Dietary broccoli impacts microbial community structure and attenuates chemically induced colitis in mice in an Ah receptor dependent manner

Aggarwal, 2005, Molecular targets and anticancer potential of indole-3-carbinol and its derivatives, Cell Cycle, 4, 1201, 10.4161/cc.4.9.1993 Anders, 2010, Differential expression analysis for sequence count data, Genome Biology, 11, R106, 10.1186/gb-2010-11-10-r106 Angrish, 2012, Dietary fat is a lipid source in 2,3,7,8-tetrachlorodibenzo-rho-dioxin (TCDD)-elicited hepatic steatosis in C57BL/6 mice, Toxicological Sciences, 128, 377, 10.1093/toxsci/kfs155 Baba, 2005, Intrinsic function of the aryl hydrocarbon (dioxin) receptor as a key factor in female reproduction, Molecular and Cellular Biology, 25, 10040, 10.1128/MCB.25.22.10040-10051.2005 Bjeldanes, 1991, Aromatic hydrocarbon responsiveness-receptor agonists generated from indole-3-carbinol in vitro and in vivo: Comparisons with 2,3,7,8-tetrachlorodibenzo-p-dioxin, Proceedings of the National Academy of Sciences of the United States, 88, 9543, 10.1073/pnas.88.21.9543 Bradfield, 1987, Structure-activity relationships of dietary indoles: A proposed mechanism of action as modifiers of xenobiotic metabolism, Journal of Toxicology and Environment Health, 21, 311, 10.1080/15287398709531021 Bradlow, 1999, Multifunctional aspects of the action of indole-3-carbinol as an antitumor agent, Annals of the New York Academy of Sciences, 889, 204, 10.1111/j.1749-6632.1999.tb08736.x Chen, 2012, Associating microbiome composition with environmental covariates using generalized UniFrac distances, Bioinformatics, 28, 2106, 10.1093/bioinformatics/bts342 Chen, 2012, Human intestinal lumen and mucosa-associated microbiota in patients with colorectal cancer, PLoS ONE, 7, e39743, 10.1371/journal.pone.0039743 Denison, 1988, Inducible, receptor-dependent protein-DNA interactions at a dioxin-responsive transcriptional enhancer, Proceedings of the National Academy of Sciences of the United States, 85, 2528, 10.1073/pnas.85.8.2528 Dieckgraefe, 2002, Expression of the regenerating gene family in inflammatory bowel disease mucosa: Reg Ialpha upregulation, processing, and antiapoptotic activity, Journal of Investigative Medicine, 50, 421, 10.1136/jim-50-06-02 Edgar, 2011, UCHIME improves sensitivity and speed of chimera detection, Bioinformatics, 27, 2194, 10.1093/bioinformatics/btr381 Etxeberria, 2015, Reshaping faecal gut microbiota composition by the intake of trans-resveratrol and quercetin in high-fat sucrose diet-fed rats, Journal of Nutritional Biochemistry, 26, 651, 10.1016/j.jnutbio.2015.01.002 Farrell, 2002, TFF2/SP-deficient mice show decreased gastric proliferation, increased acid secretion, and increased susceptibility to NSAID injury, The Journal of Clinical Investigation, 109, 193, 10.1172/JCI0212529 Fenwick, 1983, Glucosinolates and their breakdown products in food and food plants, Critical Reviews in Food Science and Nutrition, 18, 123, 10.1080/10408398209527361 Funatake, 2008, 2,3,7,8-Tetrachlorodibenzo-p-dioxin alters the differentiation of alloreactive CD8+ T cells toward a regulatory T cell phenotype by a mechanism that is dependent on aryl hydrocarbon receptor in CD4+ T cells, Journal of Immunotoxicology, 5, 81, 10.1080/15476910802019037 Furumatsu, 2011, A role of the aryl hydrocarbon receptor in attenuation of colitis, Digestive Diseases and Sciences, 56, 2532, 10.1007/s10620-011-1643-9 Hieshima, 2003, CCL28 has dual roles in mucosal immunity as a chemokine with broad-spectrum antimicrobial activity, Journal of Immunology, 170, 