Gene expression profiling of the host response to HIV-1 B, C, or A/E infection in monocyte-derived dendritic cells

Virology

Volumn 352, Issue 1, 2006, Pages 86-99

  Solis, Mayra ^a   Wilkinson, Peter ^a   Romieu, Raphaelle ^a   Hernandez, Eduardo ^a   Wainberg, Mark A ^a   Hiscott, John ^a  

^a MCGILL UNIVERSITY   (Canada)

Author keywords

Dendritic cells; Gene expression; HIV 1; Immune response; Microarray

Indexed keywords

CHEMOKINE; CHEMOKINE CXCL3; HEAT SHOCK PROTEIN 40; INTERFERON INDUCING AGENT; MITOGEN ACTIVATED PROTEIN KINASE 1; PROTEIN SHC; STAT1 PROTEIN; TISSUE INHIBITOR OF METALLOPROTEINASE 2; UNCLASSIFIED DRUG;

ARTICLE; CELL CYCLE; CELL PROLIFERATION; CONTROLLED STUDY; DENDRITIC CELL; DNA MICROARRAY; GENE EXPRESSION; GENE IDENTIFICATION; GENETIC TRANSCRIPTION; HUMAN; HUMAN CELL; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS INFECTION; IMMUNE RESPONSE; IN VIVO STUDY; MONOCYTE; NONHUMAN; PRIORITY JOURNAL; SIGNAL TRANSDUCTION; STATISTICAL SIGNIFICANCE; VIRUS ISOLATION;

CELL DIFFERENTIATION; DENDRITIC CELLS; GENE EXPRESSION PROFILING; HIV INFECTIONS; HIV-1; HUMANS; MONOCYTES; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTEINS; SPECIES SPECIFICITY;

HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 33746679793     PISSN: 00426822     EISSN: 10960341     Source Type: Journal    
DOI: 10.1016/j.virol.2006.04.010     Document Type: Article

References (66)

