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SYSTEMS BIOLOGY, MOLECULAR BIOLOGY, AND GENE REGULATION

Quantitative Modeling of Arabidopsis Development^1,[w]

Department of Computer Science, University of Calgary, Calgary, Alberta, Canada T2N 1N4 (L.M., B.L., P.P.); and Department of Cell and Developmental Biology, John Innes Centre, Norwich NR4 7UH, United Kingdom (Y.E., E.C.)

We present an empirical model of Arabidopsis (Arabidopsis thaliana), intended as a framework for quantitative understanding of plant development. The model simulates and realistically visualizes development of aerial parts of the plant from seedling to maturity. It integrates thousands of measurements, taken from several plants at frequent time intervals. These data are used to infer growth curves, allometric relations, and progression of shapes over time, which are incorporated into the final three-dimensional model. Through the process of model construction, we identify the key attributes required to characterize the development of Arabidopsis plant form over time. The model provides a basis for integrating experimental data and constructing mechanistic models.

² These authors contributed equally to the paper.

³ Present address: Department of Mechanical Engineering, 496 Lomita Mall, Stanford University, Stanford, CA 94305–4038.

^[w] The online version of this article contains Web-only data.

Article, publication date, and citation information can be found at www.plantphysiol.org/cgi/doi/10.1104/pp.105.060483.

^* Corresponding author; e-mail pwp{at}cpsc.ucalgary.ca; fax 403–284–4707.

Received January 31, 2005; returned for revision July 11, 2005; accepted July 15, 2005.

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