Literature DB >> 32296451

Call for Participation: Collaborative Benchmarking of Functional-Structural Root Architecture Models. The Case of Root Water Uptake.

Andrea Schnepf1,2, Christopher K Black3, Valentin Couvreur4, Benjamin M Delory5, Claude Doussan6, Axelle Koch7, Timo Koch8, Mathieu Javaux1,4, Magdalena Landl1,2, Daniel Leitner9, Guillaume Lobet1,2, Trung Hieu Mai1, Félicien Meunier10,11, Lukas Petrich12, Johannes A Postma13, Eckart Priesack14, Volker Schmidt12, Jan Vanderborght1,2, Harry Vereecken1,2, Matthias Weber12.   

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.
Copyright © 2020 Schnepf, Black, Couvreur, Delory, Doussan, Koch, Koch, Javaux, Landl, Leitner, Lobet, Mai, Meunier, Petrich, Postma, Priesack, Schmidt, Vanderborght, Vereecken and Weber.

Entities:  

Keywords:  benchmark; call for participation; functional-structural root architecture models; model comparison; root water uptake

Year:  2020        PMID: 32296451      PMCID: PMC7136536          DOI: 10.3389/fpls.2020.00316

Source DB:  PubMed          Journal:  Front Plant Sci        ISSN: 1664-462X            Impact factor:   5.753


  15 in total

1.  Root system markup language: toward a unified root architecture description language.

Authors:  Guillaume Lobet; Michael P Pound; Julien Diener; Christophe Pradal; Xavier Draye; Christophe Godin; Mathieu Javaux; Daniel Leitner; Félicien Meunier; Philippe Nacry; Tony P Pridmore; Andrea Schnepf
Journal:  Plant Physiol       Date:  2015-01-22       Impact factor: 8.340

2.  Persistent homology and the branching topologies of plants.

Authors:  Mao Li; Keith Duncan; Christopher N Topp; Daniel H Chitwood
Journal:  Am J Bot       Date:  2017-03-24       Impact factor: 3.844

3.  Quantification of root water uptake in soil using X-ray computed tomography and image-based modelling.

Authors:  Keith R Daly; Saoirse R Tracy; Neil M J Crout; Stefan Mairhofer; Tony P Pridmore; Sacha J Mooney; Tiina Roose
Journal:  Plant Cell Environ       Date:  2017-07-05       Impact factor: 7.228

4.  Connecting the dots between computational tools to analyse soil-root water relations.

Authors:  Sixtine Passot; Valentin Couvreur; Félicien Meunier; Xavier Draye; Mathieu Javaux; Daniel Leitner; Loïc Pagès; Andrea Schnepf; Jan Vanderborght; Guillaume Lobet
Journal:  J Exp Bot       Date:  2019-04-29       Impact factor: 6.992

5.  Estimation of the hydraulic conductivities of lupine roots by inverse modelling of high-resolution measurements of root water uptake.

Authors:  Mohsen Zarebanadkouki; Félicien Meunier; Valentin Couvreur; Jimenez Cesar; Mathieu Javaux; Andrea Carminati
Journal:  Ann Bot       Date:  2016-10-01       Impact factor: 4.357

6.  CRootBox: a structural-functional modelling framework for root systems.

Authors:  Andrea Schnepf; Daniel Leitner; Magdalena Landl; Guillaume Lobet; Trung Hieu Mai; Shehan Morandage; Cheng Sheng; Mirjam Zörner; Jan Vanderborght; Harry Vereecken
Journal:  Ann Bot       Date:  2018-04-18       Impact factor: 4.357

7.  A novel image-analysis toolbox enabling quantitative analysis of root system architecture.

Authors:  Guillaume Lobet; Loïc Pagès; Xavier Draye
Journal:  Plant Physiol       Date:  2011-07-19       Impact factor: 8.340

8.  Going with the Flow: Multiscale Insights into the Composite Nature of Water Transport in Roots.

Authors:  Valentin Couvreur; Marc Faget; Guillaume Lobet; Mathieu Javaux; François Chaumont; Xavier Draye
Journal:  Plant Physiol       Date:  2018-10-26       Impact factor: 8.340

9.  OpenSimRoot: widening the scope and application of root architectural models.

Authors:  Johannes A Postma; Christian Kuppe; Markus R Owen; Nathan Mellor; Marcus Griffiths; Malcolm J Bennett; Jonathan P Lynch; Michelle Watt
Journal:  New Phytol       Date:  2017-06-27       Impact factor: 10.151

10.  Mechanical and Hydric Stress Effects on Maize Root System Development at Different Soil Compaction Levels.

Authors:  Moacir Tuzzin de Moraes; Henrique Debiasi; Julio Cezar Franchini; João de Andrade Bonetti; Renato Levien; Andrea Schnepf; Daniel Leitner
Journal:  Front Plant Sci       Date:  2019-10-29       Impact factor: 5.753

View more
  4 in total

1.  Three-dimensional in vivo analysis of water uptake and translocation in maize roots by fast neutron tomography.

Authors:  Christian Tötzke; Nikolay Kardjilov; André Hilger; Nicole Rudolph-Mohr; Ingo Manke; Sascha E Oswald
Journal:  Sci Rep       Date:  2021-05-19       Impact factor: 4.379

2.  Root System Scale Models Significantly Overestimate Root Water Uptake at Drying Soil Conditions.

Authors:  Deepanshu Khare; Tobias Selzner; Daniel Leitner; Jan Vanderborght; Harry Vereecken; Andrea Schnepf
Journal:  Front Plant Sci       Date:  2022-02-14       Impact factor: 5.753

Review 3.  Optimizing Crop Water Use for Drought and Climate Change Adaptation Requires a Multi-Scale Approach.

Authors:  James D Burridge; Alexandre Grondin; Vincent Vadez
Journal:  Front Plant Sci       Date:  2022-04-29       Impact factor: 5.753

4.  Integrated root phenotypes for improved rice performance under low nitrogen availability.

Authors:  Ishan Ajmera; Amelia Henry; Ando M Radanielson; Stephanie P Klein; Aleksandr Ianevski; Malcolm J Bennett; Leah R Band; Jonathan P Lynch
Journal:  Plant Cell Environ       Date:  2022-02-23       Impact factor: 7.947

  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.