1. Agostini I., Popov S., Li J., Dubrovsky L., Hao T., and Bukrinsky M. Heat-shock protein 70 can replace viral protein R of HIV-1 during nuclear import of the viral preintegration complex. Exp. Cell Res. 259 2 (2000) 398-403
2. Ahmad S., Alsayed Y.M., Druker B.J., and Platanias L.C. The type I interferon receptor mediates tyrosine phosphorylation of the CrkL adaptor protein. J. Biol. Chem. 272 48 (1997) 29991-29994
3. Alcami J., Lain de Lera T., Folgueira L., Pedraza M.A., Jacque J.M., Bachelerie F., Noriega A.R., Hay R.T., Harrich D., Gaynor R.B., et al. Absolute dependence on kappa B responsive elements for initiation and Tat-mediated amplification of HIV transcription in blood CD4 T lymphocytes. EMBO J. 14 7 (1995) 1552-1560
4. Arrighi J.F., Pion M., Garcia E., Escola J.M., van Kooyk Y., Geijtenbeek T.B., and Piguet V. DC-SIGN-mediated infectious synapse formation enhances X4 HIV-1 transmission from dendritic cells to T cells. J. Exp. Med. 200 10 (2004) 1279-1288
5. Badou A., Bennasser Y., Moreau M., Leclerc C., Benkirane M., and Bahraoui E. Tat protein of human immunodeficiency virus type 1 induces interleukin-10 in human peripheral blood monocytes: implication of protein kinase C-dependent pathway. J. Virol. 74 22 (2000) 10551-10562
6. Bakri Y., Schiffer C., Zennou V., Charneau P., Kahn E., Benjouad A., Gluckman J.C., and Canque B. The maturation of dendritic cells results in postintegration inhibition of HIV-1 replication. J. Immunol. 166 6 (2001) 3780-3788
7. Banchereau J., and Steinman R.M. Dendritic cells and the control of immunity. Nature 392 6673 (1998) 245-252
8. Bosinger S.E., Hosiawa K.A., Cameron M.J., Persad D., Ran L., Xu L., Boulassel M.R., Parenteau M., Fournier J., Rud E.W., and Kelvin D.J. Gene expression profiling of host response in models of acute HIV infection. J. Immunol. 173 11 (2004) 6858-6863
9. Bourgeois C.F., Kim Y.K., Churcher M.J., West M.J., and Karn J. Spt5 cooperates with human immunodeficiency virus type 1 Tat by preventing premature RNA release at terminator sequences. Mol. Cell. Biol. 22 4 (2002) 1079-1093
10. Bres V., Tagami H., Peloponese J.M., Loret E., Jeang K.T., Nakatani Y., Emiliani S., Benkirane M., and Kiernan R.E. Differential acetylation of Tat coordinates its interaction with the co-activators cyclin T1 and PCAF. EMBO J. 21 24 (2002) 6811-6819
11. Burke D.S., and McCutchan F.E. Global distribution of human immuno-deficiency virus type-1 clades. In: DeVita V.T., Hellman S., and Rosenberg S.A. (Eds). AIDS: Biology, Diagnostics, Treatment and Prevention. 4th ed. (1996), Lippencott-Raven Publishers, New-York, NY 119-126
12. Collins K.L., and Baltimore D. HIV's evasion of the cellular immune response. Immunol. Rev. 168 (1999) 65-74
13. Cujec T.P., Cho H., Maldonado E., Meyer J., Reinberg D., and Peterlin B.M. The human immunodeficiency virus transactivator Tat interacts with the RNA polymerase II holoenzyme. Mol. Cell. Biol. 17 4 (1997) 1817-1823
14. Demarchi F., d'Adda di Fagagna F., Falaschi A., and Giacca M. Activation of transcription factor NF-kappaB by the Tat protein of human immunodeficiency virus type 1. J. Virol. 70 7 (1996) 4427-4437
15. Duan L., Ozaki I., Oakes J.W., Taylor J.P., Khalili K., and Pomerantz R.J. The tumor suppressor protein p53 strongly alters human immunodeficiency virus type 1 replication. J. Virol. 68 7 (1994) 4302-4313
16. Ehret A., Li-Weber M., Frank R., and Krammer P.H. The effect of HIV-1 regulatory proteins on cellular genes: derepression of the IL-2 promoter by Tat. Eur. J. Immunol. 31 6 (2001) 1790-1799
17. 2 arrest in fission yeast (Schizosaccharomyces pombe) through a pathway involving regulatory and catalytic subunits of PP2A and acting on both Wee1 and Cdc25. Virology 287 2 (2001) 359-370
18. 2/M transition through an alternative cellular mechanism other than the classic mitotic checkpoints. Front Biosci. 7 (2002) d349-d357
19. Gao F., Yue L., Robertson D.L., Hill S.C., Hui H., Biggar R.J., Neequaye A.E., Whelan T.M., Ho D.D., Shaw G.M., et al. Genetic diversity of human immunodeficiency virus type 2: evidence for distinct sequence subtypes with differences in virus biology. J. Virol. 68 11 (1994) 7433-7447
