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Volumn 22, Issue 21, 2008, Pages 2953-2967

Genome-wide profiling of PPARγ:RXR and RNA polymerase II occupancy reveals temporal activation of distinct metabolic pathways and changes in RXR dimer composition during adipogenesis

Author keywords

Adipocyte differentiation; ChiP seq; Nuclear receptor; Peroxisome proliferator activated receptor

Indexed keywords

DIMER; GLUCOSE; HETERODIMER; LIPID; PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA; RETINOID X RECEPTOR; RNA POLYMERASE II;

EID: 55749101777     PISSN: 08909369     EISSN: 15495477     Source Type: Journal    
DOI: 10.1101/gad.501108     Document Type: Article
Times cited : (458)

References (52)
  • 1
    • 35648967667 scopus 로고    scopus 로고
    • Adipose tissue integrity as a prerequisite for systemic energy balance: A critical role for peroxisome proliferator-activated receptor γ
    • Anghel, S.I., Bedu, E., Vivier, C.D., Descombes, P., Desvergne, B., and Wahli, W. 2007. Adipose tissue integrity as a prerequisite for systemic energy balance: A critical role for peroxisome proliferator-activated receptor γ. J. Biol. Chem. 282: 29946-29957.
    • (2007) J. Biol. Chem , vol.282 , pp. 29946-29957
    • Anghel, S.I.1    Bedu, E.2    Vivier, C.D.3    Descombes, P.4    Desvergne, B.5    Wahli, W.6
  • 3
    • 0021846981 scopus 로고
    • Evidence for an increase in transcription of specific mRNAs during differentiation of 3T3-L1 preadipocytes
    • Bernlohr, D.A., Bolanowski, M.A., Kelly Jr., T.J., and Lane, M.D. 1985. Evidence for an increase in transcription of specific mRNAs during differentiation of 3T3-L1 preadipocytes. J. Biol. Chem. 260: 5563-5567.
    • (1985) J. Biol. Chem , vol.260 , pp. 5563-5567
    • Bernlohr, D.A.1    Bolanowski, M.A.2    Kelly Jr., T.J.3    Lane, M.D.4
  • 5
    • 0031558772 scopus 로고    scopus 로고
    • CAAT/enhancer binding proteins directly modulate transcription from the peroxisome proliferator-activated receptor γ 2 promoter
    • Clarke, S.L., Robinson, C.E., and Gimble, J.M. 1997. CAAT/enhancer binding proteins directly modulate transcription from the peroxisome proliferator-activated receptor γ 2 promoter. Biochem. Biophys. Res. Commun. 240: 99-103.
    • (1997) Biochem. Biophys. Res. Commun , vol.240 , pp. 99-103
    • Clarke, S.L.1    Robinson, C.E.2    Gimble, J.M.3
  • 6
    • 0038005018 scopus 로고    scopus 로고
    • DAVID: Database for Annotation, Visualization, and Integrated Discovery
    • doi: 10.1186/gb-2003-4-5-p3
    • Dennis, G., Sherman, B., Hosack, D., Yang, J., Gao, W., Lane, H.C., and Lempicki, R. 2003. DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol. 4: P3. doi: 10.1186/gb-2003-4-5-p3.
    • (2003) Genome Biol , vol.4
    • Dennis, G.1    Sherman, B.2    Hosack, D.3    Yang, J.4    Gao, W.5    Lane, H.C.6    Lempicki, R.7
  • 8
    • 33748942837 scopus 로고    scopus 로고
    • Transcriptional control of adipocyte formation
    • Farmer, S.R. 2006. Transcriptional control of adipocyte formation. Cell Metab. 4: 263-273.
    • (2006) Cell Metab , vol.4 , pp. 263-273
    • Farmer, S.R.1
  • 9
    • 48249140621 scopus 로고    scopus 로고
    • FindPeaks 3.1: A tool for identifying areas of enrichment from massively parallel short-read sequencing technology
    • Fejes, A.P., Robertson, G., Bilenky, M., Varhol, R., Bainbridge, M., and Jones, S.J.M. 2008. FindPeaks 3.1: A tool for identifying areas of enrichment from massively parallel short-read sequencing technology. Bioinformatics 24: 1729-1730.
