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Life  2013 

Microorganism Response to Stressed Terrestrial Environments: A Raman Spectroscopic Perspective of Extremophilic Life Strategies

DOI: 10.3390/life3010276

Keywords: Raman spectroscopy, extremophile, bio-strategy, geo-strategy, microorganism

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Abstract:

Raman spectroscopy is a valuable analytical technique for the identification of biomolecules and minerals in natural samples, which involves little or minimal sample manipulation. In this paper, we evaluate the advantages and disadvantages of this technique applied to the study of extremophiles. Furthermore, we provide a review of the results published, up to the present point in time, of the bio- and geo-strategies adopted by different types of extremophile colonies of microorganisms. We also show the characteristic Raman signatures for the identification of pigments and minerals, which appear in those complex samples.

References

[1]  Edwards, H.G.M.; Farwell, D.W.; Seaward, M.R.D.; Giacobini, C. Preliminary Raman Microscopic Analyses of a Lichen Encrustation Involved in the Biodeterioration of Renaissance Frescoes in Central Italy. Int. Biodeterior.?1991, 27, 1–9, doi:10.1016/0265-3036(91)90019-N.
[2]  Edwards, H.G.M.; Holder, J.M.; Russell, N.C.; Wynn-Williams, D.D. Spectroscopy of Biological Molecules: Modern Trends; Carmona, P., Navarro, R., Hernanz, A., Eds.; Kluwer Academic: Dordrecht, The Netherlands, 1997; pp. 509–510.
[3]  Edwards, H.G.M.; Russell, N.C.; Wynn-Williams, D.D. FT-Raman Spectroscopic and Scanning Electron Microscopic Study of Cryptoendolithic Lichens from Antarctica. J. Raman Spectrosc.?1997, 28, 685–690, doi:10.1002/(SICI)1097-4555(199709)28:9<685::AID-JRS160>3.0.CO;2-X.
[4]  Edwards, H.G.M.; Farwell, D.W.; Seaward, M.R.D. Raman Spectra of Oxalates in Lichen Encrustations on Renaissance Frescoes. Spectrochim. Acta?1991, 47, 1531–1539, doi:10.1016/0584-8539(91)80247-G.
[5]  Edwards, H.G.M.; Farwell, D.W.; Jenkins, R.; Seaward, M.R.D. Vibrational Raman Spectroscopic Studies of Calcium Oxalate Monohydrate and Dihydrate in Lichen Encrustations on Renaissance Frescoes. J. Raman Spectrosc.?1992, 23, 185–189, doi:10.1002/jrs.1250230310.
[6]  Edwards, H.G.M.; Seaward, M.R.D. Raman Spectroscopy and Lichen Biodeterioration Spectrosc. Eur.?1993, 5, 16–20.
[7]  Edwards, H.G.M.; Edwards, K.A.E.; Farwell, D.W.; Lewis, I.R.; Seaward, M.R.D. An Approach to Stone and Fresco Lichen Biodeterioration through FT-Raman Microscopic Investigation of Thallus-Substratum Encrustations. J. Raman Spectrosc.?1994, 25, 99–103, doi:10.1002/jrs.1250250114.
[8]  Edwards, H.G.M.; Seaward, M.R.D. Biodeterioration and Biodegradation 9; Bousher, A., Chandra, M., Edyvean, R., Eds.; Institute of Chemical Engineers Publication, Hobbs Printers: Totton, Hampshire, UK, 1995; pp. 199–203.
[9]  Edwards, H.G.M.; Holder, J.M.; Wynn-Williams, D.D. Comparative FT-Raman Spectroscopy of Xanthoria. Lichen-Substratum Systems from Temperate and Antarctic Habitats. Soil Biol. Biochem.?1998, 30, 1947–1953, doi:10.1016/S0038-0717(98)00065-0.
[10]  Wynn-Williams, D.D.; Edwards, H.G.M.; Garcia-Pichel, F. Functional Biomolecules of Antarctic Stromatolitic and Endolithic Cyanobacterial Communities. Eur. J. Phycol.?1999, 34, 381–391, doi:10.1080/09670269910001736442.