20. Gao F., Robertson D.L., Carruthers C.D., Li Y., Bailes E., Kostrikis L.G., Salminen M.O., Bibollet-Ruche F., Peeters M., Ho D.D., Shaw G.M., Sharp P.M., and Hahn B.H. An isolate of human immunodeficiency virus type 1 originally classified as subtype I represents a complex mosaic comprising three different group M subtypes (A, G, and I). J. Virol. 72 12 (1998) 10234-10241
21. Gao F., Robertson D.L., Carruthers C.D., Morrison S.G., Jian B., Chen Y., Barre-Sinoussi F., Girard M., Srinivasan A., Abimiku A.G., Shaw G.M., Sharp P.M., and Hahn B.H. A comprehensive panel of near-full-length clones and reference sequences for non-subtype B isolates of human immunodeficiency virus type 1. J. Virol. 72 7 (1998) 5680-5698
22. Geijtenbeek T.B., Kwon D.S., Torensma R., van Vliet S.J., van Duijnhoven G.C., Middel J., Cornelissen I.L., Nottet H.S., KewalRamani V.N., Littman D.R., Figdor C.G., and van Kooyk Y. DC-SIGN, a dendritic cell-specific HIV-1-binding protein that enhances trans-infection of T cells. Cell 100 5 (2000) 587-597
23. Geiss G.K., Bumgarner R.E., An M.C., Agy M.B., van 't Wout A.B., Hammersmark E., Carter V.S., Upchurch D., Mullins J.I., and Katze M.G. Large-scale monitoring of host cell gene expression during HIV-1 infection using cDNA microarrays. Virology 266 1 (2000) 8-16
24. Goh W.C., Rogel M.E., Kinsey C.M., Michael S.F., Fultz P.N., Nowak M.A., Hahn B.H., and Emerman M. HIV-1 Vpr increases viral expression by manipulation of the cell cycle: a mechanism for selection of Vpr in vivo. Nat. Med. 4 1 (1998) 65-71
25. Izmailova E., Bertley F.M., Huang Q., Makori N., Miller C.J., Young R.A., and Aldovini A. HIV-1 Tat reprograms immature dendritic cells to express chemoattractants for activated T cells and macrophages. Nat. Med. 9 2 (2003) 191-197
26. Kaleebu P., Ross A., Morgan D., Yirrell D., Oram J., Rutebemberwa A., Lyagoba F., Hamilton L., Biryahwaho B., and Whitworth J. Relationship between HIV-1 Env subtypes A and D and disease progression in a rural Ugandan cohort. AIDS 15 3 (2001) 293-299
27. Kamine J., and Chinnadurai G. Synergistic activation of the human immunodeficiency virus type 1 promoter by the viral Tat protein and cellular transcription factor Sp1. J. Virol. 66 6 (1992) 3932-3936
28. Kamp W., Berk M.B., Visser C.J., and Nottet H.S. Mechanisms of HIV-1 to escape from the host immune surveillance. Eur. J. Clin. Invest. 30 8 (2000) 740-746
29. Kanazawa S., Okamoto T., and Peterlin B.M. Tat competes with CIITA for the binding to P-TEFb and blocks the expression of MHC class II genes in HIV infection. Immunity 12 1 (2000) 61-70
30. Kanki P.J., Hamel D.J., Sankale J.L., Hsieh C., Thior I., Barin F., Woodcock S.A., Gueye-Ndiaye A., Zhang E., Montano M., Siby T., Marlink R., Ndoye I., Essex M.E., and MBoup S. Human immunodeficiency virus type 1 subtypes differ in disease progression. J. Infect. Dis. 179 1 (1999) 68-73
31. Kerkau T., Bacik I., Bennink J.R., Yewdell J.W., Hunig T., Schimpl A., and Schubert U. The human immunodeficiency virus type 1 (HIV-1) Vpu protein interferes with an early step in the biosynthesis of major histocompatibility complex (MHC) class I molecules. J. Exp. Med. 185 7 (1997) 1295-1305
32. Korber B.T., Farber R.M., Wolpert D.H., and Lapedes A.S. Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: an information theoretic analysis. Proc. Natl. Acad. Sci. U.S.A. 90 15 (1993) 7176-7180
33. Korber B.T., Allen E.E., Farmer A.D., and Myers G.L. Heterogeneity of HIV-1 and HIV-2. AIDS 9 Suppl. A (1995) S5-S18
34. Korber B., Hahn B., Foley B., Mellors J.W., Leitner T., Myers G., McCutchan F., and Kuiken C. A compilation and analysis of nucleic acid and amino acid sequences. In: Korber B., Hahn B., Foley B., Mellors J.W., Leitner T., Myers G., McCutchan F., and Kuiken C. (Eds). Human Retroviruses and AIDS (1997), Los Alamos National Laboratory, Los Alamos, NM
