Early-life food nutrition, microbiota maturation and immune development shape life-long health

References

• Aitoro, R., L. Paparo, A. Amoroso, M. Di Cosenzo, L. Cosenza, V. Granata, C. Di Scala, R. Nocerino, G. Trinchese, M. Montella, et al. (2017). Gut microbiota as a target for preventive and therapeutic intervention against food allergy. Nutrients 9:672. doi:10.3390/nu9070672.
   Web of Science ®Google Scholar
• Alexander, K. L., S. R. Targan, and C.O .Elson 3rd. (2014). Microbiota activation and regulation of innate and adaptive immunity. Immunological Reviews 260:206–20. doi:10.1111/imr.12180.
   PubMed Web of Science ®Google Scholar
• Atarashi, K., W. Suda, C. Luo, T. Kawaguchi, I. Motoo, S. Narushima, Y. Kiguchi, K. Yasuma, E. Watanabe, T. Tanoue, et al. (2017). Ectopic colonization of oral bacteria in the intestine drives th1 cell induction and inflammation. Science 358:359–65. doi:10.1126/science.aan4526.
   PubMed Web of Science ®Google Scholar
• Azad, M. B., T. Konya, R. R. Persaud, D. S. Guttman, R. S. Chari, C. J. Field, M. R. Sears, P. J. Mandhane, S. E. Turvey, P. Subbarao, et al. (2016). Impact of maternal intrapartum antibiotics, method of birth and breastfeeding on gut microbiota during the first year of life: a prospective cohort study. An International Journal of Obstetrics and Gynecology 123:983–93. doi:10.1111/1471-0528.13601.
   PubMed Web of Science ®Google Scholar
• Bäckhed, F., H. Ding, T. Wang, L. V. Hooper, G. Y. Koh, A. Nagy, C. F. Semenkovich, and J. I. Gordon (2004). The gut microbiota as an environmental factor that regulates fat storage. Proceedings of the National Academy of Sciences of the United States of America 101:15718–23. doi:10.1073/pnas.0407076101.
   PubMed Web of Science ®Google Scholar
• Bai, G., K. Ni, T. Tsuruta, and N. Nishino (2016). Dietary casein and soy protein isolate modulate the effects of raffinose and fructooligosaccharides on the composition and fermentation of gut microbiota in rats. Journal of Food Science 81:H2093–2098. doi:10.1111/1750-3841.13391.
   PubMed Web of Science ®Google Scholar
• Barratt, M. J., C. Lebrilla, H. Y. Shapiro, and J. I. Gordon (2017). The gut microbiota, food science, and human nutrition: a timely marriage. Cell Host and Microbe 22:134–41. doi:10.1016/j.chom.2017.07.006.
   PubMed Web of Science ®Google Scholar
• Baschetti, R. (1998). Diabetes epidemic in newly westernized populations: is it due to thrifty genes or to genetically unknown foods? Journal of the Royal Society of Medicine 91:622–25. doi:10.1177/014107689809101203.
   PubMed Web of Science ®Google Scholar
• Blachier, F., F. Mariotti, J. F. Huneau, and D. Tomé (2007). Effects of amino acid-derived luminal metabolites on the colonic epithelium and physiopathological consequences. Amino acids 33:547–62 doi:10.1007/s00726-006-0477-9.
   PubMed Web of Science ®Google Scholar
• Black, M. M., S. P. Walker, L. C. H. Fernald, C. T. Andersen, A. M. Digirolamo, C. Lu, D. C. McCoy, G. Fink, Y. R. Shawar, J. Shiffman, et al. (2017). Early childhood development coming of age: science through the life course. Lancet 389:77–90. doi:10.1016/S0140-6736(16)31389-7.
   PubMed Web of Science ®Google Scholar
• Blaser, M. J., and S. Falkow (2009). What are the consequences of the disappearing human microbiota? Nature Reviews Microbiology 7:887–94. doi:10.1038/nrmicro2245.
   PubMed Web of Science ®Google Scholar
• Blaser, M. J. (2006). Who are we? indigenous microbes and the ecology of human diseases. Embo Reports 7:956–60. doi:10.1038/sj.embor.7400812.
