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The Chemical Basis of RNA Epigenetics

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Publications

Active turnover of genomic methylcytosine in pluripotent cells

Author(s): Fabio Spada, Sarah Schiffers, Angie Kirchner, Yingqian Zhang, Gautier Arista, Olesea Kosmatchev, Eva Korytiakova, René Rahimoff, Charlotte Ebert, Thomas Carell
Published in: Nature Chemical Biology, 16/12, 2020, Page(s) 1411-1419, ISSN 1552-4450
Publisher: Nature Publishing Group
DOI: 10.1038/s41589-020-0621-y

Epigenetic Anti-Cancer Treatment With a Stabilized Carbocyclic Decitabine Analogue

Author(s): Franziska R. Traube, Natércia F. Brás, Dr. Wynand P. Roos, Corinna C. Sommermann, Tamara Diehl, Robert J. Mayer, Armin R. Ofial, Markus Müller, Hendrik Zipse, Thomas Carell
Published in: Chemistry - A European Journal, Early View, 2022, Page(s) e202200640, ISSN 1521-3765
Publisher: Wiley-VCH
DOI: 10.1002/chem.202200640

Synthesis and structure elucidation of the human tRNA nucleoside mannosyl-queuosine

Author(s): Markus Hillmeier, Mirko Wagner, Timm Ensfelder, Eva Korytiakova, Peter Thumbs, Markus Müller, Thomas Carell
Published in: Nature Communications, 12, 2021, Page(s) 7123, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-021-27371-9

5-Hydroxymethyl-, 5-Formyl- and 5-Carboxydeoxycytidines as Oxidative Lesions and Epigenetic Marks

Author(s): Florian Schelter, Angie Kirchner, Franziska R. Traube, Markus Müller, Wolfgang Steglich, Thomas Carell
Published in: Chemistry - A European Journal, 27, 2021, Page(s) 8100-8104, ISSN 1521-3765
Publisher: Wiley-VCH
DOI: 10.1002/chem.202100551

Intragenomic decarboxylation of 5-carboxy-2’-deoxycytidine

Author(s): Ewelina Kaminska; Eva Korytiaková; Andreas Reichl; Markus Müller; Thomas Carell
Published in: Angewandte Chemie (International Ed. in English), 60, 2021, Page(s) 23207-23211, ISSN 1521-3773
Publisher: Wiley-VCH
DOI: 10.1002/anie.202109995

Redirected nuclear glutamate dehydrogenase supplies Tet3 with α-ketoglutarate in neurons

Author(s): Franziska R. Traube, Dilara Özdemir, Hanife Sahin, Constanze Scheel, Andrea F. Glück, Anna S. Geserich, Sabine Oganesian, Sarantos Kostidis, Katharina Iwan, René Rahimoff, Grazia Giorgio, Markus Müller, Fabio Spada, Martin Biel, Jürgen Cox, Martin Giera, Stylianos Michalakis, Thomas Carell
Published in: Nature Communications, 12, 2021, Page(s) 4100, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-021-24353-9

Comparative nucleosomal reactivity of 5-formyl-uridine and 5-formyl-cytidine

Author(s): Leander Simon Runtsch; Michael Stadlmeier; Alexander Schön; Markus Müller; Thomas Carell
Published in: Chemistry (Weinheim an Der Bergstrasse, Germany), 27, 2021, Page(s) 12747-12752, ISSN 1521-3765
Publisher: Wiley-VCH
DOI: 10.1002/chem.202102159

Impact of 5-formylcytosine on the melting kinetics of DNA by 1H NMR chemical exchange

Author(s): Romeo C A Dubini, Alexander Schön, Markus Müller, Thomas Carell, and Petra Rovó
Published in: Nucleic Acids Research, 48, 2020, Page(s) 8796-8807, ISSN 1362-4962
Publisher: Oxford University Press
DOI: 10.1093/nar/gkaa589

Wet-dry cycles enable the parallel origin of canonical and non-canonical nucleosides by continuous synthesis

