Identification of transcriptional regulatory cascades in retinoic acid-induced growth arrest of HepG2 cells

Nucleic Acids Research

Volumn 36, Issue 10, 2008, Pages 3443-3454

  Nakanishi, Misato ^a,b   Tomaru, Yasuhiro ^a,b   Miura, Hisashi ^a,b,c   Hayashizaki, Yoshihide ^a,b,c   Suzuki, Masanori ^a,b  

^a RIKEN YOKOHAMA INSTITUTE   (Japan)

^b YOKOHAMA CITY UNIVERSITY   (Japan)

^c Discovery Research Institute   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

RETINOIC ACID; SMALL INTERFERING RNA; CCAAT ENHANCER BINDING PROTEIN ALPHA; TRANSCRIPTION FACTOR;

ANTINEOPLASTIC ACTIVITY; APOPTOSIS; ARTICLE; CANCER CELL CULTURE; CANCER GROWTH; CANCER INHIBITION; CELL CYCLE REGULATION; CELL STRAIN HEPG2; CHROMATIN IMMUNOPRECIPITATION; CONTROLLED STUDY; DNA FLANKING REGION; GENE EXPRESSION REGULATION; HUMAN; HUMAN CELL; LIVER CELL CARCINOMA; NUCLEOTIDE SEQUENCE; PREDICTION; PRIORITY JOURNAL; RNA INTERFERENCE; TRANSCRIPTION REGULATION; UNINDEXED SEQUENCE; VALIDATION PROCESS; BINDING SITE; CELL PROLIFERATION; DRUG ANTAGONISM; DRUG EFFECT; GENE REGULATORY NETWORK; GENETIC TRANSCRIPTION; GENETICS; KINETICS; METABOLISM; POLYMERASE CHAIN REACTION; REGULATORY SEQUENCE; TUMOR CELL LINE;

BINDING SITES; CCAAT-ENHANCER-BINDING PROTEIN-ALPHA; CELL LINE, TUMOR; CELL PROLIFERATION; CHROMATIN IMMUNOPRECIPITATION; GENE EXPRESSION REGULATION; GENE REGULATORY NETWORKS; HUMANS; KINETICS; POLYMERASE CHAIN REACTION; REGULATORY ELEMENTS, TRANSCRIPTIONAL; RNA INTERFERENCE; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC; TRETINOIN;

EID: 45549096649     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkn066     Document Type: Article

References (35)

