The symbiotic relationship between the mammalian host and gut microbes has fascinated many researchers in recent years. Use of germ-free animals has contributed to our understanding of how commensal microbes affect the host. Immunodeficiency animals lacking specific components of the mammalian immune system, on the other hand, enable studying of the reciprocal function-how the host controls which microbes to allow for symbiosis. Here we review the recent advances and discuss our perspectives of how to better understand the latter, with an emphasis on the effects of adaptive immunity on the composition and diversity of gut commensal bacteria.
Keywords: AID, activation-induced cytidine deaminase; FISH, fluorescent in situ hybridization; HIV, human immunodeficiency virus; IHC, immunohistochemistry; LN, lymph node; Rag1KO, recombination-activating gene 1-knockout; SFB, segmented filamentous bacteria; adaptive immunity; adoptive transfer; colonization; humanized mice; microbiota; pIgR, polymeric Ig receptor; rRNA.