Specificity and strain-typing capabilities of nanorod array-surface enhanced raman spectroscopy for Mycoplasma pneumoniae detection

PLoS ONE

Volumn 10, Issue 6, 2015, Pages

  Henderson, Kelley C ^a   Benitez, Alvaro J ^b   Ratliff, Amy E ^c   Crabb, Donna M ^c   Sheppard, Edward S ^a   Winchell, Jonas M ^b   Dluhy, Richard A ^a   Waites, Ken B ^c   Atkinson, T Prescott ^d   Krause, Duncan C ^a  

^a UNIVERSITY OF GEORGIA   (United States)

^b CENTERS FOR DISEASE CONTROL AND PREVENTION   (United States)

^c University of Alabama at Birmingham   (United States)

^d University of Alabama at Birmingham   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

SILVER NANOPARTICLE; NANOTUBE;

ACHOLEPLASMA LAIDLAWII; ARTICLE; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIUM DETECTION; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; CONTROLLED STUDY; GENOTYPE; LIMIT OF DETECTION; MEASUREMENT ACCURACY; MYCOPLASMA; MYCOPLASMA AMPHORIFORME; MYCOPLASMA BUCCALE; MYCOPLASMA FAUCIUM; MYCOPLASMA FERMENTANS; MYCOPLASMA GENITALIUM; MYCOPLASMA HOMINIS; MYCOPLASMA LIPOPHILUM; MYCOPLASMA ORALE; MYCOPLASMA PENETRANS; MYCOPLASMA PIRUM; MYCOPLASMA PNEUMONIAE; MYCOPLASMA SALIVARIUM; MYCOPLASMA SPERMATOPHILUM; NONHUMAN; RAMAN SPECTROMETRY; SENSITIVITY AND SPECIFICITY; SILVER NANOROD ARRAY SURFACE ENHANCED RAMAN SPECTROSCOPY; SPECIES DIFFERENTIATION; THROAT CULTURE; UREAPLASMA PARVUM; UREAPLASMA UREALYTICUM; GENETICS; HUMAN; MICROBIOLOGY; MYCOPLASMA PNEUMONIA; PATHOGENICITY; PROCEDURES;

BACTERIA (MICROORGANISMS); MYCOPLASMA; MYCOPLASMA PNEUMONIAE;

HUMANS; LIMIT OF DETECTION; MYCOPLASMA PNEUMONIAE; NANOTUBES; PNEUMONIA, MYCOPLASMA; SENSITIVITY AND SPECIFICITY; SPECTRUM ANALYSIS, RAMAN;

EID: 84938704407     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0131831     Document Type: Article

References (54)