   PubMed Web of Science ®Google Scholar
• Blaser, M. J. (2017). The theory of disappearing microbiota and the epidemics of chronic diseases. Nature Reviews Immunology 17:461–63. doi:10.1038/nri.2017.77.
   PubMed Web of Science ®Google Scholar
• Bokulich, N. A., J. Chung, T. Battaglia, N. Henderson, M. Jay, H. Li, A.. D Lieber, F. Wu, G. I. Perez-Perez, Y. Chen, et al. (2016). Antibiotics, birth mode, and diet shape microbiome maturation during early life. Science Translational Medicine 8:343ra82. doi:10.1126/scitranslmed.aad7121.
   PubMed Web of Science ®Google Scholar
• Brüssow, H., and S. J. Parkinson (2014). You are what you eat. Nature Biotechnology 32:243–45. doi:10.1038/nbt.2845.
   PubMed Web of Science ®Google Scholar
• Bushman, F. D., J. D. Lewis and G. D. Wu (2013). Diet, gut enterotypes and health: is there a link? Nestle Nutrition Institute Workshop 77:65–73. doi:10.1159/000351385.
   PubMedGoogle Scholar
• Cai, L., H. Wu, D. Li, K. Zhou, and F. Zou (2015). Type 2 diabetes biomarkers of human gut microbiota selected via iterative sure independent screening method. Plos One 10:e0140827. doi:10.1371/journal.pone.0140827.
   PubMed Web of Science ®Google Scholar
• Candon, S., A. Perezarroyo, C. Marquet, F. Valette, A. P. Foray, B. Pelletier, C. Milani, M. Ventura, J. F. Bach, and L. Chatenoud (2015). Antibiotics in early life alter the gut microbiome and increase disease incidence in a spontaneous mouse model of autoimmune insulin-dependent diabetes. Plos One 10:e0147888. doi:10.1371/journal.pone.0125448.
   Web of Science ®Google Scholar
• Cani, P. D., R. Bibiloni, C. Knauf, A. Waget, A. M. Neyrinck, N. M. Delzenne, and R. Burcelin (2008). Changes in gut microbiota control metabolic endotoxemia-induced inflammation in high-fat diet-induced obesity and diabetes in mice. Diabetes 57:1470–81. doi:10.2337/db07-1403.
   PubMed Web of Science ®Google Scholar
• Cao, X. (2017). Intestinal inflammation induced by oral bacteria. Science 358:308–309. doi:10.1126/science.aap9298.
   PubMed Web of Science ®Google Scholar
• Cassidy, A., and A. M. Minihane (2017). The role of metabolism (and the microbiome) in defining the clinical efficacy of dietary flavonoids. The American Journal of Clinical Nutrition 105:10–22. doi:10.3945/ajcn.116.136051.
   PubMed Web of Science ®Google Scholar
• Cerf-Bensussan, N., and V. Gaboriau-Routhiau (2010). The immune system and the gut microbiota: friends or foes? Nature reviews. Immunology 10:735–44. doi:10.1038/nri2850.
   PubMed Web of Science ®Google Scholar
• Chen, Y., and M. J. Blaser (2007). Inverse associations of helicobacter pylori with asthma and allergy. Archives of Internal Medicine 167:821–27. doi:10.1001/archinte.167.8.821.
   PubMedGoogle Scholar
• Chen, Y., and M. J. Blaser (2008). Helicobacter pylori colonization is inversely associated with childhood asthma. The Journal of infectious diseases 198:553–60. doi:10.1086/590158.
   PubMed Web of Science ®Google Scholar
• Cheng, M., X. Zhang, X. Guo, Z. Wu, and P. Weng (2017). The interaction effect and mechanism between tea polyphenols and intestinal microbiota: role in human health. Journal of Food Biochemistry e12415. doi:10.1111/jfbc.12415.
   Web of Science ®Google Scholar
• Cho, I., S. Yamanishi, L. Cox, B. A. Methé, J. Zavadil, K. Li, I. Teitler, H. Li, A. V. Alekseyenko, and M. J. Blaser (2012). Antibiotics in early life alter the murine colonic microbiome and adiposity. Nature 488:621–26. doi:10.1038/nature11400.
