Molecular scale architecture: Engineered three- and four-way junctions

Bioconjugate Chemistry

Volumn 19, Issue 2, 2008, Pages 470-475

  Wilkinson, Stephanie ^a   Diechtierow, Michael ^b   Estabrook, R August ^d   Schmidt, Falk ^c   Hüben, Michael ^c   Weinhold, Elmar ^c   Reich, Norbert O ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF HEIDELBERG   (Germany)

^c RWTH AACHEN UNIVERSITY   (Germany)

^d NONE

Author keywords

[No Author keywords available]

Indexed keywords

OLIGONUCLEOTIDES; PROTEINS; SELF ASSEMBLY;

BIOCHEMICAL TECHNIQUES; BIOMOLECULAR SELF ASSEMBLY; BOTTOM UP; DNA SEGMENTS; DNA-METHYLTRANSFERASE; LABELINGS; METHYLTRANSFERASES; MOLECULAR SCALE; NANOSCALE ARCHITECTURES; STREPTAVIDIN;

DNA;

DNA; DNA METHYLTRANSFERASE; OLIGONUCLEOTIDE; STREPTAVIDIN;

ARTICLE; DNA MODIFICATION; DNA SEQUENCE; DNA STRUCTURE; POLYMERASE CHAIN REACTION;

EID: 39749156358     PISSN: 10431802     EISSN: None     Source Type: Journal    
DOI: 10.1021/bc700270k     Document Type: Article

References (36)

