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Nat Commun. 2015 Sep 22;6:8292. doi: 10.1038/ncomms9292.

The outer mucus layer hosts a distinct intestinal microbial niche.

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Maurice Müller Laboratories (DKF), Universitätsklinik für Viszerale Chirurgie und Medizin Inselspital, University of Bern, Murtenstrasse 35, 3010 Bern, Switzerland.
Institute of Molecular Systems Biology, Swiss Federal Institute of Technology (ETH) Zürich, Auguste-Piccard-Hof 1, 8093 Zürich, Switzerland.
Max-von-Pettenkofer Institute, German Center for Infection Research (DZIF), Pettenkoferstrasse 9a, Partner site LMU Munich, D-80336 Munich, Germany.
Theodor Kocher Institute, Freiestrasse 1, University of Bern, 3012 Bern, Switzerland.


The overall composition of the mammalian intestinal microbiota varies between individuals: within each individual there are differences along the length of the intestinal tract related to host nutrition, intestinal motility and secretions. Mucus is a highly regenerative protective lubricant glycoprotein sheet secreted by host intestinal goblet cells; the inner mucus layer is nearly sterile. Here we show that the outer mucus of the large intestine forms a unique microbial niche with distinct communities, including bacteria without specialized mucolytic capability. Bacterial species present in the mucus show differential proliferation and resource utilization compared with the same species in the intestinal lumen, with high recovery of bioavailable iron and consumption of epithelial-derived carbon sources according to their genome-encoded metabolic repertoire. Functional competition for existence in this intimate layer is likely to be a major determinant of microbiota composition and microbial molecular exchange with the host.

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