Reconstruction of Danio rerio metabolic model accounting for subcellular compartmentalisation.

ABSTRACT: Plant and microbial metabolic engineering is commonly used in the production of functional foods and quality trait improvement. Computational model-based approaches have been used in this important endeavour. However, to date, fish metabolic models have only been scarcely and partially developed, in marked contrast to their prominent success in metabolic engineering. In this study we present the reconstruction of fully compartmentalised models of the Danio rerio (zebrafish) on a global scale. This reconstruction involves extraction of known biochemical reactions in D. rerio for both primary and secondary metabolism and the implementation of methods for determining subcellular localisation and assignment of enzymes. The reconstructed model (ZebraGEM) is amenable for constraint-based modelli

SUBMITTER: Bekaert M 

PROVIDER: S-EPMC3498201 | biostudies-literature | 2012

REPOSITORIES: biostudies-literature