1452, 10.4049/jimmunol.170.3.1452 Higdon, 2007, Cruciferous vegetables and human cancer risk: Epidemiologic evidence and mechanistic basis, Pharmacological Research, 55, 224, 10.1016/j.phrs.2007.01.009 Hu, 2001, Allometric scaling of xenobiotic clearance: Uncertainty versus universality, AAPS PharmSci, 3, E29, 10.1208/ps030429 Hubbard, 2015, Adaptation of the human aryl hydrocarbon receptor to sense microbiota-derived indoles, Scientific Reports, 5, 12689, 10.1038/srep12689 Hubbard, 2015, Indole and tryptophan metabolism: Endogenous and dietary routes to Ah receptor activation, Drug Metabolism and Disposition, 43, 1522, 10.1124/dmd.115.064246 Jeuken, 2003, Activation of the Ah receptor by extracts of dietary herbal supplements, vegetables, and fruits, Journal of Agriculture and Food Chemistry, 51, 5478, 10.1021/jf030252u Jiang, 2015, Dysbiosis gut microbiota associated with inflammation and impaired mucosal immune function in intestine of humans with non-alcoholic fatty liver disease, Scientific Reports, 5, 8096, 10.1038/srep08096 Julliard, 2016, Amelioration of clostridium difficile infection in mice by dietary supplementation with indole-3-carbinol, Annals of Surgery Kararli, 1995, Comparison of the gastrointestinal anatomy, physiology, and biochemistry of humans and commonly used laboratory animals, Biopharmaceutics & Drug Disposition, 16, 351, 10.1002/bdd.2510160502 Kaser, 2010, Inflammatory bowel disease, Annual Review of Immunology, 28, 573, 10.1146/annurev-immunol-030409-101225 Kawano, 2010, Activation of the aryl hydrocarbon receptor induces hepatic steatosis via the upregulation of fatty acid transport, Archives of Biochemistry and Biophysics, 504, 221, 10.1016/j.abb.2010.09.001 Kozich, 2013, Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform, Applied and Environment Microbiology, 79, 5112, 10.1128/AEM.01043-13 Kunkel, 2003, Plasma-cell homing, Nature Reviews Immunology, 3, 822, 10.1038/nri1203 Kushad, 1999, Variation of glucosinolates in vegetable crops of Brassica oleracea, Journal of Agriculture and Food Chemistry, 47, 1541, 10.1021/jf980985s Kwon, 1994, In vivo production and enzyme-inducing activity of indolo[3,2-b]carbazole, Journal of Agricultural and Food Chemistry, 42, 2536, 10.1021/jf00047a030 Langille, 2013, Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences, Nature Biotechnology, 31, 814, 10.1038/nbt.2676 Latte, 2011, Health benefits and possible risks of broccoli – An overview, Food and Chemical Toxicology, 49, 3287, 10.1016/j.fct.2011.08.019 Ley, 2005, Obesity alters gut microbial ecology, Proceedings of the National Academy of Sciences of the United States, 102, 11070, 10.1073/pnas.0504978102 Li, 2011, Exogenous stimuli maintain intraepithelial lymphocytes via aryl hydrocarbon receptor activation, Cell, 147, 629, 10.1016/j.cell.2011.09.025 Lippmann, 2014, Glucosinolates from pak choi and broccoli induce enzymes and inhibit inflammation and colon cancer differently, Food & Function, 5, 1073, 10.1039/C3FO60676G Loftus, 2004, Clinical epidemiology of inflammatory bowel disease: Incidence, prevalence, and environmental influences, Gastroenterology, 126, 1504, 10.1053/j.gastro.2004.01.063 McMillan, 2007, The aryl hydrocarbon receptor sans xenobiotics: Endogenous function in genetic model systems, Molecular Pharmacology, 72, 487, 10.1124/mol.107.037259 Murray, 2016, Expression of the aryl hydrocarbon receptor contributes to the establishment of intestinal microbial community structure in mice, Scientific Reports, 6, 33969, 10.1038/srep33969 Nebert, 1970, Genetic differences in the