Raman spectroscopy in halophile research

Frontiers in Microbiology

Volumn 4, Issue DEC, 2013, Pages

  Jehlička, Jan ^a   Oren, Aharon ^b  

^a CHARLES UNIVERSITY   (Czech Republic)

^b HEBREW UNIVERSITY OF JERUSALEM   (Israel)

Author keywords

Carotenoids; Compatible solutes; Gypsum crusts; Halophilic; Raman spectroscopy; Salterns

Indexed keywords

CAROTENOID; PHYCOBILIPROTEIN;

BACTERIUM CONJUGATION; BACTERIUM CULTURE; CENTRIFUGATION; CYANOBACTERIUM; HALOBACTERIUM; HALOPHILE; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; MICROBIAL COMMUNITY; NONHUMAN; PHOTOSYNTHESIS; RAMAN SPECTROMETRY; RESEARCH; SENSITIVITY ANALYSIS; SHORT SURVEY; SPECTRAL SENSITIVITY;

EID: 84892178221     PISSN: None     EISSN: 1664302X     Source Type: Journal    
DOI: 10.3389/fmicb.2013.00380     Document Type: Short Survey

References (51)

1. Antón, J., Oren, A., Benlloch, S., Rodríguez-Valera, F., Amann, R., and Rosselló-Móra, R. (2002). Salinibacter ruber gen. nov., sp. nov., a novel extreme halophilic member of the Bacteria from saltern crystallizer ponds. Int. J. Syst. Evol. Microbiol. 52, 485-491. doi: 10.1099/ijs.0.01913-0.
2. De Gelder, J., de Gussem, K., Vandenabeele, P., and Moens, L. (2007). Reference database of Raman spectra of biological molecules. J. Raman Spectrosc. 38, 1133-1147. doi: 10.1002/jrs.1734.
3. de los Ríos, A., Valea, S., Ascaso, C., Davila, A., Kaštovskỳ, J., McKay, C. P., et al. (2010). Comparative analysis of the microbial communities inhabiting halite evaporites of the Atacama Desert. Int. Microbiol. 13, 79-89. doi: 10.2436/20.1501.01.113.
4. Edwards, H. G. M., Garcia-Pichel, F., Newton, E. M., and Wynn-Williams, D. D. (2000). Vibrational Raman spectroscopic study of scytonemin, the UV-protective cyanobacterial pigment. Spectrochim. Acta A 56, 193-200. doi: 10.1016/S1386-1425(99)00218-8.
5. Edwards, H. G. M., Hutchinson, I. B., Ingley, R., Parnell, J., Vítek, P., and Jehlicka, J. (2013). Raman spectroscopic analysis of geological and biogeological specimens of relevance to the ExoMars mission. Astrobiology 13, 543-549. doi: 10.1089/ast.2012.0872.
6. Edwards, H. G. M., Jorge Villar, S. E., Parnell, J., Cockell, C. S., and Lee, P. (2005). Raman spectroscopic analysis of cyanobacterial gypsum halotrophs and relevance for sulfate deposits on Mars. Analyst 130, 917-923. doi: 10.1039/b503533c.
7. Fendrihan, S., Musso, M., and Stan-Lotter, H. (2009). Raman spectroscopy as a potential method for the detection of extremely halophilic archaea embedded in halite in terrestrial and possibly extraterrestrial samples. J. Raman Spectrosc. 40, 1996-2003. doi: 10.1002/jrs.2357.
8. Galinski, E. A. (1995). Osmoadaptation in bacteria. Adv. Microb. Physiol. 37, 272-328. doi: 10.1016/S0065-2911(08)60148-4.
9. Galinski, E. A., and Oren, A. (1991). Isolation and structure determination of a novel compatible solute from the moderately halophilic purple sulfur bacterium Ectothiorhodospira marismortui. Eur. J. Biochem. 198, 593-598. doi: 10.1111/j.1432-1033.1991.tb16055.x.
