Mostrar el registro sencillo del ítem
dc.contributor.author | Arias-Gonzalez, J. R. | es_ES |
dc.date.accessioned | 2020-10-21T03:31:42Z | |
dc.date.available | 2020-10-21T03:31:42Z | |
dc.date.issued | 2014-10 | es_ES |
dc.identifier.issn | 1757-9694 | es_ES |
dc.identifier.uri | http://hdl.handle.net/10251/152722 | |
dc.description | This is a pre-copyedited, author-produced version of an article accepted for publication in Integrative Biology following peer review. The version of record Arias-Gonzalez, J. Ricardo. 2014. Single-Molecule Portrait of DNA and RNA Double Helices. Integr. Biol. 6 (10). Oxford University Press (OUP): 904 25. doi:10.1039/c4ib00163j is available online at: https://doi.org/10.1039/c4ib00163j | es_ES |
dc.description.abstract | [EN] The composition and geometry of the genetic information carriers were described as double-stranded right helices sixty years ago. The flexibility of their sugar¿phosphate backbones and the chemistry of their nucleotide subunits, which give rise to the RNA and DNA polymers, were soon reported to generate two main structural duplex states with biological relevance: the so-called A and B forms. Double-stranded (ds) RNA adopts the former whereas dsDNA is stable in the latter. The presence of flexural and torsional stresses in combination with environmental conditions in the cell or in the event of specific sequences in the genome can, however, stabilize other conformations. Single-molecule manipulation, besides affording the investigation of the elastic response of these polymers, can test the stability of their structural states and transition models. This approach is uniquely suited to understanding the basic features of protein binding molecules, the dynamics of molecular motors and to shedding more light on the biological relevance of the information blocks of life. Here, we provide a comprehensive single-molecule analysis of DNA and RNA double helices in the context of their structural polymorphism to set a rigorous interpretation of their material response both inside and outside the cell. From early knowledge of static structures to current dynamic investigations, we review their phase transitions and mechanochemical behaviour and harness this fundamental knowledge not only through biological sciences, but also for Nanotechnology and Nanomedicine. | es_ES |
dc.description.sponsorship | We are sincerely indebted to S. Hormeno, F. Moreno-Herrero, B. Ibarra, J. L. Carrascosa, J. M. Valpuesta, M. Fuentes-Perez and C. Carrasco for their work throughout the years. C. Flors and A. Villasante are acknowledged for critical revision. This work was supported by Fundacion IMDEA Nanociencia. | es_ES |
dc.language | Inglés | es_ES |
dc.publisher | Oxford University Press | es_ES |
dc.relation.ispartof | Integrative Biology | es_ES |
dc.rights | Reserva de todos los derechos | es_ES |
dc.subject | DNA | es_ES |
dc.subject | RNA | es_ES |
dc.subject | Double-stranded | es_ES |
dc.subject | Single-molecule | es_ES |
dc.subject | Structure | es_ES |
dc.subject | Mechanics | es_ES |
dc.subject.classification | FISICA APLICADA | es_ES |
dc.title | Single-molecule portrait of DNA and RNA double helices | es_ES |
dc.type | Artículo | es_ES |
dc.identifier.doi | 10.1039/c4ib00163j | es_ES |
dc.rights.accessRights | Abierto | es_ES |
dc.contributor.affiliation | Universitat Politècnica de València. Departamento de Física Aplicada - Departament de Física Aplicada | es_ES |
dc.description.bibliographicCitation | Arias-Gonzalez, JR. (2014). Single-molecule portrait of DNA and RNA double helices. Integrative Biology. 6(10):904-925. https://doi.org/10.1039/c4ib00163j | es_ES |
dc.description.accrualMethod | S | es_ES |
dc.relation.publisherversion | https://doi.org/10.1039/c4ib00163j | es_ES |
dc.description.upvformatpinicio | 904 | es_ES |
dc.description.upvformatpfin | 925 | es_ES |
dc.type.version | info:eu-repo/semantics/publishedVersion | es_ES |
dc.description.volume | 6 | es_ES |
dc.description.issue | 10 | es_ES |
dc.identifier.pmid | 25174412 | es_ES |
dc.relation.pasarela | S\408065 | es_ES |
dc.contributor.funder | Ministerio de Ciencia, Innovación y Universidades | es_ES |
dc.description.references | Ivanov, V. I., Minchenkova, L. E., Minyat, E. E., Frank-Kamenetskii, M. D., & Schyolkina, A. K. (1974). The B̄ to Ā transition of DNA in solution. Journal of Molecular Biology, 87(4), 817-833. doi:10.1016/0022-2836(74)90086-2 | es_ES |
dc.description.references | FRANKLIN, R. E., & GOSLING, R. G. (1953). Molecular Configuration in Sodium Thymonucleate. Nature, 171(4356), 740-741. doi:10.1038/171740a0 | es_ES |
dc.description.references | WATSON, J. D., & CRICK, F. H. C. (1953). Molecular Structure of Nucleic Acids: A Structure for Deoxyribose Nucleic Acid. Nature, 171(4356), 737-738. doi:10.1038/171737a0 | es_ES |
dc.description.references | ARNOTT, S., FULLER, W., HODGSON, A., & PRUTTON, I. (1968). Molecular Conformations and Structure Transitions of RNA Complementary Helices and their Possible Biological Significance. Nature, 220(5167), 561-564. doi:10.1038/220561a0 | es_ES |
dc.description.references | HAMILTON, L. D. (1968). DNA: Models and Reality. Nature, 218(5142), 633-637. doi:10.1038/218633a0 | es_ES |
dc.description.references | Leslie, A. G. W., Arnott, S., Chandrasekaran, R., & Ratliff, R. L. (1980). Polymorphism of DNA double helices. Journal of Molecular Biology, 143(1), 49-72. doi:10.1016/0022-2836(80)90124-2 | es_ES |
dc.description.references | Girod, J. C., Johnson, W. C., Huntington, S. K., & Maestre, M. F. (1973). Conformation of deoxyribonucleic acid in alcohol solutions. Biochemistry, 12(25), 5092-5096. doi:10.1021/bi00749a011 | es_ES |
dc.description.references | Ivanov, V. I., Minchenkova, L. E., Schyolkina, A. K., & Poletayev, A. I. (1973). Different conformations of double-stranded nucleic acid in solution as revealed by circular dichroism. Biopolymers, 12(1), 89-110. doi:10.1002/bip.1973.360120109 | es_ES |
dc.description.references | Jovin, T. M., Soumpasis, D. M., & McIntosh, L. P. (1987). The Transition Between B-DNA and Z-DNA. Annual Review of Physical Chemistry, 38(1), 521-558. doi:10.1146/annurev.pc.38.100187.002513 | es_ES |
dc.description.references | Hall, K., Cruz, P., Tinoco, I., Jovin, T. M., & van de Sande, J. H. (1984). ‘Z-RNA’—a left-handed RNA double helix. Nature, 311(5986), 584-586. doi:10.1038/311584a0 | es_ES |
dc.description.references | W. Saenger , Principles of nucleic acid structure , Springer-Verlag , 2nd edn, 1984 | es_ES |
dc.description.references | Trantı́rek, L., Štefl, R., Vorlı́čková, M., Koča, J., Sklenářář, V., & Kypr, J. (2000). An A -type double helix of DNA having B -type puckering of the deoxyribose rings 1 1Edited by I. Tinoco. Journal of Molecular Biology, 297(4), 907-922. doi:10.1006/jmbi.2000.3592 | es_ES |
dc.description.references | Bustamante, C., Bryant, Z., & Smith, S. B. (2003). Ten years of tension: single-molecule DNA mechanics. Nature, 421(6921), 423-427. doi:10.1038/nature01405 | es_ES |
