Transcription profiling of epstein-barr virus nuclear antigen (EBNA)-1 expressing cells suggests targeting of chromatin remodeling complexes

PLoS ONE

Volumn 5, Issue 8, 2010, Pages

  Sompallae, Ramakrishna ^a   Callegari, Simone ^a   Kamranvar, Siamak Akbari ^a   Masucci, Maria G ^a  

^a KAROLINSKA INSTITUTE   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

EPSTEIN BARR VIRUS ANTIGEN 1; GENE PRODUCT; RNA; EBV ENCODED NUCLEAR ANTIGEN 1; EBV-ENCODED NUCLEAR ANTIGEN 1; EPSTEIN BARR VIRUS ANTIGEN; PROTEIN;

ANTIGEN EXPRESSION; ARTICLE; B CELL LYMPHOMA; BINDING SITE; CANCER CELL CULTURE; CELL CULTURE; CHROMATIN ASSEMBLY AND DISASSEMBLY; CONTROLLED STUDY; GENE CONTROL; GENETIC ANALYSIS; GENETIC TRANSCRIPTION; MICROARRAY ANALYSIS; PROMOTER REGION; PROTEIN PROTEIN INTERACTION; EPSTEIN BARR VIRUS; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENETIC TRANSFECTION; GENETICS; HUMAN; METABOLISM; NUCLEOSOME; PATHOLOGY; TUMOR CELL LINE; VIROLOGY;

HUMAN HERPESVIRUS 4;

CELL LINE, TUMOR; CHROMATIN ASSEMBLY AND DISASSEMBLY; EPSTEIN-BARR VIRUS NUCLEAR ANTIGENS; GENE EXPRESSION; GENE EXPRESSION PROFILING; HERPESVIRUS 4, HUMAN; HUMANS; LYMPHOMA, B-CELL; NUCLEOSOMES; PROMOTER REGIONS, GENETIC; PROTEINS; TRANSFECTION;

EID: 77957809544     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0012052     Document Type: Article

References (54)

