Description
- Abstract:
- Understanding the dynamics of bacteria in an expanding swarm is crucial to decipher their behaviors and intercellular interactions. In this project, we observe under an optical microscope Enterobacter sp. SM3 at their swarm front following on site dilution and equilibration, forming dynamic packs in a monolayer of cells. We then acquire movies, annotate and track individual bacteria in those movies. Cellpose, a specialized program for cell annotation, is utilized to train models capable of identifying bacteria and track their rapid movement. Due to the high cell density and large field of view, each frame is divided into sixteen cropped segments to better process and train our models. Processed by Cellpose, each segment creates individual labels for the bacteria that are imported into TrackMate for tracking and visualization of their individual trajectories. In the future, we hope to minimize manual annotations and attain automatic annotations of most bacteria within entire frames without cropping them into individual segments. If successful, the project outcome is a microscopic level account of highly motile bacteria at the swarm front, such as the dynamic packs they form, leading to physical insights on the intercellular interactions that give rise to their collective behavior.
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- In Copyright
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Citation
Núñez Altagracia, Naomi, Germann, Danielle, Tang, Jay, et al.,
"Annotating and Tracking of Moving Bacteria in a Dynamic Swarm"
(2024).
Summer Research Symposium, The Leadership Alliance Digital Library.
Brown Digital Repository. Brown University Library.
https://doi.org/10.26300/4kep-vd64
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Summer Research Symposium
Each year, Brown University showcases the research of its undergraduates at the Summer Research Symposium. More than half of the student-researchers are UTRA recipients, while others receive funding from a variety of Brown-administered and national programs and fellowships and go …... -
The Leadership Alliance Digital Library
A collection of research presentations and posters created by students participating in the Leadership Alliance's Summer Research - Early Identification Program....When using this resource, please cite the digital object identifier (DOI) for the specific resource as well as the …