[11]  Edwards, H.G.M.; Garcia-Pichel, F.; Newton, E.M.; Wynn-Williams, D.D. Vibrational Raman Spectroscopic Study of Scytonemin, the UV-Protective Cyanobacterial Pigment. Spectrochim. Acta Part A?2000, 56, 193–200, doi:10.1016/S1386-1425(99)00218-8.
[12]  Holder, J.M.; Wynn-Williams, D.D.; Rull Perez, F.; Edwards, H.G.M. Raman Spectroscopy of Pigments and Oxalates In Situ within Epilithic Lichens: Acarospora from the Antarctic and Mediterranean. New Phytol.?2000, 145, 271–280, doi:10.1046/j.1469-8137.2000.00573.x.
[13]  Edwards, H.G.M.; Wynn-Williams, D.D.; Newton, E.M.; Coombes, S.J. Molecular Structural studies of Lichen Substances I: Parietin and Emodin. J. Mol. Struct.?2003, 648, 49–59, doi:10.1016/S0022-2860(02)00384-8.
[14]  Edwards, H.G.M.; Newton, E.M.; Wynn-Williams, D.D. Molecular Structural Studies of Lichen Substances II: Atranorin, Gyrophoric Acid, Fumarprotocetraric Acid, Rhizocarpic Acid, Calycin, Pulvinic Dilactone and Usnic Acid. J. Mol. Struct.?2003, 651, 27–37, doi:10.1016/S0022-2860(02)00626-9.
[15]  Marshall, C.P.; Edwards, H.G.M.; Jehlicka, J. Understanding the application of Raman spectroscopy to the detection of traces of life. Astrobiology?2010, 10, 229–243, doi:10.1089/ast.2009.0344.
[16]  Vandenabeele, P.; Jehlicka, J.; Vitec, P.; Edwards, H.G.M. On the definition of Raman spectroscopic detection limits for the analyses of biomarkers in solid matrices. Planet. Space Sci.?2012, 62, 48–54, doi:10.1016/j.pss.2011.12.006.
[17]  Edwards, H.G.M.; Wynn-Williams, D.D.; Little, S.J.; de Oliveira, L.F.C.; Cockell, C.S.; Ellis-Evans, J.C. Stratified Response to Environmental Stress in a Polar Lichen Characterised with FT-Raman Microscopic Analysis. Spectrochim. Acta Part. A?2004, 60, 2029–2033, doi:10.1016/j.saa.2003.10.021.
[18]  Edwards, H.G.M.; Newton, E.M.; Wynn-Williams, D.D.; Lewis-Smith, R.I. Nondestructive Analysis of Pigments and other Organic Compounds in Lichens Using Fourier-Transform Raman Spectroscopy: A Study of Antarctic Epilithic Lichens. Spectrochim. Acta Part A?2003, 59, 2301–2309, doi:10.1016/S1386-1425(03)00073-8.
[19]  Russ, J.; Palma, R.L.; Loyd, D.H.; Farwell, D.W.; Edwards, H.G.M. Analysis of the Rock Accretions in the Lower Pecos Region of Southwest Texas. Geoarchaeology?1995, 10, 43–63, doi:10.1002/gea.3340100104.
[20]  Seaward, M.R.D.; Edwards, H.G.M. Lichen-Substratum Interface Studies with Particular Reference to Raman Microscopic Analysis. I. The Deterioration of Works of Art by Dirina Massiliensis forma Sorediata. Cryptogam. Bot.?1995, 5, 282–287.
[21]  Edwards, H.G.M.; Rull Perez, F. Lichen Biodeterioration of the Convento de la Peregrina, Sahagun, Spain. Biospectroscopy?1999, 5, 47–52, doi:10.1002/(SICI)1520-6343(1999)5:1<47::AID-BSPY6>3.0.CO;2-1.
[22]  Villar, S.E.J.; Edwards, H.G.M.; Seaward, M.R.D. Lichen Biodeterioration of Ecclesiastical Monuments in Northern Spain. Spectrochim. Acta Part A?2004, 60, 1229–1237.
[23]  Wynn-Williams, D.D.; Edwards, H.G.M. Proximal Analysis of Regolith Habitats and Protective Biomolecules In situ by Laser Raman Spectroscopy: Overview of Terrestrial Antarctic Habitats and Mars Analogs. Icarus?2000, 144, 486–503, doi:10.1006/icar.1999.6307.
