Bacterial Surfaces in Geochemistry – How Can X-ray Photoelectron Spectroscopy Help?

doi:10.1017/9781107707399.011

11 - Bacterial Surfaces in Geochemistry – How Can X-ray Photoelectron Spectroscopy Help?

from Part IV - Spectroscopy

Published online by Cambridge University Press: 06 July 2019

Madeleine Ramstedt ,

Laura Leone and

Andrey Shchukarev

Edited by

Janice P. L. Kenney ,

Harish Veeramani and

Daniel S. Alessi

Show author details

Janice P. L. Kenney: Affiliation:
MacEwan University, Edmonton
Harish Veeramani: Affiliation:
Carleton University, Ottawa
Daniel S. Alessi: Affiliation:
University of Alberta

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Summary

Processes occurring at surfaces and interfaces are very important in environmental systems, necessitating surface-specific characterization tools that can help us understand processes at and specific properties of surfaces and interfaces, and their role in biogeochemical systems. This chapter describes the use and application of X-ray photoelectron spectroscopy (XPS) to study interfacial processes of relevance for geomicrobiology. Examples are given from studies determining cell wall composition, acid–base properties, cell surface charge, metal adsorption onto bacterial cells, and bacterial surface–induced precipitation of secondary minerals. As XPS is an ultrahigh-vacuum technique, several sample preparation methods have been applied to enable analysis of bacterial samples, including analysis of freeze-dried samples as well as frozen bacterial suspensions. These are described and discussed alongside advantages and disadvantages of different approaches, with a special focus on fast-freezing and the cryogenic technique.

Type: Chapter
Information: Analytical Geomicrobiology
A Handbook of Instrumental Techniques
, pp. 262 - 287

DOI: https://doi.org/10.1017/9781107707399.011 [Opens in a new window]

Publisher: Cambridge University Press

Print publication year: 2019

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References

11.4 References

Ahimou, F., Paquot, M., Jacques, P., Thonart, P. and Rouxhet, P. G. 2001. Influence of electrical properties on the evaluation of the surface hydrophobicity of Bacillus subtilis. J Microbiol Methods, 45, 119–26.Google Scholar

Beamson, G. and Briggs, D. 1992. High Resolution XPS of Organic Polymers: the Scienta ESCA300 Database, Chichester, UK, Wiley.Google Scholar

Beveridge, T. J. 2010. Bacterial Cells, Chichester, UK, Wiley.Google Scholar

Boonaert, C. J. and Rouxhet, P. G. 2000. Surface of lactic acid bacteria: relationships between chemical composition and physicochemical properties. Appl Environ Microbiol, 66, 2548–54.Google Scholar

Brierley, C. L. and Brierley, J. A. 2013. Progress in bioleaching: part B: applications of microbial processes by the minerals industries. Appl Microbiol Biotechnol, 97, 7543–52.CrossRef Google Scholar PubMed

Briggs, D. and Grant, J. T. 2003. Surface Analysis by Auger and X-ray Photoelectron Spectroscopy, Trowbridge, UK, The Cromwell Press, IM Publications and SurfaceSpectra Limited.Google Scholar

Burger, K. 1978. Charge correction in XPS-ESCA – bulk solvent as internal standard in study of quick-frozen solutions. J Electron Spectros Relat Phenomena, 14, 405–10.Google Scholar

Burger, K. and Fluck, E. 1974. X-ray-photoelectron spectroscopy (ESCA) investigations in coordination chemistry .1. Solvation of SBCL5 studied in quick-frozen solutions. Inorg Nucl Chem Letters, 10, 171–7.CrossRef Google Scholar

Burger, K., Fluck, E., Binder, H. and Varhelyi, C. 1975. X-ray photoelectron-spectroscopy (ESCA) investigations in coordination chemistry .2. Study of outer sphere coordination and hydrogen bridge formation in cobalt(III) and nickel(II) complexes. J Inorg Nucl Chem, 37, 55–57.Google Scholar

Burger, K., Tschimarov, F. and Ebel, H. 1977. XPS-ESCA applied to quick-frozen solutions .1. Study of nitrogen-compounds in aqueous-solutions. Electron Spectros Relat Phenomena, 10, 461–5.Google Scholar

