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Diagnostic Microbiology Using Real-Time PCR Based on FRET Technology

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Advanced Techniques in Diagnostic Microbiology

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Abstract

Molecular amplification of specific nucleic acid–based targets associated with microbial organisms has advanced our existing tools in infectious diseases diagnosis (Fredricks, 1999; Louie, 2000; Peruski, 2003; Yang, 2004). Laboratory diagnosis of infectious diseases in the past has relied on cultivation of the microorganisms in vitro. Hence the viability of the organisms and the laboratory conditions used to mimic the in vivo environment ultimately dictates the successfulness of in vitro amplification of the intact organism(s) outside of the infected host. Nucleic acid–based technologies allow detection by amplification of specific microbial genetic material irrespective of viability or integrity of the organism (Nissen, 2002; Gulliken, 2004; Mackay, 2004).

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References

  • Aberle, S. W., Aberle, J.H., Steininger, C., & Puchhammer-Stockl, E. (2005). Quantitative real time PCR detection of Varicella-zoster virus DNA in cerebrospinal fluid in patients with neurological disease. Med Microbiol Immunol (Berl), 194(1–2), 7–12.

    Article  CAS  Google Scholar 

  • Abravaya, K., Huff, J., Marshall, R., Merchant, B., Mullen, C., Schneider, G., & Robinson, J. (2003). Molecular beacons as diagnostic tools: technology and applications. Clin Chem Lab Med, 41(4), 468–74.

    Article  PubMed  CAS  Google Scholar 

  • Archimbaud, C., Mirand, A., Chambon, M., Regagnon, C., Bailly, J.L., Peigue-Lafeuille H., & Henquell, C. (2004). Improved diagnosis on a daily basis of enterovirus meningitis using a one-step real-time RT-PCR assay. J Med Virol, 74(4), 604–11.

    Article  PubMed  CAS  Google Scholar 

  • Beck, R.C., Kohn, D.J., Tuohy, M.J., Prayson, R.A., Yen-Lieberman, B., & Procop, G. W. (2004). Detection of polyoma virus in brain tissue of patients with progressive multifocal leukoencephalopathy by real-time PCR and pyrosequencing. Diagn Mol Pathol, 13(1), 15–21.

    Article  PubMed  CAS  Google Scholar 

  • Bell, A., & Ranford-Cartwright, L. (2002). Real-time quantitative PCR in parasitology. Trends Parasitol, 18(8), 338.

    Article  PubMed  Google Scholar 

  • Bernard, P.S., Ajioka, R.S., Kushner, J.P., & Wittwer, C.T. (1998). Homogeneous multiplex genotyping of hemochromatosis mutations with fluorescent hybridization probes. Am J Pathol, 153(4), 1055–61.

    PubMed  CAS  Google Scholar 

  • Boivin, G., Cote, S., Dery, P., De, Serres, G., & Bergeron, M.G. (2004). Multiplex real-time PCR assay for detection of influenza and human respiratory syncytial viruses. J Clin Microbiol, 42(1), 45–51.

    Article  PubMed  CAS  Google Scholar 

  • Bryant, P.A., Li, H.Y., Zaia, A., Griffith, J., Hogg, G., Curtis, N., & Carapetis, J.R. (2004). Prospective study of a real-time PCR that is highly sensitive, specific, and clinically useful for diagnosis of meningococcal disease in children. J Clin Microbiol, 42(7), 2919–25.

    Article  PubMed  CAS  Google Scholar 

  • Bustamante, L.Y., Crooke, A., Martinez, J., Diez, A., & Bautista, J.M. (2004). Dual-function stem molecular beacons to assessm RNA expression in AT-rich transcripts of Plasmodium falciparum. Biotechniques, 36(3), 488–92, 494.

    CAS  Google Scholar 

  • Candotti, D., Temple, J., Owusu-Ofori, S., & Allain, J.P. (2004). Multiplex real-time quantitative RT- PCR assay for hepatitis B virus, hepatitis C virus, and human immunodeficiency virus type 1. J Virol Methods, 118(1), 39–47.

    Article  PubMed  CAS  Google Scholar 

  • Castelain, S., Descamps, V., Thibault, V., Francois, C., Bonte, D., Morel, V., Izopet, J., Capron, D., Zawadzki, P., & Duverlie, G. (2004). TaqMan amplification system with an internal positive control for HCV RNA quantitation. J Clin Virol, 31(3), 227–34.