dc.description.references | Forth, S., Sheinin, M. Y., Inman, J., & Wang, M. D. (2013). Torque Measurement at the Single-Molecule Level. Annual Review of Biophysics, 42(1), 583-604. doi:10.1146/annurev-biophys-083012-130412 | es_ES |
dc.description.references | Heller, I., Hoekstra, T. P., King, G. A., Peterman, E. J. G., & Wuite, G. J. L. (2014). Optical Tweezers Analysis of DNA–Protein Complexes. Chemical Reviews, 114(6), 3087-3119. doi:10.1021/cr4003006 | es_ES |
dc.description.references | Strick, T. R., Allemand, J.-F., Bensimon, D., & Croquette, V. (2000). Stress-Induced Structural Transitions in DNA and Proteins. Annual Review of Biophysics and Biomolecular Structure, 29(1), 523-543. doi:10.1146/annurev.biophys.29.1.523 | es_ES |
dc.description.references | Allemand, J.-F., Bensimon, D., & Croquette, V. (2003). Stretching DNA and RNA to probe their interactions with proteins. Current Opinion in Structural Biology, 13(3), 266-274. doi:10.1016/s0959-440x(03)00067-8 | es_ES |
dc.description.references | Seeman, N. C. (2003). DNA in a material world. Nature, 421(6921), 427-431. doi:10.1038/nature01406 | es_ES |
dc.description.references | Hormeño, S., Ibarra, B., Carrascosa, J. L., Valpuesta, J. M., Moreno-Herrero, F., & Arias-Gonzalez, J. R. (2011). Mechanical Properties of High-G⋅C Content DNA with A-Type Base-Stacking. Biophysical Journal, 100(8), 1996-2005. doi:10.1016/j.bpj.2011.02.051 | es_ES |
dc.description.references | Hormeño, S., Ibarra, B., Valpuesta, J. M., Carrascosa, J. L., & Ricardo Arias-Gonzalez, J. (2011). Mechanical stability of low-humidity single DNA molecules. Biopolymers, 97(4), 199-208. doi:10.1002/bip.21728 | es_ES |
dc.description.references | Hormeño, S., Moreno-Herrero, F., Ibarra, B., Carrascosa, J. L., Valpuesta, J. M., & Arias-Gonzalez, J. R. (2011). Condensation Prevails over B-A Transition in the Structure of DNA at Low Humidity. Biophysical Journal, 100(8), 2006-2015. doi:10.1016/j.bpj.2011.02.049 | es_ES |
dc.description.references | Oberstrass, F. C., Fernandes, L. E., & Bryant, Z. (2012). Torque measurements reveal sequence-specific cooperative transitions in supercoiled DNA. Proceedings of the National Academy of Sciences, 109(16), 6106-6111. doi:10.1073/pnas.1113532109 | es_ES |
dc.description.references | Allemand, J. F., Bensimon, D., Lavery, R., & Croquette, V. (1998). Stretched and overwound DNA forms a Pauling-like structure with exposed bases. Proceedings of the National Academy of Sciences, 95(24), 14152-14157. doi:10.1073/pnas.95.24.14152 | es_ES |
dc.description.references | Pauling, L., & Corey, R. B. (1953). A Proposed Structure For The Nucleic Acids. Proceedings of the National Academy of Sciences, 39(2), 84-97. doi:10.1073/pnas.39.2.84 | es_ES |
dc.description.references | Cluzel, P., Lebrun, A., Heller, C., Lavery, R., Viovy, J.-L., Chatenay, D., & Caron, F. o. (1996). DNA: An Extensible Molecule. Science, 271(5250), 792-794. doi:10.1126/science.271.5250.792 | es_ES |
dc.description.references | Smith, S. B., Cui, Y., & Bustamante, C. (1996). Overstretching B-DNA: The Elastic Response of Individual Double-Stranded and Single-Stranded DNA Molecules. Science, 271(5250), 795-799. doi:10.1126/science.271.5250.795 | es_ES |
dc.description.references | Besteman, K., Hage, S., Dekker, N. H., & Lemay, S. G. (2007). Role of Tension and Twist in Single-Molecule DNA Condensation. Physical Review Letters, 98(5). doi:10.1103/physrevlett.98.058103 | es_ES |
dc.description.references | Fire, A., Xu, S., Montgomery, M. K., Kostas, S. A., Driver, S. E., & Mello, C. C. (1998). Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature, 391(6669), 806-811. doi:10.1038/35888 | es_ES |
dc.description.references | Montgomery, M. K., Xu, S., & Fire, A. (1998). RNA as a target of double-stranded RNA-mediated genetic interference in Caenorhabditis elegans. Proceedings of the National Academy of Sciences, 95(26), 15502-15507. doi:10.1073/pnas.95.26.15502 | es_ES |
dc.description.references | Timmons, L., & Fire, A. (1998). Specific interference by ingested dsRNA. Nature, 395(6705), 854-854. doi:10.1038/27579 | es_ES |
dc.description.references | Guo, P. (2010). The emerging field of RNA nanotechnology. Nature Nanotechnology, 5(12), 833-842. doi:10.1038/nnano.2010.231 | es_ES |
dc.description.references | Herrero-Galán, E., Fuentes-Perez, M. E., Carrasco, C., Valpuesta, J. M., Carrascosa, J. L., Moreno-Herrero, F., & Arias-Gonzalez, J. R. (2012). Mechanical Identities of RNA and DNA Double Helices Unveiled at the Single-Molecule Level. Journal of the American Chemical Society, 135(1), 122-131. doi:10.1021/ja3054755 | es_ES |
dc.description.references | C. R. Calladine , H. R.Drew , B. F.Luise and A. A.Travers , Understanding DNA. The molecule and how it works , Elsevier, Academic Press , 3rd edn, 2004 | es_ES |
dc.description.references | Brahms, J., & Mommaerts, W. F. H. M. (1964). A study of conformation of nucleic acids in solution by means of circular dichroism. Journal of Molecular Biology, 10(1), 73-88. doi:10.1016/s0022-2836(64)80029-2 | es_ES |
dc.description.references | Minyat, E. E., Ivanov, V. I., Kritzyn, A. M., Minchenkova, L. E., & Schyolkina, A. K. (1979). Spermine and spermidine-induced B̄ to Ā transition of DNA in solution. Journal of Molecular Biology, 128(3), 397-409. doi:10.1016/0022-2836(79)90094-9 | es_ES |
dc.description.references | Rupprecht, A., Piškur, J., Schultz, J., Nordenskiöld, L., Song, Z., & Lahajnar, G. (1994). Mechanochemical study of conformational transitions and melting of Li-, Na-, K-, and CsDNA fibers in ethanol-water solutions. Biopolymers, 34(7), 897-920. doi:10.1002/bip.360340709 | es_ES |
dc.description.references | Albiser, G., Lamiri, A., & Premilat, S. (2001). The A–B transition: temperature and base composition effects on hydration of DNA. International Journal of Biological Macromolecules, 28(3), 199-203. doi:10.1016/s0141-8130(00)00160-4 | es_ES |
dc.description.references | Usatyi, A. F., & Shlyakhtenko, L. S. (1974). Melting of DNA in ethanol-water solutions. Biopolymers, 13(12), 2435-2446. doi:10.1002/bip.1974.360131204 | es_ES |
dc.description.references | Calladine, C. R., & Drew, H. R. (1984). A base-centred explanation of the B-to-A transition in DNA. Journal of Molecular Biology, 178(3), 773-782. doi:10.1016/0022-2836(84)90251-1 | es_ES |
dc.description.references | Lu, X.-J., Shakked, Z., & Olson, W. K. (2000). A-form Conformational Motifs in Ligand-bound DNA Structures. Journal of Molecular Biology, 300(4), 819-840. doi:10.1006/jmbi.2000.3690 | es_ES |
dc.description.references | Setlow, P. (1992). DNA in dormant spores of Bacillus species is in an A-like conformation. Molecular Microbiology, 6(5), 563-567. doi:10.1111/j.1365-2958.1992.tb01501.x | es_ES |
dc.description.references | Abels, J. A., Moreno-Herrero, F., van der Heijden, T., Dekker, C., & Dekker, N. H. (2005). Single-Molecule Measurements of the Persistence Length of Double-Stranded RNA. Biophysical Journal, 88(4), 2737-2744. doi:10.1529/biophysj.104.052811 | es_ES |
