Fluorescence turn-on probes for intracellular DNA/RNA distribution based on asymmetric bis(styryl) dyes

Maria A Ustimova; Yuri V Fedorov; Nelly S Chmelyuk; Maxim A Abakumov; Olga A Fedorova

doi:10.1016/j.saa.2022.121446

Fluorescence turn-on probes for intracellular DNA/RNA distribution based on asymmetric bis(styryl) dyes

Spectrochim Acta A Mol Biomol Spectrosc. 2022 Oct 15:279:121446. doi: 10.1016/j.saa.2022.121446. Epub 2022 May 30.

Authors

Maria A Ustimova¹, Yuri V Fedorov², Nelly S Chmelyuk³, Maxim A Abakumov³, Olga A Fedorova⁴

Affiliations

¹ Laboratory of Photoactive Supramolecular Systems, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, 119991 Moscow, Russia. Electronic address: ustimova.maria@yandex.ru.
² Laboratory of Photoactive Supramolecular Systems, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, 119991 Moscow, Russia.
³ Department of Medical Nanobiotechnoilogy, Pirogov Russian National Research Medical University, Ostrovityanova str. 1, 117997 Moscow, Russia.
⁴ Laboratory of Photoactive Supramolecular Systems, A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, Vavilova St. 28, 119991 Moscow, Russia. Electronic address: fedorova@ineos.ac.ru.

PMID: 35667137
DOI: 10.1016/j.saa.2022.121446

Abstract

Two bis(styryl) dyes, varying in type of spacer between two mono(styryl) units, were tested for interactions with ct-DNA or cl-RNA. Both compounds showed strong affinity toward ds-DNA/ss-RNA, the binding mode of the interaction is shifting between DNA groove binding to RNA intercalation. Consequently, interaction with DNA shows a stronger flare-up of fluorescence (151 times for dye 1 and 118 times for dye 2) than when binding with RNA (23 times and 36 times correspondingly). The presence of energy transfer in the bis(styryl) system increases the Stokes shift of the dye, so when irradiating the system in the region of 370-380 nm, fluorescence is detected at 610-620 nm. The biological experiments showed that the efficient intracellular fluorescence quench was observed in the DNase digest test suggested that dyes can be applied by recognition of DNA in the presence of RNA molecules.

Keywords: Bis(styryl) dye; DNA; FRET; Fluorescence probe; RNA.

MeSH terms

DNA / chemistry
Fluorescence
Fluorescent Dyes* / chemistry
RNA*

Substances

Fluorescent Dyes
RNA
DNA