10. Galinski, E. A., Pfeiffer, H.-P., and Trüper, H. G. (1985). 1,4,5,6-tetrahydro-2-methyl-4-pyrimidinecarboxylic acid. A novel cyclic amino acid from halophilic phototrophic bacteria of the genus Ectothiorhodospira. Eur. J. Biochem. 149, 135-139. doi: 10.1111/j.1432-1033.1985.tb08903.x.
11. Hagemann, M. (2011). Molecular biology of cyanobacterial salt acclimation. FEMS Microbiol. Rev. 35, 87-123. doi: 10.1111/j.1574-6976.2010.00234.x.
12. Ilczyszyn, M. M., and Ratajczak, H. (1996). Polarized vibrational spectra of betaine monohydrate single crystal. Vibrat. Spectrosc. 10, 177-184. doi: 10.1016/0924-2031(95)00040-2.
13. Imhoff, J. F., and Rodriguez-Valera, F. (1984). Betaine is the main compatible solute of halophilic eubacteria. J. Bacteriol. 160, 478-479.
14. Jehlicka, J., and Edwards, H. G. M. (2008). Raman spectroscopy as a tool for the non-destructive identification of organic minerals in the geological record. Org. Geochem. 39, 371-386. doi: 10.1016/j.orggeochem.2008.01.005.
15. Jehlicka, J., and Oren, A. (2013). Use of a handheld Raman spectrometer for fast screening of microbial pigments in cultures of halophilic microorganisms and in microbial communities in hypersaline environments in nature. J. Raman Spectrosc. 43, 1285-1291. doi: 10.1002/jrs.4362.
16. Jehlicka, J., Oren, A., and Edwards, H. G. M. (2012a). Raman spectra of compatible osmotic solutes of halophiles. J. Raman Spectrosc. 43, 1134-1140. doi: 10.1002/jrs.3136.
17. Jehlicka, J., Oren, A., and Vítek, P. (2012b). Use of Raman spectroscopy for identification of compatible solutes in halophilic bacteria. Extremophiles 16, 507-514. doi: 10.1007/s00792-012-0450-3.
18. Jehlicka, J., Oren, A., and Edwards, H. G. M. (2013). Bacterioruberin and salinixanthin carotenoids of extremely halophilic Archaea and Bacteria: a Raman spectroscopic study. Spectrochim. Acta A 106, 99-103. doi: 10.1016/j.saa.2012.12.081.
19. Jehlicka, J., Vitek, P., Oren, A., and Edwards, H. G. M. (2011). Raman spectroscopic identification of evaporitic minerals and biomarkers using miniaturised portable devices. Mineral. Mag. 75, 1107. ISSN: 0026-461X.
20. 40-carotenoid acyl glycoside as principal carotenoid of Salinibacter ruber, an extremely halophilic eubacterium. J. Nat. Prod. 65, 1340-1343. doi: 10.1021/np020125c.
21. Mackay, M. A., Norton, R. S., and Borowitzka, L. J. (1984). Organic osmoregulatory solutes in cyanobacteria. J. Gen. Microbiol. 130, 2177-2191. doi: 10.1099/00221287-130-9-2177.
22. Marshall, C. P., Leuko, S., Coyle, C. M., Walter, M. R., Burns, B. P., and Neilan, B. A. (2007). Carotenoid analysis of halophilic Archaea by resonance Raman Spectroscopy. Astrobiology 7, 631-643. doi: 10.1089/ast.2006.0097.
23. Merlin, J. C. (1985). Resonance Raman spectroscopy of carotenoids and carotenoid-containing systems. Pure Appl. Chem. 57, 785-792. doi: 10.1351/pac198557050785.
24. Oren, A. (1988). "The microbial ecology of the Dead Sea," in Advances in Microbial Ecology, Vol. 10, ed K. C. Marshall (New York, NY: Plenum Publishing Company), 193-229. doi: 10.1007/978-1-4684-5409-3_6.
