Identification of thioredoxin reductase 1-regulated genes using small interference RNA and cDNA microarray

Cancer Biology and Therapy

Volumn 4, Issue 10, 2005, Pages 1079-1088

  Gorreta, Francesco ^a   Runfola, Timothy P ^a   VanMeter, Amy J ^a   Barzaghi, Dagania ^a   Chandhoke, Vikas ^a   Del Giacco, Luca ^a,b  

^a GEORGE MASON UNIVERSITY   (United States)

^b UNIVERSITY OF MILAN   (Italy)

Author keywords

Apoptosis; Gene expression; Microarray; SELDI; siRNA; TrxR1

Indexed keywords

BETA INTERFERON; COMPLEMENTARY DNA; CYSTINE; CYTOSKELETON PROTEIN; F BOX PROTEIN; FIBRONECTIN; GLUTAMATE TRANSPORTER; KERATIN; SCLEROPROTEIN; SMALL INTERFERING RNA; THIOREDOXIN REDUCTASE; UBIQUITIN; UBIQUITIN D; UNCLASSIFIED DRUG;

APOPTOSIS; ARTICLE; CELL STRAIN HEPG2; CONTROLLED STUDY; DNA MICROARRAY; GENE EXPRESSION; GENE IDENTIFICATION; GENE SILENCING; HEPATOMA CELL; HUMAN; HUMAN CELL; PROTEIN FUNCTION; PROTEIN TARGETING; PROTEIN TRANSPORT; SURFACE ENHANCED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; UBIQUITINATION;

EID: 27744553732     PISSN: 15384047     EISSN: 15558576     Source Type: Journal    
DOI: 10.4161/cbt.4.10.1987     Document Type: Article

References (46)

