Human immunodeficiency viruses: Propagation, quantification, and storage

Current Protocols in Microbiology

Volumn , Issue SUPPL.28, 2013, Pages

  Peters, Paul J ^a   Richards, Kathryn ^a   Clapham, Paul ^a  

^a UNIVERSITY OF MASSACHUSETTS MEDICAL SCHOOL   (United States)

Author keywords

Focus forming unit; HIV 1; HIV 2; Molecular clones; P24 ELISA; Primary isolates; Radioactive reverse transcriptase assay; Reporter viruses; Retroviruses; T cell line adapted(TCLA) viruses

Indexed keywords

RNA DIRECTED DNA POLYMERASE;

ARTICLE; COCULTURE; CONTROLLED STUDY; EMBRYO; ENZYME ASSAY; ENZYME LINKED IMMUNOSORBENT ASSAY; HUMAN; HUMAN CELL; HUMAN IMMUNODEFICIENCY VIRUS; MOLECULAR CLONING; NONHUMAN; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; REPORTER GENE; STORAGE; TISSUE CULTURE; VIRUS CULTURE; VIRUS INFECTIVITY; VIRUS ISOLATION; VIRUS PARTICLE; VIRUS REPLICATION; VIRUS STRAIN; ANIMAL; CD4+ T LYMPHOCYTE; CELL CULTURE; CELL LINE; CYTOLOGY; GROWTH, DEVELOPMENT AND AGING; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS 2; HUMAN IMMUNODEFICIENCY VIRUS INFECTION; ISOLATION AND PURIFICATION; KIDNEY; LABORATORY DIAGNOSIS; METHODOLOGY; PHYSIOLOGY; VIROLOGY; PRESERVATION; VIRUS LOAD;

ANIMALS; CD4-POSITIVE T-LYMPHOCYTES; CELL LINE; CELLS, CULTURED; HIV INFECTIONS; HIV-1; HIV-2; HUMANS; KIDNEY; SPECIMEN HANDLING; VIRUS CULTIVATION; PRESERVATION, BIOLOGICAL; VIRAL LOAD;

MLCS; MLOWN;

EID: 84880656983     PISSN: 19348525     EISSN: 19348533     Source Type: Journal    
DOI: 10.1002/9780471729259.mc15j01s28     Document Type: Article

References (42)

