Sp sites contribute to basal and inducible expression of the human TNIP1 (TNFα-inducible protein 3-interacting protein 1) promoter

Biochemical Journal

Volumn 452, Issue 3, 2013, Pages 519-529

  Encarnacao, Priscilla C ^a   Ramirez, Vincent P ^a   Zhang, Carmen ^a   Aneskievic, Brian J ^a  

^a UNIVERSITY OF CONNECTICUT   (United States)

Author keywords

Nuclear receptor; Retinoic acid receptor (RAR); Specificity protein 1 (Sp1); Specificity protein 3 (Sp3); Tumour necrosis factor inducible protein 3 interacting protein 1 (TNIP1)

Indexed keywords

COREPRESSOR PROTEIN; MESSENGER RNA; MITHRAMYCIN; RETINOIC ACID RECEPTOR; SMALL INTERFERING RNA; TRANSCRIPTION FACTOR SP; TRANSCRIPTION FACTOR SP1; TRANSCRIPTION FACTOR SP3; TUMOR NECROSIS FACTOR ALPHA INDUCIBLE PROTEIN 3 INTERACTING PROTEIN 1; UNCLASSIFIED DRUG;

ARTICLE; CHROMATIN IMMUNOPRECIPITATION; CONTROLLED STUDY; FEMALE; GC RICH SEQUENCE; GEL MOBILITY SHIFT ASSAY; GENE EXPRESSION; GENE EXPRESSION REGULATION; HUMAN; HUMAN CELL; LIGAND BINDING; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN BINDING; PROTEIN DNA BINDING; RECEPTOR BINDING; TRANSCRIPTION INITIATION; TRANSCRIPTION INITIATION SITE;

BASE SEQUENCE; CACO-2 CELLS; DNA-BINDING PROTEINS; DOWN-REGULATION; GENE KNOCKDOWN TECHNIQUES; HELA CELLS; HEP G2 CELLS; HUMANS; JURKAT CELLS; MCF-7 CELLS; MOLECULAR SEQUENCE DATA; PROMOTER REGIONS, GENETIC; PROTEIN BINDING; RNA, MESSENGER; SP1 TRANSCRIPTION FACTOR; SP3 TRANSCRIPTION FACTOR;

EID: 84878379725     PISSN: 02646021     EISSN: 14708728     Source Type: Journal    
DOI: 10.1042/BJ20121666     Document Type: Article

References (54)