[24]  Wynn-Williams, D.D.; Edwards, H.G.M. Antarctic Eco-Systems as Models for Extra-Terrestrial Surface Habitats. Planet. Space Sci.?2000, 48, 1065–1075, doi:10.1016/S0032-0633(00)00080-5.
[25]  Wynn-Williams, D.D.; Edwards, H.G.M. Astrobiology: The Quest for the Conditions of Life; Horneck, G., Baumstark-Khan, C., Eds.; Springer-Verlag: Berlin, Germany, 2002; pp. 245–260.
[26]  Edwards, H.G.M.; Newton, E.M.; Wynn-Williams, D.D.; Dickensheets, D.; Schoen, C.; Crowder, C. Laser Wavelength Selection for Raman Spectroscopy of Microbial Pigments in situ in Antarctic Desert Ecosystem Analogues of Former Habitats on Mars. Int. J. Astrobiol.?2003, 1, 333–348.
[27]  Ellery, A.; Kolb, C.; Lammer, H.; Parnell, J.; Edwards, H.; Richter, L.; Patel, M.; Romstedt, J.; Dickensheets, D.; Steele, A. Astrobiological Instrumentation for Mars—The Only Way is Down! Int. J. Astrobiol.?2003, 1, 365–380.
[28]  Edwards, H.G.M.; Newton, E.M.; Dickensheets, D.L.; Wynn-Williams, D.D. Raman Spectroscopic Detection of Biomolecular Markers from Antarctic Materials: Evaluation for Putative Martian Habitats. Spectrochim. Acta Part A?2003, 59, 2277–2290, doi:10.1016/S1386-1425(03)00071-4.
[29]  Edwards, H.G.M. Raman Spectroscopic Protocol for the Molecular Recognition of Key Biomarkers in Astrobiological Exploration. Orig. Life Evol. Biospheres?2004, 34, 3–11, doi:10.1023/B:ORIG.0000009824.38510.9a.
[30]  Ellery, A.; Wynn-Williams, D.D.; Parnell, J.; Edwards, H.G.M.; Dickensheets, D. The Role of Raman Spectroscopy as an Astrobiological Tool in the Exploration of Mars. J. Raman Spectrosc.?2004, 35, 441–457, doi:10.1002/jrs.1189.
[31]  Ferraro, J.R.; Nakamoto, K.; Brown, C.W. Introductory Raman Spectroscopy, 2nd ed. ed.; Academy Press: London, UK, 2003.
[32]  Canganella, F.; Wiegel, J. Extremophiles: From abyssal to terrestrial ecosystems and possibly beyond. Naturwissenschaften?2011, 98, 253–279, doi:10.1007/s00114-011-0775-2.
[33]  Dong, H.; Yu1, B. Geomicrobiological processes in extreme environments: A review. Episodes?2007, 30, 202–216.
[34]  Fujiwara, S. Extremophiles: Developments of their special functions and potential resources. J. Biosci. Bioeng.?2002, 94, 518–525.
[35]  Rothschild, L.J.; Mancinelli, R.L. Life in extreme environments. Nature?2001, 409, 1092–1100, doi:10.1038/35059215.
[36]  Friedmann, E.I. Endolithic microorganisms in the Antarctic cold desert. Science?1982, 4536, 1045–1053.
[37]  Dong, H. Mineral-microbe interactions: A review. Front. Earth. Sci. China?2010, 4, 127–147, doi:10.1007/s11707-010-0022-8.
[38]  Bennett, P.C.; Rogers, J.R.; Choi, W.J.; Hiebert, F.K. Silicates, silicate weathering and microbial ecology. Geomicrobiol. J.?2001, 18, 3–19, doi:10.1080/01490450151079734.
[39]  Rogers, J.R.; Bennett, P.C. Mineral stimulation of subsurface microorganisms: Release of limiting nutrients from silicates. Chem. Geol.?2004, 203, 91–108, doi:10.1016/j.chemgeo.2003.09.001.
