Combining Neutron and Magnetic Resonance Imaging to Study the Interaction of Plant Roots and Soil

AbstractThe soil in direct vicinity of the roots, the root-soil interface or so called rhizosphere, is heavily modified by the activity of roots, compared to bulk soil, e.g. in respect to microbiology and soil chemistry. It has turned out that the root-soil interface, though small in size, also plays a decisive role in the hydraulics controlling the water flow from bulk soil into the roots. A promising approach for the non-invasive investigation of water dynamics, water flow and solute transport is the combination of the two imaging techniques magnetic resonance imaging (MRI) and neutron imaging (NI). Both methods are complementary, because NI maps the total proton density, possibly amplified by NI tracers, which usually corresponds to total water content, and is able to detect changes and spatial patterns with high resolution. On the other side, nuclear magnetic resonance relaxation times reflect the interaction between fluid and matrix, while also a mapping of proton spin density and thus water content is possible. Therefore MRI is able to classify different water pools via their relaxation times additionally to the water distribution inside soil as a porous medium. We have started such combined measurements with the approach to use the same samples and perform tomography with each imaging method at different location and short-term sample transfer

Patterns in Soil-Vegetation-Atmosphere Systems: Monitoring, Modeling, and Data Assimilation

In this special issue, we present recent scientific work that analyzes the role of patterns in soil-vegetation-atmosphere (SVA) systems over a wide range of scales ranging from the pore scale up to mesoscale catchments. Specific attention is given to the development of novel data assimilation methods, noninvasive measurement techniques that allow mapping spatial patterns of state variables and fluxes, and two-way coupling of models in a scale-consistent way. "Patterns in Soil-Vegetation-Atmosphere Systems" is also the research topic of a collaborative research center (TR32) between the universities of Aachen, Bonn, and Cologne and the Forschungszentrum Julich. In this center, which is funded by the Deutsche Forschungsgemeinschaft, on the basis of an international evaluation, scientists covering a broad range of earth science disciplines are working together. During June 11-12, 2010 the center organized its first international workshop in Aachen. The contributions presented in this special issue of Vadose Zone Journal include contributions from the collaborative research center and external contributions, both from Germany and worldwide

A Glutamic Acid-Rich Protein Identified in Verticillium dahliae from an Insertional Mutagenesis Affects Microsclerotial Formation and Pathogenicity

Verticillium dahliae Kleb. is a phytopathogenic fungus that causes wilt disease in a wide range of crops, including cotton. The life cycle of V. dahliae includes three vegetative phases: parasitic, saprophytic and dormant. The dormant microsclerotia are the primary infectious propagules, which germinate when they are stimulated by root exudates. In this study, we report the first application of Agrobacterium tumefaciens-mediated transformation (ATMT) for construction of insertional mutants from a virulent defoliating isolate of V. dahliae (V592). Changes in morphology, especially a lack of melanized microsclerotia or pigmentation traits, were observed in mutants. Together with the established laboratory unimpaired root dip-inoculation approach, we found insertional mutants to be affected in their pathogenicities in cotton. One of the genes tagged in a pathogenicity mutant encoded a glutamic acid-rich protein (VdGARP1), which shared no significant similarity to any known annotated gene. The vdgarp1 mutant showed vigorous mycelium growth with a significant delay in melanized microsclerotial formation. The expression of VdGARP1 in the wild type V529 was organ-specific and differentially regulated by different stress agencies and conditions, in addition to being stimulated by cotton root extract in liquid culture medium. Under extreme infertile nutrient conditions, VdGARP1 was not necessary for melanized microsclerotial formation. Taken together, our data suggest that VdGARP1 plays an important role in sensing infertile nutrient conditions in infected cells to promote a transfer from saprophytic to dormant microsclerotia for long-term survival. Overall, our findings indicate that insertional mutagenesis by ATMT is a valuable tool for the genome-wide analysis of gene function and identification of pathogenicity genes in this important cotton pathogen

Structural Stability and Unfolding Properties of Thermostable bacterial alpha-amylases: A Comparative Study on Homologous Enzymes

