No retraction, correction or concern found when last checked on Oct 19, 2026.
Bridging intestinal immunity and gut microbiota by metabolites
Gang Wang, Shuo Huang, Yuming Wang and 6 more (opens in a new tab)
Cellular and Molecular Life Sciences · 2019 · Review · CC BY
doi:10.1007/s00018-019-03190-6 (opens in a new tab)
Abstract
The gastrointestinal tract is the site of nutrient digestion and absorption and is also colonized by diverse, highly mutualistic microbes. The intestinal microbiota has diverse effects on the development and function of the gut-specific immune system, and provides some protection from infectious pathogens. However, interactions between intestinal immunity and microorganisms are very complex, and recent studies have revealed that this intimate crosstalk may depend on the production and sensing abilities of multiple bioactive small molecule metabolites originating from direct produced by the gut microbiota or by the metabolism of dietary components. Here, we review the interplay between the host immune system and the microbiota, how commensal bacteria regulate the production of metabolites, and how these microbiota-derived products influence the function of several major innate and adaptive immune cells involved in modulating host immune homeostasis.
References 234
- 1.
Hooper LV. Molecular analysis of commensal host-microbial relationships in the intestine. Science. 2001;291:881-884.
Not in our library10.1126/science.291.5505.881 (opens in a new tab)
- 2.
Stockinger B, Di Meglio P, Gialitakis M, Duarte JH. The aryl hydrocarbon receptor: multitasking in the immune system. Annu Rev Immunol. 2014;32:403-432.
Not in our library10.1146/annurev-immunol-032713-120245 (opens in a new tab)
- 3.
Round JL, Palm NW. Causal effects of the microbiota on immune-mediated diseases. Sci Immunol. 2018;3:o1603.
Not in our library10.1126/sciimmunol.aao1603 (opens in a new tab)
- 4.
Rooks MG, Garrett WS. Gut microbiota, metabolites and host immunity. Nat Rev Immunol. 2016;16:341-352.
Not in our library10.1038/nri.2016.42 (opens in a new tab)
- 5.
Belkaid Y, Hand TW. Role of the microbiota in immunity and inflammation. Cell. 2014;157:121-141.
Not in our library10.1016/j.cell.2014.03.011 (opens in a new tab)
- 6.
Manichanh C, Borruel N, Casellas F, Guarner F. The gut microbiota in IBD. Nat Rev Gastro Hepat. 2012;9:599-608.
Not in our library10.1038/nrgastro.2012.152 (opens in a new tab)
- 7.
Nicholson JK, Holmes E, Kinross J, Burcelin R, Gibson G, Jia W, Pettersson S. Host-gut microbiota metabolic interactions. Science. 2012;336:1262-1267.
Not in our library10.1126/science.1223813 (opens in a new tab)
- 8.
Tremaroli V, Bäckhed F. Functional interactions between the gut microbiota and host metabolism. Nature. 2012;489:242-249.
Not in our library10.1038/nature11552 (opens in a new tab)
- 9.
Zheng X, Xie G, Zhao A, Zhao L, Yao C, Chiu NHL, Zhou Z, Bao Y, Jia W, Nicholson JK, Jia W. The footprints of gut microbial-mammalian co-metabolism. J Proteome Res. 2011;10:5512-5522.
Not in our library10.1021/pr2007945 (opens in a new tab)
- 10.
Hill DA, Artis D. Intestinal bacteria and the regulation of immune cell homeostasis. Annu Rev Immunol. 2010;28:623-667.
Not in our library10.1146/annurev-immunol-030409-101330 (opens in a new tab)
- 11.
Hooper LV, Dan RL, Macpherson AJ. Interactions between the microbiota and the immune system. Science. 2012;336:1268-1273.
Not in our library10.1126/science.1223490 (opens in a new tab)
- 12.
Chinen T, Rudensky AY. The effects of commensal microbiota on immune cell subsets and inflammatory responses. Immunol Rev. 2012;245:45-55.
Not in our library10.1111/j.1600-065x.2011.01083.x (opens in a new tab)
- 13.
Rothhammer V, Mascanfroni ID, Bunse L, Takenaka MC, Kenison JE, Mayo L, Chao C, Patel B, Yan R, Blain M, Alvarez JI, Kébir H, Anandasabapathy N, Izquierdo G, Jung S, Obholzer N, Pochet N, Clish CB, Prinz M, Prat A, Antel J, Quintana FJ. Type I interferons and microbial metabolites of tryptophan modulate astrocyte activity and central nervous system inflammation via the aryl hydrocarbon receptor. Nat Med. 2016;22:586-597.
Not in our library10.1038/nm.4106 (opens in a new tab)
- 14.
Wynn TA, Vannella KM. Macrophages in tissue repair, regeneration, and fibrosis. Immunity. 2016;44:450-462.
Not in our library10.1016/j.immuni.2016.02.015 (opens in a new tab)
- 15.
Belkaid Y, Bouladoux N, Hand TW. Effector and memory T cell responses to commensal bacteria. Trends Immunol. 2013;34:299-306.
Not in our library10.1016/j.it.2013.03.003 (opens in a new tab)
- 16.
Macpherson AJ, Uhr T. Induction of protective IgA by intestinal dendritic cells carrying commensal bacteria. Science. 2004;303:1662-1665.
Not in our library10.1126/science.1091334 (opens in a new tab)
- 17.
Postler TS, Ghosh S. Understanding the holobiont: how microbial metabolites affect human health and shape the immune system. Cell Metab. 2017;26:110-130.
Not in our library10.1016/j.cmet.2017.05.008 (opens in a new tab)
- 18.
Bauer H, Horowitz RE, Levenson SM, Popper H. The response of the lymphatic tissue to the microbial flora. Studies on germfree mice. Am J Pathol. 1963;42:471-483.
Not in our library
- 19.
Falk PG, Hooper LV, Midtvedt T, Gordon JI. Creating and maintaining the gastrointestinal ecosystem: what we know and need to know from gnotobiology. Microbiol Mol Biol R. 1998;62:1157-1170.
Not in our library10.1128/mmbr.62.4.1157-1170.1998 (opens in a new tab)
- 20.
Tan TG, Sefik E, Geva-Zatorsky N, Kua L, Naskar D, Teng F, Pasman L, Ortiz-Lopez A, Jupp R, Wu HJ, Kasper DL, Benoist C, Mathis D. Identifying species of symbiont bacteria from the human gut that, alone, can induce intestinal Th17 cells in mice. Proc Natl Acad Sci. 2016;113:E8141-E8150.
Not in our library10.1073/pnas.1617460113 (opens in a new tab)
- 21.
Atarashi K, Tanoue T, Shima T, Imaoka A, Kuwahara T, Momose Y, Cheng G, Yamasaki S, Saito T, Ohba Y, Taniguchi T, Takeda K, Hori S, Ivanov II, Umesaki Y, Itoh K, Honda K. Induction of colonic regulatory T cells by indigenous clostridium species. Science. 2011;331:337-341.
Not in our library10.1126/science.1198469 (opens in a new tab)
- 22.
Vázquez-Castellanos JF, Serrano-Villar S, Jiménez-Hernández N, Soto Del Rio MD, Gayo S, Rojo D, Ferrer M, Barbas C, Moreno S, Estrada V, Rattei T, Latorre A, Moya A, Gosalbes MJ. Interplay between gut microbiota metabolism and inflammation in HIV infection. ISME J. 2018;12:1964-1976.
Not in our library10.1038/s41396-018-0151-8 (opens in a new tab)
- 23.
Atarashi K, Tanoue T, Oshima K, Suda W, Nagano Y, Nishikawa H, Fukuda S, Saito T, Narushima S, Hase K, Kim S, Fritz JV, Wilmes P, Ueha S, Matsushima K, Ohno H, Olle B, Sakaguchi S, Taniguchi T, Morita H, Hattori M, Honda K. Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota. Nature. 2013;500:232-236.
Not in our library10.1038/nature12331 (opens in a new tab)
- 24.
Geva-Zatorsky N, Sefik E, Kua L, Pasman L, Tan TG, Ortiz-Lopez A, Yanortsang TB, Yang L, Jupp R, Mathis D, Benoist C, Kasper DL. Mining the human gut microbiota for immunomodulatory organisms. Cell. 2017;168:928-943.
Not in our library10.1016/j.cell.2017.01.022 (opens in a new tab)
- 25.
Palm NW, de Zoete MR, Cullen TW, Barry NA, Stefanowski J, Hao L, Degnan PH, Hu J, Peter I, Zhang W, Ruggiero E, Cho JH, Goodman AL, Flavell RA. Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. Cell. 2014;158:1000-1010.
Not in our library10.1016/j.cell.2014.08.006 (opens in a new tab)
- 26.
Fransen F, Zagato E, Mazzini E, Fosso B, Manzari C, El Aidy S, Chiavelli A, D’Erchia AM, Sethi MK, Pabst O, Marzano M, Moretti S, Romani L, Penna G, Pesole G, Rescigno M. BALB/c and C57BL/6 mice differ in polyreactive IgA abundance, which impacts the generation of antigen-specific IgA and microbiota diversity. Immunity. 2015;43:527-540.
Not in our library10.1016/j.immuni.2015.08.011 (opens in a new tab)
- 27.
Kubinak JL, Round JL. Do antibodies select a healthy microbiota? Nat Rev Immunol. 2016;16:767-774.
Not in our library10.1038/nri.2016.114 (opens in a new tab)
- 28.
