Synchrotron X-Ray Techniques in Soil, Plant, and Environmental Research

Publisher Summary New generations of synchrotrons designed exclusively as X-ray sources have followed, and these powerful sources of X-rays have become important to a wide variety of scientific disciplines. The past five years have seen a growing number of applications of synchrotron-based techniques to problems in the soil and environmental sciences. Synchtron-based techniques have applications in many other areas of agricultural research as well. The chapter highlights some of the major applications in soil, plant, and environmental research. Many of these applications represent the first use of synchrotron-based techniques in particular agricultural disciplines. The chapter describes the ways in which synchrotrons work, describe the properties of synchrotron radiation, and explain the terminology associated with synchrotron-based research. Synchrotrons vary in their capabilities, so a general understanding of their differences will allow, in a general sense, to assess the suitability of a particular synchrotron for a specific experiment. Synchrotron light is extremely intense is emitted over a wide range of energies, is highly collimated and highly polarized, and has a pulsed time structure. The chapter reviews the applications of synchrotron-based techniques to soil, plant, and environmental research and suggests possible future applications. Some techniques are well established and widely used, e.g., X-ray absorption spectroscopy, X-ray diffraction, and the X-ray microprobe. Other techniques, such as Mossbauer and infrared spectroscopies, are still being developed and there is little or no literature on direct applications to soil, plant, or environmental research.

[1]  Y. Li,et al.  Protein-RNA interactions in an icosahedral virus at 3.0 A resolution. , 1989, Science.

[2]  D. Bilderback,et al.  Nanometer spatial resolution achieved in hard x-ray imaging and Laue diffraction experiments. , 1994, Science.

[3]  John E. Johnson,et al.  Development of cowpea mosaic virus as a high-yielding system for the presentation of foreign peptides. , 1994, Virology.

[4]  R. Jones,et al.  A Computer Technique for Rapid Decomposition of X-Ray Diffraction Instrumental Aberrations from Mineral Line Profiles , 1993 .

[5]  G. M. Bommarito,et al.  Diffuse-double layer at a membrane-aqueous interface measured with x-ray standing waves. , 1990, Science.

[6]  D. Hukins,et al.  Comparison of the structure of micellar calcium phosphate in milk from six species by extended X-ray absorption fine structure spectroscopy , 1985, Journal of Dairy Research.

[7]  H. Rarback,et al.  Scanning X-Ray Microscopy , 1987 .

[8]  S. Sutton,et al.  In situ Chemical Speciation of Uranium in Soils and Sediments by Micro X-ray Absorption Spectroscopy. , 1994, Environmental science & technology.

[9]  S. Bajt,et al.  Determining manganese oxidation state in soils using X-ray absorption near-edge structure (XANES) spectroscopy , 1995 .

[10]  K. Hodgson,et al.  A systematic x-ray absorption study of molybdenum complexes. The accuracy of structural information from extended x-ray absorption fine structure , 1978 .

[11]  D. Koningsberger,et al.  X-ray absorption : principles, applications, techniques of EXAFS, SEXAFS and XANES , 1988 .

[12]  A. Manceau,et al.  Structural chemistry of Mn, Fe, Co, and Ni in manganese hydrous oxides; Part I, information from XANES spectroscopy , 1992 .

[13]  P. Spanne,et al.  Potential applications of synchrotron computed microtomography to soil science , 1993 .

[14]  Cross,et al.  Diffraction anomalous fine structure: A new x-ray structural technique. , 1992, Physical review letters.

[15]  Chris Jacobsen,et al.  Micro-XANES: Chemical contrast in the scanning transmission X-ray microscope , 1994 .

[16]  G. A. Parks,et al.  Spectroscopic investigation of Pb(II) complexes at the γ-Al2O3/water interface , 1990 .

[17]  J. Bottero,et al.  Partial hydrolysis of ferric nitrate salt. Structural investigation by dynamic light scattering and small-angle x-ray scattering , 1991 .

[18]  S. Sutton,et al.  Manganese oxidation states in Gaeumannomyces-infested wheat rhizospheres probeb by micro-XANES spectroscopy , 1995 .

[19]  G. Stacey,et al.  Nitrogen Fixation: Achievements and Objectives , 1992 .

[20]  Hydrolysis and flocculation : a structural approach through small-angle X-ray scattering , 1993 .

[21]  A. Manceau,et al.  New Data and a Revised Structural Model for Ferrihydrite: Comment , 1990 .