    • (2008) Bioinformatics , vol.24 , pp. 1729-1730
    • Fejes, A.P.1    Robertson, G.2    Bilenky, M.3    Varhol, R.4    Bainbridge, M.5    Jones, S.J.M.6
  • 10
    • 33744954152 scopus 로고    scopus 로고
    • A regulatory role for 1-acylglycerol-3- phosphate-O-acyltransferase 2 in adipocyte differentiation
    • Gale, S.E., Frolov, A., Han, X., Bickel, P.E., Cao, L., Bowcock, A., Schaffer, J.E., and Ory, D.S. 2006. A regulatory role for 1-acylglycerol-3- phosphate-O-acyltransferase 2 in adipocyte differentiation. J. Biol. Chem. 281: 11082-11089.
    • (2006) J. Biol. Chem , vol.281 , pp. 11082-11089
    • Gale, S.E.1    Frolov, A.2    Han, X.3    Bickel, P.E.4    Cao, L.5    Bowcock, A.6    Schaffer, J.E.7    Ory, D.S.8
  • 11
    • 38049007472 scopus 로고    scopus 로고
    • Genome-wide identification of estrogen receptor α binding sites in mouse liver
    • Gao, H., Fält, S., Sandelin, A., Gustafsson, J.A., and Dalman-Wright, K. 2008. Genome-wide identification of estrogen receptor α binding sites in mouse liver. Mol. Endocrinol. 22: 10-22.
    • (2008) Mol. Endocrinol , vol.22 , pp. 10-22
    • Gao, H.1    Fält, S.2    Sandelin, A.3    Gustafsson, J.A.4    Dalman-Wright, K.5
  • 12
    • 0016243979 scopus 로고
    • Sublines of mouse 3T3 cells that accumulate lipid
    • Green, H. and Kehinde, O. 1974. Sublines of mouse 3T3 cells that accumulate lipid. Cell 1: 113-116.
    • (1974) Cell , vol.1 , pp. 113-116
    • Green, H.1    Kehinde, O.2
  • 13
    • 0035793577 scopus 로고    scopus 로고
    • Peroxisome proliferator-activated receptor δ (PPARδ)-mediated regulation of preadipocyte proliferation and gene expression is dependent on cAMP signaling
    • Hansen, J.B., Zhang, H., Rasmussen, T.H., Petersen, R.K., Flindt, E.N., and Kristiansen, K. 2001. Peroxisome proliferator-activated receptor δ (PPARδ)-mediated regulation of preadipocyte proliferation and gene expression is dependent on cAMP signaling. J. Biol. Chem. 276: 3175-3182.
    • (2001) J. Biol. Chem , vol.276 , pp. 3175-3182
    • Hansen, J.B.1    Zhang, H.2    Rasmussen, T.H.3    Petersen, R.K.4    Flindt, E.N.5    Kristiansen, K.6
  • 14
    • 0037178868 scopus 로고    scopus 로고
    • The gene encoding the acyl-CoA-binding protein is activated by peroxisome proliferator-activated receptor γ through an intronic response element functionally conserved between humans and rodents
    • Helledie, T., Grontved, L., Jensen, S.S., Kiilerich, P., Rietveld, L., Albrektsen, T., Boysen, M.S., Nohr, J., Larsen, L.K., Fleckner, J., et al. 2002. The gene encoding the acyl-CoA-binding protein is activated by peroxisome proliferator-activated receptor γ through an intronic response element functionally conserved between humans and rodents. J. Biol. Chem. 277: 26821-26830.
