Genome-wide Coactivation Analysis of PGC-1α Identifies BAF60a as a Regulator of Hepatic Lipid Metabolism

Cell Metabolism

Volumn 8, Issue 2, 2008, Pages 105-117

  Li, Siming ^a   Liu, Chang ^a   Li, Na ^b   Hao, Tong ^b   Han, Ting ^a   Hill, David E ^b   Vidal, Marc ^b   Lin, Jiandie D ^a  

^a UNIVERSITY OF MICHIGAN MEDICAL SCHOOL   (United States)

^b DANA FARBER CANCER INSTITUTE   (United States)

Author keywords

HUMDISEASE; SIGNALING

Indexed keywords

BAF60A; PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA; PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA COACTIVATOR 1ALPHA; PROTEIN SWI; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR SNF;

AGING; ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; ASSAY; BINDING SITE; CHROMATIN ASSEMBLY AND DISASSEMBLY; CONTROLLED STUDY; FATTY ACID OXIDATION; FATTY LIVER; GENOME; HEART FAILURE; HUMAN; HUMAN CELL; IN VIVO STUDY; LIPID METABOLISM; LIVER CELL CULTURE; LIVER METABOLISM; MAMMAL CELL; MITOCHONDRION; MOUSE; NERVE DEGENERATION; NON INSULIN DEPENDENT DIABETES MELLITUS; NONHUMAN; PATHOGENESIS; PEROXISOME; PRIORITY JOURNAL; TRANSCRIPTION INITIATION;

ANIMALS; BINDING SITES; CELLS, CULTURED; CHROMATIN ASSEMBLY AND DISASSEMBLY; CHROMOSOMAL PROTEINS, NON-HISTONE; GENE EXPRESSION PROFILING; GENOME; HEPATOCYTES; LIPID METABOLISM; LIVER; MALE; MICE; MICE, INBRED C57BL; MITOCHONDRIA; PEROXISOMES; PPAR ALPHA; TRANS-ACTIVATION (GENETICS); TRANS-ACTIVATORS; TRANSCRIPTION FACTORS;

MAMMALIA;

EID: 48349108293     PISSN: 15504131     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cmet.2008.06.013     Document Type: Article

References (57)

