Profiling rhizosphere chemistry: Evidence from carbon and nitrogen K-edge xanes and pyrolysis-FIMS

Soil Science Society of America Journal

Volumn 73, Issue 6, 2009, Pages 2002-2012

  Gillespie, A W ^a   Walley, F L ^a   Farrell, R E ^a   Leinweber, P ^b   Schlichting, A ^b   Eckhardt, K U ^b   Regier, T Z ^c   Blyth, R I R ^c  

^a UNIVERSITY OF SASKATCHEWAN   (Canada)

^b UNIVERSITY OF ROSTOCK   (Germany)

^c CANADIAN LIGHT SOURCE INC   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ALKYLAROMATICS; ARTIFICIAL SYSTEMS; BULK SOILS; CARBON AND NITROGEN; CLAY SOIL; COMPLEX INTERACTION; FIELD PEA; GROWTH CHAMBER; LABILE ORGANIC MATTER; MICROBIAL ACTIVITIES; MICROBIOTAS; MOLECULAR LEVELS; N-COMPOUNDS; NITROAROMATIC COMPOUND; ORGANIC CHEMISTRY; PHTHALIC; PYROLYSIS MASS SPECTROMETRY; RHIZOSPHERE CHEMISTRY; RHIZOSPHERE SOILS; ROOT EXUDATION; SANDY CLAY LOAM SOILS; SELECTIVE ENRICHMENT; SOIL SAMPLE; SOIL TYPES; TECHNICAL CHALLENGES; XANES; XANES ANALYSIS;

ABSORPTION SPECTROSCOPY; CARBOHYDRATES; CARBOXYLATION; CLAY; CLAY MINERALS; ESTERS; MASS SPECTROMETRY; OLEFINS; PARAFFINS; PHENOLS; PROTEINS; SYNCHROTRONS; X RAY ANALYSIS;

PYROLYSIS;

CLAY SOIL; EXUDATION; LEGUME; MASS SPECTROMETRY; MICROBIAL ACTIVITY; NUTRIENT CYCLING; PROTEIN; PYROLYSIS; RHIZOSPHERE; ROOT SYSTEM; SOIL CARBON; SOIL CHEMISTRY; SOIL NITROGEN; SOIL ORGANIC MATTER; SOIL TYPE; XANES SPECTROSCOPY;

PISUM SATIVUM;

EID: 72449196678     PISSN: 03615995     EISSN: None     Source Type: Journal    
DOI: 10.2136/sssaj2008.0273     Document Type: Article

References (84)

