Environmental effects influencing the vibrational modes of DNA: Nanostructures coupled to biomolecules

Dinakar Ramadurai, Takayuki Yamanaka, Milana Vasudev, Yang Li, Viswanath Sankar, Mitra Dutta, Michael A. Stroscio, Tijana Rajh, Zoran Saponjic, Song Xu

Research output: Chapter in Book/Report/Conference proceedingChapter


The interactions of charges in DNA with the vibrational modes in DNA depend on the spectra of these vibrational modes. Using (a) the Su-Schrieffer-Heeger (SSH) Hamiltonian approach, (b) integrated structures of DNA and manmade nanostructures, and (c) gel electrophoresis techniques, 1 the interaction between charges in DNA and the vibrational modes of DNA are investigated. As is well-known, DNA has a rich spectrum of modes in the THz spectral regime. The use of manmade nanostructures integrated with DNA facilitates the engineering of nanoscale systems useful in studying the role of environmental effects on the vibrational modes of DNA as well as the interaction of these modes with charge carriers in DNA. Among the DNA-based structures considered in this account are: B-DNA and Z-DNA strands related by a conformational change; and DNA molecules bound on one terminal to indirect bandgap semiconductor quantum dots. Gel electrophoresis is used as a tool for the analysis of carrier interactions in novel integrated DNAmanmade- nanostructure complexes, and models based on the SSH Hamiltonian2 are employed as a means of analyzing the interactions between the vibrational modes of DNA and charge carriers in DNA.3-4.

Original languageEnglish (US)
Title of host publicationSpectral Sensing Research For Water Monitoring Applications And Frontier Science And Technology For Chemical, Biological And Radiological Defense
PublisherWorld Scientific Publishing Co.
Number of pages15
ISBN (Electronic)9789812833242
StatePublished - Jan 1 2008
Externally publishedYes


  • DNA: polarons
  • Optical excitation
  • Polaron detrapping
  • Polaron trapping
  • Polaron-phonon scattering
  • Quantum dots
  • Quantum wire
  • THz phonons

ASJC Scopus subject areas

  • General Engineering
  • General Environmental Science


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