Protein/DNA arrays identify nitric oxide-regulated cis-element and trans-factor activities some of which govern neuroblastoma cell viability

Nucleic Acids Research

Volumn 35, Issue 16, 2007, Pages 5439-5451

  Dhakshinamoorthy, Saravanakumar ^a,c   Sridharan, Shiva Ranjani ^a   Li, Lei ^a   Ng, Poh Yong ^a   Boxer, Linda M ^b   Porter, Alan G ^a  

^a INSTITUTE OF MOLECULAR AND CELL BIOLOGY   (Singapore)

^b STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c Aurigene Discovery Technologies Limited   (India)

Author keywords

[No Author keywords available]

Indexed keywords

CIS ACTING ELEMENT; CYCLIC AMP RESPONSIVE ELEMENT BINDING PROTEIN; MESSENGER RNA; NITRIC OXIDE; PROTEIN BCL 2; TRANS ACTING FACTOR; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR AP 1; TRANSCRIPTION FACTOR AP 2; TRANSCRIPTION FACTOR E2F1; TRANSCRIPTION FACTOR EGR; TRANSCRIPTION FACTOR POU4F1; TRANSCRIPTION FACTOR SP1; UNCLASSIFIED DRUG;

APOPTOSIS; ARTICLE; CELL DEATH; CELL VIABILITY; CONTROLLED STUDY; CYCLIC AMP RESPONSIVE ELEMENT; DNA MICROARRAY; GEL MOBILITY SHIFT ASSAY; GENE EXPRESSION REGULATION; GENE OVEREXPRESSION; GENE TARGETING; GENETIC REGULATION; HUMAN; HUMAN CELL; NEUROBLASTOMA CELL; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN BINDING; PROTEIN FUNCTION; PROTEIN MICROARRAY; PROTEIN PROTEIN INTERACTION; TRANSCRIPTION INITIATION; TRANSCRIPTION REGULATION;

APOPTOSIS; BINDING SITES; CELL LINE, TUMOR; CELL SURVIVAL; CYCLIC AMP; GENES, BCL-2; HUMANS; NEUROBLASTOMA; NITRIC OXIDE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTEIN ARRAY ANALYSIS; RESPONSE ELEMENTS; TRANS-ACTIVATION (GENETICS); TRANSCRIPTION FACTORS;

MAMMALIA;

EID: 34548769262     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkm594     Document Type: Article

References (56)

