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Journal of Clinical Microbiology logoLink to Journal of Clinical Microbiology
. 1995 Jan;33(1):205–208. doi: 10.1128/jcm.33.1.205-208.1995

Low human immunodeficiency virus type 1 (HIV-1) DNA burden as a major cause for failure to detect HIV-1 DNA in clinical specimens by PCR.

M Zazzi 1, L Romano 1, M Catucci 1, A De Milito 1, P Almi 1, A Gonnelli 1, M Rubino 1, P E Valensin 1
PMCID: PMC227909  PMID: 7699043

Abstract

To determine the sensitivity of a nested PCR procedure for detecting human immunodeficiency virus type 1 DNA in clinical specimens, 553 peripheral blood mononuclear cell samples obtained from 268 human immunodeficiency virus type 1-seropositive subjects were assayed by use of two independent primer sets for each sample. Overall, 1,088 of 1,106 (98.37%) reactions were positive. Investigation of the negative reactions showed that a low viral burden in some infected subjects, rather than primer-template mismatches, was the primary cause for the false-negative PCR results.

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Selected References

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  1. Albert J., Fenyö E. M. Simple, sensitive, and specific detection of human immunodeficiency virus type 1 in clinical specimens by polymerase chain reaction with nested primers. J Clin Microbiol. 1990 Jul;28(7):1560–1564. doi: 10.1128/jcm.28.7.1560-1564.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Bagnarelli P., Menzo S., Manzin A., Varaldo P. E., Montroni M., Giacca M., Clementi M. Detection of human immunodeficiency virus type 1 transcripts in peripheral blood lymphocytes by the polymerase chain reaction. J Virol Methods. 1991 Apr;32(1):31–39. doi: 10.1016/0166-0934(91)90182-y. [DOI] [PubMed] [Google Scholar]
  3. Bieniasz P. D., Ariyoshi K., Bourelly M. A., Bloor S., Foxall R. B., Harwood E. C., Weber J. N. Variable relationship between proviral DNA load and infectious virus titre in the peripheral blood mononuclear cells of HIV-1-infected individuals. AIDS. 1993 Jun;7(6):803–806. doi: 10.1097/00002030-199306000-00007. [DOI] [PubMed] [Google Scholar]
  4. Brandt C. D., Rakusan T. A., Sison A. V., Josephs S. H., Saxena E. S., Herzog K. D., Parrott R. H., Sever J. L. Detection of human immunodeficiency virus type 1 infection in young pediatric patients by using polymerase chain reaction and biotinylated probes. J Clin Microbiol. 1992 Jan;30(1):36–40. doi: 10.1128/jcm.30.1.36-40.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Brinchmann J. E., Albert J., Vartdal F. Few infected CD4+ T cells but a high proportion of replication-competent provirus copies in asymptomatic human immunodeficiency virus type 1 infection. J Virol. 1991 Apr;65(4):2019–2023. doi: 10.1128/jvi.65.4.2019-2023.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Cassol S., Salas T., Arella M., Neumann P., Schechter M. T., O'Shaughnessy M. Use of dried blood spot specimens in the detection of human immunodeficiency virus type 1 by the polymerase chain reaction. J Clin Microbiol. 1991 Apr;29(4):667–671. doi: 10.1128/jcm.29.4.667-671.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Clark A. G., Holodniy M., Schwartz D. H., Katzenstein D. A., Merigan T. C. Decrease in HIV provirus in peripheral blood mononuclear cells during zidovudine and human rIL-2 administration. J Acquir Immune Defic Syndr. 1992;5(1):52–59. [PubMed] [Google Scholar]