dc.description.references | Ban, C., Ramakrishnan, B., & Sundaralingam, M. (1994). Crystal structure of the highly distorted chimeric decamer r(C)d(CGGCGCCG)r(G).spermine complex — spermine binding to phosphate only and minor groove tertiary base-pairing. Nucleic Acids Research, 22(24), 5466-5476. doi:10.1093/nar/22.24.5466 | es_ES |
dc.description.references | Cheetham, G. M. (1999). Structure of a Transcribing T7 RNA Polymerase Initiation Complex. Science, 286(5448), 2305-2309. doi:10.1126/science.286.5448.2305 | es_ES |
dc.description.references | Zimmerman, S. B., & Pheiffer, B. H. (1981). A RNA.DNA hybrid that can adopt two conformations: an x-ray diffraction study of poly(rA).poly(dT) in concentrated solution or in fibers. Proceedings of the National Academy of Sciences, 78(1), 78-82. doi:10.1073/pnas.78.1.78 | es_ES |
dc.description.references | Dickerson, R., Drew, H., Conner, B., Wing, R., Fratini, A., & Kopka, M. (1982). The anatomy of A-, B-, and Z-DNA. Science, 216(4545), 475-485. doi:10.1126/science.7071593 | es_ES |
dc.description.references | Malenkov, G., Minchenkova, L., Minyat, E., Schyolkina, A., & Ivanov, V. (1975). The nature of the - transition of DNA in solution. FEBS Letters, 51(1-2), 38-42. doi:10.1016/0014-5793(75)80850-7 | es_ES |
dc.description.references | Zimmerman, S. B., & Pheiffer, B. H. (1980). Does DNA adopt the C form in concentrated salt solutions or in organic solvent/water mixtures? An X-ray diffraction study of DNA fibers immersed in various media. Journal of Molecular Biology, 142(3), 315-330. doi:10.1016/0022-2836(80)90275-2 | es_ES |
dc.description.references | Ivanov, V. I., & Minyat, E. E. (1981). The transitions between left- and right-handed forms of poly(dG-dC). Nucleic Acids Research, 9(18), 4783-4798. doi:10.1093/nar/9.18.4783 | es_ES |
dc.description.references | Thomas, T. J., & Messner, R. P. (1986). A left-handed (Z) conformation of poly(dA-dC).poly(dG-dT) induced by polyamines. Nucleic Acids Research, 14(16), 6721-6733. doi:10.1093/nar/14.16.6721 | es_ES |
dc.description.references | Wang, A. H.-J., Quigley, G. J., Kolpak, F. J., Crawford, J. L., van Boom, J. H., van der Marel, G., & Rich, A. (1979). Molecular structure of a left-handed double helical DNA fragment at atomic resolution. Nature, 282(5740), 680-686. doi:10.1038/282680a0 | es_ES |
dc.description.references | Popenda, M. (2004). High salt solution structure of a left-handed RNA double helix. Nucleic Acids Research, 32(13), 4044-4054. doi:10.1093/nar/gkh736 | es_ES |
dc.description.references | Klump, H. H., & Jovin, T. M. (1987). Formation of a left-handed RNA double helix: energetics of the A-Z transition of poly[r(G-C)] in concentrated sodium perchlorate solutions. Biochemistry, 26(16), 5186-5190. doi:10.1021/bi00390a043 | es_ES |
dc.description.references | Krzyżaniak, A., Barciszewski, J., Fürste, J. P., Bald, R., Erdmann, V. A., Salański, P., & Jurczak, J. (1994). A-Z-RNA conformational changes effected by high pressure. International Journal of Biological Macromolecules, 16(3), 159-162. doi:10.1016/0141-8130(94)90044-2 | es_ES |
dc.description.references | Zarling, D. A., Calhoun, C. J., Hardin, C. C., & Zarling, A. H. (1987). Cytoplasmic Z-RNA. Proceedings of the National Academy of Sciences, 84(17), 6117-6121. doi:10.1073/pnas.84.17.6117 | es_ES |
dc.description.references | Liu, L. F., & Wang, J. C. (1987). Supercoiling of the DNA template during transcription. Proceedings of the National Academy of Sciences, 84(20), 7024-7027. doi:10.1073/pnas.84.20.7024 | es_ES |
dc.description.references | Rich, A., & Zhang, S. (2003). Z-DNA: the long road to biological function. Nature Reviews Genetics, 4(7), 566-572. doi:10.1038/nrg1115 | es_ES |
dc.description.references | Hardin, C. C., Zarling, D. A., Puglisi, J. D., Trulson, M. O., Davis, P. W., & Tinoco, I. (1987). Stabilization of Z-RNA by chemical bromination and its recognition by anti-Z-DNA antibodies. Biochemistry, 26(16), 5191-5199. doi:10.1021/bi00390a044 | es_ES |
dc.description.references | Rich, A., Nordheim, A., & Wang, A. H. J. (1984). The Chemistry and Biology of Left-Handed Z-DNA. Annual Review of Biochemistry, 53(1), 791-846. doi:10.1146/annurev.bi.53.070184.004043 | es_ES |
dc.description.references | Brown, B. A., Lowenhaupt, K., Wilbert, C. M., Hanlon, E. B., & Rich, A. (2000). The Zalpha domain of the editing enzyme dsRNA adenosine deaminase binds left-handed Z-RNA as well as Z-DNA. Proceedings of the National Academy of Sciences, 97(25), 13532-13536. doi:10.1073/pnas.240464097 | es_ES |
dc.description.references | Placido, D., Brown, B. A., Lowenhaupt, K., Rich, A., & Athanasiadis, A. (2007). A Left-Handed RNA Double Helix Bound by the Zα Domain of the RNA-Editing Enzyme ADAR1. Structure, 15(4), 395-404. doi:10.1016/j.str.2007.03.001 | es_ES |
dc.description.references | Arnott, S., & Hukins, D. W. L. (1972). Optimised parameters for A-DNA and B-DNA. Biochemical and Biophysical Research Communications, 47(6), 1504-1509. doi:10.1016/0006-291x(72)90243-4 | es_ES |
dc.description.references | Arnott, S., Hukins, D. W. L., & Dover, S. D. (1972). Optimised parameters for RNA double-helices. Biochemical and Biophysical Research Communications, 48(6), 1392-1399. doi:10.1016/0006-291x(72)90867-4 | es_ES |
dc.description.references | ARNOTT, S., & HUKINS, D. W. L. (1969). Conservation of Conformation in Mono and Poly-nucleotides. Nature, 224(5222), 886-888. doi:10.1038/224886a0 | es_ES |
dc.description.references | Cheatham, T. E., Crowley, M. F., Fox, T., & Kollman, P. A. (1997). A molecular level picture of the stabilization of A-DNA in mixed ethanol-water solutions. Proceedings of the National Academy of Sciences, 94(18), 9626-9630. doi:10.1073/pnas.94.18.9626 | es_ES |
dc.description.references | Mazur, A. K. (2003). TitrationinSilicoof Reversible B ↔ A Transitions in DNA. Journal of the American Chemical Society, 125(26), 7849-7859. doi:10.1021/ja034550j | es_ES |
dc.description.references | Ng, H.-L., Kopka, M. L., & Dickerson, R. E. (2000). The structure of a stable intermediate in the A left-right-arrow B DNA helix transition. Proceedings of the National Academy of Sciences, 97(5), 2035-2039. doi:10.1073/pnas.040571197 | es_ES |
dc.description.references | Vargason, J. M., Henderson, K., & Ho, P. S. (2001). A crystallographic map of the transition from B-DNA to A-DNA. Proceedings of the National Academy of Sciences, 98(13), 7265-7270. doi:10.1073/pnas.121176898 | es_ES |
dc.description.references | Saenger, W., Hunter, W. N., & Kennard, O. (1986). DNA conformation is determined by economics in the hydration of phosphate groups. Nature, 324(6095), 385-388. doi:10.1038/324385a0 | es_ES |
dc.description.references | Pastor, N. (2005). The B- to A-DNA Transition and the Reorganization of Solvent at the DNA Surface. Biophysical Journal, 88(5), 3262-3275. doi:10.1529/biophysj.104.058339 | es_ES |
dc.description.references | Hunter, C. A. (1993). Sequence-dependent DNA Structure. Journal of Molecular Biology, 230(3), 1025-1054. doi:10.1006/jmbi.1993.1217 | es_ES |