[40]  Breier, J.A.; White, S.N.; German, C.R. Mineral-microbe interactions in deep-sea hydrothermal systems: A challenge for Raman spectroscopy. Phil. Trans. R. Soc. A?2010, 368, 3067–3086, doi:10.1098/rsta.2010.0024.
[41]  Himmel, D.; Maurin, L.C.; Mansont, J.L. Raman microspectrometry sulfur detection and characterization in the marine ectosymbiotic nematode Eubostrichus dianae (Desmodoridae, Stilbonematidae). Biol. Cell.?2009, 101, 43–54, doi:10.1042/BC20080051.
[42]  Oger, P.M.; Daniel, I.; Picard, A. In situ Raman and X-ray spectroscopies to monitor microbial activities under high hydrostatic pressure. Ann. NY Acad. Sci.?2010, 1189, 113–120.
[43]  Dartnell, L.R.; Page, K.; Jorge-Villar, S.E.; Wright, G.; Munshi, T.; Scowen, I.J.; Ward, J.M.; Edwards, H.G.M. Destruction of Raman biosignatures by ionising radiation and the implications for life detection on Mars. Anal. Bioanal. Chem.?2012, 403, 131–144, doi:10.1007/s00216-012-5829-6.
[44]  Edwards, H.G.M.; Vandenabeele, P.; Jorge-Villar, S.E.; Carter, E.A.; Rull Perez, F.; Hargreaves, M. The Rio Tinto Mars analogue site: An extremophilic Raman spectroscopic study. Spectrochim. Acta Part A?2007, 68, 1133–1137, doi:10.1016/j.saa.2006.12.080.
[45]  ESA Robotic Exploration of Mars. Available online: http://exploration.esa.int/science-e/www/object/index.cfm?fobjectid=46048/ (accessed on 27 November 2012).
[46]  Goodwin, J.R.; Hafner, L.M.; Fredericks, P.M. Raman spectroscopic study of the heterogeneity of microcolonies of a pigmented bacterium. J. Raman Spectrosc.?2006, 37, 932–936, doi:10.1002/jrs.1523.
[47]  Jehlicka, J.; Oren, A.; Vitek, P. Use of Raman spectroscopy for the identification of compatible solutes in halophilic bacteria. Extremophiles?2012, 16, 507–514, doi:10.1007/s00792-012-0450-3.
[48]  Fisk, M.R.; Storrie-Lombardi, M.C.; Douglas, S.; Popa, R.; McDonald, G.; di Meo-Savoie, C. Evidence of biological activity in Hawaiian subsurface basalts. Geochem. Geophys. Geosyst.?2003, 4, 1–24.
[49]  Cockell, C.S.; Clasteren, P.V.; Mosselmans, J.F.W.; Franchi, I.A.; Gilmour, I.; Kelly, L.; Olsson-Francis, K.; Johnson, D. Microbial endolithic colonization and the geological environment in young seafloor basalts. Chem. Geol.?2010, 279, 17–30, doi:10.1016/j.chemgeo.2010.09.015.
[50]  Gleeson, D.F.; Pappalardo, R.T.; Anderson, M.S.; Grasby, S.E.; Mielke, R.E.; Wrigth, K.E.; Templeton, A.S. Biosignature detection at an Arctic analog to Europa. Astrobiology?2012, 12, 135–150, doi:10.1089/ast.2010.0579.
[51]  Cockell, C.S.; Osinki, G.R.; Banerjee, N.R.; Howard, K.T.; Gilmour, I.; Watson, J.S. The microbe-mineral environment and gypsum neogenesis in a weathered polar evaporite. Geobiology?2010, 8, 293–308, doi:10.1111/j.1472-4669.2010.00240.x.
[52]  Efrima, S.; Zeiri, L. Understanding SERS of Bacteria. J. Raman Spectrosc.?2008, 40, 277–288, doi:10.1002/jrs.2121.
[53]  Zeiri, L.; Efrima, S. Surface-enhanced Raman spectroscopy of bacteria: The effect of excitation wavelength and chemical modification of the colloidal milieu. J. Raman Spectrosc.?2005, 36, 667–675, doi:10.1002/jrs.1349.
[54]  Xie, W.; Su, L.; Shen, A.; Maternyc, A.; Hua, J. Application of surface-enhanced Raman scattering in cell analysis. J. Raman Spectrosc.?2011, 42, 1248–1254, doi:10.1002/jrs.2857.
