OpenSimRoot: widening the scope and application of root architectural models

Postma, Johannes A. and Kuppe, Christian and Owen, Marcus R. and Mellor, Nathan L. and Griffiths, Marcus and Bennett, Malcolm J. and Lynch, Jonathan P. and Watt, Michelle (2017) OpenSimRoot: widening the scope and application of root architectural models. New Phytologist . ISSN 1469-8137

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Abstract

Research Conducted and Rationale: OpenSimRoot is an open sourced, functional- structural plant model and mathematical description of root growth and function. We describe OpenSimRoot and its functionality to broaden the benefits of root modeling to the plant science community.

Description: OpenSimRoot is an extended version of SimRoot, established to simulate root system architecture, nutrient acquisition, and plant growth. OpenSimRoot has a plugin, modular infrastructure, coupling single plant and crop stands to soil nutrient, and water transport models. It estimates the value of root traits for water and nutrient acquisition in environments and plant species.

Key results and unique features: The flexible OpenSimRoot design allows upscaling from root anatomy to plant community to estimate 1) resource costs of developmental and anatomical traits, 2) trait synergisms, 3) (inter species) root competition. OpenSimRoot can model 3D images from MRI and X-ray CT of roots in soil. New modules include: 1) soil water dependent water uptake and xylem flow, 2) tiller formation, 3) evapotranspiration, 4) simultaneous simulation of mobile solutes, 5) mesh refinement, and 6) root growth plasticity.

Conclusion: OpenSimRoot integrates plant phenotypic data with environmental metadata to support experimental designs and gain mechanistic understanding at system scales.

Item Type: Article
Additional Information: This is the peer reviewed version of the following article: Postma, J. A., Kuppe, C., Owen, M. R., Mellor, N., Griffiths, M., Bennett, M. J., Lynch, J. P. and Watt, M. (2017), OpenSimRoot: widening the scope and application of root architectural models. New Phytol. doi:10.1111/nph.14641 which has been published in final form at http://onlinelibrary.wiley.com/doi/10.1111/nph.14641/full This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Self-Archiving.
Keywords: Functional–structural plant model, Model-driven phenotyping, OpenSimRoot, Plant nutrition, Root architectural traits, Root system architecture, Simulation
Schools/Departments: University of Nottingham, UK > Faculty of Science > School of Biosciences
University of Nottingham, UK > Faculty of Science > School of Mathematical Sciences
Identification Number: 10.1111/nph.14641
Depositing User: Owen, Markus
Date Deposited: 07 Jun 2017 09:32
Last Modified: 11 Jul 2017 07:57
URI: http://eprints.nottingham.ac.uk/id/eprint/43402

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