Smith K, McCoy KD, Macpherson AJ. Use of axenic animals in studying the adaptation of mammals to their commensal intestinal microbiota. Semin Immunol. 2007;19:59-69.
Not in our library10.1016/j.smim.2006.10.002 (opens in a new tab)
- 29.
Mazmanian SK, Liu CH, Tzianabos AO, Kasper DL. An immunomodulatory molecule of symbiotic bacteria directs maturation of the host immune system. Cell. 2005;122:107-118.
Not in our library10.1016/j.cell.2005.05.007 (opens in a new tab)
- 30.
Talham GL, Jiang HQ, Bos NA, Cebra JJ. Segmented filamentous bacteria are potent stimuli of a physiologically normal state of the murine gut mucosal immune system. Infect Immun. 1999;67:1992-2000.
Not in our library10.1128/iai.67.4.1992-2000.1999 (opens in a new tab)
- 31.
Jakobsson HE, Rodriguez-Pineiro AM, Schutte A, Ermund A, Boysen P, Bemark M, Sommer F, Backhed F, Hansson GC, Johansson ME. The composition of the gut microbiota shapes the colon mucus barrier. EMBO Rep. 2015;16:164-177.
Not in our library10.15252/embr.201439263 (opens in a new tab)
- 32.
Johansson MEV, Phillipson M, Petersson J, Velcich A, Holm L, Hansson GC. The inner of the two Muc2 mucin-dependent mucus layers in colon is devoid of bacteria. Proc Natl Acad Sci. 2008;105:15064-15069.
Not in our library10.1073/pnas.0803124105 (opens in a new tab)
- 33.
Rossi O(2013)Interactions of commensal bacteria with the host immune system(Vol
Not in our library
- 34.
Buffie CG, Jarchum I, Equinda M, Lipuma L, Gobourne A, Viale A, Ubeda C, Xavier J, Pamer EG. Profound alterations of intestinal microbiota following a single dose of clindamycin results in sustained susceptibility to clostridium difficile-induced colitis. Infect Immun. 2011;80:62-73.
Not in our library10.1128/iai.05496-11 (opens in a new tab)
- 35.
Ubeda C, Taur Y, Jenq RR, Equinda MJ, Son T, Samstein M, Viale A, Socci ND, van den Brink MRM, Kamboj M, Pamer EG. Vancomycin-resistant Enterococcus domination of intestinal microbiota is enabled by antibiotic treatment in mice and precedes bloodstream invasion in humans. J Clin Invest. 2010;120:4332-4341.
Not in our library10.1172/jci43918 (opens in a new tab)
- 36.
Bouskra D, Brézillon C, Bérard M, Werts C, Varona R, Boneca IG, Eberl G. Lymphoid tissue genesis induced by commensals through NOD1 regulates intestinal homeostasis. Nature. 2008;456:507-510.
Not in our library10.1038/nature07450 (opens in a new tab)
- 37.
Brandl K, Plitas G, Mihu CN, Ubeda C, Jia T, Fleisher M, Schnabl B, DeMatteo RP, Pamer EG. Vancomycin-resistant enterococci exploit antibiotic-induced innate immune deficits. Nature. 2008;455:804-807.
Not in our library10.1038/nature07250 (opens in a new tab)
- 38.
Kamada N, Núñez G. Regulation of the immune system by the resident intestinal bacteria. Gastroenterology. 2014;146:1477-1488.
Not in our library10.1053/j.gastro.2014.01.060 (opens in a new tab)
- 39.
Cording S, Fleissner D, Heimesaat MM, Bereswill S, Loddenkemper C, Uematsu S, Akira S, Hamann A, Huehn J. Commensal microbiota drive proliferation of conventional and Foxp3 + Regulatory CD4 + T cells in mesenteric lymph nodes and Peyer’s patches. Eur J Microbiol Immunol. 2013;3:1-10.
Not in our library10.1556/eujmi.3.2013.1.1 (opens in a new tab)
- 40.
Ivanov II, Atarashi K, Manel N, Brodie EL, Shima T, Karaoz U, Wei D, Goldfarb KC, Santee CA, Lynch SV, Tanoue T, Imaoka A, Itoh K, Takeda K, Umesaki Y, Honda K, Littman DR. Induction of intestinal Th17 cells by segmented filamentous bacteria. Cell. 2009;139:485-498.
Not in our library10.1016/j.cell.2009.09.033 (opens in a new tab)
- 41.
Geng S, Cheng S, Li Y, Wen Z, Ma X, Jiang X, Wang Y, Han X. Faecal microbiota transplantation reduces susceptibility to epithelial injury and modulates tryptophan metabolism of the microbial community in a piglet model. J Crohn’s Colitis. 2018;12:1359-1374.
Not in our library10.1093/ecco-jcc/jjy103 (opens in a new tab)
- 42.
Fischer M, Sipe BW, Rogers NA, Cook GK, Robb BW, Vuppalanchi R, Rex DK. Faecal microbiota transplantation plus selected use of vancomycin for severe-complicated Clostridium difficile infection: description of a protocol with high success rate. Aliment Pharm Ther. 2015;42:470-476.
Not in our library10.1111/apt.13290 (opens in a new tab)
- 43.
Shen Z, Zhu C, Quan Y, Yang Z, Wu S, Luo W, Tan B, Wang X. Relationship between intestinal microbiota and ulcerative colitis: mechanisms and clinical application of probiotics and fecal microbiota transplantation. World J Gastroentero. 2018;24:5-14.
Not in our library10.3748/wjg.v24.i1.5 (opens in a new tab)
- 44.
Ekmekciu I, von Klitzing E, Fiebiger U, Escher U, Neumann C, Bacher P, Scheffold A, Kühl AA, Bereswill S, Heimesaat MM. Immune responses to broad-spectrum antibiotic treatment and fecal microbiota transplantation in mice. Front Immunol. 2017;8:397.
Not in our library10.3389/fimmu.2017.00397 (opens in a new tab)
- 45.
Ekmekciu I, von Klitzing E, Neumann C, Bacher P, Scheffold A, Bereswill S, Heimesaat MM. Fecal microbiota transplantation, commensal Escherichia coli and Lactobacillus johnsonii strains differentially restore intestinal and systemic adaptive immune cell populations following broad-spectrum antibiotic treatment. Front Microbiol. 2017;8:2430.
Not in our library10.3389/fmicb.2017.02430 (opens in a new tab)
- 46.
Cummings JH, Macfarlane GT. Collaborative JPEN-clinical nutrition scientific publications role of intestinal bacteria in nutrient metabolism. Jpen-Parenter Enter. 2016;21:357-365.
Not in our library10.1177/0148607197021006357 (opens in a new tab)
- 47.
Matsumoto M, Kibe R, Ooga T, Aiba Y, Kurihara S, Sawaki E, Koga Y, Benno Y. Impact of intestinal microbiota on intestinal luminal metabolome. Sci Rep-Uk. 2012;2:233.
Not in our library10.1038/srep00233 (opens in a new tab)
- 48.
Wikoff WR, Anfora AT, Liu J, Schultz PG, Lesley SA, Peters EC, Siuzdak G. Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites. Proc Natl Acad Sci. 2009;106:3698-3703.
Not in our library10.1073/pnas.0812874106 (opens in a new tab)
- 49.
Miller TL, Wolin MJ(1996)Pathways of acetate, propionate, and butyrate formation by the human fecal microbial flora 62:1589
Not in our library10.1128/aem.62.5.1589-1592.1996 (opens in a new tab)
- 50.
Louis P, Hold GL, Flint HJ. The gut microbiota, bacterial metabolites and colorectal cancer. Nature Rev Microbiol. 2014;12:661-672.
Not in our library10.1038/nrmicro3344 (opens in a new tab)
- 51.
Louis P, Duncan SH, Mccrae SI, Millar J, Jackson MS, Flint HJ. Restricted distribution of the butyrate kinase pathway among butyrate-producing bacteria from the human colon. 2004;186:2099.
Not in our library10.1128/jb.186.7.2099-2106.2004 (opens in a new tab)
- 52.
Reichardt N, Duncan SH, Young P, Belenguer A, Mcwilliam LC, Scott KP, Flint HJ, Louis P. Phylogenetic distribution of three pathways for propionate production within the human gut microbiota. 2014;8:1323-1335.
Not in our library10.1038/ismej.2014.14 (opens in a new tab)
- 53.
Duncan SH, Barcenilla A, Stewart CS, Pryde SE, Flint HJ. Acetate utilization and butyryl coenzyme A (CoA):acetate-CoA transferase in butyrate-producing bacteria from the human large intestine. Appl Environ Microb. 2002;68:5186-5190.
Not in our library10.1128/aem.68.10.5186-5190.2002 (opens in a new tab)
- 54.
Barcenilla A, Pryde SE, Martin JC, Duncan SH, Stewart CS, Henderson C, Flint HJ. Phylogenetic relationships of butyrate-producing bacteria from the human gut. Appl Environ Microb. 2000;66:1654-1661.
Not in our library10.1128/aem.66.4.1654-1661.2000 (opens in a new tab)
- 55.
Walker AW, Ince J, Duncan SH, Webster LM, Holtrop G, Ze X, Brown DS, Stares MD, Scott P, Bergerat A. Dominant and diet-responsive groups of bacteria within the human colonic microbiota. ISME J. 2011;5:220-230.
Not in our library10.1038/ismej.2010.118 (opens in a new tab)
- 56.
