Hard X-ray micro(spectro)scopy: A powerful tool for the geomicrobiologists

Geobiology

Volumn 6, Issue 3, 2008, Pages 270-277

  Kemner, K M ^a  

^a ARGONNE NATIONAL LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

HEAVY METAL;

ELECTRON MICROSCOPY; GEOMICROBIOLOGY; PHYSIOLOGY; RESEARCH WORK; SPATIAL RESOLUTION; SPECIATION (CHEMISTRY); X-RAY SPECTROSCOPY;

ARTICLE; BACTERIUM; METABOLISM; METHODOLOGY; MICROBIOLOGY; PHOTON ABSORPTIOMETRY; SYNCHROTRON; ULTRASTRUCTURE;

ABSORPTIOMETRY, PHOTON; BACTERIA; METALS, HEAVY; SOIL MICROBIOLOGY; SYNCHROTRONS;

EID: 44349185430     PISSN: 14724677     EISSN: 14724669     Source Type: Journal    
DOI: 10.1111/j.1472-4669.2008.00145.x     Document Type: Article

References (41)

1. Bertsch PM, Hunter DB, Sutton SR, Bajt S, Rivers ML (1994) In situ chemical speciation of uranium in soils and sediments by micro X-ray absorption spectroscopy. Environmental Science Technology 28, 980 984.
2. Brooks SC, Fredrickson JK, Carroll SL, Kennedy DW, Zachara JM, Plymale AE, Kelly SD, Kemner KM, Fendorf S (2003) Inhibition of bacterial U(VI) reduction in calcium. Environmental Science and Technology 37, 1850 1858.
3. Brown GEJ, Waychunas GA (1988) Synchroton X-ray Sources and New Opportunities in the Earth Sciences: Workshop Report. Argonne National Laboratory, Argonne, Illinois, USA.
4. Daly MJ, Gaidamakova EK, Matrosova VY, Vasilenko A, Zhai M, Kemner KM, Lai B, Ravel B, Wachett LP, Li SW, Fredrickson JK (2007) Protein oxidation implicated as the primary determinant of bacterial radioresistance. PLoS Biology 5.
5. Erbil A, Cargill GS, Frahm R, Boehme RF (1988) Total-electron-yield current measurements for near-surface extended X-ray-absorption fine structure. Physical Review B 37, 2450 2464.
6. Feldman LC, Mayer JW (1986) Fundamentals of Surface and Thin Film Analysis. North Holland, New York.
7. Glasauer S, Langley S, Beveridge TJ (2002) Intracellular iron minerals in a dissimilatory iron-reducing bacterium. Science 295, 117 119.
8. Glasauer S, Langley S, Boyanov MI, Lai B, Kemner KM, Beveridge TJ (2007) Mixed valence cytoplasmic iron granules are linked to anaerobic respiration. Applied and Environmental Microbiology 73, 993 996.
9. Hayakawa SGY, Iida A, Aoki S, Sato K (1991) Fluorescence X-ray absorption fine structure measurements using a synchrotron radiation X-ray microprobe. Review of Scientific Instruments 62, 2545.
10. Kang HC, Maser J, Stephenson GB, Liu C, Conley R, Macrander AT, Vogt S (2006) Nanometer linear focusing of hard X rays by a multilayer Laue lens. Physical Review Letters 96, 127401 127404.
11. Kemner KM, Kelly SD (2007) Synchrotron-based techniques for monitoring metal transformations. In : Manual of Environmental Microbiology (ed. Lloyd J). ASM Press, Washington, DC, pp. 1183 1194.
12. Kemner KM, Kropf AJ, Bunker BA (1994) A low-temperature total electron yield detector for X-ray absorption fine structure spectra. Review of Scientific Instruments 65, 3667 3669.
13. Kemner KM, Lai B, Maser J, Schneegurt MA, Cai Z, Ilinski PP, Kulpa CF, Legnini DG, Nealson KH, Pratt ST, Rodrigues W, Tischler ML, Yun W (2000) Use of High-Energy X-Ray Microprobe at the Advanced Photon Source to Investigate Interactions Between Metals and Bacteria. American Institute of Physics, College Park, Maryland, USA.
14. Kemner KM, Lai B, Maser J, Cai Z, Kelly SD, Legnini DG, Ilinski PP, Rodrigues W, Nealson KH, Schneegurt MA, Kulpa CF, Fredrickson JK, Gorby YA, Zachara JM (2001) High energy X-ray microprobe investigations of metal-microbe and mineral-microbe interactions. Proceedings of the Sixth International Conference on the Biogeochemistry of Trace Elements, S0104.
15. Kemner KM, Kelly SD, Lai B, Maser J, O'Loughlin EJ, Sholto-Douglas D, Cai Z, Schneegurt MA, Kulpa CF, Nealson KH (2004) Elemental and redox analysis of sigle bacterial cells by X-ray microbeam analysis. Science 306, 686 687.
16. Kemner KM, O'Loughlin EJ, Kelly SD, Ravel B, Boyanov MI, Sholto-Douglas D, Lai B, Cook RE, Harris VG, Nealson KH (2007) XAFS and X-ray and electron microscopy investigations of radionuclide transformations at the mineral-microbe interface. American Institute of Physics International XAFS Conference 882, 250 252.
17. Kemner KM, Yun W, Cai Z, Lai B, Lee H-R, Legnini DG, Rodrigues W, Jastrow J, Miller RM, Schneegurt MA, Kulpa CF, Pratt ST, Smucker AJM (1998) Using X-ray Microprobes for Environmental Research. SPIE, the International Society for Optical Engineering, Bellingham, Washington.
18. Kemner KM, Yun W, Cai Z, Lai B, Lee H-R, Maser J, Legnini DG, Rodrigues W, Jastrow J, Miller RM, Pratt ST, Schneegurt MA, Kulpa CF (1999) Using zone plates for X-ray microimaging and microspectroscopy in environmental science. Journal of Synchrotron Radiation 6, 639 641.