[22]  F. Farges,et al.  STRUCTURAL ENVIRONMENTS OF INCOMPATIBLE ELEMENTS IN SILICATE GLASS/MELT SYSTEMS. II: UIV, UV, AND UVI , 1992 .

[23]  江橋 節郎,et al.  Handbook on synchrotron radiation , 1983 .

[24]  Y. Sugishita,et al.  Intravenous coronary angiography using a two-dimensional imaging system , 1994 .

[25]  J. Hanson,et al.  Real‐time X‐ray synchrotron powder diffraction studies of the dehydration processes in scolecite and mesolite , 1994 .

[26]  O. Glatter,et al.  19 – Small-Angle X-ray Scattering , 1973 .

[27]  Gwyn P. Williams,et al.  Overview of synchrotron radiation sources world‐wide , 1991 .

[28]  J. D. Ayers,et al.  Synchrotron X-ray Diffraction from a Microscopic Single Crystal Under Pressure , 1991, Science.

[29]  J. Reffner,et al.  Synchrotron Infrared Absorbance Measurements of Hydrogen in MgSiO3 Perovskite , 1994, Science.

[30]  J. Bolin,et al.  Extended X-ray Absorption Fine Structure and L-Edge Spectroscopy of Nitrogenase Molybdenum—Iron Protein , 1993 .

[31]  J Kirz,et al.  Chemical contrast in X-ray microscopy and spatially resolved XANES spectroscopy of organic specimens. , 1992, Science.

[32]  S. Samar Hasnain,et al.  X‐ray absorption fine structure , 2020, Catalysis from A to Z.

[33]  Edward A. Stern,et al.  New Technique for Investigating Noncrystalline Structures: Fourier Analysis of the Extended X-Ray—Absorption Fine Structure , 1971 .

[34]  J. Bottero,et al.  Mechanism of formation of aluminum trihydroxide from keggin Al13 polymers , 1987 .

[35]  D. Bish,et al.  Rietveld refinement of crystal structures using powder X-ray diffraction data , 1989 .

[36]  Mark L. Rivers,et al.  Elemental imaging of cartilage by scanning x‐ray microscopy , 1992 .

[37]  S. Doniach,et al.  The Principles of X-Ray Absorption Spectroscopy , 1980 .

[38]  Richard Stone DOE opens doors to SSC proposals , 1994 .

[40]  A. Manceau,et al.  Structural chemistry of Mn, Fe, Co, and Ni in manganese hydrous oxides; Part II, information from EXAFS spectroscopy and electron and X-ray diffraction , 1992 .

[41]  W. Bassett,et al.  Dehydration and hydration of montmorillonite at elevated temperatures and pressures monitored using synchrotron radiation , 1994 .

[42]  J. Bottero,et al.  Chemistry and Structure of Al(OH)/Organic Precipitates. A Small Angle X-ray Scattering Study. 1. Numerical Procedure for Speciation from Scattering Curves , 1994 .

[43]  J. Bottero,et al.  Structure and mechanisms of formation of iron oxide hydroxide (chloride) polymers , 1994 .

[44]  X‐Ray Tomography of Soil Properties , 1994 .

[45]  J. Amonette,et al.  Nondestructive Techniques for Bulk Elemental Analysis , 1994 .

[46]  M. Bedzyk Measuring the diffuse‐double layer at an electrochemical interface with long period X‐ray standing waves , 1990 .

[47]  J. Bottero,et al.  Chemistry and structure of Al(OH)/organic precipitates. A small-angle X-ray scattering study. II: Speciation and structure of the aggregates , 1994 .

[48]  J. Bottero,et al.  Investigation of the hydrolysis of aqueous solutions of aluminum chloride. 2. Nature and structure by small-angle x-ray scattering , 1982 .

[49]  H. Rietveld A profile refinement method for nuclear and magnetic structures , 1969 .

[50]  Frank C. Hawthorne,et al.  Spectroscopic methods in mineralogy and geology , 1988 .

[51]  Bingxin X. Yang,et al.  GeoCARS microfocusing Kirkpatrick-Baez mirror bender development , 1995 .

[52]  Keith W. Jones,et al.  Trace element determinations with synchrotron-induced x-ray emission , 1989 .

[53]  John E. Johnson,et al.  Expression of an animal virus antigenic site on the surface of a plant virus particle. , 1993, Virology.