1. Calfee-Mason K.G., Spear B.T., and Glauert H.P. Vitamin E inhibits hepatic NF-kappaB activation in rats administered the hepatic tumor promoter, phenobarbital. J. Nutr. 132 (2002) 3178-3185
2. Christian M., White R., and Parker M.G. Metabolic regulation by the nuclear receptor corepressor RIP140. Trends Endocrinol. Metab. 17 (2006) 243-250
3. Debril M.B., Gelman L., Fayard E., Annicotte J.S., Rocchi S., and Auwerx J. Transcription factors and nuclear receptors interact with the SWI/SNF complex through the BAF60c subunit. J. Biol. Chem. 279 (2004) 16677-16686
4. Eaton S. Control of mitochondrial beta-oxidation flux. Prog. Lipid Res. 41 (2002) 197-239
5. Feige J.N., and Auwerx J. Transcriptional coregulators in the control of energy homeostasis. Trends Cell Biol. 17 (2007) 292-301
6. Finck B.N., and Kelly D.P. PGC-1 coactivators: inducible regulators of energy metabolism in health and disease. J. Clin. Invest. 116 (2006) 615-622
7. Finck B.N., Gropler M.C., Chen Z., Leone T.C., Croce M.A., Harris T.E., Lawrence Jr. J.C., and Kelly D.P. Lipin 1 is an inducible amplifier of the hepatic PGC-1alpha/PPARalpha regulatory pathway. Cell Metab. 4 (2006) 199-210
8. Flier J.S. Obesity wars: molecular progress confronts an expanding epidemic. Cell 116 (2004) 337-350
9. Gray P.A., Fu H., Luo P., Zhao Q., Yu J., Ferrari A., Tenzen T., Yuk D.I., Tsung E.F., Cai Z., et al. Mouse brain organization revealed through direct genome-scale TF expression analysis. Science 306 (2004) 2255-2257
10. Handschin C., Lin J., Rhee J., Peyer A.K., Chin S., Wu P.H., Meyer U.A., and Spiegelman B.M. Nutritional regulation of hepatic heme biosynthesis and porphyria through PGC-1alpha. Cell 122 (2005) 505-515
11. Handschin C., Kobayashi Y.M., Chin S., Seale P., Campbell K.P., and Spiegelman B.M. PGC-1alpha regulates the neuromuscular junction program and ameliorates Duchenne muscular dystrophy. Genes Dev. 21 (2007) 770-783
12. Hashimoto T., Cook W.S., Qi C., Yeldandi A.V., Reddy J.K., and Rao M.S. Defect in peroxisome proliferator-activated receptor alpha-inducible fatty acid oxidation determines the severity of hepatic steatosis in response to fasting. J. Biol. Chem. 275 (2000) 28918-28928
13. Herzig S., Long F., Jhala U.S., Hedrick S., Quinn R., Bauer A., Rudolph D., Schutz G., Yoon C., Puigserver P., et al. CREB regulates hepatic gluconeogenesis through the coactivator PGC-1. Nature 413 (2001) 179-183
14. Hsiao P.W., Fryer C.J., Trotter K.W., Wang W., and Archer T.K. BAF60a mediates critical interactions between nuclear receptors and the BRG1 chromatin-remodeling complex for transactivation. Mol. Cell. Biol. 23 (2003) 6210-6220
15. Huss J.M., Kopp R.P., and Kelly D.P. Peroxisome proliferator-activated receptor coactivator-1alpha (PGC-1alpha) coactivates the cardiac-enriched nuclear receptors estrogen-related receptor-alpha and -gamma. Identification of novel leucine-rich interaction motif within PGC-1alpha. J. Biol. Chem. 277 (2002) 40265-40274
16. Ito T., Yamauchi M., Nishina M., Yamamichi N., Mizutani T., Ui M., Murakami M., and Iba H. Identification of SWI.SNF complex subunit BAF60a as a determinant of the transactivation potential of Fos/Jun dimers. J. Biol. Chem. 276 (2001) 2852-2857
17. Kanamori M., Konno H., Osato N., Kawai J., Hayashizaki Y., and Suzuki H. A genome-wide and nonredundant mouse transcription factor database. Biochem. Biophys. Res. Commun. 322 (2004) 787-793
18. 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
19. Knutti D., Kaul A., and Kralli A. A tissue-specific coactivator of steroid receptors, identified in a functional genetic screen. Mol. Cell. Biol. 20 (2000) 2411-2422
20. Kummerfeld S.K., and Teichmann S.A. DBD: a transcription factor prediction database. Nucleic Acids Res. 34 (2006) D74-D81