    Article  PubMed  CAS  Google Scholar 

  • Cattoli, G., Drago, A., Maniero, S., Toffan, A., Bertoli, E., Fassina, S., Terregino, C., Robbi, C., Vicenzoni, G., & Capua, I. (2004). Comparison of three rapid detection systems for type A influenza virus on tracheal swabs of experimentally and naturally infected birds. Avian Pathol, 33(4), 432–7.

    Article  PubMed  CAS  Google Scholar 

  • Chen, X., Zehnbauer, B., Gnirke, A., & Kwok, P.Y. (1997). Fluorescence energy transfer detection as a homogeneous DNA diagnostic method. Proc Natl Acad Sci U S A, 94(20), 10756–61.

    Article  PubMed  CAS  Google Scholar 

  • Cook, L., Ng, K. W., Bagabag, A., Corey, L., & Jerome, K.R. (2004). Use of the MagNA pure LC automated nucleic acid extraction system followed by real-time reverse transcription-PCR for ultrasensitive quantitation of hepatitis C virus RNA. J Clin Microbiol, 42(9), 4130–6.

    Article  PubMed  CAS  Google Scholar 

  • Corless, C.E., Guiver, M., Borrow, R., Edwards-Jones, V., Fox, A.J., & Kaczmarski, E.B. (2001). Simultaneous detection of Neisseria meningitidis, Haemophilus influenzae, and Streptococcus pneumoniae in suspected cases of meningitis and septicemia using realtime PCR. J Clin Microbiol, 39(4), 1553–8.

    Article  PubMed  CAS  Google Scholar 

  • Costa-Mattioli, M., Monpoeho, S., Nicand, E., Aleman, M.H., Billaudel, S., & Ferre, V. (2002). Quantification and duration of viraemia during hepatitis A infection as determined by real-time RT-PCR. J Viral Hepat, 9(2), 101–6.

    Article  PubMed  CAS  Google Scholar 

  • Daum, L.T., Ye, K., Chambers, J.P., Santiago, J., Hickman, J.R., Barnes, W.J., Kruzelock, R.P., & Atchley, D.H. (2004). Comparison of TaqMan and Epoch Dark Quencher during real-time reverse transcription PCR. Mol Cell Probes, 18(3), 207–9.

    Article  PubMed  CAS  Google Scholar 

  • Elnifro, E.M., Ashshi, A.M., Cooper, R.J., & Klapper, P.E. (2000). Multiplex PCR: optimization and application in diagnostic virology. Clin Microbiol Rev, 13(4), 559–70.

    Article  PubMed  CAS  Google Scholar 

  • Eriksson, L.E., Leitner, T., Wahren, B., Bostrom, A.C., & Falk, K.I. (2003). A multiplex real-time PCR for quantification of HIV-1 DNA and the human albumin gene in CD4+ cells. APMIS, 111(6), 625–33.

    Article  PubMed  CAS  Google Scholar 

  • Exner, M.M., & Lewinski, M.A. (2003). Isolation and detection of Borrelia burgdorferi DNA from cerebral spinal fluid, synovial fluid, blood, urine, and ticks using the Roche MagNA Pure system and real-time PCR. Diagn Microbiol Infect Dis, 46(4), 235–40.

    Article  PubMed  CAS  Google Scholar 

  • Fenollar, F., & Raoult, D. (2004). Molecular genetic methods for the diagnosis of fastidious microorganisms. APMIS, 112(11–12), 785–807.

    Article  PubMed  CAS  Google Scholar 

  • Fournier, S., Dubrou, S., Liguory, O., Gaussin, F., Santillana-Hayat, M., Sarfati, C., Molina, J.M., & Derouin, F. (2002). Detection of microsporidia, cryptosporidia and giardia in swimming pools: a one-year prospective study. FEMS Immunol Med Microbiol, 33(3), 209–13.

    Article  PubMed  CAS  Google Scholar 

  • Franzen, C., & Muller, A. (1999). Molecular techniques for detection, species differentiation, and phylogenetic analysis of microsporidia. Clin Microbiol Rev, 12(2), 243–85.