   PubMed Web of Science ®Google Scholar
• Craig, J. M. (2016). Atopic dermatitis and the intestinal microbiota in humans and dogs. Veterinary Medicine and Science 2:95–105. doi:10.1002/vms3.24.
   PubMed Web of Science ®Google Scholar
• Crittenden, A. N., and S. L. Schnorr (2017). Current views on hunter‐gatherer nutrition and the evolution of the human diet. American Journal of Physical Anthropology 162:84–109. doi:10.1002/ajpa.23148.
   PubMed Web of Science ®Google Scholar
• Daelmans, B., G. L. Darmstadt, J. Lombardi, M. M. Black, P. R. Britto, S. Lye, T. Dua, Z.A. Bhutta, and L. M. Richter (2016). Early childhood development: the foundation of sustainable development. Lancet 389:9–11 doi:10.1016/S0140-6736(16)31659-2.
   PubMed Web of Science ®Google Scholar
• David, L. A., C. F. Maurice, R. N. Carmody, D. B. Gootenberg, J. E. Button, B. E. Wolfe, A. V. Ling, A. S. Devlin, Y. Varma, M. A. Fischbach, et al. (2014). Diet rapidly and reproducibly alters the human gut microbiome. Nature 505:559–63. doi:10.1038/nature12820.
   PubMed Web of Science ®Google Scholar
• De Filippo, C., D. Cavalieri, M. Di Paola, M. Ramazzotti, J. B. Poullet, S. Massart, S. Collini, G. Pieraccini, and P. Lionetti (2010). Impact of diet in shaping gut microbiota revealed by a comparative study in children from europe and rural africa. Proceedings of the National Academy of Sciences of the United States of America 107:14691–96. doi:10.1073/pnas.1005963107.
   PubMed Web of Science ®Google Scholar
• Deehan, E. C., and J. Walter (2016). The fiber gap and the disappearing gut microbiome: implications for human nutrition. Trends in Endocrinology & Metabolism Tem 27:239–42. doi:10.1016/j.tem.2016.03.001.
   PubMed Web of Science ®Google Scholar
• Desai, M. S., A. M. Seekatz, N. M. Koropatkin, N. Kamada, C. A. Hickey, M. Wolter, N. A. Pudlo, S. Kitamoto, N. Terrapon, A. Muller, et al. (2016). A dietary fiber-deprived gut microbiota degrades the colonic mucus barrier and enhances pathogen susceptibility. Cell 167:1339–53. doi:10.1016/j.cell.2016.10.043.
   PubMed Web of Science ®Google Scholar
• Dey, N., V. E. Wagner, L. V. Blanton, J. Cheng, L. Fontana, R. Haque, T. Ahmed, and J. I. Gordon (2015). Regulators of gut motility revealed by a gnotobiotic model of diet-microbiome interactions related to traveling. Cell 163:95–107. doi:10.1016/j.cell.2015.08.059.
   PubMed Web of Science ®Google Scholar
• Diamond, J. (2003). The double puzzle of diabetes. Nature 423:599–602. doi:10.1038/423599a.
   PubMed Web of Science ®Google Scholar
• Dodd, D., M. H. Spitzer, W. Van Treuren, B. D. Merrill, A. J. Hryckowian, S. K. Higginbottom, A. Le, T. M. Cowan, G. P. Nolan, M. A. Fischbach, et al. (2017). A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites. Nature 551:648–52
   PubMed Web of Science ®Google Scholar
• Dominguez-Bello, M. G., J. I. Gordon, E. K. Costello, M. Contreras, M. Magris, G. Hidalgo, N. Fierer, and R. Knight (2010). Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats. Proceedings of the National Academy of Sciences of the United States of America 107:11971–75. doi:10.1073/pnas.1002601107.
   PubMed Web of Science ®Google Scholar
• Espín, J. C., A. González-Sarrías, and F. A. Tomás-Barberán (2017). The gut microbiota: a key factor in the therapeutic effects of (poly)phenols. Biochemical Pharmacology 139:82–93. doi:10.1016/j.bcp.2017.04.033.
