Identification of medically relevant microorganisms by vibrational spectroscopy

Journal of Microbiological Methods

Volumn 51, Issue 3, 2002, Pages 255-271

  Maquelin, K ^a   Kirschner, C ^b   Choo Smith, L P ^a   Van Den Braak, N ^a   Endtz, H Ph ^a   Naumann, D ^b   Puppels, G J ^a  

^a ERASMUS MEDICAL CENTER   (Netherlands)

^b ROBERT KOCH INSTITUTE   (Germany)

Author keywords

FT IR; Microorganisms; Raman; Rapid identification

Indexed keywords

ANALYTIC METHOD; ANTIBIOTIC SENSITIVITY; BACTERIUM IDENTIFICATION; BIOMEDICINE; CANDIDA; CELL; DATA BASE; GRAM NEGATIVE BACTERIUM; INFRARED SPECTROSCOPY; INTERMETHOD COMPARISON; MICROBIAL IDENTIFICATION; MICROORGANISM; NONHUMAN; PRIORITY JOURNAL; RAMAN SPECTROMETRY; REPRODUCIBILITY; REVIEW; STANDARDIZATION; STRAIN DIFFERENCE; TECHNIQUE;

BACTERIAL INFECTIONS; BACTERIAL TYPING TECHNIQUES; CANDIDA; CANDIDIASIS; GRAM-NEGATIVE BACTERIA; GRAM-POSITIVE BACTERIA; HUMANS; MYCOLOGICAL TYPING TECHNIQUES; SPECTROPHOTOMETRY, INFRARED; SPECTRUM ANALYSIS, RAMAN;

EID: 0036828528     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0167-7012(02)00127-6     Document Type: Review

References (55)

