RNA extraction prior to HIV-1 resistance detection using Line Probe Assay (LiPA): Comparison of three methods

Journal of Clinical Virology

Volumn 32, Issue 4, 2005, Pages 265-271

  Labayru, Cristina ^a   Eiros, José María ^b,c,e   Hernández, Beatriz ^d   De Lejarazu, Raúl Ortiz ^c   Torres, Antonio Rodríguez ^c  

^a HOSPITAL UNIVERSITARIO DE BURGOS   (Spain)

^b INSTITUTO DE SALUD CARLOS III   (Spain)

^c HOSPITAL CLÍNICO UNIVERSITARIO DE VALLADOLID   (Spain)

^d NATIONAL INSTITUTES OF HEALTH   (United States)

^e UNIVERSITY OF VALLADOLID   (Spain)

Author keywords

HIV; LiPA; Resistance; RNA extraction

Indexed keywords

VIRUS RNA;

ARTICLE; GENE MUTATION; GENOTYPE; HUMAN IMMUNODEFICIENCY VIRUS 1; INTERMETHOD COMPARISON; MONITOR; MUTATION; PLASMA; PRIORITY JOURNAL; RNA EXTRACTION; RNA ISOLATION; RNA PROCESSING; VIRUS DETECTION; VIRUS LOAD; VIRUS RESISTANCE;

EID: 15244345879     PISSN: 13866532     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jcv.2004.08.007     Document Type: Article

References (45)

