skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: The effect of solvent dynamics on the low frequency collectivemotions of DNA in solution and unoriented films

Abstract

Infrared spectroscopy is used to probe the dynamics of invitro samples of DNA prepared as solutions and as solid unoriented films.The lowest frequency DNA mode identified in the far-infrared spectra ofthe DNA samples is found to shift in frequency when the solvent influencein the hydration shell is altered. The lowest frequency mode also hascharacteristics that are similar to beta - relaxations identified inother glass forming polymers.

Authors:
; ; ;
Publication Date:
Research Org.:
Ernest Orlando Lawrence Berkeley NationalLaboratory, Berkeley, CA (US)
Sponsoring Org.:
USDOE. Office of Biological and Environmental Research.Medical Science Division, Stanford Linear Accelerator Center
OSTI Identifier:
891823
Report Number(s):
LBNL-59679
R&D Project: 366173
DOE Contract Number:
DE-AC02-05CH11231
Resource Type:
Journal Article
Resource Relation:
Journal Name: Journal of Chemical Physics; Journal Volume: 124; Related Information: Journal Publication Date: 2006
Country of Publication:
United States
Language:
English
Subject:
60 APPLIED LIFE SCIENCES; infrared DNA dynamics

Citation Formats

Woods, K.N., Lee, S.A., Holman, H.-Y.N., and Wiedemann, H. The effect of solvent dynamics on the low frequency collectivemotions of DNA in solution and unoriented films. United States: N. p., 2006. Web. doi:10.1063/1.2200349.
Copy to clipboard
Woods, K.N., Lee, S.A., Holman, H.-Y.N., & Wiedemann, H. The effect of solvent dynamics on the low frequency collectivemotions of DNA in solution and unoriented films. United States. doi:10.1063/1.2200349.
Copy to clipboard
Woods, K.N., Lee, S.A., Holman, H.-Y.N., and Wiedemann, H. Thu . "The effect of solvent dynamics on the low frequency collectivemotions of DNA in solution and unoriented films". United States. doi:10.1063/1.2200349. https://www.osti.gov/servlets/purl/891823.
Copy to clipboard
@article{osti_891823,
title = {The effect of solvent dynamics on the low frequency collectivemotions of DNA in solution and unoriented films},
author = {Woods, K.N. and Lee, S.A. and Holman, H.-Y.N. and Wiedemann, H.},
abstractNote = {Infrared spectroscopy is used to probe the dynamics of invitro samples of DNA prepared as solutions and as solid unoriented films.The lowest frequency DNA mode identified in the far-infrared spectra ofthe DNA samples is found to shift in frequency when the solvent influencein the hydration shell is altered. The lowest frequency mode also hascharacteristics that are similar to beta - relaxations identified inother glass forming polymers.},
doi = {10.1063/1.2200349},
journal = {Journal of Chemical Physics},
number = ,
volume = 124,
place = {United States},
year = {Thu Apr 20 00:00:00 EDT 2006},
month = {Thu Apr 20 00:00:00 EDT 2006}
}
Copy to clipboard
Journal Article:
View Journal Article (0.37 MB)
DOI:  10.1063/1.2200349
Other availability
Find in Google Scholar Find in Google Scholar
Search WorldCat Search WorldCat to find libraries that may hold this journal
Save / Share:
Export Metadata
Save to My Library
You must Sign In or Create an Account in order to save documents to your library.

  • ; ; ; ... - Journal of Chemical Physics
    No abstract prepared.

  • ; ; ; ... - Journal of Physical Chemistry A: Molecules, Spectroscopy, Kinetics, Environment, amp General Theory
    Recent years have seen great progress in modeling solvation effects on chemical reactions, especially ionic reactions and polar rearrangements. Radical chain reactions, in which a radical abstracts an atom from a molecule which is thereby converted to a radical, are an important class of reactions that has been less well studied. Such bimolecular radical substitution (S{sub R}2) reactions typically have smaller solvent effects than ionic reactions, and thus they provide a sensitive test of theory. The authors calculate the rate constant for the reaction {sup {sm_bullet}}H + CH{sub 3}OH {yields} H{sub 2} + {sup {sm_bullet}}CH{sub 2}OH both in the gasmore » phase and in aqueous solution at 298 K. To accomplish this, they apply two different methods to estimate the electronic energies along the reaction path.« less

  • ; ; ; ... - Applied Physics Letters; (USA)
    We report on electrical noise measurements made on YBCO (Y{sub 1}Ba{sub 2}Cu{sub 3}O{sub 7{minus}{ital x}}) films on SrTiO{sub 3}, on bulk silicon with a ZrO{sub 2} buffer layer, and on thin dielectric membranes. We have found that 1/{ital f} noise predominates in the unoriented films and that thermal fluctuation noise is the chief source of noise in good films on SrTiO{sub 3}.

  • ; ; ; ... - Physics of Plasmas
    Time-resolved electrostatic probe measurements were performed in the near field of a SPT100-ML Hall effect thruster in order to investigate electron properties changes on a microsecond time scale. Such measurements allow one to monitor the electron temperature T{sub e}, the electron density n{sub e}, as well as the plasma potential V{sub p} during a time period that corresponds to one cycle of a breathing-type plasma oscillation with f{approx_equal}15-30 kHz. Although T{sub e}(t) stays constant in time, n{sub e}(t) and V{sub p}(t) oscillate with the discharge current waveform frequency. The observed time delay between n{sub e} and anode discharge current (Id{submore » a}) waveforms, which is of approximately 7 {mu}s, is linked to the ion transit time from the ionization layer to the probed near-field region. The same time gap is measured between V{sub p}(t) and Id{sub a}(t), however V{sub p}(t) and n{sub e}(t) are in phase opposition. The electron density reaches its highest value at the very moment ions are ejected out of the thruster discharge chamber, which also corresponds to the instant the cathode potential is the most negative. Such a behavior images the need for ion beam neutralization. Further, it is shown that there is a strong correlation between the electron dynamics and the presence of high frequency (HF) plasma oscillations in the megahertz range: HF fluctuations are the strongest when n{sub e} is the highest.« less

  • ; ; ; ... - Physical Review. A
    We use a non-Markovian approach to study the decoherence dynamics of a qubit in either a low- or high-frequency bath modeling the qubit environment. This is done for two separate cases: either with measurements or without them. This approach is based on a unitary transformation and does not require the rotating-wave approximation. In the case without measurement, we show that, for low-frequency noise, the bath shifts the qubit energy toward higher energies (blue shift), while the ordinary high-frequency cutoff Ohmic bath shifts the qubit energy toward lower energies (red shift). In order to preserve the coherence of the qubit, wemore » also investigate the dynamics of the qubit subject to measurements (quantum Zeno regime) in two cases: low- and high-frequency baths. For very frequent projective measurements, the low-frequency bath gives rise to the quantum anti-Zeno effect on the qubit. The quantum Zeno effect only occurs in the high-frequency-cutoff Ohmic bath, after counterrotating terms are considered. In the condition that the decay rate due to the two kinds of baths are equal under the Wigner-Weisskopf approximation, we find that without the approximation, for a high-frequency environment, the decay rate should be faster (without measurements) or slower (with frequent measurements, in the Zeno regime), compared to the low-frequency bath case. The experimental implementation of our results here could distinguish the type of bath (either a low- or high-frequency one) and protect the coherence of the qubit by modulating the dominant frequency of its environment.« less