   PubMed Web of Science ®Google Scholar
• Ferrario, C., R. Statello, L. Carnevali, L. Mancabelli, C. Milani, M. Mangifesta, S. Duranti, G. A. Lugli, B. Jimenez, S. Lodge, et al. (2017). How to feed the mammalian gut microbiota: bacterial and metabolic modulation by dietary fibers. Frontiers in Microbiology 8:1749. doi:10.3389/fmicb.2017.01749.
   PubMed Web of Science ®Google Scholar
• Ferreira, C. M., A. T. Vieira, M. A.. Vinolo, F. A. Oliveira, R. Curi, and S. Martins FdoS (2014). The central role of the gut microbiota in chronic inflammatory diseases. Journal of Immunology Research 2014:689492. doi:10.1155/2014/689492.
   PubMed Web of Science ®Google Scholar
• Filippo, C. D., M. D. Paola, M. Ramazzotti, D. Albanese, G. Pieraccini, E. Banci, F. Miglietta, D. Cavalieri, and P. Lionetti (2017). Diet, environments, and gut microbiota. a preliminary investigation in children living in rural and urban burkina faso and italy. Frontiers in Microbiology 8:1979. doi:10.3389/fmicb.2017.01979.
   PubMed Web of Science ®Google Scholar
• Flint, H. J. (2012). Microbiology: antibiotics and adiposity. Nature 488:601–602. doi:10.1038/488601a.
   PubMed Web of Science ®Google Scholar
• Francino, M. P. (2014). Early development of the gut microbiota and immune health. Pathogens 3:769–90. doi:10.3390/pathogens3030769.
   PubMedGoogle Scholar
• Frei, R., R. P. Lauener, R. Crameri, and L. O'Mahony (2012). Microbiota and dietary interactions: an update to the hygiene hypothesis? Allergy 67:451–61. doi:10.1111/j.1398-9995.2011.02783.x.
   PubMed Web of Science ®Google Scholar
• Gazzaniga, F. S., and D. L. Kasper (2016). Veggies and intact grains a day keep the pathogens away. Cell 167:1161–62. doi:10.1016/j.cell.2016.10.047.
   PubMed Web of Science ®Google Scholar
• He, X., M. L. Marco, and C. M. Slupsky (2013). Emerging aspects of food and nutrition on gut microbiota. Journal of agricultural and food chemistry 61:9559–74. doi:10.1021/jf4029046.
   PubMed Web of Science ®Google Scholar
• Holster, I. L., A. M. Vila, D. Caudri, C. M. den Hoed, G. I. Perez-Perez, M. J. Blaser, J. C. de Jongste, and E. J. Kuipers (2012). The impact of helicobacter pylori, on atopic disorders in childhood. Helicobacter 17:232–37. doi:10.1111/j.1523-5378.2012.00934.x.
   PubMed Web of Science ®Google Scholar
• Iizumi, T., T. Taniguchi, W. Yamazaki, G. Vilmen, A. V. Alekseyenko, Z. Gao, G. I. Perez Perez, and M. J. Blaser (2016). Effect of antibiotic pre-treatment and pathogen challenge on the intestinal microbiota in mice. Gut Pathogens 8:60. doi:10.1186/s13099-016-0143-z.
   PubMed Web of Science ®Google Scholar
• Jain, N., and W. A. Walker (2015). Diet and host-microbial crosstalk in postnatal intestinal immune homeostasis. Nature Reviews Gastroenterology and Hepatology 12:14–25. doi:10.1038/nrgastro.2014.153.
   PubMed Web of Science ®Google Scholar
• Jones, S. M., and A. W. Burks (2017). Food Allergy. Clinical Practice 377:1168–76.
   Google Scholar
• Kaakoush, N. O., and M. J. Morris (2017). More flavor for flavonoid-based interventions? Trends in Molecular Medicine 23:293–95. doi:10.1016/j.molmed.2017.02.008.
   PubMed Web of Science ®Google Scholar
• Kainonen, E., S. Rautava, and E. Isolauri (2013). Immunological programming by breast milk creates an anti-inflammatory cytokine milieu in breast-fed infants compared to formula-fed infants. British Journal of Nutrition 109:1962–70. doi:10.1017/S0007114512004229.
