@unpublished{HoebartnerSteinmetzgerPalanisamyetal.2018,
  author    = {H{\"o}bartner, Claudia and Steinmetzger, Christian and Palanisamy, Navaneethan and Gore, Kiran R.},
  title     = {A multicolor large Stokes shift fluorogen-activating RNA aptamer with cationic chromophores},
  series = {Chemistry - A European Journal},
  journal   = {Chemistry - A European Journal},
  doi       = {https://doi.org/10.1002/chem.201805882},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-174197},
  year      = {2018},
  abstract  = {Large Stokes shift (LSS) fluorescent proteins (FPs) exploit excited state proton transfer pathways to enable fluorescence emission from the phenolate intermediate of their internal 4 hydroxybenzylidene imidazolone (HBI) chromophore. An RNA aptamer named Chili mimics LSS FPs by inducing highly Stokes-shifted emission from several new green and red HBI analogs that are non-fluorescent when free in solution. The ligands are bound by the RNA in their protonated phenol form and feature a cationic aromatic side chain for increased RNA affinity and reduced magnesium dependence. In combination with oxidative functional-ization at the C2 position of the imidazolone, this strategy yielded DMHBO\(^+\), which binds to the Chili aptamer with a low-nanomolar K\(_D\). Because of its highly red-shifted fluorescence emission at 592 nm, the Chili-DMHBO\(^+\) complex is an ideal fluorescence donor for F{\"o}rster resonance energy transfer (FRET) to the rhodamine dye Atto 590 and will therefore find applications in FRET-based analytical RNA systems.},
  language  = {en}
}
@unpublished{SednevMykhailiukChoudhuryetal.2018,
  author    = {Sednev, Maksim V. and Mykhailiuk, Volodymyr and Choudhury, Priyanka and Halang, Julia and Sloan, Katherine E. and Bohnsack, Markus T. and H{\"o}bartner, Claudia},
  title     = {N\(^6\)-methyladenosine-sensitive RNA-cleaving deoxyribozymes},
  series = {Angewandte Chemie, International Edition},
  journal   = {Angewandte Chemie, International Edition},
  doi       = {https://doi.org/10.1002/anie.201808745},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-171753},
  year      = {2018},
  abstract  = {Deoxyribozymes are synthetic enzymes made of DNA that can catalyze the cleavage or formation of phosphodiester bonds and are useful tools for RNA biochemistry. Here we report new RNA-cleaving deoxyribozymes to interrogate the methylation status of target RNAs, thereby providing an alternative method for the biochemical validation of RNA methylation sites containing N\(^6\)-methyladenosine, which is the most wide-spread and extensively investigated natural RNA modification. Using in vitro selection from random DNA, we developed deoxyribozymes that are sensitive to the presence of N\(^6\)-methyladenosine in RNA near the cleavage site. One class of these DNA enzymes shows faster cleavage of methylated RNA, while others are strongly inhibited by the modified nucleotide. The general applicability of the new deoxyribozymes is demonstrated for several examples of natural RNA sequences, including a lncRNA and a set of C/D box snoRNAs, which have been suggested to contain m\(^6\)A as a regulatory element that influences RNA folding and protein binding.},
  language  = {en}
}