Importance of inner-sphere P-O-Fe bonds in natural and synthetic mineral-organic associations.

Sorption of organic molecules on mineral surfaces can occur through several binding mechanisms of varying strength. Here, we investigated the importance of inner-sphere P-O-Fe bonds in synthetic and natural mineral-organic associations. Natural organic matter such as water extracted soil organic matter (WESOM) and extracellular polymeric substances (EPS) from liquid bacterial cultures were adsorbed to goethite and examined by FTIR spectroscopy and P K-edge NEXAFS spectroscopy. Natural particles from a Bg soil horizon (Gleysol) were subjected to X-ray fluorescence (XRF) mapping, NanoSIMS imaging, and NEXAFS spectro-microscopy at the P K-edge. Inner-sphere P-O-Fe bonds were identified for both, adsorbed EPS extracts and adsorbed WESOMs. Characteristic infrared peaks for P-O-Fe stretching vibrations are present but cannot unambiguously be interpreted due to possible interferences with mono- and polysaccharides. For the Bg horizon, P was only found on Fe oxides, covering the entire surface at different concentrations, but not on clay minerals. Linear combination fitting of NEXAFS spectra indicates that this adsorbed P is mainly a mixture of orthophosphate and organic P compounds. By combining atomic force microscopy (AFM) images with STXM-generated C and Fe distribution maps, we show that the Fe oxide surfaces were fully coated with organic matter. In contrast, clay minerals revealed a much lower C signal. The C NEXAFS spectra taken on the Fe oxides had a substantial contribution of carboxylic C, aliphatic C, and O-alkyl C, which is a composition clearly different from pure adsorbed EPS or aromatic-rich lignin-derived compounds. Our data show that inner-sphere P-O-Fe bonds are important for the association of Fe oxides with soil organic matter. In the Bg horizon, carboxyl groups and orthophosphate compete with the organic P compounds for adsorption sites.

High-Resolution Table-Top NEXAFS Spectroscopy.

A table-top near-edge X-ray absorption fine structure (NEXAFS) spectroscopy system consisting of a soft X-ray source and an integrated spectrometer with a significantly improved resolution is presented. The soft X-ray source is based on a long-term stable and nearly debris-free picosecond laser-induced plasma generated in a pulsed krypton gas jet target. Photon energies ranging from 250 to 1000 eV can be used for the absorption spectroscopy of thin samples. The newly designed spectrometer accomplishes a spectral resolution of E/ΔE = 1535 at 430 eV, being close to typical synchrotron setups. Moreover, a simultaneous multi-edge analysis is possible. The performance of the new system is demonstrated by investigating the fine structure of the K- and L-absorption edges of various elements (carbon, calcium, oxygen, iron, nickel, and copper) for different types of samples. An excellent agreement with synchrotron spectra is achieved.

Manganese-Driven Carbon Oxidation at Oxic-Anoxic Interfaces.

The formation of reactive manganese (Mn) species is emerging as a key regulator of carbon oxidation rates, and thus CO2 emissions, in soils and sediments. Many subsurface environments are characterized by steep oxygen gradients, forming oxic-anoxic interfaces that enable rapid redox cycling of Mn. Here, we examined the impact of Mn(II)aq oxidation along oxic-anoxic interfaces on carbon oxidation in soils using laboratory-based diffusion reactors. A combination of cyclic voltammetry, X-ray absorption spectroscopy, and X-ray microprobe imaging revealed a tight coupling between Mn(II)aq oxidation and carbon oxidation at the oxic-anoxic interface. Specifically, zones of Mn(II)aq oxidation across the oxic-anoxic transition also exhibited the greatest lignin oxidation potential, carbon solubilization, and oxidation. Microprobe imaging further revealed that the generation of Mn(III)-dominated precipitates coincided with carbon oxidation. Combined, our findings demonstrate that biotic Mn(II)aq oxidation, specifically the formation of Mn(III) species, contributes to carbon oxidation along oxic-anoxic interfaces in soils and sediments. Our results suggest that we should regard carbon oxidation not merely as a function of molecular composition, which insufficiently predicts rates, but in relation to microenvironments favoring the formation of critically important oxidants such as Mn(III).

