engleski

Exploiting dye monomer-dimer equilibrium for sensing of various ds-DNA/RNA secondary structures

Small molecules targeting DNA and RNA have attracted significant scientific interest not only because of their biomedicinal applications, but also due to widespread use of spectrophotometric markers in the related scientific research – for instance, fluorescent techniques significantly developed during the last two decades and now represent about 60% of the detection enabling technologies used in molecular biology and medicine. Small molecules targeting double stranded (ds)-DNA/RNA often rely on the one dominant non-covalent binding mode for their interaction. However, design of small molecule (Mw<600) for recognition of any ds-DNA/RNA sequence is very challenging due severely limited number of modifications in such restricted size. Our research is focused on one of very under-investigated approaches: exploitation of intrinsic property of some dyes for aggregation, whereby monomeric and aggregated dye differ strongly in spectroscopic properties. Under favourable dye structure-DNA/RNA binding site relations, one dye molecule would give several different spectroscopic responses depending on a binding mode to DNA/RNA: to some DNA/RNA dye would bind as monomer, for other DNA/RNA as dimer, and moreover dimer response could depend strongly on the steric properties of DNA/RNA binding site (Scheme 1). We target several ds-DNA/RNA and ss-RNA (e.g. Scheme 1 ; A-DNA/RNA, B-DNA, subtypes of DNA characterized by narrower minor groove, etc.) by sensitive and biologically applicable methods (UV/Vis, CD, fluorescence, SERS, ITC, DSC). Studies on implementation of dye monomer-dimer equilibrium in recognition of DNA/RNA (Scheme 1) would be demonstrated for several dye types, including perylene bisimide1 and cyanine chromophores.

Chromogenic ; Emissive Materials

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