35. Krishnan V., and Zeichner S.L. Host cell gene expression during human immunodeficiency virus type 1 latency and reactivation and effects of targeting genes that are differentially expressed in viral latency. J. Virol. 78 17 (2004) 9458-9473
36. Kumar M., and Mitra D. Heat shock protein 40 is necessary for human immunodeficiency virus-1 Nef-mediated enhancement of viral gene expression and replication. J. Biol. Chem. 280 48 (2005) 40041-40050
37. Langhoff E., Kalland K.H., and Haseltine W.A. Early molecular replication of human immunodeficiency virus type 1 in cultured-blood-derived T helper dendritic cells. J. Clin. Invest. 91 6 (1993) 2721-2726
38. Lee B., Leslie G., Soilleux E., O'Doherty U., Baik S., Levroney E., Flummerfelt K., Swiggard W., Coleman N., Malim M., and Doms R.W. cis Expression of DC-SIGN allows for more efficient entry of human and simian immunodeficiency viruses via CD4 and a coreceptor. J. Virol. 75 24 (2001) 12028-12038
39. Lore K., and Larsson M. The role of dendritic cells in the pathogenesis of HIV-1 infection. APMIS 111 7-8 (2003) 776-788
40. Mahieux R., Lambert P.F., Agbottah E., Halanski M.A., Deng L., Kashanchi F., and Brady J.N. Cell cycle regulation of human interleukin-8 gene expression by the human immunodeficiency virus type 1 Tat protein. J. Virol. 75 4 (2001) 1736-1743
41. Masurier C., Salomon B., Guettari N., Pioche C., Lachapelle F., Guigon M., and Klatzmann D. Dendritic cells route human immunodeficiency virus to lymph nodes after vaginal or intravenous administration to mice. J. Virol. 72 10 (1998) 7822-7829
42. Montano M.A., Novitsky V.A., Blackard J.T., Cho N.L., Katzenstein D.A., and Essex M. Divergent transcriptional regulation among expanding human immunodeficiency virus type 1 subtypes. J. Virol. 71 11 (1997) 8657-8965
43. Myers G., Korber B., Hahn B.H., Jeang K.-T., Mellors W., McCutchan F.E., Henderson L.E., and Pavlakis G.N. A compilation and analysis of nucleic acid and amino acid sequences. In: Myers G., Korber B., Hahn B.H., Jeang K.-T., Mellors W., McCutchan F.E., Henderson L.E., and Pavlakis G.N. (Eds). Human Retroviruses and AIDS (1995), Los Alamos National Laboratory, Los Alamos, NM
44. Patterson S., Gross J., Bedford P., and Knight S.C. Morphology and phenotype of dendritic cells from peripheral blood and their productive and non-productive infection with human immunodeficiency virus type 1. Immunology 72 3 (1991) 361-367
45. Ping Y.H., and Rana T.M. DSIF and NELF interact with RNA polymerase II elongation complex and HIV-1 Tat stimulates P-TEFb-mediated phosphorylation of RNA polymerase II and DSIF during transcription elongation. J. Biol. Chem. 276 16 (2001) 12951-12958
46. Pohlmann S., Baribaud F., Lee B., Leslie G.J., Sanchez M.D., Hiebenthal-Millow K., Munch J., Kirchhoff F., and Doms R.W. DC-SIGN interactions with human immunodeficiency virus type 1 and 2 and simian immunodeficiency virus. J. Virol. 75 10 (2001) 4664-4672
47. + T cells. J. Exp. Med. 182 6 (1995) 2045-2056
48. Pope M., Frankel S.S., Mascola J.R., Trkola A., Isdell F., Birx D.L., Burke D.S., Ho D.D., and Moore J.P. Human immunodeficiency virus type 1 strains of subtypes B and E replicate in cutaneous dendritic cell-T-cell mixtures without displaying subtype-specific tropism. J. Virol. 71 10 (1997) 8001-8007
49. Rinaldo Jr. C.R., and Piazza P. Virus infection of dendritic cells: portal for host invasion and host defense. Trends Microbiol. 12 7 (2004) 337-345
50. Robertson D.L., Anderson J.P., Bradac J.A., Carr J.K., Foley B., Funkhouser R.K., Gao F., Hahn B.H., Kalish M.L., Kuiken C., Learn G.H., Leitner T., McCutchan F., Osmanov S., Peeters M., Pieniazek D., Salminen M., Sharp P.M., Wolinsky S., and Korber B. HIV-1 nomenclature proposal. Science 288 5463 (2000) 55-56
51. Robertson D., Anderson J., Bradac J., Carr J., Foley B., Funkhouser R., Gao F., Hahn B., Kalish M., Kuiken C., Learn G., Leitner T., McCutchan F., Osmanov S., Peeters M., Pieniazek D., Salminen M.O., Sharp P., Wolinsky S.M., and Korber B. A reference guide to HIV-1 classification. In: Robertson D., Anderson J., Bradac J., Carr J., Foley B., Funkhouser R., Gao F., Hahn B., Kalish M., Kuiken C., Learn G., Leitner T., McCutchan F., Osmanov S., Peeters M., Pieniazek D., Salminen M.O., Sharp P., Wolinsky S.M., and Korber B. (Eds). HIV-1 Nomenclature Proposal (2001), Los Alamos National Laboratory, Los Alamos, NM