1. Rickinson AB, Kieff E (2007) Epstein-Barr Virus. In: Knipe DMHP, editor. Fields Virology. 5 ed. Philadelphia: Lippincott Williams & Wilkins. pp. 2603-2700.
2. Young LS, Rickinson AB (2004) Epstein-Barr virus: 40 years on. Nat Rev Cancer 4: 757-768.
3. Thorley-Lawson DA, Allday MJ (2008) The curious case of the tumour virus: 50 years of Burkitt's lymphoma. Nat Rev Microbiol 6: 913-924.
4. Thompson MP, Kurzrock R (2004) Epstein-Barr virus and cancer. Clin Cancer Res 10: 803-821.
5. Rawlins DR, Milman G, Hayward SD, Hayward GS (1985) Sequence-specific DNA binding of the Epstein-Barr virus nuclear antigen (EBNA-1) to clustered sites in the plasmid maintenance region. Cell 42: 859-868.
6. Leight ER, Sugden B (2000) EBNA-1: a protein pivotal to latent infection by Epstein-Barr virus. Rev Med Virol 10: 83-100.
7. Sugden B, Warren N (1989) A promoter of Epstein-Barr virus that can function during latent infection can be transactivated by EBNA-1, a viral protein required for viral DNA replication during latent infection. J Virol 63: 2644-2649.
8. Gahn TA, Sugden B (1995) An EBNA-1-dependent enhancer acts from a distance of 10 kilobase pairs to increase expression of the Epstein-Barr virus LMP gene. J Virol 69: 2633-2636.
9. Sample J, Henson EB, Sample C (1992) The Epstein-Barr virus nuclear protein 1 promoter active in type I latency is autoregulated. J Virol 66: 4654-4661.
10. Horner D, Lewis M, Farrell PJ (1995) Novel hypotheses for the roles of EBNA-1 and BHRF1 in EBV-related cancers. Intervirology 38: 195-205.
11. Dresang LR, Vereide DT, Sugden B (2009) Identifying sites bound by Epstein-Barr virus nuclear antigen 1 (EBNA1) in the human genome: defining a position-weighted matrix to predict sites bound by EBNA1 in viral genomes. J Virol 83: 2930-2940.
12. Dresang LR, Vereide DT, Sugden B (2009) Identifying Sites Bound by Epstein Barr Nuclear Antigen 1 (EBNA1) in the Human Genome; Defining a Position-Weighted Matrix to Predict Sites Bound by EBNA1 in Viral Genomes. J Virol.
13. Gruhne B, Sompallae R, Marescotti D, Kamranvar SA, Gastaldello S, et al. (2009) The Epstein-Barr virus nuclear antigen-1 promotes genomic instability via induction of reactive oxygen species. Proc Natl Acad Sci U S A 106: 2313-2318.
14. Flavell JR, Baumforth KR, Wood VH, Davies GL, Wei W, et al. (2008) Down-regulation of the TGF-beta target gene, PTPRK, by the Epstein-Barr virus encoded EBNA1 contributes to the growth and survival of Hodgkin lymphoma cells. Blood 111: 292-301.
15. Wood VH, O'Neil JD, Wei W, Stewart SE, Dawson CW, et al. (2007) Epstein-Barr virus-encoded EBNA1 regulates cellular gene transcription and modulates the STAT1 and TGFbeta signaling pathways. Oncogene 26: 4135-4147.
16. O'Neil JD, Owen TJ, Wood VH, Date KL, Valentine R, et al. (2008) Epstein-Barr virus-encoded EBNA1 modulates the AP-1 transcription factor pathway in nasopharyngeal carcinoma cells and enhances angiogenesis in vitro. J Gen Virol 89: 2833-2842.
17. Kang MS, Hung SC, Kieff E (2001) Epstein-Barr virus nuclear antigen 1 activates transcription from episomal but not integrated DNA and does not alter lymphocyte growth. Proc Natl Acad Sci U S A 98: 15233-15238.
18. Kirchmaier AL, Sugden B (1998) Rep*: a viral element that can partially replace the origin of plasmid DNA synthesis of Epstein-Barr virus. J Virol 72: 4657-4666.
19. Eddy SR (1998) Profile hidden Markov models. Bioinformatics 14: 755-763.
20. Dennis G Jr, Sherman BT, Hosack DA, Yang J, Gao W, et al. (2003) DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol 4: P3.
21. Huang da W, Sherman BT, Lempicki RA (2009) Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 4: 44-57.
22. Keshava Prasad TS, Goel R, Kandasamy K, Keerthikumar S, Kumar S, et al. (2009) Human Protein Reference Database-2009 update. Nucleic Acids Res 37: D767-772.
23. Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, et al. (2003) Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res 13: 2498-2504.
24. Ardila-Osorio H, Clausse B, Mishal Z, Wiels J, Tursz T, et al. (1999) Evidence of LMP1-TRAF3 interactions in glycosphingolipid-rich complexes of lymphoblastoid and nasopharyngeal carcinoma cells. Int J Cancer 81: 645-649.
25. Murray PG, Flavell JR, Baumforth KR, Toomey SM, Lowe D, et al. (2001) Expression of the tumour necrosis factor receptor-associated factors 1 and 2 in Hodgkin's disease. J Pathol 194: 158-164.
26. Cohen AJ, Bunn PA, Franklin W, Magill-Solc C, Hartmann C, et al. (1996) Neutral endopeptidase: variable expression in human lung, inactivation in lung cancer, and modulation of peptide-induced calcium flux. Cancer Res 56: 831-839.