[54]  H. Fuess,,et al.  Powder diffraction in the range of milliseconds , 1992 .

[55]  G. Waldo,et al.  Sulfur speciation in heavy petroleums: Information from X-ray absorption near-edge structure , 1991 .

[56]  D. Adriano,et al.  Application of Synchrotron X-ray Fluorescence Spectroscopy and Energy Dispersive X-ray Analysis To Identify Contaminant Metals on Groundwater Colloids. , 1994, Environmental science & technology.

[57]  C. Laurent,et al.  Structure, formation, and reactivity of hydrous oxide particles; insights from X-ray absorption spectroscopy , 1992 .

[58]  Hitoshi Homma,et al.  Coherent nuclear resonant optics for third-generation synchrotron radiation sources , 1993, Optics & Photonics.

[59]  M. J. Kelley,et al.  Applications of X-ray Absorption Fine Structure Spectroscopy to Soils , 1994 .

[60]  G. A. Parks,et al.  Evidence for multinuclear metal-ion complexes at solid/water interfaces from X-ray absorption spectroscopy , 1990, Nature.

[61]  N. Shah,et al.  Quantitative analysis of all major forms of sulfur in coal by x-ray absorption fine structure spectroscopy , 1991 .

[62]  S. Bajt,et al.  Synchrotron x-ray microprobe determination of chromate content using x-ray absorption near-edge structure , 1993 .

[63]  J. R. Walker,et al.  Computer Applications to X-Ray Powder Diffraction Analysis of Clay Minerals , 1993 .

[64]  S. Bajt,et al.  Synchrotron X-ray fluorescence microprobe analysis with bending magnets and insertion devices , 1993 .

[65]  G. Jennings,et al.  Continuous energy diffraction spectroscopy: A new d‐space matching technique for energy dispersive synchrotron radiation diffraction , 1994 .

[66]  L. Charlet,et al.  X-ray absorption spectroscopic study of the sorption of Cr(III) at the oxide-water interface , 1992 .

[67]  Darrell G. Schulze,et al.  Identification of Soil Iron Oxide Minerals by Differential X‐ray Diffraction , 1981 .

[68]  R. Kirkpatrick,et al.  27Al Mas NMR and Aluminum X-Ray Absorption Near Edge Structure Study of Imogolite and Allophanes , 1994 .

[69]  J. Attfield,et al.  Synchrotron X-ray and neutron powder diffraction studies of the structure of α-CrPO4 , 1988 .

[70]  R. Cernik,et al.  Structural variations in chrysotile asbestos fibers revealed by synchrotron x-ray diffraction and high-resolution transmission electron microscopy , 1994 .

[71]  G. A. Parks,et al.  In situ x-ray absorption study of lead ion surface complexes at the goethite-water interface , 1991 .

[72]  Keith O. Hodgson,et al.  EXAFS and Near Edge Structure III , 1984 .

[73]  G. A. Parks,et al.  Molecular Structure and Binding Sites of Cobalt(II) Surface Complexes on Kaolinite from X-Ray Absorption Spectroscopy , 1994 .

[74]  S. Bajt,et al.  Mapping of selenium concentrations in soil aggregates with synchrotron X-ray fluorescence microprobe , 1994 .

[75]  J. Kirz,et al.  Soft x-ray microscopy with coherent x rays (invited) , 1992 .

[76]  T. Wilhein,et al.  Phase contrast X-ray microscopy , 1994 .

[77]  A. Manceau,et al.  STUDY OF THE LOCAL STRUCTURE IN POORLY-ORDERED PRECURSORS OF IRON OXI-HYDROXIDES , 1986 .

[78]  L. Charlet,et al.  Sorption and speciation of heavy metals on hydrous Fe and Mn oxides. From microscopic to macroscopic , 1992 .

[79]  Keith W. Jones,et al.  Synchrotron computed microtomography of porous media: Topology and transports. , 1994, Physical review letters.

[80]  A. Manceau,et al.  Formation of ferric oxides from aqueous solutions: A polyhedral approach by X-ray Absorption Spectroscopy: II. Hematite formation from ferric gels , 1990 .

[81]  G. Sposito Distinguishing Adsorption from Surface Precipitation , 1987 .

[82]  S. Bajt,et al.  Synchrotron x‐ray fluorescence microprobe: Quantification and mapping of mixed valence state samples using micro‐XANES , 1995 .

[83]  V. Drits,et al.  Structural Model for Ferrihydrite , 1993, Clay Minerals.

