@article{FudickarBauchIhmelsetal.2021,
  author    = {Fudickar, Werner and Bauch, Marcel and Ihmels, Heiko and Linker, Torsten},
  title     = {DNA-triggered enhancement of singlet oxygen production by pyridinium alkynylanthracenes},
  series = {Chemistry - a European journal},
  volume    = {27},
  journal   = {Chemistry - a European journal},
  number    = {54},
  publisher = {Wiley-VCH},
  address   = {Weinheim},
  issn      = {1521-3765},
  doi       = {10.1002/chem.202101918},
  pages     = {13591 -- 13604},
  year      = {2021},
  abstract  = {There is an ongoing interest in O-1(2) sensitizers, whose activity is selectively controlled by their interaction with DNA. To this end, we synthesized three isomeric pyridinium alkynylanthracenes 2 o-p and a water-soluble trapping reagent for O-1(2). In water and in the absence of DNA, these dyes show a poor efficiency to sensitize the photooxygenation of the trapping reagent as they decompose due to electron transfer processes. In contrast, in the presence of DNA O-1(2) is generated from the excited DNA-bound ligand. The interactions of 2 o-p with DNA were investigated by thermal DNA melting studies, UV/vis and fluorescence spectroscopy, and linear and circular dichroism spectroscopy. Our studies revealed an intercalative binding with an orientation of the long pyridyl-alkynyl axis parallel to the main axis of the DNA base pairs. In the presence of poly(dA : dT), all three isomers show an enhanced formation of singlet oxygen, as indicated by the reaction of the latter with the trapping reagent. With green light irradiation of isomer 2 o in poly(dA : dT), the conversion rate of the trapping reagent is enhanced by a factor >10. The formation of O-1(2) was confirmed by control experiments under anaerobic conditions, in deuterated solvents, or by addition of O-1(2) quenchers. When bound to poly(dG : dC), the opposite effect was observed only for isomers 2 o and 2 m, namely the trapping reagent reacted significantly slower. Overall, we showed that pyridinium alkynylanthracenes are very useful intercalators, that exhibit an enhanced photochemical O-1(2) generation in the DNA-bound state.},
  language  = {en}
}
@article{KasyanenkoUnksovBakulevetal.2018,
  author    = {Kasyanenko, Nina and Unksov, Ivan and Bakulev, Vladimir and Santer, Svetlana},
  title     = {DNA interaction with head-to-tail associates of cationic surfactants prevents formation of compact particles},
  series = {Molecules},
  volume    = {23},
  journal   = {Molecules},
  number    = {7},
  publisher = {MDPI},
  address   = {Basel},
  issn      = {1420-3049},
  doi       = {10.3390/molecules23071576},
  pages     = {14},
  year      = {2018},
  abstract  = {Cationic azobenzene-containing surfactants are capable of condensing DNA in solution with formation of nanosized particles that can be employed in gene delivery. The ratio of surfactant/DNA concentration and solution ionic strength determines the result of DNA-surfactant interaction: Complexes with a micelle-like surfactant associates on DNA, which induces DNA shrinkage, DNA precipitation or DNA condensation with the emergence of nanosized particles. UV and fluorescence spectroscopy, low gradient viscometry and flow birefringence methods were employed to investigate DNA-surfactant and surfactant-surfactant interaction at different NaCl concentrations, [NaCl]. It was observed that [NaCl] (or the Debye screening radius) determines the surfactant-surfactant interaction in solutions without DNA. Monomers, micelles and non-micellar associates of azobenzene-containing surfactants with head-to-tail orientation of molecules were distinguished due to the features of their absorption spectra. The novel data enabled us to conclude that exactly the type of associates (together with the concentration of components) determines the result of DNA-surfactant interaction. Predomination of head-to-tail associates at 0.01 M < [NaCl] < 0.5 M induces DNA aggregation and in some cases DNA precipitation. High NaCl concentration (higher than 0.8 M) prevents electrostatic attraction of surfactants to DNA phosphates for complex formation. DAPI dye luminescence in solutions with DNA-surfactant complexes shows that surfactant tails overlap the DNA minor groove. The addition of di- and trivalent metal ions before and after the surfactant binding to DNA indicate that the bound surfactant molecules are located on DNA in islets.},
