Using distal-site mutations and allosteric inhibition to tune, extend, and narrow the useful dynamic range of aptamer-based sensors

Journal of the American Chemical Society

Volumn 134, Issue 51, 2012, Pages 20601-20604

  Porchetta, Alessandro ^a,b,d   Vallée Bélisle, Alexis ^c   Plaxco, Kevin W ^c   Ricci, Francesco ^a,b  

^a UNIVERSITY OF ROME TOR VERGATA   (Italy)

^b NATIONAL INSTITUTE OF BIOSTRUCTURES AND BIOSYSTEMS   (Italy)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d UNIVERSITÉ DE MONTRÉAL   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ALLOSTERIC CONTROL; ALLOSTERIC INHIBITION; APTAMERS; BIOLOGICAL RECEPTORS; DYNAMIC RANGE; ORDERS OF MAGNITUDE; SYNTHETIC BIOLOGY;

DRUG DELIVERY; OLIGONUCLEOTIDES;

SENSORS;

APTAMER; OLIGONUCLEOTIDE;

ALLOSTERISM; ARTICLE; BINDING AFFINITY; DRUG DELIVERY SYSTEM; MUTATION; SENSOR; SYNTHETIC BIOLOGY;

APTAMERS, NUCLEOTIDE; BASE SEQUENCE; BIOSENSING TECHNIQUES; COCAINE; MUTATION; NUCLEIC ACID CONFORMATION; OLIGONUCLEOTIDES; SENSITIVITY AND SPECIFICITY;

EID: 84871546095     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja310585e     Document Type: Article

References (48)

1. Cheng, M. M.; Cuda, G.; Bunimovich, Y. L.; Gaspari, M.; Heath, J. R.; Hill, H. D.; Ferrari, M. Curr. Opin. Chem. Biol. 2006, 10, 11
2. Wang, J. Biosens. Bioelectron. 2006, 21, 1887
3. Vallée-Bélisle, A.; Ricci, F.; Plaxco, K. W. J. Am. Chem. Soc. 2012, 134, 2876
4. Halámek, J.; Zhou, J.; Halámková, L.; Bocharova, V.; Privman, V.; Wang, J.; Katz, E. Anal. Chem. 2011, 83, 8383
5. Katz, E.; Privman, V. Chem. Soc. Rev. 2010, 39, 1835
6. Rafael, P. S.; Vallée-Bélisle, A.; Fabregas, E.; Plaxco, K.; Palleschi, G.; Ricci, F. Anal. Chem. 2012, 84, 1076
7. Benner, S. A. Chem. Rev. 1989, 89, 789
8. Huang, C. F.; Ferrell, J. E., Jr. Proc. Natl. Acad. Sci. U.S.A. 1996, 93, 10078
9. Tsai, C.; Del Sol, A.; Nussinov, R. Mol. BioSyst. 2009, 5, 207
10. Cui, Q.; Karplus, M. Protein Sci. 2008, 17, 1295
11. del Sol, A.; Tsai, C.; Ma, B.; Nussinov, R. Structure 2009, 17, 1042
12. Kar, G.; Keskin, O.; Gursoy, A.; Nussinov, R. Curr. Opin. Pharmacol. 2010, 10, 715
13. Bloom, J. D.; Arnold, F. H. Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 9995
14. Buchler, N. E.; Cross, F. R. Mol. Syst. Biol. 2009, 5
15. Vallée-Bélisle, A.; Ricci, F.; Plaxco, K. W. Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 13802
16. Ricci, F.; Vallée-Bélisle, A.; Plaxco, K. W. J. Am. Chem. Soc. 2012, 134, 15177
17. Kang, D.; Vallee-Belisle, A.; Porchetta, A.; Plaxco, K. W.; Ricci, F. Angew. Chem., Int. Ed. 2012, 51, 6717
18. Ricci, F.; Vallée-Bélisle, A.; Plaxco, K. W. PLoS Comp. Biol. 2011, 7, e1002171
19. Stojanovic, M. N.; de Prada, P.; Landry, D. W. J. Am. Chem. Soc. 2001, 123, 4928
20. Cekan, P.; Jonsson, E. Ö.; Sigurdsson, S. T. Nucleic Acids Res. 2009, 37, 3990
21. Elowitz, M. B.; Leibier, S. Nature 2000, 403, 335
22. Kim, J.; White, K. S.; Winfree, E. Mol. Syst. Biol. 2006, 2
23. Vallée-Bélisle, A.; Plaxco, K. W. Curr. Opin. Struct. Biol 2010, 20, 518
24. Mizoue, L. S.; Chazin, W. J. Curr. Opin. Struct. Biol 2002, 12, 459
25. Velazquez-Campoy, A.; Todd, M. J.; Vega, S.; Freire, E. Proc. Natl. Acad. Sci. U.S.A. 2001, 98, 6062
26. Jäckel, C.; Kast, P.; Hilvert, D. Annu. Rev. Biophys. 2008, 37, 153
27. Toscano, M. D.; Woycechowsky, K. J.; Hilvert, D. Angew. Chem., Int. Ed. 2007, 46, 3212
28. Choi, B.; Zocchi, G. J. Am. Chem. Soc. 2006, 128, 8541
29. Choi, B.; Zocchi, G.; Canale, S.; Wu, Y.; Chan, S.; Jeanne Perry, L. Phys. Rev. Lett. 2005, 94, 038103
30. Famulok, M.; Hartig, J. S.; Mayer, G. Chem. Rev. 2007, 107, 3715
31. Liu, J.; Lu, Y. Adv. Mater. 2006, 18, 1667
32. Najafi-Shoushtari, S. H.; Famulok, M. Blood Cell Mol. Dis. 2007, 38, 19
33. Pelossof, G.; Tel-Vered, R.; Elbaz, J.; Willner, I. Anal. Chem. 2010, 82, 4396
34. Robertson, M. P.; Ellington, A. D. Nucleic Acids Res. 2000, 28, 1751
35. Tang, J.; Breaker, R. R. Chem. Biol. 1997, 4, 453
36. Teller, C.; Shimron, S.; Willner, I. Anal. Chem. 2009, 81, 9114
37. Winkler, W. C.; Breaker, R. R. Chem. Biol. Chem. 2003, 4, 1024
38. Vinkenborg, J. L.; Karnowski, N.; Famulok, M. Nature Chem. Biol. 2011, 7, 519
39. Yoshida, W.; Sode, K.; Ikebukuro, K. Anal. Chem. 2006, 78, 3296
40. Barbas, A. S.; Mi, J.; Clary, B. M.; White, R. R. Future Oncol. 2010, 6, 1117
41. Ireson, C. R.; Kelland, L. R. Mol. Cancer Ther. 2006, 5, 2957
42. Hicke, B. J.; Stephens, A. W.; Gould, T.; Chang, Y.; Lynott, C. K.; Heil, J. J. Nucl. Med. 2006, 47, 668
43. Levy-Nissenbaum, E.; Radovic-Moreno, A. F.; Wang, A. Z.; Langer, R.; Farokhzad, O. C. Trends Biotechnol. 2008, 26, 442
44. Lefstin, J. A.; Yamamoto, K. R. Nature 1998, 392, 885
45. Maung, N. W.; Smolke, C. D. Science 2008, 322, 456
46. Vuyisich, M.; Beal, P. A. Chem. Biol. 2002, 9, 907
47. Werstuck, G.; Green, M. R. Science 1998, 282, 296
48. Winkler, W. C.; Cohen-Chalamish, S.; Breaker, R. R. Proc. Natl. Acad. Sci. U.S.A. 2002, 99, 15908