Abstract
BackgroundThe ability to quantify the geometry of plant organs at the cellular scale can provide novel insights into their structural organization. Hitherto manual methods of measurement provide only very low throughput and subjective solutions, and often quantitative measurements are neglected in favour of a simple cell count.ResultsWe present a tool to count and measure individual neighbouring cells along a defined file in confocal laser scanning microscope images. The tool allows the user to extract this generic information in a flexible and intuitive manner, and builds on the raw data to detect a significant change in cell length along the file. This facility can be used, for example, to provide an estimate of the position of transition into the elongation zone of an Arabidopsis root, traditionally a location sensitive to the subjectivity of the experimenter.ConclusionsCell-o-tape is shown to locate cell walls with a high degree of accuracy and estimate the location of the transition feature point in good agreement with human experts. The tool is an open source ImageJ/Fiji macro and is available online.
Highlights
The ability to quantify the geometry of plant organs at the cellular scale can provide novel insights into their structural organization
Cell-o-Tape can identify a significant change in cell length along the profile, a facility which can be used to estimate the location of the start of rapid cell elongation along a file of cells in the Arabidopsis root, as shown in our example application
A method was presented to determine the location of a transition zone (TSZ) feature point by detecting a ‘break point’ on a cell number versus cell size graph
Summary
Identifying biological landmarks using a novel cell measuring image analysis tool: Cell-o-Tape. Andrew P French*, Michael H Wilson, Kim Kenobi, Daniela Dietrich, Ute Voß, Susana Ubeda-Tomás, Tony P Pridmore and Darren M Wells
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