1. Abe,T.,andA.Watanabe.2004.X- rayphotoelectronspectroscopyofnitrogenfunctionalgroupsinsoilhumicacids.SoilSci. 169:35-43.(Pubitemid38119106)
2. Angers,D.A,andJ.Caron.1998.Plant-inducedchangesinsoilstructure: Processesandfeedbacks.Biogeochemistry42:55-72.(Pubitemid28395166)
3. Azhar, E.S., R. Verhe, M. Proot P. Sandra, and W Verstraete. 1989. Fixation of nitrite nitrogen during the humification of alpha-naphthol in soil suspensions. J. Agric. Food Chem. 37:262-266.
4. Badalucco, L., and P.J. Kuikman. 2001. Mineralization and immobilization in the rhizosphere. p. 159-196. In R. Pinton et al. (ed.) The rhizosphere: Biochemistry and organic substances at the soil-plant interface. Marcel Dekker, New York.
5. Badalucco, L., and P. Nannipieri. 2007. Nutrient transformations in the rhizosphere. p. 111-133. In R. Pinton et al. (ei) The rhizosphere: Biochemistry and organic substances at die soil-plant interface. 2nd ed. Marcel Dekker, New York.
6. 13C NMR spectroscopy. Biogeochemistry 16:1-42.
7. Btady, N.C., and R.R. Weil. 1999. The nature and properties of soils. 12th ed. Prentice Hall, Upper Saddle River, NJ.
8. Brimecombe, M.J., F.A.A.M. De Leij, and J.M. Lynch. 2007. Rhizodeposition and microbial populations, p. 73-110. In R. Pinton et al. (ed.) The thizosphere: Biochemistry and organic substances at the soil-plant interface. 2nd ed. Marcel Dekker, New York.
9. Bull, I.D., P.F. van Bergen, C.J. Nott P.R. Poulton, and R.P. Evershed. 2000. Organic geochemical studies of soils from die Rothamsted classical experiments: V. The fate of lipids in different long-term experiments. Org. Geochem. 31:389-408.
10. Chrisd, I., and R. Kretzschmar. 2007. C-1s NEXAFS spectroscopy reveals chemical fractionation of humic acid by cation-induced coagulation. Environ. Sci. Technol. 41:1915-1920.
11. Colman, B.P., N. Fierer, and J.P. Schimel. 2007. Abiotic nitrate incorporation in soil: Is it real ? Biogeochemistry 84:161-169.
12. Cooney, R.R., and S.G. Urquhart. 2004. Chemical trends in the near-edge x-ray absorption fine structure of monosubstituted and pata-bisubstituted benzenes. J. Phys. Chem. B 108:18185-18191.
13. Crowley, D.E., and Z. Rengel. 1999. Biology and chemistry of nutrient availability in the rhizosphere. p. 1-40. In Z. Rengel (ed.) Mineral nutrition of crops: Fundamental mechanisms and implications. Haworth Press, New York.
14. Curl, E.A., and B. Truelove. 1986. The rhizosphere. Springer-Verlag, Berlin.
15. Dasog, G.S. 1986. Properties, genesis and classification of day soils in Saskatchewan. Ph.D. diss. Dep. of Soil Science, Univ. of Saskatchewan, Saskatoon, SK, Canada.
16. Dinel, H., M. Schnitzer, and C.R. Mehuys. 1990. Soil lipids: Origin, nature, content decomposition, and effect on soil physical properties, p. 397-429. In J.M. Bolag and G. Stotzky (ed.) Soil biochemistry. VoL 6. Marcel Dekker, New York.
17. Djajakirana, G., R.G. Joergensen, and B. Meyer. 1996. Ergosterol and microbial biomass relationship in soil. Biol. Fertil. Soils 22:299-304.
18. Fan, T.W.M., A.N. Lane, M. Shenker, J.P. Bardey, D. Crowley, and R.M. Higashi. 2001. Comprehensive chemical profiling of gramineous plant root exudates using high-resolution NMR and MS. Phytochemistry 57:209-221.
19. Frazer, B.H., B. Gilbert, B.R. Sonderegger, and G. De Stasio. 2003. The probing depdi of total electron yield in the sub-keV range: TEY-XAS and X-PEEM. Surf. Sci. 537:161-167.
20. Grayston, S.J., S. Wang. C.D. Campbell, and A.C. Edwards. 1998. Selective influence of plant species on microbial diversity in the rhizosphere. Soil BioL Biochem. 30:369-378.
21. Gregorich,E.G.,C.M.Monreal,M.Schnitzer,andH.-R.Schulten.1996. Transformationofplantresiduesintosoilorganicmatter: Chemicalcharacterizationofplanttissue,isolatedsoilfractions,andwholesoils. SoilSci.161:680-693.(Pubitemid27015400)
22. Haider, K., and H.-R. Schulten. 1985. Pyrolysis field ionization mass spectrometry of lignins, soil humic compounds and whole soil. J. Anal. Appl. Pyrolysis 8:317-331.
