An investigation into the influence of secondary structures for DNA hybridization using surface plasmon resonance and surface-enhanced Raman scattering

J. N. Yih*, K. C. Chiu, F. C. Chien, W. Y. Chen, Shean-Jen Chen

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingConference contribution

3 Scopus citations

Abstract

This study utilizes a surface plasmon resonance (SPR) biosensing to investigate the influence of secondary structures on the DNA hybridization and a surface-enhanced Raman scattering (SERS) spectrum to yield analytical data regarding the structure of the oligonucleotides. It is found that the SPR angular shifts associated with the three pairs of 60mer oligonucleotides with prominent secondary structures are lower than those observed for the two pairs of oligonucleotides with no obvious secondary structures. It is also determined that increasing the DNA hybridization temperature from 35°C to 45°C reduces secondary structure effects. On the hybridization with mixture target oligonucleotides, the SPR results demonstrate that secondary structures interfere significantly. Although the kinetics of biomolecular interaction analysis is performed by using SPR sensor, the structural information of the oligonucleotides can not observed directly. The SERS spectrum provides the structural information of the oligonucleotides with silver colloidal nanoparticles adapted as a Raman active substrate. Also, the detection limit of the DNA Raman signal has been successfully improved to reach sub-micro molarity of DNA concentration.

Original languageEnglish
Title of host publicationPlasmonics in Biology and Medicine III
DOIs
StatePublished - 26 Jun 2006
EventPlasmonics in Biology and Medicine III - San Jose, CA, United States
Duration: 23 Jan 200624 Jan 2006

Publication series

NameProgress in Biomedical Optics and Imaging - Proceedings of SPIE
Volume6099
ISSN (Print)1605-7422

Conference

ConferencePlasmonics in Biology and Medicine III
CountryUnited States
CitySan Jose, CA
Period23/01/0624/01/06

Keywords

  • DNA secondary structural effect
  • Nanoparticles
  • Structural change
  • Surface plasmon resonance
  • Surface-enhanced Raman scattering

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    Yih, J. N., Chiu, K. C., Chien, F. C., Chen, W. Y., & Chen, S-J. (2006). An investigation into the influence of secondary structures for DNA hybridization using surface plasmon resonance and surface-enhanced Raman scattering. In Plasmonics in Biology and Medicine III [609906] (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; Vol. 6099). https://doi.org/10.1117/12.647449