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Understanding the interactions between bacteria in the human gut through metabolic modeling

Saeed Shoaie (Institutionen för kemi- och bioteknik, Systembiologi) ; Fredrik H. Karlsson (Institutionen för kemi- och bioteknik, Systembiologi) ; Adil Mardinoglu (Institutionen för kemi- och bioteknik, Systembiologi) ; Intawat Nookaew (Institutionen för kemi- och bioteknik, Systembiologi) ; Sergio Bordel Velasco (Institutionen för kemi- och bioteknik, Systembiologi) ; Jens B. Nielsen (Institutionen för kemi- och bioteknik, Systembiologi)
Scientific Reports (2045-2322). Vol. 3 (2013),
[Artikel, refereegranskad vetenskaplig]

The human gut microbiome plays an influential role in maintaining human health, and it is a potential target for prevention and treatment of disease. Genome-scale metabolic models (GEMs) can provide an increased understanding of the mechanisms behind the effects of diet, the genotype-phenotype relationship and microbial robustness. Here we reconstructed GEMs for three key species, (Bacteroides thetaiotamicron, Eubacterium rectale and Methanobrevibacter smithii) as relevant representatives of three main phyla in the human gut (Bacteroidetes, Firmicutes and Euryarchaeota). We simulated the interactions between these three bacteria in different combinations of gut ecosystems and compared the predictions with the experimental results obtained from colonization of germ free mice. Furthermore, we used our GEMs for analyzing the contribution of each species to the overall metabolism of the gut microbiota based on transcriptome data and demonstrated that these models can be used as a scaffold for understanding bacterial interactions in the gut.


Denna post skapades 2013-09-27. Senast ändrad 2015-11-26.
CPL Pubid: 184149


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Institutioner (Chalmers)

Institutionen för kemi- och bioteknik, Systembiologi (2008-2014)


Annan naturvetenskap

Chalmers infrastruktur

C3SE/SNIC (Chalmers Centre for Computational Science and Engineering)

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Denna publikation ingår i:

Systems Biology of the Gut Microbiome in Metabolic Diseases