1. Alsberg B.J., Wade W.G., Goodacre R. Chemometric analysis of diffuse reflectance-absorbance Fourier transform infrared spectra using rule induction methods: applications to the classification of Eubacterium species. Appl. Spectrosc. 52:1998;823-832.
2. Belgrader P., Benett W., Hadley D., Richards J., Stratton P., Mariella R.J., Milanovich F. PCR detection of bacteria in seven minutes. Science. 284:1999;449-450.
3. Chee M., Yang R., Hubbell E., Berno A., Huang X.C., Stern D., Winkler J., Lockhart D.J., Morris M.S., Fodor S.P. Accessing genetic information with high-density DNA arrays. Science. 274:1996;610-614.
4. Choo-Smith L.-P., Maquelin K., van Vreeswijk T., Bruining H.A., Puppels G.J., Thi N.A., Kirschner C., Naumann D., Ami D., Villa A.M., Orsini F., Doglia S.M., Lamfarraj H., Sockalingum G.D., Manfait M., Allouch P., Endtz H.P. Investigating microbial (micro)colony heterogeneity by vibrational spectroscopy. Appl. Environ. Microbiol. 67:2001;1461-1469.
5. Clark N.C., Olsvik O., Swenson J.M., Spiegel C.A., Tenover F.C. Detection of a streptomycin/spectinomycin adenylyltransferase gene (aadA) in Enterococcus faecalis. Antimicrob. Agents Chemother. 43:1999;157-160.
6. Claydon M.A., Davey S.N., Edwards-Jones V., Gordon D.B. The rapid identification of intact microorganisms using mass spectrometry. Nat. Biotechnol. 14:1996;1584-1586.
7. Curk M.C., Peladan F., Hubert J.C. Fourier transform infrared (FTIR) spectroscopy for identifying Lactobacillus species. FEMS Microbiol. Lett. 123:1994;241-248.
8. Dalterio R.A., Nelson W.H., Britt D., Sperry J.F., Purcell F.J. A resonance Raman microprobe study of chromobacteria in water. Appl. Spectrosc. 40(2):1986;271-272.
9. Dalterio R.A., Baek M., Nelson W.H., Britt D., Sperry J.F., Purcell F.J. The resonance Raman microprobe detection of single bacterial cells from a chromobacterial mixture. Appl. Spectrosc. 41(2):1987;241-244.
10. Doern G.V., Vautour R., Gaudet M., Levy B. Clinical impact of rapid in vitro susceptibility testing and bacterial identification. J. Clin. Microbiol. 32:1994;1757-1762.
11. Edwards H.G.M., Russell N.C., Weinstein R., Wynn-Williams D.D. Fourier transform Raman spectroscopic study of fungi. J. Raman Spectrosc. 26:1995;911-916.
12. Fodor S.P., Rava R.P., Huang X.C., Pease A.C., Holmes C.P., Adams C.L. Multiplexed biochemical assays with biological chips. Nature. 364:1993;555-556.
13. Goodacre R., Hiom S.J., Cheeseman S.L., Murdoch D., Weightman A.J., Wade W.G. Identification and discrimination of oral asaccharolytic Eubacterium spp. by pyrolysis mass spectrometry and artificial neural networks. Curr. Microbiol. 32:1996;77-84.
14. Goodacre R., Rooney P.J., Kell D.B. Rapid analysis of microbial systems using vibrational spectroscopy and supervised learning methods: application to the discrimination between methicillin-resistant and methicillin-susceptible Staphylococcus aureus. Mantsch H.H., Jackson M. Infrared Spectroscopy: New Tool in Medicine. Proceedings of SPIE, Bellingham, Washington. 1998;220-229.
15. Greve J., Puppels G.J. Raman microspectroscopy of single whole cells. Clark R.J.H., Hester R.E. Biomolecular Spectroscopy. 1993;231-265 Wiley, Chichester.
16. Haag A.M., Taylor S.N., Johnston K.H., Cole R.B. Rapid identification and speciation of Haemophilus bacteria by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. J. Mass Spectrom. 33:1998;750-756.
17. Helm D., Labischinski H., Naumann D. Elaboration of a procedure for identification of bacteria using Fourier-transform IR spectral libraries: a stepwise correlation approach. J. Microbiol. Methods. 14:1991;127-142.
18. Helm D., Labischinski H., Schallehn G., Naumann D. Classification and identification of bacteria by Fourier-transform infrared spectroscopy. J. Gen. Microbiol. 137:1991;69-79.
19. Holst, G.C., 1998. CCD Arrays, Cameras, and Displays. JCD Publishing and SPIE Press, Winter Park and Bellingham (resp.).
20. Horbach I., Naumann D., Fehrenbach F.J. Simultaneous infections with different serogroups of Legionella pneumophila investigated by routine methods and Fourier transform infrared spectroscopy. J. Clin. Microbiol. 26:1988;1106-1110.
21. Kalasinsky V.F., Johnson F.B., Ferwerda R. Fourier transform infrared and Raman microspectroscopy of materials in tissue. Cell,. Mol. Biol. (Noisy-le-grand). 44:1998;141-144.
22. Kirschner C., Maquelin K., Pina P., Ngo Thi N.A., Choo-Smith L.P., Sockalingum G.D., Sandt C., Ami D., Orsini F., Doglia S.M., Allouch P., Mainfait M., Puppels G.J., Naumann D. Classification and identification of enterococci: a comparative phenotypic, genotypic, and vibrational spectroscopic study. J. Clin. Microbiol. 39:2001;1763-1770.
23. Kummerle M., Scherer S., Seiler H. Rapid and reliable identification of food-borne yeasts by Fourier-transform infrared spectroscopy. Appl. Environ. Microbiol. 64:1998;2207-2214.
24. Lavine B.K. Chemomerics. Anal. Chem. 70:1998;209R-228R.
25. Manoharan R., Ghiamati E., Dalterio R.A., Britton K.A., Nelson W.H., Sperry J.F. UV resonance Raman spectra of bacteria, bacterial spores, protoplasts and calcium dipicolinate. J. Microbiol. Methods. 11:1990;1-15.
26. Maquelin K., Choo-Smith L.-P., Bruining H.A., Puppels G.J. Identification and characterization of micro-organisms by Raman spectroscopy. Naumann D., Mertens F., Schmitt J. FT-IR Diagnostik. 1998;7-8 Robert Koch Institute, Berlin, Germany.
27. Maquelin K., Choo-Smith L.-P., van Vreeswijk T., Endtz H.P., Smith B., Bennett R., Bruining H.A., Puppels G.J. Raman spectroscopic method for identification of clinically relevant microorganisms growing on solid culture medium. Anal. Chem. 72:2000;12-19.
