Gene expression profiling in livers of mice after acute inhibition of β-oxidation

Genomics

Volumn 90, Issue 6, 2007, Pages 680-689

  van der Leij, Feike R ^a,b   Bloks, Vincent W ^a   Grefhorst, Aldo ^a   Hoekstra, Jildou ^a   Gerding, Albert ^a   Kooi, Krista ^a   Gerbens, Frans ^a   te Meerman, Gerard ^a   Kuipers, Folkert ^a  

^a UNIVERSITY MEDICAL CENTER GRONINGEN   (Netherlands)

^b University of Applied Sciences   (Netherlands)

Author keywords

Bile salt metabolism; Carnitine palmitoyltransferase; Etomoxir; Long chain fatty acids; Peroxisome proliferator activated receptor; Steatosis; Transcriptome; Transcriptomics

Indexed keywords

AMINO ACID; BILE SALT; CARBOHYDRATE; CARNITINE PALMITOYLTRANSFERASE; ENZYME INHIBITOR; FATTY ACID; HEPATOCYTE NUCLEAR FACTOR 4; LIPID; PALMITOYL COENZYME A HYDROLASE; PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR ALPHA; PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA COACTIVATOR 1ALPHA; TETRADECYLGLYCIDIC ACID; TRANSCRIPTOME; UNCLASSIFIED DRUG;

AMINO ACID METABOLISM; ANIMAL EXPERIMENT; ANIMAL TISSUE; APOPTOSIS; ARTICLE; BILE FLOW; BILE SECRETION; CONTROLLED STUDY; ENZYME INHIBITION; FATTY ACID OXIDATION; FATTY LIVER; GENE EXPRESSION PROFILING; MALE; MICROARRAY ANALYSIS; MOUSE; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; TRANSCRIPTOMICS; UNINDEXED SEQUENCE;

ACYL COENZYME A; AMINO ACIDS; ANIMALS; APOPTOSIS; BILE ACIDS AND SALTS; CARBOHYDRATE METABOLISM; EPOXY COMPOUNDS; FATTY ACIDS; FATTY LIVER; GENE EXPRESSION PROFILING; INSULIN-LIKE GROWTH FACTOR I; LIVER; MALE; MICE; MICE, INBRED C57BL; MITOCHONDRIA, LIVER; MITOCHONDRIAL PROTEINS; OXIDATION-REDUCTION; POLYMERASE CHAIN REACTION; SIGNAL TRANSDUCTION; TRANSCRIPTION FACTORS;

MUS;

EID: 36549009674     PISSN: 08887543     EISSN: 10898646     Source Type: Journal    
DOI: 10.1016/j.ygeno.2007.08.004     Document Type: Article

References (52)

