Time series analysis of oxidative stress response patterns in HepG2: A toxicogenomics approach

Toxicology

Volumn 306, Issue , 2013, Pages 24-34

  Deferme, L ^a   Briede J J ^a   Claessen, S M H ^a   Jennen, D G J ^a   Cavill, R ^a   Kleinjans, J C S ^a  

^a MAASTRICHT UNIVERSITY   (Netherlands)

Author keywords

HepG2 cells; Liver toxicity; Oxidative stress; Phenotypical anchoring; Temporal gene expression profiles; Whole genome gene expression

Indexed keywords

CARBONYL DERIVATIVE; DNA; GLUTATHIONE; HYDROGEN PEROXIDE; MENADIONE; TERT BUTYL HYDROPEROXIDE; TRANSCRIPTOME;

APOPTOSIS; ARTICLE; CELL CYCLE PROGRESSION; CELL STRAIN HEPG2; CONTROLLED STUDY; DNA DAMAGE; FLOW CYTOMETRY; GENE CLUSTER; GENE EXPRESSION; GENOMICS; HUMAN; HUMAN CELL; MICROARRAY ANALYSIS; OXIDATIVE STRESS; PRIORITY JOURNAL; SIGNAL TRANSDUCTION; SPECTROPHOTOMETRY; TIME SERIES ANALYSIS; TOXICOGENOMICS;

APOPTOSIS; CELL CYCLE; COMET ASSAY; DNA DAMAGE; ELECTRON SPIN RESONANCE SPECTROSCOPY; GENE EXPRESSION REGULATION; HEP G2 CELLS; HUMANS; HYDROGEN PEROXIDE; LIVER; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; OXIDATIVE STRESS; REAL-TIME POLYMERASE CHAIN REACTION; RNA; TERT-BUTYLHYDROPEROXIDE; VITAMIN K 3;

EID: 84874385559     PISSN: 0300483X     EISSN: 18793185     Source Type: Journal    
DOI: 10.1016/j.tox.2013.02.001     Document Type: Article

References (39)

