Machine learning applied for metabolic flux-based control of micro-aerated fermentations in bioreactors

Biotechnol Bioeng. 2021 May;118(5):2076-2091. doi: 10.1002/bit.27721. Epub 2021 Mar 17.

Abstract

Various bio-based processes depend on controlled micro-aerobic conditions to achieve a satisfactory product yield. However, the limiting oxygen concentration varies according to the micro-organism employed, while for industrial applications, there is no cost-effective way of measuring it at low levels. This study proposes a machine learning procedure within a metabolic flux-based control strategy (SUPERSYS_MCU) to address this issue. The control strategy used simulations of a genome-scale metabolic model to generate a surrogate model in the form of an artificial neural network, to be used in a micro-aerobic fermentation strategy (MF-ANN). The meta-model provided setpoints to the controller, allowing adjustment of the inlet air flow to control the oxygen uptake rate. The strategy was evaluated in micro-aerobic batch cultures employing industrial Saccharomyces cerevisiae yeast, with defined medium and glucose as the carbon source, as a case study. The performance of the proposed control scheme was compared with a conventional fermentation and with three previously reported micro-aeration strategies, including respiratory quotient-based control and constant air flow rate. Due to maintenance of the oxidative balance at the anaerobiosis threshold, the MF-ANN provided volumetric ethanol productivity of 4.16 g·L-1 ·h-1 and a yield of 0.48 gethanol .gsubstrate-1 , which were higher than the values achieved for the other conditions studied (maximum of 3.4 g·L-1 ·h-1 and 0.35-0.40 gethanol ·gsubstrate-1 , respectively). Due to its modular character, the MF-ANN strategy could be adapted to other micro-aerated bioprocesses.

Keywords: Saccharomyces cerevisiae; alcoholic fermentation; bioreactor advanced control; metabolic flux control; micro-aeration.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Anaerobiosis
  • Batch Cell Culture Techniques
  • Bioreactors / microbiology*
  • Ethanol / analysis
  • Ethanol / metabolism
  • Fermentation / physiology*
  • Machine Learning*
  • Metabolic Flux Analysis
  • Oxygen / metabolism*
  • Saccharomyces cerevisiae / metabolism

Substances

  • Ethanol
  • Oxygen