    • (2002) J. Biol. Chem , vol.277 , pp. 26821-26830
    • Helledie, T.1    Grontved, L.2    Jensen, S.S.3    Kiilerich, P.4    Rietveld, L.5    Albrektsen, T.6    Boysen, M.S.7    Nohr, J.8    Larsen, L.K.9    Fleckner, J.10
  • 15
    • 0032561340 scopus 로고    scopus 로고
    • A carboxyl-terminal extension of the zinc finger domain contributes to the specificity and polarity of peroxisome proliferator-activated receptor DNA binding
    • Hsu, M.H., Palmer, C.N., Song, W., Griffin, K.J., and Johnson, E.F. 1998. A carboxyl-terminal extension of the zinc finger domain contributes to the specificity and polarity of peroxisome proliferator-activated receptor DNA binding. J. Biol. Chem. 273: 27988-27997.
    • (1998) J. Biol. Chem , vol.273 , pp. 27988-27997
    • Hsu, M.H.1    Palmer, C.N.2    Song, W.3    Griffin, K.J.4    Johnson, E.F.5
  • 17
  • 18
    • 33745849713 scopus 로고    scopus 로고
    • The adipose tissue triglyceride lipase ATGL/PNPLA2 is downregulated by insulin and TNF-α in 3T3-L1 adipocytes and is a target for transactivation by PPARγ
    • doi: 10.1152/ajpendo.00317.2005
    • Kim, J.Y., Tillison, K., Lee, J.H., Rearick, D.A., and Smas, C.M. 2006. The adipose tissue triglyceride lipase ATGL/PNPLA2 is downregulated by insulin and TNF-α in 3T3-L1 adipocytes and is a target for transactivation by PPARγ. Am. J. Physiol. Endocrinol. Metab. 291: E115-E127. doi: 10.1152/ajpendo.00317.2005.
    • (2006) Am. J. Physiol. Endocrinol. Metab , vol.291
    • Kim, J.Y.1    Tillison, K.2    Lee, J.H.3    Rearick, D.A.4    Smas, C.M.5
  • 20
    • 0033231605 scopus 로고    scopus 로고
    • A C/EBP β isoform recruits the SWI/SNF complex to activate myeloid genes
    • Kowenz-Leutz, E. and Leutz, A. 1999. A C/EBP β isoform recruits the SWI/SNF complex to activate myeloid genes. Mol. Cell 4: 735-743.
    • (1999) Mol. Cell , vol.4 , pp. 735-743
    • Kowenz-Leutz, E.1    Leutz, A.2
  • 21
    • 0029016829 scopus 로고
    • An antidiabetic thiazolidinedione is a high affinity ligand for peroxisome proliferator-activated receptor γ (PPARγ)
    • Lehmann, J.M., Moore, L.B., Smith-Oliver, T.A., Wilkison, W.O., Willson, T.M., and Kliewer, S.A. 1995. An antidiabetic thiazolidinedione is a high affinity ligand for peroxisome proliferator-activated receptor γ (PPARγ). J. Biol. Chem. 270: 12953-12956.
    • (1995) J. Biol. Chem , vol.270 , pp. 12953-12956
    • Lehmann, J.M.1    Moore, L.B.2    Smith-Oliver, T.A.3    Wilkison, W.O.4    Willson, T.M.5    Kliewer, S.A.6
  • 22
    • 28944446431 scopus 로고    scopus 로고
    • The many faces of PPARγ
    • Lehrke, M. and Lazar, M.A. 2005. The many faces of PPARγ. Cell 123: 993-999.
    • (2005) Cell , vol.123 , pp. 993-999
    • Lehrke, M.1    Lazar, M.A.2
  • 23
    • 0036324753 scopus 로고    scopus 로고
    • An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments
    • Liu, X.S., Brutlag, D.L., and Liu, J.S. 2002. An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments. Nat. Biotechnol. 20: 835-839.
    • (2002) Nat. Biotechnol , vol.20 , pp. 835-839
    • Liu, X.S.1    Brutlag, D.L.2    Liu, J.S.3
  • 26
    • 34547569191 scopus 로고    scopus 로고
    • STAMP: A Web tool for exploring DNA-binding motif similarities
    • doi: 10.1093/nar/gkm272
    • Mahony, S. and Benos, P.V. 2007. STAMP: A Web tool for exploring DNA-binding motif similarities. Nucleic Acids Res. 35: W253-W258. doi: 10.1093/nar/gkm272.
