Abstract

Three-dimensional models of root growth, architecture and function are becoming important tools that aid the design of agricultural management schemes and the selection of beneficial root traits. However, while benchmarking is common in many disciplines that use numerical models, such as natural and engineering sciences, functional-structural root architecture models have never been systematically compared. The following reasons might induce disagreement between the simulation results of different models: different representation of root growth, sink term of root water and solute uptake and representation of the rhizosphere. Presently, the extent of discrepancies is unknown, and a framework for quantitatively comparing functional-structural root architecture models is required. We propose, in a first step, to define benchmarking scenarios that test individual components of complex models: root architecture, water flow in soil and water flow in roots. While the latter two will focus mainly on comparing numerical aspects, the root architectural models have to be compared at a conceptual level as they generally differ in process representation. Therefore, defining common inputs that allow recreating reference root systems in all models will be a key challenge. In a second step, benchmarking scenarios for the coupled problems are defined. We expect that the results of step 1 will enable us to better interpret differences found in step 2. This benchmarking will result in a better understanding of the different models and contribute toward improving them. Improved models will allow us to simulate various scenarios with greater confidence and avoid bugs, numerical errors or conceptual misunderstandings. This work will set a standard for future model development.

Highlights

  • A growing number of different modeling techniques and software libraries are available to build functional-structural root architecture models

  • We provide a reference solution that is based on a computational mesh that was generated with consideration of the physical presence of the roots in the soil domain

  • We propose to perform the benchmarking of those models in four steps: (1) Parameterizing the root architecture models based on the provided experimental data, (2) Simulating a set of root systems for a dicotyledonous (Lupinus albus) and a monocotyledonous (Zea mays) plant species following two benchmark scenarios (M1.1 and M1.2), (3) Export and store the simulated root systems as Root System Markup Language (RSML) files (Lobet et al, 2015), and (4) Compare the simulation results using the data analysis pipelines available in the associated Jupyter Notebooks

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Summary

Introduction

A growing number of different modeling techniques and software libraries are available to build functional-structural root architecture models. The challenge is to develop a commonly accepted framework for benchmarking functional-structural root architecture models This includes defining a set of benchmark problems to test model accuracy and performance. These data sets should as good as possible describe the system we want to model and contain as little uncertainty as possible (Luo et al, 2012) This benchmark activity focuses on two processes, root architecture development and root water uptake. We propose this benchmarking framework to be used by the community of modelers and other participants to compare their model outputs against those of the reference solutions of benchmarks defined in this paper. We will refer to any numerical model that implemented some or all of the benchmark problems as “participating model” or “simulator.”

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