Advances in using soft X-ray spectroscopy for measurement of soil biogeochemical processes

Advances in Agronomy

Volumn 133, Issue , 2015, Pages 1-32

  Gillespie, Adam W ^a,b   Phillips, Courtney L ^b   Dynes, James J ^a   Chevrier, David ^a   Regier, Thomas Z ^a   Peak, Derek ^b  

^a CANADIAN LIGHT SOURCE INC   (Canada)

^b UNIVERSITY OF SASKATCHEWAN   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84943349289     PISSN: 00652113     EISSN: None     Source Type: Book Series    
DOI: 10.1016/bs.agron.2015.05.003     Document Type: Article

References (44)

1. Achkar, A.J., Regier, T.Z., Wadati, H., Kim, Y.-J., Zhang, H., Hawthorn, D.G., 2011. Bulk sensitive x-ray absorption spectroscopy free of self-absorption effects. Phys. Rev. B-Condens. Matter Mater. Phys. 83 (8). Available from: http://www.scopus.com/inward/record.url?eid=2-s2.0-79960981128&partnerID=40&md5=a27596f587b72d4fed03c3421d299d43.
2. Atkins, P., Overton, T., Rourke, J., Weller, M., Armstrong, F., 2010. Inorganic Chemistry. Oxford University Press, Oxford, MA.
3. Beetz, T., Jacobsen, C., 2003. Soft X-ray radiation-damage studies in PMMA using a cryo- STXM. J. Synchrotron Radiat. 10 (3), 280-283.
4. Cody, G.D., Brandes, J., Jacobsen, C., Wirick, S., 2009. Soft X-ray induced chemical modification of polysaccharides in vascular plant cell walls. J. Electron Spectrosc. Relat. Phenom. 170 (1-3), 57-64.
5. Frazer, B.H., Gilbert, B., Sonderegger, B.R., De Stasio, G., 2003. The probing depth of total electron yield in the sub-keV range: TEY-XAS and X-PEEM. Surf. Sci. 537 (1-3), 161-167.
6. Fuchs, O., Maier, F., Weinhardt, L., Weigand, M., Blum, M., Zharnikov, M., Denlinger, J., Grunze, M., Heske, C., Umbach, E., 2008. A liquid flow cell to study the electronic structure of liquids with soft X-rays. Nucl. Instrum. Methods Phys. Res. Sect. A: Accel. Spectrom. Detect. Assoc. Equip. 585 (3), 172-177.
7. Gillespie, A.W., Diochon, A., Ma, B.L., Morrison, M.J., Kellman, L., Walley, F.L., Regier, T.Z., Chevrier, D., Dynes, J.J., Gregorich, E.G., 2014a. Nitrogen input quality changes the biochemical composition of soil organic matter stabilized in the fine fraction: a long-term study. Biogeochemistry 117, 337-350.
8. Gillespie, A.W., Sanei, H., Diochon, A., Ellert, B.H., Regier, T.Z., Chevrier, D., Dynes, J.J., Tarnocai, C., Gregorich, E.G., 2014b. Perennially and annually frozen soil carbon differ in their susceptibility to decomposition: analysis of Subarctic earth hummocks by bioassay, XANES and pyrolysis. Soil Biol. Biochem. 68, 106-116.
9. Godfray, H.C.J., Beddington, J.R., Crute, I.R., Haddad, L., Lawrence, D., Muir, J.F., Pretty, J., Robinson, S., Thomas, S.M., Toulmin, C., 2010. Food security: the challenge of feeding 9 billion people. Science 327 (5967), 812-818.
10. de Groot, F., Kotani, A., 2008. Core Level Spectroscopy of Solids. In: Advances in Condensed Matter Science. CRC Press, Boca Raton, FL.
11. Gudat, W., Kunz, C., 1972. Close similarity between photoelectric yield and photoabsorption spectra in the soft-x-ray range. Phys. Rev. Lett. 29 (3), 169-172.
12. Hay, M.B., Myneni, S.C.B., 2010. X-ray absorption spectroscopy of aqueous aluminumorganic complexes. J. Phys. Chem. A 114 (20), 6138-6148.
