Quantitative comparison of the HSV-1 and HSV-2 transcriptomes using DNA microarray analysis

Virology

Volumn 348, Issue 1, 2006, Pages 233-241

  Aguilar, J S ^a   Devi Rao, G V ^a   Rice, M K ^a   Sunabe, J ^a   Ghazal, P ^b   Wagner, E K ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

DNA microarray; HSV 1; HSV 2; Kinetics; RNA expression; Transcriptome

Indexed keywords

TRANSCRIPTOME; VIRUS DNA;

ANIMAL CELL; ANIMAL MODEL; ARTICLE; COMPARATIVE STUDY; CONTROLLED STUDY; DNA MICROARRAY; GENE LOCATION; HERPES SIMPLEX; HERPES SIMPLEX VIRUS 1; HERPES SIMPLEX VIRUS 2; HYBRIDIZATION; KINETICS; MOLECULAR PROBE; MOUSE; NONHUMAN; ORTHOLOGY; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; VIRUS TRANSCRIPTION;

ANIMALS; BIOLOGICAL TRANSPORT; BLOTTING, NORTHERN; GENE EXPRESSION PROFILING; HERPESVIRUS 1, HUMAN; HERPESVIRUS 2, HUMAN; KINETICS; MICE; NIH 3T3 CELLS; NUCLEIC ACID HYBRIDIZATION; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; RNA, MESSENGER; RNA, VIRAL; TIME FACTORS; TRANSCRIPTION, GENETIC; VIRAL PROTEINS;

ANIMALIA; DNA VIRUSES; HERPES; HUMAN HERPESVIRUS 1; HUMAN HERPESVIRUS 2; SIMPLEXVIRUS;

EID: 33646026107     PISSN: 00426822     EISSN: 10960341     Source Type: Journal    
DOI: 10.1016/j.virol.2005.12.036     Document Type: Article

References (50)