  language  = {en}
}
@phdthesis{Vogel2018,
  author    = {Vogel, Stefanie},
  title     = {Sequence dependency of photon and electron induced DNA strand breaks},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-419669},
  school      = {Universit{\"a}t Potsdam},
  pages     = {xii, 117},
  year      = {2018},
  abstract  = {Deoxyribonucleic acid (DNA) is the carrier of human genetic information and is exposed to environmental influences such as the ultraviolet (UV) fraction of sunlight every day. The photostability of the DNA against UV light is astonishing. Even if the DNA bases have a strong absorption maximum at around 260 nm/4.77 eV, their quantum yield of photoproducts remains very low 1. If the photon energies exceed the ionization energy (IE) of the nucleobases ( ̴ 8-9 eV) 2, the DNA can be severely damaged. Photoexcitation and -ionization reactions occur, which can induce strand breaks in the DNA. The efficiency of the excitation and ionization induced strand breaks in the target DNA sequences are represented by cross sections. If Si as a substrate material is used in the VUV irradiation experiments, secondary electrons with an energy below 3.6 eV are generated from the substrate. This low energy electrons (LEE) are known to induce dissociative electron attachment (DEA) in DNA and with it DNA strand breakage very efficiently. LEEs play an important role in cancer radiation therapy, since they are generated secondarily along the radiation track of ionizing radiation. In the framework of this thesis, different single stranded DNA sequences were irradiated with 8.44 eV vacuum UV (VUV) light and cross sections for single strand breaks (SSB) were determined. Several sequences were also exposed to secondary LEEs, which additionally contributed to the SSBs. First, the cross sections for SSBs depending on the type of nucleobases were determined. Both types of DNA sequences, mono-nucleobase and mixed sequences showed very similar results upon VUV radiation. The additional influence of secondarily generated LEEs resulted in contrast in a clear trend for the SSB cross sections. In this, the polythymine sequence had the highest cross section for SSBs, which can be explained by strong anionic resonances in this energy range. Furthermore, SSB cross sections were determined as a function of sequence length. This resulted in an increase in the strand breaks to the same extent as the increase in the geometrical cross section. The longest DNA sequence (20 nucleotides) investigated in this series, however, showed smaller cross section values for SSBs, which can be explained by conformational changes in the DNA. Moreover, several DNA sequences that included the radiosensitizers 5-Bromouracil (5BrU) and 8-Bromoadenine (8BrA) were investigated and the corresponding SSB cross sections were determined. It was shown that 5BrU reacts very strongly to VUV radiation leading to high strand break yields, which showed in turn a strong sequence-dependency. 8BrA, on the other hand, showed no sensitization to the applied VUV radiation, since almost no increase in strand breakage yield was observed in comparison to non-modified DNA sequences. In order to be able to identify the mechanisms of radiation damage by photons, the IEs of certain DNA sequences were further explored using photoionization tandem mass spectrometry. By varying the DNA sequence, both the IEs depending on the type of nucleobase as well as on the DNA strand length could be identified and correlated to the SSB cross sections. The influence of the IE on the photoinduced reaction in the brominated DNA sequences could be excluded.},
  language  = {en}
}
@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}
}
@phdthesis{Schueler2000,
  author    = {Sch{\"u}ler, Corinna},
  title     = {Mikro- und Nanokapseln aus Funktionspolymeren, Biopolymeren und Proteinen},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-0000102},
  school      = {Universit{\"a}t Potsdam},
  year      = {2000},
  abstract  = {In dieser Arbeit wird die Beschichtung von kolloidalen Templaten mit Hilfe der Layer-by-layer Technik beschrieben. Mit ihr ist es m{\"o}glich, die Oberfl{\"a}che der Template mit sehr d{\"u}nnen und gut definierten Filmen zu versehen. Durch Aufl{\"o}sung der Template werden Kapseln hergestellt, die je nach Zusammensetzung der Beschichtung unterschiedliche Eigenschaften aufweisen.},
  language  = {de}
}