Melting transition of oriented Li-DNA fibers submerged in ethanol solutions.
DNA melting
calorimetry
neuron scattering
thermodynamic modeling
Journal
Biopolymers
ISSN: 1097-0282
Titre abrégé: Biopolymers
Pays: United States
ID NLM: 0372525
Informations de publication
Date de publication:
Mar 2021
Mar 2021
Historique:
revised:
08
01
2021
received:
28
10
2020
accepted:
21
01
2021
pubmed:
19
2
2021
medline:
26
10
2021
entrez:
18
2
2021
Statut:
ppublish
Résumé
The melting transition of Li-DNA fibers immersed in ethanol-water solutions has been studied using calorimetry and neutron diffraction techniques. The data have been analyzed using the Peyrard-Bishop-Dauxois model to determine the strengths of the intra- and inter-base pair potentials. The data and analysis show that the potentials are weaker than those for DNA in water. They become weaker still and the DNA less stable as the ethanol concentration increases but, conversely, the fibers become more compact and the distances between base pairs become more regular. The results show that the melting transition is relatively insensitive to local confinement and depends more on the interaction between the DNA and its aqueous environment.
Substances chimiques
Solutions
0
Water
059QF0KO0R
Ethanol
3K9958V90M
DNA
9007-49-2
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
e23422Subventions
Organisme : European Regional Development Fund and Greece
ID : MIS 5002409 NSRF 2014-2020
Organisme : Institut Laue-Langevin
Informations de copyright
© 2021 Wiley Periodicals LLC.
Références
V. I.Ivanov, L. E. Minchenkova, A. K. Schyolkina, A. I. Poletayev, Biopolymers 1973, 12, 89.
A. Rupprecht, J. Piškur, J. Schultz, L. Nordenskiöld, Z. Song, G. Lahajnar, Biopolymers 1994, 34, 897.
S. B. Zimmerman, B. H. Pheiffer, J. Mol. Biol. 1980, 142, 315.
J. T. Bokma, W. C. Johnson Jr., Biopolymers 1987, 26, 893.
H. Fu-Hua, G. Varani, L. Cordone, S. L. Fornili, G. Onori, Il Nuovo Cimento D 1985, 6, 618.
J. Piškur, A. Rupprecht, FEBS Lett. 1995, 375, 174.
S. Hormeño, B. Ibarra, J. M. Valpuesta, J. L. Carrascosa, J. Ricardo Arias-Gonzalez, Biopolymers 2012, 97, 199.
R. Ruiz, F. J. Hoyuelos, A. M. Navarro, J. M. Leal, B. García, Phys. Chem. Chem. Phys. 2015, 17, 2025.
M. Peyrard, A. R. Bishop, Phys. Rev. Lett. 1989, 62, 2755.
T. Dauxois, M. Peyrard, A. R. Bishop, Phys. Rev. E 1993, 47, 684.
A. Wildes, N. Theodorakopoulos, J. Valle-Orero, S. Cuesta-López, J.-L. Garden, M. Peyrard, Phys. Rev. E 2011, 83, 061923.
A. Rupprecht, Acta Chem. Scand 1966, 20, 494.
A. Rupprecht, Biotech. Bioeng. 1970, 12, 93.
J. Valle-Orero, A. R. Wildes, N. Theodorakopoulos, S. Cuesta-López, J.-L. Garden, S. Danilkin, M. Peyrard, New J. Phys. 2014, 16, 113017.
A. González, A. Wildes, M.Marty-Roda, S. Cuesta-López, E. Mossou, A. Studer, B. Demé, G. Moiroux, J.-L. Garden, N. Theodorakopoulos, M. Peyrard, J. Phys. Chem. B 2018, 122, 2504.
Sigma-Aldrich, Product number D1626.
A. Wildes, L. Khadeeva, W. Trewby, J. Valle-Orero, A. Studer, J.-L. Garden, M. Peyrard, J. Phys. Chem. B 2015, 119, 4441.
M. Falk, K. A. Hartman, R. C. Lord, J. Am. Chem. Soc. 1962, 84, 3843.
Y. Bai, M. Greenfeld, K. J. Travers, V. B. Chu, J. Lipfert, S. Doniach, D. Herschlag, J. Am. Chem. Soc. 2007, 129, 14981.
J. Valle-Orero, A. Wildes, J.-L. Garden, M. Peyrard, J. Phys. Chem. B 2013, 117, 1849.
A. González, S. Cuesta-López, E. Mossou, M. Peyrard, N. Theodorakopoulos, A. Wildes, Institut Laue-Langevin (ILL) 2018.
N. Theodorakopoulos, T. Dauxois, M. Peyrard, Phys. Rev. Lett. 2000, 85, 6.
M. Krisch, A. Mermet, H. Grimm, V. T. Forsyth, A. Rupprecht, Phys. Rev. E 2006, 73, 061909.
R. Lavery, M. Moakher, J. H. Maddocks, D. Petkeviciute, K. Zakrzewska, Nucleic Acids Res. 2009, 37, 5917.
N. L. Quinn, N. Levenkova, W. Chow, P. Bouffard, K. A. Boroevich, J. R. Knight, T. P. Jarvie, K. P.Lubieniecki, B. A. Desany, B. F. Koop, T. T. Harkins, W. S. Davidson, BMC Genomics 2008, 9, 404.
M. Allan, L. J. Mauer, Data Brief 2017, 12, 364.
J. Valle-Orero, J.-L. Garden, J. Richard, A. Wildes, M. Peyrard, J. Phys. Chem. B 2012, 116, 4394.
S. G. Delcourt, R. D. Blake, J. Biol. Chem. 1991, 266, 15160.
D. A. Marvin, M. Spencer, M. H. F. Wilkins, L. D. Hamilton, J. Mol. Biol. 1961, 3, 547.
R. Langridge, H. R. Wilson, C. W. Hooper, M. H. F. Wilkins, L. D. Hamilton, J. Mol. Biol. 1960, 2, 19.
R. Langridge, D. A. Marvin, W. E. Seeds, H. R. Wilson, C. W. Hooper, M. H. F. Wilkins, L. D. Hamilton, J. Mol. Biol. 1960, 2, 38.
E. M. Bradbury, W. C. Price, G. R. Wilkinson, J. Mol. Biol. 1962, 4, 39.
M. P. Printz, P. H. v. Hippel, Proc. Natl. Acad. Sci. U. S. A. 1965, 53, 363.
V. Makarov, B. M. Pettitt, M. Feig, Acc. Chem. Res. 2002, 35, 376.
S. Beneventi, G. Onori, Biophys. Chem. 1986, 25, 181.