1. Michel,T. and Feron,O. (1997) Nitric oxide synthases: Which, where, how, and why? J. Clin. Invest., 100, 2146-2152.
2. Bogdan,C. (1998) The multiplex function of nitric bxide in (auto)immunity. J. Exp. Med., 187, 1361-1365.
3. Hemish, J., Nakaya,N., Mittal,V. and Enikolopov,G. (2003) Nitric oxide activates diverse signaling pathways to regulate gene expression. J. Biol. Chem., 278, 42321-42329.
4. Moncada,S. and Erusalimsky,J.D. (2002) Does nitric oxide modulate mitochondrial energy generation and apoptosis? Nat. Rev. Mol. Cell. Biol., 3, 214-220.
5. Lucas,K.A., Pitari,G.M., Kazerounian,S., Ruiz-Stewart,I., Park,J., Schulz,S., Chepenik,K.P. and Waldman,S.A. (2000) Guanylyl cyclases and signaling by cyclic GMP. Pharmacol. Rev., 52, 375-414.
6. Brune,B., von Knethen,A. and Sandau,K.B. (1999) Nitric oxide (NO): An effector of apoptosis. Cell Death Differ., 6, 969-975.
7. Li,C.Q. and Wogan,G.N. (2005) Nitric oxide as a modulator of apoptosis. Cancer Lett., 226, 1-15.
8. Bogdan,C. (2001) Nitric oxide and the regulation of gene expression. Trends Cell. Biol., 11, 66-75.
9. Choi,B.M., Pae.H.O. and Chung,H.T. (2003) Nitric oxide priming protects nitric oxide-mediated apoptosis via heme oxygenase-1 induction. Free Radic Biol. Med., 34, 1136-1145.
10. Ciani,E., Guidi,S., Della,V.G., Perini.G., Bartesaghi,R. and Contestabile,A. (2002) Nitric oxide protects neuroblastoma cells from apoptosis induced by serum deprivation through cAMP-response element-binding protein (CREB) activation. J. Biol. Chem., 277 49896-49902.
11. Dhakshinamoorthy,S. and Porter,A.G. (2004) Nitric oxide-induced transcriptional up-regulation of protective genes by Nrf2 via the antioxidant response element counteracts apoptosis of neuroblastoma cells. J. Biol. Chem., 279, 20096-20107.
12. Okada,S., Zhang,H., Hatano,M. and Tokuhisa,T. (1998) A physiologic role of Bcl-xL induced in activated macrophages. J. Immunol., 160 2590-2596.
13. Xu,W., Liu,L., Smith,G.C. and Charles,G. (2000) Nitric oxide upregulates expression of DNA-PKcs to protect cells from DNA-damaging anti-tumour agents. Nat. Cell. Biol., 2, 339-345.
14. Brune,B. (2003) Nitric oxide: NO apoptosis or turning it ON? Cell Death Differ., 10, 864-869.
15. McLaughlin,L.M. and Demple,B. (2005) Nitric oxide-induced apoptosis in lymphoblastoid and fibroblast cells dependent on the phosphorylation and activation of p53. Cancer Res., 65, 6097-4104.
16. Li,C.Q., Robles,A.I., Hanigan,C.L., Hofseth,L.J., Trudel,L.J., Harris,C.C. and Wogan,G.N. (2004) Apoptotic signaling pathways induced by nitric oxide in human lymphoblastoid cells expressing wild-type or mutant p53. Cancer Res., 64, 3022-3029.
17. Hess,D.T., Matsumoto,A., Kim,S.O., Marshall,H.E. and Stamler, J.S. (2005) Protein S-nitrosylation: Purview and parameters. Nat. Rev. Mol. Cell. Biol., 6, 150-166.
18. Benhar,M. and Stamler, J.S. (2005) A central role for S-nitrosylation in apoptosis. Nat. Cell Biol., 7, 645-646.
19. Contestabile,A., Monti,B., Contestabile,A. and Ciani,E. (2003) Brain nitric oxide and its dual role in neurodegeneration/neuroprotection: understanding molecular mechanisms to devise drug approaches. Curr. Med. Chem., 10, 2147-2174.
20. Marshall,H.E., Hess,D.T. and Stamler, J.S. (2004) S-nitrosylation: physiological regulation of NF-kappaB. Proc. Natl Acad. Sci. USA, 101, 8841-8842.
21. Schneiderhan,N., Budde,A., Zhang,Y. and Brune,B. (2003) Nitric oxide induces phosphorylation of p53 and impairs nuclear export. Oncogene 22, 2857-2868.
22. Wang,X., Zalcenstein,A. and Oren,M. (2003) Nitric oxide promotes p53 nuclear retention and sensitizes neuroblastoma cells to apoptosis by ionizing radiation. Cell Death Differ., 10, 468-476.