    PubMed  CAS  Google Scholar 

  • Fredricks, D.N., & Relman, D.A. (1999). Application of polymerase chain reaction to the diagnosis of infectious diseases. Clin Infect Dis, 29(3), 475–86; quiz 487–8.

    Article  PubMed  CAS  Google Scholar 

  • Frisbie, B.,Tang,Y. W., Griffin, M., Poehling, K., Wright, P.F., Holland, K., & Edwards, K.M. (2004). Surveillance of childhood influenza virus infection: what is the best diagnostic method to use for archival samples? J Clin Microbiol, 42(3), 1181–4.

    Article  PubMed  Google Scholar 

  • Gerard, A., Sarrot-Reynauld, F., Liozon, E., Cathebras, P., Besson, G., Robin, C., Vighetto, A., Mosnier, J.F., Durieu, I., Vital Durand, D., & Rousset, H. (2002). Neurologic presentation of Whipple disease: report of 12 cases and review of the literature. Medicine, 81(6), 443–57.

    Article  PubMed  Google Scholar 

  • Grace, M.B., McLeland, C.B., Gagliardi, S.J., Smith, J.M., Jackson, W.E. 3rd., & Blakely, W.F. (2003). Development and assessment of a quantitative reverse transcription-PCR assay for simultaneous measurement of four amplicons. Clin Chem, 49(9), 1467–75.

    Article  PubMed  CAS  Google Scholar 

  • Guarner, J., Greer, P. W., Whitney, A., Shieh, W.J., Fischer, M., White, E.H., Carlone, G.M., Stephens, D.S., Popovic, T., & Zaki, S.R. (2004). Pathogenesis and diagnosis of human meningococcal disease using immunohistochemical and PCR assays. Am J Clin Pathol, 122(5), 754–64.

    Article  PubMed  Google Scholar 

  • Gulliksen, A., Solli, L., Karlsen, F., Rogne, H., Hovig, E., Nordstrom, T., & Sirevag, R. (2004). Real-time nucleic acid sequence-based amplification in nanoliter volumes. Anal Chem, 76(1), 9–14.

    Article  PubMed  CAS  Google Scholar 

  • Hammerschlag, M.R. (2001). Mycoplasma pneumoniae infections. Curr Opin Infect Dis, 14(2), 181–6.

    Article  PubMed  CAS  Google Scholar 

  • Harris, J.R., & Petry, F. (1999). Cryptosporidium parvum: structural components of the oocyst wall. J Parasitol, 85(5), 839–49.

    Article  PubMed  CAS  Google Scholar 

  • Higuchi, R., Dollinger, G., Walsh, P.S., & Griffith, R. (1992). Simultaneous amplification and detection of specific DNA sequences. Biotechnology, 10(4), 413–7.

    Article  PubMed  CAS  Google Scholar 

  • Higuchi, R., Fockler, C., Dollinger, G., & Watson, R. (1993). Kinetic PCR analysis: realtime monitoring of DNA amplification reactions. Biotechnology, 11(9), 1026–30.

    Article  PubMed  CAS  Google Scholar 

  • Hiyoshi, M., & Hosoi, S. (1994). Assay ofDNAdenaturation by polymerase chain reactiondriven fluorescent label incorporation and fluorescence resonance energy transfer. Anal Biochem, 221(2), 306–11.

    Article  PubMed  CAS  Google Scholar 

  • Hokynar, K., Norja, P., Laitinen, H., Palomaki, P., Garbarg-Chenon, A., Ranki, A., Hedman, K., & Soderlund-Venermo, M. (2004). Detection and differentiation of human parvovirus variants by commercial quantitative real-time PCR tests. J Clin Microbiol, 42(5), 2013–9.

    Article  PubMed  CAS  Google Scholar 

  • Holland, P.M., Abramson, R.D., Watson, R., & Gelfand, D.H. (1991). Detection of specific polymerase chain reaction product by utilizing the 5′–3′ exonuclease activity of Thermus aquaticus DNA polymerase. Proc Natl Acad Sci U S A, 88(16), 7276–80.

