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Issue 14, 2016
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Dual emissive analogue of deoxyuridine as a sensitive hydration-reporting probe for discriminating mismatched from matched DNA and DNA/DNA from DNA/RNA duplexes

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Abstract

Fluorescent nucleosides with high sensitivity to H-bonding are of great interest not only to investigate DNA hydration and DNA–protein interactions and dynamics, but also to develop screening assays. Here, we report on the incorporation of a dual emissive uridine analogue based on the 3-hydroxychromone scaffold (3HC) into DNA oligonucleotides of different sequences and the characterization of the spectroscopic properties of the labelled oligonucleotides in matched and mismatched duplexes and in duplexes of different forms. The probe exhibits two-colour emission and spectral λ-shift, which vary as a function of the local hydration of the 3HC. It provides the highest sensitivity together with calibration on the molecular level, which allows discriminating between matched and mismatched dsDNA, as well as between B- and A-forms of DNA/DNA and DNA/RNA duplexes. We suggest that the physical basis of such behavior is the change of hydration in the close proximity of the fluorescent base emitter which appears ideally suitable for such sensing.

Graphical abstract: Dual emissive analogue of deoxyuridine as a sensitive hydration-reporting probe for discriminating mismatched from matched DNA and DNA/DNA from DNA/RNA duplexes

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Publication details

The article was received on 20 Oct 2015, accepted on 21 Dec 2015 and first published on 22 Dec 2015


Article type: Paper
DOI: 10.1039/C5TC03427B
Author version available: Download Author version (PDF)
Citation: J. Mater. Chem. C, 2016,4, 3010-3017
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    Dual emissive analogue of deoxyuridine as a sensitive hydration-reporting probe for discriminating mismatched from matched DNA and DNA/DNA from DNA/RNA duplexes

    N. P. F. Barthes, K. Gavvala, D. Dziuba, D. Bonhomme, I. A. Karpenko, A. S. Dabert-Gay, D. Debayle, A. P. Demchenko, R. Benhida, B. Y. Michel, Y. Mély and A. Burger, J. Mater. Chem. C, 2016, 4, 3010
    DOI: 10.1039/C5TC03427B

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