  8. Cone R. W., Hobson A. C., Huang M. L. Coamplified positive control detects inhibition of polymerase chain reactions. J Clin Microbiol. 1992 Dec;30(12):3185–3189. doi: 10.1128/jcm.30.12.3185-3189.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Conway B., Adler K. E., Bechtel L. J., Kaplan J. C., Hirsch M. S. Detection of HIV-1 DNA in crude cell lysates of peripheral blood mononuclear cells by the polymerase chain reaction and nonradioactive oligonucleotide probes. J Acquir Immune Defic Syndr. 1990;3(11):1059–1064. [PubMed] [Google Scholar]
  10. Coutlée F., Saint-Antoine P., Olivier C., Voyer H., Kessous-Elbaz A., Berrada F., Bégin P., Giroux L., Viscidi R. Evaluation of infection with human immunodeficiency virus type 1 by using nonisotopic solution hybridization for detection of polymerase chain reaction-amplified proviral DNA. J Clin Microbiol. 1991 Nov;29(11):2461–2467. doi: 10.1128/jcm.29.11.2461-2467.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Coutlée F., Yang B. Z., Bobo L., Mayur K., Yolken R., Viscidi R. Enzyme immunoassay for detection of hybrids between PCR-amplified HIV-1 DNA and a RNA probe: PCR-EIA. AIDS Res Hum Retroviruses. 1990 Jun;6(6):775–784. doi: 10.1089/aid.1990.6.775. [DOI] [PubMed] [Google Scholar]
  12. Dahlén P. O., Iitiä A. J., Skagius G., Frostell A., Nunn M. F., Kwiatkowski M. Detection of human immunodeficiency virus type 1 by using the polymerase chain reaction and a time-resolved fluorescence-based hybridization assay. J Clin Microbiol. 1991 Apr;29(4):798–804. doi: 10.1128/jcm.29.4.798-804.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Davis G. R., Blumeyer K., DiMichele L. J., Whitfield K. M., Chappelle H., Riggs N., Ghosh S. S., Kao P. M., Fahy E., Kwoh D. Y. Detection of human immunodeficiency virus type 1 in AIDS patients using amplification-mediated hybridization analyses: reproducibility and quantitative limitations. J Infect Dis. 1990 Jul;162(1):13–20. doi: 10.1093/infdis/162.1.13. [DOI] [PubMed] [Google Scholar]
  14. Ferre F., Marchese A., Duffy P. C., Lewis D. E., Wallace M. R., Beecham H. J., Burnett K. G., Jensen F. C., Carlo D. J. Quantitation of HIV viral burden by PCR in HIV seropositive Navy personnel representing Walter Reed stages 1 to 6. AIDS Res Hum Retroviruses. 1992 Feb;8(2):269–275. doi: 10.1089/aid.1992.8.269. [DOI] [PubMed] [Google Scholar]
  15. Gibson K. M., McLean K. A., Clewley J. P. A simple and rapid method for detecting human immunodeficiency virus by PCR. J Virol Methods. 1991 May;32(2-3):277–286. doi: 10.1016/0166-0934(91)90058-8. [DOI] [PubMed] [Google Scholar]
  16. Hart C., Chang S. Y., Kwok S., Sninsky J., Ou C. Y., Schochetman G. A replication-deficient HIV-1 DNA used for quantitation of the polymerase chain reaction (PCR). Nucleic Acids Res. 1990 Jul 11;18(13):4029–4030. doi: 10.1093/nar/18.13.4029. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Hart C., Schochetman G., Spira T., Lifson A., Moore J., Galphin J., Sninsky J., Ou C. Y. Direct detection of HIV RNA expression in seropositive subjects. Lancet. 1988 Sep 10;2(8611):596–599. doi: 10.1016/s0140-6736(88)90639-3. [DOI] [PubMed] [Google Scholar]
  18. He Y., Coutlée F., Saint-Antoine P., Olivier C., Voyer H., Kessous-Elbaz A. Detection of polymerase chain reaction-amplified human immunodeficiency virus type 1 proviral DNA with a digoxigenin-labeled RNA probe and an enzyme-linked immunoassay. J Clin Microbiol. 1993 May;31(5):1040–1047. doi: 10.1128/jcm.31.5.1040-1047.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Horsburgh C. R., Jr, Ou C. Y., Jason J., Holmberg S. D., Lifson A. R., Moore J. L., Ward J. W., Seage G. R., Mayer K. H., Evatt B. L. Concordance of polymerase chain reaction with human immunodeficiency virus antibody detection. J Infect Dis. 1990 Aug;162(2):542–545. doi: 10.1093/infdis/162.2.542. [DOI] [PubMed] [Google Scholar]
