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Neiburga2022 - Arabidopsis thaliana wild-type MEP pathway kinetic model

ABSTRACT: Kinetic model of extended MEP pathway in wild-type Arabidopsis thaliana. This model was used for the Parameter Estimation task in COPASI. Reactions for isoprene and cis-abienol synthesis are included but made inactive by setting their k=0. A new Parameter Estimation task can be performed by accesing COPASI/Tasks/Parameter Estimation. Notes about the parameters used in the model can be found in SupplModPar. More description in Total optimization potential (TOP) approach based constrained design of isoprene and cis-abienol production in A. thaliana, Authors: Katrina D. Neiburga, Reinis Muiznieks, Darta M. Zake, Agris Pentjuss, Vitalijs Komasilovs, Johann Rohwer, Alain Tissier, Egils Stalidzans

SUBMITTER: Reinis Muiznieks

PROVIDER: MODEL2206090001 | BioModels | 2023-02-04

REPOSITORIES: BioModels

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Neiburga2022 - Arabidopsis thaliana MEP pathway with cis-abienol synthesis

Project description:Kinetic model of extended MEP pathway in Arabidopsis thaliana for cis-abienol production. This model was used for determining total optimization potential (TOP) of cis-abienol production in Arabidopsis thaliana using Spacescanner (https://github.com/atiselsts/spacescanner). This model was used to make designs A, B and C. An optimization task in COPASI can be perfomed using this model by accesing COPASI/Tasks/Optimization. Parameters which will be changed during the optimization and the optimization constraints can be selected. More description in Total optimization potential (TOP) approach based constrained design of isoprene and cis-abienol production in A. thaliana, Authors: Katrina D. Neiburga, Reinis Muiznieks, Darta M. Zake, Agris Pentjuss, Vitalijs Komasilovs, Johann Rohwer, Alain Tissier, Egils Stalidzans

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