Louis P, Young P, Holtrop G, Flint HJ. Diversity of human colonic butyrate-producing bacteria revealed by analysis of the butyryl-CoA:acetate CoA-transferase gene. Environ Microbiol. 2010;12:304-314.
Not in our library10.1111/j.1462-2920.2009.02066.x (opens in a new tab)
- 57.
Christiansen N, Ahring BK. Introduction of a de novo bioremediation activity into anaerobic granular sludge using the dechlorinating bacterium DCB-2. Anton Leeuw Int J G. 1996;69:61-66.
Not in our library10.1007/bf00641612 (opens in a new tab)
- 58.
Elsden SR, Hilton MG, Waller JM. The end products of the metabolism of aromatic amino acids by clostridia. Arch Microbiol. 1976;107:283-288.
Not in our library10.1007/bf00425340 (opens in a new tab)
- 59.
DeMoss RD, Moser K. Tryptophanase in diverse bacterial species. J Bacteriol. 1969;98:167-171.
Not in our library10.1128/jb.98.1.167-171.1969 (opens in a new tab)
- 60.
Pickett MJ. Methods for identification of flavobacteria. J Clin Microbiol. 1989;27:2309-2315.
Not in our library10.1128/jcm.27.10.2309-2315.1989 (opens in a new tab)
- 61.
Smith EA, Macfarlane GT. Enumeration of human colonic bacteria producing phenolic and indolic compounds: effects of pH, carbohydrate availability and retention time on dissimilatory aromatic amino acid metabolism. J Appl Microbiol. 2010;81:288-302.
Not in our library10.1111/j.1365-2672.1996.tb04331.x (opens in a new tab)
- 62.
Dodd D, Spitzer MH, Van Treuren W, Merrill BD, Hryckowian AJ, Higginbottom SK, Le A, Cowan TM, Nolan GP, Fischbach MA, Sonnenburg JL. A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites. Nature. 2017;551:648-652.
Not in our library10.1038/nature24661 (opens in a new tab)
- 63.
Wlodarska M, Luo C, Kolde R, Hennezel ED, Annand JW, Heim CE, Krastel P, Schmitt EK, Omar AS, Creasey EA. Indoleacrylic acid produced by commensal peptostreptococcus species suppresses inflammation. Cell Host Microbe. 2017;22:25-37.
Not in our library10.1016/j.chom.2017.06.007 (opens in a new tab)
- 64.
Honoré AH, Aunsbjerg SD, Ebrahimi P, Thorsen M, Benfeldt C, Knøchel S, Skov T. Metabolic footprinting for investigation of antifungal properties of Lactobacillus paracasei. Anal Bioanal Chem. 2016;408:83-96.
Not in our library10.1007/s00216-015-9103-6 (opens in a new tab)
- 65.
Zelante T, Iannitti RG, Cunha C, De Luca A, Giovannini G, Pieraccini G, Zecchi R, Angelo CD, Massibenedetti C, Fallarino F. Tryptophan catabolites from microbiota engage aryl hydrocarbon receptor and balance mucosal reactivity via interleukin-22. Immunity. 2013;39:372-385.
Not in our library10.1016/j.immuni.2013.08.003 (opens in a new tab)
- 66.
Aragozzini F, Ferrari A, Pacini N, Gualandris R. Indole-3-lactic acid as a tryptophan metabolite produced by Bifidobacterium spp. Appl Environ Microb. 1979;38:544-546.
Not in our library10.1128/aem.38.3.544-546.1979 (opens in a new tab)
- 67.
Whitehead TR, Price NP, Drake HL, Cotta MA. Catabolic pathway for the production of skatole and indoleacetic acid by the acetogen Clostridium drakei, Clostridium scatologenes, and swine manure. Appl Environ Microb. 2008;74:1950-1953.
Not in our library10.1128/aem.02458-07 (opens in a new tab)
- 68.
Honeyfield DC, Carlson JR. Effect of indoleacetic acid and related indoles on Lactobacillus sp. strain 11201 growth, indoleacetic acid catabolism, and 3-methylindole formation. Appl Environ Microb. 1990;56:1373-1377.
Not in our library10.1128/aem.56.5.1373-1377.1990 (opens in a new tab)
- 69.
Williams BB, Van Benschoten AH, Cimermancic P, Donia MS, Zimmermann M, Taketani M, Ishihara A, Kashyap PC, Fraser JS, Fischbach MA. Discovery and characterization of gut microbiota decarboxylases that can produce the neurotransmitter tryptamine. Cell Host Microbe. 2014;16:495-503.
Not in our library10.1016/j.chom.2014.09.001 (opens in a new tab)
- 70.
Ridlon JM, Hylemon PB. Identification and characterization of two bile acid coenzyme A transferases from Clostridium scindens, a bile acid 7α-dehydroxylating intestinal bacterium. J Lipid Res. 2012;53:66-76.
Not in our library10.1194/jlr.m020313 (opens in a new tab)
- 71.
Lee J, Arai H, Nakamura Y, Fukiya S, Wada M, Yokota A. Contribution of the 7β-hydroxysteroid dehydrogenase from Ruminococcus gnavus N53 to ursodeoxycholic acid formation in the human colon. J Lipid Res. 2013;54:3062.
Not in our library10.1194/jlr.m039834 (opens in a new tab)
- 72.
Jones BV, Begley M, Hill C, Cormac GMG, Marchesi JR. Functional and comparative metagenomic analysis of bile salt hydrolase activity in the human gut microbiome. Proc Natl Acad Sci USA. 2008;105:13580-13585.
Not in our library10.1073/pnas.0804437105 (opens in a new tab)
- 73.
Lepercq P, Gérard P, Béguet F, Raibaud P, Grill J, Relano P, Cayuela C, Juste C. Epimerization of chenodeoxycholic acid to ursodeoxycholic acid by Clostridium baratii isolated from human feces. FEMS Microbiol Lett. 2004;235:65-72.
Not in our library10.1111/j.1574-6968.2004.tb09568.x (opens in a new tab)
- 74.
Tazuke Y, Matsuda K, Adachi K, Tsukada Y. Purification and properties of a novel sulfatase from Pseudomonas testosteroni that hydrolyzed 3β-hydroxy-5-cholenoic acid 3-sulfate. Biosci Biotechnol Biochem. 1998;62:1739-1744.
Not in our library10.1271/bbb.62.1739 (opens in a new tab)
- 75.
Charles N, Deborah P, Eric V, Christophe M, Thierry G, Eric Q, Pieter D, Valérie S, Philippe G, Jacques D. Control of acute, chronic, and constitutive hyperammonemia by wild-type and genetically engineered Lactobacillus plantarum in rodents. Hepatology. 2010;48:1184-1192.
Not in our library10.1002/hep.22445 (opens in a new tab)
- 76.
Jia W, Xie G, Jia W. Bile acid–microbiota crosstalk in gastrointestinal inflammation and carcinogenesis. Nat Rev Gastro Hepat. 2017;15:111.
Not in our library10.1038/nrgastro.2017.119 (opens in a new tab)
- 77.
Kitahara M, Takamine F, Imamura T, Benno Y. Clostridium hiranonis sp. nov., a human intestinal bacterium with bile acid 7alpha-dehydroxylating activity. Int J Syst Evol Micr. 2001;51:39.
Not in our library10.1099/00207713-51-1-39 (opens in a new tab)
- 78.
Hirano S, Masuda N. Transformation of bile acids by Eubacterium lentum. Appl Environ Microb. 1981;42:912-915.
Not in our library10.1128/aem.42.5.912-915.1981 (opens in a new tab)
- 79.
Hirano S, Masuda N, Oda H, Mukai H. Transformation of bile acids by Clostridium perfringens. Appl Environ Microb. 1981;42:394-399.
Not in our library10.1128/aem.42.3.394-399.1981 (opens in a new tab)
- 80.
Devlin AS, Fischbach MA. A biosynthetic pathway for a prominent class of microbiota-derived bile acids. Nat Chem Biol. 2015;11:685-690.
Not in our library10.1038/nchembio.1864 (opens in a new tab)
- 81.
Pegg AE. Toxicity of polyamines and their metabolic products. Chem Res Toxicol. 2013;26:1782-1800.
Not in our library10.1021/tx400316s (opens in a new tab)
- 82.
Di Martino ML, Campilongo R, Casalino M, Micheli G, Colonna B, Prosseda G. Polyamines: emerging players in bacteria–host interactions. Int J Med Microbiol. 2013;303:484-491.
Not in our library10.1016/j.ijmm.2013.06.008 (opens in a new tab)
- 83.
Kadioglu A, Weiser JN, Paton JC, Andrew PW. The role of Streptococcus pneumoniae virulence factors in host respiratory colonization and disease. Nat Rev Microbiol. 2008;6:288.
Not in our library10.1038/nrmicro1871 (opens in a new tab)
- 84.
Masaki T, Yoshimatsu H. The hypothalamic H1 receptor: a novel therapeutic target for disrupting diurnal feeding rhythm and obesity. Trends Pharmacol Sci. 2006;27:279-284.
Not in our library10.1016/j.tips.2006.03.008 (opens in a new tab)
- 85.
Flint HJ, Duncan SH, Scott KP, Louis P. Links between diet, gut microbiota composition and gut metabolism. Proc Nutr Soc. 2015;74:13-22.
Not in our library10.1017/s0029665114001463 (opens in a new tab)
- 86.
Levy M, Thaiss CA, Elinav E. Metabolites: messengers between the microbiota and the immune system. Gene Dev. 2016;30:1589-1597.
Not in our library10.1101/gad.284091.116 (opens in a new tab)
- 87.
Louis P, Scott KP, Duncan SH, Flint HJ. Understanding the effects of diet on bacterial metabolism in the large intestine. J Appl Microbiol. 2010;102:1197-1208.
Not in our library10.1111/j.1365-2672.2007.03322.x (opens in a new tab)
- 88.
Bobik TA, Havemann GD, Busch RJ, Williams DS, Aldrich HC. The propanediol utilization (pdu) operon of Salmonella enterica serovar typhimurium LT2 includes genes necessary for formation of polyhedral organelles involved in coenzyme B12-dependent 1,2-propanediol degradation. J Bacteriol. 1999;181:5967-5975.
Not in our library10.1128/jb.181.19.5967-5975.1999 (opens in a new tab)
- 89.
Scott KP, Martin JC, Campbell G, Mayer CD, Flint HJ. Whole-genome transcription profiling reveals genes up-regulated by growth on fucose in the human gut bacterium “Roseburia inulinivorans”. J Bacteriol. 2006;188:4340-4349.
Not in our library10.1128/jb.00137-06 (opens in a new tab)
- 90.
- 91.
Lamas B, Richard ML, Leducq V, Pham HP, Michel ML, Da CG, Bridonneau C, Jegou S, Hoffmann TW, Natividad JM. CARD9 impacts colitis by altering gut microbiota metabolism of tryptophan into aryl hydrocarbon receptor ligands. Nat Med. 2016;22:598-605.
Not in our library10.1038/nm.4102 (opens in a new tab)
- 92.
Yokoyama MT, Carlson JR. Microbial metabolites of tryptophan in the intestinal tract with special reference to skatole. Am J Clin Nutr. 1979;32:173.
Not in our library10.1093/ajcn/32.1.173 (opens in a new tab)
- 93.
Smith EA, Macfarlane GT. Formation of phenolic and indolic compounds by anaerobic bacteria in the human large intestine. Microb Ecol. 1997;33:180-188.
Not in our library10.1007/s002489900020 (opens in a new tab)
- 94.
Li G, Young KD. Indole production by the tryptophanase TnaA in Escherichia coli is determined by the amount of exogenous tryptophan. Microbiology. 2013;159:402-410.
Not in our library10.1099/mic.0.064139-0 (opens in a new tab)
- 95.
Keszthelyi D, Troost FJ, Masclee A. Understanding the role of tryptophan and serotonin metabolism in gastrointestinal function. Neurogastroent Motil. 2009;21:1239-1249.
Not in our library10.1111/j.1365-2982.2009.01370.x (opens in a new tab)
- 96.
Cook KL, Rothrock MJ, Loughrin JH, Doerner KC. Characterization of skatole-producing microbial populations in enriched swine lagoon slurry. FEMS Microbiol Ecol. 2010;60:329-340.
Not in our library10.1111/j.1574-6941.2007.00299.x (opens in a new tab)
- 97.
Bessede A, Gargaro M, Pallotta MT, Matino D, Servillo G, Brunacci C, Bicciato S, Mazza EM, Macchiarulo A, Vacca C. Aryl hydrocarbon receptor control of a disease tolerance defense pathway. Nature. 2014;511:184-190.
Not in our library10.1038/nature13323 (opens in a new tab)
- 98.
Opitz CA, Litzenburger UM, Sahm F, Ott M, Tritschler I, Trump S, Schumacher T, Jestaedt L, Schrenk D, Weller M. An endogenous tumour-promoting ligand of the human aryl hydrocarbon receptor. Nature. 2011;478:197.
Not in our library10.1038/nature10491 (opens in a new tab)
- 99.
Adams S, Braidy N, Bessesde A, Brew BJ, Grant R, Teo C, Guillemin GJ, Adams S, Braidy N, Bessesde A. The kynurenine pathway in brain tumor pathogenesis. Cancer Res. 2012;72:5649-5657.
Not in our library10.1158/0008-5472.can-12-0549 (opens in a new tab)
- 100.
Bäckhed F, Manchester JK, Semenkovich CF, Gordon JI. Mechanisms underlying the resistance to diet-induced obesity in germ-free mice. Proc Natl Acad Sci USA. 2007;104:979-984.
Not in our library10.1073/pnas.0605374104 (opens in a new tab)
- 101.
Wahlström A, Sayin SI, Marschall HU, Bäckhed F. Intestinal crosstalk between bile acids and microbiota and its impact on host metabolism. Cell Metab. 2016;24:41-50.
Not in our library10.1016/j.cmet.2016.05.005 (opens in a new tab)
- 102.
- 103.
Turroni S, Brigidi P, Cavalli A, Candela M. Microbiota-host transgenomic metabolism, bioactive molecules from the inside. J Med Chem. 2017;61:47-61.
Not in our library10.1021/acs.jmedchem.7b00244 (opens in a new tab)
- 104.
Doerner KC, Takamine F, Lavoie CP, Mallonee DH, Hylemon PB. Assessment of fecal bacteria with bile acid 7 alpha-dehydroxylating activity for the presence of bai-like genes. Appl Environ Microb. 1997;63:1185-1188.
Not in our library10.1128/aem.63.3.1185-1188.1997 (opens in a new tab)
- 105.
Midtvedt T. Microbial bile acid transformation. Am J Clin Nutr. 1974;27:1341-1347.
Not in our library10.1093/ajcn/27.11.1341 (opens in a new tab)
- 106.
Kisiela M, Skarka A, Ebert B, Maser E. Hydroxysteroid dehydrogenases (HSDs) in bacteria: a bioinformatic perspective. J Steroid Biochem Mol Biol. 2012;129:31-46.
Not in our library10.1016/j.jsbmb.2011.08.002 (opens in a new tab)
- 107.
Fukiya S, Arata M, Kawashima H, Yoshida D, Kaneko M, Minamida K, Watanabe J, Ogura Y, Uchida K, Itoh K. Conversion of cholic acid and chenodeoxycholic acid into their 7-oxo derivatives by Bacteroides intestinalis AM-1 isolated from human feces. FEMS Microbiol Lett. 2009;293:263-270.
Not in our library10.1111/j.1574-6968.2009.01531.x (opens in a new tab)
- 108.
Beuers U, Fischer S, Spengler U, Paumgartner G. Formation of iso-ursodeoxycholic acid during administration of ursodeoxycholic acid in man. J Hepatol. 1991;13:97-103.
Not in our library10.1016/0168-8278(91)90870-h (opens in a new tab)
- 109.
Backhed F, Ley RE, Sonnenburg JL, Peterson DA, Gordon JI. Host-bacterial mutualism in the human intestine. Science. 2005;307:1915-1920.
Not in our library10.1126/science.1104816 (opens in a new tab)
- 110.
Sender R, Fuchs S, Milo R. Are we really vastly outnumbered? Revisiting the ratio of bacterial to host cells in humans. Cell. 2016;164:337-340.
Not in our library10.1016/j.cell.2016.01.013 (opens in a new tab)
- 111.
Pande S, Shitut S, Freund L, Westermann M, Bertels F, Colesie C, Bischofs IB, Kost C. Metabolic cross-feeding via intercellular nanotubes among bacteria. Nat Commun. 2015;6:6238.
Not in our library10.1038/ncomms7238 (opens in a new tab)
- 112.
Zelezniak A, Andrejev S, Ponomarova O, Mende DR, Bork P, Patil KR. Metabolic dependencies drive species co-occurrence in diverse microbial communities. Proc Natl Acad Sci USA. 2015;112:6449-6454.
Not in our library10.1073/pnas.1421834112 (opens in a new tab)
- 113.
Belenguer A, Duncan SH, Calder AG, Holtrop G, Louis P, Lobley GE, Flint HJ. Two routes of metabolic cross-feeding between Bifidobacterium adolescentis and butyrate-producing anaerobes from the human gut. Appl Environ Microb. 2006;72:3593-3599.
Not in our library10.1128/aem.72.5.3593-3599.2006 (opens in a new tab)
- 114.
Flint HJ, Duncan SH, Scott KP, Louis P. Interactions and competition within the microbial community of the human colon: links between diet and health. Environ Microbiol. 2007;9:1101-1111.
Not in our library10.1111/j.1462-2920.2007.01281.x (opens in a new tab)
- 115.
Marquet P, Duncan SH, Chassard C, Bernalierdonadille A, Flint HJ. Lactate has the potential to promote hydrogen sulphide formation in the human colon. FEMS Microbiol Lett. 2010;299:128-134.
Not in our library10.1111/j.1574-6968.2009.01750.x (opens in a new tab)
- 116.
Bourriaud C, Robins RJ, Martin L, Kozlowski F, Tenailleau E, Cherbut C, Michel C. Lactate is mainly fermented to butyrate by human intestinal microfloras but inter-individual variation is evident. J Appl Microbiol. 2005;99:201-212.
Not in our library10.1111/j.1365-2672.2005.02605.x (opens in a new tab)
- 117.
Falony G, Vlachou A, Verbrugghe K, De VL. Cross-feeding between Bifidobacterium longum BB536 and acetate-converting, butyrate-producing colon bacteria during growth on oligofructose. Appl Environ Microb. 2006;72:7835.
Not in our library10.1128/aem.01296-06 (opens in a new tab)
- 118.
