of regulatory variation across human iPSCs and differentiated cells. Genome Res 28:122-131
Wang, Jingzhou; Bhatia, Arvin; Krugliak Cleveland, Noa et al. (2018) Rapid Onset of Inflammatory Bowel Disease after Receiving Secukinumab Infusion. ACG Case Rep J 5:e56
Horton, Brendan L; Gajewski, Thomas F (2018) Back from the dead: TIL apoptosis in cancer immune evasion. Br J Cancer 118:309-311
Miyoshi, Jun; Leone, Vanessa; Nobutani, Kentaro et al. (2018) Minimizing confounders and increasing data quality in murine models for studies of the gut microbiome. PeerJ 6:e5166
Berni Canani, Roberto; De Filippis, Francesca; Nocerino, Rita et al. (2018) Gut microbiota composition and butyrate production in children affected by non-IgE-mediated cow's milk allergy. Sci Rep 8:12500
Kroeger, Marie E; Delmont, Tom O; Eren, A M et al. (2018) New Biological Insights Into How Deforestation in Amazonia Affects Soil Microbial Communities Using Metagenomics and Metagenome-Assembled Genomes. Front Microbiol 9:1635
Pierre, J F; Hinterleitner, R; Bouziat, R et al. (2018) Data on changes to mucosal inflammation and the intestinal microbiota following dietary micronutrients in genetically susceptible hosts. Data Brief 20:387-393
Krugliak Cleveland, Noa; Rubin, David T; Hart, John et al. (2018) Patients With Ulcerative Colitis and Primary Sclerosing Cholangitis Frequently Have Subclinical Inflammation in the Proximal Colon. Clin Gastroenterol Hepatol 16:68-74

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