Large-Stokes-shift-based folded DNA probing systems targeting DNA and miRNA 21 with signal amplification

Bioorganic & Medicinal Chemistry
Binh Huy LeYoung Jun Seo

Abstract

Large-Stokes-shift based simple folded DNA probing system (LSFP) had a simple folded DNA structure and exhibited a large Stokes-shifted (194 nm) fluorescence signal upon excitation at a single wavelength (386 nm). This Stokes shift was achieved through a simple combination of donor and acceptor fluorophores and employing multi-FRET systematically. This unique large Stokes-shifted fluorescence signal was used to detect target DNA with large increases in the fluorescence signal (9.7-14.2 fold). This LSFP exhibited enough selectivity, distinguishing a perfectly matched sequence from the probe itself and mismatched sequences. Surprisingly, when DSN was used for signal amplification with miR21P probing system whose target is miRNA 21, it showed high sensitivity (13.7 aM) and selectivity (one base mismatch discrimination). This system has several advantages over other molecular beacons (MBs): (i) it is easy to design and synthesize the probing system that does not require the construction of a finely designed stem and loop, as in most MBs (this can prevent the degradation of miR21P itself by DSN enzyme without special backbone modification); (ii) it can control unique fluorescence, such as large Stokes-shifted fluorescence through a ...Continue Reading

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Citations

Feb 19, 2020·Chemical Communications : Chem Comm·Van Thang NguyenYoung Jun Seo
Aug 3, 2020·Bioorganic & Medicinal Chemistry Letters·Moon Hyeok ChoiYoung Jun Seo
Aug 18, 2021·Analytica Chimica Acta·Moon Hyeok Choi, Young Jun Seo

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