1. R.C. Boom, J.A. Sol, M.M. Salimans, C.L. Jansen, P.M.E. Wertheim-van Dillen, and J. Van der Noordaa Rapid and simple method for purification of nucleic acids J. Clin. Microbiol. 28 1990 495 503
2. C. Carpenter, D. Cooper, M. Fischl, J.M. Gatell, B.G. Gazzard, and S.M. Hammer Antirretroviral therapy in adults. Updated recommendations of the IAS - USA Panel J Am Med Assoc 283 2000 381 390
3. Casas I. Métodos de extracción de ADN y ARN aplicables a muestras clínicas: Criterios de selección. In: Ministerio de Sanidad y Consumo, editors. Teoría y práctica de la PCR en virología humana. Madrid: Litofinter S.A.; 1997. p. 37-44.
4. L.M. Demeter, R. D'Aquila, O. Weislow, E. Lorenzo, A. Erice, J. Fitzgibbon for the ACTG Sequencing Working Group Interlaboratory concordance of DNA sequence analysis to detect reverse transcriptase mutations in HIV-1 proviral DNA J. Virol. Methods 75 1998 93 104
5. DHHS Panel on Clinical Practices for the Treatment of HIV Infections. Guidelines for the use of antiretroviral agents in HIV infected adults and adolescents. Washington; 2001; http://www.hivatis.org.
6. J.M. Eiros, C. Labayru, B. Hernández, M. Ortega, P. Bachiller, and R. Ortiz de Lejarazu Prevalence of genotypic resistance in untreated HIV-patients in Spain Eur J Clin Microbiol Infect Dis 21 2002 310 313
7. M. Erali, S. Page, L.G. Reimer, and D.R. Hillard Human immunodeficiency virus type 1 drug resistance testing: a comparison of three sequence-based methods J Clin Microbiol 39 2001 2157 2165
8. A. Erice, J.L. Pérez, and T. Pumarola Análisis comparativo de los métodos de detección de resistencias Enferm Infecc Microbiol Clin 19 2001 14 21
9. M. Ficher, W. Huber, A. Kallivroussis, P. Ott, M. Opravil, and R. Lüthy Highly sensitive methods for quantitation of human immunodeficiency virus type 1 RNA from plasma, cells and tissues J Clin Microbiol 37 1999 1260 1264
10. K. Fransen, D. Mortier, L. Heyndrickx, C. Verhofstede, W. Janssens, and G. Van der Groen Isolation of HIV-1 RNA from plasma: evaluation of seven different methods for extraction (part two) J Virol Methods 76 1998 153 157
11. R.A. Galli, B. Sattha, B. Wynhoven, M.V. O'Sshaughnessy, and P. Harrigan Sources and magnitude of intralaboratory variability in a sequence-based genotypic assay for human immunodeficiency virus type-1 drug resistance J Clin Microbiol 41 2003 2900 2907
12. M. Gómez-Cano, A. Rubio, L. Ruiz, M. Pérez-Olmeda, M. Leal, and V. Soriano Efficiency of drug resistance genotypic tests in specimens with low viral load Antiviral Ther 4 1999 123 124
13. M.S. Hirsch, F. Brun-Vézinet, R.T. D'Aquila, S.M. Hammer, V.A. Johnson, and D.R. Kuritzkes Antiretroviral drug resistance testing in adults with HIV infection. Recommendations of an International AIDS Society - USA panel J Am Med Assoc 283 2000 2417 2425
14. N. Kartsonis, and R. D'Aquila Clinical monitoring of HIV-infection in the era of resistence testing Infect Dis Clin North Am 14 2000 879 898
15. K. Korn, H. Reil, H. Walter, and B. Schmidt Quality control trial for human immunodeficiency virus type 1 drug resistance testing using clinical samples reveals problems with detecting minority species and interpretation of test results J Clin Microbiol 41 2003 3559 3565
16. D.R. Kuritzkes, R.M. Grant, P. Feorino, M. Griswold, M. Hoover, and R. Young Performance characteristics of the Trugene HIV-1 genotyping kit and the Opengene DNA sequencing system J Clin Microbiol 41 2003 1594 1599
17. A. Lindström, and J. Albert A simple sensitive "in-house" method for determining genotypic drug resistance in HIV-1 J Virol Methods 107 2003 45 51
18. Martínez-Picado J, Clotet B. Mutaciones de resistencia seleccionadas durante tratamiento antirretroviral. In: Grupo, E., Entheos, editors. Guía práctica para el manejo clínico de las resistencias al VIH. Madrid: Gráficas Marte; 1999. p. 57-133.
19. S. Moreno Los estudios de resistencias son útiles para guiar el tratamiento antirretroviral Enferm Infecc Micrbiol Clin 19 2001 42 44
20. J. Niubò, W. Li, K. Henry, and A. Erice Recovery and analysis of human immunodeficiency virus type 1 (HIV) RNA sequences from plasma samples with low HIV RNA levels J Clin Microbiol 38 2000 309 312
21. R. Rubio, J. Berenguer, J.M. Miró, A. Antela, J.A. Iribarren, and J. González Recomendaciones de GESIDA/Plan Nacional sobre el Sida respecto al tratamiento antirretroviral en pacientes adultos infectados por el virus de la inmunodeficiencia humana en el año 2002 Enf. Infecc Microbiol Clin 20 2002 244 303
22. Ruiz L, Clotet B. Test de resistencias y sus limitaciones técnicas. In: Grupo, E., Entheos, editors. Guía práctica para el manejo de las resistencias al VIH. Madrid: Gráficas Marte; 1999. 29-55.
23. C. Salama, M. Policar, and C. Cervera Knowledge of genotypic resistance mutations among providers of care to patients with human immunodeficiency virus Clin Infect Dis 36 2003 101 104
24. R.F. Schinazi, B. Larder, and J.W. Mellors Mutations in retroviral genes associated with drug resistance: 2000-2001 update Internat Antiviral News 8 2001 65 91