    Article  PubMed  CAS  Google Scholar 

  • Huletsky, A., Giroux, R., Rossbach, V., Gagnon, M., Vaillancourt, M., Bernier, M., Gagnon, F., Truchon, K., Bastien, M., Picard, F.J., van Belkum, A., Ouellette, M., Roy, P.H., & Bergeron, M.G. (2004). New real-time PCR assay for rapid detection of methicillinresistant Staphylococcus aureus directly from specimens containing a mixture of staphylococci. J Clin Microbiol, 42(5), 1875–84.

    Article  PubMed  CAS  Google Scholar 

  • Jebbink, J., Bai, X., Rogers, B.B., Dawson, D.B., Scheuermann, R.H., & Domiati-Saad, R. (2003). Development of real-time PCR assays for the quantitative detection of Epstein-Barr virus and cytomegalovirus, comparison of TaqMan probes, and molecular beacons. J Mol Diagn, 5(1), 15–20.

    PubMed  CAS  Google Scholar 

  • Kahn, J.S. (2003). Human metapneumovirus: a newly emerging respiratory pathogen. Curr Opin Infect Dis, 16(3), 255–8.

    PubMed  Google Scholar 

  • Khanna, M., Fan, J., Pehler-Harrington, K., Waters, C., Douglass, P., Stallock, J.,Kehl, S., & Henrickson, K.J. (2005). The Pneumoplex Assays, a multiplex PCR-enzyme hybridization assay that allows simultaneous detection of five organisms, Mycoplasma pneumoniae, Chlamydia(Chlamydophila) pneumoniae, Legionella pneumophila, Legionella micdadei, and Bordetella pertussis, and its real-time counterpart. J Clin Microbiol, 43(2), 565–71.

    Article  PubMed  CAS  Google Scholar 

  • Koenig, M.G., Kosha, S.L., Doty, B.L., & Heath, D.G. (2004). Direct comparison of the BD ProbeTec ET system with in-house LightCycler PCR assays for detection of Chlamydia trachomatis and Neisseria gonorrhoeae from clinical specimens. J Clin Microbiol 42(12), 5751–6.

    Article  PubMed  CAS  Google Scholar 

  • Koidl, C., Michael, B., Berg, J., Stocher, M., Muhlbauer, G., Grisold, A.J., Marth, E., & essler, H.H. (2004). Detection of transfusion transmitted virus DNA by real-time PCR. Clin Virol, 29(4), 277–81.

    Article  CAS  Google Scholar 

  • Kostrikis, L.G., Touloumi, G., Karanicolas, R., Pantazis, N., Anastassopoulou, C., Karafoulidou, A., Goedert, J.J., & Hatzakis, A. (2002). Multicenter Hemophilia Cohort Study Group. Quantitation of human immunodeficiency virus type 1 DNA forms with the second template switch in peripheral blood cells predicts disease progression independently of plasma RNA load. J Virol, 76(20), 10099–108.

    Article  PubMed  CAS  Google Scholar 

  • Kostrzynska, M., Sankey, M., Haack, E., Power, C., Aldom, J.E., Chagla, A.H., Unger, S., Palmateer, G., Lee, H., Trevors, J.T., & De Grandis, S.A. (1999). Three sample preparation protocols for polymerase chain reaction based detection of Cryptosporidium parvum in environmental samples. J Microbiol Methods, 35(1), 65–71.

    Article  PubMed  CAS  Google Scholar 

  • Kovacova, E., & Kazar, J. (2002). Q fever-still a query and underestimated infectious disease. Acta Virol, 46(4), 193–210.

    PubMed  CAS  Google Scholar 

  • Lanciotti, R.S., & Kerst, A.J. (2001). Nucleic acid sequence-based amplification assays for rapid detection ofWest Nile and St. Louis encephalitis viruses. J Clin Microbiol, 39(12), 4506–13.

    Article  PubMed  CAS  Google Scholar 

  • Lanigan, M.D., Vaughan, J.A., Shiell, B.J., Beddome, G.J., & Michalski, W.P. (2004). Mycobacterial proteome extraction: comparison of disruption methods. Proteomics, 4(4), 1094–100.

    Article  PubMed  CAS  Google Scholar 

  • Lee, L.G., Connell, C.R., & Bloch, W. (1993). Allelic discrimination by nick-translation PCR with fluorogenic probes. Nucleic Acids Res, 21(16), 3761–6.