Ng KM, Ferreyra JA, Higginbottom SK, Lynch JB, Kashyap PC, Gopinath S, Naidu N, Choudhury B, Weimer BC, Monack DM. Microbiota-liberated host sugars facilitate post-antibiotic expansion of enteric pathogens. Nature. 2013;502:96.
Not in our library10.1038/nature12503 (opens in a new tab)
- 119.
Kitada Y, Muramatsu K, Toju H, Kibe R, Benno Y, Kurihara S, Matsumoto M. Bioactive polyamine production by a novel hybrid system comprising multiple indigenous gut bacterial strategies. Sci Adv. 2018;4:t62.
Not in our library10.1126/sciadv.aat0062 (opens in a new tab)
- 120.
Foster KR, Bell T. Competition, not cooperation, dominates interactions among culturable microbial species. Curr Biol. 2012;22:1845-1850.
Not in our library10.1016/j.cub.2012.08.005 (opens in a new tab)
- 121.
Levy M, Blacher E, Elinav E. Microbiome, metabolites and host immunity. Curr Opin Microbiol. 2017;35:8-15.
Not in our library10.1016/j.mib.2016.10.003 (opens in a new tab)
- 122.
Donia MS, Fischbach MA. Small molecules from the human microbiota. Science. 2015;349:1254766.
Not in our library10.1126/science.1254766 (opens in a new tab)
- 123.
Thorburn Alison, Nbsp Macia, Laurence Mackay, Charles Nbsp. Diet, metabolites, and “western-lifestyle” inflammatory diseases. Immunity. 2014;40:833-842.
Not in our library10.1016/j.immuni.2014.05.014 (opens in a new tab)
- 124.
Donohoe DR, Garge N, Zhang X, Sun W, O’Connell TM, Bunger MK, Bultman SJ. The microbiome and butyrate regulate energy metabolism and autophagy in the mammalian colon. Cell Metab. 2011;13:517-526.
Not in our library10.1016/j.cmet.2011.02.018 (opens in a new tab)
- 125.
Kaiko G, Ryu S, Koues O, Collins P, Solnica-Krezel L, Pearce E, Pearce E, Oltz E, Stappenbeck T. The colonic crypt protects stem cells from microbiota-derived metabolites. Cell. 2016;165:1708-1720.
Not in our library10.1016/j.cell.2016.05.018 (opens in a new tab)
- 126.
Ghorbani P, Santhakumar P, Hu Q, Djiadeu P, Wolever TM, Palaniyar N, Grasemann H. Short-chain fatty acids affect cystic fibrosis airway inflammation and bacterial growth. Eur Respir J. 2015;46:1033-1045.
Not in our library10.1183/09031936.00143614 (opens in a new tab)
- 127.
Levy M, Thaiss CA, Zeevi D, Dohnalová L, Zilbermanschapira G, Mahdi JA, David E, Savidor A, Korem T, Herzig Y. Microbiota-modulated metabolites shape the intestinal microenvironment by regulating NLRP6 inflammasome signaling. Cell. 2015;163:1428-1443.
Not in our library10.1016/j.cell.2015.10.048 (opens in a new tab)
- 128.
Chang PV, Hao L, Offermanns S, Medzhitov R. The microbial metabolite butyrate regulates intestinal macrophage function via histone deacetylase inhibition. Proc Natl Acad Sci USA. 2014;111:2247-2252.
Not in our library10.1073/pnas.1322269111 (opens in a new tab)
- 129.
Wang H, Chen J, Hollister K, Sowers LC, Forman BM. Endogenous bile acids are ligands for the nuclear receptor FXR/BAR. Mol Cell. 1999;3:543-553.
Not in our library10.1016/s1097-2765(00)80348-2 (opens in a new tab)
- 130.
Inagaki T, Moschetta A, Lee YK, Peng L, Zhao G, Downes M, Yu RT, Shelton JM, Richardson JA, Repa JJ. Regulation of antibacterial defense in the small intestine by the nuclear bile acid receptor. Proc Natl Acad Sci USA. 2006;103:3920-3925.
Not in our library10.1073/pnas.0509592103 (opens in a new tab)
- 131.
Thaiss CA, Zmora N, Levy M, Elinav E. The microbiome and innate immunity. Nature. 2016;535:65.
Not in our library10.1038/nature18847 (opens in a new tab)
- 132.
Chen J, Rao JN, Zou T, Liu L, Marasa BS, Xiao L, Zeng X, Turner DJ, Wang JY. Polyamines are required for expression of Toll-like receptor 2 modulating intestinal epithelial barrier integrity. Am J Physiol Gastrointest Liver Physiol. 2007;293:G568-G576.
Not in our library10.1152/ajpgi.00201.2007 (opens in a new tab)
- 133.
Wang X, Ota N, Manzanillo P, Kates L, Zavalasolorio J, Eidenschenk C, Zhang J, Lesch J, Lee WP, Ross J. Interleukin-22 alleviates metabolic disorders and restores mucosal immunity in diabetes. Nature. 2014;514:237-241.
Not in our library10.1038/nature13564 (opens in a new tab)
- 134.
Sonnenberg GF, Artis D. Innate lymphoid cells in the initiation, regulation and resolution of inflammation. Nat Med. 2015;21:698.
Not in our library10.1038/nm.3892 (opens in a new tab)
- 135.
Kruglov AA, Grivennikov SI, Kuprash DV, Winsauer C, Prepens S, Seleznik GM, Eberl G, Littman DR, Heikenwalder M, Tumanov AV. Nonredundant function of soluble LTÎ ± 3 produced by innate lymphoid cells in intestinal homeostasis. Science. 2013;342:1243-1246.
Not in our library10.1126/science.1243364 (opens in a new tab)
- 136.
Goto Y, Obata T, Kunisawa J, Sato S, Ivanov II, Lamichhane A, Takeyama N, Kamioka M, Sakamoto M, Matsuki T. Innate lymphoid cells regulate intestinal epithelial cell glycosylation. Science. 2014;345:1254009.
Not in our library10.1126/science.1254009 (opens in a new tab)
- 137.
Wang B, Morinobu A, Horiuchi M, Liu J, Kumagai S. Butyrate inhibits functional differentiation of human monocyte-derived dendritic cells. Cell Immunol. 2008;253:54-58.
Not in our library10.1016/j.cellimm.2008.04.016 (opens in a new tab)
- 138.
Millard AL, Mertes PM, Ittelet D, Villard F, Jeannesson P, Bernard J. Butyrate affects differentiation, maturation and function of human monocyte-derived dendritic cells and macrophages. Clin Exp Immunol. 2010;130:245-255.
Not in our library10.1046/j.0009-9104.2002.01977.x (opens in a new tab)
- 139.
Berndt BE, Zhang M, Owyang SY, Cole TS, Wang TW, Luther J, Veniaminova NA, Merchant JL, Chen CC, Huffnagle GB. Butyrate increases IL-23 production by stimulated dendritic cells. Am J Physiol-Gastr L. 2012;303:G1384.
Not in our library10.1152/ajpgi.00540.2011 (opens in a new tab)
- 140.
Mazzoni A, Young HA, Spitzer JH, Visintin A, Segal DM. Histamine regulates cytokine production in maturing dendritic cells, resulting in altered T cell polarization. J Clin Invest. 2001;108:1865.
Not in our library10.1172/jci200113930 (opens in a new tab)
- 141.
Vavassori P, Mencarelli A, Renga B, Distrutti E, Fiorucci S. The bile acid receptor FXR is a modulator of intestinal innate immunity. J Immunol. 2009;183:6251-6261.
Not in our library10.4049/jimmunol.0803978 (opens in a new tab)
- 142.
Capodici C, Hanft S, Feoktistov M, Pillinger MH. Phosphatidylinositol 3-kinase mediates chemoattractant-stimulated, CD11b/CD18-dependent cell-cell adhesion of human neutrophils: evidence for an ERK-independent pathway. J Immunol. 1998;160:1901-1909.
Not in our library
- 143.
Vinolo MA, Rodrigues HG, Hatanaka E, Sato FT, Sampaio SC, Curi R. Suppressive effect of short-chain fatty acids on production of proinflammatory mediators by neutrophils. J Nutr Biochem. 2011;22:849-855.
Not in our library10.1016/j.jnutbio.2010.07.009 (opens in a new tab)
- 144.
Segal AW. How neutrophils kill microbes. Annu Rev Immunol. 2005;23:197-223.
Not in our library10.1146/annurev.immunol.23.021704.115653 (opens in a new tab)
- 145.
Nakao S, Fujii A, Niederman R. Alteration of cytoplasmic Ca2+ in resting and stimulated human neutrophils by short-chain carboxylic acids at neutral pH. Infect Immun. 1992;60:5307-5311.
Not in our library10.1128/iai.60.12.5307-5311.1992 (opens in a new tab)
- 146.
Wilck N, Matus MG, Kearney SM, Olesen SW, Forslund K, Bartolomaeus H, Haase S, Mähler A, Balogh A, Markó L. Salt-responsive gut commensal modulates TH17 axis and disease. Nature. 2017;551:585.
Not in our library10.1038/nature24628 (opens in a new tab)
- 147.
Smolinska S, Jutel M, Crameri R, O’Mahony L. Histamine and gut mucosal immune regulation. Allergy. 2014;69:273-281.
Not in our library10.1111/all.12330 (opens in a new tab)
- 148.
