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Title: An efficient three-dimensional rhizosphere modeling capability to study the effect of root system architecture on soil water and reactive transport

Abstract

This research was to develop a rhizosphere modeling capability for plant-soil interactions by integrating water and ion uptake and release from three dimensional (3D) root systems and 3D variably saturated flow and multicomponent reactive transport in soil. We combined open source software for simulating plant and soil interactions with parallel processing computational technologies to address highly-resolved root system architecture and soil hydrobiogeochemical processes. Simulation capability was demonstrated on Brachypodium distachyon. Our demonstration problem showed that availability of water and plant nutrients is controlled by the interplay between 1) transpiration-driven cycles of water uptake, root zone saturation and desaturation; 2) sorption and desorption via competitive ion exchange; 3) buildup of ions not taken up during kinetic uptake of nutrients/ions from pore water; and 4) advection, dispersion, and diffusion of ions in the soil. The uptake of water and ions by individual roots leads to dynamic, local gradients in ion concentrations. The resulting higher solution ionic strength can lead to increasing sorption of K+ and NH4+ on the soil exchange sites, despite their preferential absorption by roots. The modeling framework makes it possible to explore alternative conceptual models and improve the understanding of the biogeochemical and physical environment within the rhizosphere.

Authors:
ORCiD logo [1];  [1];  [2];  [3];  [2]
+ Show Author Affiliations
  1. Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Energy and Environment Division
  2. Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Environmental Molecular Sciences Lab. (EMSL)
  3. Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Earth and Biological Sciences Division
Publication Date:
Research Org.:
Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1570768
Report Number(s):
PNNL-SA-138450
Journal ID: ISSN 0032-079X
Grant/Contract Number:  
AC05-76RL01830
Resource Type:
Accepted Manuscript
Journal Name:
Plant and Soil
Additional Journal Information:
Journal Volume: 441; Journal Issue: 1-2; Journal ID: ISSN 0032-079X
Publisher:
Springer
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; root system architecture; rhizosphere; competitive ion exchange; root water and nutrient uptake; multicomponent reactive transport; plant-soil interactions

Citation Formats

Fang, Yilin, Yabusaki, Steven B., Ahkami, Amir H., Chen, Xingyuan, and Scheibe, Timothy D. An efficient three-dimensional rhizosphere modeling capability to study the effect of root system architecture on soil water and reactive transport. United States: N. p., 2019. Web. doi:10.1007/s11104-019-04068-z.
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Fang, Yilin, Yabusaki, Steven B., Ahkami, Amir H., Chen, Xingyuan, & Scheibe, Timothy D. An efficient three-dimensional rhizosphere modeling capability to study the effect of root system architecture on soil water and reactive transport. United States. https://doi.org/10.1007/s11104-019-04068-z
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Fang, Yilin, Yabusaki, Steven B., Ahkami, Amir H., Chen, Xingyuan, and Scheibe, Timothy D. Fri . "An efficient three-dimensional rhizosphere modeling capability to study the effect of root system architecture on soil water and reactive transport". United States. https://doi.org/10.1007/s11104-019-04068-z. https://www.osti.gov/servlets/purl/1570768.
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@article{osti_1570768,
title = {An efficient three-dimensional rhizosphere modeling capability to study the effect of root system architecture on soil water and reactive transport},
author = {Fang, Yilin and Yabusaki, Steven B. and Ahkami, Amir H. and Chen, Xingyuan and Scheibe, Timothy D.},
abstractNote = {This research was to develop a rhizosphere modeling capability for plant-soil interactions by integrating water and ion uptake and release from three dimensional (3D) root systems and 3D variably saturated flow and multicomponent reactive transport in soil. We combined open source software for simulating plant and soil interactions with parallel processing computational technologies to address highly-resolved root system architecture and soil hydrobiogeochemical processes. Simulation capability was demonstrated on Brachypodium distachyon. Our demonstration problem showed that availability of water and plant nutrients is controlled by the interplay between 1) transpiration-driven cycles of water uptake, root zone saturation and desaturation; 2) sorption and desorption via competitive ion exchange; 3) buildup of ions not taken up during kinetic uptake of nutrients/ions from pore water; and 4) advection, dispersion, and diffusion of ions in the soil. The uptake of water and ions by individual roots leads to dynamic, local gradients in ion concentrations. The resulting higher solution ionic strength can lead to increasing sorption of K+ and NH4+ on the soil exchange sites, despite their preferential absorption by roots. The modeling framework makes it possible to explore alternative conceptual models and improve the understanding of the biogeochemical and physical environment within the rhizosphere.},
doi = {10.1007/s11104-019-04068-z},
journal = {Plant and Soil},
number = 1-2,
volume = 441,
place = {United States},
year = {Fri Jun 21 00:00:00 EDT 2019},
month = {Fri Jun 21 00:00:00 EDT 2019}
}
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Journal Article:
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Publisher's Version of Record
https://doi.org/10.1007/s11104-019-04068-z
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Cited by: 8 works
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Figures / Tables:

Table 1 Table 1: Cation exchange reactions
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