1. Gudas,L.J. (1994) Retinoids and vertebrate development. J. Biol. Chem., 269, 15399-15402.
2. Blomhoff,R., Green,M.H., Berg,T. and Norum,K.R. (1990) Transport and storage of vitamin A. Science, 250, 399-404.
3. Bastien,J. and Rochette-Egly,C. (2004) Nuclear retinoid receptors and the transcription of retinoid-target genes. Gene, 328, 1-16.
4. Lefebvre,P., Martin,P.J., Flajollet,S., Dedieu,S., Billaut,X. and Lefebvre,B. (2005) Transcriptional activities of retinoic acid receptors. Vitam. Horm., 70, 199-264.
5. Glass,C.K. and Rosenfeld,M.G. (2000) The coregulator exchange in transcriptional functions of nuclear receptors. Genes Dev, 14 121-141.
6. Aranda,A. and Pascual,A. (2001) Nuclear hormone receptors and gene expression. Physiol. Rev., 81, 1269-1304.
7. Takeyama,K., Kojima,R., Ohashi,R., Sato,T., Mano,H., Masushige,S. and Kato,S. (1996) Retinoic acid differentially up-regulates the gene expression of retinoic acid receptor alpha and gamma isoforms in embryo and adult rats. Biochem. Biophys Res. Commun., 222, 395-400.
8. Leroy,P., Nakshatri,H. and Chambon,P. (1991) Mouse retinoic acid receptor alpha 2 isoform is transcribed from a promoter that contains a retinoic acid response element. Proc. Natl Acad. Sci. USA, 88 10138-10142.
9. Husmann,M., Lehmann,J., Hoffmann,B., Hermann,T., Tzukerman,M. and Pfahl,M. (1991) Antagonism between retinoic acid receptors. Mol. Cell Biol., 11, 4097-4103.
10. Balmer,J.E. and Blomhoff,R. (2002) Gene expression regulation by retinoic acid. J. Lipid Res., 43, 1773-1808.
11. Tomaru,Y., Kondo,S., Suzuki,M. and Hayashizaki,Y. (2003) A comprehensive search for HNF-3alpha-regulated genes in mouse hepatoma cells by 60K cDNA microarray and chromatin immunoprecipitation/PCR analysis. Biochem. Biophys. Res. Commun., 310, 667-674.
12. Tanaka,T., Tomaru,Y., Nomura,Y., Miura,H., Suzuki,M. and Hayashizaki,Y. (2004) Comprehensive search for HNF-1beta-regulated genes in mouse hepatoma cells perturbed by transcription regulatory factor-targeted RNAi. Nucleic Acids Res., 32, 2740-2750.
13. Jung,H.Y., Park,S.H., Yoo,Y.D., Kim,J.S. and Kim,Y.H. (2005) CDK2/4 regulate retinoic acid-induced G1 arrest in hepatocellular carcinoma cells. Hepatol. Res., 31, 143-152.
14. Kel,A.E., Gossling,E., Reuter,I., Cheremushkin,E., Kel-Margoulis,O.V. and Wingender,E. (2003) MATCH: A tool for searching transcription factor binding sites in DNA sequences. Nucleic Acids Res., 31, 3576-3579.
15. Livak,K.J. and Schmittgen,T.D. (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods, 25, 402-408.
16. Suzui,M., Masuda,M., Lim,J.T., Albanese,C., Pestell,R.G. and Weinstein,I.B. (2002) Growth inhibition of human hepatoma cells by acyclic retinoid is associated with induction of p21(CIP1) and inhibition of expression of cyclin D1. Cancer Res., 62, 3997-4006.
17. Fontanier-Razzaq,N.C., Hay,S.M. and Rees,W.D. (1999) Upregulation of CHOP-10 (gadd153) expression in the mouse blastocyst as a response to stress. Mol. Reprod. Dev., 54, 326-332.
18. Lim,C.P., Jain,N. and Cao,X. (1998) Stress-induced immediate-early gene, egr-1, involves activation of p38/JNK1. Oncogene, 16, 2915-2926.
19. Meloche,S. and Pouyssegur,J. (2007) The ERK1/2 mitogen-activated protein kinase pathway as a master regulator of the G1- to S-phase transition. Oncogene, 26, 3227-3239.
20. Storey,J.D. and Tibshirani,R. (2003) Statistical significance for genomewide studies. Proc. Natl Acad. Sci. USA, 100, 9440-9445.
21. Gianni,M., Kopf,E., Bastien,J., Oulad-Abdelghani,M., Garattini,E., Chambon,P. and Rochette-Egly,C. (2002) Down-regulation of the phosphatidylinositol 3-kinase/Akt pathway is involved in retinoic acid-induced phosphorylation, degradation, and transcriptional activity of retinoic acid receptor gamma 2. J. Biol. Chem., 277, 24859-24862.
22. Alsayed,Y., Uddin,S., Mahmud,N., Lekmine,F., Kalvakoianu,D.V., Minucci,S., Bokoch,G. and Platanias,L.C. (2001) Activation of Rac1 and the p38 mitogen-activated protein kinase pathway in response to all-trans-retinoic acid. J. Biol. Chem., 276, 4012-4019.
23. Pendaries,V., Verrecchia,F., Michel,S. and Mauviel,A. (2003) Retinoic acid receptors interfere with the TGF-beta/Smad signaling pathway in a ligand-specific manner. Oncogene, 22, 8212-8220.
24. Farias,E.F., Marzan,C. and Mira-y-Lopez,R. (2005) Cellular retinol-binding protein-I inhibits PI3K/Akt signaling through a retinoic acid receptor-dependent mechanism that regulates p85-p110 heterodimerization. Oncogene, 24, 1598-1606.
25. Laufs,S., Schumacher,J. and Allgayer,H. (2006) Urokinase-receptor (u-PAR): An essential player in multiple gaAes of cancer: a review on its role in tumor progression, invasion, metastasis, proliferation/ dormancy, clinical outcome and minimal residual disease. Cell Cycle 5, 1760-1771.
26. Braungart,E., Magdolen,V. and Degitz,K. (2001) Retinoic acid upregulates the plasminogen activator system in human epidermal keratinocytes. J. Invest. Dermatol., 116, 778-784.
27. Hill,C.S. and Treisman,R. (1995) Transcriptional regulation by extracellular signals: Mechanisms and specificity. Cell, 80, 199-211.
28. Nguyen,H.Q., Hoffman-Liebermann,B. and Liebermann,D.A. (1993) The zinc finger transcription factor Egr-1 is essential for and restricts differentiation along the macrophage lineage. Cell, 72, 197-209.
29. De Sousa,L.P., Brasil,B.S., Silva,B.M., Freitas,M.H., Nogueira,S.V., Ferreira,P.C., Kroon,E.G. and Bonjardim,C.A. (2005) Plasminogen/plasmin regulates c-fos and egr-1 expression via the MEK/ERK pathway. Biochem. Biophys. Res. Commun., 329, 237-245.
30. Cocolakis,E., Lemay,S., Ali,S. and Lebrun,J.J. (2001) The p38 MAPK pathway is required for cell growth inhibition of human breast cancer cells in response to activin. J. Biol. Chem., 276, 18430-18436.
31. Duan,Z. and Horwitz,M. (2005) Gfi-1 takes center stage in hematopoietic stem cells. Trends Mol. Med., 11, 49-52.
32. Vassen,L., Fiolka,K., Mahlmann,S. and Moroy,T. (2005) Direct transcriptional repression of the genes encoding the zinc-finger proteins Gfi1b and Gfi1 by Gfi1b. Nucleic Acids Res., 33, 987-998.
33. Doan,L.L., Porter,S.D., Duan,Z., Flubacher,M.M., Montoya,D., Tsichlis,P.N., Horwitz,M., Gilks,C.B. and Grimes,H.L. (2004) Targeted transcriptional repression of Gfi1 by GFI1 and GFI1B in lymphoid cells. Nucleic Acids Res., 32, 2508-2519.
34. Harashima,M., Niimi,S., Koyanagi,H., Hyuga,M., Nomar,S., Seki,T., Ariga,T., Kawanishi,T. and Hayakawa,T. (2006) Change in annexin A3 expression by regulatory factors of hepatocyte growth in primary cultured rat hepatocytes. Biol. Pharm. Bull., 29, 1339-1343.
35. Nanda,N., Iismaa,S.E., Owens,W.A., Husain,A., Mackay,F. and Graham,R.M. (2001) Targeted inactivation of Gh/tissue transglutaminase II. J. Biol. Chem., 276, 20673-20678.