1. Alia M., Ramos S., Mateos R., Bravo L., Goya L. Response of the antioxidant defense system to tert-butyl hydroperoxide and hydrogen peroxide in a human hepatoma cell line (HepG2). J. Biochem. Mol. Toxicol. 2005, 19:119-128.
2. Battu A., Ray A., Wani A.A. ASF1A and ATM regulate H3K56-mediated cell-cycle checkpoint recovery in response to UV irradiation. Nucleic Acids Res. 2011, 39:7931-7945.
3. Briede J.J., De Kok T.M., Hogervorst J.G., Moonen E.J., Op Den Camp C.L., Kleinjanst J.C. Development and application of an electron spin resonance spectrometry method for the determination of oxygen free radical formation by particulate matter. Environ. Sci. Technol. 2005, 39:8420-8426.
4. Briede J.J., van Delft J.M., de Kok T.M., van Herwijnen M.H., Maas L.M., Gottschalk R.W., Kleinjans J.C. Global gene expression analysis reveals differences in cellular responses to hydroxyl- and superoxide anion radical-induced oxidative stress in caco-2 cells. Toxicol. Sci. 2010, 114:193-203.
5. Buettner G.R. Spin trapping: ESR parameters of spin adducts. Free Radic. Biol. Med. 1987, 3:259-303.
6. Chinnadurai G., Vijayalingam S., Rashmi R. BIK, the founding member of the BH3-only family proteins: mechanisms of cell death and role in cancer and pathogenic processes. Oncogene 2008, 27(Suppl. 1):S20-S29.
7. Ciani B., Layfield R., Cavey J.R., Sheppard P.W., Searle M.S. Structure of the ubiquitin-associated domain of p62 (SQSTM1) and implications for mutations that cause Paget's disease of bone. J. Biol. Chem. 2003, 278:37409-37412.
8. Derdak Z., Villegas K.A., Wands J.R. Early growth response-1 transcription factor promotes hepatic fibrosis and steatosis in long-term ethanol-fed Long-Evans rats. Liver Int. 2012, 32:761-770.
9. Dinkova-Kostova A.T., Holtzclaw W.D., Kensler T.W. The role of Keap1 in cellular protective responses. Chem. Res. Toxicol. 2005, 18:1779-1791.
10. 2+ release, and renal cell death. Toxicol. Sci. 2012, 128:544-552.
11. Edgar R., Domrachev M., Lash A.E. Gene expression OMNIBUS: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 2002, 30:207-210.
12. Ernst J., Bar-Joseph Z. STEM: a tool for the analysis of short time series gene expression data. BMC Bioinformatics 2006, 7:191.
13. Finkel T. Oxidant signals and oxidative stress. Curr. Opin. Cell Biol. 2003, 15:247-254.
14. Forman H.J., Maiorino M., Ursini F. Signaling functions of reactive oxygen species. Biochemistry 2010, 49:835-842.
15. Gerets H.H., Tilmant K., Gerin B., Chanteux H., Depelchin B.O., Dhalluin S., Atienzar F.A. Characterization of primary human hepatocytes, HepG2 cells, and HepaRG cells at the mRNA level and CYP activity in response to inducers and their predictivity for the detection of human hepatotoxins. Cell Biol. Toxicol. 2012, 28:69-87.
16. Guo L., Lobenhofer E.K., Wang C., Shippy R., Harris S.C., Zhang L., Mei N., Chen T., Herman D., Goodsaid F.M., Hurban P., Phillips K.L., Xu J., Deng X., Sun Y.A., Tong W., Dragan Y.P., Shi L. Rat toxicogenomic study reveals analytical consistency across microarray platforms. Nat. Biotechnol. 2006, 24:1162-1169.
17. Guo W., Zhao Y., Zhang Z., Tan N., Zhao F., Ge C., Liang L., Jia D., Chen T., Yao M., Li J., He X. Disruption of xCT inhibits cell growth via the ROS/autophagy pathway in hepatocellular carcinoma. Cancer Lett. 2011, 312:55-61.
18. Hix S., Kadiiska M.B., Mason R.P., Augusto O. In vivo metabolism of tert-butyl hydroperoxide to methyl radicals. EPR spin-trapping and DNA methylation studies. Chem. Res. Toxicol. 2000, 13:1056-1064.
19. Hsu I.C., Tokiwa T., Bennett W., Metcalf R.A., Welsh J.A., Sun T., Harris C.C. p53 gene mutation and integrated hepatitis B viral DNA sequences in human liver cancer cell lines. Carcinogenesis 1993, 14:987-992.
20. Jennen D.G., Magkoufopoulou C., Ketelslegers H.B., van Herwijnen M.H., Kleinjans J.C., van Delft J.H. Comparison of HepG2 and HepaRG by whole-genome gene expression analysis for the purpose of chemical hazard identification. Toxicol. Sci. 2010, 115:66-79.
21. Kim Y.S., Lee H.L., Lee K.B., Park J.H., Chung W.Y., Lee K.S., Sheen S.S., Park K.J., Hwang S.C. Nuclear factor E2-related factor 2 dependent overexpression of sulfiredoxin and peroxiredoxin III in human lung cancer. Korean J. Intern. Med. 2011, 26:304-313.
22. Levine R.L., Williams J.A., Stadtman E.R., Shacter E. Carbonyl assays for determination of oxidatively modified proteins. Methods Enzymol. 1994, 233:346-357.
23. Livak K.J., Schmittgen T.D. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-ΔΔCT) method. Methods 2001, 25:402-408.
24. Llovet J.M., Burroughs A., Bruix J. Hepatocellular carcinoma. Lancet 2003, 362:1907-1917.
25. Loor G., Kondapalli J., Schriewer J.M., Chandel N.S., Vanden Hoek T.L., Schumacker P.T. Menadione triggers cell death through ROS-dependent mechanisms involving PARP activation without requiring apoptosis. Free Radic Biol Med 2010, 49:1925-1936.
26. Luo H., Hao X., Ge C., Zhao F., Zhu M., Chen T., Yao M., He X., Li J. TC21 promotes cell motility and metastasis by regulating the expression of E-cadherin and N-cadherin in hepatocellular carcinoma. Int. J. Oncol. 2010, 37:853-859.
27. Magkoufopoulou C., Claessen S.M., Tsamou M., Jennen D.G., Kleinjans J.C., van Delft J.H. A transcriptomics-based in vitro assay for predicting chemical genotoxicity in vivo. Carcinogenesis 2012, 33:1421-1429.
28. Mosmann T. Rapid colorimetric assay for cellular growth and survival: application to proliferation and cytotoxicity assays. J. Immunol. Methods 1983, 65:55-63.
29. Mueller K.M., Themanns M., Friedbichler K., Kornfeld J.W., Esterbauer H., Tuckermann J.P., Moriggl R. Hepatic growth hormone and glucocorticoid receptor signaling in body growth, steatosis and metabolic liver cancer development. Mol. Cell. Endocrinol. 2012.
30. Pflaum M., Will O., Epe B. Determination of steady-state levels of oxidative DNA base modifications in mammalian cells by means of repair endonucleases. Carcinogenesis 1997, 18:2225-2231.
31. Reuter S., Gupta S.C., Chaturvedi M.M., Aggarwal B.B. Oxidative stress, inflammation, and cancer: how are they linked?. Free Radic. Biol. Med. 2010.
32. Sato S., Genda T., Hirano K., Tsuzura H., Narita Y., Kanemitsu Y., Kikuchi T., Iijima K., Wada R., Ichida T. Up-regulated aldo-keto reductase family 1 member B10 in chronic hepatitis C: association with serum alpha-fetoprotein and hepatocellular carcinoma. Liver Int. 2012.
33. Sauer H., Wartenberg M., Hescheler J. Reactive oxygen species as intracellular messengers during cell growth and differentiation. Cell. Physiol. Biochem. 2001, 11:173-186.
34. Singh N.P., McCoy M.T., Tice R.R., Schneider E.L. A simple technique for quantitation of low levels of DNA damage in individual cells. Exp. Cell Res. 1988, 175:184-191.
35. Staal Y.C., Hebels D.G., van Herwijnen M.H., Gottschalk R.W., van Schooten F.J., van Delft J.H. Binary PAH mixtures cause additive or antagonistic effects on gene expression but synergistic effects on DNA adduct formation. Carcinogenesis 2007, 28:2632-2640.
36. Staudt L.M. Oncogenic activation of NF-kappaB. Cold Spring Harb. Perspect. Biol. 2010, 2:a000109.
37. Thiery J.P., Sleeman J.P. Complex networks orchestrate epithelial-mesenchymal transitions. Nat. Rev. Mol. Cell Biol. 2006, 7:131-142.
38. Tien Kuo M., Savaraj N. Roles of reactive oxygen species in hepatocarcinogenesis and drug resistance gene expression in liver cancers. Mol. Carcinog. 2006, 45:701-709.
39. Wu K., Ding J., Chen C., Sun W., Ning B.F., Wen W., Huang L., Han T., Yang W., Wang C., Li Z., Wu M.C., Feng G.S., Xie W.F., Wang H.Y. Hepatic transforming growth factor beta gives rise to tumor-initiating cells and promotes liver cancer development. Hepatology 2012, 56:2255-2267.