Brown AJ, Goldsworthy SM, Barnes AA, Eilert MM, Tcheang L, Daniels D, Muir AI, Wigglesworth MJ, Kinghorn I, Fraser NJ. The orphan G protein-coupled receptors GPR41 and GPR43 are activated by propionate and other short chain carboxylic acids. J Biol Chem. 2003;278:11312-11319.
Not in our library10.1074/jbc.m211609200 (opens in a new tab)
- 149.
Smith PM, Howitt MR, Panikov N, Michaud M, Gallini CA, Bohloolyy M, Glickman JN, Garrett WS. The microbial metabolites, short chain fatty acids, regulate colonic Treg cell homeostasis. Science. 2013;341:569-573.
Not in our library10.1126/science.1241165 (opens in a new tab)
- 150.
Park J, Kim M, Kang SG, Jannasch AH, Cooper B, Patterson J, Chang HK. Short chain fatty acids induce both effector and regulatory T cells by suppression of histone deacetylases and regulation of the mTOR-S6K pathway. Mucosal Immunol. 2015;8:80.
Not in our library10.1038/mi.2014.44 (opens in a new tab)
- 151.
Tone Y, Furuuchi K, Kojima Y, Tykocinski ML, Greene MI, Tone M. Smad3 and NFAT cooperate to induce Foxp3 expression through its enhancer. Nat Immunol. 2008;9:194-202.
Not in our library10.1038/ni1549 (opens in a new tab)
- 152.
Xu L, Kitani A, Stuelten C, Mcgrady G, Fuss I, Strober W. Positive and negative transcriptional regulation of the Foxp3 gene is mediated by TGF-Î2 signal transducer smad3 access and binding to enhancer I. Immunity. 2010;33:313.
Not in our library10.1016/j.immuni.2010.09.001 (opens in a new tab)
- 153.
Kinoshita M, Kayama H, Kusu T, Yamaguchi T, Kunisawa J, Kiyono H, Sakaguchi S, Takeda K. Dietary folic acid promotes survival of Foxp3+ regulatory T cells in the colon. J Immunol. 2012;189:2869-2878.
Not in our library10.4049/jimmunol.1200420 (opens in a new tab)
- 154.
Yamaguchi T, Hirota K, Nagahama K, Ohkawa K, Takahashi T, Nomura T, Sakaguchi S. Control of immune responses by antigen-specific regulatory T cells expressing the folate receptor. Immunity. 2007;27:145-159.
Not in our library10.1016/j.immuni.2007.04.017 (opens in a new tab)
- 155.
Mezrich JD, Fechner JH, Zhang X, Johnson BP, Burlingham WJ, Bradfield CA. An interaction between kynurenine and the aryl hydrocarbon receptor can generate regulatory T cells. J Immunol. 2010;185:3190-3198.
Not in our library10.4049/jimmunol.0903670 (opens in a new tab)
- 156.
O’Mahony SM, Clarke G, Borre YE, Dinan TG, Cryan JF. Serotonin, tryptophan metabolism and the brain-gut-microbiome axis. Behav Brain Res. 2015;277:32-48.
Not in our library10.1016/j.bbr.2014.07.027 (opens in a new tab)
- 157.
Kim M, Qie Y, Park J, Chang HK. Gut microbial metabolites fuel host antibody responses. Cell Host Microbe. 2016;20:202-214.
Not in our library10.1016/j.chom.2016.07.001 (opens in a new tab)
- 158.
Peterson DA, Mcnulty NP, Guruge JL, Gordon JI. IgA response to symbiotic bacteria as a mediator of gut homeostasis. Cell Host Microbe. 2007;2:328-339.
Not in our library10.1016/j.chom.2007.09.013 (opens in a new tab)
- 159.
Agace WW, McCoy KD. Regionalized development and maintenance of the intestinal adaptive immune landscape. Immunity. 2017;46:532-548.
Not in our library10.1016/j.immuni.2017.04.004 (opens in a new tab)
- 160.
Pott J, Hornef M. Innate immune signalling at the intestinal epithelium in homeostasis and disease. EMBO Rep. 2012;13:684-698.
Not in our library10.1038/embor.2012.96 (opens in a new tab)
- 161.
Koh A, De Vadder F, Kovatcheva-Datchary P, Bäckhed F. From dietary fiber to host physiology: short-chain fatty acids as key bacterial metabolites. Cell. 2016;165:1332-1345.
Not in our library10.1016/j.cell.2016.05.041 (opens in a new tab)
- 162.
Willemsen LEM, Koetsier MA, van Deventer SJH, van Tol EAF. Short chain fatty acids stimulate epithelial mucin 2 expression through differential effects on prostaglandin E1 and E2 production by intestinal myofibroblasts. Gut. 2003;52:1442-1447.
Not in our library10.1136/gut.52.10.1442 (opens in a new tab)
- 163.
Wlodarska M, Thaiss CA, Nowarski R, Henao-Mejia J, Zhang JP, Brown EM, Frankel G, Levy M, Katz MN, Philbrick WM. NLRP6 inflammasome orchestrates the colonic host-microbial interface by regulating goblet cell mucus secretion. Cell. 2014;156:1045-1059.
Not in our library10.1016/j.cell.2014.01.026 (opens in a new tab)
- 164.
Singh N, Gurav A, Sivaprakasam S, Brady E, Padia R, Shi H, Thangaraju M, Prasad PD, Manicassamy S, Munn DH. Activation of Gpr109a, receptor for niacin and the commensal metabolite butyrate, suppresses colonic inflammation and carcinogenesis. Immunity. 2014;40:128-139.
Not in our library10.1016/j.immuni.2013.12.007 (opens in a new tab)
- 165.
Liu L, Guo X, Rao JN, Zou T, Xiao L, Yu T, Timmons JA, Turner DJ, Wang JY. Polyamines regulate E-cadherin transcription through c-Myc modulating intestinal epithelial barrier function. Am J Physiol-Cell Ph. 2009;296:C801-C810.
Not in our library10.1152/ajpcell.00620.2008 (opens in a new tab)
- 166.
Sonnenberg GF, Artis D. Innate lymphoid cell interactions with microbiota: implications for intestinal health and disease. Immunity. 2012;37:601-610.
Not in our library10.1016/j.immuni.2012.10.003 (opens in a new tab)
- 167.
Walker JA, Barlow JL, McKenzie ANJ. Innate lymphoid cells–how did we miss them? Nature reviews. Immunology. 2013;13:75-87.
Not in our library10.1038/nri3349 (opens in a new tab)
- 168.
Li Y, Innocentin S, Withers DR, Roberts NA, Gallagher AR, Grigorieva E, Wilhelm C, Veldhoen M. Exogenous stimuli maintain intraepithelial lymphocytes via aryl hydrocarbon receptor activation. Cell. 2011;147:629-640.
Not in our library10.1016/j.cell.2011.09.025 (opens in a new tab)
- 169.
Lee JS, Cella M, Mcdonald KG, Garlanda C, Kennedy GD, Nukaya M, Mantovani A, Kopan R, Bradfield CA, Newberry RD. AHR drives the development of gut ILC22 cells and postnatal lymphoid tissues via pathways dependent on and independent of Notch. Nat Immunol. 2012;13:144-151.
Not in our library10.1038/ni.2187 (opens in a new tab)
- 170.
Ouyang W, Rutz S, Crellin NK, Valdez PA, Hymowitz SG. Regulation and functions of IL-10 family cytokines in inflammation and diseases. Annu Rev Immunol. 2010;29:71-109.
Not in our library10.1146/annurev-immunol-031210-101312 (opens in a new tab)
- 171.
Mangan PR, Harrington LE, O’Quinn DB, Helms WS, Bullard DC, Elson CO, Hatton RD, Wahl SM, Schoeb TR, Weaver CT. Transforming growth factor-beta induces development of the T(H)17 lineage. Nature. 2006;441:231-234.
Not in our library10.1038/nature04754 (opens in a new tab)
- 172.
Ota N, Wong K, Valdez PA, Zheng Y, Crellin NK, Diehl L, Ouyang W. IL-22 bridges the lymphotoxin pathway with the maintenance of colonic lymphoid structures during infection with Citrobacter rodentium. Nat Immunol. 2011;12:941-948.
Not in our library10.1038/ni.2089 (opens in a new tab)
- 173.
Wang Y, Koroleva EP, Kruglov AA, Kuprash DV, Nedospasov SA, Fu Y, Tumanov AV. Lymphotoxin beta receptor signaling in intestinal epithelial cells orchestrates innate immune responses against mucosal bacterial infection. Immunity. 2010;32:403-413.
Not in our library10.1016/j.immuni.2010.02.011 (opens in a new tab)
- 174.
Qiu J, Heller JJ, Guo X, Chen ZM, Fish K, Fu YX, Zhou L. The aryl hydrocarbon receptor regulates gut immunity through modulation of innate lymphoid cells. Immunity. 2012;36:92-104.
Not in our library10.1016/j.immuni.2011.11.011 (opens in a new tab)
- 175.
Akdis M, Burgler S, Crameri R, Eiwegger T, Fujita H, Gomez E, Klunker S, Meyer N, O’Mahony L, Palomares O. Interleukins, from 1 to 37, and interferon-γ: receptors, functions, and roles in diseases. J Allergy Clin Immunol. 2011;127:701-721.
Not in our library10.1016/j.jaci.2010.11.050 (opens in a new tab)
- 176.