1. Arner ES, Holmgren A. Physiological functions of thioredoxin and thioredoxin reductase. Eur J Biochem 2000; 267:6102-9.
2. Rundolf AK, Janard M, Miranda-Vizuete A, Arner ES. Evidence for intriguingly complex transcription of human thioredoxin reductase 1. Free Radic Biol Med 2004; 36:641-56.
3. Hofmann ER, Boyanapalli M, Lindner DJ, Weihua X, Hassel BA, Jagus R, Gutierrez PL, Kalvakolanu DV. Thioredoxin reductase mediates cell death effects of the combination of beta interferon and retinoic acid. Mol Cell Biol 1998; 18:6493-504.
4. Anestål K, Arnèr ESJ. Rapid induction of cell death by selenium-compromised thioredoxin reductase 1 but not by the fully active enzyme containing selenocysteine. J Biol Chem 2003; 278:15966-72.
5. Hu J, Ma X, Lindner DJ, Karra S, Hofmann ER, Reddy SP, Kalvakolanu DV. Modulation of p53 dependent gene expression and cell death through thioredoxin-thioredoxin reductase by the Interferon-Retinoid combination. Oncogene 2001; 20:4235-48.
6. Sakurai A, Yuasa K, Shoji Y, Himeno S, Tsujimoto M, Kunimoto M, Imura N, Hara S. Overexpression of thioredoxin reductase 1 regulates NF-kappa B activation. J Cell Physiol 2004; 198:22-30.
7. Bloomfield KL, Osborne SA, Kennedy DD, Clarke FM, Tonissen KF. Thioredoxin-mediated redox control of the transcription factor Sp1 and regulation of the thioredoxin gene promoter. Gene 2003; 319:107-16.
8. Ema M, Hirota K, Mimura J, Abe H, Yodoi J, Sogawa K, Poellinger L, Fujii-Kuriyama Y. Molecular mechanisms of transcription activation by HLF and HIF1alpha in response to hypoxia: Their stabilization and redox signal-induced interaction with CBP/p300. EMBO J 1999; 18:1905-14.
9. Kakolyris S, Giatromanolaki A, Koukourakis M, Powis G, Souglakos J, Sivridis E, Georgoulias V, Gatter KC, Harris AL. Thioredoxin expression is associated with lymph node status and prognosis in early operable nonsmall cell lung cancer. Clin Cancer Res 2001; 7:3087-91.
10. Mustacich D, Powis G. Thioredoxin reductase. Biochem J 2000; 346:1-8.
11. Holmgren A. Thioredoxin catalyzes the reduction of insulin disulfides by dithiothreitol and dihydrolipoamide. J Biol Chem 1979; 254:9627-32.
12. Yang TT, Sinai P, Kain SR. An acid phosphatase assay for quantifying the growth of adherent and nonadherent cells. Anal Biochem 1996; 241:103-8.
13. Gorreta F, Barzaghi D, VanMeter AJ, Chandhoke V, Del Giacco L. Development of a new reference standard for microarray experiments. Biotechniques 2004; 36:1002-9.
14. Epstein CB, Hale IV W, Butow RA. Numerical methods for handling uncertainty in microarray data: An example analyzing perturbed mitochondrial function in yeast. Methods Cell Biol 2001; 65:439-52.
15. Grace MB, McLeland CB, Gagliardi SJ, Smith JM, Jackson IIIrd WE, Blakely WF. Development and assessment of a quantitative reverse transcription-PCR assay for simultaneous measurement of four amplicons. Clin Chem 2003; 49:1467-75.
16. Grabe N. AliBaba2: Context specific identification of transcription factor binding sites. In Silico Biol 2002; 2:S1-15.
17. Dick RA, Kwak MK, Sutter TR, Kensler TW. Antioxidative function and substrate specificity of NAD(P)H-dependent alkenal/one oxidoreductase. A new role for leukotriene B4 12-hydroxydehydrogenase/15-oxoprostaglandin 13-reductase. J Biol Chem 2001; 276:40803-10.
18. Taylor E, Cogdell D, Coombes K, Hu L, Ramdas L, Tabor A, Hamilton S, Zhang W. Sequence verification as quality-control step for production of cDNA microarrays. Biotechniques 2001; 31:62-5.
19. Kalvakolanu DV. The GRIMs: A new interface between cell death regulation and interferon/retinoid induced growth suppression. Cytokine Growth Factor Rev 2004; 15:169-94.
20. Chen W, Lee J, Cho SY, Fine HA. Proteasome-mediated destruction of the cyclin a/cyclin-dependent kinase 2 complex suppresses tumor cell growth in vitro and in vivo. Cancer Res 2004; 64:3949-57.
21. Lee CG, Ren J, Cheong IS, Ban KH, Ooi LL, Yong Tan S, Kan A, Nuchprayoon I, Jin R, Lee KH, Choti M, Lee LA. Expression of the FAT10 gene is highly upregulated in hepatocellular carcinoma and other gastrointestinal and gynecological cancers. Oncogene 2003; 22:2592-603.
22. Raasi S, Schmidtke G, Groettrup M. The ubiquitin-like protein FAT10 forms covalent conjugates and induces apoptosis. J Biol Chem 2001; 276:35334-43.
23. Dokmanovic M, Chang BD, Fang J, Roninson IB. Retinoid-induced growth arrest of breast carcinoma cells involves coactivation of multiple growth-inhibitory genes. Cancer Biol Ther 2002; 1:24-7.
24. Winston JT, Koepp DM, Zhu C, Elledge SJ, Harper JW. A family of mammalian F-box proteins. Curr Biol 1999; 9:1180-2.
