Protein Profiling of Mouse Livers with Peroxisome Proliferator-Activated Receptor α Activation

REFERENCES

• Baker, P. G., Goble C. A., Bechhofer S., Paton N. W., Stevens R., and Brass A.. 1999. An ontology for bioinformatics applications. Bioinformatics 15:510–520.
   PubMedGoogle Scholar
• Broustas, C. G., Larkins L. K., Uhler M. D., and Hajra A. K.. 1996. Molecular cloning and expression of cDNA encoding rat brain cytosolic acyl-coenzyme A thioester hydrolase. J. Biol. Chem. 271:10470–10476.
   PubMed Web of Science ®Google Scholar
• Cherkaoui-Malki, M., Meyer K., Cao W., Latruffe N., Yeldandi A. V., Rao M. S., Bradfield C., and Reddy J. K.. 2001. Identification of novel peroxisome proliferator-activated receptor α (PPARα) target genes in mouse liver using cDNA microarray analysis. Gene Expr. 9:291–304.
   PubMed Web of Science ®Google Scholar
• Chevalier, S., Macdonald N., Tonge R., Rayner S., Rowlinson R., Shaw J., Young J., Davison M., and Roberts R. A.. 2000. Proteomic analysis of differential protein expression in primary hepatocytes induced by EGF, tumour necrosis factor alpha or the peroxisome proliferator nafenopin. Eur. J. Biochem. 267:4624–4634.
   PubMedGoogle Scholar
• Choi, J., Appella E., and Donehower L. A.. 2000. The structure and expression of the murine wildtype p53-induced phosphatase 1 (Wip1) gene. Genomics 64:298–306.
   PubMedGoogle Scholar
• Chu, R., Zhang W., Lim H., Yeldandi A. V., Herring C., Brumfield L., Reddy J. K., and Davison M.. 2002. Profiling of acyl-CoA oxidase-deficient and peroxisome proliferator Wy14,643-treated mouse liver protein by surface-enhanced laser desorption/ionization ProteinChip Biology System. Gene Expr. 10:165–177.
   PubMed Web of Science ®Google Scholar
• Cresci, S., Wright L. D., Spratt J. A., Briggs F. N., and Kelly D. P.. 1996. Activation of a novel metabolic gene regulatory pathway by chronic stimulation of skeletal muscle. Am. J. Physiol. 270:C1413–C1420.
   PubMedGoogle Scholar
• Desvergne, B., and Wahli W.. 1999. Peroxisome proliferator-activated receptors: nuclear control of metabolism. Endocr. Rev. 20:649–688.
   PubMed Web of Science ®Google Scholar
• Engberg, S. T., Aoyama T., Alexson S. E., Hashimoto T., and Svensson L. T.. 1997. Peroxisome proliferator-induced acyl-CoA thioesterase from rat liver cytosol: molecular cloning and functional expression in Chinese hamster ovary cells. Biochem. J. 323:525–531.
   PubMed Web of Science ®Google Scholar
• Fan, C. Y., Pan J., J., Chu R., Lee D., Kluckman K. D., Usuda N., Singh I., Yeldandi A. V., Rao M. S., Maeda N., and Reddy J. K.. 1996. Hepatocellular and hepatic peroxisomal alterations in mice with a disrupted peroxisomal fatty acyl-coenzyme A oxidase gene. J. Biol. Chem. 271:24698–24710.
   PubMed Web of Science ®Google Scholar
• Fan, C. Y., Pan J., Usuda N., Yeldandi A. V., Rao M. S., and Reddy J. K.. 1998. Steatohepatitis, spontaneous peroxisome proliferation and liver tumors in mice lacking peroxisomal fatty acyl-CoA oxidase. Implications for peroxisome proliferator-activated receptor alpha natural ligand metabolism. J. Biol. Chem. 273:15639–15645.
   PubMed Web of Science ®Google Scholar
• Futcher, B., Latter G. I., Monardo P., McLaughlin C. S., and Garrels J. I. A.. 1999. A sampling of the yeast proteome. Mol. Cell. Biol. 19:7357–7368.