   PubMed Web of Science ®Google Scholar
• Kau, A. L., P. P. Ahern, N. W. Griffin, A. L. Goodman, and J. I. Gordon (2011). Human nutrition, the gut microbiome and the immune system. Nature 474:327–36. doi:10.1038/nature10213.
   PubMed Web of Science ®Google Scholar
• Kennedy, P. J., A. B. Murphy, J. F. Cryan, P. R. Ross, T. G. Dinan, and C. Stanton (2016). Microbiome in brain function and mental health. Trends in Food Science and Technology 57:289–301. doi:10.1016/j.tifs.2016.05.001.
   Web of Science ®Google Scholar
• Kim, D., M. Y. Zeng, and G. Núñez (2017). The interplay between host immune cells and gut microbiota in chronic inflammatory diseases. Experimental and Molecular Medicine 49:e339. doi:10.1038/emm.2017.24.
   PubMed Web of Science ®Google Scholar
• Koh, A., F. D. Vadder, P. Kovatcheva-Datchary, and F. B. Ckhed (2016). From dietary fiber to host physiology: short-chain fatty acids as key bacterial metabolites. Cell 165:1332–45. doi:10.1016/j.cell.2016.05.041.
   PubMed Web of Science ®Google Scholar
• Koppel, N., R. V. Maini, and E. P. Balskus (2017). Chemical transformation of xenobiotics by the human gut microbiota. Science 356:6344 doi:10.1126/science.aag2770.
   Web of Science ®Google Scholar
• Korpela, K., A. Salonen, L. J. Virta, R. A. Kekkonen and W. M. de Vos (2016). Association of Early-Life Antibiotic Use and Protective Effects of Breastfeeding: Role of the Intestinal Microbiota. JAMA Pediatrics 170(8):750–57. doi:10.1001/jamapediatrics.2016.0585.
   PubMed Web of Science ®Google Scholar
• Koutsos, A., M. Lima, L. Conterno, M. Gasperotti, M. Bianchi, F. Fava, U. Vrhovsek, J. A. Lovegrove, and K. M. Tuohy (2017). Effects of commercial apple varieties on human gut microbiota composition and metabolic output using an in vitro colonic model. Nutrients 9:533. doi:10.3390/nu9060533.
   Web of Science ®Google Scholar
• Laforest-Lapointe, I., and M. C. Arrieta (2017). Patterns of early-life gut microbial colonization during human immune development: an ecological perspective. Frontiers in Immunology 8:788. doi:10.3389/fimmu.2017.00788.
   PubMed Web of Science ®Google Scholar
• Liang, C., H. C. Tseng, H. M. Chen, W. C. Wang, C. M. Chiu, J. Y. Chang, K. Y. Lu, S. L. Weng, T. H. Chang, C. H. Chang, et al. (2017). Diversity and enterotype in gut bacterial community of adults in taiwan. Bmc Genomics 18:932. doi:10.1186/s12864-016-3261-6.
   PubMed Web of Science ®Google Scholar
• Liou, A., and P. Turnbaugh (2012). Antibiotic exposure promotes fat gain. Cell Metabolism 16:408–10. doi:10.1016/j.cmet.2012.09.009.
   PubMed Web of Science ®Google Scholar
• Liu, R., J. Hong, X. Xu, Q. Feng, D. Zhang, Y. Gu, J. Shi, S. Zhao, W. Liu, X. Wang, e al. (2017). Gut microbiome and serum metabolome alterations in obesity and after weight-loss intervention. Nature Medicine 23:859–68. doi:10.1038/nm.4358.
   PubMed Web of Science ®Google Scholar
• Lyu, M., Y.F. Wang, G.W. Fan, X.Y. Wang, S.Y. Xu, and Y. Zhu (2017). Balancing herbal medicine and functional food for prevention and treatment of cardiometabolic diseases through modulating gut microbiota. Frontiers in Microbiology 8:2146.
   PubMed Web of Science ®Google Scholar
• Machel, G. (2016). Good early development-the right of every child. Lancet 389:13–14 doi:10.1016/S0140-6736(16)31700-7.
