Abstract
Quantification of vascular morphodynamics during secondary growth has been hampered by the scale of the process. Even in the tiny model plant Arabidopsis thaliana, the xylem can include more than 2000 cells in a single cross section, rendering manual counting impractical. Moreover, due to its deep location, xylem is an inaccessible tissue, limiting live imaging. A novel method to visualize and measure secondary growth progression has been proposed: “the Quantitative Histology” approach. This method is based on a detailed anatomical atlas, and image segmentation coupled with machine learning to automatically extract cell shapes and identify cell type. Here we present a new version of this approach, with a user-friendly interface implemented in the open source software LithoGraphX.
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Acknowledgement
This work was supported by a DFG grant (RA-2590/1-1) and SystemsX.ch, the Swiss Initiative in Systems Biology. We thank Christian Hardtke and Sarah Robinson for critical reading.
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de Reuille, P.B., Ragni, L. (2017). Vascular Morphodynamics During Secondary Growth. In: de Lucas, M., Etchhells, J. (eds) Xylem. Methods in Molecular Biology, vol 1544. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6722-3_10
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DOI: https://doi.org/10.1007/978-1-4939-6722-3_10
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