NanoScript: A nanoparticle-based artificial transcription factor for effective gene regulation

ACS Nano

Volumn 8, Issue 9, 2014, Pages 8959-8967

  Patel, Sahishnu ^a   Jung, Dongju ^b   Yin, Perry T ^c   Carlton, Peter ^b   Yamamoto, Makoto ^d   Bando, Toshikazu ^d   Sugiyama, Hiroshi ^b,d   Lee, Ki Bum ^a,c  

^a RUTGERS UNIVERSITY   (United States)

^b KYOTO UNIVERSITY   (Japan)

^c RUTGERS UNIVERSITY   (United States)

^d KYOTO UNIVERSITY   (Japan)

Author keywords

gene activation; nanoparticle based genetic manipulation; nonviral delivery; synthetic transcription factors; transcription factor proteins

Indexed keywords

GENE EXPRESSION; GENES; NANOPARTICLES; PROTEINS; STEM CELLS; TRANSCRIPTION FACTORS;

ARTIFICIAL TRANSCRIPTION FACTORS; BIOLOGICAL APPLICATIONS; FUNCTIONAL PEPTIDES; GENE ACTIVATION; GENETIC MANIPULATIONS; NON-VIRAL DELIVERIES; SYNTHETIC TRANSCRIPTION; TRANSCRIPTIONAL ACTIVITY;

TRANSCRIPTION;

BIOMIMETIC MATERIAL; GOLD; METAL NANOPARTICLE; NANOPARTICLE; PEPTIDE; TRANSCRIPTION FACTOR;

CELL NUCLEUS; CHEMISTRY; GENE EXPRESSION REGULATION; HELA CELL LINE; HUMAN; METABOLISM; PROTEIN TERTIARY STRUCTURE; TRANSCRIPTION INITIATION;

BIOMIMETIC MATERIALS; CELL NUCLEUS; GENE EXPRESSION REGULATION; GOLD; HELA CELLS; HUMANS; METAL NANOPARTICLES; NANOPARTICLES; PEPTIDES; PROTEIN STRUCTURE, TERTIARY; TRANSCRIPTION FACTORS; TRANSCRIPTIONAL ACTIVATION;

EID: 84925638638     PISSN: 19360851     EISSN: 1936086X     Source Type: Journal    
DOI: 10.1021/nn501589f     Document Type: Article

References (48)