   PubMed Web of Science ®Google Scholar
• Macqueen, G., M. Surette, and P. Moayyedi (2017). The gut microbiota and psychiatric illness. Journal of Psychiatry and Neuroscience Jpn 42:75–77. doi:10.1503/jpn.170028.
   PubMed Web of Science ®Google Scholar
• Makino, H., A. Kushiro, E. Ishikawa, D. Muylaert, H. Kubota, T. Sakai, K. Oishi, R. Martin, A. K. Ben, R. Oozeer, et al. (2011). Transmission of intestinal Bifidobacterium longum subsp. longum strains from mother to infant, determined by multilocus sequencing typing and amplified fragment length polymorphism. Applied and environmental microbiology 77:6788–93. doi:10.1128/AEM.05346-11.
   PubMed Web of Science ®Google Scholar
• Makino, H., A. Kushiro, E. Ishikawa, H. Kubota, A. Gawad, T. Sakai, K. Oishi, R. Martin, K. Ben-Amor, J. Knol, et al. (2013). Mother-to-infant transmission of intestinal bifidobacterial strains has an impact on the early development of vaginally delivered infant's microbiota. Plos One 8:e78331. doi:10.1371/journal.pone.0078331.
   PubMed Web of Science ®Google Scholar
• Marilia, C., S. Annunziata, M. M. Antonietta, and S. Carola (2015). The gut-brain axis: interactions between enteric microbiota, central and enteric nervous systems. Annals of Gastroenterology Quarterly Publication of the Hellenic Society of Gastroenterology 28:203–209.
   PubMed Web of Science ®Google Scholar
• Markowiak, P., and K. Śliżewska (2017). Effects of probiotics, prebiotics, and synbiotics on human health. Nutrients 9:1–12.
   Web of Science ®Google Scholar
• Milani, C., S. Duranti, F. Bottacini, E. Casey, F. Turroni, J. Mahony, C. Belzer, S. Delgado Palacio, S. Arboleya Montes, et al. (2017). The First Microbial Colonizers of the Human Gut: Composition, Activities, and Health Implications of the Infant Gut Microbiota. Microbiology and molecular biology reviews 81. pii: e00036–17. doi:10.1128/MMBR.00036-17.
   Web of Science ®Google Scholar
• Ming, L., Y. Wang, G. Fan, X. Wang, S. Xu, and Y. Zhu (2017). Balancing herbal medicine and functional food for prevention and treatment of cardiometabolic diseases through modulating gut microbiota. Frontiers in Microbiology 8:2146. doi:10.3389/fmicb.2017.02146.
   PubMed Web of Science ®Google Scholar
• Moeller, A. H. (2017). The shrinking human gut microbiome. Current Opinion in Microbiology 38:30–35. doi:10.1016/j.mib.2017.04.002.
   PubMed Web of Science ®Google Scholar
• Fei, N., and L. Zhao (2013). An opportunistic pathogen isolated from the gut of an obese human causes obesity in germfree mice. Isme Journal 7:880–84. doi:10.1038/ismej.2012.153.
   PubMed Web of Science ®Google Scholar
• Ochoa-Repáraz, J., and L. H. Kasper (2016). The second brain: is the gut microbiota a link between obesity and central nervous system disorders? Current Obesity Reports 5:51–64. doi:10.1007/s13679-016-0191-1.
   PubMed Web of Science ®Google Scholar
• Portune, K. J., M. Beaumont, A. M. Davila, D. Tomé, F. Blachier, and Y. Sanz (2016). Gut microbiota role in dietary protein metabolism and health-related outcomes: the two sides of the coin. Trends in Food Science and Technology 57:213–32. doi:10.1016/j.tifs.2016.08.011.
   Web of Science ®Google Scholar
• Prentice, A. M., P. Rayco-Solon, and S. E. Moore (2005). Insights from the developing world: thrifty genotypes and thrifty phenotypes. Proceedings of the Nutrition Society 64:153–61. doi:10.1079/PNS2005421.
   PubMed Web of Science ®Google Scholar
• Putignani, L., R. Carsetti, F. Signore, and M. Manco (2010). Additional maternal and nonmaternal factors contribute to microbiota shaping in newborns. Proceedings of the National Academy of Sciences of the United States of America 107:E159; author reply E160. doi:10.1073/pnas.1010526107.