Busscher, H. J., Bialkowska-Hobrazanska, H., Reid, G., van der Kuijl-Booij, M. and van der Mei, H. C. 1994. Physicochemical characteristics of two pairs of coagulase-negative staphylococcal isolates with different plasmid profiles. Colloids Surf, B, 2, 73–82.Google Scholar

Castner, D. G. and Ratner, B. D. 2002. Biomedical surface science: foundations to frontiers. Surf Sci, 500, 28–60.Google Scholar

Clayton, C. R., Halada, G. P., Kearns, J. R., Gillow, J. B. and Francis, A. J. 1994. Spectroscopic study of sulfate reducing bacteria-metal ion interactions related to microbiologically influenced corrosion (MIC). ASTM Spec Tech Publ, 1232, 141–52.Google Scholar

Delcroix, M. F., Zuyderhoff, E. M., Genet, M. J. and Dupont-Gillain, C. C. 2012. Optimization of cryo-XPS analyses for the study of thin films of a block copolymer (PS-PEO). Surf Interface Anal, 44, 175–84.Google Scholar

Dufrêne, Y., Van der Wal, A., Norde, W. and Rouxhet, P. 1997. X-ray photoelectron spectroscopy analysis of whole cells and isolated cell walls of Gram-positive bacteria: comparison with biochemical analysis. J Bacteriol, 179, 1023–8.Google Scholar

Ellwood, D. C. and Tempest, D. W. 1972. Influence of culture pH on the content and composition of teichoic acids in the walls of Bacillus subtilis. J Gen Microbiol, 73, 395–402.Google Scholar

Genet, M. J., Dupont-Gillain, C. C. and Rouxhet, P. G. 2008. XPS Analysis of Biosystems and Biomaterials, New York, Springer Science+Business Media.Google Scholar

Kalinowski, B. E., Liermann, L. J., Brantley, S. L., Barnes, A. and Pantano, C. G. 2000. X-ray photoelectron evidence for bacteria-enhanced dissolution of hornblende. Geochim Cosmochim Acta, 64, 1331–43.Google Scholar

Kang, C., Wu, P., Li, Y., et al. 2015. Understanding the role of clay minerals in the chromium(VI) bioremoval by Pseudomonas aeruginosa CCTCC AB93066 under growth condition: microscopic, spectroscopic and kinetic analysis. World J Microbiol Biotechnol, 31, 1765–79.Google Scholar

Kemper, M. A., Urrutia, M. M., Beveridge, T. J., Koch, A. L. and Doyle, R. J. 1993. Proton motive force may regulate cell wall-associated enzymes of Bacillus subtilis. J Bacteriol, 175, 5690–6.Google Scholar

Kern, T., Giffard, M., Hediger, S., et al. 2010. Dynamics characterization of fully hydrated bacterial cell walls by solid-state NMR: evidence for cooperative binding of metal ions. J Am Chem Soc, 132, 10911–19.CrossRef Google Scholar PubMed

Khoshkhoo, M., Dopson, M., Shchukarev, A. and Sandström, Å. 2014. Electrochemical simulation of redox potential development in bioleaching of a pyritic chalcopyrite concentrate. Hydrometallurgy, 144–145, 7–14.CrossRef Google Scholar

Kolmakov, A., Dikin, D. A., Cote, L. J., et al. 2011. Graphene oxide windows for in situ environmental cell photoelectron spectroscopy. Nat Nanotechnol, 6, 651–7.Google Scholar

Krumbein, W. E. 1983. Microbial Geochemistry, Oxford, Blackwell Scientific Publications.Google Scholar

Leone, L., Ferri, D., Manfredi, C., et al. 2007. Modeling the acid-base properties of bacterial surfaces: a combined spectroscopic and potentiometric study of the Gram-positive bacterium Bacillus subtilis. Environ Sci Technol, 41, 6465–71.Google Scholar

Leone, L., Loring, J., Sjöberg, S., Persson, P. and Shchukarev, A. 2006. Surface characterization of the Gram-positive bacteria Bacillus subtilis – an XPS study. Surf Interface Anal, 38, 202–5.Google Scholar