1. Chalker V, Stocki T, Litt D, Bermingham A, Watson J, Fleming D, et al. (2012) Increased detection of Mycoplasma pneumoniae infection in children in England and Wales, October 2011 to January 2012. Euro Surveill 17.
2. Daxboeck F, Krause R, Wenisch C (2003) Laboratory diagnosis of Mycoplasma pneumoniae infection. Clin Microbiol Infect 9: 263-273. PMID: 12667235
3. Kung CM, Wang HL (2007) Seroprevalence of Mycoplasma pneumoniae in healthy adolescents in Taiwan. Jpn J Infect Dis 60: 352-354. PMID: 18032833
4. Loens K, Goossens H, Ieven M (2010) Acute respiratory infection due to Mycoplasma pneumoniae: current status of diagnostic methods. Eur J Clin Microbiol Infect Dis 29: 1055-1069. doi: 10.1007/s10096-010-0975-2 PMID: 20526788
5. Waites KB, Balish MF, Atkinson TP (2008) New insights into the pathogenesis and detection of Mycoplasma pneumoniae infections. Future Microbiol 3: 635-648. doi: 10.2217/17460913.3.6.635 PMID: 19072181
6. Thibodeau KP, Viera AJ (2004) Atypical pathogens and challenges in community-acquired pneumonia. Am Fam Physician 69: 1699-1706. PMID: 15086042
7. Zhao F, Cao B, Li J, Song S, Tao X, Yin Y, et al. (2011) Sequence analysis of the P1 adhesin gene of Mycoplasma pneumoniae in clinical isolates collected in Beijing in 2008 to 2009. J Clin Microbiol 49: 3000-3003. doi: 10.1128/JCM.00105-11 PMID: 21697320
8. Gerstenecker B, Jacobs E (1990) Topological mapping of the P1-adhesin of Mycoplasma pneumoniae with adherence-inhibiting monoclonal antibodies. J Gen Microbiol 136: 471-476. PMID: 1697324
9. Jacobs E, Pilatschek A, Gerstenecker B, Oberle K, Bredt W (1990) Immunodominant epitopes of the adhesin of Mycoplasma pneumoniae. J Clin Microbiol 28: 1194-1197. PMID: 1696281
10. Thurman KA, Walter ND, Schwartz SB, Mitchell SL, Dillon MT, Baughman AL, et al. (2009) Comparison of laboratory diagnostic procedures for detection of Mycoplasma pneumoniae in community outbreaks. Clin Infect Dis 48: 1244-1249. doi: 10.1086/597775 PMID: 19331586
11. Krause DC (1998) Mycoplasma pneumoniae cytadherence: organization and assembly of the attachment organelle. Trends Microbiol 6: 15-18. PMID: 9481818
12. Jacobs E (2012) Mycoplasma pneumoniae: now in the focus of clinicians and epidemiologists. Euro Surveill 17.
13. Hennigan SL, Driskell JD, Dluhy RA, Zhao Y, Tripp RA, Waites KB, et al. (2010) Detection of Mycoplasma pneumoniae in simulated and true clinical throat swab specimens by nanorod array surface-enhanced Raman spectroscopy. PLoS One 5: e13633. doi: 10.1371/journal.pone.0013633 PMID: 21049032
14. Winchell JM, Thurman KA, Mitchell SL, Thacker WL, Fields BS (2008) Evaluation of three real-time PCR assays for detection of Mycoplasma pneumoniae in an outbreak investigation. J Clin Microbiol 46: 3116-3118. doi: 10.1128/JCM.00440-08 PMID: 18614663
15. Dumke R, Luck PC, Noppen C, Schaefer C, von Baum H, Marre R, et al. (2006) Culture-independent molecular subtyping of Mycoplasma pneumoniae in clinical samples. J Clin Microbiol 44: 2567-2570. PMID: 16825381
16. Kanack K, Amiott E, Nolte F, Saliminia H, Rogers B, Poritz M, et al. (2011) Analytical and Clnical Evaluation of the FilmArray Respiratory Panel. Idaho Technology, Inc.
17. Dumke R, Schurwanz N, Jacobs E (2008) Characterisation of subtype- and variant-specific antigen regions of the P1 adhesin of Mycoplasma pneumoniae. Int J Med Microbiol 298: 483-491. PMID: 17765658
18. Schwartz SB, Mitchell SL, Thurman KA, Wolff BJ, Winchell JM (2009) Identification of P1 variants of Mycoplasma pneumoniae by use of high-resolution melt analysis. J Clin Microbiol 47: 4117-4120. doi: 10.1128/JCM.01696-09 PMID: 19828737
