Abrahamsson, T.R., Jakobsson, H.E., Andersson, A.F., Bjorksten, B., Engstrand, L. and Jenmalm, M.C., 2012. Low diversity of the gut microbiota in infants with atopic eczema. Journal of Allergy and Clinical Immunology 129: 434-440, 440 e431-432. Crossref, Medline, Google Scholar
	Abrahamsson, T.R., Jakobsson, H.E., Andersson, A.F., Bjorksten, B., Engstrand, L. and Jenmalm, M.C., 2014. Low gut microbiota diversity in early infancy precedes asthma at school age. Clinical and Experimental Allergy 44: 842-850. Crossref, Medline, Google Scholar
	Aloisio, I., Santini, C., Biavati, B., Dinelli, G., Cencic, A., Chingwaru, W., Mogna, L. and Di Gioia, D., 2012. Characterization of Bifidobacterium spp. strains for the treatment of enteric disorders in newborns. Applied Microbiology and Biotechnology 96: 1561-1576. Crossref, Medline, Google Scholar
	Arrieta, M.C., Stiemsma, L.T., Dimitriu, P.A., Thorson, L., Russell, S., Yurist-Doutsch, S., Kuzeljevic, B., Gold, M.J., Britton, H.M., Lefebvre, D.L., Subbarao, P., Mandhane, P., Becker, A., McNagny, K.M., Sears, M.R., Kollmann, T., the CHILD Study Investigators, Mohn, W.W., Turvey, S.E. and Finlay, B.B., 2015. Early infancy microbial and metabolic alterations affect risk of childhood asthma. Science Translational Medicine 7: 307ra152. Crossref, Medline, Google Scholar
	Azad, M.B., Konya, T., Maughan, H., Guttman, D.S., Field, C.J., Chari, R.S., Sears, M.R., Becker, A.B., Scott, J.A. and Kozyrskyj, A.L., 2013. Gut microbiota of healthy Canadian infants: profiles by mode of delivery and infant diet at 4 months. Canadian Medical Association Journal 185: 385-394. Crossref, Google Scholar
	Bantz, S.K., Zhu, Z. and Zheng, T., 2014. The atopic march: progression from atopic dermatitis to allergic rhinitis and asthma. Journal of Clinical and Cellular Immunology 5. Google Scholar
	Bieber, T., Cork, M. and Reitamo, S., 2012. Atopic dermatitis: a candidate for disease-modifying strategy. Allergy 67: 969-975. Crossref, Medline, Google Scholar
	Bisgaard, H., Li, N., Bonnelykke, K., Chawes, B.L., Skov, T., Paludan-Muller, G., Stokholm, J., Smith, B. and Krogfelt, K.A., 2011. Reduced diversity of the intestinal microbiota during infancy is associated with increased risk of allergic disease at school age. Journal of Allergy and Clinical Immunology 128: 646-652. Crossref, Medline, Google Scholar
	Bjorksten, B., Sepp, E., Julge, K., Voor, T. and Mikelsaar, M., 2001. Allergy development and the intestinal microflora during the first year of life. Journal of Allergy and Clinical Immunology 108: 516-520. Crossref, Medline, Google Scholar
	Candela, M., Rampelli, S., Turroni, S., Severgnini, M., Consolandi, C., De Bellis, G., Masetti, R., Ricci, G., Pession, A. and Brigidi, P., 2012. Unbalance of intestinal microbiota in atopic children. BMC Microbiology 12: 95. Crossref, Medline, Google Scholar
	De Weerth, C., Fuentes, S., Puylaert, P. and De Vos, W.M., 2013. Intestinal microbiota of infants with colic: development and specific signatures. Pediatrics 131: e550-558. Crossref, Medline, Google Scholar
	Dogaru, C.M., Nyffenegger, D., Pescatore, A.M., Spycher, B.D. and Kuehni, C.E., 2014. Breastfeeding and childhood asthma: systematic review and meta-analysis. American Journal of Epidemiology 179: 1153-1167. Crossref, Medline, Google Scholar
	Edgar, R.C., Haas, B.J., Clemente, J.C., Quince, C. and Knight, R., 2011. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27: 2194-2200. Crossref, Medline, Google Scholar
	Edwards, C.A. and Parrett, A.M., 2002. Intestinal flora during the first months of life: new perspectives. British Journal of Nutrition 88, Suppl. 1: S11-S18. Crossref, Medline, Google Scholar
	Forno, E., Onderdonk, A.B., McCracken, J., Litonjua, A.A., Laskey, D., Delaney, M.L., Dubois, A.M., Gold, D.R., Ryan, L.M., Weiss, S.T. and Celedon, J.C., 2008. Diversity of the gut microbiota and eczema in early life. Clinical and Molecular Allergy 6: 11. Crossref, Medline, Google Scholar