1. Asjo, B., Morfeldt Manson, L., Albert, J., Biberfeld, G., Karlsson, A., Lidman, K., and Fenyo, E.M. 1986. Replicative capacity of human immunodeficiency virus from patientswith varying severity of HIV infection. Lancet 2:660-662.
2. Bjorndal, A., Deng, H., Jansson, M., Fiore, J.R., Colognesi, C., Karlsson, A., Albert, J., Scarlatti, G., Littman, D.R., and Fenyo, E.M. 1997.
3. Coreceptor usage of primary human immunodeficiency virus type 1 isolates varies according to biological phenotype. J. Virol. 71:7478-7487.
4. Blaak, H., van't Wout, A.B., Brouwer, M., Hooibrink, B., Hovenkamp, E., and Schuitemaker, H. 2000. In vivo HIV-1 infection of CD45RA(+)CD4(+) T cells is established primarily by syncytium-inducing variants and correlates with the rate of CD4(+) T cell decline. Proc. Natl. Acad. Sci. U.S.A. 97:1269-1274.
5. Carrington, M., Dean, M., Martin, M.P., and O'Brien, S.J. 1999. Genetics of HIV-1 infection: Chemokine receptor CCR5 polymorphism and its consequences. Hum. Mol. Genet. 8:1939-1945.
6. Cavrois, M., De Noronha, C., and Greene, W.C. 2002. A sensitive and specific enzyme-based assay detecting HIV-1 virion fusion in primary T lymphocytes. Nat. Biotechnol. 20:1151-1154.
7. Cecilia,D.,KewalRamani,V.N., J, O.L.,Volsky, B., Nyambi, P., Burda, S.,Xu, S., Littman,D.R., and Zolla Pazner, S. 1998. Neutralization profiles of primary human immunodeficiency virus type 1 isolates in the context of coreceptor usage. J. Virol. 72:6988-6996.
8. Cecilia, D., Kulkarni, S.S., Tripathy, S.P., Gangakhedkar, R.R., Paranjape, R.S., and Gadkari, D.A. 2000. Absence of coreceptor switch with disease progression in human immunodeficiency virus infections in India. Virology 271:253-258.
9. Cocchi, F., DeVico, A.L., Garzino Demo, A., Arya, S.K., Gallo, R.C., and Lusso, P. 1995. Identification of RANTES, MIP-1 alpha, and MIP-1 beta as the majorHIV-suppressive factors produced by CD8+ T cells. Science 270:1811-1815.
10. Connor, R.I. and Ho, D.D. 1994. Human immunodeficiency virus type 1 variants with increased replicative capacity develop during the asymptomatic stage before disease progression. J. Virol. 68:4400-4408.
11. Dale, B.M., McNerney, G.P., Hubner, W., Huser, T.R., and Chen, B.K. 2011. Tracking and quantitation of fluorescent HIV during cell-to-cell transmission. Methods 53:20-26.
12. de Roda Husman, A.M., van Rij, R.P., Blaak, H., Broersen, S., and Schuitemaker, H. 1999. Adaptation to promiscuous usage of chemokine receptors is not a prerequisite for human immunodeficiency virus type 1 disease progression. J. Infect. Dis. 180:1106-1115.
13. Dejucq, N., Simmons, G., and Clapham, P.R. 2000. T-cell line adaptation of human immunodeficiency virus type 1 strain SF162: Effects on envelope, vpu and macrophage-tropism. J. Gen. Virol. 81:2899-2904.
14. Deng, H.K., Unutmaz, D., KewalRamani, V.N., and Littman, D.R. 1997. Expression cloning of new receptors used by simian and human immunodeficiency viruses. Nature 388:296-300.
15. Duenas-Decamp, M.J., Peters, P.J., Repik, A., Musich, T., Gonzalez-Perez, M.P., Caron, C., Brown, R., Ball, J., and Clapham, P.R. 2010. Variation in the biological properties of HIV-1 R5 envelopes: Implications of envelope structure, transmission and pathogenesis. Future Virol. 5:417-433.
16. Fuss, I.J., Kanof, M.E., Smith, P.D., and Zola, H. 2009. Isolation ofwhole mononuclear cells from peripheral blood and cord blood. Curr. Protoc. Immunol. 85:7.1.1-7.1.8.
17. Gonzalez-Perez, M.P., O'Connell, O., Lin, R., Sullivan, W.M., Bell, J., Simmonds, P., and Clapham, P.R. 2012. Independent evolution of macrophage-tropism and increased charge between HIV-1 R5 envelopes present in brain and immune tissue. Retrovirology 9:20.
18. Hofmann, W., Schubert, D., LaBonte, J., Munson, L., Gibson, S., Scammell, J., Ferrigno, P., and Sodroski, J. 1999. Species-specific, post-entry barriers to primate immunodeficiency virus infection. J. Virol. 73:10020-10028.
19. Ikeda,Y.,Ylinen, L.M., Kahar-Bador,M., and Towers, G.J. 2004. Influence of gag on human immunodeficiency virus type 1 species-specific tropism. J. Virol. 78:11816-11822.
20. Kikukawa,R.,Koyanagi,Y.,Harada, S.,Kobayashi, N., Hatanaka, M., and Yamamoto, N. 1986. Differential susceptibility to the acquired immunodeficiency syndrome retrovirus in cloned cells of human leukemic T-cell line Molt-4. J. Virol. 57:1159-1162.
21. Levy, J.A. 2003. The search for the CD8+cell anti-HIV factor (CAF). Trends Immunol. 24:628-632.
22. McDonald, D., Vodicka, M.A., Lucero, G., Svitkina, T.M., Borisy, G.G., Emerman, M., and Hope, T.J. 2002. Visualization of the intracellular behavior of HIV in living cells. J. Cell Biol. 159:441-452.
23. McKeating, J.A., McKnight, A., McIntosh, K., Clapham, P.R., Mulder, C., and Weiss, R.A. 1989. Evaluation of human and simian immunodeficiency virus plaque and neutralization assays. J. Gen. Virol. 70:3327-3333.
24. McKnight, A., Clapham, P.R., and Schulz, T.F. 1995. Detection of HIV entry into cells. In HIV A Practical Approach (J. Karn, ed.), pp. 129-141. Oxford University Press, Oxford, U.K.
