Animal cells and systems

  • 제13권2호
  • /
  • Pages.97-103
  • /
  • 2009
  • /
  • 1976-8354(pISSN)
  • /
  • 2151-2485(eISSN)
한국통합생물학회 (The Korean Society for Integrative Biology)
권호 표지

Considering Cell-based Assays and Factors for Genome-wide High-content Functional Screening

  • Chung, Chul-Woong (Creative Research Initiative (CRI)-Acceleration Research, School of Biological Science/Bio-Max Institute, Seoul National University) ;
  • Kim, In-Ki (LG Life Science Research Park) ;
  • Jung, Yong-Keun (Division of Applied Molecular Oncology, Ontario Cancer Institute)
  • 발행 : 2009.06.30
PDF 다운로드
⟨ 이전 논문 다음 논문 ⟩

초록

Recently, great advance is achieved in the field of genome-wide functional screening using cell-based assay. Here, we briefly introduce well-established and typical cell-based assays of GPCR and some parameters which should be considered for genome-wide functional screening. Because of characters and importance of GPCR as drug targets, several ways of assay systems were devised. Among them, high-content screening (HCS) that is based on the analysis of image by confocal microscope is becoming favorite choice. The advances in this technology have been driven exclusively by industry for their convenience. Now, it is turn for academy to define more detail signaling networks via HCS using cDNA or siRNA libraries at genome-wide level. By isolating novel signaling mediators using cDNA or siRNA library, and postulating them as new candidates for therapeutic target, more understanding about life science and more increased chances to develop therapeutics against human disease will be achieved.