1. Reik, W. Stability and Flexibility of Epigenetic Gene Regulation in Mammalian Development Nature 2007, 447, 425-432
2. Spitz, F.; Furlong, E. E. M. Transcription Factors: From Enhancer Binding to Developmental Control Nat. Rev. Genet. 2012, 13, 613-626
3. Leader, B.; Baca, Q. J.; Golan, D. E. Protein Therapeutics: A Summary and Pharmacological Classification Nat. Rev. Drug Discovery 2008, 7, 21-39
4. Liu, Y.; Wang, H.; Kamei, K.-i.; Yan, M.; Chen, K.-J.; Yuan, Q.; Shi, L.; Lu, Y.; Tseng, H.-R. Delivery of Intact Transcription Factor by Using Self-Assembled Supramolecular Nanoparticles Angew. Chem., Int. Ed. 2011, 50, 3058-3062
5. Yan, M.; Du, J.; Gu, Z.; Liang, M.; Hu, Y.; Zhang, W.; Priceman, S.; Wu, L.; Zhou, Z. H.; Liu, Z. et al. A Novel Intracellular Protein Delivery Platform Based on Single-Protein Nanocapsules Nat. Nanotechnol. 2010, 5, 48-53
6. Choi, S.-O.; Kim, Y.-C.; Lee, J. W.; Park, J.-H.; Prausnitz, M. R.; Allen, M. G. Intracellular Protein Delivery and Gene Transfection by Electroporation Using a Microneedle Electrode Array Small 2012, 8, 1081-1091
7. Tang, R.; Kim, C. S.; Solfiell, D. J.; Rana, S.; Mout, R.; Velázquez-Delgado, E. M.; Chompoosor, A.; Jeong, Y.; Yan, B.; Zhu, Z.-J. et al. Direct Delivery of Functional Proteins and Enzymes to the Cytosol Using Nanoparticle-Stabilized Nanocapsules ACS Nano 2013, 7, 6667-6673
8. Gu, Z.; Biswas, A.; Zhao, M.; Tang, Y. Tailoring Nanocarriers for Intracellular Protein Delivery Chem. Soc. Rev. 2011, 40, 3638-3655
9. Bale, S. S.; Kwon, S. J.; Shah, D. A.; Banerjee, A.; Dordick, J. S.; Kane, R. S. Nanoparticle-Mediated Cytoplasmic Delivery of Proteins To Target Cellular Machinery ACS Nano 2010, 4, 1493-1500
10. Carter, P. J. Introduction to Current and Future Protein Therapeutics: A Protein Engineering Perspective Exp. Cell Res. 2011, 317, 1261-1269
11. Dimitrov, D. Therapeutic Proteins. In Therapeutic Proteins; Voynov, V.; Caravella, J. A., Eds.; Humana Press, 2012; Vol. 899, pp 1-26.
12. Rosi, N. L.; Giljohann, D. A.; Thaxton, C. S.; Lytton-Jean, A. K. R.; Han, M. S.; Mirkin, C. A. Oligonucleotide-Modified Gold Nanoparticles for Intracellular Gene Regulation Science 2006, 312, 1027-1030
13. Wang, Z.; Liu, H.; Yang, S. H.; Wang, T.; Liu, C.; Cao, Y. C. Nanoparticle-Based Artificial RNA Silencing Machinery for Antiviral Therapy Proc. Natl. Acad. Sci. U.S.A. 2012, 109, 12387-12392
14. Giljohann, D. A.; Seferos, D. S.; Daniel, W. L.; Massich, M. D.; Patel, P. C.; Mirkin, C. A. Gold Nanoparticles for Biology and Medicine Angew. Chem., Int. Ed. 2010, 49, 3280-3294
15. Mapp, A. K.; Ansari, A. Z.; Ptashne, M.; Dervan, P. B. Activation of Gene Expression by Small Molecule Transcription Factors Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 3930-3935
16. Rodriguez-Martinez, J. A.; Peterson-Kaufman, K. J.; Ansari, A. Z. Small-Molecule Regulators That Mimic Transcription Factors Biochim. Biophys. Acta 2010, 1799, 768-774
17. Xiao, X. S.; Yu, P.; Lim, H. S.; Sikder, D.; Kodadek, T. A Cell-Permeable Synthetic Transcription Factor Mimic Angew. Chem., Int. Ed. 2007, 46, 2865-2868
18. Kwon, Y.; Arndt, H.-D.; Mao, Q.; Choi, Y.; Kawazoe, Y.; Dervan, P. B.; Uesugi, M. Small Molecule Transcription Factor Mimic J. Am. Chem. Soc. 2004, 126, 15940-15941
19. Pandian, G. N.; Taniguchi, J.; Junetha, S.; Sato, S.; Han, L.; Saha, A.; AnandhaKumar, C.; Bando, T.; Nagase, H.; Vaijayanthi, T. et al. Distinct DNA-Based Epigenetic Switches Trigger Transcriptional Activation of Silent Genes in Human Dermal Fibroblasts Sci. Rep. 2014, 4
20. Pandian, G. N.; Nakano, Y.; Sato, S.; Morinaga, H.; Bando, T.; Nagase, H.; Sugiyama, H. A Synthetic Small Molecule for Rapid Induction of Multiple Pluripotency Genes in Mouse Embryonic Fibroblasts Sci. Rep. 2012, 2
21. Dervan, P. B.; Edelson, B. S. Recognition of the DNA Minor Groove by Pyrrole-Imidazole Polyamides Curr. Opin. Struct. Biol. 2003, 13, 284-299
22. Gottesfeld, J. M.; Neely, L.; Trauger, J. W.; Baird, E. E.; Dervan, P. B. Regulation of Gene Expression by Small Molecules Nature 1997, 387, 202-205
23. Melander, C.; Burnett, R.; Gottesfeld, J. M. Regulation of Gene Expression with Pyrrole-Imidazole Polyamides J. Biotechnol. 2004, 112, 195-220
24. Nyanguile, O.; Uesugi, M.; Austin, D. J.; Verdine, G. L. A Nonnatural Transcriptional Coactivator Proc. Natl. Acad. Sci. U.S.A. 1997, 94, 13402-13406