  20. Horsburgh C. R., Jr, Ou C. Y., Jason J., Holmberg S. D., Longini I. M., Jr, Schable C., Mayer K. H., Lifson A. R., Schochetman G., Ward J. W. Duration of human immunodeficiency virus infection before detection of antibody. Lancet. 1989 Sep 16;2(8664):637–640. doi: 10.1016/s0140-6736(89)90892-1. [DOI] [PubMed] [Google Scholar]
  21. Jackson J. B., Kwok S. Y., Sninsky J. J., Hopsicker J. S., Sannerud K. J., Rhame F. S., Henry K., Simpson M., Balfour H. H., Jr Human immunodeficiency virus type 1 detected in all seropositive symptomatic and asymptomatic individuals. J Clin Microbiol. 1990 Jan;28(1):16–19. doi: 10.1128/jcm.28.1.16-19.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Jason J., Ou C. Y., Moore J. L., Lawrence D. N., Schochetman G., Evatt B. L. Prevalence of human immunodeficiency virus type 1 DNA in hemophilic men and their sex partners. Hemophilia-AIDS Collaborative Study Group. J Infect Dis. 1989 Nov;160(5):789–794. doi: 10.1093/infdis/160.5.789. [DOI] [PubMed] [Google Scholar]
  23. Keller G. H., Huang D. P., Manak M. M. Detection of human immunodeficiency virus type 1 DNA by polymerase chain reaction amplification and capture hybridization in microtiter wells. J Clin Microbiol. 1991 Mar;29(3):638–641. doi: 10.1128/jcm.29.3.638-641.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Laure F., Courgnaud V., Rouzioux C., Blanche S., Veber F., Burgard M., Jacomet C., Griscelli C., Brechot C. Detection of HIV1 DNA in infants and children by means of the polymerase chain reaction. Lancet. 1988 Sep 3;2(8610):538–541. doi: 10.1016/s0140-6736(88)92659-1. [DOI] [PubMed] [Google Scholar]
  25. Levy J. A. Pathogenesis of human immunodeficiency virus infection. Microbiol Rev. 1993 Mar;57(1):183–289. doi: 10.1128/mr.57.1.183-289.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Lifson A. R., Stanley M., Pane J., O'Malley P. M., Wilber J. C., Stanley A., Jeffery B., Rutherford G. W., Sohmer P. R. Detection of human immunodeficiency virus DNA using the polymerase chain reaction in a well-characterized group of homosexual and bisexual men. J Infect Dis. 1990 Mar;161(3):436–439. doi: 10.1093/infdis/161.3.436. [DOI] [PubMed] [Google Scholar]
  27. Loche M., Mach B. Identification of HIV-infected seronegative individuals by a direct diagnostic test based on hybridisation to amplified viral DNA. Lancet. 1988 Aug 20;2(8608):418–421. doi: 10.1016/s0140-6736(88)90412-6. [DOI] [PubMed] [Google Scholar]
  28. Mariotti M., Lefrère J. J., Noel B., Ferrer-Le-Coeur F., Vittecoq D., Girot R., Bosser C., Couroucé A. M., Salmon C., Rouger P. DNA amplification of HIV-1 in seropositive individuals and in seronegative at-risk individuals. AIDS. 1990 Jul;4(7):633–637. doi: 10.1097/00002030-199007000-00004. [DOI] [PubMed] [Google Scholar]
  29. Mermin J. H., Holodniy M., Katzenstein D. A., Merigan T. C. Detection of human immunodeficiency virus DNA and RNA in semen by the polymerase chain reaction. J Infect Dis. 1991 Oct;164(4):769–772. doi: 10.1093/infdis/164.4.769. [DOI] [PubMed] [Google Scholar]
  30. Ou C. Y., Kwok S., Mitchell S. W., Mack D. H., Sninsky J. J., Krebs J. W., Feorino P., Warfield D., Schochetman G. DNA amplification for direct detection of HIV-1 in DNA of peripheral blood mononuclear cells. Science. 1988 Jan 15;239(4837):295–297. doi: 10.1126/science.3336784. [DOI] [PubMed] [Google Scholar]
  31. Ou C. Y., McDonough S. H., Cabanas D., Ryder T. B., Harper M., Moore J., Schochetman G. Rapid and quantitative detection of enzymatically amplified HIV-1 DNA using chemiluminescent oligonucleotide probes. AIDS Res Hum Retroviruses. 1990 Nov;6(11):1323–1329. doi: 10.1089/aid.1990.6.1323. [DOI] [PubMed] [Google Scholar]
