Reference : Membrane transporters in a human genome-scale metabolic knowledgebase and their impli...
Scientific journals : Article
Life sciences : Multidisciplinary, general & others
http://hdl.handle.net/10993/17456
Membrane transporters in a human genome-scale metabolic knowledgebase and their implications for disease
English
Sahoo, Swagatika mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > > ; University of Iceland > Center for Systems Biology]
Aurich, Maike Kathrin mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > > ; University of Iceland > Center for Systems Biology]
Jonsson, Jon mailto [University of Iceland > Department of Biochemistry and Molecular Biology, Faculty of Medicine > > ; National University Hospital of Iceland > Department of Genetics and Molecular Medicine, Landspitali]
Thiele, Ines mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > > ; University of Iceland > Center for Systems Biology]
Mar-2014
Frontiers in Physiology
Frontiers Research Foundation
5
1-24
Yes
International
1664-042X
Lausanne
Switzerland
[en] human metabolism ; transport mechanisms ; constraint-based modeling ; inborn errors of metabolism ; cancer ; metabolicnetworksandpathways
[en] Membrane transporters enable efficient cellular metabolism, aid in nutrient sensing, and have been associated with various diseases, such as obesity and cancer. Genome-scale metabolic network reconstructions capture genomic, physiological, and biochemical knowledge of a target organism, along with a detailed representation of the cellular metabolite transport mechanisms. Since the first reconstruction of human metabolism, Recon 1, published in 2007, progress has been made in the field of metabolite transport. Recently, we published an updated reconstruction, Recon 2, which significantly improved the metabolic coverage and functionality. Human metabolic reconstructions have been used to investigate the role of metabolism in disease and to predict biomarkers and drug targets. Given the importance of cellular transport systems in understanding human metabolism in health and disease, we analyzed the coverage of transport systems for various metabolite classes in Recon 2. We will review the current knowledge on transporters (i.e., their preferred substrates, transport mechanisms, metabolic relevance, and disease association for each metabolite class). We will assess missing coverage and propose modifications and additions through a transport module that is functional when combined with Recon 2. This information will be valuable for further refinements. These data will also provide starting points for further experiments by highlighting areas of incomplete knowledge. This review represents the first comprehensive overview of the transporters involved in central metabolism and their transport mechanisms, thus serving as a compendium of metabolite transporters specific for human metabolic reconstructions.
Luxembourg Centre for Systems Biomedicine (LCSB): Molecular Systems Physiology (Thiele Group)
http://hdl.handle.net/10993/17456
10.3389/fphys.2014.00091

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