    • (2007) Nucleic Acids Res , vol.35
    • Mahony, S.1    Benos, P.V.2
  • 27
    • 43049152845 scopus 로고    scopus 로고
    • Poised RNA polymerase II gives pause for thought
    • Margaritis, T. and Holstege, F.C. 2008. Poised RNA polymerase II gives pause for thought. Cell 133: 581-584.
    • (2008) Cell , vol.133 , pp. 581-584
    • Margaritis, T.1    Holstege, F.C.2
  • 28
    • 9444288103 scopus 로고    scopus 로고
    • PPARβ/δ potentiates PPARγ-stimulated adipocyte differentiation
    • Matsusue, K., Peters, J.M., and Gonzalez, F.J. 2004. PPARβ/δ potentiates PPARγ-stimulated adipocyte differentiation. FASEB J. 18: 1477-1479.
    • (2004) FASEB J , vol.18 , pp. 1477-1479
    • Matsusue, K.1    Peters, J.M.2    Gonzalez, F.J.3
  • 30
    • 2042437052 scopus 로고    scopus 로고
    • Identification of a functional peroxisome proliferator-activated receptor responsive element within the murine perilipin gene
    • Nagai, S., Shimizu, C., Umetsu, M., Taniguchi, S., Endo, M., Miyoshi, H., Yoshioka, N., Kubo, M., and Koike, T. 2004. Identification of a functional peroxisome proliferator-activated receptor responsive element within the murine perilipin gene. Endocrinology 145: 2346-2356.
    • (2004) Endocrinology , vol.145 , pp. 2346-2356
    • Nagai, S.1    Shimizu, C.2    Umetsu, M.3    Taniguchi, S.4    Endo, M.5    Miyoshi, H.6    Yoshioka, N.7    Kubo, M.8    Koike, T.9
  • 31
    • 0032540325 scopus 로고    scopus 로고
    • Oxidized LDL regulates macrophage gene expression through ligand activation of PPARγ
    • Nagy, L., Tontonoz, P., Alvarez, J.G., Chen, H., and Evans, R.M. 1998. Oxidized LDL regulates macrophage gene expression through ligand activation of PPARγ. Cell 93: 229-240.
    • (1998) Cell , vol.93 , pp. 229-240
    • Nagy, L.1    Tontonoz, P.2    Alvarez, J.G.3    Chen, H.4    Evans, R.M.5
  • 32
    • 33746547216 scopus 로고    scopus 로고
    • Peroxisome proliferator-activated receptor subtype-and cell-type-specific activation of genomic target genes upon adenoviral transgene delivery
    • Nielsen, R., Grontved, L., Stunnenberg, H.G., and Mandrup, S. 2006. Peroxisome proliferator-activated receptor subtype-and cell-type-specific activation of genomic target genes upon adenoviral transgene delivery. Mol. Cell. Biol. 26: 5698-5714.
    • (2006) Mol. Cell. Biol , vol.26 , pp. 5698-5714
    • Nielsen, R.1    Grontved, L.2    Stunnenberg, H.G.3    Mandrup, S.4
  • 33
    • 23744496757 scopus 로고    scopus 로고
    • Adipose development: From stem cell to adipocyte
    • Otto, T.C. and Lane, M.D. 2005. Adipose development: From stem cell to adipocyte. Crit. Rev. Biochem. Mol. Biol. 40: 229-242.
    • (2005) Crit. Rev. Biochem. Mol. Biol , vol.40 , pp. 229-242
    • Otto, T.C.1    Lane, M.D.2
  • 34
    • 0029066447 scopus 로고
    • Novel sequence determinants in peroxisome proliferator signaling
    • Palmer, C.N.A., Hsu, M.H., Griffin, K.J., and Johnson, E.F. 1995. Novel sequence determinants in peroxisome proliferator signaling. J. Biol. Chem. 270: 16114-16121.