23. Hardie, A.G. 2008. Pathways of abiotic humification as catalyzed by mineral colloids. Ph.D. diss. Dep. of Soil Science, Univ. of Saskatchewan, Saskatoon, SK, Canada.
24. Hardie, A.G., J.J. Dynes, LM. Kozak, and P.M. Huang. 2007. Influence of polyphenols on the integrated polyphenol-Maillard reaction humification pathway as catalyzed by birnessite. Ann. Environ. Sci. 1:91-110.
25. Hempfling, R., N. Simmleit, and H.-R. Schulten. 1991. Characterization and chemodynamics of plant constituents during maturation, senescence and humus genesis in spruce ecosystems. Biogeochemistry 13:27-60.
26. Hiltner, L. 1904. Uber neuere erfahrungen und problem auf dem gebiet der bodenbakteriologie und unter besonderer berucksichtigung der grundungung und brache. Arb. Dtsch. Landwirtsch. Ges. 98:59-78.
27. Hitchcock, A.P., C. Morin, X. Zhang, T. Araki, J.J. Dynes, H. Stover, J.L. Brash, J.R. Lawrence, and G.G. Leppard. 2005. Soft x-ray spectromicroscopy of biological and synthetic polymer systems. J. Electron Spectrosc. Relat Phenom. 144-147:259-269.
28. Jandl, G., P. Leinweber, and H.-R. Schulten. 2007. Origin and fate of soil lipids in a Phaeozem under rye and maize monoculture in central Germany. Biol. Fertil. Soils 43:321-332.
29. Jandl, G., P. Leinweber, H.-R. Schulten, and K. Eusterhues. 2004. The concentrations of fatty acids in organo-mineral particle-size fractions of a Chernozem. Eur. J. Soil Sci. 55:459-469.
30. Jokic, A., J.N. Cuder, D.W. Anderson, and F.L. Walley. 2004a. Detection of heterocyclic N compounds in whole soils using N-XANES spectroscopy. Can. J. Soil Sci. 84:291-293.
31. Jokic, A., J.N. Cuder, E. Ponomarenko, G. van der Kamp, and D.W. Anderson. 2003. Organic carbon and sulphur compounds in wedand soils: Insights on structure and transformation processes using K-edge XANES and NMR spectroscopy. Geochim. Cosmochim. Acta 67:2585-2597.
32. 2. Org. Geochem. 35:747-762.
33. Jones, D.L., and P.R. Darrah. 1994. Role of root derived organic acids in the mobilization of nutrients from the rhizosphere. Plant Soil 166:247-257.
34. Jones, D.L., A. Hodge, and Y. Kuzyakov. 2004. Plant and mycorrhizal regulation of rhizodeposition. New PhytoL 163:459-480.
35. Katsikini, M., E.C. Paloura, M. Fieber-Erdmann, J. Kalomiros, T.D. Moustakas, H. Amano, and I. Akasaki. 1997. N K-edge x-ray-absorption study of heteroepitaxial GaN films. Phys. Rev. B 56:13380-13386.
36. Katznelson, H. 1965. Nature and importance of the rhizosphere. p. 187-209. In K.F. Baker and W.C. Snyder (ed.) Ecology of soil-borne plant pathogens: Prelude to biological control. Univ. of California Press, Los Angeles.
37. Kim, J.S, M. Ree, S.W. Lee, W. Oh, S. Back, B. Lee, T.J. Shin, K.J. Kim, B. Kim, and J. Luning. 2003. NEXAFS spectroscopy study of the surface properties of zinc glutarate and its reactivity with carbon dioxide and propylene oxide. J. Catal. 218:386-395.
38. Kinyangi, J., D. Solomon, B.I. Liang, M. Lerotic, S. Wirick, and J. Lehmann. 2006. Nanoscale biogeocomplexity of the organomineral assemblage in soil: Application of STXM microscopy and C 1s-NEXAFS spectroscopy. Soil Sci. Soc. Am. J. 70:1708-1718.
39. Knicker, H., R. Frund, and H.D. Ludemann. 1993. The chemical nature of nitrogen in native soil organic matter. Naturwissenschaften 80:219-221. (Pubitemid 23158541)
40. Kuzyakov, Y. 2002. Review: Factors affecting rhizosphere priming effects. J. Plant Nutr. Soil Sci. 165:382-396.
41. Kuzyakov, Y., P. Leinweber, D. Sapronov, and K.U. Eckhardt. 2003. Qualitative assessment of rhizodeposits in non-sterile soil by analytical pyrolysis. J. Plant Nutr. Soil Sci. 166:719-723.
42. Lehmann, J., D. Solomon, J. Kinyangi, L. Dathe, S. Wirick, and C. Jacobsen. 2008. Spatial complexity of soil organic matter forms at nanometre scales. Nature Geosci. 1:238-242.
43. Leinweber, P., K.-U. Eckhardt, H. Fischer, and Y. Kuzyakov. 2008. A new rapid micro-mediod for the molecular-chemical characterization of rhizodeposits by field-ionization mass spectrometry. Rapid Commun. Mass Spectrom. 22:1230-1234.