키워드

참고문헌

  1. Aza-Blanc P, Cooper CL, Wagner K, Batalov S, Deveraux QL, and Cooke MP (2003) Identification of modulators of TRAIL-induced apoptosis via RNAi-based phenotypic screening. Mol Cell 12: 627-637 https://doi.org/10.1016/S1097-2765(03)00348-4
  2. Baker JG, Hall lP, and Hill SJ (2004) Temporal characteristics of cAMP response element-mediated gene transcription: requirement for sustained cAMP production. Mol Pharmacol 65: 986-998 https://doi.org/10.1124/mol.65.4.986
  3. Bernards R, Brummelkamp TR, and Beijersbergen RL (2006) shRNA libraries and their use in cancer genetics. Nat Methods 3: 701-706 https://doi.org/10.1038/nmeth921
  4. Bernstein E, Caudy AA, Hammond SM, and Hannon GJ (2001) Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature 409: 363-366 https://doi.org/10.1038/35053110
  5. Birnbaumer L and Birnbaumer M (1995) Signal transduction by G proteins: 1994 edition. J Recept Signal Transduct Res 15: 213-252 https://doi.org/10.3109/10799899509045218
  6. Borawski J, Lindeman A, Buxton F, Labow M, and Gaither LA (2007) Optimization procedure for small interfering RNA transfection in a 384-well format. J Biomol Screen 12: 546-559 https://doi.org/10.1177/1087057107300172
  7. Doucette C, Vedvik K, Koepnick E, Bergsma A, Thomson B, and Turek-Etienne TC (2009) Kappa Opioid Receptor Screen with the Tango$^{TM}$ beta-Arrestin Recruitment Technology and Characterization of Hits with Second-Messenger Assays. J Biomol Screen 14: 381-394 https://doi.org/10.1177/1087057109333974
  8. Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, and Tuschl T (2001) Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411: 494-498 https://doi.org/10.1038/35078107
  9. Elbashir SM, Harborth J, Weber K, and Tuschl T (2002) Analysis of gene function in somatic mammalian cells using small interfering RNAs. Methods 26: 199-213 https://doi.org/10.1016/S1046-2023(02)00023-3
  10. Fan F and Wood KV (2007) Bioluminescent assays for high-throughput screening. Assay Drug Dev Technol 5: 127-136 https://doi.org/10.1089/adt.2006.053
  11. Ganesan AK, Ho H, Bodemann B, Petersen S, Aruri J, Koshy S, Richardson Z, Le LQ, Krasieva T, Roth MG et al. (2008) Genome-wide siRNA-based functional genomics of pigmentation identifies novel genes and pathways that impact melanogenesis in human cells. PLoS Genet 4: e1000298 https://doi.org/10.1371/journal.pgen.1000298
  12. Garippa RJ, Hoffman AF, Gradl G, and Kirsch A (2006) Highthroughput confocal microscopy for beta-arrestin-green fluorescent protein translocation G protein-coupled receptor assays using the Evotec Opera. Methods Enzymol 414: 99120
  13. Ge X, Loh HH, and Law PY (2009) {micro}-Opioid receptor cell surface expression is regulated by its direct interaction with RibophorinI. Mol Pharmacol https://doi.org/10.1124/mol.108.054064.
  14. Ghosh RN, DeBiasio R, Hudson CC, Ramer ER, Cowan CL, and Oakley RH (2005) Quantitative cell-based high-content screening for vasopressin receptor agonists using trans fluor technology. J Biomol Screen 10: 476-484 https://doi.org/10.1177/1087057105274896
  15. Haasen D, Schnapp A, Valier MJ, and Heilker R (2006) G protein-coupled receptor internalization assays in the high-content screening format. Methods Enzymol 414: 121-139 https://doi.org/10.1016/S0076-6879(06)14008-2
  16. Hammond SM, Bernstein E, Beach D, and Hannon GJ (2000) An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells. Nature 404: 293-296 https://doi.org/10.1038/35005107
  17. Haney SA (2007) Increasing the robustness and validity of RNAi screens. Pharmacogenomics 8: 1037-1049 https://doi.org/10.2217/14622416.8.8.1037
  18. Hannon GJ (2002) RNA interference. Nature 418: 244-251 https://doi.org/10.1038/418244a
  19. Hannon GJ, Maroney PA, Yu YT, Hannon GE, and Nilsen TW (1992) Interaction ofU6 snRNA with a sequence required for function of the nematode SL RNA in trans-splicing. Science 258: 1775-1780 https://doi.org/10.1126/science.1465612
  20. Heilker R, Wolff M, Tautermann CS, and Bieler M (2009) Gprotein-coupled receptor-focused drug discovery using a target class platform approach. Drug Discov Today 14: 231-240 https://doi.org/10.1016/j.drudis.2008.11.011
  21. Hyun I, Hochedlinger K, Jaenisch R, and Yamanaka S (2007) New advances in iPS cell research do not obviate the need for human embryonic stem cells. Cell Stem Cell 1: 367-368 https://doi.org/10.1016/j.stem.2007.09.006
  22. Jacoby E, Bouhelal R, Gerspacher M, and Seuwen K (2006) The 7 TM G-protein-coupled receptor target family. Chem Med Chem 1: 761-782
  23. Kohout TA and Lefkowitz RJ (2003) Regulation of G proteincoupled receptor kinases and arrestins during receptor desensitization. Mol Pharmacol 63: 9-18 https://doi.org/10.1124/mol.63.1.9
  24. Krausz E (2007) High-content siRNA screening. Mol Biosyst 3: 232-240 https://doi.org/10.1039/b616187c