Mahony LO, Akdis M, Akdis CA. Regulation of the immune response and inflammation by histamine and histamine receptors. J Allergy Clin Immunol. 2011;128:1153-1162.
Not in our library10.1016/j.jaci.2011.06.051 (opens in a new tab)
- 177.
Singh N, Thangaraju M, Prasad PD, Martin PM, Lambert NA, Boettger T, Offermanns S, Ganapathy V. Blockade of dendritic cell development by bacterial fermentation products butyrate and propionate through a transporter (Slc5a8)-dependent inhibition of histone deacetylases. J Biol Chem. 2010;285:27601-27608.
Not in our library10.1074/jbc.m110.102947 (opens in a new tab)
- 178.
Trompette A, Gollwitzer ES, Yadava K, Sichelstiel AK, Sprenger N, Ngombru C, Blanchard C, Junt T, Nicod LP, Harris NL. Gut microbiota metabolism of dietary fiber influences allergic airway disease and hematopoiesis. Nat Med. 2014;20:159.
Not in our library10.1038/nm.3444 (opens in a new tab)
- 179.
Liu L, Li L, Min J, Wang J, Wu H, Zeng Y, Chen S, Chu Z. Butyrate interferes with the differentiation and function of human monocyte-derived dendritic cells. Cell Immunol. 2012;277:66-73.
Not in our library10.1016/j.cellimm.2012.05.011 (opens in a new tab)
- 180.
Burris TP, Busby SA, Griffin PR. Targeting orphan nuclear receptors for treatment of metabolic diseases and autoimmunity. Chem Biol. 2012;19:51-59.
Not in our library10.1016/j.chembiol.2011.12.011 (opens in a new tab)
- 181.
Fiorucci Stefano, Mencarelli Andrea, Palladino Giuseppe, Cipriani Sabrina. Bile-acid-activated receptors: targeting TGR5 and farnesoid-X-receptor in lipid and glucose disorders. Trends Pharmacol Sci. 2009;30:570-580.
Not in our library10.1016/j.tips.2009.08.001 (opens in a new tab)
- 182.
Yu D. The G-protein-coupled bile acid receptor, Gpbar1 (TGR5), negatively regulates hepatic inflammatory response through antagonizing nuclear factor κ light-chain enhancer of activated B cells (NF-κB) in mice. Hepatology. 2011;54:1421-1432.
Not in our library10.1002/hep.24525 (opens in a new tab)
- 183.
Brestoff JR, Artis D. Commensal bacteria at the interface of host metabolism and the immune system. Nat Immunol. 2013;14:676.
Not in our library10.1038/ni.2640 (opens in a new tab)
- 184.
Giordano D, Magaletti DM, Clark EA, Beavo JA. Cyclic nucleotides promote monocyte differentiation toward a DC-SIGN + (CD209) intermediate cell and impair differentiation into dendritic cells. J Immunol. 2003;171:6421-6430.
Not in our library10.4049/jimmunol.171.12.6421 (opens in a new tab)
- 185.
Cassatella MA. The production of cytokines by polymorphonuclear neutrophils. Immunol Today. 1995;16:21-26.
Not in our library10.1016/0167-5699(95)80066-2 (opens in a new tab)
- 186.
Oliver JM. Cell biology of leukocyte abnormalities–membrane and cytoskeletal function in normal and defective cells. A review. Am J Pathol. 1978;93:221.
Not in our library
- 187.
Wagner JG, Roth RA. Neutrophil migration mechanisms, with an emphasis on the pulmonary vasculature. Pharmacol Rev. 2000;52:349.
Not in our library
- 188.
Le PE, Loison C, Struyf S, Springael JY, Lannoy V, Decobecq ME, Brezillon S, Dupriez V, Vassart G, Van DJ. Functional characterization of human receptors for short chain fatty acids and their role in polymorphonuclear cell activation. J Biol Chem. 2003;278:25481-25489.
Not in our library10.1074/jbc.m301403200 (opens in a new tab)
- 189.
Wong JM, De SR, Kendall CW, Emam A, Jenkins DJ. Colonic health: fermentation and short chain fatty acids. J Clin Gastroenterol. 2006;40:235-243.
Not in our library10.1097/00004836-200603000-00015 (opens in a new tab)
- 190.
Maslowski KM, Vieira AT, Aylwin N, Jan K, Frederic S, Di Y, Schilter HC, Rolph MS, Fabienne M, David A. Regulation of inflammatory responses by gut microbiota and chemoattractant receptor GPR43. Nature. 2009;461:1282-1286.
Not in our library10.1038/nature08530 (opens in a new tab)
- 191.
Sina C, Gavrilova O, Förster M, Till A, Derer S, Hildebrand F, Raabe B, Chalaris A, Scheller J, Rehmann A. G protein-coupled receptor 43 is essential for neutrophil recruitment during intestinal inflammation. J Immunol. 2009;136:240.
Not in our library10.4049/jimmunol.0900063 (opens in a new tab)
- 192.
Fialkow L, Wang Y, Downey GP. Reactive oxygen and nitrogen species as signaling molecules regulating neutrophil function. Free Radic Biol Med. 2007;42:153-164.
Not in our library10.1016/j.freeradbiomed.2006.09.030 (opens in a new tab)
- 193.
Irani K, Goldschmidtclermont PJ. Ras, superoxide and signal transduction. Biochem Pharmacol. 2000;55:47-79.
Not in our library10.1016/s0006-2952(97)00616-3 (opens in a new tab)
- 194.
Kanai T, Kawamura T, Dohi T, Makita S, Nemoto Y, Totsuka T, Watanabe M. TH1/TH2-mediated colitis induced by adoptive transfer of CD4+ CD45RBhigh T lymphocytes into nude mice. Inflamm Bowel Dis. 2006;12:89-99.
Not in our library10.1097/01.mib.0000197237.21387.ml (opens in a new tab)
- 195.
Louis P, Hold GL, Flint HJ. The gut microbiota, bacterial metabolites and colorectal cancer. Nat Rev Microbiol. 2014;12:661-672.
Not in our library10.1038/nrmicro3344 (opens in a new tab)
- 196.
Brown EM, Kenny DJ, Xavier RJ. Gut microbiota regulation of T cells during inflammation and autoimmunity. Annu Rev Immunol. 2019;37:599-624.
Not in our library10.1146/annurev-immunol-042718-041841 (opens in a new tab)
- 197.
Shi Y, Mu L. An expanding stage for commensal microbes in host immune regulation. Cell Mol Immunol. 2017;14:339.
Not in our library10.1038/cmi.2016.64 (opens in a new tab)
- 198.
Tanoue T, Atarashi K, Honda K. Development and maintenance of intestinal regulatory T cells. Nat Rev Immunol. 2016;16:295.
Not in our library10.1038/nri.2016.36 (opens in a new tab)
- 199.
Arpaia N, Campbell C, Fan X, Dikiy S, Van JDV, Deroos P, Liu H, Cross JR, Pfeffer K, Coffer PJ. Metabolites produced by commensal bacteria promote peripheral regulatory T-cell generation. Nature. 2013;504:451.
Not in our library10.1038/nature12726 (opens in a new tab)
- 200.
Coombes JL, Siddiqui KR, Arancibiacárcamo CV, Hall J, Sun CM, Belkaid Y, Powrie F. A functionally specialized population of mucosal CD103 + DCs induces Foxp3 + regulatory T cells via a TGF-beta and retinoic acid-dependent mechanism. J Exp Med. 2007;204:1757-1764.
Not in our library10.1084/jem.20070590 (opens in a new tab)
- 201.
Mucida D, Park Y, Kim G, Turovskaya O, Scott I, Kronenberg M, Cheroutre H. Reciprocal TH17 and regulatory T cell differentiation mediated by retinoic acid. Science. 2007;317:256-260.
Not in our library10.1126/science.1145697 (opens in a new tab)
- 202.
Sun CM, Hall JA, Blank RB, Bouladoux N, Oukka M, Mora JR, Belkaid Y. Small intestine lamina propria dendritic cells promote de novo generation of Foxp3 T reg cells via retinoic acid. J Exp Med. 2007;204:1775-1785.
Not in our library10.1084/jem.20070602 (opens in a new tab)
- 203.
Chen WJ, Jin W, Hardegen N, Lei K, Li L, Marinos N, Mcgrady G, Wahl SM. Conversion of peripheral CD4 + CD25 − naive T cells to CD4 + CD25 + regulatory T cells by TGF-β induction of transcription factor Foxp3. J Exp Med. 2003;198:1875-1886.
Not in our library10.1084/jem.20030152 (opens in a new tab)
- 204.
Lochner M, Peduto L, Cherrier M, Sawa S, Langa F, Varona R, Riethmacher D, Sitahar M, Santo JPD, Eberl G. In vivo equilibrium of proinflammatory IL-17 + and regulatory IL-10 + Foxp3 + RORγt + T cells. J Exp Med. 2008;205:1381-1393.
Not in our library10.1084/jem.20080034 (opens in a new tab)
- 205.
Ohnmacht C, Park JH, Cording S, Wing JB, Atarashi K, Obata Y, Gaboriaurouthiau V, Marques R, Dulauroy S, Fedoseeva M. Mucosal immunology. The microbiota regulates type 2 immunity through RORγt? T cells. Science. 2015;349:989-993.
Not in our library10.1126/science.aac4263 (opens in a new tab)
- 206.