1. Ramirez, V. P., Gurevich, I. and Aneskievich, B. J. (2012) Emerging roles for TNIP1 in regulating post-receptor signaling. Cytokine Growth Factor Rev. 23, 109-118
2. Tian, B., Nowak, D. E. and Brasier, A. R. (2005) A TNF-induced gene expression program under oscillatory NF-κB control. BMC Genomics 6, 137
3. Zhang, S., Fukushi, M., Hashimoto, S., Gao, C., Huang, L., Fukuyo, Y., Nakajima, T., Amagasa, T., Enomoto, S., Koike, K. et al. (2002) A new ERK2 binding protein, Naf1, attenuates the EGF/ERK2 nuclear signaling. Biochem. Biophys. Res. Commun. 297, 17-23
4. Gurevich, I., Flores, A. M. and Aneskievich, B. J. (2007) Corepressors of agonist-bound nuclear receptors. Toxicol. Appl. Pharmacol. 223, 288-298 (Pubitemid 47362217)
5. Gupta, K., Ott, D., Hope, T. J., Siliciano, R. F. and Boeke, J. D. (2000) A human nuclear shuttling protein that interacts with human immunodeficiency virus type 1 matrix is packaged into virions. J. Virol. 74, 11811-11824 (Pubitemid 32222331)
6. Oshima, S., Turer, E. E., Callahan, J. A., Chai, S., Advincula, R., Barrera, J., Shifrin, N., Lee, B., Yen, T. S. B., Woo, T. et al. (2009) ABIN-1 is a ubiquitin sensor that restricts cell death and sustains embryonic development. Nature 457, 906-909
7. El Bakkouri, K., Wullaert, A., Haegman, M., Heyninck, K. and Beyaert, R. (2005) Adenoviral gene transfer of the NF-κB inhibitory protein ABIN-1 decreases allergic airway inflammation in a murine asthma model. J. Biol. Chem. 280, 17938-17944 (Pubitemid 41389035)
8. Gallagher, J., Howlin, J., McCarthy, C., Murphy, E. P., Bresnihan, B., FitzGerald, O., Godson, C., Brady, H. R. and Martin, F. (2003) Identification of Naf1/ABIN-1 among TNF-α-induced expressed genes in human synoviocytes using oligonucleotide microarrays. FEBS Lett. 551, 8-12 (Pubitemid 37281319)
9. Nair, R. P., Duffin, K. C., Helms, C., Ding, J., Stuart, P. E., Goldgar, D., Gudjonsson, J. E., Li, Y., Tejasvi, T., Feng, B. J. et al. (2009) Genome-wide scan reveals association of psoriasis with IL-23 and NF-κB pathways. Nat. Genet. 41, 199-204
10. Han, J. W., Zheng, H. F., Cui, Y., Sun, L. D., Ye, D. Q., Hu, Z., Xu, J. H., Cai, Z. M., Huang, W., Zhao, G. P. et al. (2009) Genome-wide association study in a Chinese Han population identifies nine new susceptibility loci for systemic lupus erythematosus. Nat. Genet. 41, 1234-1237
11. Gateva, V., Sandling, J. K., Hom, G., Taylor, K. E., Chung, S. A., Sun, X., Ortmann, W., Kosoy, R., Ferreira, R. C., Nordmark, G. et al. (2009) A large-scale replication study identifies TNIP1, PRDM1, JAZF1, UHRF1BP1 and IL10 as risk loci for systemic lupus erythematosus. Nat. Genet. 41, 1228-1233
12. He, C. F., Liu, Y. S., Cheng, Y. L., Gao, J. P., Pan, T. M., Han, J. W., Quan, C., Sun, L. D., Zheng, H. F., Zuo, X. B. et al. (2010) TNIP1, SLC15A4, ETS1, RasGRP3 and IKZF1 are associated with clinical features of systemic lupus erythematosus in a Chinese Han population. Lupus 19, 1181-1186
13. Kawasaki, A., Ito, S., Furukawa, H., Hayashi, T., Goto, D., Matsumoto, I., Kusaoi, M., Ohashi, J., Graham, R. R., Matsuta, K. et al. (2010) Association of TNFAIP3 interacting protein 1, TNIP1 with systemic lupus erythematosus in a Japanese population: a case-control association study. Arthritis Res. Ther. 12, R174
14. Allanore, Y., Saad, M., Dieudé, P., Avouac, J., Distler, J. H., Amouyel, P., Matucci-Cerinic, M., Riemekasten, G., Airo, P., Melchers, I. et al. (2011) Genome-wide scan identifies TNIP1, PSORS1C1, and RHOB as novel risk loci for systemic sclerosis. PLoS Genet. 7, e1002091
15. Tian, B., Nowak, D. E., Jamaluddin, M., Wang, S. and Brasier, A. R. (2005) Identification of direct genomic targets downstream of the nuclear factor-κB transcription factor mediating tumor necrosis factor signaling. J. Biol. Chem. 280, 17435-17448 (Pubitemid 41389215)
16. Gurevich, I., Zhang, C., Encarnacao, P. C., Struzynski, C. P., Livings, S. E. and Aneskievich, B. J. (2012) PPARγ and NF-κB regulate the gene promoter activity of their shared repressor, TNIP1. Biochim. Biophys. Acta 1819, 1-15