44. Leinweber, P., J. Kruse, F.L. Walley, A. Gillespie, K.U. Eckhardt, R.I.R. Blyth, and T. Regier 2007. Nitrogen K-edge XANES: An overview of reference compounds used to identify 'unknown' organic nitrogen in environmental samples. J. Synchrotron Radiat. 14:500-511.
45. Leinweber, P., and H.-R. Schulten. 1999. Advances in analytical pyrolysis of soil organic matter. J. Anal. Appl. Pyrolysis 49:359-383.
46. Lichtfouse, E., P. Wehrung, and P. Albrecht. 1998. Plant wax n-alkanes trapped in soil humin by noncovalent bonds. Naturwissenschaften 85:449-452. (Pubitemid 28457570)
47. Lynch, J.M. 1990. Microbial metabolites, p. 177-206. In J.M. Lynch (ed.) The rhizosphere. John Wiley & Sons, Chichester, UK.
48. Melnitchouck, A., P. Leinwebet, K.U. Eckhardt, and R. Beese. 2005. Qualitative differences between day- and night-time thizodeposition in maize (Zea mays L) as investigated by pyrolysis-field ionization mass spectrometry. Soil Biol. Biochem. 37:155-162.
49. Myneni, S.CB. 2002. Soft x-ray spectroscopy and spectromicrosopy studies of organic molecules in the environment Rev. MineraL Geochem. 49:485-579.
50. Neumann, G., and V. Römheld. 2007. The release of root exudates as affected by the plants physiological status, p. 23-72. In R. Pinton et al. (ed.) The rhizosphere: Biochemistry and organic substances at the soil-plant interface. 2nd ed. Marcel Dekker, New York.
51. Nierop, K.J.G., and P.F. van Bergen. 2002. Clay and ammonium catalyzed reactions of alkanols, alkanoic acids and estets under flash pyrolytic conditions. J. Anal. Appl. Pyrolysis 63:197-208.
52. Oik, D.C., K.G. Cassman, K. Schmidt-Rohr, M.M. Anders, J.-D. Mao, and J.L Deenik. 2006. Chemical stabilization of soil organic nitrogen by phenolic lignin residues in anaerobic agroecosystems. Soil BioL Biochem. 38:3303-3312.
53. Palm, C.A., and P.A. Sanchez. 1991. Nitrogen release from the leaves of some tropical legumes as affected by their lignin and polyphenolic contents. Soil Biol. Biochem. 23:83-88.
54. Regier, T., J. Krochak, T.K. Sham, Y.F. Hu, J. Thompson, and R.I.R. Blyth. 2007a. Performance and capabilities of the Canadian Dragon: The SGM beamline at the Canadian Light Source. Nucl. Instrum. Methods Phys. Res. Sect. A 582:93-95.
55. Regiet, T., J. Paulsen, G. Wright, I. Coulthard, K. Tan, T.K. Sham, and R.I.R. Blyth. 2007b. Commissioning of the spherical grating monochromator soft x-ray spectroscopy beamline at the Canadian Light Source. AIP Conf. Proc. 879:473-476.
56. Ressler, T. 1998. WinXAS: A program for x-ray absorption spectroscopy data analysis undet MS-Windows. J. Synchrotron Radiat 5:118-122. (Pubitemid 128047218)
57. Schlichting, A., and P. Leinweber. 2009. New evidence for the moleculatchemical diversity of potato plant thizodeposits obtained by pyrolysis-field ionisation mass spectrometry. Phytochem. Anal. 20:1-13.
58. Schmidt-Rohr, K., J.-D. Mao, and D.C. Olk. 2004. Nitrogen-bonded aromatics in soil organic matter and their implications for a yield decline in intensive rice cropping. Proc. Natl. Acad. Sci. 101:6351-6354.
59. Schnitzer, M., D.F.E. McArthur, H.-R. Schulten, LM. Kozak, and P.M. Huang. 2006. Long-term cultivation effects on the quantity and quality of organic mattet in selected Canadian prairie soils. Geoderma 130:141-156. (Pubitemid 43005371)
60. Schnitzer, M., and H.-R. Schulten. 1995. Analysis of organic matter in soil, extracts, and whole soils by pyrolysis mass spectrometry. Adv. Agron. 55:167-217.
61. Schulten, H.-R., and P. Leinwebet 1999. Thermal stability and composition of mineralbound organic matter in density fractions of sou. Eur. J. Soil Sci. 50:237-248.
62. Schulten, H.-R., and P. Leinweber. 2000. New insights into organic-mineral particles: Composition, properties and models of molecular structure. Biol. Fertil. Soils 30:399-432.
63. Schulten, H.-R., B. Plage, and M. Schnitzet 1991. A chemical structure for humic substances. Naturwissenschaften 78:311-312.