25. Oren, A. (2009). "Microbial diversity and microbial abundance in salt-saturated brines: why are the waters of hypersaline lakes red?" in Saline Lakes Around the World: Unique Systems with Unique Values, eds A. Oren, D. L. Naftz, P. Palacios, and W. A. Wurtsbaugh (Salt Lake City: Utah State University, The S. J. and Jessie E. Quinney Natural Resources Research Library, College of Natural Resources), 247-255.
26. Oren, A. (2011). "Characterization of pigments of prokaryotes and their use in taxonomy and classification," in Taxonomy of Prokaryotes-Methods in Microbiology, Vol. 38, eds F. A. Rainey and A. Oren (Amsterdam: Elsevier/Academic Press), 262-283. doi: 10.1016/B978-0-12-387730-7.00012-7.
27. Oren, A. (2013a). "The family Halobacteriaceae," in The Prokaryotes. A Handbook on the Biology of Bacteria: Ecophysiology and Biochemistry, 4th Edn., eds E. Rosenberg, E. F. DeLong, F. Thompson, S. Lory, and E. Stackebrandt (New York, NY: Springer).
28. Oren, A. (2013b). "Life at high salt concentrations," in The Prokaryotes. A Handbook on the Biology of Bacteria: Ecophysiology and Biochemistry, 4th Edn., eds E. Rosenberg, E. F. DeLong, F. Thompson, S. Lory, and E. Stackebrandt (New York, NY: Springer).
29. Oren, A. (2013c). Salinibacter, an extremely halophilic bacterium with archaeal properties. FEMS Microbiol. Lett. 342, 1-9. doi: 10.1111/1574-6968.12094.
30. Oren, A., and Dubinsky, Z. (1994). On the red coloration of saltern crystallizer ponds. II. Additional evidence for the contribution of halobacterial pigments. Int. J. Salt Lake Res. 3, 9-13. doi: 10.1007/BF01990638.
31. Oren, A., Elevi Bardavid, R., Kandel, N., Aizenshtat, Z., and Jehlicka, J. (2013). Glycine betaine is the main organic osmotic solute in a stratified microbial community in a hypersaline evaporitic gypsum crust. Extremophiles 17, 445-451. doi: 10.1007/s00792-013-0522-z.
32. Oren, A., Kühl, M., and Karsten, U. (1995). An endoevaporitic microbial mat within a gypsum crust: zonation of phototrophs, photopigments, and light penetration. Mar. Ecol. Prog. Ser. 128, 151-159. doi: 10.3354/meps128151.
33. Oren, A., and Rodríguez-Valera, F. (2001). The contribution of Salinibacter species to the red coloration of saltern crystallizer ponds. FEMS Microbiol. Ecol. 36, 123-130.
34. Oren, A., Sørensen, K. B., Canfield, D. E., Teske, A. P., Ionescu, D., Lipski, A., et al. (2009). Microbial communities and processes within a hypersaline gypsum crust in a saltern evaporation pond (Eilat, Israel). Hydrobiologia 626, 15-26. doi: 10.1007/s10750-009-9734-8.
35. Osterrothová, K., and Jehlicka, J. (2011). Investigation of biomolecules trapped in fluid inclusions inside halite crystals by Raman spectroscopy. Spectrochim. Acta A 83, 288-296. doi: 10.1016/j.saa.2011.08.032.
36. Post, F. J. (1977). The microbial ecology of the Great Salt Lake. Microb. Ecol. 3, 143-165. doi: 10.1007/BF02010403.
37. Roberts, M. F. (2000). Osmoadaptation and osmoregulation in Archaea. Front. Biosci. 5, d796-d812. doi: 10.2741/roberts.
38. Roberts, M. F. (2006). "Characterization of organic compatible solutes of halotolerant and halophilic microorganisms," in Extremophiles-Methods in Microbiology, Vol. 35, eds F. A. Rainey and A. Oren (Amsterdam: Elsevier/Academic Press), 615-627.