    • (1995) J. Biol. Chem , vol.270 , pp. 16114-16121
    • Palmer, C.N.A.1    Hsu, M.H.2    Griffin, K.J.3    Johnson, E.F.4
  • 36
    • 0035529053 scopus 로고    scopus 로고
    • Cooperation between C/EBPα TBP/TFIIB and SWI/SNF recruiting domains is required for adipocyte differentiation
    • Pedersen, T.A., Kowenz-Leutz, E., Leutz, A., and Nerlov, C. 2001. Cooperation between C/EBPα TBP/TFIIB and SWI/SNF recruiting domains is required for adipocyte differentiation. Genes & Dev. 15: 3208-3216.
    • (2001) Genes & Dev , vol.15 , pp. 3208-3216
    • Pedersen, T.A.1    Kowenz-Leutz, E.2    Leutz, A.3    Nerlov, C.4
  • 38
    • 33845325476 scopus 로고    scopus 로고
    • Adipocyte differentiation from the inside out
    • Rosen, E.D. and MacDougald, O.A. 2006. Adipocyte differentiation from the inside out. Nat. Rev. Mol. Cell Biol. 7: 885-896.
    • (2006) Nat. Rev. Mol. Cell Biol , vol.7 , pp. 885-896
    • Rosen, E.D.1    MacDougald, O.A.2
  • 39
    • 0036318980 scopus 로고    scopus 로고
    • Microarray analyses during adipogenesis: Understanding the effects of Wnt signaling on adipogenesis and the roles of liver X receptor α in adipocyte metabolism
    • Ross, S.E., Erickson, R.L., Gerin, I., DeRose, P.M., Bajnok, L., Longo, K.A., Misek, D.E., Kuick, R., Hanash, S.M., Atkins, K.B., et al. 2002. Microarray analyses during adipogenesis: Understanding the effects of Wnt signaling on adipogenesis and the roles of liver X receptor α in adipocyte metabolism. Mol. Cell. Biol. 22: 5989-5999.
    • (2002) Mol. Cell. Biol , vol.22 , pp. 5989-5999
    • Ross, S.E.1    Erickson, R.L.2    Gerin, I.3    DeRose, P.M.4    Bajnok, L.5    Longo, K.A.6    Misek, D.E.7    Kuick, R.8    Hanash, S.M.9    Atkins, K.B.10
  • 40
    • 33244480814 scopus 로고    scopus 로고
    • Temporal recruitment of CCAAT/enhancer-binding proteins to early and late adipogenic promoters in vivo
    • Salma, N., Xiao, H., and Imbalzano, A.N. 2006. Temporal recruitment of CCAAT/enhancer-binding proteins to early and late adipogenic promoters in vivo. J. Mol. Endocrinol. 36: 139-151.
    • (2006) J. Mol. Endocrinol , vol.36 , pp. 139-151
    • Salma, N.1    Xiao, H.2    Imbalzano, A.N.3
  • 41
    • 0037022592 scopus 로고    scopus 로고
    • The peroxisome proliferator-activated receptor δ, an integrator of transcriptional repression and nuclear receptor signaling
    • Shi, Y., Hon, M., and Evans, R.M. 2002. The peroxisome proliferator-activated receptor δ, an integrator of transcriptional repression and nuclear receptor signaling. Proc. Natl. Acad. Sci. 99: 2613-2618.
    • (2002) Proc. Natl. Acad. Sci , vol.99 , pp. 2613-2618
    • Shi, Y.1    Hon, M.2    Evans, R.M.3
  • 42
    • 1642458359 scopus 로고    scopus 로고
    • Tissue-selective, bidirectional regulation of PEX11 α and perilipin genes through a common peroxisome proliferator response element
    • Shimizu, M., Takeshita, A., Tsukamoto, T., Gonzalez, F.J., and Osumi, T. 2004. Tissue-selective, bidirectional regulation of PEX11 α and perilipin genes through a common peroxisome proliferator response element. Mol. Cell. Biol. 24: 1313-1323.
