@article{KienzlerFlehrGehneetal.2012,
  author    = {Kienzler, Andrea Altevogt Nee and Flehr, Roman and Gehne, S{\"o}ren and Kumke, Michael Uwe and Bannwarth, Willi},
  title     = {Verification and biophysical characterization of a New Three-Color Forster Resonance-Energy-Transfer (FRET) System in DNA},
  series = {Helvetica chimica acta},
  volume    = {95},
  journal   = {Helvetica chimica acta},
  number    = {4},
  publisher = {Wiley-VCH},
  address   = {Weinheim},
  issn      = {0018-019X},
  doi       = {10.1002/hlca.201100460},
  pages     = {543 -- 555},
  year      = {2012},
  abstract  = {We report on a new three-color FRET system consisting of three fluorescent dyes, i.e., of a carbostyril (=quinolin-2(1H)-one)-derived donor D, a (bathophenanthroline)ruthenium complex as a relay chromophore A1, and a Cy dye as A2 (FRET=Forster resonance-energy-transfer) (cf. Fig. 1). With their widely matching spectroscopic properties (cf. Fig. 2), the combination of these dyes yielded excellent FRET efficiencies. Furthermore, fluorescence lifetime measurements revealed that the long fluorescence lifetime of the Ru complex was transferred to the Cy dye offering the possibility to measure the whole system in a time-resolved mode. The FRET system was established on double-stranded DNA (cf. Fig. 3) but it should also be generally applicable to other biomolecules.},
  language  = {en}
}
@article{KienzlerFlehrKrameretal.2011,
  author    = {Kienzler, Andrea and Flehr, Roman and Kramer, Rolf A. and Gehne, Soeren and Kumke, Michael Uwe and Bannwarth, Willi},
  title     = {Novel Three-Color FRET Tool Box for Advanced Protein and DNA Analysis},
  series = {Bioconjugate chemistry},
  volume    = {22},
  journal   = {Bioconjugate chemistry},
  number    = {9},
  publisher = {American Chemical Society},
  address   = {Washington},
  issn      = {1043-1802},
  doi       = {10.1021/bc2002659},
  pages     = {1852 -- 1863},
  year      = {2011},
  abstract  = {We report on a new three-color FRET system which we were able to verify in peptides as well as in synthetic DNA. All three chromophores could be introduced by a building block approach avoiding postsynthetic labeling. Additional features are robustness, matching spectroscopic properties, high-energy transfer, and sensitivity. The system was investigated in detail on a set of peptides as well as an array of tailored oligonucleotides. The detailed analysis of the experimental data and comparison with theoretical considerations were in excellent agreement. It is shown that in the case of polypeptides specific interaction with the fluorescence probes has to be considered. In contrast with DNA, the fluorescence probes did not show any indications of such interactions. The novel three-color FRET toolbox revealed the potential for applications studying fundamental processes of three interacting molecules in life science applications.},
  language  = {en}
}
@article{GehneFlehrKienzleretal.2012,
  author    = {Gehne, S{\"o}ren and Flehr, Roman and Kienzler, Andrea Altevogt Nee and Berg, Maik and Bannwarth, Willi and Kumke, Michael Uwe},
  title     = {Dye dynamics in three-color FRET samples},
  series = {The journal of physical chemistry : B, Condensed matter, materials, surfaces, interfaces \& biophysical chemistry},
  volume    = {116},
  journal   = {The journal of physical chemistry : B, Condensed matter, materials, surfaces, interfaces \& biophysical chemistry},
  number    = {35},
  publisher = {American Chemical Society},
  address   = {Washington},
  issn      = {1520-6106},
  doi       = {10.1021/jp3064273},
  pages     = {10798 -- 10806},
  year      = {2012},
  abstract  = {Time-resolved emission data (fluorescence decay and fluorescence depolarization) of two three-color Forster resonance energy transfer (tc-FRET) systems consisting of a carbostyril donor (D), a ruthenium complex (Ru) as relay dye, and a Cy5 derivative (Cy) or, optionally, an anthraquinone quencher (Q) were carefully analyzed using advanced distribution analysis models. Thereby, it is possible to get information on the flexibility and mobility of the chromophores which are bound to double stranded (ds) DNA. Especially the distance distribution based on the analysis of the fluorescence depolarization is an attractive approach to complement data of fluorescence decay time analysis. The distance distributions extracted from the experimental data were in excellent agreement with those determined from accessible volume (AV) simulations. Moreover, the study showed that for tc-FRET systems the combination of dyes emitting on different time scales (e.g., nanoseconds vs microseconds) is highly beneficial in the distribution analysis of time-resolved luminescence data in cases where macromolecules such as DNA are involved. Here, the short lifetimes can yield information on the rotation of the dye molecule itself and the long lifetime can give insight in the overall dynamics of the macromolecule.},
  language  = {en}
}