39. Rösch, P., Schmitt, M., Kiefer, W., and Popp, J. (2003). The identification of microorganisms by micro-Raman spectroscopy. J. Mol. Struct. 661-662, 363-369. doi: 10.1016/j.molstruc.2003.06.004.
40. Schmitt, M., and Popp, J. (2006). Raman spectroscopy at the beginning of the twenty-first century. J. Raman Spectrosc. 37, 20-28. doi: 10.1002/jrs.1486.
41. Schrader, B., Klump, H. H., Schenzel, K., and Schulz, H. (1999). Non-destructive NIR FT Raman analysis of plants. J. Mol. Struct. 509, 201-212. doi: 10.1016/S0022-2860(99)00221-5.
42. Schubert, B. A., Lowenstein, T. K., and Timofeeff, M. N. (2009). Microscopic identification of prokaryotes in modern and ancient halite, Saline Valley and Death Valley, California. Astrobiology 9, 467-482. doi: 10.1089/ast.2008.0282.
43. Severin, J., Wohlfarth, A., and Galinski, E. A. (1992). The predominant role of recently discovered tetrahydropyrimidines for the osmoadaptation of halophilic eubacteria. J. Gen. Microbiol. 138, 1629-1638. doi: 10.1099/00221287-138-8-1629.
44. Vítek, P., Cámara-Gallego, B., Edwards, H. G. M., Jehlicka, J., Ascaso, C., and Wierzchos, J. (2013). Phototrophic community in gypsum crust from the Atacama Desert studied by Raman spectroscopy and microscopic imaging. Geomicrobiol. J. 30, 399-410. doi: 10.1080/01490451.2012.697976.
45. Vítek, P., Edwards, H. G. M., Jehlicka, J., Ascaso, C., De los Ríos, A., Valea, S., et al. (2010). Microbial colonization of halite from the hyper-arid Atacama desert studied by Raman spectroscopy. Philos. Trans. A Math. Phys. Eng. Sci. 368, 3205-3221. doi: 10.1098/rsta.2010.0059.
46. Vítek, P., Jehlicka, J., Edwards, H. G. M., Hutchinson, I., Ascaso, C., and Wierzchos, J. (2012). The miniaturized Raman system and detection of traces of life in halite from the Atacama Desert: some considerations for the search for life signatures on Mars. Astrobiology 12, 1095-1099. doi: 10.1089/ast.2012.0879.
47. Vítek, P., Jehlicka, J., Edwards, H. G. M., and Osterrothová, K. (2009). Identification of β-carotene in an evaporitic matrix-evaluation of Raman spectroscopic analysis for astrobiological research on Mars. Anal. Bioanal. Chem. 393, 1967-1975. doi: 10.1007/s00216-009-2677-0.
48. Welsh, D. T. (2000). Ecological significance of compatible solute accumulation by micro-organisms: from single cells to global climate. FEMS Microbiol. Rev. 24, 263-290. doi: 10.1111/j.1574-6976.2000.tb00542.x.
49. Wierzchos, J., Ascaso, C., and McKay, C. P. (2006). Endolithic cyanobacteria in halite rocks from the hyperarid core of the Atacama Desert. Astrobiology 6, 415-422. doi: 10.1089/ast.2006.6.415.
50. Winters, Y. D., Lowenstein, T. K., and Timofeff, M. N. (2013). Identification of Carotenoids in Ancient Salt from Death Valley, Saline Valley, and Searles Lake, California using Laser Raman Spectroscopy. Astrobiology 13, 1065-1080. doi: 10.1089/ast.2012.0952.
51. Wohlfarth, A., Severin, J., and Galinski, E. A. (1990). The spectrum of compatible solutes in heterotrophic halophilic eubacteria of the family Halomonadaceae. J. Gen. Microbiol. 136, 705-712. doi: 10.1099/00221287-136-4-705.