|Caulobacter crescentus cells at 0.06 µm/px resolution outlined by MicrobeTracker
Many aspects of spatial and temporal organization organization of bacterial and
other microbial cells are crucial for their investigation. These aspects,
however, are frequently very similar between different strains and conditions
can be easily obscured by cell-to-cell variability. In order to study bacterial
cells in detail, traditional optical imaging methods have to be supplemented
with automatic image analysis, which would allow for high precision analysis of
large numbers of cells.
MicrobeTracker Suite is a set of tools designed to
efficiently measure the properties of such spatio-temporal organization. This
software is capable to precisely outline rod-shaped or other similarly-shaped bacterial cells
even in crowded phase contrast images and to track them in time lapses over
multiple generations. It also integrates fluorescence and phase contrast data in
order to quantify fluorescently labeled objects and to localize them inside
cells at subpixel resolution.
MicrobeTracker Suite is based on
MATLAB and consists of:
The data is saved in comprehensive MATLAB format and can be processed by the
user directly if a more complex analysis is required than what can be provided
by the tools. The Suite requires MATLAB with Image Processing and Spline
Funding was provided by NSF,
Licensing and distribution
MicrobeTracker is free software redistributed under the
GNU General Public License. Anybody is free to use it,
under the condition that the following citation is provided in publication.
Sliusarenko O, Heinritz J, Emonet T, and Jacobs-Wagner C, "High-
throughput, subpixel-precision analysis of bacterial morphogenesis and
intracellular spatio-temporal dynamics", Mol. Micro, 2011; 80(3): 612:627.
Note: While we are not able to provide individual technical support, the user
can find detailed description of the interface and tools (with examples)
in this online MicrobeTracker Manual.