dc.description.references | Mahendrasingam, A., Rhodes, N. J., Goodwin, D. C., Nave, C., Pigram, W. J., Fuller, W., … Vergne, J. (1983). Conformational transitions in oriented fibres of the synthetic polynucleotide poly[d(AT)]·poly[d(AT)] double helix. Nature, 301(5900), 535-537. doi:10.1038/301535a0 | es_ES |
dc.description.references | Thomas, G. J., & Benevides, J. M. (1985). An A-helix structure for poly(dA-dT) · poly(dA-dT). Biopolymers, 24(6), 1101-1105. doi:10.1002/bip.360240613 | es_ES |
dc.description.references | Borovok, N., Molotsky, T., Ghabboun, J., Cohen, H., Porath, D., & Kotlyar, A. (2007). Poly(dG)-poly(dC) DNA appears shorter than poly(dA)-poly(dT) and possibly adopts an A-related conformation on a mica surface under ambient conditions. FEBS Letters, 581(30), 5843-5846. doi:10.1016/j.febslet.2007.11.058 | es_ES |
dc.description.references | Mazur, A. K. (2005). Electrostatic Polymer Condensation and the A/B Polymorphism in DNA: Sequence Effects. Journal of Chemical Theory and Computation, 1(2), 325-336. doi:10.1021/ct049926d | es_ES |
dc.description.references | Minchenkova, L. E., Schyolkina, A. K., Chernov, B. K., & Ivanov, V. I. (1986). CC/GG Contacts Facilitate the B to A Transition of DMA in Solution. Journal of Biomolecular Structure and Dynamics, 4(3), 463-476. doi:10.1080/07391102.1986.10506362 | es_ES |
dc.description.references | NARA-INUI, H., AKUTSU, H., & KYOGOKU, Y. (1985). Alcohol Induced B-A Transition of DNAs with Different Base Compositions Studied by Circular Dichroism. The Journal of Biochemistry, 98(3), 629-636. doi:10.1093/oxfordjournals.jbchem.a135319 | es_ES |
dc.description.references | Nishimura, Y., Torigoe, C., & Tsuboi, M. (1985). An A-form poly(dG) · poly(dC) in H2O solution. Biopolymers, 24(9), 1841-1844. doi:10.1002/bip.360240913 | es_ES |
dc.description.references | Pilet, J., & Brahms, J. (1973). Investigation of DNA structural changes by infrared spectroscopy. Biopolymers, 12(2), 387-403. doi:10.1002/bip.1973.360120215 | es_ES |
dc.description.references | Tolstorukov, M. Y., Ivanov, V. I., Malenkov, G. G., Jernigan, R. L., & Zhurkin, V. B. (2001). Sequence-Dependent B↔A Transition in DNA Evaluated with Dimeric and Trimeric Scales. Biophysical Journal, 81(6), 3409-3421. doi:10.1016/s0006-3495(01)75973-5 | es_ES |
dc.description.references | Deng, H. (2000). Structural basis of polyamine-DNA recognition: spermidine and spermine interactions with genomic B-DNAs of different GC content probed by Raman spectroscopy. Nucleic Acids Research, 28(17), 3379-3385. doi:10.1093/nar/28.17.3379 | es_ES |
dc.description.references | Jain, S., Zon, G., & Sundaralingam, M. (1989). Base only binding of spermine in the deep groove of the A-DNA octamer d(GTGTACAC). Biochemistry, 28(6), 2360-2364. doi:10.1021/bi00432a002 | es_ES |
dc.description.references | Ouameur, A. A., & Tajmir-Riahi, H.-A. (2004). Structural Analysis of DNA Interactions with Biogenic Polyamines and Cobalt(III)hexamine Studied by Fourier Transform Infrared and Capillary Electrophoresis. Journal of Biological Chemistry, 279(40), 42041-42054. doi:10.1074/jbc.m406053200 | es_ES |
dc.description.references | Real, A. N., & Greenall, R. J. (2004). Influence of Spermine on DNA Conformation in a Molecular Dynamics Trajectory of d(CGCGAATTCGCG)2: Major Groove Binding by One Spermine Molecule Delays the A→B Transition. Journal of Biomolecular Structure and Dynamics, 21(4), 469-487. doi:10.1080/07391102.2004.10506941 | es_ES |
dc.description.references | Bauer, C., & Wang, A. H.-J. (1997). Bridged cobalt amine complexes induce DNA conformational changes effectively. Journal of Inorganic Biochemistry, 68(2), 129-135. doi:10.1016/s0162-0134(97)00083-4 | es_ES |
dc.description.references | Patel, M. M., & Anchordoquy, T. J. (2006). Ability of spermine to differentiate between DNA sequences—Preferential stabilization of A-tracts. Biophysical Chemistry, 122(1), 5-15. doi:10.1016/j.bpc.2006.02.001 | es_ES |
dc.description.references | Thomas*, T., & Thomas, T. J. (2001). Polyamines in cell growth and cell death: molecular mechanisms and therapeutic applications. Cellular and Molecular Life Sciences, 58(2), 244-258. doi:10.1007/pl00000852 | es_ES |
dc.description.references | Cheatham, T. E., & Kollman, P. A. (1997). Insight into the stabilization of A-DNA by specific ion association: spontaneous B-DNA to A-DNA transitions observed in molecular dynamics simulations of d[ACCCGCGGGT]2 in the presence of hexaamminecobalt(III). Structure, 5(10), 1297-1311. doi:10.1016/s0969-2126(97)00282-7 | es_ES |
dc.description.references | Bloomfield, V. A. (1997). DNA condensation by multivalent cations. Biopolymers, 44(3), 269-282. doi:10.1002/(sici)1097-0282(1997)44:3<269::aid-bip6>3.0.co;2-t | es_ES |
dc.description.references | Robinson, H., & Wang, A. H.-J. (1996). Neomycin, Spermine and Hexaamminecobalt(III) Share Common Structural Motifs in Converting B- to A-DNA. Nucleic Acids Research, 24(4), 676-682. doi:10.1093/nar/24.4.676 | es_ES |
dc.description.references | Xu, Q., Shoemaker, R. K., & Braunlin, W. H. (1993). Induction of B-A transitions of deoxyoligonucleotides by multivalent cations in dilute aqueous solution. Biophysical Journal, 65(3), 1039-1049. doi:10.1016/s0006-3495(93)81163-9 | es_ES |
dc.description.references | Subirana, J. A., & Soler-López, M. (2003). Cations as Hydrogen Bond Donors: A View of Electrostatic Interactions in DNA. Annual Review of Biophysics and Biomolecular Structure, 32(1), 27-45. doi:10.1146/annurev.biophys.32.110601.141726 | es_ES |
dc.description.references | Mei, H. Y., & Barton, J. K. (1988). Tris(tetramethylphenanthroline)ruthenium(II): a chiral probe that cleaves A-DNA conformations. Proceedings of the National Academy of Sciences, 85(5), 1339-1343. doi:10.1073/pnas.85.5.1339 | es_ES |
dc.description.references | Li, T.-K., Barbieri, C. M., Lin, H.-C., Rabson, A. B., Yang, G., Fan, Y., … Pilch, D. S. (2004). Drug Targeting of HIV-1 RNA·DNA Hybrid Structures: Thermodynamics of Recognition and Impact on Reverse Transcriptase-Mediated Ribonuclease H Activity and Viral Replication†. Biochemistry, 43(30), 9732-9742. doi:10.1021/bi0497345 | es_ES |
dc.description.references | Ivanov, V. I., Minchenkova, L. E., Burckhardt, G., Birch-Hirschfeld, E., Fritzsche, H., & Zimmer, C. (1996). The detection of B-form/A-form junction in a deoxyribonucleotide duplex. Biophysical Journal, 71(6), 3344-3349. doi:10.1016/s0006-3495(96)79527-9 | es_ES |
dc.description.references | Burckhardt, G., Zimmer, C., & Luck, G. (1973). Conformation and reactivity of DNA V. pH-dependent conformational changes of DNA in complexes with poly-L-histidine: Transitions from B- to A-form and to a condensed state. FEBS Letters, 30(1), 35-39. doi:10.1016/0014-5793(73)80613-1 | es_ES |
dc.description.references | FLORENTIEV, V. L., & IVANOV, V. I. (1970). RNA Polymerase: Two-step Mechanism with Overlapping Steps. Nature, 228(5271), 519-522. doi:10.1038/228519a0 | es_ES |
dc.description.references | Yang, L., & Pettitt, B. M. (1996). B to A Transition of DNA on the Nanosecond Time Scale. The Journal of Physical Chemistry, 100(7), 2564-2566. doi:10.1021/jp953080f | es_ES |
