Machine learning-supported cybergenetic modeling, optimization and control for synthetic microbial communities

Sebastián Espinel-Ríos, Katja Bettenbrock, Steffen Klamt, José L. Avalos, Rolf Findeisen

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Scopus citations


Synthetic microbial communities are promising production strategies that can circumvent, via division of labor, many challenges associated with monocultures in biotechnology. Here, we consider microbial communities as lumped metabolic pathways where their members catalyze different metabolic submodules. We outline a machine learning-supported cybergenetic strategy for manipulating the reaction rates of microbial consortia via dynamic regulation of key biomass population levels. To do so, we show a quasi-unstructured modeling approach for synthetic microbial communities with external regulation of intracellular growth regulatory components. Then, we formulate an optimal control problem to find the optimal initial conditions and dynamic input trajectories. We use model predictive control to address system uncertainty, which can be coupled to an observer based on moving horizon estimation. Using a two-member community with optogenetic control as a simulation example, we found the optimal initial biomass concentrations and light intensity trajectories to maximize naringenin production.

Original languageEnglish (US)
Title of host publicationComputer Aided Chemical Engineering
PublisherElsevier B.V.
Number of pages6
StatePublished - Jan 2023

Publication series

NameComputer Aided Chemical Engineering
ISSN (Print)1570-7946

All Science Journal Classification (ASJC) codes

  • General Chemical Engineering
  • Computer Science Applications


  • estimation
  • machine learning-supported optimization
  • model predictive control
  • optogenetics
  • synthetic microbial communities


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