A novel RNAi lethality rescue screen to identify regulators of adipogenesis

PLoS ONE

Volumn 7, Issue 6, 2012, Pages

  van Beekum, Olivier ^a   Gao, Yuan ^a   Berger, Ruud ^a   Koppen, Arjen ^a   Kalkhoven, Eric ^a,b  

^a UNIVERSITY MEDICAL CENTER UTRECHT   (Netherlands)

^b UNIVERSITY MEDICAL CENTER UTRECHT   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

DEUBIQUITINASE; ENZYME; MICRORNA; PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA; PROTEIN UCHL3; RNA POLYMERASE II; UNCLASSIFIED DRUG; CYSTEINE PROTEINASE; UCHL3 PROTEIN, HUMAN;

ADIPOGENESIS; ARTICLE; CELL DIFFERENTIATION; CONTROLLED STUDY; GENE EXPRESSION; GENE SILENCING; HIGH THROUGHPUT SCREENING; HUMAN; HUMAN CELL; LETHALITY; MOLECULAR LIBRARY; PROMOTER REGION; RNA INTERFERENCE; CELL LINE; CELL STRAIN HEK293; FLUORESCENT ANTIBODY TECHNIQUE; GENETICS; METABOLISM; PHYSIOLOGY;

ADIPOGENESIS; CELL LINE, TRANSFORMED; CYSTEINE ENDOPEPTIDASES; FLUORESCENT ANTIBODY TECHNIQUE; HEK293 CELLS; HUMANS; PPAR GAMMA; RNA INTERFERENCE;

EID: 84861880845     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0037680     Document Type: Article

References (56)