25. Moore, J.P. and Ho, D.D. 1995. HIV-1 neutralization: The consequences of viral adaptation to growth on transformed T cells. AIDS 9:S117-S136.
26. Neumann, T., Hagmann, I., Lohrengel, S., Heil, M.L., Derdeyn, C.A., Krausslich, H.G., and Dittmar,M.T. 2005. T20-insensitiveHIV-1 from naive patients exhibits high viral fitness in a novel dual-color competition assay on primary cells. Virology 333:251-262.
27. Ochsenbauer, C., Edmonds, T.G., Ding, H., Keele, B.F., Decker, J., Salazar, M.G., Salazar-Gonzalez, J.F., Shattock, R., Haynes, B.F., Shaw,G.M., Hahn, B.H., and Kappes, J.C. 2012. Generation of transmitted/founder HIV-1 infectious molecular clones and characterization of their replication capacity in CD4 T lymphocytes and monocyte-derivedmacrophages. J. Virol. 86:2715-2728.
28. Ostrowski, M.A., Chun, T.W., Justement, S.J., Motola, I., Spinelli, M.A., Adelsberger, J., Ehler, L.A., Mizell, S.B., Hallahan, C.W., and Fauci, A.S. 1999. Both memory and CD45RA+/CD62L+ naive CD4(+) T cells are infected in human immunodeficiency virus type 1-infected individuals. J. Virol. 73:6430-6435.
29. Pear, W.S., Nolan, G.P., Scott, M.L., and Baltimore, D. 1993. Production of high-titer helperfree retroviruses by transient transfection. Proc. Natl. Acad. Sci. U.S.A. 90:8392-8396.
30. Peters, P.J., Bhattacharya, J., Hibbitts, S., Dittmar, M.T., Simmons, G., Bell, J., Simmonds, P., and Clapham, P.R. 2004. Biological analysis of human immunodeficiency virus type 1 R5 envelopes amplified from brain and lymph node tissues of AIDS patients with neuropathology reveals two distinct tropism phenotypes and identifies envelopes in the brain that confer an enhanced tropism and fusigenicity for macrophages. J. Virol. 78:6915-6926.
31. Peters, P.J., Sullivan,W.M., Duenas-Decamp, M.J., Bhattacharya, J., Ankghuambom, C., Brown, R., Luzuriaga, K., Bell, J., Simmonds, P., Ball, J., and Clapham, P.R. 2006. Non-macrophagetropic human immunodeficiency virus type 1 R5 envelopes predominate in blood, lymph nodes, and semen: Implications for transmission and pathogenesis. J. Virol. 80:6324-6332.
32. Platt, E.J., Wehrly, K., Kuhmann, S.E., Chesebro, B., and Kabat, D. 1998. Effects of CCR5 and CD4 cell surface concentrations on infections by macrophagetropic isolates of human immunodeficiency virus type 1. J. Virol. 72:2855-2864.
33. Popovic, M., Sarngadharan, M.G., Read, E., and Gallo, R.C. 1984. Detection, isolation, and continuous production of cytopathic retroviruses (HTLV-III) from patients with AIDS and pre-AIDS. Science 224:497-500.
34. Porstmann, T., Meissner, K., Glaser, R., Dopel, S.H., and Sydow, G. 1991. A sensitive nonisotopic assay specific for HIV-1 associated reverse transcriptase. J. Virol. Methods 31:181-188.
35. Salahuddin, S.Z., Markham, P.D., Wong-Staal, F., Franchini, G., Kalyanaraman, V.S., and Gallo, R.C. 1983. Restricted expression of human T-cell leukemia-lymphoma virus (HTLV) in transformed human umbilical cord blood lymphocytes. Virology 129:51-64.
36. Sano, K., Odawara, F., Nakano, T., Morimatsu, S., Nakamura, T., Saitoh, Y., Jiang, Y., Misaki, H., Sakai, Y., and Nakai,M. 1995. Comparable sensitivities for detection of HIV-1 reverse transcriptase (RT) and other polymerases by RT assays requiring no radioisotopic materials. J. Virol. Methods 53:235-244.
37. Scarlatti, G., Tresoldi, E., Bjorndal, A., Fredriksson, R., Colognesi, C., Deng, H.K., Malnati, M.S., Plebani,A., Siccardi,A.G., Littman, D.R., Fenyo, E.M., and Lusso, P. 1997. In vivo evolution of HIV-1 co-receptor usage and sensitivity to chemokine-mediated suppression. Nat. Med. 3:1259-1265.
38. Sharp, P.M. and Hahn, B.H. 2011. Origins of HIV and the AIDS Pandemic. Cold Spring Harbor Perspect. Med. 1:a006841.
39. Spenlehauer, C., Gordon, C.A., Trkola, A., and Moore, J.P. 2001. A luciferase-reporter geneexpressing T-cell line facilitates neutralization and drug-sensitivity assays that use either R5 or X4 strains of human immunodeficiency virus type 1. Virology 280:292-300.
40. Tersmette, M., Lange, J.M., de Goede, R.E., de Wolf, F., Eeftink-Schattenkerk, J.K., Schellekens, P.T., Coutinho, R.A., Huisman, J.G., Goudsmit, J., and Miedema, F. 1989. Association between biological properties of human immunodeficiency virus variants and risk for AIDS and AIDS mortality. Lancet 1:983-985.
41. Wei, X., Decker, J.M., Liu, H., Zhang, Z., Arani, R.B., Kilby, J.M., Saag, M.S., Wu, X., Shaw, G.M., and Kappes, J.C. 2002. Emergence of resistant human immunodeficiency virus type 1 in patients receiving fusion inhibitor (T-20) monotherapy. Antimicrob. Agents Chemother. 46:1896-1905.
42. Willey, S.J., Reeves, J.D., Hudson, R., Miyake, K., Dejucq, N., Schols, D., De Clercq, E., Bell, J., McKnight, A., and Clapham, P.R. 2003. Identification of a subset of human immunodeficiency virus type 1 (HIV-1), HIV-2, and simian immunodeficiency virus strains able to exploit an alternative coreceptor on untransformed human brain and lymphoid cells. J. Virol. 77:6138-6152.