Reference : Generation of genome-scale metabolic reconstructions for 773 members of the human gut...
Scientific journals : Article
Life sciences : Multidisciplinary, general & others
Systems Biomedicine
http://hdl.handle.net/10993/28942
Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota
English
Magnusdottir, Stefania mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Heinken, Almut Katrin mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Kutt, Laura mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB)]
Ravcheev, Dmitry mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Bauer, Eugen mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Noronha, Alberto mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Greenhalgh, Kacy mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Jäger, Christian mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Baginska, Joanna mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Wilmes, Paul mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Fleming, Ronan MT mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Thiele, Ines mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Nov-2016
Nature Biotechnology
Nature Publishing Group
Yes (verified by ORBilu)
International
1087-0156
1546-1696
New York
NY
[en] Genome-scale metabolic models derived from human gut metagenomic data can be used as a framework to elucidate how microbial communities modulate human metabolism and health. We present AGORA (assembly of gut organisms through reconstruction and analysis), a resource of genome-scale metabolic reconstructions semi-automatically generated for 773 human gut bacteria. Using this resource, we identified a defined growth medium for Bacteroides caccae ATCC 34185. We also showed that interactions among modeled species depend on both the metabolic potential of each species and the nutrients available. AGORA reconstructions can integrate either metagenomic or 16S rRNA sequencing data sets to infer the metabolic diversity of microbial communities. AGORA reconstructions could provide a starting point for the generation of high-quality, manually curated metabolic reconstructions. AGORA is fully compatible with Recon 2, a comprehensive metabolic reconstruction of human metabolism, which will facilitate studies of host–microbiome interactions.
Luxembourg Centre for Systems Biomedicine (LCSB)
http://hdl.handle.net/10993/28942
10.1038/nbt.3703

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