64. Schulten, H.-R., and M. Schnitzet 1990. Aliphatics in soil organic matter in fine-clay fractions. Soil Sci. Soc. Am. J. 54:98-105.
65. Schulten, H.-R., and M. Schnitzer. 1997. The chemistry of soil organic nitrogen: A review. BioL Fertil. Soils 26:1-15.
66. Schulten, H.-R., and C. Sorge. 1995. Pyrolysis methylation mass spectrometry of whole soils. Eur. J. Soil Sci. 46:567-579.
67. Schumacher, M., I. Chrisd, A.C. Scheinost, C. Jacobsen, and R. Kretzschmar.2005. Chemical heterogeneity of organic soil colloids investigated by scanning transmission x-ray microscopy and C-1s NEXAFS microspectroscopy. Environ. Sci. Technol. 39:9094-9100.
68. Schwarzkopf, O., M. Borchert, F. Eggenstein, U. Flechsig, C. Kalus, H. Lammen, et al. 1999. The BESSY constant length Rowland circle monochromator. J. Electron Spectrosc. Relat Phenom. 103:997-1001.
69. Sodhi, R.N.S., and C.E. Brion. 1984. Reference energies for inner shell electron energy-loss spectroscopy. J. Electron Spectrosc. Relat Phenom. 34:363-372.
70. Solomon, D., J. Lehmann, J. Kinyangi, B.Q. Liang, and T. Schafer. 2005. Carbon K-edge NEXAFS and FTIR-ATR spectroscopic investigation of organic carbon speciation in soils. Soil Sci. Soc. Am. J. 69:107-119.
71. Sorge, C., R. Muller, P. Leinweber, and H.-R. Schulten. 1993. Pyrolysis-mass spectrometry of whole soils, soil particle-size fractions, Utter materials and humic substances: Statistical evaluation of sample weight residue, volatilized mattet and total ion intensity. Fresenius J. Anal. Chem. 346:697-703.
72. Sorge, C., M. Schnitzer, P. Leinweber, and H.-R. Schulten. 1994. Molecularchemical characterization of organic matter in whole soil and paiticle-size fractions of a Spodosol by pyrolysis field-ionization mass-spectrometry. Soil Sci. 158:189-203.
73. Stevenson, F.J. 1982. Nitrogen in agricultural soils. Agron. Monogr. 22. ASA, CSSA, and SSSA, Madison, WI.
74. Stöhr, J. 1992. NEXAFS spectroscopy. Springer, New York.
75. Thorn, K.A., and M.A. Mikita. 2000. Nitrite fixation by humic substances: Nitrogen-15 nuclear magnetic resonance evidence for potential intermediates in chemodenitrification. Soil Sci. Soc. Am. J. 64:568-582.
76. Ulrich, A., and R. Becker. 2006. Soil parent material is a key determinant of the bacterial community structure in arable soils. FEMS Microbiol. Ecol. 56:430-443.
77. Uren, N.C. 2007. Types, amounts, and possible functions of compounds released into the rhizosphere by soil-grown plants, p. 1-21. In R. Pinton et al. (ed.) The rhizosphere: Biochemistry and organic substances at the soil-plant interface. 2nd ed. Marcel Dekker, New York.
78. C=O transition in the near-edge x-ray absorption fine structure spectra of organic molecules. J. Phys. Chem. B 106:8531-8538.
79. Vairavamurthy, A., and S. Wang. 2002. Organic nitrogen in geomacromolecules: Insights on speciation and transformation with K-edge XANES spectroscopy. Environ. Sci. Technol. 36:3050-3056.
80. Vanderkaaden, A., J.J. Boon, J.W. Deleeuw, F. Delange, P.J.W. Schuyl, H.-R. Schulten, and U. Bahr. 1984. Comparison of analytical pyrolysis techniques in the characterization of chitin. Anal. Chem. 56:2160-2165.
81. Van Veen, J.A., and P.J. Kuikman. 1990. Soil structural aspects of decomposition of organic matter by micro-organisms. Biogeochemistry 11:213-233.
82. Verhaegen, K., O. Vancleemput, and W. Verstraete. 1988. Nitrification mediated nitrosation of organics and effects on soil microbial biomass. Biol. Wastes 26:235-245.
83. Vetterlein, D., K. Szegedi, F. Stange, and R. Jahn. 2007. Impact of soil texture on temporal and spatial development of osmotic potential gradients between bulk soil and rhizosphere. J. Plant Nutr. Soil Sci. 170:347-356.
84. Wilcken, H., C. Sorge, and H.-R. Schulten. 1997. Molecular composition and chemometric differentiation and classification of soil organic matter in Podzol B-horizons. Geoderma 76:193-219. (Pubitemid 27185624)