New assays for monitoring residual HIV burden in effectively treated individuals

Current Opinion in HIV and AIDS

Volumn 8, Issue 2, 2013, Pages 106-110

  Strain, Matthew C ^a,b   Richman, Douglas D ^a,b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b VA SAN DIEGO HEALTHCARE SYSTEM   (United States)

Author keywords

cytometry via time of flight; digital PCR; droplet digital PCR; eradication; HIV DNA; HIV latency; microengraving; single cell analysis

Indexed keywords

VIRUS DNA; VIRUS RNA;

CYTOMETRY; DNA DETERMINATION; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS INFECTION; LIMIT OF DETECTION; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; REVIEW; SINGLE CELL ANALYSIS; VIRUS REPLICATION;

ANTI-HIV AGENTS; DNA, VIRAL; DRUG MONITORING; HIV; HIV INFECTIONS; HUMANS; PROVIRUSES; VIRAL LOAD;

EID: 84873456747     PISSN: 1746630X     EISSN: 17466318     Source Type: Journal    
DOI: 10.1097/COH.0b013e32835d811b     Document Type: Review

References (33)

1. Chun TW, Carruth L, Finzi D, et al. Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection. Nature 1997; 387:183-188.
2. Finzi D, Hermankova M, Pierson T, et al. Identification of a reservoir for HIV-1 in patients on highly active antiretroviral therapy. Science 1997; 278:1295-1300.
3. Wong JK, Hezareh M, Gunthard HF, et al. Recovery of replication-competent HIV despite prolonged suppression of plasma viremia. Science 1997; 278:1291-1295.
4. Eriksson S, Graf EH, Dahl V, et al. Comparative analysis of measures of viral reservoirs in HIV-1 eradication studies. PLoS Pathogens 2013 [in press].
5. Haase AT. Population biology of HIV-1 infection: viral and CD4 T cell demographics and dynamics in lymphatic tissues. Annu Rev Immunol 1999; 17:625-656.
6. Josefsson L, King MS, Makitalo B, et al. Majority of CD4 T cells from peripheral blood of HIV-1-infected individuals contain only one HIV DNA molecule. Proc Natl Acad Sci USA 2011; 108:11199-11204.
7. Yukl S, Chun TW, Strain MC, et al. Challenges inherent in detecting HIV persistence during potentially curative interventions. Antivir Ther 2012; 17 (Suppl 1):A47.
8. Chomont N, El-Far M, Ancuta P, et al. HIV reservoir size and persistence are driven by T cell survival and homeostatic proliferation. Nat Med 2009; 15:893-900.
9. Douek DC, Brenchley JM, Betts MR, et al. HIV preferentially infects HIVspecific CD4 T cells. Nature 2002; 417:95-98.
10. Strain MC, Gunthard HF, Havlir DV, et al. Heterogeneous clearance rates of long-lived lymphocytes infected with HIV: Intrinsic stability predicts lifelong persistence. Proc Natl Acad Sci USA 2003; 100:4819-4824.
11. Bandura DR, Baranov VI, Ornatsky OI, et al. Mass cytometry: Technique for real time single cell multitarget immunoassay based on inductively coupled plasma time-of-flight mass spectrometry. Anal Chem 2009; 81:6813-6822.
12. Newell EW, Sigal N, Bendall SC, et al. Cytometry by time-of-flight shows combinatorial cytokine expression and virus-specific cell niches within a continuum of CD8 T cell phenotypes. Immunity 2012; 36:142-152.
13. Song Q, Han Q, Bradshaw EM, et al. On-chip activation and subsequent detection of individual antigen-specific T cells. Anal Chem 2009; 82:473-477.
14. Varadarajan N, Julg B, Yamanaka YJ, et al. A high-throughput single-cell analysis of human CD8() T cell functions reveals discordance for cytokine secretion and cytolysis. J Clin Invest 2011; 121:4322-4331.