Comparison of soil organic carbon speciation using C NEXAFS and CPMAS 13C NMR spectroscopy.

We compared synchrotron-based C near-edge X-ray absorption fine structure (NEXAFS) and CPMAS 13C nuclear magnetic resonance (NMR) spectroscopy with respect to their precision and accuracy to quantify different organic carbon (OC) species in defined mixtures of soil organic matter source compounds. We also used both methods to quantify different OC species in organic surface horizons of a Histic Leptosol as well as in mineral topsoil and subsoil horizons of two soils with different parent material, stage of pedogenesis, and OC content (Cambisol: 15-30 OC mgg-1, Podzol: 0.9-7 OC mgg-1). CPMAS 13C NMR spectroscopy was more accurate and precise (mean recovery of different C functional groups 96-103%) than C NEXAFS spectroscopy (mean recovery 92-113%). For organic surface and topsoil samples, NMR spectroscopy consistently yielded larger O-alkyl C percentages and smaller alkyl C percentages than C NEXAFS spectroscopy. For the Cambisol subsoil samples both methods performed well and showed similar C speciation results. NEXAFS spectroscopy yielded excellent spectra with a high signal-to-noise ratio also for OC-poor Podzol subsoil samples, whereas this was not the case for CPMAS 13C NMR spectroscopy even after sample treatment with HF. Our results confirm the analytical power of CPMAS 13C NMR spectroscopy for a reliable quantitative OC speciation in soils with >10mgOCg-1. Moreover, they highlight the potential of synchrotron-based C NEXAFS spectroscopy as fast, non-invasive method to semi-quantify different C functional groups in soils with low C content (0.9-10mgg-1).

Micro-scale heterogeneity of soil phosphorus depends on soil substrate and depth.

Soils comprise various heterogeneously distributed pools of lithogenic, free organic, occluded, adsorbed, and precipitated phosphorus (P) forms, which differ depending on soil forming factors. Small-scale heterogeneity of element distributions recently has received increased attention in soil science due to its influence on soil functions and soil fertility. We investigated the micro-scale distribution of total P and different specific P binding forms in aggregates taken from a high-P clay-rich soil and a low-P sandy soil by combining advanced spectrometric and spectroscopic techniques to introduce new insights on P accessibility and availability in soils. Here we show that soil substrate and soil depth determine micro-scale P heterogeneity in soil aggregates. In P-rich areas of all investigated soil aggregates, P was predominantly co-located with aluminium and iron oxides and hydroxides, which are known to strongly adsorb P. Clay minerals were co-located with P only to a lesser extent. In the low-P topsoil aggregate, the majority of the P was bound organically. Aluminium and iron phosphate predominated in the quartz-rich low-P subsoil aggregate. Sorbed and mineral P phases determined P speciation in the high-P top- and subsoil, and apatite was only detected in the high-P subsoil aggregate. Our results indicate that micro-scale spatial and chemical heterogeneity of P influences P accessibility and bioavailability.

Control of sulfidogenesis through bio-oxidation of H2S coupled to (per)chlorate reduction.

We investigated H2S attenuation by dissimilatory perchlorate-reducing bacteria (DPRB). All DPRB tested oxidized H2S coupled to (per)chlorate reduction without sustaining growth. H2S was preferentially utilized over organic electron donors resulting in an enriched (34S)-elemental sulfur product. Electron microscopy revealed elemental sulfur production in the cytoplasm and on the cell surface of the DPRB Azospira suillum. Based on our results, we propose a novel hybrid enzymatic-abiotic mechanism for H2S oxidation similar to that recently proposed for nitrate-dependent Fe(II) oxidation. The results of this study have implications for the control of biosouring and biocorrosion in a range of industrial environments.

STXM and NanoSIMS investigations on EPS fractions before and after adsorption to goethite.

