Journal of Nucleic Acids
Volume 2010 (2010), Article ID 841932, 8 pages
doi:10.4061/2010/841932
Research Article

Thrombin-Binding Aptamer Quadruplex Formation: AFM and Voltammetric Characterization

Victor Constantin Diculescu,1 Ana-Maria Chiorcea-Paquim,1 Ramon Eritja,2 and Ana Maria Oliveira-Brett1

1Departamento de Quimica, Faculdade de Ciências e Tecnologia, Universidade de Coimbra, 3004-535 Coimbra, Portugal
2Institute for Research in Biomedicine, IQAC-CSIC, CIBER-BBN Networking Centre on Bioengineering, Biomaterials and Nanomedicine, 08028 Barcelona, Spain

Received 15 January 2010; Accepted 29 March 2010

Academic Editor: Lea Spindler

Copyright © 2010 Victor Constantin Diculescu et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Linked References

  1. V. Dapić, V. Abdomerović, R. Marrington, et al., “Biophysical and biological properties of quadruplex oligodeoxyribonucleotides,” Nucleic Acids Research, vol. 31, no. 8, pp. 2097–2107, 2003. View at Publisher · View at Google Scholar · View at Scopus
  2. L. Oganesian and T. M. Bryan, “Physiological relevance of telomeric G-quadruplex formation: a potential drug target,” BioEssays, vol. 29, no. 2, pp. 155–165, 2007. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  3. S. Cogoi and L. E. Xodo, “G-quadruplex formation within the promoter of the KRAS proto-oncogene and its effect on transcription,” Nucleic Acids Research, vol. 34, no. 9, pp. 2536–2549, 2006. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  4. R. F. Macaya, P. Schultze, F. W. Smith, J. A. Roe, and J. Feigon, “Thrombin-binding DNA aptamer forms a unimolecular quadruplex structure in solution,” Proceedings of the National Academy of Sciences of the United States of America, vol. 90, no. 8, pp. 3745–3749, 1993. View at Scopus
  5. A. D. Ellington and J. W. Szostak, “In vitro selection of RNA molecules that bind specific ligands,” Nature, vol. 346, no. 6287, pp. 818–822, 1990. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  6. M. K. Beissenhirtz and I. Willner, “DNA-based machines,” Organic and Biomolecular Chemistry, vol. 4, no. 18, pp. 3392–3401, 2006. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  7. M. del Toro, R. Gargallo, R. Eritja, and J. Jaumot, “Study of the interaction between the G-quadruplex-forming thrombin-binding aptamer and the porphyrin 5,10,15,20-tetrakis-(N-methyl-4-pyridyl)-21,23H-porphyrin tetratosylate,” Analytical Biochemistry, vol. 379, no. 1, pp. 8–15, 2008. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  8. Z. Tang, D. Shangguan, K. Wang, et al., “Selection of aptamers for molecular recognition and characterization of cancer cells,” Analytical Chemistry, vol. 79, no. 13, pp. 4900–4907, 2007. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  9. B. Chakraborty, Z. Jiang, Y. Li, and H.-Z. Yu, “Rational design and performance testing of aptamer-based electrochemical biosensors for adenosine,” Journal of Electroanalytical Chemistry, vol. 635, no. 2, pp. 75–82, 2009. View at Publisher · View at Google Scholar · View at Scopus
  10. E. Torres-Chavolla and E. C. Alocilja, “Aptasensors for detection of microbial and viral pathogens,” Biosensors and Bioelectronics, vol. 24, no. 11, pp. 3175–3182, 2009. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  11. A. Numnuam, K. Y. Chumbimuni-Torres, Y. Xiang, et al., “Aptamer-based potentiometric measurements of proteins using ion-selective microelectrodes,” Analytical Chemistry, vol. 80, no. 3, pp. 707–712, 2008. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  12. C. Wang, M. Zhang, G. Yang, et al., “Single-stranded DNA aptamers that bind differentiated but not parental cells: subtractive systematic evolution of ligands by exponential enrichment,” Journal of Biotechnology, vol. 102, no. 1, pp. 15–22, 2003. View at Publisher · View at Google Scholar · View at Scopus
  13. K. N. Morris, K. B. Jensen, C. M. Julin, M. Weil, and L. Gold, “High affinity ligands from in vitro selection: complex targets,” Proceedings of the National Academy of Sciences of the United States of America, vol. 95, no. 6, pp. 2902–2907, 1998. View at Publisher · View at Google Scholar · View at Scopus
  14. J. A. Kelly, J. Feigon, and T. O. Yeates, “Reconciliation of the X-ray and NMR structures of the thrombin-binding aptamer d(GGTTGGTGTGGTTGG),” Journal of Molecular Biology, vol. 256, no. 3, pp. 417–422, 1996. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  15. A.-M. Chiorcea Paquim, T. S. Oretskaya, and A. M. Oliveira Brett, “Adsorption of synthetic homo- and hetero-oligodeoxynucleotides onto highly oriented pyrolytic graphite: atomic force microscopy characterization,” Biophysical Chemistry, vol. 121, no. 2, pp. 131–141, 2006. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
  16. T. C. Marsh, J. Vesenka, and E. Henderson, “A new DNA nanostructure, the G-wire, imaged by scanning probe microscopy,” Nucleic Acids Research, vol. 23, no. 4, pp. 696–700, 1995. View at Scopus
  17. A. M. Oliveira Brett, V. C. Diculescu, A. M. Chiorcea-Paquim, and S. H. P. Serrano, “Chapter 20 DNA-electrochemical biosensors for investigating DNA damage,” Comprehensive Analytical Chemistry, vol. 49, pp. 413–437, 2007. View at Publisher · View at Google Scholar · View at Scopus