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Updated: Jan 31, 2026
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Light-Controlled Fermentations for Microbial Chemical and Protein Production
Published on: March 22, 2022
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Multidimensional strategy enables scalable metabolome diversity in microbial fermentations
Anton Lindig1, Makram Fataeri1,2, Georg Hubmann1
1Chair for Bioprocess Engineering, Department of Biochemical and Chemical Engineering, TU Dortmund University, Emil-Figge-Straße 66, 44227, Dortmund, Germany.
Scientific Reports
|January 29, 2026
Summary
Achieving consistent natural product (NP) discovery across cultivation systems is challenging. Multidimensional optimization of bioprocess parameters is key to improving metabolome scalability and reproducibility for novel drug leads.
Area of Science:
- Microbiology
- Metabolomics
- Biotechnology
Background:
- Natural products (NPs) are vital drug lead sources.
- NP biosynthesis is sensitive to cultivation conditions, hindering scalability and reproducibility.
- Metabolic footprint consistency across systems is a major challenge in NP discovery.
Purpose of the Study:
- To identify factors enhancing metabolic footprint overlap for Streptomyces griseochromogenes across three cultivation systems.
- To improve the scalability and reproducibility of metabolome data for NP discovery.
Main Methods:
- Compared metabolic footprints across baffled shake flasks (BSF), 48 flower plates (48 FP), and stirred tank bioreactors (STR).
- Investigated effects of oxygen availability and ethanol concentration on metabolic overlap.
- Utilized factor analysis of 80 cultivations and molecular network analysis.
Main Results:
- Metabolic footprint overlap increased by 50% after identifying key factors.
- Constant oxygen availability criterion yielded only 18% overlap; optimization increased this by 18%.
- Morphology and total mass feature number, influenced by cultivation systems, were key to reproducibility.
Conclusions:
- Multidimensional optimization is essential for robust metabolome scalability and reproducibility.
- This approach facilitates the discovery of novel natural products.
- Findings pave the way for more reliable NP drug lead identification across diverse bioprocesses.
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