Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 533091
Title More than just a gut feeling : constraint-based genome-scale metabolic models for predicting functions of human intestinal microbes
Author(s) Ark, Kees C.H. van der; Heck, Ruben G.A. van; Martins Dos Santos, Vitor A.P.; Belzer, Clara; Vos, Willem M. de
Source Microbiome 5 (2017)1. - ISSN 2049-2618 - p. 78 - 78.
Department(s) Microbiological Laboratory
Systems and Synthetic Biology
Publication type Refereed Article in a scientific journal
Publication year 2017
Keyword(s) Culturing - Genome-scale metabolic model - Interspecies interactions - Microbiome - Microbiota - Minimal media - Phenotype prediction
Abstract The human gut is colonized with a myriad of microbes, with substantial interpersonal variation. This complex ecosystem is an integral part of the gastrointestinal tract and plays a major role in the maintenance of homeostasis. Its dysfunction has been correlated to a wide array of diseases, but the understanding of causal mechanisms is hampered by the limited amount of cultured microbes, poor understanding of phenotypes, and the limited knowledge about interspecies interactions. Genome-scale metabolic models (GEMs) have been used in many different fields, ranging from metabolic engineering to the prediction of interspecies interactions. We provide showcase examples for the application of GEMs for gut microbes and focus on (i) the prediction of minimal, synthetic, or defined media; (ii) the prediction of possible functions and phenotypes; and (iii) the prediction of interspecies interactions. All three applications are key in understanding the role of individual species in the gut ecosystem as well as the role of the microbiota as a whole. Using GEMs in the described fashions has led to designs of minimal growth media, an increased understanding of microbial phenotypes and their influence on the host immune system, and dietary interventions to improve human health. Ultimately, an increased understanding of the gut ecosystem will enable targeted interventions in gut microbial composition to restore homeostasis and appropriate host-microbe crosstalk.
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