19. Schwartz SB, Thurman KA, Mitchell SL, Wolff BJ, Winchell JM (2009) Genotyping of Mycoplasma pneumoniae isolates using real-time PCR and high-resolution melt analysis. Clin Microbiol Infect 15: 756-762. doi: 10.1111/j.1469-0691.2009.02814.x PMID: 19392882
20. Abell JL, Driskell JD, Dluhy RA, Tripp RA, Zhao YP (2009) Fabrication and characterization of a multiwell array SERS chip with biological applications. Biosens Bioelectron 24: 3663-3670. doi: 10.1016/j.bios.2009.05.039 PMID: 19556119
21. Driskell JD, Shanmukh S, Liu Y, Chaney SB, Tang XJ, Zhao YP, et al. (2008) The use of silver nanorod arrays prepared by oblique angle deposition as surface-enhanced Raman scattering substrates. J Phys Chem C 112: 895-901.
22. Liu YJ, Zhang ZY, Zhao Q, Dluhy RA, Zhao YP (2009) Surface Enhanced Raman Scattering from an Ag Nanorod Array Substrate: The Site Dependent Enhancement and Layer Absorbance Effect. J Phys Chem C 113: 9664-9669.
23. Willemse-Erix DF, Scholtes-Timmerman MJ, Jachtenberg JW, van Leeuwen WB, Horst-Kreft D, Bakker Schut TC, et al. (2009) Optical fingerprinting in bacterial epidemiology: Raman spectroscopy as a realtime typing method. J Clin Microbiol 47: 652-659. doi: 10.1128/JCM.01900-08 PMID: 19109462
24. Harz M, Rösch P, Popp J (2009) Vibrational spectroscopy-A powerful tool for the rapid identification of microbial cells at the single-cell level. Cytometry Part A 75A: 104-113.
25. Otto A (2002) What is observed in single molecule SERS, and why? J Raman Spectrosc 33: 593-598.
26. Golightly RS, Doering WE, Natan MJ (2009) Surface-Enhanced Raman Spectroscopy and Homeland Security: A Perfect Match? ACS Nano 3: 2859-2869. doi: 10.1021/nn9013593 PMID: 19856975
27. Shanmukh S, Jones L, Driskell JD, Zhao Y, Dluhy RA, Tripp RA (2006) Rapid and Sensitive Detection of Respiratory Virus Molecular Signatures Using a Silver Nanorod Array SERS Substrate. Nano Letters 6: 2630-2636. PMID: 17090104
28. Chu H, Huang YJ, Zhao Y (2008) Silver Nanorod Arrays as a Surface-Enhanced Raman Scattering Substrate for Foodborne Pathogenic Bacteria Detection. Appl Spectrosc 62: 922-931. doi: 10.1366/000370208785284330 PMID: 18702867
29. Driskell JD, Zhu Y, Kirkwood CD, Zhao Y, Dluhy RA, Tripp RA (2010) Rapid and sensitive detection of rotavirus molecular signatures using surface-enhanced Raman spectroscopy. PLoS One 5: e10222. doi: 10.1371/journal.pone.0010222 PMID: 20419101
30. Granato PA, Poe L, Weiner LB (1983) New York City medium for enhanced recovery of Mycoplasma pneumoniae from clinical specimens. J Clin Microbiol 17: 1077-1080. PMID: 6409922
31. Henderson KC, Sheppard ES, Rivera-Betancourt OE, Choi JY, Dluhy RA, Thurman KA, et al. (2014) The multivariate detection limit for Mycoplasma pneumoniae as determined by Nanorod Array- Surface Enhanced Raman Spectroscopy and comparison with limit of detection by qPCR. Analyst 139: 6426-6434. doi: 10.1039/c4an01141d PMID: 25335653
32. Lipman RP, Clyde WA Jr, Denny FW (1969) Characteristics of virulent, attenuated, and avirulent Mycoplasma pneumoniae strains. J Bacteriol 100: 1037-1043. PMID: 5359607
33. Kim K-S, Ko K-S, Chang M-W, Hahn TW, Hong SK, Kook Y-H (2003) Use of rpoB sequences for phylogentic study of Mycoplasma species. FEMS Microbiol Lett 226: 299-305. PMID: 14553926
34. Smith PK, Krohn RI, Hermanson GT, Mallia AK, Gartner FH, Provenzano MD, et al. (1987) Measurement of protein using bicinchoninic acid. Anal Biochem 150: 76-85.