dc.description.references | beabealashvily, R. S., Ivanov, V. I., Minchenkova, L. E., & Savotchkina, L. P. (1972). RNA polymerase-DNA complexes I. The study of the conformation of nucleic acids at the growing point of RNA in an RNA polymerase-DNA system. Biochimica et Biophysica Acta (BBA) - Nucleic Acids and Protein Synthesis, 259(1), 35-40. doi:10.1016/0005-2787(72)90471-6 | es_ES |
dc.description.references | G hler, T. (2005). Mutant p53 proteins bind DNA in a DNA structure-selective mode. Nucleic Acids Research, 33(3), 1087-1100. doi:10.1093/nar/gki252 | es_ES |
dc.description.references | SUZUKI, M., LOAKES, D., & YAGI, N. (1996). DNA conformation and its changes upon binding transcription factors. Advances in Biophysics, 32, 53-72. doi:10.1016/0065-227x(96)84741-1 | es_ES |
dc.description.references | Eom, S. H., Wang, J., & Steitz, T. A. (1996). Structure of Taq polymerase with DNA at the polymerase active site. Nature, 382(6588), 278-281. doi:10.1038/382278a0 | es_ES |
dc.description.references | Doublié, S., Tabor, S., Long, A. M., Richardson, C. C., & Ellenberger, T. (1998). Crystal structure of a bacteriophage T7 DNA replication complex at 2.2 Å resolution. Nature, 391(6664), 251-258. doi:10.1038/34593 | es_ES |
dc.description.references | Lee, K. S., Bumbaca, D., Kosman, J., Setlow, P., & Jedrzejas, M. J. (2008). Structure of a protein-DNA complex essential for DNA protection in spores of Bacillus species. Proceedings of the National Academy of Sciences, 105(8), 2806-2811. doi:10.1073/pnas.0708244105 | es_ES |
dc.description.references | Mohr, S. C., Sokolov, N. V., He, C. M., & Setlow, P. (1991). Binding of small acid-soluble spore proteins from Bacillus subtilis changes the conformation of DNA from B to A. Proceedings of the National Academy of Sciences, 88(1), 77-81. doi:10.1073/pnas.88.1.77 | es_ES |
dc.description.references | Nejedlý, K., Chládková, J., & Kypr, J. (2007). Photochemical probing of the B–A conformational transition in a linearized pUC19 DNA and its polylinker region. Biophysical Chemistry, 125(1), 237-246. doi:10.1016/j.bpc.2006.08.007 | es_ES |
dc.description.references | Li, X. (2006). Carbon nanotubes selective destabilization of duplex and triplex DNA and inducing B-A transition in solution. Nucleic Acids Research, 34(13), 3670-3676. doi:10.1093/nar/gkl513 | es_ES |
dc.description.references | Yang, X. (1999). Structural studies of atom-specific anticancer drugs acting on DNA. Pharmacology & Therapeutics, 83(3), 181-215. doi:10.1016/s0163-7258(99)00020-0 | es_ES |
dc.description.references | Arscott, P. G., Ma, C., Wenner, J. R., & Bloomfield, V. A. (1995). DNA condensation by cobalt hexaammine(III) in alcohol-water mixtures: Dielectric constant and other solvent effects. Biopolymers, 36(3), 345-364. doi:10.1002/bip.360360309 | es_ES |
dc.description.references | Lang, D. (1969). Collapse of single DNA molecules in ethanol. Journal of Molecular Biology, 46(1), 209-IN4. doi:10.1016/0022-2836(69)90069-2 | es_ES |
dc.description.references | Lang, D., Taylor, T. N., Dobyan, D. C., & Gray, D. M. (1976). Dehydrated circular DNA: Electron microscopy of ethanol-condensed molecules. Journal of Molecular Biology, 106(1), 97-107. doi:10.1016/0022-2836(76)90302-8 | es_ES |
dc.description.references | Piškur, J., & Rupprecht, A. (1995). Aggregated DNA in ethanol solution. FEBS Letters, 375(3), 174-178. doi:10.1016/0014-5793(95)01206-t | es_ES |
dc.description.references | Pastré, D., Piétrement, O., Landousy, F., Hamon, L., Sorel, I., David, M.-O., … Le Cam, E. (2005). A new approach to DNA bending by polyamines and its implication in DNA condensation. European Biophysics Journal, 35(3), 214-223. doi:10.1007/s00249-005-0025-7 | es_ES |
dc.description.references | Rouzina, I., & Bloomfield, V. A. (1998). DNA Bending by Small, Mobile Multivalent Cations. Biophysical Journal, 74(6), 3152-3164. doi:10.1016/s0006-3495(98)78021-x | es_ES |
dc.description.references | Herbeck, R., Yu, T.-J., & Peticolas, W. L. (1976). Effect of crosslinking on the secondary structure of DNA. I. Crosslinking by photodimerization. Biochemistry, 15(12), 2656-2660. doi:10.1021/bi00657a027 | es_ES |
dc.description.references | Zimmerman, S. B., & Pheiffer, B. H. (1979). A direct demonstration that the ethanol-induced transition of DNA is between the A and B forms: an X-ray diffraction study. Journal of Molecular Biology, 135(4), 1023-1027. doi:10.1016/0022-2836(79)90526-6 | es_ES |
dc.description.references | J. A. Subirana , M.Chiva and R.Mayer , in Biomolecular Structure, Conformation, Function and Evolution , ed. R. Srinivasan , Pergamon Press , London , 1979 | es_ES |
dc.description.references | Schnell, J. R., Berman, J., & Bloomfield, V. A. (1998). Insertion of Telomere Repeat Sequence Decreases Plasmid DNA Condensation by Cobalt (III) Hexaammine. Biophysical Journal, 74(3), 1484-1491. doi:10.1016/s0006-3495(98)77860-9 | es_ES |
dc.description.references | Reich, Z., Ghirlando, R., & Minsky, A. (1991). Secondary conformational polymorphism of nucleic acids as a possible functional link between cellular parameters and DNA packaging processes. Biochemistry, 30(31), 7828-7836. doi:10.1021/bi00245a024 | es_ES |
dc.description.references | Zavriev, S. K., Minchenkova, L. E., Frank-Kamenetskii, M. D., & Ivanov, V. I. (1978). On the flexibility of the boundaries between the A¯-form and B¯-form sections in DNA molecule. Nucleic Acids Research, 5(7), 2657-2664. doi:10.1093/nar/5.7.2657 | es_ES |
dc.description.references | Potaman, V. N., Bannikov, Y. A., & Shlyachtenko, L. S. (1980). Sedimentation of DNA in ethanol-water solutions within the interval of B→A transition. Nucleic Acids Research, 8(3), 635-642. doi:10.1093/nar/8.3.635 | es_ES |
dc.description.references | Ivanov, V. I., & Krylov, D. Y. (1992). [6] A-DNA in solution as studied by diverse approaches. Methods in Enzymology, 111-127. doi:10.1016/0076-6879(92)11008-7 | es_ES |
dc.description.references | Wilson, R. W., & Bloomfield, V. A. (1979). Counterion-induced condensation of deoxyribonucleic acid. A light-scattering study. Biochemistry, 18(11), 2192-2196. doi:10.1021/bi00578a009 | es_ES |
dc.description.references | Bloomfield, V. A., Wilson, R. W., & Rau, D. C. (1980). Polyelectrolyte effects in DNA condensation by polyamines. Biophysical Chemistry, 11(3-4), 339-343. doi:10.1016/0301-4622(80)87006-2 | es_ES |
dc.description.references | Besteman, K., Van Eijk, K., & Lemay, S. G. (2007). Charge inversion accompanies DNA condensation by multivalent ions. Nature Physics, 3(9), 641-644. doi:10.1038/nphys697 | es_ES |
dc.description.references | Neuman, K. C., & Nagy, A. (2008). Single-molecule force spectroscopy: optical tweezers, magnetic tweezers and atomic force microscopy. Nature Methods, 5(6), 491-505. doi:10.1038/nmeth.1218 | es_ES |
dc.description.references | Bustamante, C., Macosko, J. C., & Wuite, G. J. L. (2000). Grabbing the cat by the tail: manipulating molecules one by one. Nature Reviews Molecular Cell Biology, 1(2), 130-136. doi:10.1038/35040072 | es_ES |