	Fujimura, K.E., Sitarik, A.R., Havstad, S., Lin, D.L., Levan, S., Fadrosh, D., Panzer, A.R., LaMere, B., Rackaityte, E., Lukacs, N.W., Wegienka, G., Boushey, H.A., Ownby, D.R., Zoratti, E.M., Levin, A.M., Johnson, C.C. and Lynch, S.V., 2016. Neonatal gut microbiota associates with childhood multisensitized atopy and T cell differentiation. Nature Medicine 22: 1187-1191. Crossref, Medline, Google Scholar
	Garrett, W.S., Gallini, C.A., Yatsunenko, T., Michaud, M., DuBois, A., Delaney, M.L., Punit, S., Karlsson, M., Bry, L., Glickman, J.N., Gordon, J.I., Onderdonk, A.B. and Glimcher, L.H., 2010. Enterobacteriaceae act in concert with the gut microbiota to induce spontaneous and maternally transmitted colitis. Cell Host Microbe 8: 292-300. Crossref, Medline, Google Scholar
	Gdalevich, M., Mimouni, D. and Mimouni, M., 2001. Breast-feeding and the risk of bronchial asthma in childhood: a systematic review with meta-analysis of prospective studies. Journal of Pediatrics 139: 261-266. Crossref, Medline, Google Scholar
	Ismail, I.H., Boyle, R.J., Licciardi, P.V., Oppedisano, F., Lahtinen, S., Robins-Browne, R.M. and Tang, M.L., 2016. Early gut colonisation by Bifidobacterium breve and B. catenulatum differentially modulates eczema risk in children at high-risk of developing allergic disease. Pediatric Allergy and Immunology 27: 838-846. Crossref, Medline, Google Scholar
	Kalliomaki, M., Kirjavainen, P., Eerola, E., Kero, P., Salminen, S. and Isolauri, E., 2001. Distinct patterns of neonatal gut microflora in infants in whom atopy was and was not developing. Journal of Allergy and Clinical Immunology 107: 129-134. Crossref, Medline, Google Scholar
	Kamada, N., Chen, G.Y., Inohara, N. and Nunez, G., 2013. Control of pathogens and pathobionts by the gut microbiota. Nature Immunology 14: 685-690. Crossref, Medline, Google Scholar
	Kondepudi, K.K., Ambalam, P., Nilsson, I., Wadstrom, T. and Ljungh, A., 2012. Prebiotic-non-digestible oligosaccharides preference of probiotic bifidobacteria and antimicrobial activity against Clostridium difficile. Anaerobe 18: 489-497. Crossref, Medline, Google Scholar
	Loo, E.X.L., Shek, L.P-C., Goh, A., Teoh, O.H., Chan, Y.H., Soh, S.E., Saw, S.M., Kwek, K., Gluckman, P.D., Godfrey, K.M., Chong, Y.S., Lee, B.W., Van Bever, H.P., 2015. Atopic dermatitis in early life: evidence for at least three phenotypes? Results from the GUSTO study. International Archives of Allergy and Immunology 166: 273-279. Crossref, Medline, Google Scholar
	Nakayama, J., Kobayashi, T., Tanaka, S., Korenori, Y., Tateyama, A., Sakamoto, N., Kiyohara, C., Shirakawa, T. and Sonomoto, K., 2011. Aberrant structures of fecal bacterial community in allergic infants profiled by 16S rRNA gene pyrosequencing. FEMS Immunology and Medical Microbiology 63: 397-406. Crossref, Medline, Google Scholar
	Noverr, M.C. and Huffnagle, G.B., 2005. The ‘microflora hypothesis’ of allergic diseases. Clinical and Experimental Allergy 35: 1511-1520. Crossref, Medline, Google Scholar
	Nylund, L., Nermes, M., Isolauri, E., Salminen, S., De Vos, W.M. and Satokari, R., 2014. Severity of atopic disease inversely correlates with intestinal microbiota diversity and butyrate-producing bacteria. Allergy 70: 241-244. Crossref, Medline, Google Scholar
	Ohtsuka, Y., Ikegami, T., Izumi, H., Namura, M., Ikeda, T., Ikuse, T., Baba, Y., Kudo, T., Suzuki, R. and Shimizu, T., 2012. Effects of Bifidobacterium breve on inflammatory gene expression in neonatal and weaning rat intestine. Pediatric Research 71: 46-53. Crossref, Medline, Google Scholar
	Pawankar, R., Canonica, G.W., Holgate, S.T., Lockey, R.F. and Blaiss, M.S., 2013. The WAO white book on allergy. World Allergy Organization, Milwaukee, WI, USA. Google Scholar
	Praveen, P., Jordan, F., Priami, C. and Morine, M.J., 2015. The role of breast-feeding in infant immune system: a systems perspective on the intestinal microbiome. Microbiome 3: 41. Crossref, Medline, Google Scholar
	Prescott, S.L., 2013. Early-life environmental determinants of allergic diseases and the wider pandemic of inflammatory noncommunicable diseases. Journal of Allergy and Clinical Immunology 131: 23-30. Crossref, Medline, Google Scholar
