Increased anticoagulant activity of thrombin-binding DNA aptamers by nanoscale organization on DNA nanostructures

Nanomedicine: Nanotechnology, Biology, and Medicine

Volumn 8, Issue 5, 2012, Pages 673-681

  Rangnekar, Abhijit ^a,b   Zhang, Alex M ^b   Li, Susan Shiyuan ^c   Bompiani, Kristin M ^b,d   Hansen, Majken N ^a   Gothelf, Kurt V ^a   Sullenger, Bruce A ^d   LaBean, Thomas H ^b,e  

^a AARHUS UNIVERSITY   (Denmark)

^b DUKE UNIVERSITY   (United States)

^c DAVIDSON COLLEGE   (United States)

^d DUKE UNIVERSITY MEDICAL CENTER   (United States)

^e Duke University   (United States)

Author keywords

Anticoagulation; DNA aptamers; DNA nanotechnology; DNA weave tile; Thrombin

Indexed keywords

ANTI-COAGULATION; ANTICOAGULANT ACTIVITIES; APTAMERS; BLOOD CLOTTING; BLOOD COAGULATION; COAGULATION PATHWAY; DNA APTAMERS; DNA NANOSTRUCTURES; DNA NANOTECHNOLOGY; FUNCTIONAL ASSAYS; NANO-SCALE ORGANIZATION; SINGLE-STRANDED DNA; THROMBIN; THROMBIN INHIBITION;

COAGULATION; ENZYMES; NANOSTRUCTURES; OPTIMIZATION; RNA;

DNA;

ANTICOAGULANT AGENT; APTAMER; NANOMATERIAL; SINGLE STRANDED DNA; THROMBIN BINDING DNA APTAMER; UNCLASSIFIED DRUG;

ANTICOAGULATION; ARTICLE; BLOOD CLOTTING; DNA BINDING; DNA STRUCTURE; DRUG DNA BINDING; DRUG STRUCTURE; NANOANALYSIS;

ANTICOAGULANTS; APTAMERS, NUCLEOTIDE; BLOOD COAGULATION; DNA; HUMANS; NANOSTRUCTURES; PLASMA; THROMBIN;

EID: 84862658199     PISSN: 15499634     EISSN: 15499642     Source Type: Journal    
DOI: 10.1016/j.nano.2011.08.011     Document Type: Article

References (30)