1. Rosen ED, Spiegelman BM, (2006) Adipocytes as regulators of energy balance and glucose homeostasis. Nature 444: 847-853.
2. Guilherme A, Virbasius JV, Puri V, Czech MP, (2008) Adipocyte dysfunctions linking obesity to insulin resistance and type 2 diabetes. NatRevMolCell Biol 9: 367-377.
3. Lefterova MI, Lazar MA, (2009) New developments in adipogenesis. Trends EndocrinolMetab 20: 107-114.
4. Green H, Kehinde O, (1974) Sublines of mouse 3T3 cells that accumulate lipid. Cell 1: 113-116.
5. Poulos SP, Dodson MV, Hausman GJ, (2010) Cell line models for differentiation: preadipocytes and adipocytes. ExpBiolMed(Maywood) 235: 1185-1193.
6. Farmer SR, (2006) Transcriptional control of adipocyte formation. Cell Metab 4: 263-273.
7. Tontonoz P, Hu E, Spiegelman BM, (1994) Stimulation of adipogenesis in fibroblasts by PPAR gamma 2, a lipid-activated transcription factor. Cell 79: 1147-1156.
8. Nielsen R, Pedersen TA, Hagenbeek D, Moulos P, Siersbaek R, et al. (2008) Genome-wide profiling of PPAR{gamma}:RXR and RNA polymerase II occupancy reveals temporal activation of distinct metabolic pathways and changes in RXR dimer composition during adipogenesis. Genes Dev 22: 2953-2967.
9. Lefterova MI, Zhang Y, Steger DJ, Schupp M, Schug J, et al. (2008) PPAR{gamma} and C/EBP factors orchestrate adipocyte biology via adjacent binding on a genome-wide scale. Genes Dev 22: 2941-2952.
10. Barak Y, Nelson MC, Ong ES, Jones YZ, Ruiz-Lozano P, et al. (1999) PPAR gamma is required for placental, cardiac, and adipose tissue development. MolCell 4: 585-595.
11. Kubota N, Terauchi Y, Miki H, Tamemoto H, Yamauchi T, et al. (1999) PPAR gamma mediates high-fat diet-induced adipocyte hypertrophy and insulin resistance. MolCell 4: 597-609.
12. Nadra K, Quignodon L, Sardella C, Joye E, Mucciolo A, et al. (2010) PPARgamma in placental angiogenesis. Endocrinology 151: 4969-4981.
13. Rosen ED, Sarraf P, Troy AE, Bradwin G, Moore K, et al. (1999) PPAR gamma is required for the differentiation of adipose tissue in vivo and in vitro. MolCell 4: 611-617.
14. Imai T, Takakuwa R, Marchand S, Dentz E, Bornert JM, et al. (2004) Peroxisome proliferator-activated receptor gamma is required in mature white and brown adipocytes for their survival in the mouse. ProcNatlAcadSciUSA 101: 4543-4547.
15. Hegele RA, (2005) Lessons from human mutations in PPARgamma. IntJObes(Lond) 29 (Suppl 1): S31-5.
16. Oishi Y, Manabe I, Tobe K, Tsushima K, Shindo T, et al. (2005) Kruppel-like transcription factor KLF5 is a key regulator of adipocyte differentiation. Cell Metab 1: 27-39.
17. Zhu Y, Qi C, Jain S, Rao MS, Reddy JK, (1997) Isolation and characterization of PBP, a protein that interacts with peroxisome proliferator-activated receptor. JBiolChem 272: 25500-25506.
18. van Beekum O, Brenkman AB, Grontved L, Hamers N, van den Broek NJ, et al. (2008) The adipogenic acetyltransferase Tip60 targets activation function 1 of PPARgamma. Endocrinology 149: 1840-1849.
19. Villanueva CJ, Waki H, Godio C, Nielsen R, Chou WL, et al. (2011) TLE3 Is a Dual-Function Transcriptional Coregulator of Adipogenesis. Cell Metab 13: 413-427.
20. Koppen A, Houtman R, Pijnenburg D, Jeninga EH, Ruijtenbeek R, et al. (2009) Nuclear receptor-coregulator interaction profiling identifies TRIP3 as a novel PPARgamma cofactor. MolCell Proteomics 8: 2212-2226.
21. Li F, Gu Y, Dong W, Li H, Zhang L, et al. (2010) Cell death-inducing DFF45-like effector, a lipid droplet-associated protein, might be involved in the differentiation of human adipocytes. FEBS J 277: 4173-4183.
22. Louet JF, Coste A, Amazit L, Tannour-Louet M, Wu RC, et al. (2006) Oncogenic steroid receptor coactivator-3 is a key regulator of the white adipogenic program. ProcNatlAcadSciUSA 103: 17868-17873.
23. Park KW, Waki H, Choi SP, Park KM, Tontonoz P, (2010) The small molecule phenamil is a modulator of adipocyte differentiation and PPARgamma expression. JLipid Res 51: 2775-2784.
24. Waki H, Park KW, Mitro N, Pei L, Damoiseaux R, et al. (2007) The small molecule harmine is an antidiabetic cell-type-specific regulator of PPARgamma expression. Cell Metab 5: 357-370.
25. Bernards R, Brummelkamp TR, Beijersbergen RL, (2006) shRNA libraries and their use in cancer genetics. NatMethods 3: 701-706.
26. Tang XQ, Guilherme A, Chakladar A, Powelka AM, Konda S, et al. (2006) An RNA interference-based screen identifies MAP4K4/NIK as a negative regulator of PPAR gamma, adipogenesis, and insulin-responsive hexose transport. ProcNatlAcadSciUSA 103: 2087-2092.
27. Green H, Kehinde O, (1975) An established preadipose cell line and its differentiation in culture. II. Factors affecting the adipose conversion. Cell 5: 19-27.
28. Nagayama M, Uchida T, Gohara K, (2007) Temporal and spatial variations of lipid droplets during adipocyte division and differentiation. JLipid Res 48: 9-18.
29. Shigematsu S, Miller SL, Pessin JE, (2001) Differentiated 3T3L1 adipocytes are composed of heterogenous cell populations with distinct receptor tyrosine kinase signaling properties. JBiolChem 276: 15292-15297.
