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bioRxiv · 10.1101/2020.07.09.195594

Error propagation in constraint-based modeling of Chinese hamster ovary cells

Diana Széliová·Dmytro Iurashev·David E Ruckerbauer·Gunda Koellensperger·Nicole Borth·Michael Melcher·Jürgen Zanghellini
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Abstract

BackgroundChinese hamster ovary (CHO) cells are the most popular mammalian cell factories for the production of glycosylated biopharmaceuticals. To further increase titer and productivity and ensure product quality, rational systems-level engineering strategies based on constraint-based metabolic modeling, such as flux balance analysis (FBA), have gained strong interest. However, the quality of FBA predictions depends on the accuracy of the experimental input data, especially on the exchange rates of extracellular metabolites. Yet it is not standard practice to devote sufficient attention to the accurate determination of these rates. ResultsIn this work we investigated to what degree the sampling frequency during a batch culture and the measurement errors of metabolite concentrations influence the accuracy of the calculated exchange rates and further, how this error then propagates into FBA predictions of growth rates. We determined that accurate measurements of essential amino acids with low uptake rates are crucial for the accuracy of FBA predictions, followed by a sufficient number of analysed time points. ConclusionsWe observed that the measured difference in growth rates of two cell lines can only be reliably predicted when both high measurement accuracy and sampling frequency are ensured.

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Diana Széliová, Dmytro Iurashev, David E Ruckerbauer, Gunda Koellensperger, Nicole Borth, Michael Melcher, Jürgen Zanghellini. 2020-07-10. Error propagation in constraint-based modeling of Chinese hamster ovary cells. https://doi.org/10.1101/2020.07.09.195594

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