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Updated: Mar 15, 2026

A Microscopic Phenotypic Assay for the Quantification of Intracellular Mycobacteria Adapted for High-throughput/High-content Screening

A Microscopic Phenotypic Assay for the Quantification of Intracellular Mycobacteria Adapted for High-throughput/High-content Screening

Published on: January 17, 2014

MicrobeJ, a tool for high throughput bacterial cell detection and quantitative analysis.

Adrien Ducret¹, Ellen M Quardokus¹, Yves V Brun¹

¹Department of Biology, Indiana University, 1001 E 3rd Street, Bloomington, Indiana 47405, USA.

Nature Microbiology

|August 31, 2016

Summary

This summary is machine-generated.

MicrobeJ is a new ImageJ plugin for analyzing bacterial cell images. It efficiently processes large datasets, enabling detailed tracking of subcellular features for robust biological insights.

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Single-cell Microfluidic Analysis of Bacillus subtilis

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Published on: January 26, 2018

Area of Science:

Microscopy and image analysis
Bacterial cell biology
Computational biology

Background:

Bacterial life cycles involve complex subcellular dynamics.
High-throughput microscopy generates large datasets, posing analysis challenges.
Efficient tools are needed for unbiased analysis of bacterial cell images.

Purpose of the Study:

Introduce MicrobeJ, an ImageJ plugin for bacterial image analysis.
Provide a computationally efficient solution for processing large microscopy datasets.
Enable detailed subcellular feature detection, localization, and tracking.

Main Methods:

Developed MicrobeJ as a plugin for the ImageJ platform.
Implemented algorithms for intensity and morphology measurements.
Integrated customized detection for poles, septa, foci, and organelles.
Enabled subpixel resolution localization and temporal tracking of features.

Main Results:

MicrobeJ processes diverse microscopy image types, especially large sets.
It accurately detects and localizes subcellular features with subpixel resolution.
The plugin facilitates tracking of these features over time.
Maintains dynamic links between images, measurements, and data visualizations.

Conclusions:

MicrobeJ offers a versatile and computationally efficient solution for bacterial image analysis.
It supports detailed investigation of subcellular dynamics in high-throughput experiments.
The tool enhances the accuracy and veracity of biological data derived from microscopy.