    • (2004) Mol. Cell. Biol , vol.24 , pp. 1313-1323
    • Shimizu, M.1    Takeshita, A.2    Tsukamoto, T.3    Gonzalez, F.J.4    Osumi, T.5
  • 45
    • 13544249591 scopus 로고    scopus 로고
    • An intact DNA-binding domain is not required for peroxisome proliferator-activated receptor γ (PPARγ) binding and activation on some PPAR response elements
    • Temple, K.A., Cohen, R.N., Wondisford, S.R., Yu, C., Deplewski, D., and Wondisford, F.E. 2005. An intact DNA-binding domain is not required for peroxisome proliferator-activated receptor γ (PPARγ) binding and activation on some PPAR response elements. J. Biol. Chem. 280: 3529-3540.
    • (2005) J. Biol. Chem , vol.280 , pp. 3529-3540
    • Temple, K.A.1    Cohen, R.N.2    Wondisford, S.R.3    Yu, C.4    Deplewski, D.5    Wondisford, F.E.6
  • 46
    • 0035532141 scopus 로고    scopus 로고
    • Estimating the number of clusters in a data set via the gap statistic
    • Tibshirani, R., Walther, G., and Hastie, T. 2001. Estimating the number of clusters in a data set via the gap statistic. J. R. Stat. Soc. [Ser A] 63: 411-423.
    • (2001) J. R. Stat. Soc. [Ser A] , vol.63 , pp. 411-423
    • Tibshirani, R.1    Walther, G.2    Hastie, T.3
  • 47
    • 4143099405 scopus 로고    scopus 로고
    • Regulated production of a peroxisome proliferator-activated receptor-γ ligand during an early phase of adipocyte differentiation in 3T3-L1 adipocytes
    • Tzameli, I., Fang, H., Ollero, M., Shi, H., Hamm, J.K., Kievit, P., Hollenberg, A.N., and Flier, J.S. 2004. Regulated production of a peroxisome proliferator-activated receptor-γ ligand during an early phase of adipocyte differentiation in 3T3-L1 adipocytes. J. Biol. Chem. 279: 36093-36102.
    • (2004) J. Biol. Chem , vol.279 , pp. 36093-36102
    • Tzameli, I.1    Fang, H.2    Ollero, M.3    Shi, H.4    Hamm, J.K.5    Kievit, P.6    Hollenberg, A.N.7    Flier, J.S.8
  • 48
    • 33846864234 scopus 로고    scopus 로고
    • Unsaturated fatty acids suppress the expression of the ATP-binding cassette transporter G1 (ABCG1) and ABCA1 genes via an LXR/RXR responsive element
    • Uehara, Y., Miura, S., von Eckardstein, A., Abe, S., Fujii, A., Matsuo, Y., Rust, S., Lorkowski, S., Assmann, G., Yamada, T., et al. 2007. Unsaturated fatty acids suppress the expression of the ATP-binding cassette transporter G1 (ABCG1) and ABCA1 genes via an LXR/RXR responsive element. Atherosclerosis 191: 11-21.
    • (2007) Atherosclerosis , vol.191 , pp. 11-21
    • Uehara, Y.1    Miura, S.2    von Eckardstein, A.3    Abe, S.4    Fujii, A.5    Matsuo, Y.6    Rust, S.7    Lorkowski, S.8    Assmann, G.9    Yamada, T.10
  • 49
    • 0041620271 scopus 로고    scopus 로고
    • Regulatory sequence analysis tools
    • van Helden, J. 2003. Regulatory sequence analysis tools. Nucleic Acids Res. 31: 3593-3596.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3593-3596
    • van Helden, J.1
  • 51
    • 33846833479 scopus 로고    scopus 로고
    • Absence of an adipogenic effect of rosiglitazone on mature 3T3-L1 adipocytes: Increase of lipid catabolism and reduction of adipokine expression
    • Wang, P., Renes, J., Bouwman, F., Bunschoten, A., Mariman, E., and Keijer, J. 2007. Absence of an adipogenic effect of rosiglitazone on mature 3T3-L1 adipocytes: Increase of lipid catabolism and reduction of adipokine expression. Diabetologia 50: 654-665.
    • (2007) Diabetologia , vol.50 , pp. 654-665
    • Wang, P.1    Renes, J.2    Bouwman, F.3    Bunschoten, A.4    Mariman, E.5    Keijer, J.6


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