    Article  PubMed  CAS  Google Scholar 

  • Lee, L.G., Livak, K.J., Mullah, B., Graham, R.J., Vinayak, R.S., & Woudenberg, T.M. (1999). Seven-color, homogeneous detection of six PCR products. Biotechniques, 27(2), 342–9.

    PubMed  CAS  Google Scholar 

  • Lee, T.H., Chafets, D.M., Busch, M.P., & Murphy, E.L. (2004). Quantitation of HTLV-I and II proviral load using real-time quantitative PCR with SYBR Green chemistry. J Clin Virol, 31(4), 275–82.

    Article  PubMed  CAS  Google Scholar 

  • Legoff, J., Amiel, C., Calisonni, O., Fromentin, D., Rajoely, B., Abuaf, N., Tartour, E., Rozenbaum, W., Belec, L., & Nicolas, J.C. (2004). Early impairment of CD8+ T cells immune response against Epstein-Barr virus (EBV) antigens associated with high level of circulating mononuclear EBV DNA load in HIV infection. J Clin Immunol, 24(2), 125–34.

    Article  PubMed  CAS  Google Scholar 

  • Liefeldt, L., Plentz, A., Klempa, B., Kershaw, O., Endres, A.S., Raab, U., Neumayer, H.H., Meisel, H., & Modrow, S. (2005). Recurrent high level parvovirus B19/genotype 2 viremia in a renal transplant recipient analyzed by real-time PCR for simultaneous detection of genotypes 1 to 3. J Med Virol, 75(1), 161–9.

    Article  PubMed  CAS  Google Scholar 

  • Livak, K.J., Flood, S.J., Marmaro, J., Giusti, W., & Deetz, K. (1995). Oligonucleotides with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization. PCR Methods Appl, 4(6), 357–62.

    PubMed  CAS  Google Scholar 

  • Louie, M., Louie, L., & Simor, A.E. (2000). The role of DNA amplification technology in the diagnosis of infectious diseases. CMAJ, 163(3), 301–9.

    PubMed  CAS  Google Scholar 

  • Mackay, I.M. (2004). Real-time PCR in the microbiology laboratory. Clin Microbiol Infect, 10(3), 190–212.

    Article  PubMed  CAS  Google Scholar 

  • Makinen, J., Viljanen, M.K., Mertsola, J., Arvilommi, H., & He, Q. (2001). Rapid identifi-cation of Bordetella pertussis pertactin gene variants using LightCycler real-time polymerase chain reaction combined with melting curve analysis and gel electrophoresis. Emerg Infect Dis, 7(6), 952–8.

    Article  PubMed  CAS  Google Scholar 

  • McKillip, J.L., & Drake, M. (2000). Molecular beacon polymerase chain reaction detection of Escherichia coli O157:H7 in milk. J Food Prot, 63(7), 855–9.

    PubMed  CAS  Google Scholar 

  • Mengelle, C., Sandres-Saune, K., Miedouge, M., Mansuy, J.M., Bouquies, C., & Izopet, J. (2004). Use of two real-time polymerase chain reactions (PCRs) to detect herpes simplex type 1 and 2-DNA after automated extraction of nucleic acid. J Med Virol, 74(3), 459–62.

    Article  PubMed  CAS  Google Scholar 

  • Mohamed, N., Elfaitouri, A., Fohlman, J., Friman, G., & Blomberg, J. (2004).Asensitive and quantitative single-tube real-time reverse transcriptase-PCR for detection of enteroviral RNA. J Clin Virol, 30(2), 150–6.

    Article  PubMed  CAS  Google Scholar 

  • Moore, C., Hibbitts, S., Owen, N., Corden, S.A., Harrison, G., Fox, J., Gelder, C., & Westmoreland, D. (2004). Development and evaluation of a real-time nucleic acid sequence based amplification assay for rapid detection of influenza A. J Med Virol, 74(4), 619–28.

    Article  PubMed  CAS  Google Scholar 

  • Morrison, T.B., Weis, J.J., & Wittwer, C.T. (1998). Quantification of low-copy transcripts by continuous SYBR Green I monitoring during amplification. Biotechniques, 24(6), 954–8, 960, 962.

