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Kinetic modelling of plant metabolic pathways Journal of ...

01-03-2012  The simulation of plant metabolic pathways with enzyme kinetic models (Schallau and Junker, 2010), as well as general systems approaches for modelling pathways (Pfau et al., 2011), have recently been reviewed.

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Kinetic modelling of plant metabolic pathways

Kinetic modelling of plant metabolic pathways Johann M. Rohwer* Triple-J Group for Molecular Cell Physiology, Department of Biochemistry, Stellenbosch University, Private Bag X1, Matieland, 7602 ... [email protected] been directed towards DNA and protein sequence analyses. However, it is becoming widely appreciated that the

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(PDF) Kinetic modelling of plant metabolic pathways ...

Kinetic modelling of metabolism (iii) Every elementary mode has an overall stoichiometry The simulation of plant metabolic pathways with enzyme and therefore provides a yield of product molecules formed kinetic models (Schallau and Junker, 2010), as

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[PDF] Kinetic modelling of plant metabolic pathways ...

This paper provides a review of kinetic modelling of plant metabolic pathways as a tool for analysing their control and regulation. An overview of different modelling strategies is presented, starting with those approaches that only require a knowledge of the network stoichiometry; these are referred to as structural. Flux-balance analysis, metabolic flux analysis using isotope labelling, and ...

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Kinetic modelling of plant metabolic pathways

The kinetic modelling approach is exemplified with discussion of three models from the general plant physiology literature. With the aid of kinetic modelling it is possible to perform a control analysis of a plant metabolic system, to identify potential targets for biotechnological manipulation, as well as to ascertain the regulatory importance of different enzymes (including isoforms of the ...

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Kinetic metabolic modelling for the control of plant cells ...

07-07-2009  A previously developed kinetic metabolic model for plant metabolism was used in a context of identification and control of intracellular phosphate (Pi) dynamics. Experimental data from batch flask cultures of Eschscholtiza californica cells was used to calibrate the model parameters for the slow dynamics (growth, nutrition, anabolic pathways, etc.).

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Kinetic modelling of plant metabolic pathways.

Kinetic modelling of plant metabolic pathways. Rohwer JM(1). Author information: (1)Triple-J Group for Molecular Cell Physiology, Department of Biochemistry, Stellenbosch University, Private Bag X1, Matieland, 7602 Stellenbosch, South Africa. [email protected]

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Kinetic modelling of plant metabolic pathways

The kinetic modelling approach is exemplified with discussion of three models from the general plant physiology literature. With the aid of kinetic modelling it is possible to perform a control analysis of a plant metabolic system, to identify potential targets for biotechnological manipulation, as well as to ascertain the regulatory importance of different enzymes (including isoforms of the ...

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Simulating Plant Metabolic Pathways with Enzyme kinetic ...

An Open Access Journal available online Simulating Plant Metabolic Pathways with Enzyme kinetic Model using Semi-Analytical Method Avan E. D1,2,*, Okunriboye J. E.2,

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Kinetic metabolic modelling for the control of plant cells ...

A previously developed kinetic metabolic model for plant metabolism was used in a context of identification and control of intracellular phosphate (Pi) dynamics. Experimental data from batch flask cultures of Eschscholtiza californica cells was used to calibrate the model parameters for the slow dynamics (growth, nutrition, anabolic pathways, etc.).

Get price

Modeling Plant Metabolism: From Network Reconstruction to ...

04-02-2020  Enzyme kinetic models explore pathways in mechanistic detail, and we discuss different approaches to determine or estimate kinetic parameters. In this review, we describe recent advances and challenges in modeling plant metabolism. Expected final online publication date for the Annual Review of Plant Biology, Volume 71 is April 29, 2020.

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Applications of Kinetic Modeling to Plant Metabolism ...

Request PDF Applications of Kinetic Modeling to Plant Metabolism The importance of kinetic modeling for understanding the control and regulation of complex metabolic networks is increasingly ...

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A kinetic model describes metabolic response to ...

29-03-2010  In recent years there has been much interest in the genetic enhancement of plant metabolism; however, attempts at genetic modification are often unsuccessful due to an incomplete understanding of net...