   PubMed Web of Science ®Google Scholar
• Giometti, C. S., Liang X., Tollaksen S. L., Wall D. B., Lubman D. M., Subbarao V., and Rao M. S.. 2000. Mouse liver selenium-binding protein decreased in abundance by peroxisome proliferators. Electrophoresis 21:2162–2169.
   PubMedGoogle Scholar
• Giometti, C. S., Tollaksen S. L., Liang X., and Cunningham M. L.. 1998. A comparison of liver protein changes in mice and hamsters treated with the peroxisome proliferator Wy-14,643. Electrophoresis 19:2498–24505.
   PubMedGoogle Scholar
• Girnun, G. D., Domann F. E., Moore S. A., and Robbins M. E.. 2002. Identification of a functional peroxisome proliferator-activated receptor response element in the rat catalase promoter. Mol. Endocrinol. 16:2793–2801.
   PubMed Web of Science ®Google Scholar
• Gonzalez, F. J., Peters J. M., and Cattley R. C.. 1998. Mechanism of action of the nongenotoxic peroxisome proliferators: role of the peroxisome proliferator-activator receptor alpha. J. Natl. Cancer Inst. 90:1702–1709.
   PubMed Web of Science ®Google Scholar
• Gygi, S. P., Rochon Y., Franza B. R., and Aebersold R.. 1999. Correlation between protein and mRNA abundance in yeast. Mol. Cell. Biol. 19:1720–1730.
   PubMed Web of Science ®Google Scholar
• Hashimoto, T., Fujita T., Usuda M., Cook W., Qi C., Peters J. M., Gonzalez F. J., Yeldandi A. V., Rao M. S., and Reddy J. K.. 1999. Peroxisomal and mitochondrial fatty acid beta-oxidation in mice nullizygous for both peroxisome proliferator-activated receptor alpha and peroxisomal fatty acyl-CoA oxidase: genotype correlation with fatty liver phenotype. J. Biol. Chem. 274:19228–19236.
   PubMed Web of Science ®Google Scholar
• Hertz, R., Nikodem V., Ben-Ishai A., Berman I., and Bar-Tana J.. 1996. Thyromimetic mode of action of peroxisome proliferators: activation of ′malic' enzyme gene transcription. Biochem. J. 319:241–248.
   PubMedGoogle Scholar
• Issemann, I., and Green S.. 1990. Activation of a member of the steroid hormone receptor superfamily by peroxisome proliferators. Nature 347:645–650.
   PubMed Web of Science ®Google Scholar
• Kersten, S., Mandard S., Escher P., Gonzalez F. J., Tafuri S., Desvergne B., and Wahli W.. 2001. The peroxisome proliferator-activated receptor alpha regulates amino acid metabolism. FASEB J. 15:1971–1978.
   PubMed Web of Science ®Google Scholar
• Laybutt, D. R., Sharma A., Sgroi D. C., Gaudet J., Bonner-Weir S., and Weir G. C.. 2002. Genetic regulation of metabolic pathways in β-cells disrupted by hyperglycemia. J. Biol. Chem. 277:10912–10921.
   PubMed Web of Science ®Google Scholar
• Lian, L. Y., Barsukov I., Golovanov A. P., Hawkins D. I., Badii R., Sze K. H., Keep N. H., Bokoch G. M., and Roberts G. C.. 2000. Mapping the binding site for the GTP-binding protein Rac-1 on its inhibitor RhoGDI-1. Structure Fold Des. 8:47–55.
   Google Scholar
• Lim, H., Eng J., Yates J. R., Tollaksen S. L., Giometti C. S., Holden J. F., Adams M. W., Reich C. I., Olsen G. J., and Hays L. G.. 2003. Identification of 2D-gel proteins: a comparison of MALDI/TOF peptide mass mapping to μ LC-ESI tandem mass spectrometry. J. Am. Soc. Mass Spectrom. 14:957–970.
   PubMed Web of Science ®Google Scholar
• Macdonald, N., Chevalier S., Tonge R., Davison M., Rowlinson R., Young J., Rayner S., and Roberts R.. 2001. Quantitative proteomic analysis of mouse liver response to the peroxisome proliferator diethylhexylphthalate (DEHP). Arch. Toxicol. 75:415–424.