[84]  W. Hendrickson Determination of macromolecular structures from anomalous diffraction of synchrotron radiation. , 1991, Science.

[85]  U. Bonse,et al.  Microtomography: A tool for nondestructive study of materials , 1991 .

[86]  J. Bolin,et al.  Refinement of a Model for the Nitrogenase MoFe Cluster Using Single‐Crystal Mo and Fe EXAFS , 1993 .

[87]  Mark L. Rivers,et al.  Synchrotron X-ray fluorescence microprobe: A microanalytical instrument for trace element studies in geochemistry, cosmochemistry, and the soil and environmental sciences , 1994 .

[88]  P. N. Gibson,et al.  X-ray absorption spectroscopy investigation of surface redox transformations of thallium and chromium on colloidal mineral oxides , 1993 .

[89]  L. Aylmore Application of Computer Assisted Tomography to Soil‐Plant‐Water Studies: An Overview , 1994 .

[90]  J. Bolin,et al.  Nitrogenase metalloclusters: structures, organization, and synthesis , 1993, Journal of bacteriology.

[91]  J. Dixon,et al.  Minerals in soil environments , 1990 .

[92]  S. Bajt,et al.  X-ray microprobe analysis of iron oxidation states in silicates and oxides using X-ray absorption near edge structure (XANES) , 1994 .

[93]  Gwyn P. Williams,et al.  Infrared microspectroscopy at the NSLS , 1994 .

[94]  Graham Aylmore Tomography of Soil-Water-Root Processes , 1994 .

[95]  J. Bottero,et al.  Partial hydrolysis of ferric chloride salt. Structural investigation by photon-correlation spectroscopy and small-angle X-ray scattering , 1991 .

[96]  G. A. Parks,et al.  In Situ X-ray Absorption Study of Surface Complexes: Selenium Oxyanions on α-FeOOH , 1987, Science.

[97]  Donald H. Bilderback,et al.  Developments in tapered monocapillary and polycapillary glass X-ray concentrators , 1994 .

[98]  D. Sparks,et al.  Mechanisms of chromium(III) sorption on silica. 1. Chromium(III) surface structure derived by extended x-ray absorption fine structure spectroscopy. , 1994, Environmental science & technology.

[99]  C T Prewitt,et al.  New Opportunities in Synchrotron X-ray Crystallography , 1987, Science.

[100]  P. N. Gibson,et al.  XANES and Laser Fluorescence Spectroscopy for Rare Earth Speciation at Mineral-Water Interfaces , 1992 .

[101]  R. Pattrick,et al.  Identification of pyromorphite in mine‐waste contaminated soils by ATEM and EXAFS , 1994 .

[102]  F. Ugolini,et al.  Quantitative Methods in Soil Mineralogy. , 1996 .

[103]  G. A. Parks,et al.  X-ray absorption spectroscopy of cobalt(II) multinuclear surface complexes and surface precipitates on kaolinite , 1994 .

[104]  L. Charlet,et al.  X-ray absorption spectroscopic study of the sorption of Cr(III) at the oxide-water interface: II. Adsorption, coprecipitation, and surface precipitation on hydrous ferric oxide , 1992 .

[105]  K. Hayes,et al.  Geochemical processes at mineral surfaces , 1987 .

[106]  David L. Bish,et al.  Modern powder diffraction , 1989 .

[107]  S. Anderson tomography of Soil-Water-Root Processes , 1994 .

[108]  G. Waychunas,et al.  X-ray absorption spectroscopic studies of silicate glasses and minerals , 1987 .

[109]  P. Rowley-Conwy,et al.  Gazelle Killing in Stone Age Syria , 1987 .

[110]  T. Ishibashi,et al.  Fluorescent X-ray interference from a protein monolayer , 1994 .

[111]  J. Bottero,et al.  Chemistry and Structure of Al(OH)/Organic Precipitates. A Small-Angle X-ray Scattering Study. 3. Depolymerization of the Al13 Polycation by Organic Ligands , 1994 .

[112]  A. Dent,et al.  An EXAFS study of uranyl ion in solution and sorbed onto silica and montmorillonite clay colloids , 1992 .

[113]  J. Bottero,et al.  Formation of ferric oxides from aqueous solutions: A polyhedral approach by X-ray absorption spectroscdpy: I. Hydrolysis and formation of ferric gels , 1989 .