28. Maquelin K., Choo-Smith L.P., Endtz H.P., Bruining H.A., Puppels G.J. Rapid identification of Candida species by confocal raman microspectroscopy. J. Clin. Microbiol. 40:2002;594-600.
29. Miller J.M., O'Hara C.M. Manual and automated systems for microbial identification. Murray P.R., Baron E.J., Pfaller M.A., Tenover F.C., Yolken R.H. Manual of Clinical Microbiology. 1999;193-201 ASM Press, Washington, DC.
30. Naumann D. Infrared and NIR Raman spectroscopy in medical microbiology. Mantsch H.H., Jackson M. Infrared Spectroscopy: New Tool in Medicine. 1998;245-257 SPIE, Washington, USA.
31. Naumann D. FT-infrared and FT-Raman spectroscopy in biomedical research. Gremlich H.-U., Yan B. Infrared and Raman Spectroscopy of Biological Materials. Practical Spectroscopy Series. 2000;323-377 Marcel Dekker, New York, USA.
32. Naumann D. Infrared spectroscopy in microbiology. Meyers R.A. Encyclopedia of Analytical Chemistry. 2000;102-131 Wiley, Chichester.
33. Naumann D., Helm D., Labischinski H. Microbiological characterizations by FT-IR spectroscopy. Nature. 351:1991;81-82.
34. Naumann D., Labischinski H., Giesbrecht P. The characterization of microorganisms by Fourier-transform infrared spectroscopy (FT-IR). Nelson W.H. Modern Techniques for Rapid Microbiological Analysis. 1991;43-96 VCH Publishers, New York.
35. Naumann D., Keller S., Helm D., Schultz C., Schrader B. FT-IR spectroscopy and FT-Raman spectroscopy are powerful analytical tools for the non-invasive characterization of intact microbial cells. J. Mol. Struct. 347:1995;399-406.
36. NCCLS, 1997a. Methods fo Dilution Antibiotic Susceptibility Testing for Bacteria that Grow Aerobically. Approved standard M7-A4, National Committee for Clinical Laboratory Standards, Wayne, PA.
37. NCCLS, 1997b. Performance Standards of Antimicrobial Disk Susceptibility Tests. Approved standard M2-A6. National Committee for Clinical Laboratory Standards, Wayne, PA.
38. Nelson W.H., Sperry J.F. UV resonance Raman spectroscopic detection and identification of bacteria and other microorganisms. Nelson W.H. Modern Techniques for Rapid Microbiological Analysis. 1991;97-143 VCH Publishers, New York.
39. Nelson W.H., Manoharan R., Sperry J.F. UV resonance Raman studies of bacteria. Appl. Spectrosc. Rev. 27(1):1992;67-124.
40. Ngo Thi N.A., Kirschner C., Naumann D. FT-IR microscopy: a rapid method for classifying microorganisms. Greve J., Puppels G.J., Otto C. Spectroscopy of Biological Molecules: New Directions. 1999;557-558 Kluwer Academic Publishing, Dordrecht.
41. Norris K.P. Infrared spectroscopy and its application to microbiology. J. Hyg. 57:1959;326-345.
42. Pfaller M.A. Molecular approaches to diagnosing and managing infectious diseases: practicality and costs. Emerg. Infect. Dis. 7:2001;312-318.
43. Puppels G.J. Confocal Raman microspectroscopy. Mason W.T. Fluorescent and Luminescent Probes for Biological Activity. Biological Techniques. 1999;377-406 Academic Press, London.
44. Puppels G.J., de Mul F.F.M., Otto C., Greve J., Robert-Nicoud M., Arndt-Jovin D.J., Jovin T.M. Studying single living cells and chromosomes by confocal Raman microscopy. Nature. 347:1990;301-303.
45. Puppels G.J., Colier W., Olminkhof J.H.F., Otto C., de Mul F.F.M., Greve J. Description and performance of a highly sensitive confocal Raman spectrometer. J. Raman Spectrosc. 22:1991;217-225.
46. Relman D.A. The search for unrecognized pathogens. Science. 284:1999;1308-1310.
47. Schmitt J., Udelhoven T., Naumann D., Flemming H.-C. Stacked spectral data processing and artificial neural networks applied to FT-IR and FT-Raman spectra in biomedical applications. Mantsch H.H., Jackson M. Infrared Spectroscopy: New Tool in Medicine. 1998;236-244 SPIE, Washington, USA.
48. Schrader B., Dippel B., Fendel S., Keller S., Löchte T., Riedl M., Schulte R., Tatsch E. NIR FT Raman spectroscopy - a new tool in medical diagnosis. J. Mol. Struct. 408/409:1997;23-31.
49. Schuster K.C., Urlaub E., Gapes J.R. Single-cell analysis of bacteria by Raman microscopy: spectral information on the chemical composition of cells and on the heterogeneity in a culture. J. Microbiol. Methods. 42:2000;29-38.
50. Sockalingum G.D., Bouhedja W., Pina P., Allouch P., Mandray C., Labia R., Millot J.M., Manfait M. ATR-FTIR spectroscopic investigation of imipenem-susceptible and -resistant Pseudomonas aeruginosa isogenic strains. Biochem. Biophys. Res. Commun. 232:1997;240-246.
51. Stager C.E., Davis J.R. Automated systems for identification of microorganisms. Clin. Microbiol. Rev. 5:1992;302-327.
52. Suci P.A., Geesey G.G., Tyler B.J. Integration of Raman microscopy, differential interference contrast microscopy, and attenuated total reflection Fourier transform infrared spectroscopy to investigate chlorhexidine spatial and temporal distribution in Candida albicans biofilms. J. Microbiol. Methods. 46:2001;193-208.
53. Tindall B., Brambilla E., Steffen M., Neumann R., Pukall R., Kroppenstedt R.M., Stackebrandt E. Cultivable microbial biodiversity: gnawing at the Gordian knot. Environ. Microbiol. 2:2000;310-318.
54. Udelhoven T., Naumann D., Schmitt J. Development of a hierarchical classification system with artificial neural networks and FT-IR spectra for the identification of bacteria. Appl. Spectrosc. 54:2000;1471-1479.
55. Zeroual W., Manfait M., Choisy C. FT-IR spectroscopy study of perturbations induced by antibiotic on bacteria (Escherichia coli). Pathol. Biol. (Paris). 43:1995;300-305.