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231226s2023 xx |||||o 00| ||eng c |
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|a 10.1021/acs.langmuir.3c00318
|2 doi
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|a pubmed24n1535.xml
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|a (NLM)36952670
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|a DE-627
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|c DE-627
|e rakwb
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|a eng
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| 100 |
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|a Kodikara, Sineth G
|e verfasserin
|4 aut
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| 245 |
1 |
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|a Stability of End-to-End Base Stacking Interactions in Highly Concentrated DNA Solutions
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| 264 |
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|c 2023
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| 336 |
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|a Text
|b txt
|2 rdacontent
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|a ƒaComputermedien
|b c
|2 rdamedia
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|a ƒa Online-Ressource
|b cr
|2 rdacarrier
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|a Date Completed 05.04.2023
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|a Date Revised 16.09.2024
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|a published: Print-Electronic
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|a Citation Status MEDLINE
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|a Positionally ordered bilayer liquid crystalline nanostructures formed by gapped DNA (GDNA) constructs provide a practical window into DNA-DNA interactions at physiologically relevant DNA concentrations; concentrations several orders of magnitude greater than those in commonly used biophysical assays. The bilayer structure of these states of matter is stabilized by end-to-end base stacking interactions; moreover, such interactions also promote in-plane positional ordering of duplexes that are separated from each other by less than twice the duplex diameter. The end-to-end stacked as well as in-plane ordered duplexes exhibit distinct signatures when studied via small-angle X-ray scattering (SAXS). This enables analysis of the thermal stability of both the end-to-end and side-by-side interactions. We performed synchrotron SAXS experiments over a temperature range of 5-65 °C on GDNA constructs that differ only by the terminal base-pairs at the blunt duplex ends, resulting in identical side-by-side interactions, while end-to-end base stacking interactions are varied. Our key finding is that bilayers formed by constructs with GC termination transition into the monolayer state at temperatures as much as 30 °C higher than for those with AT termination, while mixed (AT/GC) terminations have intermediate stability. By modeling the bilayer melting in terms of a temperature-dependent reduction in the average fraction of end-to-end paired duplexes, we estimate the stacking free energies in DNA solutions of physiologically relevant concentrations. The free-energies thereby determined are generally smaller than those reported in single-molecule studies, which might reflect the elevated DNA concentrations in our studies
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|a Journal Article
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|a Research Support, U.S. Gov't, Non-P.H.S.
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|a DNA
|2 NLM
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|a 9007-49-2
|2 NLM
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| 700 |
1 |
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|a Gyawali, Prabesh
|e verfasserin
|4 aut
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| 700 |
1 |
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|a Gleeson, James T
|e verfasserin
|4 aut
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| 700 |
1 |
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|a Jakli, Antal
|e verfasserin
|4 aut
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| 700 |
1 |
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|a Sprunt, Samuel
|e verfasserin
|4 aut
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| 700 |
1 |
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|a Balci, Hamza
|e verfasserin
|4 aut
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| 773 |
0 |
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|i Enthalten in
|t Langmuir : the ACS journal of surfaces and colloids
|d 1999
|g 39(2023), 13 vom: 04. Apr., Seite 4838-4846
|w (DE-627)NLM098181009
|x 1520-5827
|7 nnns
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| 773 |
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|g volume:39
|g year:2023
|g number:13
|g day:04
|g month:04
|g pages:4838-4846
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|u http://dx.doi.org/10.1021/acs.langmuir.3c00318
|3 Volltext
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