23. Berendji,D., Kolb-Bachofen,V., Zipfel,P.F., Skerka,C., Carlberg,C. and Kroncke,K.D. (1999) Zinc finger transcription factors as molecular targets for nitric oxide-mediated immunosuppression: Inhibition of IL-2 gene expression in murine lymphocytes. Mol. Med., 5, 721-730.
24. Kimura,H., Weisz,A., Kurashima,Y., Hashimoto,K., Ogura,T., D'Acquisto,F., Addeo,R., Makuuchi,M. and Esumi,H. (2000) Hypoxia response element of the human vascular endothelial growth factor gene mediates transcriptional regulation by nitric oxide: Control of hypoxia-inducible factor-1 activity by nitric oxide. Blood, 95 189-197.
25. Kroncke,K.D. and Carlberg,C. (2000) Inactivation of zinc finger transcription factors provides a mechanism for a gene regulatory role of nitric oxide. FASEB J., 14, 166-173.
26. Matthews,J.R., Botting,C.H., Panico,M., Morris,H.R. and Hay,R.T. (1996) Inhibition of NF-kappaB DNA binding by nitric oxide. Nucleic Acids Res., 24, 2236-2242.
27. Pilz,R.B., Suhasini,M., Idriss,S., Meinkoth,J.L. and Boss,G.R. (1995) Nitric oxide and cGMP analogs activate transcription from AP-1-responsive promoters in mammalian cells. FASEB J., 9, 552-558.
28. Feng,Z., Li,L., Ng,P.Y. and Porter,A.G. (2002) Neuronal differentiation and protection from nitric oxide-induced apoptosis require c-Jun-dependent expression of NCAM140. Mol. Cell. Biol., 22, 5357-5366.
29. Heckman,C.A., Mehew,J.W. and Boxer,L.M. (2002) NF-kappaB activates Bcl-2 expression in t(14;18) lymphoma cells. Oncogene, 21, 3898-3908.
30. Jiang,X., Norman,M., Roth,L. and Li,X. (2004) Protein-DNA array-based identification of transcription factor activities regulated by interaction with the glucocorticoid receptor. J. Biol. Chem., 279, 38480-38485.
31. Dhakshinamoorthy,S. and Jaiswal,A.K. (2000) Small maf (MafG and MafK) proteins negatively regulate antioxidant response element-mediated expression and antioxidant induction of the NAD(P)H:QUinone oxidoreductase1 gene. J. Biol. Chem., 275, 40134-40141.
32. Li,L., Feng,Z. and Porter,A.G. (2004) JNK-dependent phosphorylation of c-Jun on serine 63 mediates nitric oxide-induced apoptosis of neuroblastoma cells. J. Biol. Chem., 279, 4058-4065.
33. Hentze,H., Lin,X.Y., Choi,M.S. and Porter,A.G. (2003) Critical role for cathepsin B in mediating caspase-1-dependent interleukin-18 maturation and caspase-1-independent necrosis triggered by the microbial toxin nigericin. Cell Death Differ., 10, 956-968.
34. Tosetti,F., Vene,R., Arena,G., Morini,M., Minghelli,S., Noonan,D.M. and Albini,A. (2003) N-(4-hydroxyphenyl) retinamide inhibits retinoblastoma growth through reactive oxygen species-mediated cell death. Mol. Pharmacol., 63, 565-573.
35. Ciani,E., Guidi,S., Bartesaghi,R. and Contestabile,A. (2002) Nitric oxide regulates cGMP-dependent cAMP-responsive element binding protein phosphorylation and Bcl-2 expression in cerebellar neurons: Implication for a survival role of nitric oxide. J. Neurochem., 82, 1282-1289.
36. Ciani,E., Severi,S., Contestabile,A., Bartesaghi,R. and Contestabile,A. (2004) Nitric oxide negatively regulates proliferation and promotes neuronal differentiation through N-Myc down-regulation. J. Cell. Sci. 117, 4727-4737.
37. Chiarugi,V., Del Rosso,M. and Magnelli,L. (2002) Brn-3a, a neuronal transcription factor of the POU gene family: Indications for its involvement in cancer and angiogenesis. Mol. Biotechnol., 22 123-127.
38. Crosby,M.E. and Almasan,A. (2004) Opposing roles of E2Fs in cell proliferation and death. Cancer Biol. Ther., 3, 1208-1211.