[55]  Bowden, S.A.; Wilson, R.; Cooper, J.M.; Parnell, J. The use of surface-enhanced Raman scattering for detecting molecular evidence of life in rocks, sediments and sedimentary deposits. Astrobiology?2010, 10, 629–641, doi:10.1089/ast.2009.0435.
[56]  Laucks, M.L.; Sengupta, A.; Jungle, K.; Davis, E.J.; Swanson, B.D. Comparison of psychro-active Arctic marine bacteria and common mesophillic bacteria using surface-enhanced Raman spectroscopy. Appl. Spectrosc.?2005, 59, 1222–1228, doi:10.1366/000370205774430891.
[57]  Wilson, R.; Monaghan, P.; Bowden, S.A.; Parnell, J.; Cooper, J.M. Surface-enhanced Raman signatures of pigmentation of cyanobacteria from within geological samples in a spectroscopic-microfluidic flow cell. Anal. Chem.?2007, 79, 7036–7041, doi:10.1021/ac070994c.
[58]  Jorge-Villar, S.E.; Edwards, H.G.M.; Cockell, C.S. Raman spectroscopy of endoliths from Antarctic cold desert environments. Analyst?2005, 130, 156–162, doi:10.1039/b410854j.
[59]  Jorge-Villar, S.E.; Edwards, H.G.M. Raman spectroscopy in Astrobiology. Anal. Bioanal. Chem.?2006, 384, 100–113, doi:10.1007/s00216-005-0029-2.
[60]  Jorge-Villar, S.E.; Edwards, H.G.M.; Benning, L.G. AMASE 2004 team. Raman spectroscopic analysis of Arctic nodules: Relevance to the astrobiological exploration of Mars. Anal. Bioanal. Chem.?2011, 401, 2927–2933, doi:10.1007/s00216-011-5385-5.
[61]  Jorge-Villar, S.E.; Edwards, H.G.M.; Wynn-Williams, D.D. FT-Raman spectroscopic analysis of an Antarctic endolith. Int. J. Astrobiol.?2003, 1, 349–355.
[62]  Edwards, H.G.M.; Moody, C.D.; Jorge-Villar, S.E.; Mancinelli, R. Raman spectroscopy of desert varnishes and their rock substrata. J. Raman Spectrosci.?2004, 35, 475–479, doi:10.1002/jrs.1170.
[63]  Edwards, H.G.M.; Moody, C.D.; Jorge-Villar, S.E.; Wynn-Williams, D.D. Raman spectroscopic detection of key biomarkers of cyanobacterial and lichens symbiosis in extreme Antarctic habitats: Evaluation for Mars lander missions. Icarus?2005, 174, 560–571, doi:10.1016/j.icarus.2004.07.029.
[64]  Edwards, H.G.M.; Moody, C.D.; Newton, E.M.; Jorge-Villar, S.E.; Russell, M.J. Raman spectroscopic analysis of cyanobacterial colonization of hydromagnesite, a putative martian extremophile. Icarus?2005, 175, 372–381, doi:10.1016/j.icarus.2004.12.006.
[65]  Edwards, H.G.M.; Jorge-Villar, S.E.; Parnell, J.; Cockell, C.S.; Lee, P. Raman spectroscopic analysis of cyanobacterial gypsum halotrophs and relevance for sulfate deposits on Mars. Analyst?2005, 130, 917–923, doi:10.1039/b503533c.
[66]  Moody, C.D.; Jorge-Villar, S.E.; Edwards, H.G.M.; Hodgson, D.A.; Doran, P.T.; Bishop, J.L. Biogeological Raman spectroscopic studies of Antarctic lacustrine sediments. Spectrochim. Acta Part A?2005, 61, 2413–2417, doi:10.1016/j.saa.2005.02.023.
[67]  Jorge-Villar, S.E.; Edwards, H.G.M.; Worland, M.R. Comparative evaluation of Raman spectroscopy at different wavelengths for extremophile exemplars. Orig. Life Evol. Biospheres?2005, 35, 489–506, doi:10.1007/s11084-005-3528-4.
