Interaction of YOYO-1 with guanine-rich DNA.

Show simple item record Ghosh Datta, Shohini Reynolds, Christopher Datta, Bhaskar Goud, Yugender K. 2014-04-10T10:37:34Z 2014-04-10T10:37:34Z 2014-07
dc.identifier.citation Ghosh Datta, Shohini; Reynolds, Christopher; Goud, Yugender K. and Datta, Bhaskar, “Interaction of YOYO-1 with guanine-rich DNA”, Journal of Biomolecular Structure and Dynamics, DOI: 10.1080/07391102.2013.807752, vol. 32, no. 7, Jul. 2014. en_US
dc.identifier.issn 0739-1102
dc.identifier.issn 1538-0254
dc.description.abstract The oxazole homodimer YOYO-1 has served as a valuable tool for the detection and quantification of nucleic acids. While the base specificity and selectivity of binding of YOYO-1 has been researched to some extent, the effect of unorthodox nucleic acid conformations on dye binding has received relatively less attention. In this work, we attempt to correlate the quadruplex-forming ability of G-rich sequences with binding of YOYO-1. Oligonucleotides differing in the number of tandem G repeats, total length, and length of loop sequence were evaluated for their ability to form quadruplexes in presence of sodium (Na+) or potassium (K+) ions. The fluorescence behavior of YOYO-1 upon binding such G-rich sequences was also ascertained. A distinct correlation was observed between the strength and propensity of quadruplex formation, and the affinity of YOYO-1 to bind such sequences. Specifically, as exemplified by the oligonucleotides 5′-G4T2G4-3′ and 5′-G3TG3TG3-3′, sequences possessing longer G-rich regions and shorter loop sequences formed stronger quadruplexes in presence of K+ which translated to weaker binding of YOYO-1. The dependence of binding of YOYO-1 on sequence and structural features of G-rich DNA has not been explored previously and such studies are expected to aid in more effective interpretation of applications involving the fluorophore. en_US
dc.description.statementofresponsibility by Yugender K. Goud and Bhaskar Datta
dc.format.extent Vol. 32, No. 7, pp. 1155-1163
dc.language.iso en en_US
dc.publisher Taylor & Francis en_US
dc.subject Fluorescence enhancement of intercalating dyes en_US
dc.subject G-quadruplex en_US
dc.subject G-quartet dependence on monovalent cations en_US
dc.subject Nucleic acid staining reagents en_US
dc.subject Quadruplex topology en_US
dc.subject YOYO-1 en_US
dc.title Interaction of YOYO-1 with guanine-rich DNA. en_US
dc.type Article en_US
dc.relation.journal Journal of Biomolecular Structure and Dynamics

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