DNA intercalating dye

Wang S, Gaylord BS, Bazan GC (2004) Fluorescein provides a resonance gate for FRET from conjugated polymers to DNA intercalated dyes. J Am Chem Soc 126 5446-51... 

To overcome the nonspecific interactions between ssDNA-C and CCP, Fan et al. introduced a magnetic microparticle assisted assay [54], which allows DNA detection in human serum with 0.1 nM sensitivity. In addition, DNA intercalating dyes were introduced for DNA detection as shown in Scheme 5. These special dyes have much higher fluorescence quantum yields upon intercalation with dsDNA relative to those in the presence of ssDNA or in their free states. As a result, when complementary ssDNA strands (target and probe) are present, the intercalating dye... 

A.R. Bahrami, M.J. Dickman, M.M. Matin, J.R. Ashby, P.E. Brown, M.J. Conroy, G.J.S. Fowler, J.P. Rose, Q.I. Sheikh, A.T. Yeung and D.P. Hornby, Use of fluorescent DNA-intercalating dyes in the analysis of DNA via ion-pair reversed-phase denaturing high-performance liquid chromatography. Anal. Biochem., 309 (2002) 248-252. 

Figure 1.7. DNA-intercalating dyes (a) ethidium, (b) DAPI, and (c) Hoechst 33258.

Fluorescently labeled plasmid can be quite useful for cellular uptake and distribution studies (112). The main concern with fluorescently tagged DNA is that the presence of the dye molecules may interfere with the interactions between the DNA and the carrier, or the DNA and cellular components. Of equal importance, the binding of the dye to the DNA must be irreversible, so that the dye molecules do not dissociate from the DNA once internalized by the cell. A number of fluorescent DNA-intercalating dyes are available for DNA labeling, such as ethidium bromide, ethidium monoazide, the TO-PRO series, various other cyanine dyes, and many others (82). For example, the membrane-impermeable compound YO-YO... 

DNA intercalating dye. Suitable for quantitative analysis. Differentially stains double-stranded and single-stranded nucleic acids. 

Chi, C. Lao, Y Li, Y Chen, L. A quantum dot-aptamer beacon using a DNA intercalating dye as the FRET reporter Application to label-free thrombin detection. Biosens. Bioelectron. 2011, 26, 3346-3352. 

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