Quantitation of polyomavirus DNA by a competitive nested polymerase chain reaction

Journal of Virological Methods

Volumn 88, Issue 1, 2000, Pages 51-61

  Fedele, C G ^a,b   Avellon A ^a   Ciardi, M ^b   Delia, S ^b   Tenorio, A ^a  

^a INSTITUTO DE SALUD CARLOS III   (Spain)

^b SAPIENZA UNIVERSITY OF ROME   (Italy)

Author keywords

Competitive PCR; Polyomavirus; Quantitative PCR

Indexed keywords

VIRUS DNA;

ACQUIRED IMMUNE DEFICIENCY SYNDROME; ARTICLE; BONE MARROW TRANSPLANTATION; CEREBROSPINAL FLUID ANALYSIS; GENOME; HEMORRHAGIC CYSTITIS; HUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; POLYOMA VIRUS; PRIORITY JOURNAL; PROGRESSIVE MULTIFOCAL LEUKOENCEPHALOPATHY; QUANTITATIVE DIAGNOSIS; REPRODUCIBILITY; VIRUS ISOLATION;

ACQUIRED IMMUNODEFICIENCY SYNDROME; BONE MARROW TRANSPLANTATION; CEREBROSPINAL FLUID; CYSTITIS; DNA, VIRAL; HEMORRHAGE; HUMANS; JC VIRUS; LEUKOENCEPHALOPATHY, PROGRESSIVE MULTIFOCAL; POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; URINE; VIRAL LOAD;

BACTERIA (MICROORGANISMS); DNA VIRUSES; EUKARYOTA; POLYOMAVIRUS;

EID: 0033899169     PISSN: 01660934     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0166-0934(00)00172-5     Document Type: Article

References (33)

