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Article

Chasing Particularities of Guanine- and Cytosine-Rich DNA Strands

by 1,* and 1,2,3
1
Slovenian NMR Centre, National Institute of Chemistry, Hajdrihova 19, SI-1000 Ljubljana, Slovenia
2
EN-FIST Centre of Excellence, Trg OF 13, SI-1000 Ljubljana, Slovenia
3
Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, p. p. 537, SI-1000 Ljubljana, Slovenia
*
Author to whom correspondence should be addressed.
Molecules 2020, 25(3), 434; https://doi.org/10.3390/molecules25030434
Received: 12 December 2019 / Revised: 17 January 2020 / Accepted: 20 January 2020 / Published: 21 January 2020
(This article belongs to the Special Issue Recent Advances of G-Quadruplexes In Vivo and In Vitro)
By substitution of natural nucleotides by their abasic analogs (i.e., 1′,2′-dideoxyribose phosphate residue) at critically chosen positions within 27-bp DNA constructs originating from the first intron of N-myc gene, we hindered hybridization within the guanine- and cytosine-rich central region and followed formation of non-canonical structures. The impeded hybridization between the complementary strands leads to time-dependent structural transformations of guanine-rich strand that are herein characterized with the use of solution-state NMR, CD spectroscopy, and native polyacrylamide gel electrophoresis. Moreover, the DNA structural changes involve transformation of intra- into inter-molecular G-quadruplex structures that are thermodynamically favored. Intriguingly, the transition occurs in the presence of complementary cytosine-rich strands highlighting the inability of Watson–Crick base-pairing to preclude the transformation between G-quadruplex structures that occurs via intertwining mechanism and corroborates a role of G-quadruplex structures in DNA recombination processes. View Full-Text
Keywords: G-quadruplex; DNA; double-strand; hybridization; abasic residue; structure; NMR G-quadruplex; DNA; double-strand; hybridization; abasic residue; structure; NMR
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MDPI and ACS Style

Trajkovski, M.; Plavec, J. Chasing Particularities of Guanine- and Cytosine-Rich DNA Strands. Molecules 2020, 25, 434. https://doi.org/10.3390/molecules25030434

AMA Style

Trajkovski M, Plavec J. Chasing Particularities of Guanine- and Cytosine-Rich DNA Strands. Molecules. 2020; 25(3):434. https://doi.org/10.3390/molecules25030434

Chicago/Turabian Style

Trajkovski, Marko, and Janez Plavec. 2020. "Chasing Particularities of Guanine- and Cytosine-Rich DNA Strands" Molecules 25, no. 3: 434. https://doi.org/10.3390/molecules25030434

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