Abstract
Mathematical modeling is a promising tool for better understanding of cellular processes. In recent years, the development of coarse-grained models has gained attraction since these simple models are able to capture and describe a broad range of growth conditions. Coarse-grained models often comprise only two cellular components, a low molecular component as representative for central metabolism and energy generation and a macromolecular component, representing the entire proteome. A framework is presented that presents a strict mass conservative model for bacterial growth during a biotechnological production process. After providing interesting properties for the steady-state solution, applications are presented 1) for a production process of an amino acid and 2) production of a metabolite from central metabolism.
Highlights
To gain a full understanding of cellular processes, the usage of mathematical modeling and the analysis of those have become a standard in metabolic engineering, systems biology, and process engineering
Every bacterial population has to cope with its environment, scavenge for nutrients, and coordinate its central metabolism for growth and survival
A good model comprises coarse-grained models because they are simple in the model structure but take into account the most important cellular processes
Summary
To gain a full understanding of cellular processes, the usage of mathematical modeling and the analysis of those have become a standard in metabolic engineering, systems biology, and process engineering. Coarse-grained models have been used in the recent years and are frequently used to get a better understanding on cellular control strategies, gene expression, and resource allocation Bollenbach et al (2009), Scott et al (2010). In this type of model, levels of cellular organization with similar functions are “lumped” together into a small number of modules Maitra and Dill (2015), Giordano et al (2016), Pandey and Jain (2016), Sharma et al (2018), Molenaar et al (2009). An important hallmark of coarse-grained models is allocation of cellular resources This is expressed, for example, by linking biochemical reactions to the available fraction of the proteome for the respective module. Problems of resource allocation as well as problems of parameter estimation are addressed
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