30. Loo LH, Lin HJ, Singh DK, Lyons KM, Altschuler SJ, et al. (2009) Heterogeneity in the physiological states and pharmacological responses of differentiating 3T3-L1 preadipocytes. JCell Biol 187: 375-384.
31. Nan X, Cheng JX, Xie XS, (2003) Vibrational imaging of lipid droplets in live fibroblast cells with coherent anti-Stokes Raman scattering microscopy. JLipid Res 44: 2202-2208.
32. Green H, Kehinde O, (1976) Spontaneous heritable changes leading to increased adipose conversion in 3T3 cells. Cell 7: 105-113.
33. Altiok S, Xu M, Spiegelman BM, (1997) PPAR gamma induces cell cycle withdrawal: inhibition of E2F/DP DNA-binding activity via down-regulation of PP2A. Genes Dev 11: 1987-1998.
34. Brummelkamp TR, Bernards R, Agami R, (2002) A system for stable expression of short interfering RNAs in mammalian cells. Science 296: 550-553.
35. Stegmeier F, Hu G, Rickles RJ, Hannon GJ, Elledge SJ, (2005) A lentiviral microRNA-based system for single-copy polymerase II-regulated RNA interference in mammalian cells. ProcNatlAcadSciUSA 102: 13212-13217.
36. Jeninga EH, van Beekum O, van Dijk AD, Hamers N, Hendriks-Stegeman BI, et al. (2007) Impaired peroxisome proliferator-activated receptor gamma function through mutation of a conserved salt bridge (R425C) in familial partial lipodystrophy. MolEndocrinol 21: 1049-1065.
37. Gijsbers L, Man HY, Kloet SK, de Haan LH, Keijer J, et al. (2011) Stable reporter cell lines for peroxisome proliferator-activated receptor gamma (PPARgamma)-mediated modulation of gene expression. AnalBiochem.
38. Fajas L, Egler V, Reiter R, Miard S, Lefebvre AM, et al. (2003) PPARgamma controls cell proliferation and apoptosis in an RB-dependent manner. Oncogene 22: 4186-4193.
39. van Beekum O, Fleskens V, Kalkhoven E, (2009) Posttranslational modifications of PPAR-gamma: fine-tuning the metabolic master regulator. Obesity(SilverSpring) 17: 213-219.
40. Nerlov C, (2008) C/EBPs: recipients of extracellular signals through proteome modulation. CurrOpinCell Biol 20: 180-185.
41. Brummelkamp TR, Nijman SMB, Dirac AMG, Bernards R, (2003) Loss of the cylindromatosis tumour suppressor inhibits apoptosis by activating NF-kappa B. Nature 424: 797-801.
42. Sowa ME, Bennett EJ, Gygi SP, Harper JW, (2009) Defining the human deubiquitinating enzyme interaction landscape. Cell 138: 389-403.
43. Sekiguchi S, Kwon J, Yoshida E, Hamasaki H, Ichinose S, et al. (2006) Localization of ubiquitin C-terminal hydrolase L1 in mouse ova and its function in the plasma membrane to block polyspermy. AmJPathol 169: 1722-1729.
44. Osawa Y, Wang YL, Osaka H, Aoki S, Wada K, (2001) Cloning, expression, and mapping of a mouse gene, Uchl4, highly homologous to human and mouse Uchl3. BiochemBiophysResCommun 283: 627-633.
45. Borodovsky A, Ovaa H, Kolli N, Gan-Erdene T, Wilkinson KD, et al. (2002) Chemistry-based functional proteomics reveals novel members of the deubiquitinating enzyme family. ChemBiol 9: 1149-1159.
46. Ovaa H, Kessler BM, Rolen U, Galardy PJ, Ploegh HL, et al. (2004) Activity-based ubiquitin-specific protease (USP) profiling of virus-infected and malignant human cells. ProcNatlAcadSciUSA 101: 2253-2258.
47. Suzuki M, Setsuie R, Wada K, (2009) Ubiquitin carboxyl-terminal hydrolase l3 promotes insulin signaling and adipogenesis. Endocrinology 150: 5230-5239.
48. Setsuie R, Suzuki M, Kabuta T, Fujita H, Miura S, et al. (2009) Ubiquitin C-terminal hydrolase-L3-knockout mice are resistant to diet-induced obesity and show increased activation of AMP-activated protein kinase in skeletal muscle. FASEB J 23: 4148-4157.
49. Wada H, Kito K, Caskey LS, Yeh ET, Kamitani T, (1998) Cleavage of the C-terminus of NEDD8 by UCH-L3. BiochemBiophysResCommun 251: 688-692.
50. Hemelaar J, Borodovsky A, Kessler BM, Reverter D, Cook J, et al. (2004) Specific and covalent targeting of conjugating and deconjugating enzymes of ubiquitin-like proteins. MolCell Biol 24: 84-95.
51. Kwon J, Wang YL, Setsuie R, Sekiguchi S, Sato Y, et al. (2004) Two closely related ubiquitin C-terminal hydrolase isozymes function as reciprocal modulators of germ cell apoptosis in cryptorchid testis. AmJPathol 165: 1367-1374.
52. Rabut G, Peter M, (2008) Function and regulation of protein neddylation. 'Protein modifications: beyond the usual suspects' review series. EMBO Rep 9: 969-976.
53. Tontonoz P, Hu E, Graves RA, Budavari AI, Spiegelman BM, (1994) mPPAR gamma 2: tissue-specific regulator of an adipocyte enhancer. Genes Dev 8: 1224-1234.
54. Iwaki M, Matsuda M, Maeda N, Funahashi T, Matsuzawa Y, et al. (2003) Induction of adiponectin, a fat-derived antidiabetic and antiatherogenic factor, by nuclear receptors. Diabetes 52: 1655-1663.
55. Ge K, Guermah M, Yuan CX, Ito M, Wallberg AE, et al. (2002) Transcription coactivator TRAP220 is required for PPAR gamma 2-stimulated adipogenesis. Nature 417: 563-567.
56. Ausubel FM, Brent R, Kingston R, Moore D, Seidman JJ, et al. (1993) Current Protocols in Molecular Biology. New York John Wiley & Sons.