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    Ion and Immunity Study Group, Glasgow Dental College, College of MedicineIon and Immunity Analysis Group, Glasgow Dental School, College of Medicine, College of Healthcare, Veterinary and Life Sciences, University of Glasgow, Scotland, UK. Received:MayAccepted:MayReferences . Hooper LV, Littman DR, Macpherson AJ. Interactions in between the microbiota along with the immune technique. Science. ;:. . Mshvildadze M, Neu J. The infant intestinal microbiome: buddy or foe Early Hum Dev. ; Suppl :. . Brandtzaeg P. Homeostatic influence of indigenous microbiota and secretory immunity. Benef Microbes. ;:. . Woof JM, Mesteck J. Mucosal immunoglobulins. Immunol Rev. ;:. . Koch C, G ther S, Desta AF, H schmann T, M ler S. Cytometric fingerprinting for analyzing microbial intracommunity structure variation and identifying subcommunity function. Nat Protoc. ;:. . PerisBondia F, Latorre A, Artacho A, Moya A, D’Auria G. The active human gut microbiota differs from the total microbiota. PloS One. ;, e. . Tsuruta T, Inoue R, Iwanaga T, Hara H, Yajima T. Improvement of a process for the Title Loaded From File identification of SIgAcoated bacterial composition in mouse and human feces. Biosci Biotechnol Biochem. ;:. . Tsuruta T, Inoue R, Tsukahara T, Nakamoto M, Hara H, Ushida K, et al. Commensal bacteria coated by secretory immunoglobulin A and immunoglobulin G in the gastrointestinal tract of pigs and calves. Anim Sci J. ;:. . Human Microbiome Project Consortium. Structure, function and diversity in the healthy human microbiome. Nature. ;:. . Sim Soro A, TomI, CabreraRubio R, Catalan MD, Nyvad B, Mira A. Microbial geography in the oral cavity. J Dent Research. ;:. . Wang Q, Garrity GM, Tiedje JM, Cole JR. Naive Bayesian classifier for rapid assignment of rRNA sequences in to the new bacterial taxonomy. Appl Env Microbiol. ;:. . Lozupone C, Hamady M, Knight R. UniFrac n on the web tool for comparing microbial community diversity inside a phylogenetic context. BMC Bioinformatics. ;:. . Biesbroek G, Sanders EA, Roeselers G, Wang X, Caspers MP, Trzciski K, et al. Deep sequencing analyses of low density microbial communities: functioning in the boundary of accurate microbiota detection. PLoS A single. ;, e. . van der Waaij LA, Kroese FG, Visser A, Nelis GF, Westerveld BD, Jansen PL, et al. Immunoglobulin coating of faecal bacteria in inflammatory bowel disease. Eur J Gastroenterol Hepatol. ;:. . Conley ME, Delacroix DL. Intravascular and mucosal immunoglobulin A: two separate but related systems of immune defense Ann Intern Med. ;:. . Green GA. Autologous IgM, IgA, and complement binding to sickle erythrocytes in vivo. Evidence for the existence of dense sickle cell subsets. Blood. ;:. . D’Auria G, PerisBondia F, DzunkovM, Mira A, Collado MC, Latorre A, et al. Active and secreted IgAcoated bacterial fractions from the human gut reveal an underrepresented microbiota core. Sci Rep. ;:. . Cole JR, Wang Q, Cardenas E, Fish J, Chai B, Farris RJ, et al. The ribosomal database project: improved alignments and new tools for rrna evaluation. Nucleic Acids Res. ;:D. . Ghannoum MA, Jurevic RJ, Mukherjee PK, Cui F, Sikaroodi M, Naqvi A, et al. Characterization of the oral fungal microbiome (mycobiome) in healthy individuals. PLoS Pathog. ;:e. . Palm NW, de Zoete MR, Cullen TW, Barry NA, Stefanowski J, Hao L, et al. Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. Cell. ;:.Souza et al. BMC Microbiology: DOI .szRESEARCH ARTICLEOpen AccessShifts in taxonomic and functional microbial diversity with agriculture: How fragile will be the Brazilian CerradoRenata Carolini Souza,,.