52. Ruediger R., Brewis N., Ohst K., and Walter G. Increasing the ratio of PP2A core enzyme to holoenzyme inhibits Tat-stimulated HIV-1 transcription and virus production. Virology 238 2 (1997) 432-443
53. Scala G., Ruocco M.R., Ambrosino C., Mallardo M., Giordano V., Baldassarre F., Dragonetti E., Quinto I., and Venuta S. The expression of the interleukin 6 gene is induced by the human immunodeficiency virus 1 TAT protein. J. Exp. Med. 179 3 (1994) 961-971
54. Smyth G.K. Limma: linear models for microarray data. In: Gentleman V.C.R., Dudoit S., Irizarry R., and Huber W. (Eds). Bioinformatics and Computational Biology Solutions using R and Bioconductor (2005), Springer, New York Chap. 23
55. Soto-Ramirez L.E., Renjifo B., McLane M.F., Marlink R., O'Hara C., Sutthent R., Wasi C., Vithayasai P., Vithayasai V., Apichartpiyakul C., Auewarakul P., Pena Cruz V., Chui D.S., Osathanondh R., Mayer K., Lee T.H., and Essex M. HIV-1 Langerhans' cell tropism associated with heterosexual transmission of HIV. Science 271 5253 (1996) 1291-1293
56. Spira S., Wainberg M.A., Loemba H., Turner D., and Brenner B.G. Impact of clade diversity on HIV-1 virulence, antiretroviral drug sensitivity and drug resistance. J. Antimicrob. Chemother. 51 2 (2003) 229-240
57. Tsunetsugu-Yokota Y., Akagawa K., Kimoto H., Suzuki K., Iwasaki M., Yasuda S., Hausser G., Hultgren C., Meyerhans A., and Takemori T. Monocyte-derived cultured dendritic cells are susceptible to human immunodeficiency virus infection and transmit virus to resting T cells in the process of nominal antigen presentation. J. Virol. 69 7 (1995) 4544-4547
58. Turville S., Wilkinson J., Cameron P., Dable J., and Cunningham A.L. The role of dendritic cell C-type lectin receptors in HIV pathogenesis. J. Leukocyte Biol. 74 5 (2003) 710-718
59. Tusher V.G., Tibshirani R., and Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc. Natl. Acad. Sci. U.S.A. 98 9 (2001) 5116-5121
60. van Opijnen T., Jeeninga R.E., Boerlijst M.C., Pollakis G.P., Zetterberg V., Salminen M., and Berkhout B. Human immunodeficiency virus type 1 subtypes have a distinct long terminal repeat that determines the replication rate in a host-cell-specific manner. J. Virol. 78 7 (2004) 3675-3683
61. van 't Wout A.B., Lehrman G.K., Mikheeva S.A., O'Keeffe G.C., Katze M.G., Bumgarner R.E., Geiss G.K., and Mullins J.I. Cellular gene expression upon human immunodeficiency virus type 1 infection of CD4 (+)-T-cell lines. J. Virol. 77 2 (2003) 1392-1402
62. Vazquez N., Greenwell-Wild T., Marinos N.J., Swaim W.D., Nares S., Ott D.E., Schubert U., Henklein P., Orenstein J.M., Sporn M.B., and Wahl S.M. Human immunodeficiency virus type 1-induced macrophage gene expression includes the p21 gene, a target for viral regulation. J. Virol. 79 7 (2005) 4479-4491
63. Wang L., Mukherjee S., Jia F., Narayan O., and Zhao L.J. Interaction of virion protein Vpr of human immunodeficiency virus type 1 with cellular transcription factor Sp1 and trans-activation of viral long terminal repeat. J. Biol. Chem. 270 43 (1995) 25564-25569
64. Wilflingseder D., Banki Z., Dierich M.P., and Stoiber H. Mechanisms promoting dendritic cell-mediated transmission of HIV. Mol. Immunol. 42 2 (2005) 229-237
65. Woelk C.H., Ottones F., Plotkin C.R., Du P., Royer C.D., Rought S.E., Lozach J., Sasik R., Kornbluth R.S., Richman D.D., and Corbeil J. Interferon gene expression following HIV type 1 infection of monocyte-derived macrophages. AIDS Res. Hum. Retroviruses 20 11 (2004) 1210-1222
66. Wu R.F., Gu Y., Xu Y.C., Mitola S., Bussolino F., and Terada L.S. Human immunodeficiency virus type 1 Tat regulates endothelial cell actin cytoskeletal dynamics through PAK1 activation and oxidant production. J. Virol. 78 2 (2004) 779-789