13. Hubbell, J.H., Trehan, P.N., Singh, N., Chand, B., Mehta, D., Garg, M.L., Garg, R.R., Singh, S., Puri, S., 1994. A review, Bibliography, and Tabulation of K, L, and higher atomic shell X-Ray fluorescence yields. J. Phys. Chem. Reference Data 23 (2), 339-364.
14. Jaklevic, J., Kirby, J.A., Klein, M.P., Robertson, A.S., Brown, G.S., Eisenberger, P., 1977. Fluorescence detection of exafs: Sensitivity enhancement for dilute species and thin films. Solid State Commun. 23 (9), 679-682.
15. Karlsson, T., Persson, P., Skyllberg, U., 2006. Complexation of copper(II) in organic soils and in dissolved organic matter e EXAFS evidence for chelate ring structures. Environ. Sci. Technol. 40 (80), 2623-2628.
16. Katsikini, M., Paloura, E.C., Fieber-Erdmann, M., Kalomiros, J., Moustakas, T.D., Amano, H., Akasaki, I., 1997. N K-edge X-ray-absorption study of heteroepitaxial GaN films. Phys. Rev. B 56 (20), 13380-13386.
17. Lal, R., 2009. Soils and food sufficiency. A review. Agron. Sustain. Dev. 29 (1), 113-133.
18. Lal, R. (Ed.), 2007. Encyclopedia of Soil Science. CRC Press, Boca Raton, FL.
19. Leinweber, P., Kruse, J., Walley, F.L., Gillespie, A., Eckhardt, K.U., Blyth, R.I.R., Regier, T., 2007. Nitrogen K-edge XANES e an overview of reference compounds used to identify "unknown" organic nitrogen in environmental samples. J. Synchrotron Radiat. 14, 500-511.
20. Leontowich, A.F.G., Hitchcock, A.P., Tyliszczak, T., Weigand, M., Wang, J., Karunakaran, C., 2012. Accurate dosimetry in scanning transmission X-ray microscopes via the cross-linking threshold dose of poly(methyl methacrylate). J. Synchrotron Radiat. 19 (6), 976-987.
21. Manceau, A., Matynia, A., 2010. The nature of Cu bonding to natural organic matter. Geochim. Cosmochim. Acta 74 (9), 2556-2580.
22. McBratney, A., Field, D.J., Koch, A., 2014. The dimensions of soil security. Geoderma 213, 203-213.
23. Myneni, S.C., 2002. Soft X-ray spectroscopy and spectromicrosopy studies of organic molecules in the environment. In: Fenter, P., Rivers, M., Sturchio, N., Sutton, S., Ribbe, P.H. (Eds.), Applications of Synchrotron Radiation in Low-temperature Geochemistry and Environmental Science. Reviews in Mineralogy and Geochemistry. The Mineralogical Society of America, Washington, DC, pp. 485-579.
24. Myneni, S.C.B., Brown, J.T., Martinez, G.A., Meyer-Ilse, W., 1999. Imaging of humic substance macromolecular structures in water and soils. Science 286 (5443), 1335-1337.
25. Olk, D.C., 2008. Organic forms of soil nitrogen. In: Schepers, J.S., Raun, W.R. (Eds.), Nitrogen in Agricultural Systems. American Society for Agronomy, Crop Science Society of America, Soil Science Society of America, Madison, WI, pp. 57-100.
26. Peak, D., Regier, T., 2012. Direct observation of tetrahedrally coordinated Fe(III) in ferrihydrite. Environ. Sci. Technol. 46 (6), 3163-3168.
27. Phillips, C.L., Regier, T.Z., Peak, D., 2013. Aqueous Cu(II)-organic complexation studied in situ using soft X-ray and vibrational spectroscopies. Environ. Sci. Technol. 47 (24), 14290-14297.
28. Regier, T., Krochak, J., Sham, T.K., Hu, Y.F., Thompson, J., Blyth, R.I.R., 2007a. Performance and capabilities of the Canadian Dragon: the SGM beamline at the Canadian Light Source. Nucl. Instrum. Methods Phys. Res. Sect. A: Accel. Spectrom. Detect. Assoc. Equip. 582 (1), 93-95.