1. Aguilar J.S., Roy D., Ghazal P., and Wagner E.K. Dimethyl sulfoxide blocks herpes simplex virus-1 productive infection in vitro acting at different stages with positive cooperativity. Application of micro-array analysis. BMC Infect. Dis. 2 (2002) 9. www.biomedcentral.com/1471-2334/2/9
2. Aguilar J.S., Ghazal P., and Wagner E.K. Design of a herpes virus type 2 oligonucleotide-based DNA and preliminary global analysis of HSV-2 transcript abundance during productive infection. DNA Viruses: Methods and Protocols. Methods in Molecular Biology vol. 298 (2004) 423-448
3. Andrei G., van den Oord J., Fiten P., Opdenakker G., De Wolf-Peeters C., De Clercq E., and Snoeck R. Organotypic epithelial raft cultures as a model for evaluating compounds against alphaherpesviruses. Antimicrob. Agents Chemother. 49 (2005) 4671-4680
4. Baines J.D., and Roizman B. The open reading frames UL3, UL4, UL10 and UL16 are dispensable for the replication of herpes-simplex virus in cell-culture. J. Virol. 65 (1991) 938-944
5. Braig S., and Chanzy B. Prise en charge practique de l'herpes genital (Clinical management of genital herpes: current issues in pregnancy). Pathol. Biol. 50 (2002) 472-476
6. Burkham J., Coen D.M., Hwang C.B.C., and Weller S.K. Interactions of herpes simplex virus type 1 with ND10 and recruitment of PML to replication compartments. J. Virol. 75 (2001) 2353-2367
7. Cheshenko N., and Herold B.C. Glycoprotein B plays a predominant role in mediating herpes simplex virus type 2 attachment and is required for entry and cell-to-cell spread. J. Gen. Virol. 83 (2002) 2247-2255
8. Devi-Rao G.V., Goodart S.A., Hecht L.M., Rochford R., Rice M.K., and Wagner E.K. Relationship between polyadenylated and nonpolyadenylated herpes-simplex virus type-1 latency-associated transcripts. J. Virol. 65 (1991) 2179-2190
9. Eide T., Marsden H.S., Leib D.A., Cunningham C., Davison A.J., Langeland N., and Haarr L. Identification of the UL4 protein in herpes simplex virus type 1. J. Gen. Virol. 79 (1998) 3033-3038
10. Everly Jr. D.N., and Read G.S. Mutational analysis of the virion host shutoff gene (UL41) of herpes simplex virus (HSV): characterization of HSV type 1 (HSV-1)/HSV-2 chimeras. J. Virol. 71 (1997) 7157-7166
11. Everly Jr. D.N., and Read G.S. Site-directed mutagenesis of the virion host shutoff gene (UL41) of herpes simplex virus: analysis of functional differences between HSV-1 and HSV-2 alleles. J. Virol. 73 (1999) 9117-9129
12. Geiss B.J., Cano G.L., Travis J.E., and Morrison L.A. Herpes simplex virus 2 VP22 phosphorylation induced by cellular and viral kinases does not influence intracellular localization. Virology 330 (2004) 74-81
13. Gong Y., Raj K.M., Luscombe C.A., Gadauski I., Tam T., Chu J., Gibson D., Carlson R., and Sacks S. The synergistic effect of betulin with acyclovir against herpes simplex virus. Antivirus Res. 64 (2004) 127-130
14. Goswami B.B. Transcriptional induction of proto-oncogene fos by HSV-2. Biochem. Biophys. Res. Commun. 143 (1987) 1055-1062
15. Guzowski J.F., Singh J., and Wagner E.K. Transcriptional activation of the Herpes simplex virus type 1 UL38 promoter conferred by the cis-acting downstream activation sequence is mediated by a cellular transcription factor. J. Virol. 68 (1994) 7774-7789
16. Herold B.C., WuDunn D., Soltys N., and Spear P.G. Glycoprotein C of herpes simplex virus type 1 plays a principal role in the adsorption of virus to cells and in infectivity. J. Virol. 65 (1991) 1090-1098
17. Herold B.C., Visalli R., Susmarski N., Brant C.R., and Spear P.G. Glycoprotein C-independent binding of herpes simplex virus to cells requires cell surface heparan sulfate and glycoprotein B. J. Gen. Virol. 75 (1994) 1214-1222
18. Herold B.C., Gerber S.I., Belval B.J., Siston A.M., and Shulman N. Differences in the susceptibility of herpes simplex virus types 1 and 2 to modified heparin compounds suggest serotype differences in viral entry. J. Virol. 70 (1996) 3461-3469
19. Hill T.M., Sinden R.R., and Sadler J.R. Herpes simplex virus types 1 and 2 induce shutoff of host protein synthesis by different mechanisms in Friend erythroleukemia cells. J. Virol. 45 (1983) 241-250
20. Hill T.M., Sadler J.R., and Betz J.L. Virion component of herpes simplex virus type 1 KOS interferes with early shutoff of host protein synthesis induced by herpes simplex virus type 2 186. J. Virol. 56 (1985) 312-316
21. Jerome K.R., Tait J.F., Koelle D.M., and Corey L. Herpes simplex virus type 1 renders infected cells resistant to cytotoxic T-lymphocyte-induced apoptosis. J. Virol. 72 (1998) 436-444
22. Jin P., and Ringertz N.R. Cadmium induces transcription of proto-oncogenes c-jun and c-myc in rat L6 myoblasts. J. Biol. Chem. 265 (1990) 14061-14062
23. Krause P.R., Ostrove J.R., and Straus S.E. The nucleotide sequence, 5′end, promoter domain and kinetic of expression of the gene encoding the herpes simplex virus type 2 latency associated transcript. J. Virol. 65 (1991) 5619-5623
24. Laquerre S., Argnani R., Anderson D.B., Zucchini S., Mansevigi R., and Glorioso J.C. Heparan sulfate proteoglycan binding by herpes simplex virus type 1 glycoprotein B and C, which differ in their contribution to virus attachment, penetration and cell-to-cell spread. J. Virol. 72 (1998) 6119-6130
25. Lieu P.T., and Wagner E.K. The kinetics of VP5 mRNA expression is not critical for viral replication in cultured cells. J. Virol. 74 (2000) 2770-2776
