Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement
Blob theory has been widely applied to describe polymer conformations and dynamics in nanoconfinement. In slit confinement, blob theory predicts a scaling exponent of 2/3 for polymer diffusivity as a function of slit height, yet a large body of experimental studies using DNA produce a scaling expone...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | en_US |
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American Physical Society
2013
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| Online Access: | http://hdl.handle.net/1721.1/79565 |
| _version_ | 1811097706072899584 |
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| author | Dai, Liang Tree, Douglas R. van der Maarel, Johan R. C. Dorfman, Kevin D. Doyle, Patrick S |
| author2 | Massachusetts Institute of Technology. Department of Chemical Engineering |
| author_facet | Massachusetts Institute of Technology. Department of Chemical Engineering Dai, Liang Tree, Douglas R. van der Maarel, Johan R. C. Dorfman, Kevin D. Doyle, Patrick S |
| author_sort | Dai, Liang |
| collection | MIT |
| description | Blob theory has been widely applied to describe polymer conformations and dynamics in nanoconfinement. In slit confinement, blob theory predicts a scaling exponent of 2/3 for polymer diffusivity as a function of slit height, yet a large body of experimental studies using DNA produce a scaling exponent significantly less than 2/3. In this work, we develop a theory that predicts that this discrepancy occurs because the segment correlation function for a semiflexible chain such as DNA does not follow the Flory exponent for length scales smaller than the persistence length. We show that these short length scale effects contribute significantly to the scaling for the DNA diffusivity, but do not appreciably affect the scalings for static properties. Our theory is fully supported by Monte Carlo simulations, quantitative agreement with DNA experiments, and the results reconcile this outstanding problem for confined polymers. |
| first_indexed | 2024-09-23T17:03:37Z |
| format | Article |
| id | mit-1721.1/79565 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T17:03:37Z |
| publishDate | 2013 |
| publisher | American Physical Society |
| record_format | dspace |
| spelling | mit-1721.1/795652022-09-29T23:23:34Z Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement Dai, Liang Tree, Douglas R. van der Maarel, Johan R. C. Dorfman, Kevin D. Doyle, Patrick S Massachusetts Institute of Technology. Department of Chemical Engineering Singapore-MIT Alliance in Research and Technology (SMART) Dai, Liang van der Maarel, Johan R. C. Doyle, Patrick S. Blob theory has been widely applied to describe polymer conformations and dynamics in nanoconfinement. In slit confinement, blob theory predicts a scaling exponent of 2/3 for polymer diffusivity as a function of slit height, yet a large body of experimental studies using DNA produce a scaling exponent significantly less than 2/3. In this work, we develop a theory that predicts that this discrepancy occurs because the segment correlation function for a semiflexible chain such as DNA does not follow the Flory exponent for length scales smaller than the persistence length. We show that these short length scale effects contribute significantly to the scaling for the DNA diffusivity, but do not appreciably affect the scalings for static properties. Our theory is fully supported by Monte Carlo simulations, quantitative agreement with DNA experiments, and the results reconcile this outstanding problem for confined polymers. National Science Foundation (U.S.) (CBET-0852235) Singapore. National Research Foundation Singapore–MIT Alliance for Research and Technology (Bio-Systems and Micromechanics) National Institutes of Health (U.S.) (R01-HG005216) 2013-07-10T14:59:35Z 2013-07-10T14:59:35Z 2013-04 2012-12 Article http://purl.org/eprint/type/JournalArticle 0031-9007 1079-7114 http://hdl.handle.net/1721.1/79565 Dai, Liang, Douglas R. Tree, Johan R. C. van der Maarel, Kevin D. Dorfman, and Patrick S. Doyle. Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement. Physical Review Letters 110, no. 16 (April 2013). © 2013 American Physical Society. en_US http://dx.doi.org/10.1103/PhysRevLett.110.168105 Physical Review Letters Article is made available in accordance with the publisher's policy and may be subject to US copyright law. Please refer to the publisher's site for terms of use. application/pdf American Physical Society APS |
| spellingShingle | Dai, Liang Tree, Douglas R. van der Maarel, Johan R. C. Dorfman, Kevin D. Doyle, Patrick S Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement |
| title | Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement |
| title_full | Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement |
| title_fullStr | Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement |
| title_full_unstemmed | Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement |
| title_short | Revisiting Blob Theory for DNA Diffusivity in Slitlike Confinement |
| title_sort | revisiting blob theory for dna diffusivity in slitlike confinement |
| url | http://hdl.handle.net/1721.1/79565 |
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