27. Ruf IK, Rhyne PW, Yang H, Borza CM, Hutt-Fletcher LM, et al. (1999) Epstein-barr virus regulates c-MYC, apoptosis, and tumorigenicity in Burkitt lymphoma. Mol Cell Biol 19: 1651-1660.
28. Steeg PS, Bevilacqua G, Kopper L, Thorgeirsson UP, Talmadge JE, et al. (1988) Evidence for a novel gene associated with low tumor metastatic potential. J Natl Cancer Inst 80: 200-204.
29. Choi YJ, Cho SK, Hwang KC, Park C, Kim JH, et al. (2009) Nm23-M5 mediates round and elongated spermatid survival by regulating GPX-5 levels. FEBS Lett 583: 1292-1298.
30. Suzuki K, Hayashi T (2007) Protein C and its inhibitor in malignancy. Semin Thromb Hemost 33: 667-672.
31. He J, Baum LG (2006) Galectin interactions with extracellular matrix and effects on cellular function. Methods Enzymol 417: 247-256.
32. Legagneux V, Cubizolles F, Watrin E (2004) Multiple roles of Condensins: a complex story. Biol Cell 96: 201-213.
33. Clapier CR, Cairns BR (2009) The biology of chromatin remodeling complexes. Annu Rev Biochem 78: 273-304.
34. Bowen NJ, Fujita N, Kajita M, Wade PA (2004) Mi-2/NuRD: multiple complexes for many purposes. Biochim Biophys Acta 1677: 52-57.
35. Simon JA, Kingston RE (2009) Mechanisms of Polycomb gene silencing: knowns and unknowns. Nat Rev Mol Cell Biol.
36. Hsiao SJ, Smith S (2008) Tankyrase function at telomeres, spindle poles, and beyond. Biochimie 90: 83-92.
37. Martens JA, Winston F (2002) Evidence that Swi/Snf directly represses transcription in S. cerevisiae. Genes Dev 16: 2231-2236.
38. Sparmann A, van Lohuizen M (2006) Polycomb silencers control cell fate, development and cancer. Nat Rev Cancer 6: 846-856.
39. Humme S, Reisbach G, Feederle R, Delecluse HJ, Bousset K, et al. (2003) The EBV nuclear antigen 1 (EBNA1) enhances B cell immortalization several thousandfold. Proc Natl Acad Sci U S A 100: 10989-10994.
40. Sheu LF, Chen A, Meng CL, Ho KC, Lee WH, et al. (1996) Enhanced malignant progression of nasopharyngeal carcinoma cells mediated by the expression of Epstein-Barr nuclear antigen 1 in vivo. J Pathol 180: 243-248.
41. Reisman D, Sugden B (1986) trans activation of an Epstein-Barr viral transcriptional enhancer by the Epstein-Barr viral nuclear antigen 1. Mol Cell Biol 6: 3838-3846.
42. Sung NS, Wilson J, Davenport M, Sista ND, Pagano JS (1994) Reciprocal regulation of the Epstein-Barr virus BamHI-F promoter by EBNA-1 and an E2F transcription factor. Mol Cell Biol 14: 7144-7152.
43. Wysokenski DA, Yates JL (1989) Multiple EBNA1-binding sites are required to form an EBNA1-dependent enhancer and to activate a minimal replicative origin within oriP of Epstein-Barr virus. J Virol 63: 2657-2666.
44. Sears J, Ujihara M, Wong S, Ott C, Middeldorp J, et al. (2004) The amino terminus of Epstein-Barr Virus (EBV) nuclear antigen 1 contains AT hooks that facilitate the replication and partitioning of latent EBV genomes by tethering them to cellular chromosomes. J Virol 78: 11487-11505.
45. Cleynen I, Van de Ven WJ (2008) The HMGA proteins: a myriad of functions (Review). Int J Oncol 32: 289-305.
46. Takeda K, Akira S (2000) STAT family of transcription factors in cytokine-mediated biological responses. Cytokine Growth Factor Rev 11: 199-207.
47. Singh RK, Kabbaj MH, Paik J, Gunjan A (2009) Histone levels are regulated by phosphorylation and ubiquitylation-dependent proteolysis. Nat Cell Biol 11: 925-933.
48. Weake VM, Workman JL (2008) Histone ubiquitination: triggering gene activity. Mol Cell 29: 653-663.
49. Sarkari F, Sanchez-Alcaraz T, Wang S, Holowaty MN, Sheng Y, et al. (2009) EBNA1-mediated recruitment of a histone H2B deubiquitylating complex to the Epstein-Barr virus latent origin of DNA replication. PLoS Pathog 5: e1000624.
50. Sansam CG, Roberts CW (2006) Epigenetics and cancer: altered chromatin remodeling via Snf5 loss leads to aberrant cell cycle regulation. Cell Cycle 5: 621-624.
51. Roberts CW, Orkin SH (2004) The SWI/SNF complex-chromatin and cancer. Nat Rev Cancer 4: 133-142.
52. Isakoff MS, Sansam CG, Tamayo P, Subramanian A, Evans JA, et al. (2005) Inactivation of the Snf5 tumor suppressor stimulates cell cycle progression and cooperates with p53 loss in oncogenic transformation. Proc Natl Acad Sci U S A 102: 17745-17750.
53. Versteege I, Sevenet N, Lange J, Rousseau-Merck MF, Ambros P, et al. (1998) Truncating mutations of hSNF5/INI1 in aggressive paediatric cancer. Nature 394: 203-206.
54. Park JH, Park EJ, Hur SK, Kim S, Kwon J (2009) Mammalian SWI/SNF chromatin remodeling complexes are required to prevent apoptosis after DNA damage. DNA Repair (Amst) 8: 29-39.