17. Verstrepen, L., Carpentier, I., Verhelst, K. and Beyaert, R. (2009) ABINs: A20 binding inhibitors of NF-κB and apoptosis signaling. Biochem. Pharmacol. 78, 105-114
18. Varga, T., Czimmerer, Z. and Nagy, L. (2011) PPARs are a unique set of fatty acid regulated transcription factors controlling both lipid metabolism and inflammation. Biochim. Biophys. Acta 1812, 1007-1022
19. Stolk, J., Stockley, R. A., Stoel, B. C., Cooper, B. G., Piitulainen, E., Seersholm, N., Chapman, K. R., Burdon, J. G., Decramer, M., Abboud, R. T. et al. (2012) Randomized controlled trial for emphysema with a selective agonist of the gamma type retinoic acid receptor. Eur. Respir. J. 40, 306-312
20. Wierstra, I. (2008) Sp1: emerging roles - beyond constitutive activation of TATA-less housekeeping genes. Biochem. Biophys. Res. Commun. 372, 1-13
21. Kadonaga, J. T. and Tjian, R. (1986) Affinity purification of sequence-specific DNA binding proteins. Proc. Natl. Acad. Sci. U.S.A. 83, 5889-5893 (Pubitemid 16000619)
22. Hagen, G., Muller, S., Beato, M. and Suske, G. (1994) Sp1-mediated transcriptional activation is repressed by Sp3. EMBO J. 13, 3843-3851 (Pubitemid 24275030)
23. Kingsley, C. and Winoto, A. (1992) Cloning of GT box-binding proteins: a novel Sp1 multigene family regulating T-cell receptor gene expression. Mol. Cell. Biol. 12, 4251-4261
24. Majello, B., De Luca, P. and Lania, L. (1997) Sp3 is a bifunctional transcription regulator with modular independent activation and repression domains. J. Biol. Chem. 272, 4021-4026 (Pubitemid 27078463)
25. Li, L., He, S., Sun, J. M. and Davie, J. R. (2004) Gene regulation by Sp1 and Sp3. Biochem. Cell. Biol. 82, 460-471 (Pubitemid 39286961)
26. Bryksin, A. V. and Matsumura, I. (2010) Overlap extension PCR cloning: a simple and reliable way to create recombinant plasmids. BioTechniques 48, 463-465
27. Foulds, C. E., Tsimelzon, A., Long, W., Le, A., Tsai, S. Y., Tsai, M. J. and O'Malley, B. W. (2010) Research resource: expression profiling reveals unexpected targets and functions of the human steroid receptor RNA activator (SRA) gene. Mol. Endocrinol. 24, 1090-1105
28. Dignam, J. D., Martin, P. L., Shastry, B. S. and Roeder, R. G. (1983) Eukaryotic gene transcription with purified components. Methods Enzymol. 101, 582-598 (Pubitemid 13071071)
29. Gurevich, I., Zhang, C. and Aneskievich, B. J. (2010) Scanning for transcription factor binding by a variant EMSA. Methods Mol. Biol. 585, 147-158
30. Nowak, D. E., Tian, B. and Brasier, A. R. (2005) Two-step cross-linking method for identification of NF-κB gene network by chromatin immunoprecipitation. BioTechniques 39, 715-725
31. Song, G., Zhang, L., Vinar, T. and Miller, W. (2010) CAGE: combinatorial analysis of gene-cluster evolution. J. Comput. Biol. 17, 1227-1242
32. Juven-Gershon, T., Hsu, J. Y., Theisen, J. W. and Kadonaga, J. T. (2008) The RNA polymerase II core promoter: the gateway to transcription. Curr. Opin. Cell Biol. 20, 253-259
33. Favre, M., Butticaz, C., Stevenson, B., Jongeneel, C. V. and Telenti, A. (2003) High frequency of alternative splicing of human genes participating in the HIV-1 life cycle: a model using TSG101, βTrCP, PPIA, INI1, NAF1, and PML. J. Acquired Immune Defic. Syndr. 34, 127-133 (Pubitemid 37248909)
34. Shiote, Y., Ouchida, M., Jitsumori, Y., Ogama, Y., Matsuo, Y., Ishimaru, F., Tanimoto, M. and Shimizu, K. (2006) Multiple splicing variants of Naf1/ABIN-1 transcripts and their alterations in hematopoietic tumors. Int. J. Mol. Med. 18, 917-923
35. Broos, S., Hulpiau, P., Galle, J., Hooghe, B., Van Roy, F. and De Bleser, P. (2011) ConTra v2: a tool to identify transcription factor binding sites across species, update 2011. Nucleic Acids Res. 39, W74-W78