dc.description.references | Joo, C., Balci, H., Ishitsuka, Y., Buranachai, C., & Ha, T. (2008). Advances in Single-Molecule Fluorescence Methods for Molecular Biology. Annual Review of Biochemistry, 77(1), 51-76. doi:10.1146/annurev.biochem.77.070606.101543 | es_ES |
dc.description.references | Van Mameren, J., Peterman, E. J. G., & Wuite, G. J. L. (2008). See me, feel me: methods to concurrently visualize and manipulate single DNA molecules and associated proteins. Nucleic Acids Research, 36(13), 4381-4389. doi:10.1093/nar/gkn412 | es_ES |
dc.description.references | Ando, T., Uchihashi, T., & Scheuring, S. (2014). Filming Biomolecular Processes by High-Speed Atomic Force Microscopy. Chemical Reviews, 114(6), 3120-3188. doi:10.1021/cr4003837 | es_ES |
dc.description.references | Moffitt, J. R., Chemla, Y. R., Smith, S. B., & Bustamante, C. (2008). Recent Advances in Optical Tweezers. Annual Review of Biochemistry, 77(1), 205-228. doi:10.1146/annurev.biochem.77.043007.090225 | es_ES |
dc.description.references | Hormeño, S., & Arias-Gonzalez, J. R. (2006). Exploring mechanochemical processes in the cell with optical tweezers. Biology of the Cell, 98(12), 679-695. doi:10.1042/bc20060036 | es_ES |
dc.description.references | M. Tanase , N.Biais and M.Sheetz , in Methods in Cell Biology , ed. W. Yu-Li and E. D. Dennis , Academic Press , 2007 , vol. 83, pp. 473–493 | es_ES |
dc.description.references | Bryant, Z., Stone, M. D., Gore, J., Smith, S. B., Cozzarelli, N. R., & Bustamante, C. (2003). Structural transitions and elasticity from torque measurements on DNA. Nature, 424(6946), 338-341. doi:10.1038/nature01810 | es_ES |
dc.description.references | Bishop, A. I., Nieminen, T. A., Heckenberg, N. R., & Rubinsztein-Dunlop, H. (2003). Optical application and measurement of torque on microparticles of isotropic nonabsorbing material. Physical Review A, 68(3). doi:10.1103/physreva.68.033802 | es_ES |
dc.description.references | Deufel, C., Forth, S., Simmons, C. R., Dejgosha, S., & Wang, M. D. (2007). Nanofabricated quartz cylinders for angular trapping: DNA supercoiling torque detection. Nature Methods, 4(3), 223-225. doi:10.1038/nmeth1013 | es_ES |
dc.description.references | Gutiérrez-Medina, B., Andreasson, J. O. L., Greenleaf, W. J., LaPorta, A., & Block, S. M. (2010). An Optical Apparatus for Rotation and Trapping. Single Molecule Tools, Part B:Super-Resolution, Particle Tracking, Multiparameter, and Force Based Methods, 377-404. doi:10.1016/s0076-6879(10)75015-1 | es_ES |
dc.description.references | Parkin, S., Knöner, G., Singer, W., Nieminen, T. A., Heckenberg, N. R., & Rubinsztein‐Dunlop, H. (2007). Optical Torque on Microscopic Objects. Laser Manipulation of Cells and Tissues, 525-561. doi:10.1016/s0091-679x(06)82019-4 | es_ES |
dc.description.references | La Porta, A., & Wang, M. D. (2004). Optical Torque Wrench: Angular Trapping, Rotation, and Torque Detection of Quartz Microparticles. Physical Review Letters, 92(19). doi:10.1103/physrevlett.92.190801 | es_ES |
dc.description.references | Bryant, Z., Oberstrass, F. C., & Basu, A. (2012). Recent developments in single-molecule DNA mechanics. Current Opinion in Structural Biology, 22(3), 304-312. doi:10.1016/j.sbi.2012.04.007 | es_ES |
dc.description.references | Lebel, P., Basu, A., Oberstrass, F. C., Tretter, E. M., & Bryant, Z. (2014). Gold rotor bead tracking for high-speed measurements of DNA twist, torque and extension. Nature Methods, 11(4), 456-462. doi:10.1038/nmeth.2854 | es_ES |
dc.description.references | Celedon, A., Nodelman, I. M., Wildt, B., Dewan, R., Searson, P., Wirtz, D., … Sun, S. X. (2009). Magnetic Tweezers Measurement of Single Molecule Torque. Nano Letters, 9(4), 1720-1725. doi:10.1021/nl900631w | es_ES |
dc.description.references | Celedon, A., Wirtz, D., & Sun, S. (2010). Torsional Mechanics of DNA Are Regulated by Small-Molecule Intercalation. The Journal of Physical Chemistry B, 114(50), 16929-16935. doi:10.1021/jp107541q | es_ES |
dc.description.references | Kauert, D. J., Kurth, T., Liedl, T., & Seidel, R. (2011). Direct Mechanical Measurements Reveal the Material Properties of Three-Dimensional DNA Origami. Nano Letters, 11(12), 5558-5563. doi:10.1021/nl203503s | es_ES |
dc.description.references | Lipfert, J., Kerssemakers, J. W. J., Jager, T., & Dekker, N. H. (2010). Magnetic torque tweezers: measuring torsional stiffness in DNA and RecA-DNA filaments. Nature Methods, 7(12), 977-980. doi:10.1038/nmeth.1520 | es_ES |
dc.description.references | Lipfert, J., Wiggin, M., Kerssemakers, J. W. J., Pedaci, F., & Dekker, N. H. (2011). Freely orbiting magnetic tweezers to directly monitor changes in the twist of nucleic acids. Nature Communications, 2(1). doi:10.1038/ncomms1450 | es_ES |
dc.description.references | Janssen, X. J. A., Lipfert, J., Jager, T., Daudey, R., Beekman, J., & Dekker, N. H. (2012). Electromagnetic Torque Tweezers: A Versatile Approach for Measurement of Single-Molecule Twist and Torque. Nano Letters, 12(7), 3634-3639. doi:10.1021/nl301330h | es_ES |
dc.description.references | Mosconi, F., Allemand, J. F., & Croquette, V. (2011). Soft magnetic tweezers: A proof of principle. Review of Scientific Instruments, 82(3), 034302. doi:10.1063/1.3531959 | es_ES |
dc.description.references | Arias-Gonzalez, J. R. (2013). Optical Tweezers to Study Viruses. Structure and Physics of Viruses, 273-304. doi:10.1007/978-94-007-6552-8_9 | es_ES |
dc.description.references | Albiser, G., Harmouchi, M., & Premilat, S. (1988). Influence of a Mechanical Tension on the B-C and B-C Conformational Transitions in DNA Fibres. Journal of Biomolecular Structure and Dynamics, 6(2), 359-366. doi:10.1080/07391102.1988.10507718 | es_ES |
dc.description.references | Fornells, M., Campos, J. L., & Subirana, J. A. (1983). Changes of conformation of DNA produced by mechanical forces. Journal of Molecular Biology, 166(2), 249-252. doi:10.1016/s0022-2836(83)80012-6 | es_ES |
dc.description.references | Harmouchi, M., Albiser, G., & Premilat, S. (1992). Effect of a mechanical tension on the hydration of DNA in fibres. Biochemical and Biophysical Research Communications, 188(1), 78-85. doi:10.1016/0006-291x(92)92352-x | es_ES |
dc.description.references | Schultz, J., Rupprecht, A., Song, Z., Piskur, J., Nordenskiöld, L., & Lahajnar, G. (1994). A mechanochemical study of MgDNA fibers in ethanol-water solutions. Biophysical Journal, 66(3), 810-819. doi:10.1016/s0006-3495(94)80857-4 | es_ES |
dc.description.references | Baumann, C. G., Smith, S. B., Bloomfield, V. A., & Bustamante, C. (1997). Ionic effects on the elasticity of single DNA molecules. Proceedings of the National Academy of Sciences, 94(12), 6185-6190. doi:10.1073/pnas.94.12.6185 | es_ES |
dc.description.references | Gore, J., Bryant, Z., Nöllmann, M., Le, M. U., Cozzarelli, N. R., & Bustamante, C. (2006). DNA overwinds when stretched. Nature, 442(7104), 836-839. doi:10.1038/nature04974 | es_ES |
dc.description.references | Wenner, J. R., Williams, M. C., Rouzina, I., & Bloomfield, V. A. (2002). Salt Dependence of the Elasticity and Overstretching Transition of Single DNA Molecules. Biophysical Journal, 82(6), 3160-3169. doi:10.1016/s0006-3495(02)75658-0 | es_ES |
