Perturbations of gut microbiome genes in infants with atopic dermatitis according to feeding type

Journal of Allergy and Clinical Immunology

Volumn 141, Issue 4, 2018, Pages 1310-1319

  Lee, Min Jung ^a   Kang, Mi Jin ^b   Lee, So Yeon ^b   Lee, Eun ^c   Kim, Kangjin ^d   Won, Sungho ^d   Suh, Dong In ^e   Kim, Kyung Won ^f   Sheen, Youn Ho ^g   Ahn, Kangmo ^h   Kim, Bong Soo ^a   Hong, Soo Jong ^b  

^a Hallym University   (South Korea)

^b University of Ulsan College of Medicine   (South Korea)

^c Chonnam National University Medical School   (South Korea)

^d Seoul National University   (South Korea)

^e Seoul National University College of Medicine   (South Korea)

^f Yonsei University College of Medicine   (South Korea)

^g CHA University   (South Korea)

^h Sungkyunkwan University School of Medicine   (South Korea)

Author keywords

Atopic dermatitis; gut; immune; infant; microbiome

Indexed keywords

ESTROGEN; MUCIN; PHOSPHATIDYLINOSITOL 3 KINASE; RNA 16S; BACTERIAL DNA;

AKT SIGNALING; ANTIGEN PRESENTATION; ARTICLE; ARTIFICIAL MILK; ATOPIC DERMATITIS; BACTERIAL CELL; BACTERIAL COLONIZATION; BIFIDOBACTERIUM; BREAST FEEDING; CONTROLLED STUDY; ESCHERICHIA; FECES ANALYSIS; FEMALE; HUMAN; INFANT; INFANT FEEDING; INTESTINE FLORA; LACHNOSPIRACEAE; MAJOR CLINICAL STUDY; MALE; METAGENOME; METAGENOMICS; NONHUMAN; OXIDATIVE PHOSPHORYLATION; PRIORITY JOURNAL; PYROSEQUENCING; QUANTITATIVE ASSAY; REAL TIME POLYMERASE CHAIN REACTION; RUMINOCOCCUS; SPECIES COMPOSITION; SPECIES DOMINANCE; VEILLONELLA; WHOLE GENOME SEQUENCING; CASE CONTROL STUDY; DNA SEQUENCE; FECES; GENETICS; IMMUNOLOGY; MICROBIOLOGY;

BREAST FEEDING; CASE-CONTROL STUDIES; DERMATITIS, ATOPIC; DNA, BACTERIAL; FECES; FEMALE; GASTROINTESTINAL MICROBIOME; HUMANS; INFANT; INFANT FORMULA; MALE; METAGENOME; REAL-TIME POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS, DNA;

EID: 85041963519     PISSN: 00916749     EISSN: 10976825     Source Type: Journal    
DOI: 10.1016/j.jaci.2017.11.045     Document Type: Article

References (46)