  25. Lee S, Howell B, and Kunapuli P (2006) Cell imaging assays for G protein-coupled receptor internalization: application to high-throughput screening. Methods Enzymol 414: 79-98 https://doi.org/10.1016/S0076-6879(06)14006-9
  26. Lundholt BK, Scudder KM, and Pagliaro L (2003) A simple technique for reducing edge effect in cell-based assays. J Biomol Screen 8: 566-570 https://doi.org/10.1177/1087057103256465
  27. Luttrell LM and Lefkowitz RJ (2002) The role ofbeta-arrestins in the termination and transduction of G-protein-coupled receptor signals. J Cell Sci 115: 455-465
  28. McGuinness R (2007) Impedance-based cellular assay technologies: recent advances, future promise. Curr Opin Pharmacol 7: 535-540 https://doi.org/10.1016/j.coph.2007.08.004
  29. Monteith GR and Bird GS (2005) Techniques: high-throughput measurement of intracellular Ca(2+) -- back to basics. Trends Pharmacol Sci 26: 218-223 https://doi.org/10.1016/j.tips.2005.02.002
  30. Offermanns S (2003) G-proteins as transducers in transmembrane signalling. Prog Biophys Mol BioI 83: 101-130 https://doi.org/10.1016/S0079-6107(03)00052-X
  31. Oosterom J, van Doommalen EJ, Lobregt S, Blomenrohr M, and Zaman GJ (2005) High-throughput screening using betalactamase reporter-gene technology for identification of lowmolecular-weight antagonists of the human gonadotropin releasing hormone receptor. Assay Drug Dev Technol 3: 143-154 https://doi.org/10.1089/adt.2005.3.143
  32. Overington JP, Al-Lazikani B, and Hopkins AL (2006) How many drug targets are there? Nat Rev Drug Discov 5: 993-996 https://doi.org/10.1038/nrd2199
  33. Pierce KL, Premont RT, and RJ L (2002) Seven-transmembrane receptors. Nat Rev Mol Cell BioI 3: 639-650 https://doi.org/10.1038/nrm908
  34. Poon SS, Wong IT, Saunders DN, Ma QC, McKinney S, Fee J, and Aparicio SA (2008) Intensity calibration and automated cell cycle gating for high-throughput image-based siRNA screens of mammalian cells. Cytometry A 73: 904-917 https://doi.org/10.1002/cyto.a.20624
  35. Rines DR, Tu B, Miraglia L, Welch GL, Zhang J, Hull MV, Orth AP, and Chanda SK (2006) High-content screening of functional genomic libraries. Methods Enzymol 414: 530-565 https://doi.org/10.1016/S0076-6879(06)14028-8
  36. Siehler S, Wang Y, Fan X, Windh RT, and Manning DR (2001) Sphingosine 1-phosphate activates nuclear factor-kappa B through Edg receptors. Activation through Edg-3 and Edg-5, but not Edg-1, in human embryonic kidney 293 cells. J Biol Chem 276: 48733-48739 https://doi.org/10.1074/jbc.M011072200
  37. Silva JM, Marran K, Parker JS, Silva J, Golding M, Schlabach MR, Elledge SJ, Hannon GJ, and Chang K (2008) Profiling essential genes in human mammary cells by multiplex RNAi screening. Science 319: 617-620 https://doi.org/10.1126/science.1149185
  38. Takahashi K and Yamanaka S (2006) Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell 126: 663-676 https://doi.org/10.1016/j.cell.2006.07.024
  39. Tsutsumi R, Fukata Y,Noritake J, Iwanaga T, Perez F, and Fukata M (2009) Identification of G protein alpha subunitpalmitoylating enzyme. Mol Cell Biol 29: 435-447 https://doi.org/10.1128/MCB.01144-08
  40. Vrecl M, Jorgensen R, Pogacnik A, and Heding A (2004) Development of a BRET2 screening assay using beta-arrestin 2 mutants. J Biomol Screen 9: 322-333 https://doi.org/10.1177/1087057104263212
  41. Wang CJ, Hsu SH, Hung WT, and Luo CW (2009) Establishment of a chimeric reporting system for the universal detection and high-throughput screening of G protein-coupled receptors. Biosens Bioelectron 24: 2298-2304 https://doi.org/10.1016/j.bios.2008.11.023
  42. Webb S (2009) iPS cell technology gains momentum in drug discovery. Nat Rev Drug Discov 8: 263-264 https://doi.org/10.1038/nrd2867
  43. Williams C (2004) cAMP detection methods in HTS: selecting the best from the rest. Nat Rev Drug Discov 3: 125-135 https://doi.org/10.1038/nrd1306
  44. Xia H, Mao Q, Eliason SL, Harper SQ, Martins IH, Orr HT, Paulson HL, Yang L, Kotin RM, and Davidson BL (2004) RNAi suppresses po1yglutamine-induced neurodegeneration in a model of spinocerebellar ataxia. Nat Med 10: 816-820 https://doi.org/10.1038/nm1076
  45. Xin H, Bernal A, Amato FA, Pinhasov A, Kauffman J, Brenneman DE, Derian CK, Andrade-Gordon P, PlataSalaman CR, and Ilyin SE (2004) High-throughput siRNAbased functional target validation. J Biomol Screen 9: 286-293 https://doi.org/10.1177/1087057104263533
  46. Yamanaka S (2009) A fresh look at iPS cells. Cell 137: 13-17 https://doi.org/10.1016/j.cell.2009.03.034
  47. Zhang JH, Chung TD, and Oldenburg KR (1999) A Simple Statistical Parameter for Use in Evaluation and Validation of High Throughput Screening Assays. J Biomol Screen 4: 67-73 https://doi.org/10.1177/108705719900400206
  48. Zou H, Thomas SM, Yan ZW, Grandis JR, Vogt A, and Li LY (2009) Human rhomboid family-1 gene RHBDF 1 participates in GPCR-mediated transactivation of EGFR growth signals in head and neck squamous cancer cells. Faseb J 23: 425-432 https://doi.org/10.1096/fj.08-112771