dc.description.references | Van Mameren, J., Gross, P., Farge, G., Hooijman, P., Modesti, M., Falkenberg, M., … Peterman, E. J. G. (2009). Unraveling the structure of DNA during overstretching by using multicolor, single-molecule fluorescence imaging. Proceedings of the National Academy of Sciences, 106(43), 18231-18236. doi:10.1073/pnas.0904322106 | es_ES |
dc.description.references | Williams, M. C., Wenner, J. R., Rouzina, I., & Bloomfield, V. A. (2001). Entropy and Heat Capacity of DNA Melting from Temperature Dependence of Single Molecule Stretching. Biophysical Journal, 80(4), 1932-1939. doi:10.1016/s0006-3495(01)76163-2 | es_ES |
dc.description.references | Bosaeus, N., El-Sagheer, A. H., Brown, T., Smith, S. B., Åkerman, B., Bustamante, C., & Nordén, B. (2012). Tension induces a base-paired overstretched DNA conformation. Proceedings of the National Academy of Sciences, 109(38), 15179-15184. doi:10.1073/pnas.1213172109 | es_ES |
dc.description.references | Fu, H., Chen, H., Marko, J. F., & Yan, J. (2010). Two distinct overstretched DNA states. Nucleic Acids Research, 38(16), 5594-5600. doi:10.1093/nar/gkq309 | es_ES |
dc.description.references | Fu, H., Chen, H., Zhang, X., Qu, Y., Marko, J. F., & Yan, J. (2010). Transition dynamics and selection of the distinct S-DNA and strand unpeeling modes of double helix overstretching. Nucleic Acids Research, 39(8), 3473-3481. doi:10.1093/nar/gkq1278 | es_ES |
dc.description.references | King, G. A., Gross, P., Bockelmann, U., Modesti, M., Wuite, G. J. L., & Peterman, E. J. G. (2013). Revealing the competition between peeled ssDNA, melting bubbles, and S-DNA during DNA overstretching using fluorescence microscopy. Proceedings of the National Academy of Sciences, 110(10), 3859-3864. doi:10.1073/pnas.1213676110 | es_ES |
dc.description.references | Paik, D. H., & Perkins, T. T. (2011). Overstretching DNA at 65 pN Does Not Require Peeling from Free Ends or Nicks. Journal of the American Chemical Society, 133(10), 3219-3221. doi:10.1021/ja108952v | es_ES |
dc.description.references | Whitelam, S., Pronk, S., & Geissler, P. L. (2008). There and (Slowly) Back Again: Entropy-Driven Hysteresis in a Model of DNA Overstretching. Biophysical Journal, 94(7), 2452-2469. doi:10.1529/biophysj.107.117036 | es_ES |
dc.description.references | Williams, M. C., Rouzina, I., & McCauley, M. J. (2009). Peeling back the mystery of DNA overstretching. Proceedings of the National Academy of Sciences, 106(43), 18047-18048. doi:10.1073/pnas.0910269106 | es_ES |
dc.description.references | Zhang, X., Chen, H., Fu, H., Doyle, P. S., & Yan, J. (2012). Two distinct overstretched DNA structures revealed by single-molecule thermodynamics measurements. Proceedings of the National Academy of Sciences, 109(21), 8103-8108. doi:10.1073/pnas.1109824109 | es_ES |
dc.description.references | Zhang, X., Chen, H., Le, S., Rouzina, I., Doyle, P. S., & Yan, J. (2013). Revealing the competition between peeled ssDNA, melting bubbles, and S-DNA during DNA overstretching by single-molecule calorimetry. Proceedings of the National Academy of Sciences, 110(10), 3865-3870. doi:10.1073/pnas.1213740110 | es_ES |
dc.description.references | Fang, Y., Hoh, J. H., & Spisz, T. S. (1999). Ethanol-induced structural transitions of DNA on mica. Nucleic Acids Research, 27(8), 1943-1949. doi:10.1093/nar/27.8.1943 | es_ES |
dc.description.references | Bonin, M. (2002). Analysis of RNA flexibility by scanning force spectroscopy. Nucleic Acids Research, 30(16), 81e-81. doi:10.1093/nar/gnf080 | es_ES |
dc.description.references | Li, L., Pabit, S. A., Meisburger, S. P., & Pollack, L. (2011). Double-Stranded RNA Resists Condensation. Physical Review Letters, 106(10). doi:10.1103/physrevlett.106.108101 | es_ES |
dc.description.references | Baumann, C. G., Bloomfield, V. A., Smith, S. B., Bustamante, C., Wang, M. D., & Block, S. M. (2000). Stretching of Single Collapsed DNA Molecules. Biophysical Journal, 78(4), 1965-1978. doi:10.1016/s0006-3495(00)76744-0 | es_ES |
dc.description.references | Murayama, Y., Sakamaki, Y., & Sano, M. (2003). Elastic Response of Single DNA Molecules Exhibits a Reentrant Collapsing Transition. Physical Review Letters, 90(1). doi:10.1103/physrevlett.90.018102 | es_ES |
dc.description.references | Noy, A., Pérez, A., Laughton, C. A., & Orozco, M. (2007). Theoretical study of large conformational transitions in DNA: the B↔A conformational change in water and ethanol/water. Nucleic Acids Research, 35(10), 3330-3338. doi:10.1093/nar/gkl1135 | es_ES |
dc.description.references | Li, W., Wang, P.-Y., Yan, J., & Li, M. (2012). Impact of DNA Twist Accumulation on Progressive Helical Wrapping of Torsionally Constrained DNA. Physical Review Letters, 109(21). doi:10.1103/physrevlett.109.218102 | es_ES |
dc.description.references | Shao, Q., Goyal, S., Finzi, L., & Dunlap, D. (2012). Physiological Levels of Salt and Polyamines Favor Writhe and Limit Twist in DNA. Macromolecules, 45(7), 3188-3196. doi:10.1021/ma300211t | es_ES |
dc.description.references | Strick, T. R., Allemand, J.-F., Bensimon, D., Bensimon, A., & Croquette, V. (1996). The Elasticity of a Single Supercoiled DNA Molecule. Science, 271(5257), 1835-1837. doi:10.1126/science.271.5257.1835 | es_ES |
dc.description.references | Strick, T. R., Allemand, J.-F., Bensimon, D., & Croquette, V. (1998). Behavior of Supercoiled DNA. Biophysical Journal, 74(4), 2016-2028. doi:10.1016/s0006-3495(98)77908-1 | es_ES |
dc.description.references | Smith, S., Finzi, L., & Bustamante, C. (1992). Direct mechanical measurements of the elasticity of single DNA molecules by using magnetic beads. Science, 258(5085), 1122-1126. doi:10.1126/science.1439819 | es_ES |
dc.description.references | Léger, J. F., Romano, G., Sarkar, A., Robert, J., Bourdieu, L., Chatenay, D., & Marko, J. F. (1999). Structural Transitions of a Twisted and Stretched DNA Molecule. Physical Review Letters, 83(5), 1066-1069. doi:10.1103/physrevlett.83.1066 | es_ES |
dc.description.references | Strick, T. R., Croquette, V., & Bensimon, D. (1998). Homologous pairing in stretched supercoiled DNA. Proceedings of the National Academy of Sciences, 95(18), 10579-10583. doi:10.1073/pnas.95.18.10579 | es_ES |
dc.description.references | Oberstrass, F. C., Fernandes, L. E., Lebel, P., & Bryant, Z. (2013). Torque Spectroscopy of DNA: Base-Pair Stability, Boundary Effects, Backbending, and Breathing Dynamics. Physical Review Letters, 110(17). doi:10.1103/physrevlett.110.178103 | es_ES |
dc.description.references | Sheinin, M. Y., Forth, S., Marko, J. F., & Wang, M. D. (2011). Underwound DNA under Tension: Structure, Elasticity, and Sequence-Dependent Behaviors. Physical Review Letters, 107(10). doi:10.1103/physrevlett.107.108102 | es_ES |
dc.description.references | Sarkar, A., Léger, J.-F., Chatenay, D., & Marko, J. F. (2001). Structural transitions in DNA driven by external force and torque. Physical Review E, 63(5). doi:10.1103/physreve.63.051903 | es_ES |