1. Leone T.C., Weinheimer C.J., and Kelly D.P. A critical role for the peroxisome proliferator-activated receptor alpha (PPARalpha) in the cellular fasting response: the PPARalpha-null mouse as a model of fatty acid oxidation disorders. Proc. Natl. Acad. Sci. U. S. A. 96 (1999) 7473-7478
2. Kersten S., Seydoux J., Peters J.M., Gonzalez F.J., Desvergne B., and Wahli W. Peroxisome proliferator-activated receptor alpha mediates the adaptive response to fasting. J. Clin. Invest. 103 (1999) 1489-1498
3. Browning J.D., and Horton J.D. Molecular mediators of hepatic steatosis and liver injury. J. Clin. Invest. 114 (2004) 147-152
4. Wisely G.B., Miller A.B., Davis R.G., Thornquest Jr. A.D., Johnson R., Spitzer T., Sefler A., Shearer B., Moore J.T., Miller A.B., Willson T.M., and Williams S.P. Hepatocyte nuclear factor 4 is a transcription factor that constitutively binds fatty acids. Structure 10 (2002) 1225-1234
5. Dhe-Paganon S., Duda K., Iwamoto M., Chi Y.I., and Shoelson S.E. Crystal structure of the HNF4 alpha ligand binding domain in complex with endogenous fatty acid ligand. J. Biol. Chem. 277 (2002) 37973-37976
6. McGarry J.D., Leatherman G.F., and Foster D.W. Carnitine palmitoyltransferase I. The site of inhibition of hepatic fatty acid oxidation by malonyl-CoA. J. Biol. Chem. 253 (1978) 4128-4136
7. Ramsay R.R., Gandour R.D., and van der Leij F.R. Molecular enzymology of carnitine transfer and transport. Biochim. Biophys. Acta 1546 (2001) 21-43
8. van der Leij F.R., Kram A.M., Bartelds B., Roelofsen H., Smid G.B., Takens J., Zammit V.A., and Kuipers J.R. Cytological evidence that the C-terminus of carnitine palmitoyltransferase I is on the cytosolic face of the mitochondrial outer membrane. Biochem. J. 341 Pt. 3 (1999) 777-784
9. McGarry J.D. What if Minkowski had been ageusic? An alternative angle on diabetes. Science 258 (1992) 766-770
10. Owen O.E., Reichard Jr. G.A., Patel M.S., and Boden G. Energy metabolism in feasting and fasting. Adv. Exp. Med. Biol. 111 (1979) 169
11. Sreekumar R., Rosado B., Rasmussen D., and Charlton M. Hepatic gene expression in histologically progressive nonalcoholic steatohepatitis. Hepatology 38 (2003) 244-251
12. Kok T., Wolters H., Bloks V.W., Havinga R., Jansen P.L., Staels B., and Kuipers F. Induction of hepatic ABC transporter expression is part of the PPARalpha-mediated fasting response in the mouse. Gastroenterology 124 (2003) 160-171
13. Grefhorst A., Hoekstra J., Derks T.G., Ouwens D.M., Baller J.F., Havinga R., Havekes L.M., Romijn J.A., and Kuipers F. Acute hepatic steatosis in mice by blocking beta-oxidation does not reduce insulin sensitivity of very-low-density lipoprotein production. Am. J. Physiol.: Gastrointest. Liver Physiol. 289 (2005) G592-G598
14. Gonzalez-Manchon C., Martin-Requero A., Ayuso M.S., and Parrilla R. Role of endogenous fatty acids in the control of hepatic gluconeogenesis. Arch. Biochem. Biophys. 292 (1992) 95-101
15. Crijns A.P., Gerbens F., Plantinga A.E., Meersma G.J., de Jong S., Hofstra R.M., de Vries E.G., van der Zee A.G., de Bock G.H., and Te Meerman G.J. A biological question and a balanced (orthogonal) design: the ingredients to efficiently analyze two-color microarrays with Confirmatory Factor Analysis. BMC Genomics 7 (2006) 232
16. Shiri-Sverdlov R., Wouters K., van Gorp P.J., Gijbels M.J., Noel B., Buffat L., Staels B., Maeda N., van Bilsen M., and Hofker M.H. Early diet-induced non-alcoholic steatohepatitis in APOE2 knock-in mice and its prevention by fibrates. J. Hepatol. 44 (2006) 732-741
17. Rodgers J.T., Lerin C., Haas W., Gygi S.P., Spiegelman B.M., and Puigserver P. Nutrient control of glucose homeostasis through a complex of PGC-1alpha and SIRT1. Nature 434 (2005) 113-118