21. Kwon C.S., and Wagner D. Unwinding chromatin for development and growth: a few genes at a time. Trends Genet. 23 (2007) 403-412
22. Lamesch P., Li N., Milstein S., Fan C., Hao T., Szabo G., Hu Z., Venkatesan K., Bethel G., Martin P., et al. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Genomics 89 (2007) 307-315
23. Lau P., Nixon S.J., Parton R.G., and Muscat G.E. RORalpha regulates the expression of genes involved in lipid homeostasis in skeletal muscle cells: caveolin-3 and CPT-1 are direct targets of ROR. J. Biol. Chem. 279 (2004) 36828-36840
24. Lehman J.J., Barger P.M., Kovacs A., Saffitz J.E., Medeiros D.M., and Kelly D.P. Peroxisome proliferator-activated receptor gamma coactivator-1 promotes cardiac mitochondrial biogenesis. J. Clin. Invest. 106 (2000) 847-856
25. Lemay D.G., and Hwang D.H. Genome-wide identification of peroxisome proliferator response elements using integrated computational genomics. J. Lipid Res. 47 (2006) 1583-1587
26. Leone T.C., Lehman J.J., Finck B.N., Schaeffer P.J., Wende A.R., Boudina S., Courtois M., Wozniak D.F., Sambandam N., Bernal-Mizrachi C., et al. PGC-1alpha deficiency causes multi-system energy metabolic derangements: muscle dysfunction, abnormal weight control and hepatic steatosis. PLoS Biol. 3 (2005) e101
27. Lerin C., Rodgers J.T., Kalume D.E., Kim S.H., Pandey A., and Puigserver P. GCN5 acetyltransferase complex controls glucose metabolism through transcriptional repression of PGC-1alpha. Cell Metab. 3 (2006) 429-438
28. Lickert H., Takeuchi J.K., Von Both I., Walls J.R., McAuliffe F., Adamson S.L., Henkelman R.M., Wrana J.L., Rossant J., and Bruneau B.G. Baf60c is essential for function of BAF chromatin remodelling complexes in heart development. Nature 432 (2004) 107-112
29. Lin J., Wu H., Tarr P.T., Zhang C.Y., Wu Z., Boss O., Michael L.F., Puigserver P., Isotani E., Olson E.N., et al. Transcriptional co-activator PGC-1 alpha drives the formation of slow-twitch muscle fibres. Nature 418 (2002) 797-801
30. Lin J., Wu P.H., Tarr P.T., Lindenberg K.S., St-Pierre J., Zhang C.Y., Mootha V.K., Jager S., Vianna C.R., Reznick R.M., et al. Defects in adaptive energy metabolism with CNS-linked hyperactivity in PGC-1alpha null mice. Cell 119 (2004) 121-135
31. Lin J., Handschin C., and Spiegelman B.M. Metabolic control through the PGC-1 family of transcription coactivators. Cell Metab. 1 (2005) 361-370
32. Lin J., Yang R., Tarr P.T., Wu P.H., Handschin C., Li S., Yang W., Pei L., Uldry M., Tontonoz P., et al. Hyperlipidemic effects of dietary saturated fats mediated through PGC-1beta coactivation of SREBP. Cell 120 (2005) 261-273
33. Liu C., Li S., Liu T., Borjigin J., and Lin J.D. Transcriptional coactivator PGC-1alpha integrates the mammalian clock and energy metabolism. Nature 447 (2007) 477-481
34. Martens J.A., and Winston F. Recent advances in understanding chromatin remodeling by Swi/Snf complexes. Curr. Opin. Genet. Dev. 13 (2003) 136-142
35. Mootha V.K., Handschin C., Arlow D., Xie X., St Pierre J., Sihag S., Yang W., Altshuler D., Puigserver P., Patterson N., et al. Erralpha and Gabpa/b specify PGC-1alpha-dependent oxidative phosphorylation gene expression that is altered in diabetic muscle. Proc. Natl. Acad. Sci. USA 101 (2004) 6570-6575
36. Nicolas-Frances V., Dasari V.K., Abruzzi E., Osumi T., and Latruffe N. The peroxisome proliferator response element (PPRE) present at positions -681/-669 in the rat liver 3-ketoacyl-CoA thiolase B gene functionally interacts differently with PPARalpha and HNF-4. Biochem. Biophys. Res. Commun. 269 (2000) 347-351
37. Peterfy M., Phan J., Xu P., and Reue K. Lipodystrophy in the fld mouse results from mutation of a new gene encoding a nuclear protein, lipin. Nat. Genet. 27 (2001) 121-124
38. Puigserver P., Adelmant G., Wu Z., Fan M., Xu J., O'Malley B., and Spiegelman B.M. Activation of PPARgamma coactivator-1 through transcription factor docking. Science 286 (1999) 1368-1371
