Bulk and Single-Molecule Characterization of an Improved Molecular Beacon Utilizing H-Dimer Excitonic Behavior Export

@article{citeulike:1429574, abstract = {Abstract: Pairs of fluorophores in close proximity often show self-quenching of fluorescence by the well-known H-dimer mechanism. We use a pair of fluorophores in the new dicyanomethylenedihydrofuran (DCDHF) dye family in the design and characterization of a new fluorescent probe for nucleic acid detection, which we refer to as a self-quenched intramolecular dimer (SQuID) molecular beacon (MB). We obtain a quenching efficiency of 97.2\%, higher than the only other reported value for a MB employing fluorophore self-quenching by H-dimer formation. Furthermore, the excellent single-molecule (SM) emitter characteristics of the DCDHF dyes allow observation of individual SQuID MB-target complexes immobilized on a surface, where the doubled SM emission intensity of our target-bound beacon ensures a higher signal-to-background ratio than conventional fluorophore-quencher MBs. Additional advantages of the SQuID MB are single-pot labeling, visible colorimetric detection of the target, and intrinsic single-molecule two-step photobleaching behavior, which offers a specific means of discriminating between functional MBs and spurious fluorescence.}, address = {Department of Chemistry, Stanford University, Stanford, California 94305, and Department of Chemistry, Kent State University, Kent, Ohio 44242}, author = {Conley, Nicholas R. and Pomerantz, Andrea K. and Wang, Hui and Twieg, Robert J. and Moerner, W. E.}, citeulike-article-id = {1429574}, citeulike-linkout-0 = {http://dx.doi.org/10.1021/jp073310d}, citeulike-linkout-1 = {http://pubs.acs.org/doi/abs/10.1021/jp073310d}, day = {21}, doi = {10.1021/jp073310d}, issn = {1520-5207}, journal = {The Journal of Physical Chemistry B}, keywords = {dcdhf, dna, readout, sms}, month = {July}, number = {28}, pages = {7929--7931}, posted-at = {2007-07-02 23:14:24}, priority = {0}, title = {Bulk and Single-Molecule Characterization of an Improved Molecular Beacon Utilizing H-Dimer Excitonic Behavior}, url = {http://dx.doi.org/10.1021/jp073310d}, volume = {111}, year = {2007} }

TY - JOUR ID - citeulike:1429574 L3 - citeulike-article-id:1429574 N2 - Abstract: Pairs of fluorophores in close proximity often show self-quenching of fluorescence by the well-known H-dimer mechanism. We use a pair of fluorophores in the new dicyanomethylenedihydrofuran (DCDHF) dye family in the design and characterization of a new fluorescent probe for nucleic acid detection, which we refer to as a self-quenched intramolecular dimer (SQuID) molecular beacon (MB). We obtain a quenching efficiency of 97.2%, higher than the only other reported value for a MB employing fluorophore self-quenching by H-dimer formation. Furthermore, the excellent single-molecule (SM) emitter characteristics of the DCDHF dyes allow observation of individual SQuID MB-target complexes immobilized on a surface, where the doubled SM emission intensity of our target-bound beacon ensures a higher signal-to-background ratio than conventional fluorophore-quencher MBs. Additional advantages of the SQuID MB are single-pot labeling, visible colorimetric detection of the target, and intrinsic single-molecule two-step photobleaching behavior, which offers a specific means of discriminating between functional MBs and spurious fluorescence. IS - 28 JF - The Journal of Physical Chemistry B SN - 1520-5207 AD - Department of Chemistry, Stanford University, Stanford, California 94305, and Department of Chemistry, Kent State University, Kent, Ohio 44242 EP - 7931 TI - Bulk and Single-Molecule Characterization of an Improved Molecular Beacon Utilizing H-Dimer Excitonic Behavior VL - 111 SP - 7929 KW - dcdhf KW - dna KW - readout KW - sms AU - Conley, Nicholas AU - Pomerantz, Andrea AU - Wang, Hui AU - Twieg, Robert AU - Moerner, WE PY - 2007/07/21/ UR - http://dx.doi.org/10.1021/jp073310d ER -