dc.description.references | Marko, J. F., & Neukirch, S. (2012). Competition between curls and plectonemes near the buckling transition of stretched supercoiled DNA. Physical Review E, 85(1). doi:10.1103/physreve.85.011908 | es_ES |
dc.description.references | Kamien, R. D., Lubensky, T. C., Nelson, P., & O’Hern, C. S. (1997). Direct determination of DNA twist-stretch coupling. Europhysics Letters (EPL), 38(3), 237-242. doi:10.1209/epl/i1997-00231-y | es_ES |
dc.description.references | Marko, J. F. (1997). Stretching must twist DNA. Europhysics Letters (EPL), 38(3), 183-188. doi:10.1209/epl/i1997-00223-5 | es_ES |
dc.description.references | Marko, J. F. (1998). DNA under high tension: Overstretching, undertwisting, and relaxation dynamics. Physical Review E, 57(2), 2134-2149. doi:10.1103/physreve.57.2134 | es_ES |
dc.description.references | Lionnet, T., Joubaud, S., Lavery, R., Bensimon, D., & Croquette, V. (2006). Wringing Out DNA. Physical Review Letters, 96(17). doi:10.1103/physrevlett.96.178102 | es_ES |
dc.description.references | Forth, S., Deufel, C., Sheinin, M. Y., Daniels, B., Sethna, J. P., & Wang, M. D. (2008). Abrupt Buckling Transition Observed during the Plectoneme Formation of Individual DNA Molecules. Physical Review Letters, 100(14). doi:10.1103/physrevlett.100.148301 | es_ES |
dc.description.references | Lipfert, J., Klijnhout, S., & Dekker, N. H. (2010). Torsional sensing of small-molecule binding using magnetic tweezers. Nucleic Acids Research, 38(20), 7122-7132. doi:10.1093/nar/gkq598 | es_ES |
dc.description.references | Wereszczynski, J., & Andricioaei, I. (2006). On structural transitions, thermodynamic equilibrium, and the phase diagram of DNA and RNA duplexes under torque and tension. Proceedings of the National Academy of Sciences, 103(44), 16200-16205. doi:10.1073/pnas.0603850103 | es_ES |
dc.description.references | Hagerman, P. J. (1988). Flexibility of DNA. Annual Review of Biophysics and Biophysical Chemistry, 17(1), 265-286. doi:10.1146/annurev.bb.17.060188.001405 | es_ES |
dc.description.references | Hagerman, P. J. (1997). FLEXIBILITY OF RNA. Annual Review of Biophysics and Biomolecular Structure, 26(1), 139-156. doi:10.1146/annurev.biophys.26.1.139 | es_ES |
dc.description.references | Wiggins, P. A., van der Heijden, T., Moreno-Herrero, F., Spakowitz, A., Phillips, R., Widom, J., … Nelson, P. C. (2006). High flexibility of DNA on short length scales probed by atomic force microscopy. Nature Nanotechnology, 1(2), 137-141. doi:10.1038/nnano.2006.63 | es_ES |
dc.description.references | Marko, J. F., & Siggia, E. D. (1995). Stretching DNA. Macromolecules, 28(26), 8759-8770. doi:10.1021/ma00130a008 | es_ES |
dc.description.references | Odijk, T. (1995). Stiff Chains and Filaments under Tension. Macromolecules, 28(20), 7016-7018. doi:10.1021/ma00124a044 | es_ES |
dc.description.references | Wang, M. D., Yin, H., Landick, R., Gelles, J., & Block, S. M. (1997). Stretching DNA with optical tweezers. Biophysical Journal, 72(3), 1335-1346. doi:10.1016/s0006-3495(97)78780-0 | es_ES |
dc.description.references | Bustamante, C., Smith, S. B., Liphardt, J., & Smith, D. (2000). Single-molecule studies of DNA mechanics. Current Opinion in Structural Biology, 10(3), 279-285. doi:10.1016/s0959-440x(00)00085-3 | es_ES |
dc.description.references | Selvin, P., Cook, D., Pon, N., Bauer, W., Klein, M., & Hearst, J. (1992). Torsional rigidity of positively and negatively supercoiled DNA. Science, 255(5040), 82-85. doi:10.1126/science.1553534 | es_ES |
dc.description.references | Moroz, J. D., & Nelson, P. (1998). Entropic Elasticity of Twist-Storing Polymers. Macromolecules, 31(18), 6333-6347. doi:10.1021/ma971804a | es_ES |
dc.description.references | Strick, T. R., Bensimon, D., & Croquette, V. (1999). Genetica, 106(1/2), 57-62. doi:10.1023/a:1003772626927 | es_ES |
dc.description.references | Vologodskii, A. V., & Marko, J. F. (1997). Extension of torsionally stressed DNA by external force. Biophysical Journal, 73(1), 123-132. doi:10.1016/s0006-3495(97)78053-6 | es_ES |
dc.description.references | Mosconi, F., Allemand, J. F., Bensimon, D., & Croquette, V. (2009). Measurement of the Torque on a Single Stretched and Twisted DNA Using Magnetic Tweezers. Physical Review Letters, 102(7). doi:10.1103/physrevlett.102.078301 | es_ES |
dc.description.references | Oroszi, L., Galajda, P., Kirei, H., Bottka, S., & Ormos, P. (2006). Direct Measurement of Torque in an Optical Trap and Its Application to Double-Strand DNA. Physical Review Letters, 97(5). doi:10.1103/physrevlett.97.058301 | es_ES |
dc.description.references | Gross, P., Laurens, N., Oddershede, L. B., Bockelmann, U., Peterman, E. J. G., & Wuite, G. J. L. (2011). Quantifying how DNA stretches, melts and changes twist under tension. Nature Physics, 7(9), 731-736. doi:10.1038/nphys2002 | es_ES |
dc.description.references | Sheinin, M. Y., & Wang, M. D. (2009). Twist–stretch coupling and phase transition during DNA supercoiling. Physical Chemistry Chemical Physics, 11(24), 4800. doi:10.1039/b901646e | es_ES |
dc.description.references | Lavelle, C. (2014). Pack, unpack, bend, twist, pull, push: the physical side of gene expression. Current Opinion in Genetics & Development, 25, 74-84. doi:10.1016/j.gde.2014.01.001 | es_ES |
dc.description.references | Yin, H., Wang, M. D., Svoboda, K., Landick, R., Block, S. M., & Gelles, J. (1995). Transcription Against an Applied Force. Science, 270(5242), 1653-1657. doi:10.1126/science.270.5242.1653 | es_ES |
dc.description.references | Bumcrot, D., Manoharan, M., Koteliansky, V., & Sah, D. W. Y. (2006). RNAi therapeutics: a potential new class of pharmaceutical drugs. Nature Chemical Biology, 2(12), 711-719. doi:10.1038/nchembio839 | es_ES |
dc.description.references | Seidel, R., & Dekker, C. (2007). Single-molecule studies of nucleic acid motors. Current Opinion in Structural Biology, 17(1), 80-86. doi:10.1016/j.sbi.2006.12.003 | es_ES |
dc.description.references | Tinoco, I., Chen, G., & Qu, X. (2010). RNA Reactions One Molecule at a Time. Cold Spring Harbor Perspectives in Biology, 2(11), a003624-a003624. doi:10.1101/cshperspect.a003624 | es_ES |
dc.description.references | Liphardt, J. (2001). Reversible Unfolding of Single RNA Molecules by Mechanical Force. Science, 292(5517), 733-737. doi:10.1126/science.1058498 | es_ES |
dc.description.references | Garavís, M., Bocanegra, R., Herrero-Galán, E., González, C., Villasante, A., & Arias-Gonzalez, J. R. (2013). Mechanical unfolding of long human telomeric RNA (TERRA). Chemical Communications, 49(57), 6397. doi:10.1039/c3cc42981d | es_ES |
dc.description.references | Yu, Z., & Mao, H. (2013). Non-B DNA Structures Show Diverse Conformations and Complex Transition Kinetics Comparable to RNA or Proteins-A Perspective from Mechanical Unfolding and Refolding Experiments. The Chemical Record, 13(1), 102-116. doi:10.1002/tcr.201200021 | es_ES |
dc.description.references | Marko, J. F. (2007). Torque and dynamics of linking number relaxation in stretched supercoiled DNA. Physical Review E, 76(2). doi:10.1103/physreve.76.021926 | es_ES |