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Updated: Jan 9, 2026

Plasmid Stability Analysis with Open-Source Droplet Microfluidics

Plasmid Stability Analysis with Open-Source Droplet Microfluidics

Published on: December 27, 2024

High-throughput bacterial aggregation analysis in droplets.

Merili Saar-Abroi¹, Karoliine Lindpere¹, Dániel Kácsor¹

¹Department of Chemistry and Biotechnology, Tallinn University of Technology, Tallinn, Estonia.

Scientific Reports

|December 2, 2025

Summary

This summary is machine-generated.

We developed a cost-effective microfluidic droplet method with CellProfiler™ for bacterial aggregation analysis. This standardized approach achieves over 90% accuracy, enabling consistent data for diverse applications.

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Area of Science:

Microbiology
Biotechnology
Bioanalytical Chemistry

Background:

Microfluidic droplet platforms offer controlled environments for studying bacterial aggregation.
Current methods lack standardization, leading to inconsistent and incomparable data.
Image analysis is a common technique but often relies on custom, non-reproducible workflows.

Purpose of the Study:

To develop a robust, cost-effective, and standardized method for assessing bacterial aggregation using microfluidic droplets and texture-based image analysis.
To validate the accuracy and precision of the developed method against expert manual evaluation.
To investigate the impact of environmental factors like antibiotics, microplastics, and metals on bacterial aggregation.

Main Methods:

Utilized microfluidic droplet generation (mono- and polydisperse).
Employed texture-based image analysis using the open-source software CellProfiler™.
Compared automated analysis results with manual evaluation by a panel of experts.

Main Results:

The developed method achieved over 90% accuracy and more than 80% precision in bacterial aggregation assessment.
Suboptimal antibiotic concentrations were found to increase bacterial aggregation.
Exposure to microplastic beads and metals reduced bacterial aggregation.

Conclusions:

The developed CellProfiler™-based microfluidic droplet pipeline provides a standardized, accurate, and broadly applicable tool for bacterial aggregation studies.
This method overcomes limitations of custom workflows, enabling consistent and comparable data generation.
The findings highlight the influence of environmental factors on bacterial aggregation dynamics.