    PubMed  CAS  Google Scholar 

  • Nissen, M.D., & Sloots, T.P. (2002). Rapid diagnosis in pediatric infectious diseases: the past, the present and the future. Pediatr Infect Dis J, 21(6), 605–12; discussion 613–4.

    Article  PubMed  Google Scholar 

  • Nitsche, A., Steuer, N., Schmidt, C.A., Landt, O., & Siegert, W. (1999). Different real-time PCR formats compared for the quantitative detection of human cytomegalovirus DNA. Clin Chem, 45(11), 1932–7.

    PubMed  CAS  Google Scholar 

  • O’Shea, M.K., & Cane, P.A. (2004). Development of a highly sensitive semi-quantitative real-timePCRand molecular beacon probe assay for the detection of respiratory syncytial virus. J Virol Methods, 118(2), 101–10.

    Article  PubMed  CAS  Google Scholar 

  • Pas, S.D., Noppornpanth, S., Eijk, A.A., Man, R.A., & M. Niesters, H.G. (2005). Quantification of the newly detected lamivudine resistant YSDD variants of hepatitis B virus using molecular beacons. J Clin Virol, 32(2), 166–72.

    Article  PubMed  CAS  Google Scholar 

  • Payungporn, S., Tangkijvanich, P., Jantaradsamee, P., Theamboonlers, A., & Poovorawan, Y. (2004). Simultaneous quantitation and genotyping of hepatitis B virus by real-time PCR and melting curve analysis. Virol Methods, 120(2), 131–40.

    Article  CAS  Google Scholar 

  • Pennings, J.L., Van De Locht, L.T., Jansen. J.H., Van der Reijden, B.A., De Witte, T., & Mensink, E.J. (2001). Degradable dU-based DNA template as a standard in real-time PCR quantitation. Leukemia, 15(12), 1962–5.

    PubMed  CAS  Google Scholar 

  • Peruski, L.F. Jr., & Peruski, A.H. (2003). Rapid diagnostic assays in the genomic biology era: detection and identification of infectious disease and biological weapon agents. Biotechniques, 35(4), 840–6.

    PubMed  CAS  Google Scholar 

  • Piatek, A.S., Tyagi, S., Pol, A.C., Telenti, A., Miller, L.P., Kramer, F.R., & Alland, D. (1998). Molecular beacon sequence analysis for detecting drug resistance in Mycobacterium tuberculosis. Nat Biotechnol, 16(4), 359–63.

    Article  PubMed  CAS  Google Scholar 

  • Picard, F.J., & Bergeron, M.G. (2004). Laboratory detection of group B Streptococcus for prevention of perinatal disease. Eur J Clin Microbiol Infect Dis, 23(9), 665–71.

    Article  PubMed  CAS  Google Scholar 

  • Pierce, K.E., & Wangh, L.J. (2004). Effectiveness and limitations of uracil-DNA glycosylases in sensitive real-time PCR assays. Biotechniques, 36(1), 44–6, 48.

    PubMed  CAS  Google Scholar 

  • Plentz, A., Hahn, J., Holler, E., Jilg, W., & Modrow, S. (2004). Long-term parvovirus B19 viraemia associated with pure red cell aplasia after allogeneic bone marrow transplantation. J Clin Virol, 31(1), 16–9.

    Article  PubMed  Google Scholar 

  • Pretorius, A.M., & Kelly, P.J. (2000). An update on human bartonelloses. Cent Afr J Med, 46(7), 194–200.

    PubMed  CAS  Google Scholar 

  • Read, S.J., Mitchell, J.L., & Fink, C.G. (2001). LightCycler multiplexPCRfor the laboratory diagnosis of common viral infections of the central nervous system. J Clin Microbiol, 39(9), 3056–9.

    Article  PubMed  CAS  Google Scholar 

  • Rickert, A.M., Lehrach, H., & Sperling, S. (2004). Multiplexed real-time PCR using universal reporters. Clin Chem, 50(9), 1680–3.

    Article  PubMed  CAS  Google Scholar 

  • Ririe, K.M., Rasmussen, R.P., & Wittwer, C.T. (1997). Product differentiation by analysis of DNA melting curves during the polymerase chain reaction. Anal Biochem, 245(2), 154–60.