  32. Saiki R. K., Gelfand D. H., Stoffel S., Scharf S. J., Higuchi R., Horn G. T., Mullis K. B., Erlich H. A. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science. 1988 Jan 29;239(4839):487–491. doi: 10.1126/science.2448875. [DOI] [PubMed] [Google Scholar]
  33. Sauvaigo S., Barlet V., Guettari N., Innocenti P., Parmentier F., Bastard C., Seigneurin J. M., Chermann J. C., Teoule R., Marchand J. Standardized nested polymerase chain reaction-based assay for detection of human immunodeficiency virus type 1 DNA in whole blood lysates. J Clin Microbiol. 1993 May;31(5):1066–1074. doi: 10.1128/jcm.31.5.1066-1074.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
  34. Schmidt B. L. A rapid chemiluminescence detection method for PCR-amplified HIV-1 DNA. J Virol Methods. 1991 May;32(2-3):233–244. doi: 10.1016/0166-0934(91)90054-4. [DOI] [PubMed] [Google Scholar]
  35. Simmonds P., Balfe P., Peutherer J. F., Ludlam C. A., Bishop J. O., Brown A. J. Human immunodeficiency virus-infected individuals contain provirus in small numbers of peripheral mononuclear cells and at low copy numbers. J Virol. 1990 Feb;64(2):864–872. doi: 10.1128/jvi.64.2.864-872.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Stoeckl E., Barrett N., Heinz F. X., Banekovich M., Stingl G., Guggenberger K., Dorner F., Kunz C. Efficiency of the polymerase chain reaction for the detection of human immunodeficiency virus type (HIV-1) DNA in the lymphocytes of infected persons: comparison to antigen-enzyme-linked immunosorbent assay and virus isolation. J Med Virol. 1989 Dec;29(4):249–255. doi: 10.1002/jmv.1890290406. [DOI] [PubMed] [Google Scholar]
  37. Sykes P. J., Neoh S. H., Brisco M. J., Hughes E., Condon J., Morley A. A. Quantitation of targets for PCR by use of limiting dilution. Biotechniques. 1992 Sep;13(3):444–449. [PubMed] [Google Scholar]
  38. Sönnerborg A., Abens J., Johansson B., Strannegård O. Detection of human immunodeficiency virus-1 by polymerase chain reaction and virus cultivation. J Med Virol. 1990 Jul;31(3):234–240. doi: 10.1002/jmv.1890310311. [DOI] [PubMed] [Google Scholar]
  39. Whetsell A. J., Drew J. B., Milman G., Hoff R., Dragon E. A., Adler K., Hui J., Otto P., Gupta P., Farzadegan H. Comparison of three nonradioisotopic polymerase chain reaction-based methods for detection of human immunodeficiency virus type 1. J Clin Microbiol. 1992 Apr;30(4):845–853. doi: 10.1128/jcm.30.4.845-853.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  40. Yerly S., Chamot E., Hirschel B., Perrin L. H. Quantitation of human immunodeficiency virus provirus and circulating virus: relationship with immunologic parameters. J Infect Dis. 1992 Aug;166(2):269–276. doi: 10.1093/infdis/166.2.269. [DOI] [PubMed] [Google Scholar]
  41. Yourno J., Conroy J. A novel polymerase chain reaction method for detection of human immunodeficiency virus in dried blood spots on filter paper. J Clin Microbiol. 1992 Nov;30(11):2887–2892. doi: 10.1128/jcm.30.11.2887-2892.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  42. Zazzi M., Romano L., Brasini A., Valensin P. E. Low human immunodeficiency virus titer and polymerase chain reaction false-negatives. J Infect Dis. 1992 Apr;165(4):779–780. doi: 10.1093/infdis/165.4.779. [DOI] [PubMed] [Google Scholar]
  43. Zazzi M., Romano L., Peruzzi F., Toneatto S., De Milito A., Botta G., Valensin P. E. Optimal conditions for detection of human immunodeficiency virus type 1 DNA by polymerase chain reaction with nested primers. Mol Cell Probes. 1993 Dec;7(6):431–437. doi: 10.1006/mcpr.1993.1064. [DOI] [PubMed] [Google Scholar]

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