Linear dichroism of DNA: Characterization of the orientation distribution function caused by hydrodynamic shear

Sutherland, John C.

doi:10.1016/j.ab.2017.01.016

Title: Linear dichroism of DNA: Characterization of the orientation distribution function caused by hydrodynamic shear

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Abstract

Linear dichroism provides information on the orientation of chromophores part of, or bound to, an orientable molecule such as DNA. For molecular alignment induced by hydrodynamic shear, the principal axes orthogonal to the direction of alignment are not equivalent. Thus, the magnitude of the flow-induced change in absorption for light polarized parallel to the direction of flow can be more than a factor of two greater than the corresponding change for light polarized perpendicular to both that direction and the shear axis. The ratio of the two flow-induced changes in absorption, the dichroic increment ratio, is characterized using the orthogonal orientation model, which assumes that each absorbing unit is aligned parallel to one of the principal axes of the apparatus. The absorption of the alienable molecules is characterized by components parallel and perpendicular to the orientable axis of the molecule. The dichroic increment ratio indicates that for the alignment of DNA in rectangular flow cells, average alignment is not uniaxial, but for higher shear, as produced in a Couette cell, it can be. The results from the simple model are identical to tensor models for typical experimental configuration. Approaches for measuring the dichroic increment ratio with modern dichrometers are furthermore » discussed.« less

Authors:

^[1]

Augusta Univ., Augusta, GA (United States). Dept. of Chemistry and Physics; Brookhaven National Lab. (BNL), Upton, NY (United States). Dept. of Biology; East Carolina Univ., Greenville, NC (United States). Dept. of Physics

Publication Date:: Sat Apr 15 00:00:00 EDT 2017

Research Org.:: Brookhaven National Lab. (BNL), Upton, NY (United States)

Sponsoring Org.:: USDOE Office of Science (SC), Biological and Environmental Research (BER); Augusta Univ., Augusta, GA (United States)

OSTI Identifier:: 1424978

Alternate Identifier(s):: OSTI ID: 1396875

Report Number(s):: BNL-200008-2018-JAAM
Journal ID: ISSN 0003-2697

Grant/Contract Number:: SC0012704; SC001270; Sc001270

Resource Type:: Accepted Manuscript

Journal Name:: Analytical Biochemistry

Additional Journal Information:: Journal Volume: 523; Journal Issue: C; Journal ID: ISSN 0003-2697

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES; DNA ligands; Couette cell; polarized absorption; scalene ellipsoid; photoelastic modulator; equivalent; orthogonal orientation; dichroic; increment ratio

Citation Formats


                    Sutherland, John C. Linear dichroism of DNA: Characterization of the orientation distribution function caused by hydrodynamic shear.  United States: N. p., 2017. 
Web.  doi:10.1016/j.ab.2017.01.016.

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                    Sutherland, John C. Linear dichroism of DNA: Characterization of the orientation distribution function caused by hydrodynamic shear.  United States.  https://doi.org/10.1016/j.ab.2017.01.016

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                    Sutherland, John C. Sat .  
"Linear dichroism of DNA: Characterization of the orientation distribution function caused by hydrodynamic shear".  United States.  https://doi.org/10.1016/j.ab.2017.01.016.  https://www.osti.gov/servlets/purl/1424978.

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@article{osti_1424978,

  title        = {Linear dichroism of DNA: Characterization of the orientation distribution function caused by hydrodynamic shear},

  author       = {Sutherland, John C.},

  abstractNote = {Linear dichroism provides information on the orientation of chromophores part of, or bound to, an orientable molecule such as DNA. For molecular alignment induced by hydrodynamic shear, the principal axes orthogonal to the direction of alignment are not equivalent. Thus, the magnitude of the flow-induced change in absorption for light polarized parallel to the direction of flow can be more than a factor of two greater than the corresponding change for light polarized perpendicular to both that direction and the shear axis. The ratio of the two flow-induced changes in absorption, the dichroic increment ratio, is characterized using the orthogonal orientation model, which assumes that each absorbing unit is aligned parallel to one of the principal axes of the apparatus. The absorption of the alienable molecules is characterized by components parallel and perpendicular to the orientable axis of the molecule. The dichroic increment ratio indicates that for the alignment of DNA in rectangular flow cells, average alignment is not uniaxial, but for higher shear, as produced in a Couette cell, it can be. The results from the simple model are identical to tensor models for typical experimental configuration. Approaches for measuring the dichroic increment ratio with modern dichrometers are further discussed.},

  doi          = {10.1016/j.ab.2017.01.016},

  journal      = {Analytical Biochemistry},

  number       = C,

  volume       = 523,

  place        = {United States},

  year         = {Sat Apr 15 00:00:00 EDT 2017},

  month        = {Sat Apr 15 00:00:00 EDT 2017}

}

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