[68]  Jorge-Villar, S.E.; Edwards, H.G.M.; Benning, L.G. Raman spectroscopic and scanning electron microscopic analysis of a novel biological colonisation of volcanic rocks. Icarus?2006, 184, 158–169, doi:10.1016/j.icarus.2006.04.009.
[69]  Edwards, H.G.M.; Currie, K.J.; Ali, H.R.H.; Jorge-Villar, S.E.; David, A.R.; Denton, J. Raman spectroscopy of natron: Shedding light on ancient Egyptian mummification. Anal. Bioanal. Chem.?2007, 388, 683–689, doi:10.1007/s00216-007-1249-4.
[70]  Vitek, P.; Edwards, H.G.M.; Jehlicka, J.; Ascaso, C.; de los Rios, A.; Vallea, S.; Jorge-Villar, S.E.; Davila, A.F.; Wierzchos, J. Microbial colonization of halite from the hyper-arid Atacama desert studied by Raman spectroscopy. Phil. Trans. R. Soc.?2010, 368, 3205–3221, doi:10.1098/rsta.2010.0059.
[71]  Edwards, H.G.M.; Oliveira, L.F.C.; Cockell, C.S.; Ellis-Evans, J.C.; Wynn-Williams, D.D. Raman spectroscopy of senescing snow algae: Pigmentation changes in an Antarctic cold desert extremophile. Int. J. Astrobiol.?2004, 3, 125–129, doi:10.1017/S1473550404002034.
[72]  Russell, N.C.; Edwards, H.G.M.; Wynn-Williams, D.D. FT-Raman spectroscopic analysis of endolithic communities from Beacon sandstone in Victoria Land, Antarctica. Antarct. Sci.?1998, 10, 63–74.
[73]  Edwards, H.G.M.; Mohsin, M.A.; Sadooni, F.N.; Hassan, N.F.; Munshi, T. Life in the Sabkha: Raman spectroscopy of halotrophic extremophiles of relevance to planetary exploration. Anal. Bioanal. Chem.?2006, 385, 46–56, doi:10.1007/s00216-006-0396-3.
[74]  Edwards, H.G.M.; Jorge-Villar, S.E.; Pullan, D.; Hargreaves, M.D.; Hofmann, B.A.; Westall, F. Morphological biosignatures from relict fossilised sedimentary geological specimens: A Raman spectroscopic study. J. Raman Spectrosc.?2007, 38, 1325–1361.
[75]  White, S.N.; Dunk, R.M.; Peltzer, E.T.; Freeman, J.J.; Brewer, P.G. In situ Raman analyses of deep-sea hydrothermal and cold seep systems (Gorda Ridge and Hydrate Ridge). Geochem. Geophys. Geosyst.?2006, 5, 1–12.
[76]  Edwards, H.G.M.; Sadooni, F.; Vitek, P.; Jehlicka, J. Raman spectroscopy of the Dukhan sabkha: Identification of geological and biogeological molecules in an extreme environment. Phil. Trans. R. Soc. A?2012, 368, 3099–3107.
[77]  Smith, J.A.; Onstott, T.C. Follow the Water: Steve Squyres and the Mars Exploration Rovers. J. Franklin Inst.?2011, 348, 446–452, doi:10.1016/j.jfranklin.2010.05.007.
[78]  Baker, V.R. Water and the Martian landscape. Nature?2001, 412, 228–236, doi:10.1038/35084172.
[79]  Squyres, S.W.; Kasting, J.F. Early Mars: How warm and how wet? Science?1994, 265, 744–749.
[80]  Niles, P.B.; Catling, D.C.; Berger, G.; Chassefière, E.; Ehlmann, B.L.; Michalski, J.R.; Morris, R.; Ruff, S.W.; Sutter, B. Geochemistry of carbonates on Mars: Implications for climate history and nature of aqueous environments. Space Sci. Rev.?2013, 174, 301–328, doi:10.1007/s11214-012-9940-y.
[81]  De Oliveira, V.E.; Castro, H.V.; Edwards, H.G.; de Oliveira, L.F.C. Carotenes and carotenoids in natural biological samples: A Raman spectroscopic analysis. J. Raman Spectrosc.?2010, 41, 642–650.

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