19. Kirz J, Jacobsen C, Howells M (1995) Soft X-ray microscopes and their biological applications. Quart Review of Biophysics 28, 33 130.
20. Koningsberger DC, Prins R (1988) X-ray Absorption: Principles, Applications, Techniques of EXAFS, SEXAFS and XANES. John Wiley & Sons, New York.
21. Kropf AJ, Finch RJ, Fortner JA, Aase S, Daranfil C, Segre CU, Terry J, Bunker G, Chapman LD (2003) Bent silicon crystal in the Laue geometry to resolve X-ray fluorescence for X-ray absorption spectroscopy. Review of Scientific Instruments 74, 4696 4702.
22. Labrenz M, Druschel GK, Thomsen-Ebert T, Gilbert B, Welch SA, Kemner KM, Logan GA, Summons RE, De Stasio G, Bond PL, Lai B, Kelly SD, Banfield JF (2000) Formation of sphalerite (ZnS) deposits in natural biolfilms of sulfate-reducing bacteria. Science 290, 1744 1747.
23. Lack JG, Swades KC, Kelly SD, Kemner KM, O'Connor SM, Coates JD (2002) Immobilization of radionuclides and heavy metals through anaerobic bio-oxidation of Fe(II). Applied Environmental Microbiology 68, 2704 2710.
24. Lai B, Yun W, Legnini DG, Xiao D, Chrzas J, Viccaro PJ, White V, Bajikar S, Denton D, Cerrina F (1992) Hard X-ray phase zone plate fabricated by lithographic techniques. Applied Physics Letters 61, 1877 1879.
25. Lytle FW, Greegor RB, Sandstrom DR, Marques EC, Wong J, Spiro CL, Huffman GP, Huggins FE (1984) Measurement of soft X-ray absorption spectra with a fluorescent ion chamber detector. Nucleic Instrument Methods 226, 542 548.
26. Makarova KS, Omelchenko MV, Gaidamakova EK, Matrosova VY, Valilenko A, Zhai M, Lapidus A, Copeland A, Kim E, Land M, Mavrommatis K, Pitluck S, Richardson PM, Detter C, Brettin T, Saunders E, Lai B, Ravel B, Kemner KM, Wolf YI, Sorokin A, Gerasimova AV, Gelfand MS, Fredrickson JK, Koonin EV, Daly MJ (2007) Deinococcus geothermalis: the pool of extreme radiation resistance genes shrinks. PLOS ONE e995. doi:.
27. Marshall MJ, Beliaev A, Dohnalkova AC, Kennedy DW, Shi L, Wang Z, Boyanov MI, Lai B, Kemner KM, McLean JS, Reed SB, Culley DE, Bailey VL, Simonson CJ, Saffarini DA, Romine MF, Gorby YA, Zachara JM, Fredrickson JK (2006) c-type cytochrome-dependent formation of U(VI) nanoparticles by Shewanella oneidensis. PLoS Biology 4.
28. Meyer TE, Tsapin AI, Vandenberghe I, de Smet L, Frishman D, et al 2004) Identification of 42 possible cytochrome c genes in the Shewanella oneidensis genome and characterization of six soluble cytochromes. Omics 8, 57 77.
29. Myers CR, Myers JM (1992) Localization of cytochromes to the outer membrane of anaerobically grown Shewanella putrefaciens MR-1. Journal of Bacteriology 174, 3429 3438.
30. 2 nanoparticles. Environmental Science Technology 37, 721 727.
31. O'Loughlin EJ, Larese-Casanova P, Scherer MM, Cook RE (2007) Green rust formation from the bioreduction of gamma-FeOOH (lepidocrocite): comparison of several Shewanella species. Geomicrobiology Journal 24, 211 230.
32. Sayers DE, Stern EA, Lytle FW (1971) New technique for investigating noncrystalline structures: Fourier analysis of the extended X-ray-absorptive fine structure. Physical Review Letters 27, 1204 1207.
33. Schulze WX (2005) Protein analysis in dissolved organic matter: What proteins from organic debris, soil leachate and surface water can tell us - a perspective. Biogeosciences 2, 75 86.
34. Schulze DG, Bertsch PM (1995) Synchrotron X-ray techniques in soil, plant, and environmental research. Advances in Agronomy 55, 1 67.
35. Stern EA, Heald SM (1979) X-ray filter assembly for fluorescence measurements of X-ray absorption fine-structure. Review of Scientific Instruments 50, 1579 1583.
36. Stohr J (1992) NEXAFS Spectroscopy, Springer-Verlag, Berlin, Germany.
37. Sutton SR, Rivers ML, Bajt S, Jones KW (1993) Synchrotron X-ray fluorescence microprobe analysis with bending magnets and insertion devices. Nucleic Instruments and Methods in Physics Research B75, 553.
38. Suzuki Y, Kelly SD, Kemner KM, Banfield JF (2002) Nanometre-size products of uranium bioreduction. Nature 419.
39. Tokunaga T, Sutton SR, Bajt S, Clark SB, Sutton SR, Rivers ML, Smith JV (1994) Mapping of selenium concentrations in soil aggregates with synchrotron X-ray fluorescence microprobe. Soil Science 158, 421.
40. Wielinga B, Bostick BC, Hansel CM, Rosenzweig RF, Fendorf S (2000) Inhibition of bacterially promoted uranium reduction: ferric (hydr) oxides as competitive electron acceptors. Environmental Science and Technology 34, 2190 2195.
41. Winick H (1994) Radiation Sources - A Primer. World Scientific Publishing Hackensack, New Jersey.