25. Cenciarelli C, Chiaur DS, Guardavaccaro D, Parks W, Vidal M, Pagano M. Identification of a family of human F-box proteins. Curr Biol 1999; 9:1177-9.
26. Bai C, Sen P, Hofmann K, Ma L, Goebl M, Harper JW, Elledge SJ. SKP1 connects cell cycle regulators to the ubiquitin proteolysis machinery through a novel motif, the F-box. Cell 1996; 86:263-74.
27. Coscoy L, Sanchez DJ, Ganem D. A novel class of herpesvirus-encoded membrane-bound E3 ubiquitin ligases regulates endocytosis of proteins involved in immune recognition. J Cell Biol 2001; 155:1265-74.
28. Zhao C, Beaudenon SL, Kelley ML, Waddell MB, Yuan W, Schulman BA, Huibregtse JM, Krug RM. The UbcH8 ubiquitin E2 enzyme is also the E2 enzyme for ISG15, an IFN-alpha/beta-induced ubiquitin-like protein. Proc Natl Acad Sci 2004; 101:7578-82.
29. McBride WH, Iwamoto KS, Syljuasen R, Pervan M, Pajonk F. The role of the ubiquitin/proteasome system in cellular responses to radiation. Oncogene 2003; 22:5755-73.
30. Ahn SG, Cho GH, Jeong SY, Rhim H, Choi JY, Kim IK. Identification of cDNAs for Sox-4, an HMG-Box protein, and a novel human homolog of yeast splicing factor SSF-1 differentially regulated during apoptosis induced by prostaglandin A2/delta12-PGJ2 in Hep3B cells. Biochem Biophys Res Commun 1999; 260:216-21.
31. Ahn SG, Kim HS, Jeong SW, Kim BE, Rhim H, Shim JY, Kim JW, Lee JH, Kim IK. Sox-4 is a positive regulator of Hep3B and HepG2 cells' apoptosis induced by prostaglandin (PG)A(2) and delta(12)-PGJ(2). Exp Mol Med 2002; 34:243-9.
32. Ku NO, Omary MB. Effect of mutation and phosphorylation of type I keratins on their caspase-mediated degradation. J Biol Chem 2001; 276:26792-8.
33. Nagai T, Murota M, Nishioka M, Fujita J, Ohtsuki Y, Dohmoto K, Hojo S, Dobashi N, Takahara J. Elevation of cytokeratin 19 fragment in serum in patients with hepatoma: Its clinical significance. Eur J Gastroenterol Hepatol 2001; 13:157-61.
34. Crowe DL. Retinoic acid mediates post-transcriptional regulation of keratin 19 mRNA levels. J Cell Sci 1993;100:183-8.
35. Okuno S, Sato H, Kuriyama-Matsumura K, Tamba M, Wang H, Sohda S, Hamada H, Yoshikawa H, Kondo T, Bannai S. Role of cystine transport in intracellular glutathione level and cisplatin resistance in human ovarian cancer cell lines. Br J Cancer 2003; 88:951-6.
36. Hanukoglu I, Rapoport R. Routes and regulation of NADPH production in steroidogenic mitochondria. Endocr Res 1995; 21:231-41.
37. Kawai M, Chen J, Cheung CY, Chang TK. Transcript profiling of cytochrome P450 genes in HL-60 human leukemic cells: Upregulation of CYP1B1 by all-trans-retinoic acid. Mol Cell Biochem 2003; 248:57-65.
38. Oritani K, Kincade PW, Zhang C, Tomiyama Y, Matsuzawa Y. Type I interferons and limitin: A comparison of structures, receptors, and functions. Cytokine Growth Factor Rev 2001; 12:337-48.
39. Li G, Xiang Y, Sabapathy K, Silverman RH. An apoptotic signaling pathway in the interferon antiviral response mediated by RNase L and c-Jun NH2-terminal kinase. J Biol Chem 2004; 279:1123-31.
40. Yoneyama M, Kikuchi M, Natsukawa T, Shinobu N, Imaizumi T, Miyagishi M, Taira K, Akira S, Fujita T. The RNA helicase RIG-I has an essential function in double-stranded RNA-induced innate antiviral responses. Nat Immunol 2004; 5:730-7.
41. Chelbi-Alix MK, Pelicano L. Retinoic acid and interferon signaling cross talk in normal and RA-resistant APL cells. Leukemia 1999; 13:1167-74.
42. Matikainen S, Ronni T, Lehtonen A, Sareneva T, Melen K, Nordling S, Levy DE, Julkunen I. Retinoic acid induces signal transducer and activator of transcription (STAT) 1, STAT2, and p48 expression in myeloid leukemia cells and enhances their responsiveness to interferons. Cell Growth Differ 1997; 8:687-98.
43. Falchetto R, Leutenegger S, Bachs O, Serratosa J, Bloemhard Y, Gazzotti P. Isolation of rat liver spectrin and identification of functional domains. Biochim Biophys Acta 1990; 1039:73-80.
44. Diehn M, Sherlock G, Binkley G, Jin H, Matese JC, Hernandez-Boussard T, Rees CA, Cherry JM, Botstein D, Brown PO, Alizadeh AA. SOURCE: A unified genomic resource of functional annotations, ontologies, and gene expression data. Nucleic Acids Res 2003; 31:219-23.
45. de Veer MJ, Holko M, Frevel M, Walker E, Der S, Paranjape JM, Silverman RH, Williams BR. Functional classification of interferon-stimulated genes identified using microarrays. J Leukoc Biol 2001; 69:912-20.
46. Andrieu-Abadie N, Levade T. Sphingomyelin hydrolysis during apoptosis. Biochim Biophys Acta 2002; 1585:126-34.