   PubMed Web of Science ®Google Scholar
• Meyer, K., Lee J. S., Dyck P. A., Cao W. Q., Rao M. S., Thorgeirsson S. S., and Reddy J. K.. 2003. Molecular profiling of hepatocellular carcinomas developing spontaneously in acyl-CoA oxidase deficient mice: comparison with liver tumors induced in wild-type mice by a peroxisome proliferator and a genotoxic carcinogen. Carcinogenesis 24:975–984.
   PubMed Web of Science ®Google Scholar
• Miller, R. T., Glover S. E., Stewart W. S., Corton J. C., Popp J. A., and Cattley R. C.. 1996. Effect on the expression of c-met, c-myc and PPAR-alpha in liver and liver tumors from rats chronically exposed to the hepatocarcinogenic peroxisome proliferator WY-14,643. Carcinogenesis 17:1337–1341.
   PubMedGoogle Scholar
• Milner, J. A. 1986. Inhibition of chemical carcinogenesis and tumorigenesis by selenium. Adv. Exp. Med. Biol. 206:449–463.
   PubMedGoogle Scholar
• Morel, Y., and Barouki R.. 1999. Repression of gene expression by oxidative stress. Biochem. J. 342:481–496.
   PubMed Web of Science ®Google Scholar
• Motojima, K., Passilly P., Peters J. M., Gonzalez F. J., and Latruffe N.. 1998. Expression of putative fatty acid transporter genes are regulated by peroxisome proliferator-activated receptor alpha and gamma activators in a tissue- and inducer-specific manner. J. Biol. Chem. 273:16710–16714.
   PubMed Web of Science ®Google Scholar
• Nemali, M. R., Usuda N., Reddy M. K., Oyasu K., Hashimoto T., Osumi T., Rao M. S., and Reddy J. K.. 1998. Comparison of constitutive and inducible levels of expression of peroxisomal beta-oxidation and catalase genes in liver and extrahepatic tissues of rat. Cancer Res. 48:5316–5324.
   Google Scholar
• O'Brien, M. L., Cunningham M. L., Spear B. T., and Glauert H. P.. 2001. Effects of peroxisome proliferators on glutathione and glutathione-related enzymes in rats and hamsters. Toxicol. Appl. Pharmacol. 171:27–37.
   PubMedGoogle Scholar
• Osumi, T. 1993. Structure and expression of the genes encoding peroxisomal beta-oxidation enzymes. Biochimie 75:243–250.
   PubMedGoogle Scholar
• Ouali, F., Djouadi F., Merlet-Benichou C., and Bastin J.. 1998. Dietary lipids regulate beta-oxidation enzyme gene expression in the developing rat kidney. Am. J. Physiol. 275:F777–F784.
   PubMedGoogle Scholar
• Rao, K. N., Elm M. S., Kelly R. H., Chandar N., Brady E. P., Rao B., Shinozuka H., and Eagon P. K.. 1997. Hepatic hyperplasia and cancer in rats: metabolic alterations associated with cell growth. Gastroenterology 113:238–248.
   PubMed Web of Science ®Google Scholar
• Rao, M. S., and Reddy J. K.. 1987. Peroxisome proliferation and hepatocarcinogenesis. Carcinogenesis 8:631–636.
   PubMed Web of Science ®Google Scholar
• Rao, M. S., and Reddy J. K.. 1996. Hepatocarcinogenesis of peroxisome proliferators. Ann. N. Y. Acad. Sci. 804:573–587.
   PubMed Web of Science ®Google Scholar
• Rao, M. S., Ide H., Yeldandi A. V., Kumar S., and Reddy J. K.. 1994. Expression of peroxisomal enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase enzyme and its mRNA in peroxisome proliferator-induced liver tumors. Carcinogenesis 15:2619–2622.
   PubMedGoogle Scholar
• Reddy, J. K. 2004. Rous-Whipple Award Lecture. Peroxisome proliferators and peroxisome proliferator-activated receptor biotic and xenobiotic sensing. Am. J. Pathol. 164:2305–2321.
