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          Institute: MPI für molekulare Pflanzenphysiologie     Collection: Publikationen Pflanzenphysiologie     Display Documents



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ID: 401528.0, MPI für molekulare Pflanzenphysiologie / Publikationen Pflanzenphysiologie
Biosynthetic potentials of metabolites and their hierarchical organization
Authors:Matthaeus, F.; Salazar, C.; Ebenhoeh, O.
Date of Publication (YYYY-MM-DD):2008
Title of Journal:PLoS Computational Biology
Volume:4
Issue / Number:4
Sequence Number of Article:e1000049
Review Status:not specified
Audience:Not Specified
Abstract / Description:A major challenge in systems biology is to understand how complex and highly connected metabolic networks are organized. The structure of these networks is investigated here by identifying sets of metabolites that have a similar biosynthetic potential. We measure the biosynthetic potential of a particular compound by determining all metabolites than can be produced from it and, following a terminology introduced previously, call this set the scope of the compound. To identify groups of compounds with similar scopes, we apply a hierarchical clustering method. We find that compounds within the same cluster often display similar chemical structures and appear in the same metabolic pathway. For each cluster we define a consensus scope by determining a set of metabolites that is most similar to all scopes within the cluster. This allows for a generalization from scopes of single compounds to scopes of a chemical family. We observe that most of the resulting consensus scopes overlap or are fully contained in others, revealing a hierarchical ordering of metabolites according to their biosynthetic potential. Our investigations show that this hierarchy is not only determined by the chemical complexity of the metabolites, but also strongly by their biological function. As a general tendency, metabolites which are necessary for essential cellular processes exhibit a larger biosynthetic potential than those involved in secondary metabolism. A central result is that chemically very similar substances with different biological functions may differ significantly in their biosynthetic potentials. Our studies provide an important step towards understanding fundamental design principles of metabolic networks determined by the structural and functional complexity of metabolites.
Free Keywords:escherichia-coli; networks; evolution; pathways; world; DNA
External Publication Status:published
Document Type:Article
Version Comment:Automatic journal name synchronization
Communicated by:N. N.
Affiliations:MPI für molekulare Pflanzenphysiologie/GoForSys/AG Ebenhoeh
External Affiliations:Interdisciplinary Center for Scientific Computing, University of Heidelberg, Heidelberg, Germany
German Cancer Research Center, Heidelberg, Germany
Institute for Biochemistry and Biology, University of Potsdam, Potsdam, Germany
Identifiers:DOI:10.1371/journal.pcbi.1000049
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