Fluorescent responsive molecular probes for oligonucleotides detection

CHED 1465

Angel A. Marti, aam2127@columbia.edu and Nicholas J. Turro, njt3@columbia.edu. Department of Chemistry, Columbia University, 3000 Broadway, New York, NY 10027
An exquisite variety of probes have been designed and synthesized with the purpose of detecting oligonucleotides and polynucleotides in vivo and in vitro. Among them, molecular beacons (MBs) and binary probes (BPs) have shown particular applicability to specific problems such as mRNA tracking, single nucleotide polymorphism, and polymerase chain reaction quantization among others. MBs are hairpin oligonucleotide probes, which contain a fluorophore and a quencher and that change their fluorescent properties upon binding to its target. BPs, on the other hand, consist of two fluorophore containing oligonucleotide strands that hybridize to adjacent regions of a target sequence favoring energy transfer between the adjacent fluorophores. These probes have been extensively studied and modified to enhance their detection characteristics using different dye combination, three-dye arrays, excimer forming molecules, and metal complexes. Here, we discuss the design, applicability and advantages of these probes for the detection and tracing of oligonuclotides in vivo and in vitro.