Li, B., Pan, D., Zheng, J., et al. 2008. Microscopic investigations of the Cr(VI) uptake mechanism of living Ochrobactrum anthropi. Langmuir, 24, 9630–5.CrossRef Google Scholar PubMed

Li, X., Ding, C., Liao, J., et al. 2017. Microbial reduction of uranium (VI) by Bacillus sp dwc-2: a macroscopic and spectroscopic study. J Environ Sci (China), 53, 9–15.Google Scholar

Lin, D. Q., Zhong, L. N. and Yao, S. J. 2006. Zeta potential as a diagnostic tool to evaluate the biomass electrostatic adhesion during ion-exchange expanded bed application. Biotechnol Bioeng, 95, 185–91.Google Scholar

Lukas, J., Sodhi, R. N. S. and Sefton, M. V. 1995. An XPS study of the surface reorientation of statistical methacrylate copolymers. J Colloid Interface Sci, 174, 421–7.Google Scholar

Mills, A. L. 1998. The role of bacteria in environmental geochemistry, in Mills, A.L. (ed.) The Environmental Geochemistry of Mineral Deposits, Part A: processes, Techniques, and Health Issues, Littleton, CO, USA: Society of Economic Geologists Inc., 125–32.Google Scholar

Mirimanoff, N. and Wilkinson, K. 2000. Regulation of Zn accumulation by a freshwater Gram-positive bacterium (Rhodococcus opacus). Environ Sci Technol, 34, 616–22.Google Scholar

Moulder, J. F., Stickle, W. F., Sobol, P. E. and Bomben, K. D. 1992. Handbook of X-ray Photoelectron Spectroscopy, Eden Prairie, Minnesota, USA, Perkin-Elmer Corporation Physical Electronics Division.Google Scholar

Naumkin, A. V., Kraut-Vass, A., Gaarenstroom, S. W. and Powell, C. J. 2012. NIST X-ray Photoelectron Spectroscopy Database, http://srdata.nist.gov/xps/, U.S. Secretary of Commerce on behalf of the United States of America.Google Scholar

Ojeda, J. J., Romero-Gonzalez, M. E., Bachmann, R. T., Edyvean, R. G. J. and Banwart, S. A. 2008. Characterization of the cell surface and cell wall chemistry of drinking water bacteria by combining XPS, FTIR spectroscopy, modeling, and potentiometric titrations. Langmuir, 24, 4032–40.Google Scholar

Olson, G. J., Brierley, J. A. and Brierley, C. L. 2003. Bioleaching review part B: progress in bioleaching: applications of microbial processes by the minerals industries. Appl Microbiol Biotechnol, 63, 249–57.Google Scholar

Ramstedt, M. 2004. Chemical processes at the water-manganite (gamma-MnOOH) interface, Umeå, Sweden, Umeå University, PhD Thesis.Google Scholar

Ramstedt, M., Leone, L., Persson, P. and Shchukarev, A. 2014. Cell wall composition of Bacillus subtilis changes as a function of pH and Zn²⁺ exposure: insights from cryo-XPS measurements. Langmuir, 30, 4367–74.Google Scholar

Ramstedt, M., Nakao, R., Wai, S., Uhlin, B. and Boily, J. 2011. Monitoring surface chemical changes in the bacterial cell wall – multivariate analysis of cryo-X-ray photoelectron spectroscopy data. J Biol Chem, 286, 12389–96.Google Scholar

Ramstedt, M., Norgren, C., Sheals, J., Shchukarev, A. and Sjoberg, S. 2004. Chemical speciation of N-(phosphonomethyl)glycine in solution and at mineral interfaces. Surf Interface Anal, 36, 1074–7.Google Scholar

Ramstedt, M. and Shchukarev, A. 2016. Analysis of bacterial cell surface chemical composition using cryogenic X-ray photoelectron spectroscopy. In: Hong, H.-J. (ed.) Bacterial Cell Wall Homeostasis: Methods and Protocols. New York, NY: Springer New York.Google Scholar

Ramstedt, M., Shchukarev, A. V. and Sjoberg, S. 2002. Characterization of hydrous manganite (gamma-MnOOH) surfaces – an XPS study. Surf Interface Anal, 34, 632–6.Google Scholar