Extracellular polymeric substances (EPS) are expected to be an important source for the formation of mineral-organic associations in soil. Because such formations affect the composition of mobile and immobile organic matter as well as the reactivity of minerals, we investigated the composition of EPS before and after adsorption to goethite. Raman measurements on EPS extracted from Bacillus subtilis distinguished four fractions rich in proteins, polysaccharides, lipids, or lipids and proteins. Scanning transmission X-ray microscopy identified three different EPS-fractions that varied in their composition in proteins, nonaromatic proteins, and polysaccharides. Reaction of EPS with goethite led to a preferential adsorption of lipids and proteins. The organic coverage was heterogeneous, consisting of ~100 × 200 nm large patches of either lipid-rich or protein-rich material. Nanoscale secondary ion mass spectrometry showed a strong S enrichment in aggregates of ~400 nm in the goethite adsorbed EPS. From our simplified model system, we learned that only a small portion (<10%) of EPS was immobilized via adsorption to goethite. This fraction formed a coating of subµm spaced protein-rich and lipid-rich domains, i.e., of two materials which will strongly differ in their reactive sites. This will finally affect further adsorption, the particle mobility and eventually also colloidal stability.

Imaging of vascular smooth muscle cells with soft X-ray spectromicroscopy.

Using X-ray microscopy and spectromicroscopy, vascular smooth muscle cells (VSMCs) were imaged, prepared without using additional embedding material or staining, but by applying simple, noncryo fixation techniques. The cells were imaged with a compact source transmission X-ray microscope and a scanning transmission X-ray microscope (STXM). With the STXM, spectromicroscopy was performed at the C K-edge and the Ca L(III,II)-edges. VSMCs were chosen because of their high amount of actin stress fibers, so that the actin cytoskeleton should be visible. Other parts of the cell, such as the nucleus and organelles, were also identified from the micrographs. Both in the spectra and the images, the effects of the different preparation procedures were observable. Furthermore, Ca hotspots were detected and their density is determined.

Sulfur speciation in soil by S K-Edge XANES spectroscopy: comparison of spectral deconvolution and linear combination fitting.

Defined, quartz-diluted mixtures of sulfur (S) compounds with different oxidation state (OS) were analyzed by K-edge XANES spectroscopy using linear combination fitting (LCF) and spectrum deconvolution by fitting several Gaussian and arctangent functions (GCF). Additionally, for different soils the S speciation as calculated by both methods was compared with results of a wet-chemical S speciation. For mixtures of FeS, L-cysteine, and Na2SO4, the S speciation was recovered with satisfactory accuracy and precision by both methods at the 2 and 0.2 mg S g(-1) level. For GCF, white-line peaks must be normalized with respect to their OS-specific absorption cross-section. LCF must be conducted with dilute reference compounds to avoid self-absorption effects. For mixtures of FeS, FeS2, S°, and L-cysteine, both procedures showed poor accuracy. For the soils, similar percentages of reduced inorganic S, organic S, and sulfate were calculated by LCF, GCF, and wet chemical S speciation. GCF allows a fair estimation of S species groups with different OS (inorganic reduced S, organic reduced S, organic intermediate S, oxidized S) in soils without standards. If dilute standards of all S compounds assumed to be present in a sample are available, LCF is more objective and allows a more detailed S speciation.

Assessment of sulfur and iron speciation in a soil aggregate by combined S and Fe micro-XANES: microspatial patterns and relationships.

To test whether synchrotron-based spectromicroscopy can be used to identify spatial patterns of sulfur (S) and iron (Fe) speciation as well as relationships between the speciation of S and Fe in soil colloids or aggregates at the micrometre and sub-micrometre level, an anoxically prepared dissected soil aggregate (size approximately 1 mm(3)) was analyzed by micro-XANES at the K-edges of S (2472 eV) and Fe (7112 eV). The experiment included (i) elemental mapping at the S K-edge (S, Si, Al) and the Fe K-edge (Fe, Si), (ii) acquisition of 300 microm x 300 microm images of the region of interest with X-ray energies of 2474 eV (addressing reduced organic and inorganic S), 2483 eV (total S), 7121 eV (divalent Fe) and 7200 eV (total Fe), as well as (iii) acquisition of S and Fe micro-XANES spectra at two different positions, where image analysis suggested the dominance of reduced and oxidized S and Fe, respectively. Image analysis revealed a heterogeneous distribution of total Si, S and Fe as well as of different S and Fe species in the aggregate. Microregions which were either enriched in reduced or in oxidized S and Fe could be identified. A microregion with a large contribution of oxidized S (sulfate, sulfonate) to total S contained exclusively Fe(III) oxyhydroxides (probably ferrihydrite) as S-bearing phase, whereas another microregion with a large contribution of reduced organic S (thiol, organic disulfide) to total S contained a small amount of Fe(II)-bearing silicate in addition to the dominating Fe(III) oxyhydroxides. Our results show that combined S and Fe micro-XANES is a powerful tool for studying microscale spatial patterns of S and Fe speciation as well as microscale relationships between the speciation of S and Fe in soil aggregates.