Kang SG, Lim HW, Andrisani OM, Broxmeyer HE, Kim CH. Vitamin A metabolites induce gut-homing FoxP3 + regulatory T cells. J Immunol. 2007;179:3724-3733.
Not in our library10.4049/jimmunol.179.6.3724 (opens in a new tab)
- 207.
Huehn J, Siegmund K, Lehmann JCU, Siewert C, Haubold U, Feuerer M, Debes GF, Lauber J, Frey O, Przybylski GK. Developmental stage, phenotype, and migration distinguish naive- and effector/memory-like CD4 + regulatory T cells. J Exp Med. 2004;199:303-313.
Not in our library10.1084/jem.20031562 (opens in a new tab)
- 208.
Martens JH, Barg H, Warren M, Jahn D. Microbial production of vitamin B12. Appl Microbiol Biot. 2002;58:275-285.
Not in our library10.1007/s00253-001-0902-7 (opens in a new tab)
- 209.
Hill MJ. Intestinal flora and endogenous vitamin synthesis. Eur J Cancer Prevent. 1997;6(Suppl 1):S43-S45.
Not in our library10.1097/00008469-199703001-00009 (opens in a new tab)
- 210.
Strozzi GP, Mogna L. Quantification of folic acid in human feces after administration of Bifidobacterium probiotic strains. J Clin Gastroenterol. 2008;42(Suppl 3 Pt 2):S179-S184.
Not in our library10.1097/mcg.0b013e31818087d8 (opens in a new tab)
- 211.
Pompei A, Cordisco L, Amaretti A, Zanoni S, Matteuzzi D, Rossi M. Folate production by bifidobacteria as a potential probiotic property. Appl Environ Microb. 2007;73:179.
Not in our library10.1128/aem.01763-06 (opens in a new tab)
- 212.
Kleerebezem M, Vaughan EE. Probiotic and gut lactobacilli and bifidobacteria: molecular approaches to study diversity and activity. Annu Rev Microbiol. 2009;63:269-290.
Not in our library10.1146/annurev.micro.091208.073341 (opens in a new tab)
- 213.
Tamura J, Kubota K, Murakami H, Sawamura M, Matsushima T, Tamura T, Saitoh T, Kurabayshi H, Naruse T. Immunomodulation by vitamin B12: augmentation of CD8 + T lymphocytes and natural killer (NK) cell activity in vitamin B12-deficient patients by methyl-B12 treatment. Clin Exp Immunol. 1999;116:28-32.
Not in our library10.1046/j.1365-2249.1999.00870.x (opens in a new tab)
- 214.
Honda K, Dan RL. The microbiota in adaptive immune homeostasis and disease. Nature. 2016;535:75.
Not in our library10.1038/nature18848 (opens in a new tab)
- 215.
Furusawa Y, Obata Y, Fukuda S, Endo TA, Nakato G, Takahashi D, Nakanishi Y, Uetake C, Kato K, Kato T. Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells. Nature. 2013;504:446.
Not in our library10.1038/nature12721 (opens in a new tab)
- 216.
Ferstl R, Akdis CA, O’Mahony L. Histamine regulation of innate and adaptive immunity. Front Biosci. 2012;17:40.
Not in our library10.2741/3914 (opens in a new tab)
- 217.
Forward NA, Furlong SJ, Yang Y, Lin TJ, Hoskin DW. Mast cells down-regulate CD4 + CD25 + T regulatory cell suppressor function via histamine H1 receptor interaction. J Immunol. 2009;183:3014-3022.
Not in our library10.4049/jimmunol.0802509 (opens in a new tab)
- 218.
Kudoh K, Shimizu JM, Takita T, Kanke Y, Innami S. Effect of indigestible saccharides on B lymphocyte response of intestinal mucosa and cecal fermentation in rats. J Nutr Sci Vitaminol. 1998;44:103-112.
Not in our library10.3177/jnsv.44.103 (opens in a new tab)
- 219.
Lim BO, Yamada K, Nonaka M, Kuramoto Y, Hung P, Sugano M. Dietary fibers modulate indices of intestinal immune function in rats. The Journal of nutrition. 1997;127:663-667.
Not in our library10.1093/jn/127.5.663 (opens in a new tab)
- 220.
Caromaldonado A, Wang R, Nichols AG, Kuraoka M, Milasta S, Sun LD, Gavin AL, Abel ED, Kelsoe G, Green DR. Metabolic reprogramming is required for antibody production that is suppressed in anergic but exaggerated in chronically BAFF-exposed B cells. J Immunol. 2014;192:3626-3636.
Not in our library10.4049/jimmunol.1302062 (opens in a new tab)
- 221.
Niccolai E, Boem F, Russo E, Amedei A. The gut-brain axis in the neuropsychological disease model of obesity: a classical movie revised by the emerging director “microbiome”. Nutrients. 2019;11:156.
Not in our library10.3390/nu11010156 (opens in a new tab)
- 222.
- 223.
Mayer EA. Gut feelings: the emerging biology of gut–brain communication. Nat Rev Neurosci. 2011;12:453.
Not in our library10.1038/nrn3071 (opens in a new tab)
- 224.
Rezzi S, Ramadan Z, Martin FJ, Fay LB, van Bladeren P, Lindon JC, Nicholson JK, Kochhar S. Human metabolic phenotypes link directly to specific dietary preferences in healthy individuals. J Proteome Res. 2007;6:4469-4477.
Not in our library10.1021/pr070431h (opens in a new tab)
- 225.
Goodhand JR, Wahed M, Mawdsley JE, Farmer AD, Aziz Q, Rampton DS. Mood disorders in inflammatory bowel disease: relation to diagnosis, disease activity, perceived stress, and other factors. Inflamm Bowel Dis. 2012;18:2301-2309.
Not in our library10.1002/ibd.22916 (opens in a new tab)
- 226.
Amatya N, Garg AV, Gaffen SL. IL-17 Signaling: the Yin and the Yang. Trends Immunol. 2017;38:310-322.
Not in our library10.1016/j.it.2017.01.006 (opens in a new tab)
- 227.
Haase S, Haghikia A, Wilck N, Müller DN, Linker RA. Impacts of microbiome metabolites on immune regulation and autoimmunity. Immunology. 2018;154:230-238.
Not in our library10.1111/imm.12933 (opens in a new tab)
- 228.
Borre YE, Keeffe GWO, Clarke G, Stanton C, Dinan TG, Cryan JF. Microbiota and neurodevelopmental windows: implications for brain disorders. Trends Mol Med. 2014;20:509-518.
Not in our library10.1016/j.molmed.2014.05.002 (opens in a new tab)
- 229.
Torresfuentes C, Schellekens H, Dinan TG, Cryan JF. The microbiota–gut–brain axis in obesity. Lancet Gastroenterol Hepatol. 2017;2:747-756.
Not in our library10.1016/s2468-1253(17)30147-4 (opens in a new tab)
- 230.
Braniste V, Alasmakh M, Kowal C, Anuar F, Abbaspour A, Toth M, Korecka A, Bakocevic N, Ng LG, Kundu P. The gut microbiota influences blood-brain barrier permeability in mice. Sci Transl Med. 2014;6:263.
Not in our library10.1126/scitranslmed.3009759 (opens in a new tab)
- 231.
- 232.
Rothhammer V, Borucki DM, Tjon E, Takenaka MC, Chao C, Ardurafabregat A, De Lima KA, Gutierrezvazquez C, Hewson P, Staszewski O. Microglial control of astrocytes in response to microbial metabolites. Nature. 2018;557:724-728.
Not in our library10.1038/s41586-018-0119-x (opens in a new tab)
- 233.
Nicolas GR, Chang PV. Deciphering the chemical lexicon of host-gut microbiota interactions. Trends Pharmacol Sci. 2019;40:430-445.
Not in our library10.1016/j.tips.2019.04.006 (opens in a new tab)
- 234.
Amedei A, Boem F. I’ve gut A feeling: microbiota impacting the conceptual and experimental perspectives of personalized medicine. Int J Mol Sci. 2018;19:3756.
Not in our library10.3390/ijms19123756 (opens in a new tab)
Cited by papers we hold 8
- Dubosiella newyorkensis modulates immune tolerance in colitis via the L-lysine-activated AhR-IDO1-Kyn pathway · 2024No notice
- Microbiota-derived indoles alleviate intestinal inflammation and modulate microbiome by microbial cross-feeding · 2024No notice
- Gut Microbial Metabolite Butyrate and Its Therapeutic Role in Inflammatory Bowel Disease: A Literature Review · 2023No notice
- Aging and aging-related diseases: from molecular mechanisms to interventions and treatments · 2022No notice
- Chronic Stress-Induced Depression and Anxiety Priming Modulated by Gut-Brain-Axis Immunity · 2021No notice
- Associations among Dietary Omega‐3 Polyunsaturated Fatty Acids, the Gut Microbiota, and Intestinal Immunity · 2021No notice
- Inflammation-Induced Tryptophan Breakdown is Related With Anemia, Fatigue, and Depression in Cancer · 2020No notice
- Potential Role of Gut Microbiota in Induction and Regulation of Innate Immune Memory · 2019No notice
Questions about this paper
We email you if it is retracted, withdrawn, corrected or flagged.
Reads
Read by people on this page
None yet.
Checked or read by AI through naulon
None yet.
A person counts once a day per paper. We keep no cookie and no address: a reader is a hash that changes every day. Any month under five reads shows no number.
Are you an author?
Is this your paper?
Claim it to add your note and be paid when agents cite it. Free.