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Structural kinetic modeling of metabolic networks PNAS

08-08-2006  To develop and investigate detailed mathematical models of metabolic processes is one of the primary challenges in systems biology. However, despite considerable advance in the topological analysis of metabolic networks, kinetic modeling is still often severely hampered by inadequate knowledge of the enzyme–kinetic rate laws and their associated parameter values.

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Simplified modelling of metabolic pathways for flux ...

Explicit modelling of metabolic networks relies on well-known mathematical tools and specialized computer programs. However, identifying and estimating the values of the very numerous enzyme parameters inherent to the models remain a tedious and difficult task, and the rate equations of the reactions are usually not known in sufficient detail.

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Estimation of metabolic fluxes, expression levels and ...

12-03-2007  Introduction. Plants, as major primary producers of biochemical substances, have enormous biosynthetic potential that could be explored more fully using methods of metabolic engineering, as indicated by a series of recent reviews (Hanson and Shanks, 2002; Rontein et al., 2002).The basis for rational design of metabolic paths is a thorough quantitative understanding of the paths

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Kinetic modelling of plant metabolic pathways.

Kinetic modelling of plant metabolic pathways. Rohwer JM(1). Author information: (1)Triple-J Group for Molecular Cell Physiology, Department of Biochemistry, Stellenbosch University, Private Bag X1, Matieland, 7602 Stellenbosch, South Africa. [email protected]

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Simulating Plant Metabolic Pathways with Enzyme-Kinetic Models

computational models of metabolism (Steuer and Junker, 2009). Deterministic, ODE-based enzyme-kinetic models have the longest history in the area of metabolic pathway modeling. The local complexity of kinetic models leads to the fact that for reasons of feasibility usually single pathways or even just some reactions are modeled.

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(PDF) Kinetic metabolic modelling for the control of plant ...

Kinetic metabolic modelling for the control of plant cells cytoplasmic phosphate. Journal of Theoretical Biology, 2009. Michel Perrier. Download PDF. Download Full PDF Package. This paper. A short summary of this paper. 37 Full PDFs related to this paper.

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Kinetic modeling of metabolism: Present and future ...

01-06-2021  Comprehensive kinetic models of plant metabolism traditionally have focused on CO 2-capture pathways [50,51], carbohydrate metabolism , and amino acids metabolism . Wang et al have built a small kinetic model of monolignol biosynthesis in Populus trichocarpa to predict the effect of pathway enzymes on lignin content and composition and also elucidate the regulation involved in

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Modeling Plant Metabolism: From Network Reconstruction to ...

04-02-2020  Enzyme kinetic models explore pathways in mechanistic detail, and we discuss different approaches to determine or estimate kinetic parameters. In this review, we describe recent advances and challenges in modeling plant metabolism. Expected final online publication date for the Annual Review of Plant Biology, Volume 71 is April 29, 2020.

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Kinetic modelling of metabolic pathways Stanford, Natalie ...

Kinetic modelling of metabolic pathways Natalie J Stanford1 ;2, Kieran Smallbone 3 November 21, 2011 1. Integrative Systems Biology Doctoral Training Centre; 2. Manchester Centre for Integrative Systems Biology; and 3. School of Mathematics, University of Manchester, M13 9PL, UK. Abstract We show how to build a kinetic model of a metabolic pathway.

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Simulating Plant Metabolic Pathways with Enzyme-Kinetic Models

Bioinformatics infrastructure helpful for kinetic modeling of plant metabolic pathwaysInformation for the model creation process is collected from databases, and the models are analyzed with simulators. To standardize models and simulations, data standards have been established for the exchange and description of models and simulations. Finally, there are public model repositories in which ...

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Simulating Plant Metabolic Pathways with Enzyme-Kinetic ...

The mathematical models of plant metabolic pathways are discussed. Kinetic modeling is the most detailed mathematical description of a metabolic network and constitutes an important branch in the growing fields of systems biology. This model is based on non-stationary diffusion equations containing a nonlinear term related to the Michaelis ...

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Experimental and mathematical approaches to modeling plant ...

01-08-2007  Kinetic models of plant metabolic networksThe majority of complex kinetic models generated to describe the control of plant metabolism are focused on photosynthesis and related pathways of central carbon metabolism , which are among the most studied pathways in plants.

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A kinetic model describes metabolic response to ...

29-03-2010  In recent years there has been much interest in the genetic enhancement of plant metabolism; however, attempts at genetic modification are often unsuccessful due to an incomplete understanding of net...

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