15. Torres AJ, Contento RL, Gordo S, et al. Functional single-cell analysis of T-cell activation by supported lipid bilayer-tethered ligands on arrays of nanowells. Lab Chip 2013; 13:90-99.
16. Varadarajan N, Kwon DS, Law KM, et al. Rapid, efficient functional characterization and recovery of HIV-specific human CD8 T cells using microengraving. Proc Natl Acad Sci USA 2012; 109:3885-3890.
17. Dornadula G, Zhang H, VanUitert B, et al. Residual HIV-1 RNA in blood plasma of patients taking suppressive highly active antiretroviral therapy. JAMA 1999; 282:1627-1632.
18. Palmer S, Wiegand AP, Maldarelli F, et al. New real-time reverse transcriptase-initiated PCR assay with single-copy sensitivity for human immunodeficiency virus type 1 RNA in plasma. J Clin Microbiol 2003; 41: 4531-4536.
19. Hindson BJ, Ness KD, Masquelier DA, et al. High-throughput droplet digital PCR system for absolute quantitation of DNA copy number. Anal Chem 2011; 83:8604-8610.
20. Strain MC, Lada SM, Luong T, et al. Highly precise measurement of HIV DNA by droplet digital PCR. PLoS One 2013 (in press).
21. Yu JJ, Wu TL, Liszewski MK, et al. A more precise HIV integration assay designed to detect small differences finds lower levels of integrated DNA in HAART treated patients. Virology 2008; 379:78-86.
22. Graf EH, Mexas AM, Yu JJ, et al. Elite suppressors harbor low levels of integrated HIV DNA and high levels of 2-LTR circular HIV DNA compared to HIV patients on and off HAART. PLoS Pathog 2011; 7:e1001300.
23. Mexas AM, Graf EH, et al. Concurrent measures of total and integrated HIV DNA monitor reservoirs and ongoing replication in eradication trials. AIDS 2012; 26:2295-2306.
24. Richman DD, Strain MC, Rought S, et al. Measuring the latent reservoir. Keystone Symposium on Molecular and Cellular Biology: Frontiers in HIV Pathogenesis, Therapy and Eradication; 26-31 March 2012; Whistler, BC; 2012.
25. Ornatsky O, Bandura D, Baranov V, et al. Highly multiparametric analysis by mass cytometry. J Immunol Methods 2010; 361:1-20.
26. Bendall SC, Simonds EF, Qiu P, et al. Single-cell mass cytometry of differential immune and drug responses across a human hematopoietic continuum. Science 2011; 332:687-696.
27. Love JC, Ronan JL, Grotenbreg GM, et al. A microengraving method for rapid selection of single cells producing antigen-specific antibodies. Nat Biotechnol 2006; 24:703-707.
28. Bradshaw EM, Kent SC, Tripuraneni V, et al. Concurrent detection of secreted products from human lymphocytes by microengraving: cytokines and antigenreactive antibodies. Clin Immunol 2008; 129:10-18.
29. Han Q, Bradshaw EM, Nilsson B, et al. Multidimensional analysis of the frequencies and rates of cytokine secretion from single cells by quantitative microengraving. Lab Chip 2010; 10:1391-1400.
30. Choi JH, Ogunniyi AO, Du M, et al. Development and optimization of a process for automated recovery of single cells identified by microengraving. Biotechnol Prog 2010; 26:888-895.
31. Han Q, Bagheri N, Bradshaw EM, et al. Polyfunctional responses by human T cells result from sequential release of cytokines. Proc Natl Acad Sci USA 2012; 109:1607-1612.
32. Yamanaka YJ, Berger CT, Sips M, et al. Single-cell analysis of the dynamics and functional outcomes of interactions between human natural killer cells and target cells. Integr Biol (Camb) 2012; 4:1175-1184.
33. Yalcin A, Yamanaka YJ, Love JC. Analytical technologies for integrated singlecell analysis of human immune responses. Methods Mol Biol 2012; 853: 211-235.