1. Shreiner, A.B., Kao, J.Y., Young, V.B., The gut microbiome in health and in disease. Curr Opin Gastroenterol 31 (2015), 69–75.
2. Backhed, F., Roswall, J., Peng, Y., Feng, Q., Jia, H., Kovatcheva-Datchary, P., et al. Dynamics and stabilization of the human gut microbiome during the first year of life. Cell Host Microbe 17 (2015), 690–703.
3. Yatsunenko, T., Rey, F.E., Manary, M.J., Trehan, I., Dominguez-Bello, M.G., Contreras, M., et al. Human gut microbiome viewed across age and geography. Nature 486 (2012), 222–227.
4. Tamburini, S., Shen, N., Wu, H.C., Clemente, J.C., The microbiome in early life: implications for health outcomes. Nat Med 22 (2016), 713–722.
5. Wopereis, H., Oozeer, R., Knipping, K., Belzer, C., Knol, J., The first thousand days—intestinal microbiology of early life: establishing a symbiosis. Pediatr Allergy Immunol 25 (2014), 428–438.
6. Lee, J.Y., Seo, J.H., Kwon, J.W., Yu, J., Kim, B.J., Lee, S.Y., et al. Exposure to gene-environment interactions before 1 year of age may favor the development of atopic dermatitis. Int Arch Allergy Immunol 157 (2012), 363–371.
7. Weidinger, S., Novak, N., Atopic dermatitis. Lancet 387 (2016), 1109–1122.
8. Eichenfield, L.F., Tom, W.L., Chamlin, S.L., Feldman, S.R., Hanifin, J.M., Simpson, E.L., et al. Guidelines of care for the management of atopic dermatitis: section 1. Diagnosis and assessment of atopic dermatitis. J Am Acad Dermatol 70 (2014), 338–351.
9. Fujimura, K.E., Sitarik, A.R., Havstad, S., Lin, D.L., Levan, S., Fadrosh, D., et al. Neonatal gut microbiota associates with childhood multisensitized atopy and T cell differentiation. Nat Med 22 (2016), 1187–1191.
10. Penders, J., Gerhold, K., Stobberingh, E.E., Thijs, C., Zimmermann, K., Lau, S., et al. Establishment of the intestinal microbiota and its role for atopic dermatitis in early childhood. J Allergy Clin Immunol 132 (2013), 601–607.e8.
11. Zheng, H., Liang, H., Wang, Y., Miao, M., Shi, T., Yang, F., et al. Altered gut microbiota composition associated with eczema in infants. PLoS One, 11, 2016, e0166026.
12. Arrieta, M.C., Stiemsma, L.T., Dimitriu, P.A., Thorson, L., Russell, S., Yurist-Doutsch, S., et al. Early infancy microbial and metabolic alterations affect risk of childhood asthma. Sci Transl Med, 7, 2015, 307ra152.
13. West, C.E., Ryden, P., Lundin, D., Engstrand, L., Tulic, M.K., Prescott, S.L., Gut microbiome and innate immune response patterns in IgE-associated eczema. Clin Exp Allergy 45 (2015), 1419–1429.
14. Abrahamsson, T.R., Jakobsson, H.E., Andersson, A.F., Bjorksten, B., Engstrand, L., Jenmalm, M.C., Low gut microbiota diversity in early infancy precedes asthma at school age. Clin Exp Allergy 44 (2014), 842–850.
15. Chen, C.C., Chen, K.J., Kong, M.S., Chang, H.J., Huang, J.L., Alterations in the gut microbiotas of children with food sensitization in early life. Pediatr Allergy Immunol 27 (2016), 254–262.
16. Lee, E., Lee, S.Y., Kang, M.J., Kim, K., Won, S., Kim, B.J., et al. Clostridia in the gut and onset of atopic dermatitis via eosinophilic inflammation. Ann Allergy Asthma Immunol 117 (2016), 91–92.e1.
17. Song, H., Yoo, Y., Hwang, J., Na, Y.C., Kim, H.S., Faecalibacterium prausnitzii subspecies-level dysbiosis in the human gut microbiome underlying atopic dermatitis. J Allergy Clin Immunol 137 (2016), 852–860.
18. Nylund, L., Nermes, M., Isolauri, E., Salminen, S., de Vos, W.M., Satokari, R., Severity of atopic disease inversely correlates with intestinal microbiota diversity and butyrate-producing bacteria. Allergy 70 (2014), 241–244.
19. Waligora-Dupriet, A.J., Campeotto, F., Romero, K., Mangin, I., Rouzaud, G., Menard, O., et al. Diversity of gut Bifidobacterium species is not altered between allergic and non-allergic French infants. Anaerobe 17 (2011), 91–96.
20. Maslowski, K.M., Mackay, C.R., Diet, gut microbiota and immune responses. Nat Immunol 12 (2011), 5–9.
21. Franzosa, E.A., Hsu, T., Sirota-Madi, A., Shafquat, A., Abu-Ali, G., Morgan, X.C., et al. Sequencing and beyond: integrating molecular ‘omics’ for microbial community profiling. Nat Rev Microbiol 13 (2015), 360–372.
22. Yang, H.J., Lee, S.Y., Suh, D.I., Shin, Y.H., Kim, B.J., Seo, J.H., et al. The Cohort for Childhood Origin of Asthma and allergic diseases (COCOA) study: design, rationale and methods. BMC Pulm Med, 14, 2014, 109.
23. Hanifin, J.M., Rajka, G., Diagnostic features of atopic dermatitis. Acta Derm Venereol Suppl (Stockh) 92 (1980), 44–47.