1. Azzi A., Cesaro S., Laszlo D., Zakrzewska K., Ciappi S., De Santis R., Fanci R., Pesavento G., Calore E., Bosi A. Human polyomavirus BK (BKV) load and haemorrhagic cystitis in bone marrow transplantation patients. J. Clin. Virol. 14:1999;79-86.
2. Casas I., Powell L., Klapper P.E., Cleator G.M. New method for extraction of viral RNA and DNA from cerebrospinal fluid for use in the polymerase chain reaction. J. Virol. Methods. 56:1995;26-36.
3. Clementi M., Menzo S., Manzin A., Bagnarelli P. Quantitative molecular methods in virology. Arch. Virol. 140:1995;1523-1539.
4. Dickover R.E., Donovan R.M., Goldstein E., Dandekar S., Bush C.E., Carlson J.R. Quantitation of human immunodeficiency virus DNA by using the polymerase chain reaction. J. Clin. Microbiol. 28:1990;2130-2133.
5. Diviacco S., Norio P., Zentilin L., Menzo S., Clementi M., Biamonti G., Riva S., Falaschi A., Giacca M. A novel procedure for quantitative polymerase chain reaction by coamplification of competitive templates. Gene. 122:1992;313-320.
6. Dörries K., Arendt G., Eggers C., Roggendorf W., Dörries R. Nucleic acid detection as diagnostic tool in polyomavirus JC induced progressive multifocal leukoencephalopathy. J. Med. Virol. 54:1998;196-203.
7. Drews K., Bashir T., Dörries K. Quantification of human polyomavirus JC in brain tissue and cerebrospinal fluid of patients with progressive multifocal leukoencephalopathy by competitive PCR. J. Virol. Methods. 84:2000;23-36.
8. Dubois V., Dutronc H., Lafon M.E., Poinsot V., Pellegrin J.L., Ragnaud J.M., Ferrer A.M., Fleury H.J.A. Latency and reactivation of JC virus in peripheral blood of human immunodeficiency virus type 1-infected patients. J. Clin. Microbiol. 35:1997;2288-2292.
9. Fedele C.G., Ciardi M., Delia S., Echevarria J.M., Tenorio A. Multiplex polymerase chain reaction for the simultaneous detection and typing of the polyomavirus JC, BK and SV40 DNA in clinical samples. J. Virol. Methods. 82:1999;137-144.
10. Garcia de Viedma D., Alonso R., Mirralles P., Berenguer J., Rodriguez-Creixems M., Bouza E. Dual qualitative-quantitative nested PCR for detection of JC virus in cerebrospinal fluid: High potential for evaluation and monitoring of progressive multifocal leukoencephalopathy in AIDS patients receiving highly active antiretroviral therapy. J. Clin. Microbiol. 37:1999;724-728.
11. Gerna G., Furione M., Baldanti F., Sarasini A. Comparative quantitation of human cytomegalovirus DNA in blood leukocytes and plasma of transplant and AIDS patients. J. Clin. Microbiol. 32:1994;2709-2717.
12. Gibson U., Heid C.A., Williams P.M. A novel method for real time quantitative PCR. Genome Res. 6:1996;995-1001.
13. Gilliland G., Perrin S., Blanchard K., Bunn F.H. Analysis of cytokine mRNA and DNA: Detection and quantitation by competitive polymerase chain reaction. Proc. Natl. Acad. Sci. USA. 87:1990;2725-2729.
14. Heid C.A., Stevens J., Livak K.J., Williams P.M. Real time quantitative PCR. Genome Res. 6:1996;986-994.
15. Hodinka R.L. The clinical utility of viral quantitation using molecular methods. Clin. Diagn. Virol. 10:1998;25-47.
16. Koralnik I.J., Boden D., Mai V.X., Lord C.I., Levtin N.L. JC virus DNA load in patients with and without progressive multifocal leukoencephalopathy. Neurology. 52:1999;253-260.
17. Menzo S., Bagnarelli P., Giacca M., Manzin A., Varaldo P.E., Clementi M. Absolute quantitation of viremia in human immunodeficiency virus infection by competitive reverse transcription and polymerase chain reaction. J. Clin. Microbiol. 30:1992;1752-1757.
18. Ravaggi A.Z., Mazza C., Albertini A., Cariani E. Quantification of hepatitis C virus RNA by competitive amplification of RNA from denatured serum and hybridization on microtiter plates. J. Clin. Microbiol. 33:1995;265-269.
19. Rowe D.T., Reyes L.Q.U.J., Jabbour N., Yunis E., Putman P., Todo S., Green M. Use of quantitative competitive PCR to measure Epstein-Barr virus genome load in the peripheral blood of paediatric transplant patients with lymphoproliferative disorders. J. Clin. Microbiol. 35:1997;1612-1615.
20. Sabroock J., Fritsch E.F., Maniatis T. Molecular Cloning: A Laboratory Manual. second ed:1989;Cold Spring Laboratory, Cold Spring Harbor, NY.
21. Schuler G.D., Altschul S.F., Lipman D.J. A work-bench for multiple alignment construction analysis. Protein Struct. Funct. Genet. 9:1991;180-190.
22. Siebert P.D., Larrick J.W. PCR MIMICS: competitive DNA fragment for use as internal standards in quantitative PCR. BioTechniques. 14:1993;244-249.
23. Taoufik Y., Gasnault J., Karaterki A., Ferey M.P., Marchadier E., Goujard C., Lannuzel A., Delfraissy J.F., Dussaix E. Prognostic value of JC virus load in cerebrospinal fluid of patients with progressive multifocal leukoencephalopathy. J. Infect. Dis. 178:1998;1816-1820.
24. Telenti A., Imboden P., German D. Competitive polymerase chain reaction usingan internal standard: application to the quantitation of viral DNA. J. Virol. Methods. 39:1992;259-268.
25. Trabaud M.-A., Audoly G., Leriche K., Cotte L., Ritter J., Sepetjan M., Trepo C. Development of reverse transcriptase PCR enzyme-linked immunosorbent assay for quantification of human immunodeficiency virus type 1 RNA in plasma: comparison with commercial quantitative assays. J. Clin. Microbiol. 35:1997;1251-1254.
26. Überla K., Platzer C., Diamantstein T., Blankestein T. Generation of competitor DNA fragments for quantitative PCR. PCR Methods Appl. 1:1991;136-139.
27. Vago L., Cinque P., Sala M., Nebuloni M., Caldarelli R., Racca S., Ferrante P., Trabattoni G.R., Costanzi G. JCV-DNA and BKV-DNA in the CNS tissue and CSF of AIDS patients and normal subjects. Study of 41 cases and review of the literature. J. Acquir. Immune Defic. Syndr. Human Retrovirol. 12:1996;139-146.
28. Vogel J.U., Cinatl J., Lux A., Weber B., Driesel A.J., Doerr H.W. New PCR assay for rapid and quantitative detection of human cytomegalovirus in cerebral fluid. J. Clin. Microbiol. 34:1996;482-483.
29. Weber T., Turner R.W., Frye S., Luke W., Kretzschmaar H.A., Luer W., Hunsman G. Progressive multifocal leukoencephalopathy diagnosed by amplification of JC virus-specific DNA from cerebrospinal fluid. AIDS. 8:1994;49-57.
30. Zarlenga D.S., Canals A., Gasbarre L. Method for constructing internal standard for use in competitive PCR. BioTechniques. 19:1995;324-326.
31. Zhang L.Q., Simmonds P., Ludlam C.A., Leigh Brown A.J. Detection, quantification and sequencing of HIV-1 from the plasma of seropositive individuals and from factor VIII concentrate. AIDS. 5:1991;675-681.
32. Zimmermann K., Mannhalter W. Technical aspects of quantitative competitive PCR. BioTechniques. 21:1996;268-279.
33. Zipeto D., Morris S., Hong C., Dowling A., Wolitz R., Merigan T.C., Rasnussen L. Human cytomegalovirus (CMV) DNA in plasma reflects quantity of CMV DNA present in leukocytes. J. Clin. Microbiol. 33:1995;2607-2611.