extent of aryl hydrocarbon hydroxylase induction in mouse fetal cell cultures, Journal of Biological Chemistry, 245, 6373, 10.1016/S0021-9258(18)62620-1 N.T.P. (2014). Toxicology Studies of Indole-3-Carbinol in F344/N Rats and B6C3F1/N Mice and Toxicology and Carcinogenesis Studies Of Indole-3-Carbinol in Harlan Sprague Dawley Rats and B6C3F1/N Mice (Gavage Studies), National Institute of Health. Paturi, 2012, Influence of dietary blueberry and broccoli on cecal microbiota activity and colon morphology in mdr1a(−/−) mice, a model of inflammatory bowel diseases, Nutrition, 28, 324, 10.1016/j.nut.2011.07.018 Peterson, 2012, The expression of REG 1A and REG 1B is increased during acute amebic colitis, Parasitology International, 60, 296, 10.1016/j.parint.2011.04.005 Poland, 1975, Genetic expression of aryl hydrocarbon hydroxylase by 2,3,7,8-tetrachlorodibenzo-p-dioxin: Evidence for a receptor mutation in genetically non-responsive mice, Molecular Pharmaceutics, 11, 389 Poland, 1982, 2,3,7,8-Tetrachlorodibenzo-p-dioxin and related halogenated aromatic hydrocarbons: Examination of the mechanism of toxicity, Annual Review of Pharmacology and Toxicology, 22, 517, 10.1146/annurev.pa.22.040182.002505 Qiu, 2012, The aryl hydrocarbon receptor regulates gut immunity through modulation of innate lymphoid cells, Immunity, 36, 92, 10.1016/j.immuni.2011.11.011 Quintana, 2008, Control of T(reg) and T(H)17 cell differentiation by the aryl hydrocarbon receptor, Nature, 453, 65, 10.1038/nature06880 Rouse, 2013, Indoles mitigate the development of experimental autoimmune encephalomyelitis by induction of reciprocal differentiation of regulatory T cells and Th17 cells, British Journal of Pharmacology, 169, 1305, 10.1111/bph.12205 Rowlands, 1997, Aryl hydrocarbon receptor-mediated signal transduction, Critical Reviews in Toxicology, 27, 109, 10.3109/10408449709021615 Salunkhe, 1998 Schaubeck, 2015, Dysbiotic gut microbiota causes transmissible Crohn's disease-like ileitis independent of failure in antimicrobial defence, Gut, 65, 225, 10.1136/gutjnl-2015-309333 Schiering, 2017, Feedback control of AHR signalling regulates intestinal immunity, Nature, 542, 242, 10.1038/nature21080 Sellon, 1998, Resident enteric bacteria are necessary for development of spontaneous colitis and immune system activation in interleukin-10-deficient mice, Infection and Immunity, 66, 5224, 10.1128/IAI.66.11.5224-5231.1998 Stoewsand, 1995, Bioactive organosulfur phytochemicals in Brassica oleracea vegetables–a review, Food and Chemical Toxicology, 33, 537, 10.1016/0278-6915(95)00017-V Stoner, 2002, Development of a multi-organ rat model for evaluating chemopreventive agents: Efficacy of indole-3-carbinol, Carcinogenesis, 23, 265, 10.1093/carcin/23.2.265 Takamura, 2010, Activation of the aryl hydrocarbon receptor pathway may ameliorate dextran sodium sulfate-induced colitis in mice, Immunology and Cell Biology, 88, 685, 10.1038/icb.2010.35 Trapnell, 2009, TopHat: Discovering splice junctions with RNA-Seq, Bioinformatics, 25, 1105, 10.1093/bioinformatics/btp120 Turnbaugh, 2006, An obesity-associated gut microbiome with increased capacity for energy harvest, Nature, 444, 1027, 10.1038/nature05414 Zhang, 1992, A major inducer of anticarcinogenic protective enzymes from broccoli: Isolation and elucidation of structure, Proceedings of the National Academy of Sciences of the United States, 89, 2399, 10.1073/pnas.89.6.2399 Zhu, 2014, Analysis of the intestinal lumen microbiota in an animal model of colorectal cancer, PLoS ONE, 9, e90849, 10.1371/journal.pone.0090849