24. Ali, M.S., Groenwold, R.H., Belitser, S.V., Pestman, W.R., Hoes, A.W., Roes, K.C., et al. Reporting of covariate selection and balance assessment in propensity score analysis is suboptimal: a systematic review. J Clin Epidemiol 68 (2015), 112–121.
25. Nguyen, T.L., Collins, G.S., Spence, J., Daures, J.P., Devereaux, P.J., Landais, P., et al. Double-adjustment in propensity score matching analysis: choosing a threshold for considering residual imbalance. BMC Med Res Methodol, 17, 2017, 78.
26. Jeon, Y.S., Chun, J., Kim, B.S., Identification of household bacterial community and analysis of species shared with human microbiome. Curr Microbiol 67 (2013), 557–563.
27. Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D.R., et al. Enterotypes of the human gut microbiome. Nature 473 (2011), 174–180.
28. Koren, O., Knights, D., Gonzalez, A., Waldron, L., Segata, N., Knight, R., et al. A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets. PLoS Comput Biol, 9, 2013, e1002863.
29. Koenig, J.E., Spor, A., Scalfone, N., Fricker, A.D., Stombaugh, J., Knight, R., et al. Succession of microbial consortia in the developing infant gut microbiome. Proc Natl Acad Sci U S A 108:suppl 1 (2011), 4578–4585.
30. Storro, O., Oien, T., Langsrud, O., Rudi, K., Dotterud, C., Johnsen, R., Temporal variations in early gut microbial colonization are associated with allergen-specific immunoglobulin E but not atopic eczema at 2 years of age. Clin Exp Allergy 41 (2011), 1545–1554.
31. Dominguez-Bello, M.G., Blaser, M.J., Asthma: undoing millions of years of coevolution in early life?. Sci Transl Med, 7, 2015, 307fs39.
32. Mueller, N.T., Bakacs, E., Combellick, J., Grigoryan, Z., Dominguez-Bello, M.G., The infant microbiome development: mom matters. Trends Mol Med 21 (2015), 109–117.
33. Ridlon, J.M., Kang, D.J., Hylemon, P.B., Bajaj, J.S., Bile acids and the gut microbiome. Curr Opin Gastroenterol 30 (2014), 332–338.
34. Angelin, A., Gil-de-Gomez, L., Dahiya, S., Jiao, J., Guo, L., Levine, M.H., et al. Foxp3 reprograms T cell metabolism to function in low-glucose, high-lactate environments. Cell Metab 25 (2017), 1282–1293.e7.
35. Mandal, C.C., Ghosh Choudhury, G., Ghosh-Choudhury, N., Phosphatidylinositol 3 kinase/Akt signal relay cooperates with smad in bone morphogenetic protein-2-induced colony stimulating factor-1 (CSF-1) expression and osteoclast differentiation. Endocrinology 150 (2009), 4989–4998.
36. Chiu, T., Santiskulvong, C., Rozengurt, E., EGF receptor transactivation mediates ANG II-stimulated mitogenesis in intestinal epithelial cells through the PI3-kinase/Akt/mTOR/p70S6K1 signaling pathway. Am J Physiol Gastrointest Liver Physiol 288 (2005), G182–G194.
37. Abella, V., Scotece, M., Conde, J., Pino, J., Gonzalez-Gay, M.A., Gomez-Reino, J.J., et al. Leptin in the interplay of inflammation, metabolism and immune system disorders. Nat Rev Rheumatol 13 (2017), 100–109.
38. Goodman, W.A., Garg, R.R., Reuter, B.K., Mattioli, B., Rissman, E.F., Pizarro, T.T., Loss of estrogen-mediated immunoprotection underlies female gender bias in experimental Crohn's-like ileitis. Mucosal Immunol 7 (2014), 1255–1265.
39. Parlato, M., Yeretssian, G., NOD-like receptors in intestinal homeostasis and epithelial tissue repair. Int J Mol Sci 15 (2014), 9594–9627.
40. Kawai, T., Akira, S., Toll-like receptors and their crosstalk with other innate receptors in infection and immunity. Immunity 34 (2011), 637–650.
41. Tourneur, E., Chassin, C., Neonatal immune adaptation of the gut and its role during infections. Clin Dev Immunol, 2013, 2013, 270301.
42. Png, C.W., Linden, S.K., Gilshenan, K.S., Zoetendal, E.G., McSweeney, C.S., Sly, L.I., et al. Mucolytic bacteria with increased prevalence in IBD mucosa augment in vitro utilization of mucin by other bacteria. Am J Gastroenterol 105 (2010), 2420–2428.
43. Derrien, M., Vaughan, E.E., Plugge, C.M., de Vos, W.M., Akkermansia muciniphila gen. nov., sp. nov., a human intestinal mucin-degrading bacterium. Int J Syst Evol Microbiol 54 (2004), 1469–1476.
44. Koropatkin, N.M., Cameron, E.A., Martens, E.C., How glycan metabolism shapes the human gut microbiota. Nat Rev Microbiol 10 (2012), 323–335.
45. Candela, M., Rampelli, S., Turroni, S., Severgnini, M., Consolandi, C., De Bellis, G., et al. Unbalance of intestinal microbiota in atopic children. BMC Microbiol, 12, 2012, 95.
46. Biddle, A., Stewart, L., Blanchard, J., Leschine, S., Untangling the genetic basis of fibrolytic specialization by Lachnospiraceae and Ruminococcaceae in diverse gut communities. Diversity 5 (2013), 627–640.