   PubMed Web of Science ®Google Scholar
• Reibman, J., M. Marmor, J. Filner, M. E. Fernandez-Beros, L. Rogers, G. I. Perez-Perez, and M. J. Blaser (2008). Asthma is inversely associated with helicobacter pylori status in an urban population. PLoS One 3:e4060. doi:10.1371/journal.pone.0004060.
   PubMed Web of Science ®Google Scholar
• Reynolds, L. A., and B. B. Finlay (2017). Early life factors that affect allergy development. Nature Reviews Immunology 17:518–28 doi:10.1038/nri.2017.39.
   PubMed Web of Science ®Google Scholar
• Rjjv, N., and H. Savelkoul (2017). Nutrition and allergic diseases. Nutrients 9:762. doi:10.3390/nu9070762.
   Web of Science ®Google Scholar
• Rook, G. A. (2012). Hygiene hypothesis and autoimmune diseases. Clinical Reviews in Allergy and Immunology 42:5–15. doi:10.1007/s12016-011-8285-8.
   PubMed Web of Science ®Google Scholar
• Rutayisire, E., K. Huang, Y. Liu and F. Tao (2016). The mode of delivery affects the diversity and colonization pattern of the gut microbiota during the first year of infants' life: a systematic review. BMC Gastroenterol 16:86. doi:10.1186/s12876-016-0498-0.
   PubMed Web of Science ®Google Scholar
• Savage, D. C. (1977). Microbial ecology of the gastrointestinal tract. Annual review of microbiology 31:107–33. doi:10.1146/annurev.mi.31.100177.000543.
   PubMed Web of Science ®Google Scholar
• Schirmer, M., S. Smeekens, H. Vlamakis, M. Jaeger, M. Oosting, E. Franzosa, T. Jansen, L. Jacobs, M. J. Bonder, A. Kurilshikov, et al. (2016). Linking the human gut microbiome to inflammatory cytokine production capacity. Cell 167:1125–36. doi:10.1016/j.cell.2016.10.020.
   PubMed Web of Science ®Google Scholar
• Schokker, D., J. Zhang, L. L. Zhang, S. A. Vastenhouw, H. G. Heilig, H. Smidt, J. M. Rebel, and M. A. Smits (2014). Early-life environmental variation affects intestinal microbiota and immune development in new-born piglets. Plos One 9:e100040. doi:10.1371/journal.pone.0100040.
   PubMed Web of Science ®Google Scholar
• Septembre-Malaterre, A., F. Remize, and P. Poucheret (2017). Fruits and vegetables, as a source of nutritional compounds and phytochemicals: changes in bioactive compounds during lactic fermentation. Food Research International 104:86–99 doi:10.1016/j.foodres.2017.09.031.
   PubMed Web of Science ®Google Scholar
• Sharon, G., T. R. Sampson, D. H. Geschwind, and S. K. Mazmanian (2016). The central nervous system and the gut microbiome. Cell 167:915–32. doi:10.1016/j.cell.2016.10.027.
   PubMed Web of Science ®Google Scholar
• Shibata, N., J. Kunisawa, and H. Kiyono (2017). Dietary and microbial metabolites in the regulation of host immunity. Frontiers in Microbiology 8:2171. doi:10.3389/fmicb.2017.02171.
   PubMed Web of Science ®Google Scholar
• Skypala, I. J. (2017). When nutrition and allergy collide: the rise of anaphylaxis to plant foods. Current Opinion in Allergy and Clinical Immunology 17:338–43. doi:10.1097/ACI.0000000000000387.
   PubMed Web of Science ®Google Scholar
• Strachan, D. P, N. Aït-Khaled, S. Foliaki, J. Mallol, J. Odhiambo, N. Pearce, and H. C. Williams (2015). Siblings, asthma, rhinoconjunctivitis and eczema: a worldwide perspective from the international study of asthma and allergies in childhood. Clinical and Experimental Allergy 45:126–36. doi:10.1111/cea.12349.