18. Puigserver P. Tissue-specific regulation of metabolic pathways through the transcriptional coactivator PGC1-alpha. Int. J. Obes. (Lond.) 29 Suppl. 1 (2005) S5-S9
19. Ishii S., Iizuka K., Miller B.C., and Uyeda K. Carbohydrate response element binding protein directly promotes lipogenic enzyme gene transcription. Proc. Natl. Acad. Sci. U. S. A. 101 (2004) 15597-15602
20. Letexier D., Peroni O., Pinteur C., and Beylot M. In vivo expression of carbohydrate responsive element binding protein in lean and obese rats. Diabetes Metab. 31 (2005) 558-566
21. Forman B.M., Chen J., and Evans R.M. Hypolipidemic drugs, polyunsaturated fatty acids, and eicosanoids are ligands for peroxisome proliferator-activated receptors alpha and delta. Proc. Natl. Acad. Sci. U. S. A. 94 (1997) 4312-4317
22. Schrauwen P., Saris W.H., and Hesselink M.K. An alternative function for human uncoupling protein 3: protection of mitochondria against accumulation of nonesterified fatty acids inside the mitochondrial matrix. FASEB J. 15 (2001) 2497-2502
23. Abu-Elheiga L., Matzuk M.M., Abo-Hashema K.A., and Wakil S.J. Continuous fatty acid oxidation and reduced fat storage in mice lacking acetyl-CoA carboxylase 2. Science 291 (2001) 2613-2616
24. Oh S.Y., Park S.K., Kim J.W., Ahn Y.H., Park S.W., and Kim K.S. Acetyl-CoA carboxylase beta gene is regulated by sterol regulatory element-binding protein-1 in liver. J. Biol. Chem. 278 (2003) 28410-28417
25. Odom D.T., Zizlsperger N., Gordon D.B., Bell G.W., Rinaldi N.J., Murray H.L., Volkert T.L., Schreiber J., Rolfe P.A., Gifford D.K., Fraenkel E., Bell G.I., and Young R.A. Control of pancreas and liver gene expression by HNF transcription factors. Science 303 (2004) 1378-1381
26. Mashek D.G., Bornfeldt K.E., Coleman R.A., Berger J., Bernlohr D.A., Black P., DiRusso C.C., Farber S.A., Guo W., Hashimoto N., Khodiyar V., Kuypers F.A., Maltais L.J., Nebert D.W., Renieri A., Schaffer J.E., Stahl A., Watkins P.A., Vasiliou V., and Yamamoto T.T. Revised nomenclature for the mammalian long-chain acyl-CoA synthetase gene family. J. Lipid Res. 45 (2004) 1958-1961
27. Herrmann T., Buchkremer F., Gosch I., Hall A.M., Bernlohr D.A., and Stremmel W. Mouse fatty acid transport protein 4 (FATP4): characterization of the gene and functional assessment as a very long chain acyl-CoA synthetase. Gene 270 (2001) 31-40
28. Frohnert B.I., Hui T.Y., and Bernlohr D.A. Identification of a functional peroxisome proliferator-responsive element in the murine fatty acid transport protein gene. J. Biol. Chem. 274 (1999) 3970-3977
29. Durgan D.J., Smith J.K., Hotze M.A., Egbejimi O., Cuthbert K.D., Zaha V.G., Dyck J.R., Abel E.D., and Young M.E. Distinct transcriptional regulation of long-chain Acyl-CoA synthetase isoforms and cytosolic thioesterase 1 in the rodent heart by fatty acids and insulin. Am. J. Physiol.: Heart Circ. Physiol. (2006) H2480-H2497
30. Davidson N.O., and Shelness G.S. Apolipoprotein B: mRNA editing, lipoprotein assembly, and presecretory degradation. Annu. Rev. Nutr. 20 (2000) 169-193
31. Shelness G.S., and Sellers J.A. Very-low-density lipoprotein assembly and secretion. Curr. Opin. Lipidol. 12 (2001) 151-157
32. Noga A.A., Zhao Y., and Vance D.E. An unexpected requirement for phosphatidylethanolamine N-methyltransferase in the secretion of very low density lipoproteins. J. Biol. Chem. 277 (2002) 42358-42365
33. Igolnikov A.C., and Green R.M. Mice heterozygous for the Mdr2 gene demonstrate decreased PEMT activity and diminished steatohepatitis on the MCD diet. J. Hepatol. 44 (2006) 586-592
34. Russell D.W. The enzymes, regulation, and genetics of bile acid synthesis. Annu. Rev. Biochem. 72 (2003) 137-174