26. Liptak L.M., Uprichard S.L., and Knipe D.M. Functional order of assembly of herpes simplex virus DNA replication proteins into prereplicative structures. J. Virol. 70 (1996) 1759-1767
27. Lukonis C.J., and Weller S.K. Characterization of nuclear structures in cells infected with herpes simplex virus type 1 in the absence of viral DNA replication. J. Virol. 70 (1996) 1751-1758
28. Markovitz N.S., and Roizman B. Small dense nuclear bodies are the site of localization of herpes simplex virus 1 U(L)3 and U(L)4 proteins and of ICP22 only when the later protein is present. J. Virol. 74 (2000) 523-528
29. Olesky M., McNamee E.E., Zhou C., Taylor T.J., and Knipe D.M. Evidence for a direct interaction between HSV-1ICP27 and ICP8 proteins. Virology 331 (2005) 94-105
30. Reynolds A.E., Wills E.G., Roller R.J., Ryckman B.J., and Baines J.D. Ultrastructural localization of the herpes simplex virus type 1 UL31, UL34, and US3 proteins suggests specific roles in primary envelopment and egress of nucleocapsids. J. Virol. 76 (2002) 8939-8952
31. Reynolds A.E., Liang L., and Baines J.D. Conformational changes in the nuclear lamina induced by herpes simplex virus type 1 require genes UL31 and UL34. J. Virol. 78 (2004) 5564-5575
32. Roizman B., and Knipe D. Herpes simplex viruses and their replication. In: Knipe D., Howley P., et al. (Eds). Fields Virology. 4th ed. (2001), Lippincott-Raven, Publisher, Philadelphia 2394-2459
33. Rux A.H., Lou H., Lambris J.D., Friedman H.M., Eisenberg R.J., and Cohen G.H. Kinetic analysis of glycoprotein C of herpes simplex virus types 1 and 2 binding to heparin, heparan sulfate, and complement component C3b. Virology 294 (2002) 324-332
34. Simpson-Holley M., Colgrove R.C., Nalepa G., Harper J.W., and Knipe D.M. Identification and functional evaluation of cellular and viral factors involved in the alteration of nuclear architecture during herpes simplex virus 1 infection. J. Virol. 79 (2005) 12840-12851
35. Spear P.G. Herpes simplex virus: receptors and ligands for cell entry. Cell. Microbiol. 6 (2004) 401-410
36. Spear P.G., and Longnecker R. Herpes virus entry: an update. J. Virol. 77 (2003) 10179-10185
37. Strelow L.I., and Leib D.A. Role of the virion host shutoff (vhs) of herpes simplex virus type 1 in latency and pathogenesis. J. Virol. 69 (1995) 6779-6786
38. Sun A.-X., Devi-Rao G.V., Rice M.K., Gary L.H., Bloom D.C., Sandri-Goldin R.M., Ghazal P., and Wagner E.K. Immediate-early expression of the HSV-1 ICP27 transcript is not critical for efficient replication in vitro or in vivo. J. Virol. 78 (2004) 10470-10478
39. Sun A.-X., Devi-Rao G.V., Rice M.K., Gary L.H., Bloom D.C., Sandri-Goldin R.M., Ghazal P., and Wagner E.K. The TATGARAT box of the HSV-1 ICP27 gene is essential for immediate early expression but not critical for efficient replication in vitro or in vivo. Virus Genes 29 (2004) 334-343
40. Taylor T.J., and Knipe D.M. Proteomics of herpes simplex virus replication compartments: association of cellular DNA replication, repair, recombination, and chromatin remodeling proteins with ICP8. J. Virol. 78 (2004) 5856-5866
41. Thakur A., Athmanathan S., and Wilcox M. The differential regulation of nitric oxide by herpes simplex virus-1 and -2 in a corneal epithelial cell line. Clin. Exp. Ophthamol. 28 (2003) 188-190
42. Tran R.K., Lieu P.T., Aguilar J.S., Wagner E.K., and Bloom D.C. Altering the expression kinetics of VP5 results in altered virulence and pathogenesis of herpes simplex virus type 1 in mice. J. Virol. 76 (2002) 2199-2205
43. Wagner E.K., Guzowski J.F., and Singh J. Transcription of the herpes simplex virus genome during productive and latent infection. In: Cohn W.H., and Moldave K. (Eds). Progress in Nucleic Acid Research and Molecular Biology (1995), Academic Press 123-165
44. Wagner E.K., Garcia-Ramirez J.J., Stingley S.W., Aguilar J.S., Buehler L., Devi-Rao G.B., and Ghazal P. Practical approaches to long oligonucleotide-based DNA microarray: lessons from herpesviruses. Prog. Nucl. Acid Res. 71 (2002) 445-491
45. Warner M.S., Geraghty R.J., Martinez W.M., Montgomery R.I., Whitbeck J.C., Xu R., Eisenberg R.J., Cohenand G.H., and Spear P.G. A cells surface protein with herpesvirus entry activity (HveB) converts susceptibility to infections by mutants of herpes simplex virus type I, herpes simplex virus type 2 and pseudorabies virus. Virology 246 (1998) 179-189
46. Whitley R.J. Herpes simplex viruses. In: Knipe D., Howley P., et al. (Eds). Fields Virology. 4th ed. (2001), Lippincott-Raven, Philadelphia 2461-2509
47. Yamada H., Jiang Y.M., Oshima S., Wada K., Goshima P., Daikoku T., and Nishiyama Y. Characterization of the UL4 gene product of herpes simplex virus type 2. Arch. Virol. 143 (1998) 1199-1207
48. Yang W.C., Devi-Rao G.V., Ghazal P., Wagner E.K., and Trizenberg S.J. General and specific alterations in programming of global viral gene expression during infection by VP16 activation-deficient mutants of herpes simplex virus type 1. J. Virol. 76 (2002) 12758-12774
49. Zago A., and Spear P.G. Differences in N-termini of herpes simplex viruses type 1 and type 2 gDs that influence functional interactions with human entry receptor nectin-2 and an entry receptor expressed in Chinese hamster ovary cells. J. Virol. 77 (2003) 9695-9699
50. Zhu H.Y., Yamada H., Jiang Y.M., Yamada M., and Nishiyama Y. Intracellular localization of the UL31 protein of herpes simplex virus type 2. Arch. Virol. 144 10 (1999) 1923-1935