29. Regier, T., Paulsen, J., Wright, G., Coulthard, I., Tan, K., Sham, T.K., Blyth, R.I.R., 2007b. Commissioning of the Spherical Grating Monochromator soft X-ray spectroscopy beamline at the Canadian Light Source. AIP Conf. Proc. 879 (1), 473-476.
30. Siegbahn, H.O.G., Södergren, S., 1995. Structures at liquid surfaces studied by core electron spectroscopy. J. Electron Spectrosc. Relat. Phenom. 76 (C), 417-420.
31. Sparks, D.L., 2003. Environmental Soil Chemistry, second ed. Academic Press, San Diega, CA.
32. Stevenson, F.J., 1996. Nitrogen e organic forms. In: Sparks, D.L. (Ed.), Methods of Soil Analysis. Part 3. Chemical Methods. Soil Science Society of America, Madison, WI, pp. 1185-1200.
33. Stevenson, F.J., Cole, M.A., 1999. Cycles of Soil: Carbon, Nitrogen, Phosphorus, Sulfur, Micronutrients. John Wiley & Sons, Inc., Toronto, ON.
34. Terzano, R., Mimmo, T., Vekemans, B., Vincze, L., Falkenberg, G., Tomasi, N., Schnell Ramos, M., Pinton, R., Cesco, S., 2013. Iron (Fe) speciation in xylem sap by XANES at a high brilliant synchrotron X-ray source: opportunities and limitations. Anal. Bioanal. Chem. 405 (16), 5411-5419.
35. Thurman, E.M., 1985. Organic Geochemistry of Natural Waters. Kluwer Academic Publishers, Hingham, MA.
36. Ukai, M., Yokoya, A., Fujii, K., Saitoh, Y., 2008. X-ray absorption spectrum for guanosine- 5'-monophosphate in water solution in the vicinity of the nitrogen K-edge observed in free liquid jet in vacuum. Radiat. Phys. Chem. 77 (10-12), 1265-1269.
37. Ukai, M., Yokoya, A., Nonaka, Y., Fujii, K., Saitoh, Y., 2009. Synchrotron radiation photoelectron studies for primary radiation effects using a liquid water jet in vacuum: total and partial photoelectron yields for liquid water near the oxygen K-edge. Radiat. Phys. Chem. 78 (12), 1202-1206.
38. Vairavamurthy, A., Wang, S., 2002. Organic nitrogen in geomacromolecules: Insights on speciation and transformation with K-edge XANES spectroscopy. Environ. Sci. Technol. 36 (14), 3050-3056.
39. Wang, J., Morin, C., Li, L., Hitchcock, A.P., Scholl, A., Doran, A., 2009. Radiation damage in soft X-ray microscopy. J. Electron Spectrosc. Relat. Phenom. 170 (1-3), 25-36.
40. Wilks, R.G., MacNaughton, J.B., Kraatz, H.B., Regier, T., Blyth, R.I.R., Moewes, A., 2009. Comparative theoretical and experimental study of the radiation-induced decomposition of glycine. J. Phys. Chem. A 113 (18), 5360-5366.
41. Winter, B., 2009. Liquid microjet for photoelectron spectroscopy. Nucl. Instrum. Methods Phys. Res. Sect. A: Accel. Spectrom. Detect. Assoc. Equip. 601 (1-2), 139-150.
42. Winter, B., Aziz, E.F., Ottosson, N., Faubel, M., Kosugi, N., Hertel, I.V., 2008. Electron dynamics in charge-transfer-to-solvent states of aqueous chloride revealed by Cl- 2p resonant auger-electron spectroscopy. J. Am. Chem. Soc. 130 (22), 7130-7138.
43. Winter, B., Faubel, M., 2006. Photoemission from liquid aqueous solutions. Chem. Rev. 106 (4), 1176-1211.
44. Zubavichus, Y., Fuchs, O., Weinhardt, L., Heske, C., Umbach, E., Denlinger, J.D., Grunze, M., 2004. Soft X-ray-induced decomposition of amino acids: an XPS, mass spectrometry, and NEXAFS study. Radiat. Res. 161 (3), 346-358.