In a comparative investigation on two thermostable alpha-amylases [Bacillus amyloliquefaciens (BAA), T(m) = 86 degrees C and Bacillus licheniformis (BLA), T(m) = 101 degrees C], we studied thermal and guanidine hydrochloride (GndHCl)-induced unfolding using fluorescence and CD spectroscopy, as well as dynamic light scattering. Depletion of calcium from specific ion-binding sites in the protein structures reduces the melting temperature tremendously for both alpha-amylases. The reduction is nearly the same for both enzymes, namely, in the order of 50 degrees C. Thus, the difference in thermostability between BLA and BAA (DeltaT(m) approximately 15 degrees C) is related to intrinsic properties of the respective protein structures themselves and is not related to the strength of ion binding. The thermal unfolding of both proteins is characterized by a full disappearance of secondary structure elements and by a concurrent expansion of the 3D structure. GndHCl-induced unfolding also yields a fully vanishing secondary structure but with more expanded 3D structures. Both alpha-amylases remain much more compact upon thermal unfolding as compared to the fully unfolded state induced by chemical denaturants. Such rather compact thermal unfolded structures lower the conformational entropy change during the unfolding transition, which principally can contribute to an increased thermal stability. Structural flexibilities of both enzymes, as measured with tryptophan fluorescence quenching, are almost identical for both enzymes in the native states, as well as in the unfolded states. Furthermore, we do not observe any difference in the temperature dependence of the structural flexibilities between BLA and BAA. These results indicate that conformational dynamics on the time scale of our studies seem not to be related to thermal stability or to thermal adaptation

Ionization of short polymethacrylic acid: titration, DLS and model calculations

In this work the charging of polymethacrylic acid in excess electrolyte solution is investigated experimentally by titration and dynamic light scattering. The results are analyzed by a penetrable sphere model, which employs the Poisson-Boltzmann equation for the description of electrostatic interactions and takes into account specific binding of H+ and Na+. The evaluation of the DLS data yields two relaxation modes. The slow mode is present only at finite degrees of charging and is therefore caused by collective diffusion. The fast mode, which corresponds to diffusion coefficients in the range from (1.1 to 1.5) x 10(-10) m2 s(-1), is present over the whole pH range. This reflects the diffusional dynamics of the polyion itself and allows the calculation of hydrodynamic radii for equivalent spheres (RH). These increase from 1.5 nm at pH 2.14 up to 1.8 nm for a degree of deprotonation alpha=0.47 at pH 5.86. With a further increase of pH the radii slightly decrease to 1.6 nm. Setting the radius of the penetrable sphere equal to RH, we can successfully model the overall charging curve with logK0H=4.85 and logK0Na=-0.6. This means that weak complexes of the type COO---Na are formed, which reduce the effective charge inside the polyelectrolyte coil

A Fast Field Cycling Nuclear Magnetic Resonance Relaxometry Study of Natural Soils

This study used nuclear magnetic resonance (NMR) relaxometry at different Larmor frequencies to investigate water dynamics in the pore space of natural porous media. Spin-lattice NMR relaxation times (T-1) were determined in purified fine sand and two natural soils, Kaldenkirchen sandy loam and Merzenhausen silt loam, by means of fast field This technique investigates relaxation processes as a function of the Larmor frequency. in the 0.005 and 20 MHz, yielding so-called relaxation dispersion curves (1/T-1 vs. log.). The data were further by means of inverse Laplace transformation to calculate the T-1 relaxation time distribution functions. Only sand was characterized by monomodal distribution with T-1 of about 1 s at 20 MHz, whereas the natural soil showed multi modal distribution functions in the range between 2 and 70 ms. With decreasing Larmor frequency, all distribution functions kept their shapes but were shifted to faster relaxation times. The corresponding relaxation dispersion curves indicate predominance of two-dimensional diffusion of water in the soils, whereas in the sand, diffusion behaved like unrestricted three-dimensional diffusion. In terms of the Brownstein-Tarr model, in the T-1 relaxation times with increasing silt and clay content can be explained by an increase of the volume ratios (S/V) of these porous media, i.e., by a decrease in the pore sizes. Finally, distribution functions of size parameter V/S were obtained from the spin-lattice relaxation time distributions by normalizing on the specific surface area. They ranged from submicrometers in the Merzenhausen soil to micrometers and submillimeters in soil and fine sand, respectively