Plant Image Analysis Plant Image Analysis


Virtual Plant @ INRIA

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Scientific article
Imaging plant growth in 4D: robust tissue reconstruction and lineaging at cell resolution.
R. Fernandez, P. Das, V. Mirabet, E. Moscardi, J. Traas, JL. Verdeil, G. Malandain, C. Godin,
2010 , Nat. Methods , 7(7), 547
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Quantitative information on growing organs is required to better understand morphogenesis in both plants and animals. However, detailed analyses of growth patterns at cellular resolution have remained elusive. We developed an approach, multiangle image acquisition, three-dimensional reconstruction and cell segmentation-automated lineage tracking (MARS-ALT), in which we imaged whole organs from multiple angles, computationally merged and segmented these images to provide accurate cell identification in three dimensions and automatically tracked cell lineages through multiple rounds of cell division during development.

These methods were used to quantitatively analyze Arabidopsis thaliana flower development at cell resolution, which revealed differential growth patterns of key regions during early stages of floral morphogenesis.

Source: Fernandezet al. (2010) Nature Methods , 7(7), 547-53

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Operating system
windows, mac, linux,


Measured variables
n-cells, volume, shape, 3D-reconstruction, surface,

Automation level

Plant requirements

Image requirements

Export formats
open alea,

Other information
Works as a module of OpenALea