FastKnock: an efficient next-generation approach to identify all knockout strategies for strain optimization.

ABSTRACT: Overproduction of desired native or nonnative biochemical(s) in (micro)organisms can be achieved through metabolic engineering. Appropriate rewiring of cell metabolism is performed by making rational changes such as insertion, up-/down-regulation and knockout of genes and consequently metabolic reactions. Finding appropriate targets (including proper sets of reactions to be knocked out) for metabolic engineering to design optimal production strains has been the goal of a number of computational algorithms. We developed FastKnock, an efficient next-generation algorithm for identifying all possible knockout strategies (with a predefined maximum number of reaction deletions) for the growth-coupled overproduction of biochemical(s) of interest. We achieve this by developing a special depth-firs

SUBMITTER: Hassani L 

PROVIDER: S-EPMC10823710 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature