Rapid identification of yeast by fluorescence in situ hybridisation from broth and blood cultures

Mycoses

Volumn 55, Issue 6, 2012, Pages 521-531

  Frickmann, Hagen ^a,b   Lakner, Anna ^c   Essig, Andreas ^c   Poppert, Sven ^d  

^a Bundeswehrkrankenhaus Hamburg   (Germany)

^b UNIVERSITY OF ROSTOCK   (Germany)

^c UNIVERSITY OF ULM   (Germany)

^d BERNHARD NOCHT INSTITUTE FOR TROPICAL MEDICINE   (Germany)

Author keywords

Blood culture; Candida; Cryptococcus; Fluorescence in situ hybridisation; Probe; Yeast

Indexed keywords

FUNGAL DNA;

ARTICLE; BLOOD CULTURE; BROTH DILUTION; CANDIDA; CANDIDA AFRICANA; CANDIDA ALBICANS; CANDIDA CURVATA; CANDIDA DUBLINIENSIS; CANDIDA GLABRATA; CANDIDA INCIPIDUS; CANDIDA INCONSPICUA; CANDIDA KEFIR; CANDIDA KRUSEI; CANDIDA MAGNOLIAE; CANDIDA NORVEGENSIS; CANDIDA PARAPSILOSIS; CANDIDA SPHERICA; CANDIDA TROPICALIS; CLAVISPORA LUSITANIAE; CONTROLLED STUDY; CRYPTOCOCCUS NEOFORMANS; DNA PROBE; FLUORESCENCE IN SITU HYBRIDIZATION; FUNGAL STRAIN; FUNGUS IDENTIFICATION; FUNGUS ISOLATION; NONHUMAN; PICHIA ANOMALA; PICHIA JADINII; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; SENSITIVITY AND SPECIFICITY; TRICHOSPORON;

BLOOD; CANDIDA; CANDIDIASIS; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; MYCOLOGICAL TYPING TECHNIQUES; YEASTS;

CANDIDA; CANDIDA ALBICANS; CANDIDA GLABRATA; CANDIDA PARAPSILOSIS; CANDIDA TROPICALIS;

EID: 84867552803     PISSN: 09337407     EISSN: 14390507     Source Type: Journal    
DOI: 10.1111/j.1439-0507.2012.02214.x     Document Type: Article

References (60)

1. Pfaller MA, Diekema DJ. Epidemiology of invasive candidiasis: a persistent public health problem. Clin Microbiol Rev 2007; 20: 133-63.
2. Lewis RE. Overview of the changing epidemiology of candidemia. Curr Med Res Opin 2009; 25: 1732-40.
3. De Grot PW, Kraneveld EA, Yin QY et al. The cell wall of the human pathogen Candida glabrata: differential incorporation of novel adhesin-like wall proteins. Eukaryot Cell 2008; 7: 1951-64.
4. Diekema DJ, Messer SA, Hollis RJ, Wenzel RP, Pfaller MA. An outbreak of Candida parapsilosis prosthetic valve endocarditis. Diagn Microbiol Infect Dis 1997; 29: 147-53.
5. Chowdhary A, Becker K, Fegeler W et al. An outbreak of candidemia due to Candida tropicalis in a neonatal intensive care unit. Mycosis 2003; 46: 287-92.
6. Malani A, Hmoud J, Chiu L, Carver PL, Bielaczyc A, Kauffman CA. Candida glabrata fungemia: experience in a tertiary care center. Clin Infect Dis 2005; 41: 975-81.
7. Dimopoulos G, Ntziora F, Rachiotis G, Armaganidis A, Falagas ME. Candida albicans versus non-albicans intensive care unit-acquired bloodstream infections: differences in risk factors and outcome. Anesth Analg 2008; 106: 523-9.
8. Odds FC, Hanson MF, Davidson AD et al. One year prospective survey of Candida bloodstream infections in Scotland. J Med Microbiol 2007; 56: 1066-75.
9. Garcia-Effron G, Katiyar SK, Park S, Edlind TD, Perlin DS. A naturally occurring proline-to-alanine amino acid change in Fks1p in Candida parapsilosis, Candida orthopsilosis, and Candida metapsilosis accounts for reduced echinocandin susceptibility. Antimicrob Agents Chemother 2008; 52: 2305-12.
10. Young LY, Hull CM, Heitman J. Disruption of ergosterol biosynthesis confers resistance to amphotericin B in Candida lusitaniae. Antimicrob Agents Chemother 2003; 47: 2717-24.
11. Venkateswarlu K, Denning DW, Manning NJ, Kelly SL. Reduced accumulation of drug in Candida krusei accounts for itraconazole resistance. Antimicrob Agents Chemother 1996; 40: 2443-6.
12. Katiyar SK, Edlind TD. Identification and expression of multidrug resistance-related ABC transporter genes in Candida krusei. Med Mycol 2001; 39: 109-16.
13. Pfaller MA, Diekema DJ, Messer SA et al. In vitro activities of voriconazole, posaconazole, and four licensed systemic antifungal agents against Candida species infrequently isolated from blood. J Clin Microbiol 2003; 41: 78-83.
14. Ruan SY, Lee LN, Jerng JS, Yu CJ, Hsueh PR. Candida glabrata fungaemia in intensive care units. Clin Microbiol Infect 2008; 14: 136-40.
15. Tumbarello M, Sanguinetti M, Trecarichi EM et al. Fungaemia caused by Candida glabrata with reduced susceptibility to fluconazole due to altered gene expression: risk factors, antifungal treatment and outcome. J Antimicrob Chemother 2008; 62: 1379-85.
16. Kludze-Forson M, Eschenauer GA, Kubin CJ, Della-Latta P, Lam SW. The impact of delaying the initiation of appropriate antifungal treatment for Candida bloodstream infection. Med Mycol 2010; 48: 436-9.
17. Grim SA, Berger K, Teng C et al. Timing of susceptibility-based antifungal drug administration in patients with Candida bloodstream infection: correlation with outcomes. J Antimicrob Chemother 2012; 67: 707-14.
18. Pagano L, Lumb L. Update on invasive fungal disease. Future Microbiol 2011; 6: 985-9.
19. Kullberg BJ, Verweij PE, Akova M et al. European expert opinion on the management of invasive candidiasis in adults. Clin Microbiol Infect 2011; 17(Suppl. 5): 1-12.
20. Forrest GN, Mankes K, Jabra-Rizk MA et al. Peptide nucleic acid fluorescence in situ hybridization-based identification of Candida albicans and its impact on mortality and antifungal therapy costs. J Clin Microbiol 2006; 44: 3381-3.
21. Buschelman B, Jones RN, Pfaller MA, Koontz FP, Doern GV. Colony morphology of Candida spp. as a guide to species identification. Diagn Microbiol Infect Dis 1999; 35: 89-91.
22. Eraso E, Moragues MD, Villar-Vidal M et al. Evaluation of the new chromogenic medium Candida ID 2 for isolation and identification of Candida albicans and other medically important Candida species. J Clin Microbiol 2006; 44: 3340-5.
23. Terlecka JA, du Cros PA, Morrissey CA, Spelman D. Rapid differentiation of Candida albicans from non-albicans species by germ tube test directly from BacTAlert blood culture bottles. Mycoses 2007; 50: 48-51.
24. Ozcan K, Ilkit M, Ates A, Turac-Bicer A, Demirhindi H. Performance of chromogenic Candida agar and CHROMagar Candida in recovery and presumptive identification of monofungal and polyfungal vaginal isolates. Med Mycol 2009; 4: 1-6.
25. Elie CM, Lott TJ, Reiss E, Morrison CJ. Rapid identification of Candida species with species-specific DNA probes. J Clin Microbiol 1998; 36: 3260-5.
26. Bautista-Munoz C, Boldo XM, Villa-Tanaca L, Hernández-Rodríguez C. Identification of Candida spp. by randomly amplified polymorphic DNA analysis and differentiation between Candida albicans and Candida dubliniensis by direct PCR methods. J Clin Microbiol 2003; 41: 414-20.
27. Leinberger DM, Schumacher U, Autenrieth IB, Bachmann TT. Development of a DNA microarray for detection and identification of fungal pathogens involved in invasive mycoses. J Clin Microbiol 2005; 43: 4943-53.
28. Page BT, Kurtzman CP. Rapid identification of Candida species and other clinically important yeast species by flow cytometry. J Clin Microbiol 2005; 43: 4507-14.
29. Das S, Brown TM, Kellar KL, Holloway BP, Morrison CJ. DNA probes for the rapid identification of medically important Candida species using a multianalyte profiling system. FEMS Immunol Med Microbiol 2006; 46: 244-50.
30. Klingspor L, Jalal S. Molecular detection and identification of Candida and Aspergillus spp. from clinical samples using real-time PCR. Clin Microbiol Infect 2006; 12: 745-53.
31. Pryce TM, Palladino S, Price DM et al. Rapid identification of fungal pathogens in BacT/ALERT, BACTEC, and BBL MGIT media using polymerase chain reaction and DNA sequencing of the internal transcribed spacer regions. Diagn Microbiol Infect Dis 2006; 54: 289-97.
32. Linton CJ, Borman AM, Cheung G et al. Molecular identification of unusual pathogenic yeast isolates by large ribosomal subunit gene sequencing: 2years of experience at the United Kingdom Mycology Reference Laboratory. J Clin Microbiol 2007; 45: 1152-8.
33. Xiang H, Xiong L, Liu X, Tu Z. Rapid simultaneous detection and identification of six species Candida using polymerase chain reaction and reverse line hybridization assay. J Microbiol Methods 2007; 69: 282-7.
34. Inácio J, Flores O, Spencer-Martins I. Efficient identification of clinically relevant Candida yeast species by use of an assay combining panfungal loop-mediated isothermal DNA amplification with hybridization to species-specific oligonucleotide probes. J Clin Microbiol 2008; 46: 713-20.
35. Lau A, Sorrell TC, Chen S, Stanley K, Iredell J, Halliday C. Multiplex Tandem PCR: a novel platform for rapid detection and identification of fungal pathogens from blood culture specimens. J Clin Microbiol 2008; 46: 3021-7.
36. Kempf VA, Trebesius K, Autenrieth IB. Fluorescent in situ hybridization allows rapid identification of microorganisms in blood cultures. J Clin Microbiol 2000; 38: 830-8.
37. Martins ML, Ferreira AS, Sampaio A, Vieira R, Inácio J. Direct and specific identification of Cryptococcus neoformans in biological samples using fluorescently labelled DNA probes. Eur J Clin Microbiol Infect Dis 2010; 29: 571-6.
38. Rigby S, Procop GW, Haase G et al. Fluorescence in situ hybridization with peptide nucleic acid probes for rapid identification of Candida albicans directly from blood culture bottles. J Clin Microbiol 2002; 40: 2182-6.
39. Bishop JA, Chase N, Magill SS, Kurtzman CP, Fiandaca MJ, Merz WG. Candida bracarensis detected among isolates of Candida glabrata by peptide nucleic acid fluorescence in situ hybridization: susceptibility data and documentation of presumed infection. J Clin Microbiol 2008; 46: 443-6.
40. Shepard JR, Addison RM, Alexander BD et al. Multicenter evaluation of the Candida albicans/Candida glabrata peptide nucleic acid fluorescent in situ hybridization method for simultaneous dual-color identification of C. albicans and C. glabrata directly from blood culture bottles. J Clin Microbiol 2008; 46: 50-5.
41. Rickerts V, Khot PD, Myerson D, Ko DL, Lambrecht E, Fredricks DN. Comparison of quantitative real time PCR with sequencing and ribosomal RNA-FISH for the identification of fungi in formalin-fixed, paraffin-embedded tissue samples. BMC Inf Dis 2011; 11: 202.
42. Moter A, Gobel UB. Fluorescence in situ hybridization (FISH) for direct visualization of microorganisms. J Microbiol Methods 2000; 41: 85-112.
43. Oliveira K, Brecher SM, Durbin A et al. Direct identification of Staphylococcus aureus from positive blood culture bottles. J Clin Microbiol 2003; 41: 889-91.
44. Lakner A, Essig A, Frickmann H, Poppert S. Evaluation of fluorescence in situ hybridisation (FISH) for the identification of Candida albicans in comparison with three phenotypic methods. Mycosis 2012; 55: e114-23.
45. Ludwig W, Strunk O, Westram R et al. ARB: a software environment for sequence data. Nucleic Acids Res 2004; 32: 1363-71.
46. Loy A, Arnold R, Tischler P, Rattei T, Wagner M, Horn M. probeCheck - a central resource for evaluating oligonucleotide probe coverage and specificity. Environ Microbiol 2008; 10: 2894-8.
47. Amann RI, Binder BJ, Olson RJ, Chisholm SW, Devereux R, Stahl DA. Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analysing mixed microbial populations. Appl Environ Microbiol 1990; 56: 1919-25.
48. Poppert S, Essig A, Stoehr B et al. Rapid diagnosis of bacterial meningitis by real-time PCR and fluorescence in situ hybridization. J Clin Microbiol 2005; 43: 3390-7.
49. Poppert S, Riecker M, Wellinghausen N, Frickmann H, Essig A. Accelerated identification of Staphylococcus aureus from blood cultures by a modified fluorescence in situ hybridization procedure. J Med Microbiol 2010; 59: 65-8.
50. Marklein G, Josten M, Klanke U et al. Matrix-assisted laser desorption ionization time of flight mass spectrometry for fast and reliable identification of clinical yeast isolates. J Clin Microbiol 2009; 47: 2912-7.
51. Bader O, Weig M, Taverne-Ghadwal L, Lugert R, Gross U, Kuhns M. Improved clinical laboratory identification of human pathogenic yeasts by matrix-assisted laser desorption ionization time-of-flight mass spectrometry. Clin Microbiol Infect 2011; 17: 1359-65.
52. Christner M, Rohde H, Wolters M, Sobottka I, Wegscheider K, Aepfelbacher M. Rapid identification of bacteria from positive blood culture bottles by use of matrix-assisted laser desorption-ionization time of flight mass spectrometry fingerprinting. J Clin Microbiol 2010; 48: 1584-91.
53. Ferroni A, Suarez S, Beretti JL et al. Real-time identification of bacteria and Candida species in positive blood culture broths by matrix-assisted laser desorption ionization-time of flight mass spectrometry. J Clin Microbiol 2010; 48: 1542-8.
54. Schubert S, Weinert K, Wagner C et al. Novel, improved sample preparation for rapid, direct identification from positive blood cultures using matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry. J Mol Diagn 2011; 13: 701-6.
55. Schmidt V, Jarosch A, März P, Sander C, Vacata V, Kalka-Moll W. Rapid identification of bacteria in positive blood culture by matrix-assisted laser desorption ionization time-of-flight mass spectrometry. Eur J Clin Microbiol Infect Dis 2012; 31: 311-7.
56. Kaleta EJ, Clark AE, Cherkaoui A et al. Comparative analysis of PCR-electrospray ionization/mass spectrometry (MS) and MALDI-TOF/MS for the identification of bacteria and yeasts from positive blood culture bottles. Clin Chem 2011; 57: 1057-67.
57. Spanu T, Posteraro B, Fiori B et al. Direct MALDI-TOF mass spectrometry assay of blood culture broths for rapid identification of Candida species causing bloodstream infections: an observational study in two large microbiology laboratories. J Clin Microbiol 2012; 50: 176-9.
58. Vanhee LM, Meersseman W, Lagrou K, Maertens J, Nelis HJ, Coenye T. Rapid and direct quantification of viable Candida species in whole blood by use of immunomagnetic separation and solid-phase cytometry. J Clin Microbiol 2010; 48: 1126-31.
59. Alexander BD, Ashley ED, Reller LB, Reed SD. Cost savings with implementation of PNA FISH testing for identification of Candida albicans in blood cultures. Diagn Microbiol Infect Dis 2006; 54: 277-82.
60. Morschhäuser J. Regulation of multidrug resistance in pathogenic fungi. Fungal Genet Biol 2010; 47: 94-106.