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Updated: Aug 14, 2026

Microfluidic Picoliter Bioreactor for Microbial Single-cell Analysis: Fabrication, System Setup, and Operation
Published on: December 6, 2013
A well-mixed, polymer-based microbioreactor with integrated optical measurements
Zhiyu Zhang1, Nicolas Szita, Paolo Boccazzi
1Department of Chemical Engineering, Massachusetts Institute of Technology, 77 Mass. Ave., 66-566, Cambridge, Massachusetts 02139, USA.
Abstract:
We describe a 150 microL microbioreactor fabricated in poly(methylmethacrylate) (PMMA) and poly(dimethylsiloxane) (PDMS) to cultivate microbial cell cultures. Mixing is achieved by a small magnetic stir bar and fluorescent sensors are integrated for on-line measurement of pH and dissolved oxygen. Optical transmission measurements are used for cell density. The body of the reactor is poly(methylmethacrylate) with a thin layer of poly (dimethylsiloxane) for aeration, oxygen diffuses through this gas-permeable membrane into the microbioreactor to support metabolism of bacterial cells. Mixing in the reactor is characterized by observation of mixing of dyes and computational fluid dynamics simulations. The oxygenation is described in terms of measured K(L)a values for microbioreactor, 20-75/h corresponding to increasing stirring speed 200-800 rpm. Escherichia coli cell growth in the microbioreactor is demonstrated and the growth behavior is benchmarked with conventional bench-scale bioreactors, flasks and tubes. Batch culture experiments with Saccharomyces cerevisiae further demonstrate the reproducibility and flexibility of the microbioreactor system.
Insights
This study presents a novel microbioreactor for microbial cell culture, enabling precise control and online monitoring. The device demonstrates effective cell growth for Escherichia coli and Saccharomyces cerevisiae, offering a reproducible and flexible alternative to traditional methods.
Area of Science:
- Biotechnology and Bioengineering
- Microfluidics and Lab-on-a-Chip Devices
- Microbial Cultivation and Bioprocessing
Background:
- Traditional microbial cultivation methods often lack precise control and real-time monitoring capabilities.
- There is a need for miniaturized, integrated systems for efficient microbial cell culture.
- Poly(methylmethacrylate) (PMMA) and poly(dimethylsiloxane) (PDMS) are suitable materials for microfluidic device fabrication.
Purpose of the Study:
- To design and fabricate a 150 microL microbioreactor for microbial cell cultivation.
- To integrate online monitoring sensors for pH, dissolved oxygen, and cell density.
- To evaluate the mixing and oxygenation performance and demonstrate cell growth capabilities.
Main Methods:
- Fabrication of the microbioreactor using poly(methylmethacrylate) (PMMA) and poly(dimethylsiloxane) (PDMS).
- Integration of magnetic stir bar for mixing and fluorescent sensors for real-time measurements.
- Use of optical transmission for cell density monitoring and computational fluid dynamics (CFD) for mixing analysis.
- Measurement of oxygen transfer coefficients (KLa) at varying stirring speeds.
Main Results:
- The microbioreactor achieved oxygenation values (KLa) ranging from 20-75/h with stirring speeds of 200-800 rpm.
- Demonstrated successful cultivation and growth of Escherichia coli, benchmarked against conventional methods.
- Showcased reproducible batch cultures of Saccharomyces cerevisiae, highlighting system flexibility.
Conclusions:
- The developed microbioreactor offers a robust platform for microbial cell culture with integrated monitoring.
- The system provides efficient mixing and oxygenation, crucial for microbial metabolism.
- This technology presents a promising, reproducible, and flexible alternative for microbial bioprocessing.
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