Keith R. Daly

High resolution synchrotron imaging of wheat root hairs growing in soil and image based modelling of phosphate uptake

· Root hairs are known to be highly important for uptake of sparingly soluble nutrients, particularly in nutrient deficient soils. Development of increasingly sophisticated mathematical models has allowed uptake characteristics to be quantified. However, modelling has been constrained by a lack of methods for imaging live root hairs growing in real soils. · We developed a plant growth protocol and used Synchrotron Radiation X-ray Tomographic Microscopy (SRXTM) to uncover the three-dimensional (3D) interactions of root hairs in real soil. We developed a model of phosphate uptake by root hairs based directly on the geometry of hairs and associated soil pores as revealed by imaging. · Previous modelling studies found that root hairs dominate phosphate uptake. By contrast, our study suggests that hairs and roots contribute equally. We show that uptake by hairs is more localized than by roots and strongly dependent on root hair and aggregate orientation. · The ability to image hair-soil interactions enables a step change in modelling approaches, allowing a more realistic treatment of processes at the scale of individual root hairs in soil pores.

Three‐dimensional quantification of soil hydraulic properties using X‐ray Computed Tomography and image‐based modeling

We demonstrate the application of a high-resolution X-ray Computed Tomography (CT) method to quantify water distribution in soil pores under successive reductive drying. We focus on the wet end of the water release characteristic (WRC) (0 to −75 kPa) to investigate changes in soil water distribution in contrasting soil textures (sand and clay) and structures (sieved and field structured) and to determine the impact of soil structure on hydraulic behavior. The 3-D structure of each soil was obtained from the CT images (at a 10 μm resolution). Stokes equations for flow were solved computationally for each measured structure to estimate hydraulic conductivity. The simulated values obtained compared extremely well with the measured saturated hydraulic conductivity values. By considering different sample sizes we were able to identify the smallest possible representative sample size which is required to determine a globally valid hydraulic conductivity.

Assessing the influence of the rhizosphere on soil hydraulic properties using X-ray computed tomography and numerical modelling

Highlight Using non-destructive imaging techniques and numerical modelling, we quantify differences in hydraulic and structural properties of bulk and rhizosphere soil for sand and clay loam soils.

Challenges in imaging and predictive modeling of rhizosphere processes

BackgroundPlant-soil interaction is central to human food production and ecosystem function. Thus, it is essential to not only understand, but also to develop predictive mathematical models which can be used to assess how climate and soil management practices will affect these interactions.ScopeIn this paper we review the current developments in structural and chemical imaging of rhizosphere processes within the context of multiscale mathematical image based modeling. We outline areas that need more research and areas which would benefit from more detailed understanding.ConclusionsWe conclude that the combination of structural and chemical imaging with modeling is an incredibly powerful tool which is fundamental for understanding how plant roots interact with soil. We emphasize the need for more researchers to be attracted to this area that is so fertile for future discoveries. Finally, model building must go hand in hand with experiments. In particular, there is a real need to integrate rhizosphere structural and chemical imaging with modeling for better understanding of the rhizosphere processes leading to models which explicitly account for pore scale processes.

High-resolution synchrotron imaging shows that root hairs influence rhizosphere soil structure formation

Summary In this paper, we provide direct evidence of the importance of root hairs on pore structure development at the root–soil interface during the early stage of crop establishment. This was achieved by use of high‐resolution (c. 5 μm) synchrotron radiation computed tomography (SRCT) to visualise both the structure of root hairs and the soil pore structure in plant–soil microcosms. Two contrasting genotypes of barley (Hordeum vulgare), with and without root hairs, were grown for 8 d in microcosms packed with sandy loam soil at 1.2 g cm−3 dry bulk density. Root hairs were visualised within air‐filled pore spaces, but not in the fine‐textured soil regions. We found that the genotype with root hairs significantly altered the porosity and connectivity of the detectable pore space (> 5 μm) in the rhizosphere, as compared with the no‐hair mutants. Both genotypes showed decreasing pore space between 0.8 and 0.1 mm from the root surface. Interestingly the root‐hair‐bearing genotype had a significantly greater soil pore volume‐fraction at the root–soil interface. Effects of pore structure on diffusion and permeability were estimated to be functionally insignificant under saturated conditions when simulated using image‐based modelling.

Multiscale modelling of hydraulic conductivity in vuggy porous media

Flow in both saturated and non-saturated vuggy porous media, i.e. soil, is inherently multiscale. The complex microporous structure of the soil aggregates and the wider vugs provides a multitude of flow pathways and has received significant attention from the X-ray computed tomography (CT) community with a constant drive to image at higher resolution. Using multiscale homogenization, we derive averaged equations to study the effects of the microscale structure on the macroscopic flow. The averaged model captures the underlying geometry through a series of cell problems and is verified through direct comparison to numerical simulations of the full structure. These methods offer significant reductions in computation time and allow us to perform three-dimensional calculations with complex geometries on a desktop PC. The results show that the surface roughness of the aggregate has a significantly greater effect on the flow than the microstructure within the aggregate. Hence, this is the region in which the resolution of X-ray CT for image-based modelling has the greatest impact.

Theory of hybrid photorefractive plasmonic liquid crystal cells

We use the theory of optical waveguides to study analytically the voltage-dependent response of a surface plasmon polariton (SPP) at the interface between a photorefractive liquid crystal cell and a semi-infinite gold layer. For sufficiently large electric fields the alignment of the liquid crystal can be calculated analytically. The resulting correction to the SPP dispersion relation is then determined in terms of the applied field and the liquid crystal surface alignment relative to the SPP propagation direction. The approximate analytic techniques developed here are shown to be accurate when compared to rigorous diffraction theory and experimental measurements. The approximate equations are a powerful tool of general application. They can be used to study SPP propagation at the interface between a metal and any nonhomogeneous or anisotropic dielectric and are also applicable to self-assembled monolayers and biosensing applications.

Image-based modelling of nutrient movement in and around the rhizosphere

Highlight Rigorous mathematical techniques and image-based modelling were used to quantify the effect of root hairs on nutrient uptake and to investigate how uptake is influenced by growing root hairs.

Photorefractive control of surface plasmon polaritons in a hybrid liquid crystal cell

We present a photorefractive hybrid liquid crystal system that allows strong photorefractive effects on surface plasmon polaritons. We demonstrate its capability to couple energy between two 1.03 eV surface plasmon polariton modes with an efficiency of 25.3±2.3%. We present the energy and grating pitch dependence of the diffraction and a model that can qualitatively explain them.

Excitation of Surface Plasmons Using Tilted Planar-Waveguide Bragg Gratings

We present a planar-integrated optical surface plasmon refractometer. The fabricated device operates by grating-matched coupling between a core waveguide mode and a set of hybrid plasmon-dielectric modes of a much wider integrated structure. The constructed device incorporates a 50-nm-thin gold layer that separates a tilted planar-waveguide Bragg grating and a liquid analyte. It is demonstrated that polarization-dependent plasmon anomalies occur in the transmission spectra of the device, which are understood using a numerical Cauchy integral mode solving approach. Sensitivities in this planar-integrated device are comparable with existing fiber-based plasmonic sensors but with the advantages of planar integration and microfluidic adaptation.