36. Yu, B., Datta, P. K. and Bagchi, S. (2003) Stability of the Sp3-DNA complex is promoter-specific: Sp3 efficiently competes with Sp1 for binding to promoters containing multiple Sp-sites. Nucleic Acids Res. 31, 5368-5376 (Pubitemid 37441905)
37. Chandran, N. S., Vunnava, P., Wu, Y. and Kapatos, G. (2008) Specificity proteins Sp1 and Sp3 interact with the rat GTP cyclohydrolase I proximal promoter to regulate transcription. J. Neurochem. 104, 1233-1248 (Pubitemid 351293335)
38. Courey, A. J. and Tjian, R. (1988) Analysis of Sp1 in vivo reveals multiple transcriptional domains, including a novel glutamine-rich activation motif. Cell 55, 887-898
39. Fiering, S., Northrop, J. P., Nolan, G. P., Mattila, P. S., Crabtree, G. R. and Herzenberg, L. A. (1990) Single cell assay of a transcription factor reveals a threshold in transcription activated by signals emanating from the T-cell antigen receptor. Genes Dev. 4, 1823-1834
40. Blume, S. W., Snyder, R. C., Ray, R., Thomas, S., Koller, C. A. and Miller, D. M. (1991) Mithramycin inhibits SP1 binding and selectively inhibits transcriptional activity of the dihydrofolate reductase gene in vitro and in vivo. J. Clin. Invest. 88, 1613-1621
41. Xin, Z. T., Carroll, K. A., Kumar, N., Song, K. and Ly, H. (2011) Transcriptional activation of TINF2, a gene encoding the telomere-associated protein TIN2, by Sp1 and NF-κB factors. PLoS ONE 6, e21333
42. Li, L. and Davie, J. R. (2010) The role of Sp1 and Sp3 in normal and cancer cell biology. Ann. Anat. 192, 275-283
43. Zenzie-Gregory, B., Khachi, A., Garraway, I. P. and Smale, S. T. (1993) Mechanism of initiator-mediated transcription: evidence for a functional interaction between the TATA-binding protein and DNA in the absence of a specific recognition sequence. Mol. Cell. Biol. 13, 3841-3849 (Pubitemid 23187612)
44. Kumar, P., Garg, R., Bolden, G. and Pandey, K. N. (2010) Interactive roles of ets-1, Sp1, and acetylated histones in the retinoic acid-dependent activation of guanylyl cyclase/atrial natriuretic peptide receptor-A gene transcription. J. Biol. Chem. 285, 37521-37530
45. Wu, J. B., Chen, K., Ou, X. M. and Shih, J. C. (2009) Retinoic acid activates monoamine oxidase B promoter in human neuronal cells. J. Biol. Chem. 284, 16723-16735
46. Gurevich, I., Zhang, C., Francis, N. and Aneskievich, B. J. (2011) TNIP1, a retinoic acid receptor corepressor and A20-binding inhibitor of NF-ê B, distributes to both nuclear and cytoplasmic locations. J. Histochem. Cytochem. 59, 1101-1112
47. Suzuki, Y., Shimada, J., Shudo, K., Matsumura, M., Crippa, M. P. and Kojima, S. (1999) Physical interaction between retinoic acid receptor and Sp1: mechanism for induction of urokinase by retinoic acid. Blood 93, 4264-4276 (Pubitemid 29279269)
48. Shimada, J., Suzuki, Y., Kim, S. J., Wang, P. C., Matsumura, M. and Kojima, S. (2001) Transactivation via RAR/RXR-Sp1 interaction: characterization of binding between Sp1 and GC box motif. Mol. Endocrinol. 15, 1677-1692 (Pubitemid 32939299)
49. Husmann, M., Dragneva, Y., Romahn, E. and Jehnichen, P. (2000) Nuclear receptors modulate the interaction of Sp1 and GC-rich DNA via ternary complex formation. Biochem. J. 352, 763-772 (Pubitemid 32015033)
50. Lehmann, J. M., Zhang, X. K. and Pfahl, M. (1992) RARγ2 expression is regulated through a retinoic acid response element embedded in Sp1 sites. Mol. Cell. Biol. 12, 2976-2985
51. Philipsen, S. and Suske, G. (1999) A tale of three fingers: the family of mammalian Sp/XKLF transcription factors. Nucleic Acids Res. 27, 2991-3000 (Pubitemid 29355710)
52. Suske, G. (1999) The Sp-family of transcription factors. Gene 238, 291-300
53. Pang, R. T., Lee, L. T., Ng, S. S., Yung, W. H. and Chow, B. K. (2004) CpG methylation and transcription factors Sp1 and Sp3 regulate the expression of the human secretin receptor gene. Mol. Endocrinol. 18, 471-483 (Pubitemid 38183943)
54. Gurevich, I. and Aneskievich, B. J. (2009) Liganded RARα and RARγ interact with but are repressed by TNIP1. Biochem. Biophys. Res. Commun. 389, 409-414