39. Reddy J.K., and Hashimoto T. Peroxisomal beta-oxidation and peroxisome proliferator-activated receptor alpha: an adaptive metabolic system. Annu. Rev. Nutr. 21 (2001) 193-230
40. Roberts C.W., and Orkin S.H. The SWI/SNF complex-chromatin and cancer. Nat. Rev. Cancer 4 (2004) 133-142
41. 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
42. Schreiber S.N., Emter R., Hock M.B., Knutti D., Cardenas J., Podvinec M., Oakeley E.J., and Kralli A. The estrogen-related receptor alpha (ERRalpha) functions in PPARgamma coactivator 1alpha (PGC-1alpha)-induced mitochondrial biogenesis. Proc. Natl. Acad. Sci. USA 101 (2004) 6472-6477
43. Simone C. SWI/SNF: the crossroads where extracellular signaling pathways meet chromatin. J. Cell. Physiol. 207 (2006) 309-314
44. Simone C., Forcales S.V., Hill D.A., Imbalzano A.N., Latella L., and Puri P.L. p38 pathway targets SWI-SNF chromatin-remodeling complex to muscle-specific loci. Nat. Genet. 36 (2004) 738-743
45. Spiegelman B.M., and Heinrich R. Biological control through regulated transcriptional coactivators. Cell 119 (2004) 157-167
46. St-Pierre J., Lin J., Krauss S., Tarr P.T., Yang R., Newgard C.B., and Spiegelman B.M. Bioenergetic analysis of peroxisome proliferator-activated receptor gamma coactivators 1alpha and 1beta (PGC-1alpha and PGC-1beta) in muscle cells. J. Biol. Chem. 278 (2003) 26597-26603
47. St-Pierre J., Drori S., Uldry M., Silvaggi J.M., Rhee J., Jager S., Handschin C., Zheng K., Lin J., Yang W., et al. Suppression of reactive oxygen species and neurodegeneration by the PGC-1 transcriptional coactivators. Cell 127 (2006) 397-408
48. Sudarsanam P., and Winston F. The Swi/Snf family nucleosome-remodeling complexes and transcriptional control. Trends Genet. 16 (2000) 345-351
49. Tugwood J.D., Issemann I., Anderson R.G., Bundell K.R., McPheat W.L., and Green S. The mouse peroxisome proliferator activated receptor recognizes a response element in the 5′ flanking sequence of the rat acyl CoA oxidase gene. EMBO J. 11 (1992) 433-439
50. Valle I., Alvarez-Barrientos A., Arza E., Lamas S., and Monsalve M. PGC-1alpha regulates the mitochondrial antioxidant defense system in vascular endothelial cells. Cardiovasc. Res. 66 (2005) 562-573
51. Vega R.B., Huss J.M., and Kelly D.P. The coactivator PGC-1 cooperates with peroxisome proliferator-activated receptor alpha in transcriptional control of nuclear genes encoding mitochondrial fatty acid oxidation enzymes. Mol. Cell. Biol. 20 (2000) 1868-1876
52. Walhout A.J., Temple G.F., Brasch M.A., Hartley J.L., Lorson M.A., van den Heuvel S., and Vidal M. GATEWAY recombinational cloning: application to the cloning of large numbers of open reading frames or ORFeomes. Methods Enzymol. 328 (2000) 575-592
53. Wang W., Xue Y., Zhou S., Kuo A., Cairns B.R., and Crabtree G.R. Diversity and specialization of mammalian SWI/SNF complexes. Genes Dev. 10 (1996) 2117-2130
54. Wu Z., Puigserver P., Andersson U., Zhang C., Adelmant G., Mootha V., Troy A., Cinti S., Lowell B., Scarpulla R.C., and Spiegelman B.M. Mechanisms controlling mitochondrial biogenesis and respiration through the thermogenic coactivator PGC-1. Cell 98 (1999) 115-124
55. Wysocka J., Myers M.P., Laherty C.D., Eisenman R.N., and Herr W. Human Sin3 deacetylase and trithorax-related Set1/Ash2 histone H3-K4 methyltransferase are tethered together selectively by the cell-proliferation factor HCF-1. Genes Dev. 17 (2003) 896-911
56. Yoon J.C., Puigserver P., Chen G., Donovan J., Wu Z., Rhee J., Adelmant G., Stafford J., Kahn C.R., Granner D.K., et al. Control of hepatic gluconeogenesis through the transcriptional coactivator PGC-1. Nature 413 (2001) 131-138
57. Zimmet P., Alberti K.G., and Shaw J. Global and societal implications of the diabetes epidemic. Nature 414 (2001) 782-787