Application of (Bio-) Chemical Engineering Concepts and Rules in Bioinformatics. Review of a CCM-Based Modular and Hybrid Kinetic Model Used to Simulate and Optimize a Bioreactor with Genetically Modified Cells

Abstract

This work briefly reviews the main concepts and principles used to solve difficult biochemical engineering, or bioengineering problems, by using extended structured cell kinetic models (including nano-scale state variables) linked in hybrid models to the biological reactor dynamic models (including macro-scale state variables). Exemplification is made for the case of the numerical methodology used by [Maria, 2021] to derive a structured hybrid modular kinetic model able to simulate the dynamics of a Fed-batch bioreactor (FBR), at both cell and bulk-phase species levels. The approached FBR includes a genetically modified E. coli culture used for the tryptophan (TRP) production. Eventually this complex hybrid dynamic model was used by [Maria and Renea, 2021] to derived the FBR optimal operating policy leading to the TRP production maximization.