Fluorophore-Quencher Interactions Effect on Hybridization Characteristics of Complementary Oligonucleotides.

ABSTRACT: Nucleic acids are often covalently modified with fluorescent reporter molecules to create a hybridization state-dependent optical signal. Designing such a nucleic acid reporter involves selecting a fluorophore, quencher, and fluorescence quenching design. This report outlines the effect that these choices have on the DNA hybridization characteristics by examining six fluorophores in four quenching schemes: a quencher molecule offset from the fluorophore by 0, 5, or 10 bases, and nucleotide quenching. The similar binding characteristics of left-handed L-DNA were evaluated in comparison with right-handed DNA to quantify the effect of each quenching scheme. These results were applied to the Adaptive PCR method, which monitors fluorescently-labeled L-DNA as a sentinel for analogous unlabeled D

SUBMITTER: Zimmers ZA 

PROVIDER: S-EPMC7357715 | biostudies-literature | 2019 Jun

REPOSITORIES: biostudies-literature