1. Martin, C. R., and Kohli, P. (2003) The emerging field of nanotube biotechnology. Nat. Rev. Drug Discovery 2, 29-37.
2. Rosei, F., Schunack, M., Naitoh, Y., Jiang, P., Gourdon, A, Laegsgaard, E., Stensgaard, I., Joachim, C., and Besenbacher, F. (2003) Properties of large organic molecules on metal surfaces. Prog. Surf. Sci. 71, 95-146.
3. Braun, E., and Keren, K. (2004) From DNA to transistors. Adv. Phys. 53, 441-96.
4. Taniguchi, M., and Kawai, T. (2006) DNA electronics. Phys. E 33, 1-12.
5. Brucale, M., Zuccheri, G., and Samori, B. (2006) Mastering the complexity of DNA nanostructures. Trends Biotechnol. 5, 235-43.
6. Seeman, N. C., and Lukeman, P. S. (2005) Nucleic acid nanostructures: bottom-up control of geometry on the nanoscale. Rep. Prog. Phys. 68, 237-70.
7. Gothelf, K. V., and LaBean, T. H. (2005) DNA-programmed assembly of nanostructures. Org. Biomol. Chem. 3, 4023-37.
8. Katz, E., and Willner, I. (2004) Integrated nanoparticle-biomolecule hybrid systems: synthesis, properties, and applications. Angew. Chem., Int. Ed. 43, 6042-108.
9. Seeman, N. C. (2003) DNA in a material world. Nature (London) 421, 427-31.
10. Rothemund, P. W. K. (2006) Folding DNA to create nanoscale shapes and patterns. Nature (London) 440, 297-302.
11. Tian, Y., He, Y., Ribbe, A. E., and Mao, C. D. (2006) Preparation of branched structures with long DNA duplex arms. Org. Biomol. Chem. 4, 3404-5.
12. Pljevaljcic, G., Schmidt, F., and Weinhold, E. (2004) Sequence-specific methyltransferase-induced labeling of DNA (SMILing DNA). ChemBioChem 5, 265-9.
13. Pljevaljcic, G., Schmidt, F., Peschlow, A., and Weinhold, E. (2004) Sequence-specific DNA labeling using methyltransferases. Methods Mol. Biol. 283, 145-61.
14. Kallenbach, N. R., Ma, R. I., and Seeman, N. C. (1983) An immobile nucleic-acid junction constructed from oligonucleotides. Nature (London) 305, 829-31.
15. Wilson, G. G., and Murray, N. E. (1991) Restriction and modification systems. Annu. Rev. Genet. 25, 585-627.
16. Palmer, B. R., and Marinus, M. G. (1994) The dam and dcm strains of Escherichia coli - a review. Gene 143, 1-12.
17. Reisenauer, A., Kahng, L. S., McCollum, S., and Shapiro, L. (1999) Bacterial DNA methylation: a cell cycle regulator? J. Bacteriol. 181, 5135-9.
18. Jaenisch, R., and Bird, A. (2003) Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals. Nat. Genet. 33, 245-54.
19. Reik, W., and Walter, J. (2001) Genomic imprinting: parental influence on the genome. Nat. Rev. Genet. 2, 21-32.
20. Jones, P. A., and Baylin, S. B. (2002) The fundamental role of epigenetic events in cancer. Nat. Rev. Genet. 3, 415-28.
21. Jackson-Grusby, L., and Jaenisch, R. (1996) Experimental manipulation of genomic methylation. Semin. Cancer Biol. 7, 261-8.
22. Pljevaljcic, G., Pignot, M., and Weinhold, E. (2003) Design of a new fluorescent cofactor for DNA methyltransferases and sequence-specific labeling of DNA. J. Am. Chem. Soc. 125, 3486-92.
23. Hendrickson, W. A., Pahler, A., Smith, J. L., Satow, Y., Merritt, E. A., and Phizackerley, R. P. (1989) Crystal structure of core streptavidin determined from multiwavelength anomalous diffraction of synchrotron radiation. Proc. Natl. Acad. Sci. U.S.A. 86, 2190-4.
24. Niemeyer, C. M., Adler, M., Gao, S., and Chi, L. (2001) Nanostructured DNA-protein aggregates consisting of covalent oligonucleotide-streptavidin conjugates. Bioconjugate Chem. 12, 364-71.
25. Niemeyer, C. M. (2004) Semi-synthetic DNA-protein conjugates: novel tools in analytics and nanobiotechnology. Biochem. Soc. Trans. 32, 1-3.
26. Park, S. H., Yin, P., Liu, Y., Reif, J. H., LaBean, T. H., and Yan, H. (2005) Programmable DNA self-assemblies for nanoscale organization of ligands and proteins. Nano Lett. 5, 729-33.
27. Park, S. H., Pistol, C., Ahn, S. J., Reif, J. H., Lebeck, A. R., Dwyer, C., and LaBean, T. H. (2006) Finite-size, fully addressable DNA tile lattices formed by hierarchical assembly procedures. Angew. Chem., Int. Ed. 45, 735-9.
28. Li, H. Y., Park, S. H., Reif, J. H., LaBean, T. H., and Yan, H. (2004) DNA-templated self-assembly of protein and nanoparticle linear arrays. J. Am. Chem. Soc. 126, 418-9.
29. Bezanilla, M., Manne, S., Laney, D. E., Lyubchenko, Y. L., and Hansma, H. G. (1995) Adsorption of DNA to mica, silylated mice, and minerals - characterization by atomic-force microscopy. Langmuir 11, 655-9.
30. Allison, D. P., Kerper, P. S., Doktycz, M. J., Spain, J. A., Modrich, P., Larimer, F. W., Thundat, T., and Warmack, R. J. (1996) Direct atomic force microscope imaging of EcoRI endonuclease site specifically bound to plasmid DNA molecules. Proc. Natl. Acad. Sci. U.S.A. 93, 8826-9.
31. He, Y., Chen, Y., Liu, H., Ribbe, A. E., and Mao, C. (2005) Self-assembly of hexagonal DNA two-dimensional (2D) arrays. J. Am. Chem. Soc. 127, 12202-3.
32. Liu, Y., Ke, Y. G., and Yan, H. (2005) Self-assembly of symmetric finite-size DNA nanoarrays. J. Am. Chem. Soc. 127, 17140-1.
33. Lund, K., Liu, Y., Lindsay, S., and Yan, H. (2005) Self-assembling a molecular pegboard. J. Am. Chem. Soc. 127, 17606-7.
34. Feldkamp, U., and Niemeyer, C. M. (2006) Rational design of DNA nanoarchitectures. Angew. Chem., Int. Ed. 45, 1856-76.
35. O'Neill, P., Rothemund, P. W., Kumar, A., and Fygenson, D. K. (2006) Sturdier DNA nanotubes via ligation. Nano Lett. 6, 1379-83.
36. Braun, G., Diechtierow, M., Wilkinson, S., Schmidt, F., Lugowski, M., Weinhold, E., and Reich, N. Unpublished results.