    Article  PubMed  CAS  Google Scholar 

  • Simon, A., Labalette, P., Ordinaire, I., Frealle, E., Dei-Cas, E., Camus, D., & Delhaes, L. (2004). Use of fluorescence resonance energy transfer hybridization probes to evaluate quantitative real-timePCRfor diagnosis of ocular toxoplasmosis. J Clin Microbiol, 42(8), 3681–5.

    Article  PubMed  CAS  Google Scholar 

  • Sloan, L.M., Uhl, J.R.,Vetter, E.A., Schleck, C.D., Harmsen, W.S., Manahan, J., Thompson, R.L., Rosenblatt, J.E., & Cockerill, F.R. 3rd. (2004). Comparison of the Roche Light-Cycler vanA/vanB detection assay and culture for detection of vancomycin-resistant enterococci from perianal swabs. J Clin Microbiol, 42(6), 2636–43.

    Article  PubMed  CAS  Google Scholar 

  • Stone, B., Burrows, J., Schepetiuk, S., Higgins, G., Hampson, A., Shaw, R., & Kok, T. (2004). Rapid detection and simultaneous subtype differentiation of influenza A viruses by real time PCR. J Virol Methods, 117(2), 103–12.

    Article  PubMed  CAS  Google Scholar 

  • Sum, S.S., Wong, D.K.,Yuen, M.F.,Yuan, H.J.,Yu, J., Lai, C.L., Ho, D., & Zhang, L. (2004). Real-time PCR assay using molecular beacon for quantitation of hepatitis B virus DNA. Clin Microbiol, 42(8), 3438–40.

    Article  CAS  Google Scholar 

  • Szuhai, K., Sandhaus, E., Kolkman-Uljee, S.M., Lemaitre, M., Truffert, J.C., Dirks, R. W., Tanke, H.J., Fleuren, G.J., Schuuring, E., & Raap, A.K. (2001). A novel strategy for human papillomavirus detection and genotyping with SybrGreen and molecular beacon polymerase chain reaction. Am J Pathol, 159(5), 1651–60.

    PubMed  CAS  Google Scholar 

  • Templeton, K.E., Scheltinga, S.A., Beersma, M.F., Kroes, A.C., & Claas, E.C. (2004). Rapid and sensitive method using multiplex real-time PCR for diagnosis of infections by influenza A and influenza B viruses, respiratory syncytial virus, and parainfluenza viruses 1, 2, 3, and 4. J Clin Microbiol, 42(4), 1564–9.

    Article  PubMed  CAS  Google Scholar 

  • Templeton, K.E., Scheltinga, S.A., van der Zee, A., Diederen, B.M., van Kruijssen, A.M., Goossens, H., Kuijper, E., & Claas, E.C. (2003). Evaluation of real-time PCR for detection of and discrimination between Bordetella pertussis, Bordetella parapertussis, and Bordetella holmesii for clinical diagnosis. J Clin Microbiol, 41(9), 4121–6. [Erratum in: J Clin Microbiol,2004; 42(4), 1860.]

    Article  PubMed  CAS  Google Scholar 

  • Uzuka, R., Kawashima, H., Hasegawa, D., Ioi, H., Amaha, M., Kashiwagi, Y., Takekuma, K., Hoshika, A., & Chiba, K. (2004). Rapid diagnosis of bacterial meningitis by using multiplex PCR and real time PCR. Pediatr Int, 46(5), 551–4.

    Article  PubMed  CAS  Google Scholar 

  • van Haeften, R., Palladino, S., Kay, I., Keil, T., Heath, C., & Waterer, G. W. (2003). A quantitative LightCycler PCR to detect Streptococcus pneumoniae in blood and CSF. Diagn Microbiol Infect Dis, 47(2), 407–14.

    Article  PubMed  CAS  Google Scholar 

  • Vet, J.A., & Marras, S.A. (2005). Design and optimization of molecular beacon real-time polymerase chain reaction assays. Methods Mol Biol, 288, 273–90.

    PubMed  CAS  Google Scholar 

  • Vet, J.A., Majithia, A.R., Marras, S.A., Tyagi, S., Dube, S., Poiesz, B.J., & Kramer, F.R. (1999). Multiplex detection of four pathogenic retroviruses using molecular beacons. Proc Natl Acad Sci U S A, 96(11), 6394–9.