   PubMedGoogle Scholar
• Reddy, J. K., and Chu R.. 1996. Peroxisome proliferator-induced pleiotropic responses: pursuit of a phenomenon. Ann. N. Y. Acad. Sci. 804:176–201.
   PubMed Web of Science ®Google Scholar
• Reddy, J. K., and Hashimoto T.. 2001. Peroxisomal β-oxidation and peroxisome proliferator-activated receptor α: an adaptive metabolic system. Annu. Rev. Nutr. 21:193–230.
   PubMed Web of Science ®Google Scholar
• Reddy, J. K., Azarnoff D. L., and Hignite C. E.. 1980. Hypolipidaemic hepatic peroxisome proliferators form a novel class of chemical carcinogens. Nature 283:397–398.
   PubMed Web of Science ®Google Scholar
• Reddy, J. K., Goel S. K., Nemali M. R., Carrino J. J., Laffler T. G., Reddy M. K., Sperbeck S. J., Osumi T., Hashimoto T., and Lalwani N. D.. 1986. Transcription regulation of peroxisomal fatty acyl-CoA oxidase and enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase in rat liver by peroxisome proliferators. Proc. Natl. Acad. Sci. USA 83:1747–1751.
   PubMed Web of Science ®Google Scholar
• Reddy, J. K., Moody D. E., Azarnoff D. L., and Rao M. S.. 1997. Hepatic catalase is not essential for the hypolipidemic action of peroxisome proliferators. Proc. Soc. Exp. Biol. Med. 154:483–487.
   Google Scholar
• Rodriguez, J. C., Gil-Gomez G., Hegardt F. G., and Haro D.. 1994. Peroxisome proliferator-activated receptor mediates induction of the mitochondrial 3-hydroxy-3-methylglutaryl-CoA synthase gene by fatty acids. J. Biol. Chem. 269:18767–18772.
   PubMed Web of Science ®Google Scholar
• Rusyn, I., Asakura S., Pachkowski B., Bradford B. U., Denissenko M. F., Peters J. M., Holland S. M., Reddy J. K., Cunningham M. L., and Swenberg J. A.. 2004. Expression of base excision DNA repair genes is a sensitive biomarker for in vivo detection of chemical-induced chronic oxidative stress: identification of the molecular source of radicals responsible for DNA damage by peroxisome proliferators. Cancer Res. 64:1050–1057.
   PubMed Web of Science ®Google Scholar
• Svensson, L. T., Engberg S. T., Aoyama T., Usuda N., Alexson S. E., and Hashimoto T.. 1998. Molecular cloning and characterization of a mitochondrial peroxisome proliferator-induced acyl-CoA thioesterase from rat liver. Biochem. J. 329:601–608.
   PubMed Web of Science ®Google Scholar
• Svensson, L. T., Wilcke M., and Alexson S. E.. 1995. Peroxisome proliferators differentially regulate long-chain acyl-CoA thioesterases in rat liver. Eur. J. Biochem. 230:813–820.
   PubMedGoogle Scholar
• Tonge, R., Shaw J., Middleton B., Rowlinson R., Rayner S., Young J., Pognan F., Hawkins E., Currie I., and Davison M.. 2001. Validation and development of fluorescence two-dimensional differential gel electrophoresis proteomics technology. Proteomics 1:377–396.
   PubMed Web of Science ®Google Scholar
• Voskoboinik, I., Drew R., and Ahokas J. T.. 1996. Differential effect of peroxisome proliferators on rat glutathione S-transferase isoenzymes. Toxicol. Lett. 87:147–155.
   PubMedGoogle Scholar
• Xie, H., Wasserman A., Levine Z., Novik A., Grebinskiy V., Shoshan A., and Mintz L.. 2002. Large-scale protein annotation through gene ontology. Genome Res. 12:785–794.
   PubMed Web of Science ®Google Scholar
• Yeldandi, A. V., Rao M. S., and Reddy J. K.. 2000. Hydrogen peroxide generation in peroxisome proliferator-induced oncogenesis. Mutat. Res. 448:159–177.
   PubMed Web of Science ®Google Scholar