25. Murakami, K.; Elmlund, H.; Kalisman, N.; Bushnell, D. A.; Adams, C. M.; Azubel, M.; Elmlund, D.; Levi-Kalisman, Y.; Liu, X.; Gibbons, B. J. et al. Architecture of an RNA Polymerase II Transcription Pre-Initiation Complex Science 2013, 342
26. Cantin, G. T.; Stevens, J. L.; Berk, A. J. Activation Domain-Mediator Interactions Promote Transcription Preinitiation Complex Assembly on Promoter DNA Proc. Natl. Acad. Sci. U.S.A. 2003, 100, 12003-12008
27. Hodel, M. R.; Corbett, A. H.; Hodel, A. E. Dissection of a Nuclear Localization Signal J. Biol. Chem. 2001, 276, 1317-1325
28. Tkachenko, A. G.; Xie, H.; Coleman, D.; Glomm, W.; Ryan, J.; Anderson, M. F.; Franzen, S.; Feldheim, D. L. Multifunctional Gold Nanoparticle-Peptide Complexes for Nuclear Targeting J. Am. Chem. Soc. 2003, 125, 4700-4701
29. Krpetic, Z.; Saleemi, S.; Prior, I. A.; Sée, V.; Qureshi, R.; Brust, M. Negotiation of Intracellular Membrane Barriers by TAT-Modified Gold Nanoparticles ACS Nano 2011, 5, 5195-5201
30. Krpetic, Z.; Singh, I.; Su, W.; Guerrini, L.; Faulds, K.; Burley, G. A.; Graham, D. Directed Assembly of DNA-Functionalized Gold Nanoparticles Using Pyrrole-Imidazole Polyamides J. Am. Chem. Soc. 2012, 134, 8356-8359
31. Lee, C. W.; Arai, M.; Martinez-Yamout, M. A.; Dyson, H. J.; Wright, P. E. Mapping the Interactions of the p53 Transactivation Domain with the KIX Domain of CBP Biochemistry 2009, 48, 2115-2124
32. Akey, C. W.; Radermacher, M. Architecture of the Xenopus Nuclear Pore Complex Revealed by Three-Dimensional Cryo-electron Microscopy J. Cell Biol. 1993, 122, 1-19
33. Hoelz, A.; Debler, E. W.; Blobel, G. The Structure of the Nuclear Pore Complex Annu. Rev. Biochem. 2011, 80, 613-643
34. Grossman, E.; Medalia, O.; Zwerger, M. Functional Architecture of the Nuclear Pore Complex Ann. Rev. Biophys. 2012, 41, 557-584
35. Karlic, R.; Chung, H.-R.; Lasserre, J.; Vlahovicek, K.; Vingron, M. Histone Modification Levels Are Predictive for Gene Expression Proc. Natl. Acad. Sci. U.S.A. 2010, 107, 2926-2931
36. Pang, Z. P.; Yang, N.; Vierbuchen, T.; Ostermeier, A.; Fuentes, D. R.; Yang, T. Q.; Citri, A.; Sebastiano, V.; Marro, S.; Sudhof, T. C. et al. Induction of Human Neuronal Cells by Defined Transcription Factors Nature 2011, 476, 220-223
37. Takahashi, K.; Yamanaka, S. Induction of Pluripotent Stem Cells from Mouse Embryonic and Adult Fibroblast Cultures by Defined Factors Cell 2006, 126, 663-676
38. Hou, P.; Li, Y.; Zhang, X.; Liu, C.; Guan, J.; Li, H.; Zhao, T.; Ye, J.; Yang, W.; Liu, K. et al. Pluripotent Stem Cells Induced from Mouse Somatic Cells by Small-Molecule Compounds Science 2013, 341, 651-654
39. Jung, J.; Solanki, A.; Memoli, K. A.; Kamei, K.-i.; Kim, H.; Drahl, M. A.; Williams, L. J.; Tseng, H.-R.; Lee, K. Selective Inhibition of Human Brain Tumor Cells through Multifunctional Quantum-Dot-Based siRNA Delivery Angew. Chem., Int. Ed. 2010, 49, 103-107
40. Shah, S.; Solanki, A.; Sasmal, P. K.; Lee, K.-B. Single Vehicular Delivery of siRNA and Small Molecules to Control Stem Cell Differentiation J. Am. Chem. Soc. 2013, 135, 15682-15685
41. Ferreira, L.; Karp, J. M.; Nobre, L.; Langer, R. New Opportunities: The Use of Nanotechnologies to Manipulate and Track Stem Cells Cell Stem Sell 2008, 3, 136-146
42. Solanki, A.; Chueng, S.-T. D.; Yin, P. T.; Kappera, R.; Chhowalla, M.; Lee, K.-B. Axonal Alignment and Enhanced Neuronal Differentiation of Neural Stem Cells on Graphene-Nanoparticle Hybrid Structures Adv. Mater. 2013, 25, 5477-5482
43. Shah, B.; Yin, P. T.; Ghoshal, S.; Lee, K.-B. Multimodal Magnetic Core-Shell Nanoparticles for Effective Stem-Cell Differentiation and Imaging Angew. Chem., Int. Ed. 2013, 52, 6190-6195
44. Solanki, A.; Shah, S.; Memoli, K. A.; Park, S. Y.; Hong, S.; Lee, K.-B. Controlling Differentiation of Neural Stem Cells Using Extracellular Matrix Protein Patterns Small 2010, 6, 2509-2513
45. Biel, M.; Wascholowski, V.; Giannis, A. Epigenetics-An Epicenter of Gene Regulation: Histones and Histone-Modifying Enzymes Angew. Chem., Int. Ed. 2005, 44, 3186-3216
46. Koren, E.; Torchilin, V. P. Cell-Penetrating Peptides: Breaking through to the Other Side Trends Mol. Med. 2012, 18, 385-393
47. Kurreck, J. RNA Interference: From Basic Research to Therapeutic Applications Angew. Chem., Int. Ed. 2009, 48, 1378-1398
48. Haase, M.; Schafer, H. Upconverting Nanoparticles Angew. Chem., Int. Ed. 2011, 50, 5808-5829