    Article  PubMed  CAS  Google Scholar 

  • Wada, T., Maeda, S., Tamaru, A., Imai, S., Hase, A., & Kobayashi, K. (2004). Dual-probe assay for rapid detection of drug-resistant Mycobacterium tuberculosis by real-time PCR. J Clin Microbiol, 42(11), 5277–85.

    Article  PubMed  CAS  Google Scholar 

  • Wang, G., Liveris, D., Brei, B., Wu, H., Falco, R.C., Fish, D., & Schwartz, I. (2003). Real-time PCR for simultaneous detection and quantification of Borrelia burgdorferi in field-collected Ixodes scapularis ticks from the Northeastern United States. Appl Environ Microbiol, 69(8), 4561–5.

    Article  PubMed  CAS  Google Scholar 

  • Ward, C.L., Dempsey, M.H., Ring, C.J., Kempson, R.E., Zhang, L., Gor, D., Snowden, B. W., & Tisdale, M. (2004). Design and performance testing of quantitative real time PCR assays for influenza A and B viral load measurement. J Clin Virol, 29(3), 179–88.

    Article  PubMed  CAS  Google Scholar 

  • Watkins-Riedel, T., Ferenci, P., Steindl-Munda, P., Gschwantler, M., Mueller, C., & Woegerbauer, M. (2004). Early prediction of hepatitis C virus (HCV) infection relapse in nonresponders to primary interferon therapy by means of HCV RNA whole-blood analysis. Clin Infect Dis, 39(12), 1754–60.

    Article  PubMed  CAS  Google Scholar 

  • Watzinger, F., Suda, M., Preuner, S., Baumgartinger, R., Ebner, K., Baskova, L., Niesters, H.G., Lawitschka, A., & Lion, T. (2004). Real-time quantitative PCR assays for detection and monitoring of pathogenic human viruses in immunosuppressed pediatric patients. J Clin Microbiol, 42(11), 5189–98.

    Article  PubMed  CAS  Google Scholar 

  • Watzinger, F., Suda, M., Preuner, S., Baumgartinger, R., Ebner, K., Baskova, L., Niesters, H.G., Lawitschka, A., & Lion, T. (2004). Real-time quantitative PCR assays for detection and monitoring of pathogenic human viruses in immunosuppressed pediatric patients. J Clin Microbiol, 42(11), 5189–98.

    Article  PubMed  CAS  Google Scholar 

  • Whiley, D.M., Mackay, I.M., & Sloots, T.P. (2001). Detection and differentiation of human polyomaviruses JC and BK by LightCycler PCR. J Clin Microbiol, 39(12), 4357–61.

    Article  PubMed  CAS  Google Scholar 

  • Wittwer, C.T., Ririe, K.M., Andrew, R. V., David, D.A., Gundry, R.A., & Balis, U.J. (1997). The LightCycler: a microvolume multisample fluorimeter with rapid temperature control. Biotechniques, 22(1), 176–81.

    PubMed  CAS  Google Scholar 

  • Yang, S., & Rothman, R.E. (2004). PCR-based diagnostics for infectious diseases: uses, limitations, and future applications in acute-care settings. Lancet Infect Dis, 4(6), 337–48.

    Article  PubMed  CAS  Google Scholar 

  • Yeh, S.H., Tsai, C.Y., Kao, J.H., Liu, C.J., Kuo, T.J., Lin, M. W., Huang, W.L., Lu, S.F., Jih, J., Chen, D.S., & Chen, P.J. (2004). Quantification and genotyping of hepatitis B virus in a single reaction by real-time PCR and melting curve analysis. J Hepatol, 41(4), 659–66.

    Article  PubMed  CAS  Google Scholar 

  • Zhao, J.R., Bai, Y.J., Zhang, Q.H., Wan, Y., Li, D., & Yan, X.J. (2005). Detection of hepatitis B virus DNA by real-time PCR using TaqMan-MGB probe technology. World J Gastroenterol, 11(4), 508–10.

    PubMed  CAS  Google Scholar 

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  1. Xuan Qin
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© 2006 Springer

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Qin, X. (2006). Diagnostic Microbiology Using Real-Time PCR Based on FRET Technology. In: Advanced Techniques in Diagnostic Microbiology. Springer, Boston, MA. https://doi.org/10.1007/0-387-32892-0_18

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