title: A Rotational BODIPY Nucleotide: An Environment-Sensitive Fluorescence-Lifetime Probe for DNA Interactions and Applications in Live-Cell Microscopy.
abstract: Fluorescent probes for detecting the physical properties of cellular structures have become valuable tools in life sciences. The fluorescence lifetime of molecular rotors can be used to report on variations in local molecular packing or viscosity. We used a nucleoside linked to a meso-substituted BODIPY fluorescent molecular rotor (dC(bdp)) to sense changes in DNA microenvironment both in vitro and in living cells. DNA incorporating dC(bdp) can respond to interactions with DNA-binding proteins and lipids by changes in the fluorescence lifetimes in the range 0.5-2.2 ns. We can directly visualize changes in the local environment of exogenous DNA during transfection of living cells. Relatively long fluorescence lifetimes and extensive contrast for detecting changes in the microenvironment together with good photostability and versatility for DNA synthesis make this probe suitable for analysis of DNA-associated processes, cellular structures, and also DNA-based nanomaterials.
authors.affiliation: Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Gilead Sciences & IOCB Research Center, Flemingovo nam. 2, 16610 Prague 6 (Czech Republic) http://www.uochb.cas.cz/hocekgroup.
authors.forename: Dmytro
authors.initials: D
authors.lastname: Dziuba
authors.affiliation: J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, v.v.i., Dolejskova 3, 18223 Prague 8 (Czech Republic) http://www.hof-fluorescence-group.weebly.com/
authors.forename: Piotr
authors.initials: P
authors.lastname: Jurkiewicz
authors.affiliation: J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, v.v.i., Dolejskova 3, 18223 Prague 8 (Czech Republic) http://www.hof-fluorescence-group.weebly.com/
authors.forename: Marek
authors.initials: M
authors.lastname: Cebecauer
authors.affiliation: J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, v.v.i., Dolejskova 3, 18223 Prague 8 (Czech Republic) http://www.hof-fluorescence-group.weebly.com/. martin.hof@jh-inst.cas.cz.
authors.forename: Martin
authors.initials: M
authors.lastname: Hof
authors.affiliation: Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Gilead Sciences & IOCB Research Center, Flemingovo nam. 2, 16610 Prague 6 (Czech Republic) http://www.uochb.cas.cz/hocekgroup. hocek@uochb.cas.cz.|Department of Organic Chemistry, Faculty of Science, Charles University in Prague, Hlavova 8, 12843 Prague 2 (Czech Republic). hocek@uochb.cas.cz.
authors.forename: Michal
authors.initials: M
authors.lastname: Hocek
mesh_terms: D001896:Boron Compounds / Q000737:chemistry*; D004247:DNA / Q000138:chemical synthesis / Q000737:chemistry*; D005453:Fluorescence; D005456:Fluorescent Dyes / Q000737:chemistry*; D006367:HeLa Cells; D006801:Humans; D018613:Microscopy, Confocal / Q000379:methods*; D049329:Nanostructures / Q000737:chemistry; D009711:Nucleotides / Q000737:chemistry*; D012399:Rotation
chemical_list: C095489:4,4-difluoro-4-bora-3a,4a-diaza-s-indacene; D001896:Boron Compounds; D005456:Fluorescent Dyes; D009711:Nucleotides; D004247:DNA
keywords: DNA; fluorescence spectroscopy; fluorescent probes; nucleosides; time-resolved spectroscopy