25. J.C. Schmit, L. Ruiz, L. Stuyver, K. Van Laethem, I. Vanderlinden, and T. Puig Comparison of the LiPA HIV-1 test, selective PCR and direct solid phase sequencing for the detection of HIV-1 drug resistance mutations J Virol Methods 73 1998 77 82
26. G.A. Schockmel, S. Yerly, and L. Perrin Detection of low HIV-1 RNA levels in plasma J Acquir Immune Syndr Hum Retrovirol 14 1997 179 183
27. R. Schuurman, L. Demeter, P. Reichelderfer, J. Tijnagel, T. de Groot, and C. Boucher Worldwide evaluation of DNA sequencing approaches for identification of drug resistance mutations in the human immunodeficiency virus type 1 reverse transcriptase J Clin Microbiol 37 1999 2291 2296
28. R. Schuurman, D. Brambilla, T. de Groot, D. Huang, S. Land, J. Bremer On behalf of the ENVA Working Group and Participating Laboratories Underestimation of HIV Type 1 drug resistance mutations: results from the ENVA-2 Genotyping Proficiency program AIDS Res Hum Retroviruses 18 2002 243 248
29. Secretaría del Plan Nacional sobre el Sida (SPNS). Las resistencias a los fármacos antirretrovíricos: utilización de los test de resistencias en la práctica asistencial. Madrid; 1997; http://www.msc.es/sida/asistencia/resistencias.htm
30. Secretaría del Plan Nacional sobre el Sida (SPNS). Las resistencias a los fármacos antirretrovirales: utilización de los test en la práctica asistencial. Madrid; 2000; http://www.msc.es/sida/ asistencia/resistencias.htm
31. J. Servais, C. Lambert, E. Fontaine, J.M. Plesséria, I. Robert, and V. Arendt Comparison of DNA sequencing and Line Probe Assay for the detection of human immunodeficiency virus type 1 drug resistance mutations in patients failing highly active antiretroviral therapy J Clin Microbiol 39 2001 454 459
32. R.W. Shafer, D.J. Levee, M.A. Winters, K.L. Richmond, D. Huang, and T.C. Merigan Comparison of QIAamp HCV Kit spin columns, silica beads, and phenol-chloroform for recovering human immunodeficiency virus type 1 RNA from plasma J Clin Microbiol 35 1997 520 522
33. R.W. Shafer, A. Warford, M.A. Winters, and M.J. Gonzales Reproducibility of human immunodeficiency virus type 1 (HIV-1) protease and reverse transcriptase sequencing of plasma samples from heavily treated HIV-1 infected individuals J Virol Methods 86 2000 143 153
34. V. Soriano, E. Ledesma and the Spanish Drug Resistance Panel Second Spanish Consensus on drug resistance testing in clinical practice AIDS Rev 2 2000 109 116
35. M. Stürmer, A. Berger, and H.W. Doerr Modifications and substitutions of the RNAextraction module in the Viroseq™ HIV-1 genotyping system version 2: effects on sensitivity and complexity of the assay J Virol Methods 71 2003 475 479
36. A. Suárez, J. Picazo, R. Alonso, E. Bouza, R. Delgado, and A. Rodríguez-Noriega Comparación de tres métodos genotípicos para la detección de resistencia del VIH-1 a los antirretrovirales Rev Esp Quimioter 15 2002 43 48
37. The EuroGuidelines Group for HIV Resistance. Clinical and laboratory guidelines for the use of HIV-1 drug resistance testing as a part of treatment management: recommendations for the European setting. The EuroGuidelines Group for HIV resistance. AIDS 2001;15:309-20.
38. G. Venturi, R. Ferruzzi, L. Romano, M. Catucci, P.E. Valesin, and M. Zazzi Ultrasensitive in-house transcription-competitive PCR for quantitation of HIV-1 RNA in plasma J Virol Methods 87 2000 91 97
39. C. Verhofstede, K. Fransen, D. Marissens, R. Verhlest, G. Van der Groen, and S. Lauwers Isolation of HIV-1 RNA from plasma: evaluation of eight different extraction methods J Virol Methods 60 1996 155 159
40. VERSANT® HIV-1 RT, 2001. Kit for the simultaneous detection of wild-type sequences and mutations at several locations in the HIV-1 reverse transcriptase gene. Turrytown (NY, USA): Bayer Corporation.
41. VERSANT® HIV-1 protease, 2001. Kit for the simultaneous detection of wild-type and mutations at codons 30, 46/48, 50, 54, 82/84, and 90 in the HIV-1 protease region of the pol gene. Turrytown (NY, USA): Bayer Corporation.
42. M.L. Villahermosa, G. Contreras, L. Pérez-Álvarez, F. Bru, L. Medrano, and E. Delgado Evaluation of mixtures of wild-type HIV-1 and HIV-1 with resistance point mutations against reverse transcriptase inhibitors Antivir Ther 3 1998 221 227
43. M.L. Villahermosa, M. Thomson, E. Vázquez de Prada, M.T. Cuevas, G. Contreras, and L. Pérez-Alvarez Improved conditions for extraction and amplification of human immunodeficiency virus type 1 RNA from plasma samples with low viral load J Hum Virol 3 2000 27 34
44. M.C. Weinstein, S.J. Goldie, E. Losina, C.J. Cohen, J.D. Baxter, and H. Zhang Use of genotypic resistance testing to guide HIV therapy: Clinical impact and cost-effectiveness Ann Intern Med 134 2001 440 450
45. J.W. Wilson, P. Bean, T. Robins, F. Graziano, and D.H. Persing Comparative evaluation of three human immunodeficiency virus genotyping systems: the HIV-1 GenotypR Method, the HIV PRT GeneChip Assay, and HIV-1 Line Probe Assay J Clin Microbiol 38 2000 3022 3028