Solid supported multicomponent lipid membranes studied by x-ray spectromicroscopy.

This article addresses the lateral organization of two-component lipid membranes deposited on a solid support with the addition of colloidal particles. The authors have applied synchrotron-based scanning transmission soft x-ray spectromicroscopy to image thin lipid layer patches with bound microspheres coated by a charged monolayer. The ability and current limits of scanning transmission x-ray spectromicroscopy to examine samples under physiologically relevant conditions in the presence of excess water have been tested. In particular, the authors have investigated a range of model lipids and have shown that these can be reproducibly identified from the near-edge x-ray absorption fine structure spectra at the carbon K absorption edge. Reference spectra were obtained based on a compact laser-driven plasma source, while the spectromicroscopy data were collected using synchrotron radiation at a lateral resolution of about 60 nm. The authors show that thin lipid layer sensitivity can indeed be reached under physiological conditions and that membrane colloid interaction as well as eventual lateral segregation of lipid components may be probed in the future by this technique.

Transmission X-ray microscopy of spider dragline silk.

We have investigated the structure of spider silk fibers from two different Nephila species and three different Araneus species by transmission X-ray microscopy (TXM). Single fibers and double fibers have been imaged. All images are in agreement with a homogenous density on length scales between the fiber diameter and the resolution of the instrument, which is about 25 nm.

X-ray tomography of a microhabitat of bacteria and other soil colloids with sub-100 nm resolution.

Visualization of the spatial arrangement of bacteria and other colloids permits to describe relevant soil parameters like porosity or nutrient storage capacity. Major advantages of X-ray microscopy for these investigations are the much higher spatial resolution compared to visible light microscopy and its ability to study colloidal structures directly in aqueous media. To obtain information about the three-dimensional structure of the microhabitats formed by bacteria and other soil colloids, tomography based on X-ray microscopy images with about 45 nm resolution was performed. Tomographic reconstructions presented in this paper clearly reveal the spatial arrangement of bacteria and other soil colloids which cannot be obtained from two-dimensional projections. The results show that X-ray nanotomography is a very powerful tool for examining the three-dimensional structure of flocs of colloidal particles.

Characterisation of structure and aggregation processes of aquatic humic substances using small-angle scattering and X-ray microscopy.

Aquatic humic substances (HS), an important part of the dissolved organic carbon in freshwater systems, are polyfunctional natural compounds with polydisperse structure showing strong aggregation/coagulation behaviour at high HS concentrations and in the presence of metal ions. In this study, small-angle neutron scattering (SANS), small-angle X-ray scattering (SAXS) and X-ray microscopy (XRM) were applied to characterise the structure and aggregation processes of HS in solution. In SAXS and XRM the high brilliant synchrotron radiation was used as X-ray source. Applying small-angle scattering, information about the size distribution and shape of aquatic HS was obtained. Spherical HS units were found which were stable in a wide concentration range in a kind of "monomeric" state almost independent of pH and ionic strength. At higher concentrations they formed chain-like agglomerates or disordered HS structures. In studies on the coagulation behaviour of HS after addition of copper ions, a linear relationship between Cu(2+) concentration and the formation of large disordered HS-Cu(2+) agglomerates was obtained. By using X-ray microscopy, single "huge" particles were found in older solutions and in solutions with high HS concentrations. Over a threshold Cu(2+) concentration of approx. 300 mg/L, the formation of an extensive HS-Cu(2+) network structure was observed within a few minutes. The presented structures show the ability of the methods used to characterise processes between diluted phase and suspended matter, which play an important role particularly in the region of phase interfaces.