[114]  Sebastian Doniach,et al.  Synchrotron Radiation Research , 1978, Springer US.

[115]  Mark L. Rivers,et al.  Computerized microtomography using synchrotron radiation from the NSLS , 1986 .

[116]  D. R. Sandstrom EXAFS Studies of Electrolyte Solutions , 1984 .

[117]  F. Farges,et al.  Local environment around gold(III) in aqueous chloride solutions: An EXAFS spectroscopy study , 1993 .

[118]  Sally J. Marshall,et al.  The X-ray tomographic microscope: Three-dimensional perspectives of evolving microstructures , 1994 .

[119]  H. Ade,et al.  X-ray Linear Dichroism Microscopy , 1993, Science.

[120]  G. Taubes Structural biology. X-ray movies start to capture enzyme molecules in action. , 1994, Science.

[121]  D. Bilderback,et al.  Production of intense micrometer‐sized x‐ray beams with tapered glass monocapillaries , 1993 .

[122]  M. Rivers,et al.  Synchrotron X-ray microanalysis , 1995 .

[123]  W. Gibson,et al.  Potential for concentration of synchrotron beams with capillary optics , 1994 .

[124]  H. Ade Nexafs microscopy of polymeric samples , 1994 .

[125]  G. Artioli,et al.  Palygorskite From Bolca, Italy - A Characterization By High-resolution Synchrotron-radiation Powder Diffraction and Computer Modeling , 1994 .

[126]  N. Xuong,et al.  Structure of the nitrogenase MoFe protein: Spatial distribution of the intrinsic metal atoms determined by X-ray anomalous scattering , 1990 .

[127]  Janos Kirz,et al.  Selective chemical mapping of coal microheterogeneity by scanning transmission x-ray microscopy , 1994 .

[128]  G. Waychunas,et al.  Surface chemistry of ferrihydrite: Part 1. EXAFS studies of the geometry of coprecipitated and adsorbed arsenate , 1993 .

[129]  P. Barnes,et al.  Conversion of calcium aluminate cement hydrates re-examined with synchrotron energy-dispersive diffraction , 1994 .

[130]  A. Bell,et al.  Rietveld refinement of the structures of dry-synthesized MFeIIISi2O6 leucites (M = K, Rb, Cs) by synchrotron X-ray powder diffraction , 1994 .

[131]  M. Bedzyk,et al.  Lattice location of trace elements within minerals and at their surfaces with X-ray standing waves. , 1994, Science.

[132]  I. Wood,et al.  X‐ray anomalous scattering difference patterns in qualitative and quantitative powder diffraction analysis , 1986 .

[133]  Boon K. Teo,et al.  EXAFS: Basic Principles and Data Analysis , 1986 .

[134]  L. Finger Synchrotron powder diffraction , 1989 .

[135]  Kwang‐Je Kim,et al.  Characteristics of synchrotron radiation , 1989 .

[136]  G. A. Parks,et al.  EXAFS spectroscopic study of neptunium(V) sorption at the .alpha.-iron hydroxide oxide (.alpha.-FeOOH)/water interface , 1992 .

[137]  Richard A. Secco,et al.  X-ray absorption spectroscopy of silicon dioxide (SiO2) polymorphs : the structural characterization of opal , 1994 .

[138]  M. Sohn,et al.  Aquatic surface chemistry: Edited by Werner Stumm. Wiley, New York. 1987. $69.95 (ISBN 0471822951) , 1988 .

[139]  H. Olphen,et al.  Proceedings of the International Clay Conference Denver, 1985 , 1985 .

[140]  A NEXAFS study of the orientation of benzoate intercalated into a layer double hydroxide , 1994 .

[141]  H. Pöllmann,et al.  A time-resolved synchrotron energy dispersive diffraction study of the dynamic aspects of the synthesis of ettringite during minepacking , 1993 .

[142]  J E Trebes,et al.  Ultrahigh-Resolution X-ray Tomography , 1994, Science.

[143]  F. Rousseaux,et al.  Utilisation du rayonnement synchrotron en diffusion aux petits angles pour l'etude du gonflement des smectites: II. Etude de différents systÈmes eau-smectites en fonction de la température , 1982, Clay Minerals.

[144]  P. Potts Microprobe techniques in the earth sciences , 1995 .

[145]  M. C. Nichols,et al.  Differential X‐ray diffraction: a theoretical basis for a technique based on wavelength variation , 1985 .