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Cell. 2018 Sep 6;174(6):1388-1405.e21. doi: 10.1016/j.cell.2018.08.041.

Personalized Gut Mucosal Colonization Resistance to Empiric Probiotics Is Associated with Unique Host and Microbiome Features.

Author information

1
Immunology Department, Weizmann Institute of Science, Rehovot, 7610001, Israel; Internal Medicine Department, Tel Aviv Sourasky Medical Center, Tel Aviv, 6423906, Israel.
2
Immunology Department, Weizmann Institute of Science, Rehovot, 7610001, Israel.
3
Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, 7610001, Israel; Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, 7610001, Israel.
4
Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, 7610001, Israel.
5
Department of Veterinary Resources, Weizmann Institute of Science, Rehovot, 7610001, Israel.
6
Department of Gastroenterology and Liver Diseases, Tel Aviv Sourasky Medical Center, Tel Aviv, 6423906, Israel; Research Center for Digestive Tract and Liver Diseases, Tel Aviv Sourasky Medical Center, Tel Aviv 6423906, Israel; Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 6997801, Israel.
7
Migal Galilee Research Institute, Kiryat Shmona, 11016, Israel; Tel Hai College, Upper Galilee, 1220800, Israel.
8
Department of Gastroenterology and Liver Diseases, Tel Aviv Sourasky Medical Center, Tel Aviv, 6423906, Israel; Research Center for Digestive Tract and Liver Diseases, Tel Aviv Sourasky Medical Center, Tel Aviv 6423906, Israel; Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 6997801, Israel. Electronic address: zamir@tlvmc.gov.il.
9
Department of Molecular Cell Biology, Weizmann Institute of Science, Rehovot, 7610001, Israel; Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot, 7610001, Israel. Electronic address: eran.segal@weizmann.ac.il.
10
Immunology Department, Weizmann Institute of Science, Rehovot, 7610001, Israel. Electronic address: eran.elinav@weizmann.ac.il.

Abstract

Empiric probiotics are commonly consumed by healthy individuals as means of life quality improvement and disease prevention. However, evidence of probiotic gut mucosal colonization efficacy remains sparse and controversial. We metagenomically characterized the murine and human mucosal-associated gastrointestinal microbiome and found it to only partially correlate with stool microbiome. A sequential invasive multi-omics measurement at baseline and during consumption of an 11-strain probiotic combination or placebo demonstrated that probiotics remain viable upon gastrointestinal passage. In colonized, but not germ-free mice, probiotics encountered a marked mucosal colonization resistance. In contrast, humans featured person-, region- and strain-specific mucosal colonization patterns, hallmarked by predictive baseline host and microbiome features, but indistinguishable by probiotics presence in stool. Consequently, probiotics induced a transient, individualized impact on mucosal community structure and gut transcriptome. Collectively, empiric probiotics supplementation may be limited in universally and persistently impacting the gut mucosa, meriting development of new personalized probiotic approaches.

PMID:
30193112
DOI:
10.1016/j.cell.2018.08.041

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