35. Himmelreich R, Hilbert H, Plagens H, Pirkl E, Li BC, Herrmann R (1996) Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae. Nucleic Acids Res 24: 4420-4449. PMID: 8948633
36. Leverette CL, Jacobs SA, Shanmukh S, Chaney SB, Dluhy RA (2006) Aligned silver nanorod arrays as substrates for surface-enhanced infrared absorption spectroscopy. Appl Spectrosc 60: 906-913. PMID: 16925927
37. Zhao YP, Chaney SB, Shanmukh S, Dluhy RA (2006) Polarized surface enhanced Raman and absobance spectra of aligned silver nanorod arrays. J Phys Chem B 110: 3153-3157. PMID: 16494322
38. Negri P, Marotta NE, Bottomly LA, Dluhy RA (2011) Removal of surface contamination and self-assembled monolayers (SAMs) from silver (Ag) nanorod substrates by plasma cleaning with argon. Appl Spectrosc 65: 66-74. doi: 10.1366/10-06037 PMID: 21211156
39. Smith PF (1971) The Biology of Mycoplasmas. New York, New York: Academic Press, Inc.
40. Zubkov MV, Fuchs BM, Eilers H, Burkill PH, Amann R (1999) Determination of total protein content of bacterial cells by SYPRO staining and flow cytometry. Appl Environ Microbiol 65: 3251-3257. PMID: 10388732
41. Barker M, Rayens W (2003) Partial least squares for discrimination. J Chemom 17: 166-173.
42. Musumarra G, Barresi V, Condorelli DF, Fortuna CG, Scire S (2004) Potentialities of multivariate approaches in genome-based cancer research: identification of candidate genes for new diagnostics by PLS discriminate analysis. J Chemom 18: 125-132.
43. Adams MJ, Barnett NW (2004) Chemometrics in Analytical Spectroscopy.-X001.
44. Simmons WL, Daubenspeck JM, Osborne JD, Balish MF, Waites KB, Dybvig K (2013) Type 1 and type 2 strains of Mycoplasma pneumoniae form different biofilms. Microbiol 159: 737-747.
45. Mrázek J (2006) Analysis of distribution indicates diverse functions of simple sequence repeats in Mycoplasma genomes. Mol Biol Evol 23: 1370-1385. PMID: 16618962
46. Flores SC, Lu LJ, Yang J, Carriero N, Gerstein MB (2007) Hinge Atlas: relating protein sequence to sites of structural flexibility. BMC Bioinformatics 8: 167. PMID: 17519025
47. Culha M, Adigüzel A, Yazici MM, Kahraman M, Sahin F, Güllüce M (2008) Characterization of thermophilic bacteria using Surface-Enhanced Raman scattering. Appl Spectrosc 62: 1226-1232. doi: 10. 1366/000370208786401545 PMID: 19007464
48. Podstawka E, Ozaki Y, Proniewicz LM (2004) Adsorption of S-S containing proteins on a colloidal silver surface studied by Surface-enhanced Raman spectroscopy. Appl Spectrosc 58: 1147-1156. PMID: 15527514
49. Stewart S, Fredericks PM (1998) Surface-enhanced Raman spectroscopy of amino acids adsorbed on an electrochemically prepared silver surface. Spectrochim Acta A 55: 1641-1660.
50. Mrozek MF, Weaver MJ (2002) Detection and identification of aqueous saccharides by using surfaceenhanced Raman spectroscopy. Anal Chem 74: 4069-4075. PMID: 12199576
51. Beebe KR, Pell RJ, Seasholtz MB (1998) Chemometrics: a Practical Guide. New York: John Wiley & Sons.
52. Cullum BM, Mobley J, Chi Z, Stokes DL, Miller GH, Vo-Dinh T (2000) Development of a compact, handheld Raman instrument with no moving parts for use in field analysis. Rev Sci Instrum 71: 1602-1608.
53. Moore DS, Scharff RJ (2009) Portable Raman explosives detection. Anal Bioanal Chem 393: 1571-1578. doi: 10.1007/s00216-008-2499-5 PMID: 19023565
54. Jehlička J, Culka A, Vandenabeele P, Edwards HGM (2011) Critical evaluation of a handheld Raman spectrometer with near infrared (785 nm) excitation for field identification of minerals. Spectrochim Acta A 80: 36-40.