   PubMed Web of Science ®Google Scholar
• Strachan, D. P. (1989). Hay fever, hygiene, and household size. BMJ (Clinical research ed.). 299:1259–60. doi:10.1136/bmj.299.6710.1259.
   PubMed Web of Science ®Google Scholar
• Strachan, D. P. (2000). Family size, infection and atopy: the first decade of the “hygiene hypothesis”. Thorax, 55 Suppl 1(Suppl 1). S2–10.
   Google Scholar
• Tilg, H., and A. R. Moschen (2014). Microbiota and diabetes: an evolving relationship. Gut 63:1513–21. doi:10.1136/gutjnl-2014-306928.
   PubMed Web of Science ®Google Scholar
• Valdés, L., A. Cuervo, N. Salazar, P. Ruas-Madiedo, M. Gueimonde, and S. González (2015). The relationship between phenolic compounds from diet and microbiota: impact on human health. Food & Function 6:2424–39. doi:10.1039/C5FO00322A.
   PubMed Web of Science ®Google Scholar
• van Best, N., M. W. Hornef, P. H. Savelkoul and J. Penders (2015).On the origin of species: Factors shaping the establishment of infant's gut microbiota. Birth Defects Research Part C – Embryo Today: Reviews 105:240–51. doi:10.1002/bdrc.21113.
   PubMedGoogle Scholar
• Waldron, D. (2015). Microbiome: in transit. Nature Reviews Microbiology 13:659. doi:10.1038/nrmicro3572.
   PubMedGoogle Scholar
• Wen, L., R. E. Ley, P. Y. Volchkov, P. B. Stranges, L. Avanesyan, A. C. Stonebraker, C. Hu, F. S. Wong, G. L. Szot, J. A. Bluestone, et al. (2008). Innate immunity and intestinal microbiota in the development of type 1 diabetes. Nature 455:1109–13. doi:10.1038/nature07336.
   PubMed Web of Science ®Google Scholar
• Wild, S., G. Roglic, A. Green, R. Sicree, and H. King (2004). Global prevalence of diabetes estimates for the year 2000 and projections for 2030. Diabetes Care 27:1047–53. doi:10.2337/diacare.27.5.1047.
   PubMed Web of Science ®Google Scholar
• Wu, G. D., J. Chen, C. Hoffmann, K. Bittinger, Y. Y. Chen, S. A. Keilbaugh, M. Bewtra, D. Knights, et al. (2011). Linking long-term dietary patterns with gut microbial enterotypes. Science 334:105–108. doi:10.1126/science.1208344.
   PubMed Web of Science ®Google Scholar
• Yassour, M., T. Vatanen, H. Siljander, A. M. Hämäläinen, T. Härkönen, S. J. Ryhänen, E. A. Franzosa, H. Vlamakis, C. Huttenhower, D. Gevers, et al. (2016). Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability. Science Translational Medicine 8:343. doi:10.1126/scitranslmed.aad0917.
   Web of Science ®Google Scholar
• Zhang, J., Z. Guo, Z. Xue, Z. Sun, M. Zhang, and L. Wang (2015). A phylo-functional core of gut microbiota in healthy young chinese cohorts across lifestyles, geography and ethnicities. The ISME journal 9:1979–90. doi:10.1038/ismej.2015.11.
   PubMed Web of Science ®Google Scholar
• Zhu, X., Y. Han, J. Du, R. Liu, K. Jin, and Y. Wei (2017). Microbiota-gut-brain axis and the central nervous system. Oncotarget 8:53829–38.
   PubMedGoogle Scholar
• Zhu, Y., X. Shi, X. Lin, K. Ye, X. Xu, C. Li, and G. Zhou (2017). Beef, chicken, and soy proteins in diets induce different gut microbiota and metabolites in rats. Frontiers in Microbiology 8:1395. doi:10.3389/fmicb.2017.01395.
   PubMed Web of Science ®Google Scholar
• Zmora, N., S. Bashiardes, M. Levy, and E. Elinav (2017). The role of the immune system in metabolic health and disease. Cell Metabolism 25:506–21. doi:10.1016/j.cmet.2017.02.006.
   PubMed Web of Science ®Google Scholar