1. Fu T., Seeman N.C. DNA double-crossover molecules. Biochemistry 1993, 32:3211-3220.
2. LaBean T.H., Yan H., Kopatsch J., Liu F., Winfree E., Reif J.H., et al. Construction, analysis, ligation, and self-assembly of DNA triple crossover complexes. J Am Chem Soc 2000, 122:1848-1860.
3. Yan H., Park S.H., Finkelstein G., Reif J.H., LaBean T.H. DNA-templated self-assembly of protein arrays and highly conductive nanowires. Science 2003, 301:1882-1884.
4. Liu D., Wang M., Deng Z., Walulu R., Mao C. Tensegrity: Construction of rigid DNA triangles with flexible four-arm DNA junctions. J Am Chem Soc 2004, 126:2324-2325.
5. Mathieu F., Liao S., Kopatsch J., Wang T., Mao C., Seeman N.C. Six-helix bundles designed from DNA. Nano Lett 2005, 5:661-665.
6. Rothemund P.W.K. Folding DNA to create nanoscale shapes and patterns. Nature 2006, 440:297-302.
7. Douglas S.M., Dietz H., Liedl T., Högberg B., Graf F., Shih W.M. Self-assembly of DNA into nanoscale three-dimensional shapes. Nature 2009, 459:414-418.
8. Andersen E.S., Dong M., Nielsen M.M., Jahn K., Subramani R., Mamdouh W., et al. Self-assembly of a nanoscale DNA box with a controllable lid. Nature 2009, 459:73-76.
9. Winfree E., Liu F., Wenzler L.A., Seeman N.C. Design and self-assembly of two-dimensional DNA crystals. Nature 1998, 394:539-544.
10. He Y., Ye T., Su M., Zhang C., Ribbe A.E., Jiang W., et al. Hierarchical self-assembly of DNA into symmetric supramolecular polyhedra. Nature 2008, 452:198-201.
11. Hansen M.N., Zhang A.M., Rangnekar A., Bompiani K.M., Carter J.D., Gothelf K.V., et al. Weave tile architecture construction strategy for DNA nanotechnology. J Am Chem Soc 2010, 132:14481-14486.
12. Shen Z., Yan H., Wang T., Seeman N.C., Paranemic crossover D.N.A. A generalized Holliday structure with applications in nanotechnology. J Am Chem Soc 2004, 126:1666-1674.
13. Zhang J., Liu Y., Ke Y., Yan H. Periodic square-like gold nanoparticle arrays templated by self-assembled 2D DNA nanogrids on a surface. Nano Letters 2006, 6:248-251.
14. Rinker S., Ke Y., Liu Y., Chhabra R., Yan H. Self-assembled DNA nanostructures for distance-dependent multivalent ligand-protein binding. Nat Nanotechnology 2008, 3:418-422.
15. Ellington A.D., Szostak J.W. In vitro selection of RNA molecules that bind specific ligands. Nature 1990, 346:818-822.
16. Tuerk C., Gold L. Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science 1990, 249:505-510.
17. Bock L.C., Griffin L.C., Latham J.A., Vermaas E.H., Toole J.J. Selection of single-stranded DNA molecules that bind and inhibit human thrombin. Nature 1992, 355:564-566.
18. Di Cera E. Thrombin interactions. Chest 2003, 124:11S-17S.
19. Kwaan H.C., Samama M.M. Anticoagulant drugs: An update. Expert Rev Cardiovasc Ther 2004, 2:511-522.
20. Müller J., Wulffen B., Pötzch B., Mayer G. Multidomain targeting generates a high-affinity thrombin-inhibiting bivalent aptamer. ChemBioChem 2007, 8:2223-2226.
21. White R.R., Sullenger B.A., Rusconi C.P. Developing aptamers into therapeutics. J Clin Invest 2000, 106:929-934.
22. Rusconi C.P., Scardino E., Layzer J., Pitoc G.A., Ortel T.L., Monroe D., et al. RNA aptamers as reversible antagonists of coagulation factor IXa. Nature 2002, 419:90-94.
23. Dyke C.K., Steinhubl S.R., Kleiman N.S., Cannon R.O., Aberle L.G., Lin M., et al. First-in-human experience of an antidote-controlled anticoagulant using RNA aptamer technology: A phase 1a pharmacodynamic evaluation of a drug-antidote pair for controlled regulation of Factor IXa activity. Circulation 2006, 114:2490-2497.
24. Chan M.Y., Rusconi C.P., Alexander J.H., Tonkens R.M., Harrington R.A., Becker R.C. A randomized, repeat-dose, pharmacodynamic and safety study of an antidote-controlled factor IXa inhibitor. J Thromb Haemost 2008, 6:789-796.
25. Chan M.Y., Cohen M.G., Dyke C.K., Myles S.K., Aberle L.G., Lin M., et al. Phase 1b randomized study of antidote-controlled modulation of factor IXa activity in patients with stable coronary artery disease. Circulation 2008, 117:2865-2874.
26. Cohen M.G., Purdy D.A., Rossi J.S., Grinfeld L.R., Myles S.K., Aberle L.H., et al. First clinical application of an actively reversible direct factor IXa inhibitor as an anticoagulation strategy in patients undergoing percutaneous coronary intervention. Circulation 2010, 122:614-622.
27. Padmanabhan K., Tulinsky A. An ambiguous structure of a DNA 15-mer thrombin complex. Acta Crysta 1996, D52:272-282.
28. Mammen M., Choi S.K., Whitesides G.M. Polyvalent interactions in biological systems: Implications for design and use of multivalent ligands and inhibitors. Angew Chem Int Ed 1998, 37:2755-2794.
29. Watson J.D., Crick F.H.C. A Structure for Deoxyribose Nucleic Acid. Nature 1953, 171:737-738.
30. Barkley M.D., Zimm B.H. Theory of twisting and bending of chain macromolecules - Analysis of the fluorescence depolarization of DNA. J Chem Phys 1979, 70:2991-3007.