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- Almquist, Joachim, 1980, et al.
(författare)
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Kinetic models in industrial biotechnology - Improving cell factory performance
- 2014
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Ingår i: Metabolic Engineering. - : Elsevier BV. - 1096-7176 .- 1096-7184. ; 24, s. 38-60
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Tidskriftsartikel (refereegranskat)abstract
- An increasing number of industrial bioprocesses capitalize on living cells by using them as cell factories that convert sugars into chemicals. These processes range from the production of bulk chemicals in yeasts and bacteria to the synthesis of therapeutic proteins in mammalian cell lines. One of the tools in the continuous search for improved performance of such production systems is the development and application of mathematical models. To be of value for industrial biotechnology, mathematical models should be able to assist in the rational design of cell factory properties or in the production processes in which they are utilized. Kinetic models are particularly suitable towards this end because they are capable of representing the complex biochemistry of cells in a more complete way compared to most other types of models. They can, at least in principle, be used to in detail understand, predict, and evaluate the effects of adding, removing, or modifying molecular components of a cell factory and for supporting the design of the bioreactor or fermentation process. However, several challenges still remain before kinetic modeling will reach the degree of maturity required for routine application in industry. Here we review the current status of kinetic cell factory modeling. Emphasis is on modeling methodology concepts, including model network structure, kinetic rate expressions, parameter estimation, optimization methods, identifiability analysis, model reduction, and model validation, but several applications of kinetic models for the improvement of cell factories are also discussed.
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| 2. |
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| 4. |
- Morales, M., et al.
(författare)
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Sustainability assessment of succinic acid production technologies from biomass using metabolic engineering
- 2016
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Ingår i: Energy and Environmental Sciences. - : Royal Society of Chemistry (RSC). - 1754-5692 .- 1754-5706. ; 9:9, s. 2794-2805
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Tidskriftsartikel (refereegranskat)abstract
- Over the past few years, bio-succinic acid from renewable resources has gained increasing attention as a potential bio-derived platform chemical for the detergent/surfactant, ion chelator, food and pharmaceutical markets. Until now, much research was undertaken to lower the production costs of bio-succinic acid, however a multicriteria sustainability evaluation of established and upcoming production processes from a technical perspective is still lacking in the scientific literature. In this study, we combine metabolic engineering with the most mature technologies for the production of bio-succinic acid from sugar beet and lignocellulosic residues. Downstream technologies such as reactive extraction, electrodialysis and ion exchange are investigated together with different upstream technologies such as neutral pH level-, acidic- and high sugar fermentation including metabolically engineered E. coli strains. Different biorefinery concepts are evaluated considering technical, economic, environmental and process hazard aspects in order to gain a broad sustainability perspective of the technologies. The results reveal that energy integration is a key factor for biorefinery concepts in order to be economically reasonable and to achieve lower environmental impacts compared to the conventional production from non-renewable resources. It was found that metabolically engineered E. coli with resistance at the acidic pH level in the fermentation together with reactive extraction in the purification presents the most environmentally competitive technology. However, E. coli strains with resistance at high sugar concentrations together with reactive extraction are revealed to present the most economically competitive technology for the production of bio-succinic acid. Moreover, both technologies are flagged for higher process hazards and require the right measures to enhance process safety and mitigate environmental loads and worker exposure.
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| 5. |
- Tymoshenko, S., et al.
(författare)
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Metabolic Needs and Capabilities of Toxoplasma gondii through Combined Computational and Experimental Analysis
- 2015
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Ingår i: PLoS Computational Biology. - : Public Library of Science (PLoS). - 1553-734X .- 1553-7358. ; 11:5, s. Art. no. e1004261-
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Tidskriftsartikel (refereegranskat)abstract
- Toxoplasma gondii is a human pathogen prevalent worldwide that poses a challenging and unmet need for novel treatment of toxoplasmosis. Using a semi-automated reconstruction algorithm, we reconstructed a genome-scale metabolic model, ToxoNet1. The reconstruction process and flux-balance analysis of the model offer a systematic overview of the metabolic capabilities of this parasite. Using ToxoNet1 we have identified significant gaps in the current knowledge of Toxoplasma metabolic pathways and have clarified its minimal nutritional requirements for replication. By probing the model via metabolic tasks, we have further defined sets of alternative precursors necessary for parasite growth. Within a human host cell environment, ToxoNet1 predicts a minimal set of 53 enzyme-coding genes and 76 reactions to be essential for parasite replication. Double-gene-essentiality analysis identified 20 pairs of genes for which simultaneous deletion is deleterious. To validate several predictions of ToxoNet1 we have performed experimental analyses of cytosolic acetyl-CoA biosynthesis. ATP-citrate lyase and acetyl-CoA synthase were localised and their corresponding genes disrupted, establishing that each of these enzymes is dispensable for the growth of T. gondii, however together they make a synthetic lethal pair.
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