Title | Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods. |
Year of Publication | 2012 |
Authors | N.E. Lewis; H. Nagarajan; B.O. Palsson |
Journal | PLoS Comput Biol |
Abstract | Reconstructed microbial metabolic networks facilitate a mechanistic description of the genotype-phenotype relationship through the deployment of constraint-based reconstruction and analysis (COBRA) methods. As reconstructed networks leverage genomic data for insight and phenotype prediction, the development of COBRA methods has accelerated following the advent of whole-genome sequencing. Here, we describe a phylogeny of COBRA methods that has rapidly evolved from the few early methods, such as flux balance analysis and elementary flux mode analysis, into a repertoire of more than 100 methods. These methods have enabled genome-scale analysis of microbial metabolism for numerous basic and applied uses, including antibiotic discovery, metabolic engineering and modelling of microbial community behaviour. |
PubMed ID | 22367118 |