Ratner, B. D. 1995. Advances in the analysis of surfaces of biomedical interest. Surf Interface Anal, 23, 521–8.Google Scholar

Ratner, B. D. and Castner, D. G. 2009. Chapter 3, in Electron Spectroscopy for Chemical Analysis, Wiley.Google Scholar

Ratner, B. D., Weathersby, P. K., Hoffman, A. S., Kelly, M. A. and Scharpen, L. H. 1978. Radiation-grafted hydrogels for biomaterial applications as studied by ESCA technique. J Appl Polym Sci, 22, 643–64.Google Scholar

Rouxhet, P. and Genet, M. 2011. XPS analysis of bio-organic systems. Surf Interface Anal, 43, 1453–70.Google Scholar

Salmeron, M. and Schlögl, R. 2008. Ambient pressure photoelectron spectroscopy: a new tool for surface science and nanotechnology. Surf Sci Rep, 63, 169–99.Google Scholar

Seidel, R., Thürmer, S. and Winter, B. 2011. Photoelectron spectroscopy meets aqueous solution: studies from a vacuum liquid microjet. J Phys Chem Lett, 2, 633–41.Google Scholar

Shchukarev, A. 2006a. XPS at solid-aqueous solution interface. Adv Colloid Interface Sci, 122, 149–57.Google Scholar

Shchukarev, A. 2006b. XPS at solid-solution interface: experimental approaches. Surf Interface Anal, 38, 682–5.CrossRef Google Scholar

Shchukarev, A., Boily, J. F. and Felmy, A. R. 2007. XPS of fast-frozen hematite colloids in NaCl aqueous solutions: I. Evidence for the formation of multiple layers of hydrated sodium and chloride ions induced by the {001} basal plane. J Phys Chem C, 111, 18307–16.Google Scholar

Shchukarev, A. and Ramstedt, M. 2017. Cryo-XPS: probing intact interfaces in nature and life. Surf Interface Anal, 49, 349–56.Google Scholar

Shchukarev, A., Rosenquist, J. and Sjöberg, S. 2004. XPS study of the silica–water interface. J Electron Spectros Relat Phenomena, 137–140, 171–6.Google Scholar

Shchukarev, A. and Sjöberg, S. 2005. XPS with fast-frozen samples: a renewed approach to study the real mineral/solution interface. Surf Sci, 584, 106–12.Google Scholar

Shimizu, K., Shchukarev, A. and Boily, J. F. 2011. X-ray photoelectron spectroscopy of fast-frozen hematite colloids in aqueous solutions. 3. Stabilization of ammonium species by surface (hydr)oxo groups. J Phys Chem C, 115, 6796–801.Google Scholar

Skallberg, A., Brommesson, C. and Uvdal, K. 2017. Imaging XPS and photoemission electron microscopy; surface chemical mapping and blood cell visualization. Biointerphases, 12, 02C408.Google Scholar

Tebo, B. M., Bargar, J. R., Clement, B. G., et al. 2004. Biogenic manganese oxides: properties and mechanisms of formation. Annu Rev Earth Planet Sci, 32, 287–328.Google Scholar

van der Mei, H., De Vries, J. and Busscher, H. 2000. X-ray photoelectron spectroscopy for the study of microbial cell surfaces. Surf Sci Rep, 39, 3–24.Google Scholar

Vollmer, W., Blanot, D. and De Pedro, M. A. 2008. Peptidoglycan structure and architecture. FEMS Microbiol Rev, 32, 149–67.Google Scholar

Winter, B. and Faubel, M. 2006. Photoemission from liquid aqueous solutions. Chem Rev, 106, 1176–211.Google Scholar

Yee, N. and Fein, J. 2001. Cd adsorption onto bacterial surfaces: A universal adsorption edge? Geochim et Cosmochim Acta, 65, 2037–42.Google Scholar

Yee, N. and Fein, J. 2003. Quantifying metal adsorption onto bacteria mixtures: a test and application of the surface complexation model. Geomicrobiol J, 20, 43–60.Google Scholar

Young, K. D. 2010. Bacterial Cell Wall, Chichester, Wiley.Google Scholar