	Pruesse, E., Quast, C., Knittel, K., Fuchs, B.M., Ludwig, W., Peplies, J. and Glockner, F.O., 2007. SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Research 35: 7188-7196. Crossref, Medline, Google Scholar
	R-Core-Team, 2014. R: a language and environment for statistical computing. Available at: http://www.R-project.org. Google Scholar
	Renz-Polster, H., David, M.R., Buist, A.S., Vollmer, W.M., O’Connor, E.A., Frazier, E.A. and Wall, M.A., 2005. Caesarean section delivery and the risk of allergic disorders in childhood. Clinical and Experimental Allergy 35: 1466-1472. Crossref, Medline, Google Scholar
	Rhoads, J.M., Fatheree, N.Y., Norori, J., Liu, Y., Lucke, J.F., Tyson, J.E. and Ferris, M.J., 2009. Altered fecal microflora and increased fecal calprotectin in infants with colic. Journal of Pediatrics 155: 823-828. Crossref, Medline, Google Scholar
	Sim, K., Cox, M.J., Wopereis, H., Martin, R., Knol, J., Li, M.S., Cookson, W.O., Moffatt, M.F. and Kroll, J.S., 2012. Improved detection of bifidobacteria with optimised 16S rRNA-gene based pyrosequencing. PLoS ONE 7: e32543. Crossref, Medline, Google Scholar
	Simone, M., Gozzoli, C., Quartieri, A., Mazzola, G., Di Gioia, D., Amaretti, A., Raimondi, S. and Rossi, M., 2014. The probiotic Bifidobacterium breve B632 inhibited the growth of Enterobacteriaceae within colicky infant microbiota cultures. BioMed Research International: 301053. Medline, Google Scholar
	Sjogren, Y.M., Jenmalm, M.C., Bottcher, M.F., Bjorksten, B. and Sverremark-Ekstrom, E., 2009. Altered early infant gut microbiota in children developing allergy up to 5 years of age. Clinical and Experimental Allergy 39: 518-526. Crossref, Medline, Google Scholar
	Šmilauer, P. and Lepš, J., 2014. Multivariate analysis of ecological data using CANOCO 5, 2nd edition. Cambridge Books Online, Cambridge University Press, Cambridge, UK. Google Scholar
	Soh, S.E., Lee, S.S., Hoon, S.W., Tan, M.Y., Goh, A., Lee, B.W., Shek, L.P., Teoh, O.H., Kwek, K., Saw, S.M., Godfrey, K., Chong, Y.S., Gluckman, P. and van Bever, H.P., 2012. The methodology of the GUSTO cohort study: a novel approach in studying pediatric allergy. Asia Pacific Allergy 2: 144-148. Crossref, Medline, Google Scholar
	Soh, S.E., Tint, M.T., Gluckman, P.D., Godfrey, K.M., Rifkin-Graboi, A., Chan, Y.H., Stunkel, W., Holbrook, J.D., Kwek, K., Chong, Y.S. and Saw, S.M., 2014. Cohort profile: growing up in Singapore towards healthy outcomes (GUSTO) birth cohort study. International Journal of Epidemiology 43: 1401-1409. Crossref, Medline, Google Scholar
	Storey, J.D., 2002. A direct approach to false discovery rates. Journal of the Royal Statistical Society Series B 64: 479-498. Crossref, Google Scholar
	Strachan, D.P., 1989. Hay fever, hygiene, and household size. BMJ 299: 1259-1260. Crossref, Medline, Google Scholar
	Thompson-Chagoyan, O.C., Fallani, M., Maldonado, J., Vieites, J.M., Khanna, S., Edwards, C., Dore, J. and Gil, A., 2011. Faecal microbiota and short-chain fatty acid levels in faeces from infants with cow’s milk protein allergy. International Archives of Allergy and Immunology 156: 325-332. Crossref, Medline, Google Scholar
	Watanabe, S., Narisawa, Y., Arase, S., Okamatsu, H., Ikenaga, T., Tajiri, Y. and Kumemura, M., 2003. Differences in fecal microflora between patients with atopic dermatitis and healthy control subjects. Journal of Allergy and Clinical Immunology 111: 587-591. Crossref, Medline, Google Scholar
	Woodcock, A., Moradi, M., Smillie, F.I., Murray, C.S., Burnie, J.P. and Custovic, A., 2002. Clostridium difficile, atopy and wheeze during the first year of life. Pediatric Allergy and Immunology 13: 357-360. Crossref, Medline, Google Scholar
	Yap, G.C., Loo, E.X., Aw, M., Lu, Q., Shek, L.P. and Lee, B.W., 2014. Molecular analysis of infant fecal microbiota in an Asian at-risk cohort-correlates with infant and childhood eczema. BMC Research Notes 7: 1-6. Medline, Google Scholar