39. Moser,M., Pscherer,A., Roth,C., Becker,J., Mucher,G., Zerres,K., Dixkens,C., Weis,J., Guay-Woodford,L. et al. (1997) Enhanced apoptotic cell death of renal epithelial cells in mice lacking transcription factor AP-2beta. Genes Dev., 11, 1938-1948.
40. Pilz,R.B. and Casteel,D.E. (2003) Regulation of gene expression by cyclic GMP. Circ. Res., 93, 1034-1046.
41. Budhram-Mahadeo,V.S., Bowen,S., Lee,S., Perez-Sanchez,C., Ensor,E., Morris,P.J. and Latchman,D.S. (2006) Brn-3b enhances the pro-apoptotic effects of p53 but not its induction of cell cycle arrest by cooperating in trans-activation of bax expression. Nucleic Acids Res., 34 6640-6652.
42. Budram-Mahadeo,V., Morris,P.J. and Latchman,D.S. (2002) The Brn-3a transcription factor inhibits the pro-apoptotic effect of p53 and enhances cell cycle arrest by differentially regulating the activity of the p53 target genes encoding Bax and p21(CIP1/Waf1). Oncogene, 21, 6123-6131.
43. Schorle,H., Meier,P., Buchert,M., Jaenisch,R. and Mitchell,P.J. (1996) Transcription factor AP-2 essential for cranial closure and craniofacial development. Nature, 381, 235-238.
44. Gaubatz,S., Imhof,A., Dosch,R., Werner,O., Mitchell,P., Buettner,R. and Eilers,M. (1995) Transcriptional activation by Myc is under negative control by the transcription factor AP-2. EMBO J., 14, 1508-1519.
45. Huang,S., Jean,D., Luca,M., Tainsky,M.A. and Bar-Eli,M. (1998) Loss of AP-2 results in downregulation of c-KIT and enhancement of melanoma tumorigenicity and metastasis. EMBO J., 17, 4358-4369.
46. Wajapeyee,N. and Somasundaram,K. (2003) Cell cycle arrest and apoptosis induction by activator protein 2alpha (AP-2alpha) and the role of p53 and p21WAF1/CIP1 in AP-2alpha-mediated growth inhibition. J. Biol. Chem., 278, 52093-52101.
47. Wang,D., Shin,T.H. and Kudlow,J.E. (1997) Transcription factor AP-2 controls transcription of the human transforming growth factor-alpha gene. J. Biol. Chem., 272, 14244-14250.
48. Fu,M., Zhu,X., Zhang,J., Liang,J., Lin,Y., Zhao,L., Ehrengruber,M.U. and Chen,Y.E. (2003) Egr-1 target genes in human endothelial cells identified by microarray analysis. Gene, 315, 33-41.
49. Hudson,C.D., Morris,P.J., Latchman,D.S. and Budhram-Mahadeo, V.S. (2005) Brn-3a transcription factor blocks p53-mediated activation of proapoptotic target genes Noxa and Bax in vitro and in vivo to determine cell fate. J. Biol. Chem., 280, 11851-11858.
50. Chen,B.S. and Hampsey,M. (2002) Transcription activation: Unveiling the essential nature of TFIID. Curr. Biol., 12, R620-R622.
51. Martin,J.F., Schwarz,J.J. and Olson,E.N. (1993) Myocyte enhancer factor (MEF) 2C: A tissue-restricted member of the MEF-2 family of transcription factors. Proc. Natl Acad. Sci. USA, 90, 5282-5286.
52. von Knethen,A. and Brune,B. (2002) Activation of peroxisome proliferator-activated receptor gamma by nitric oxide in monocytes/ macrophages down-regulates p47phox and attenuates the respiratory burst. J. Immunol., 169, 2619-2626.
53. Crosby,M.B., Svenson,J., Gilkeson,G.S. and Nowling,T.K. (2005) A novel PPAR response element in the murine iNOS promoter. Mol. Immunol., 42, 1303-1310.
54. Park,S.W., Sung,M.W., Heo,D.S., Inoue,H., Shim,S.H. and Kim,K.H. (2005) Nitric oxide upregulates the cyclooxygenase-2 expression through the cAMP-response element in its promoter in several cancer cell lines. Oncogene, 24, 6689-6698.
55. Kitamura,Y., Kamoshima,W., Shimohama,S., Nomura,Y. and Taniguchi,T. (1998) Nitric oxide donor-induced p53-sensitive cell death is enhanced by Bcl-2 reduction in human neuroblastoma cells. Neurochem. Int., 32, 93-102.
56. Melkova,Z., Lee,S.B., Rodriguez,D. and Esteban,M. (1997) Bcl-2-prevents nitric oxide-mediated apoptosis and poly(ADP-ribose) polymerase cleavage. FEBS Lett., 403, 273-278.