Deep reinforcement learning for the control of microbial co-cultures in bioreactors
DOI10.5281/zenodo.3728079Zenodo3728079MaRDI QIDQ6693298FDOQ6693298
Dataset published at Zenodo repository.
Brian Ingalls, Neythen J Treloar, Chris P Barnes, Alex Jh Fedorec
Publication date: 26 March 2020
Copyright license: Creative Commons Attribution 4.0 International
Data for the figures in the paper: https://www.biorxiv.org/content/10.1101/457366v2 (in press PLoS Comp Biol.) Abstract: Multi-species microbial communities are widespread in natural ecosystems. When employed for biomanufacturing, engineered synthetic communities have shown increased productivity in comparison with monocultures and allow for the reduction of metabolic load by compartmentalising bioprocesses between multiple sub-populations. Despite these benefits, co-cultures are rarely used in practice because control over the constituent species of an assembled community has proven challenging. Here we demonstrate, in silico, the efficacy of an approach from artificial intelligence reinforcement learning for the control of co-cultures within continuous bioreactors. We confirm that feedback via reinforcement learning can be used to maintain populations at target levels, and that model-free performance with bang-bang control can outperform a traditional proportional integral controller with continuous control, when faced with infrequent sampling. Further, we demonstrate that a satisfactory control policy can be learned in one twenty-four hour experiment by running five bioreactors in parallel. Finally, we show that reinforcement learning can directly optimise the output of a co-culture bioprocess. Overall, reinforcement learning is a promising technique for the control of microbial communities.
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