35. Post S.M., Duez H., Gervois P.P., Staels B., Kuipers F., and Princen H.M. Fibrates suppress bile acid synthesis via peroxisome proliferator-activated receptor-alpha-mediated downregulation of cholesterol 7alpha-hydroxylase and sterol 27-hydroxylase expression. Arterioscler. Thromb. Vasc. Biol. 21 (2001) 1840-1845
36. Lin X., Chen Z., Yue P., Averna M.R., OstlundJr R.E., Watson M.A., and Schonfeld G. A targeted ApoB38.9 mutation in mice is associated with reduced hepatic cholesterol synthesis and enhanced lipid peroxidation. Am. J. Physiol.: Gastrointest. Liver Physiol. (2006) G1160-G1176
37. Vickers A.E., Bentley P., and Fisher R.L. Consequences of mitochondrial injury induced by pharmaceutical fatty acid oxidation inhibitors is characterized in human and rat liver slices. Toxicol. In Vitro (2006) 1173-1182
38. Kersten S., Mandard S., Escher P., Gonzalez F.J., Tafuri S., Desvergne B., and Wahli W. The peroxisome proliferator-activated receptor alpha regulates amino acid metabolism. FASEB J. 15 (2001) 971-978
39. Baranova A., Schlauch K., Gowder S., Collantes R., Chandhoke V., and Younossi Z.M. Microarray technology in the study of obesity and non-alcoholic fatty liver disease. Liver Int. 25 (2005) 1091-1096
40. Younossi Z.M., Gorreta F., Ong J.P., Schlauch K., Giacco L.D., Elariny H., Van Meter A., Younoszai A., Goodman Z., Baranova A., Christensen A., Grant G., and Chandhoke V. Hepatic gene expression in patients with obesity-related non-alcoholic steatohepatitis. Liver Int. 25 (2005) 760-771
41. Chiappini F., Barrier A., Saffroy R., Domart M.C., Dagues N., Azoulay D., Sebagh M., Franc B., Chevalier S., Debuire B., Dudoit S., and Lemoine A. Exploration of global gene expression in human liver steatosis by high-density oligonucleotide microarray. Lab. Invest. 86 (2006) 154-165
42. Mangino M.J., Zografakis J., Murphy M.K., and Anderson C.B. Improved and simplified tissue extraction method for quantitating long-chain acyl-coenzyme A thioesters with picomolar detection using high-performance liquid chromatography. J. Chromatogr. 577 (1992) 157-162
43. van der Wiel M.A., Costa J.L., Smid K., Oudejans C.B., Bergman A.M., Meijer G.A., Peters G.J., and IJlstra B. Expression microarray analysis and oligo array comparative genomic hybridization of acquired gemcitabine resistance in mouse colon reveals selection for chromosomal aberrations. Cancer Res. 65 (2005) 10208-10213
44. Hoen P.A.'t., de Kort F., van Ommen G.J., and den Dunnen J.T. Fluorescent labelling of cRNA for microarray applications. Nucleic Acids Res. 31 (2003) e20
45. Kerr M.K., and Churchill G.A. Experimental design for gene expression microarrays. Biostatistics 2 (2001) 183-2101
46. Wright G.W., and Simon R.M. A random variance model for detection of differential gene expression in small microarray experiments. Bioinformatics 19 (2003) 2448-2455
47. Bouton C.M., and Pevsner J. DRAGON view: information visualization for annotated microarray data. Bioinformatics 18 (2002) 323-324
48. Beissbarth T., and Speed T.P. GOstat: find statistically overrepresented gene ontologies within a group of genes. Bioinformatics 20 (2004) 1464-1465
49. Dennis Jr. G., Sherman B.T., Hosack D.A., Yang J., Gao W., Lane H.C., and Lempicki R.A. DAVID: Database for annotation, visualization, and integrated discovery. Genome Biol. 4 (2003) 3
50. Nikitin A., Egorov S., Daraselia N., and Mazo I. Pathway studio-The analysis and navigation of molecular networks. Bioinformatics 19 (2003) 2155-2157
51. Basu S., Bremer E., Zhou C., and Bogenhagen D.F. MiGenes: a searchable interspecies database of mitochondrial proteins curated using gene ontology annotation. Bioinformatics 22 (2006) 485-492
52. Pandey R., Guru R.K., and Mount D.W. Pathway Miner: extracting gene association networks from molecular pathways for predicting the biological significance of gene expression microarray data. Bioinformatics 20 (2004) 2156-2158