Author(s): Sidney Becker, Christina Schneider, Hidenori Okamura, Antony Crisp, Tynchtyk Amatov, Milan Dejmek, Thomas Carell
Published in: Nature Communications, 9/1, 2018, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-017-02639-1

Noncanonical RNA Nucleosides as Molecular Fossils of an Early Earth-Generation by Prebiotic Methylations and Carbamoylations

Author(s): Christina Schneider, Sidney Becker, Hidenori Okamura, Antony Crisp, Tynchtyk Amatov, Michael Stadlmeier, Thomas Carell
Published in: Angewandte Chemie International Edition, 57/20, 2018, Page(s) 5943-5946, ISSN 1433-7851
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201801919

Non-canonical nucleosides and chemistry of the emergence of life

Author(s): Sidney Becker, Christina Schneider, Antony Crisp, Thomas Carell
Published in: Nature Communications, 9/1, 2018, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-018-07222-w

5-Formylcytosine to cytosine conversion by C–C bond cleavage in vivo

Author(s): Katharina Iwan, René Rahimoff, Angie Kirchner, Fabio Spada, Arne S Schröder, Olesea Kosmatchev, Shqiponja Ferizaj, Jessica Steinbacher, Edris Parsa, Markus Müller, Thomas Carell
Published in: Nature Chemical Biology, 14/1, 2018, Page(s) 72-78, ISSN 1552-4450
Publisher: Nature Publishing Group
DOI: 10.1038/nchembio.2531

A one-pot, water compatible synthesis of pyrimidine nucleobases under plausible prebiotic conditions

Author(s): Hidenori Okamura, Sidney Becker, Niklas Tiede, Stefan Wiedemann, Jonas Feldmann, Thomas Carell
Published in: Chemical Communications, 55/13, 2019, Page(s) 1939-1942, ISSN 1359-7345
Publisher: Royal Society of Chemistry
DOI: 10.1039/c8cc09435g

Super-sensitive multi-fluorophore RNA-FISH for early virus detection and flow-FISH using click chemistry

Author(s): Nada Raddaoui, Stefano Groce, Florian Geiger, Alexander Borodavka, Leonhard Möckl, Samuele Stazzoni, Bastien Viverge, Christoph Bräuchle, Thomas Frischmuth, Hanna Engelke, Thomas Carell
Published in: ChemBioChem, 18.03.2020, 2020, ISSN 1439-4227
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/cbic.202000081

Synthesis and Incorporation of k 2 U into RNA

Author(s): Milda Nainyte, Thomas Carell
Published in: Helvetica Chimica Acta, 103/3, 2020, ISSN 0018-019X
Publisher: Verlag Helvetica Chimica Acta
DOI: 10.1002/hlca.202000016

TLR8 Is a Sensor of RNase T2 Degradation Products

Author(s): Wilhelm Greulich, Mirko Wagner, Moritz M. Gaidt, Che Stafford, Yiming Cheng, Andreas Linder, Thomas Carell, Veit Hornung
Published in: Cell, 179/6, 2019, Page(s) 1264-1275.e13, ISSN 0092-8674
Publisher: Cell Press
DOI: 10.1016/j.cell.2019.11.001

A Click‐Chemistry Linked 2′3′‐cGAMP Analogue

Author(s): Clemens Reto Dialer, Samuele Stazzoni, David Jan Drexler, Felix Moritz Müller, Simon Veth, Alexander Pichler, Hidenori Okamura, Gregor Witte, Karl‐Peter Hopfner, Thomas Carell
Published in: Chemistry – A European Journal, 25/8, 2019, Page(s) 2089-2095, ISSN 0947-6539
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/chem.201805409

Proto‐Urea‐RNA (Wöhler RNA) Containing Unusually Stable Urea Nucleosides

Author(s): Hidenori Okamura, Antony Crisp, Sarah Hübner, Sidney Becker, Petra Rovó, Thomas Carell
Published in: Angewandte Chemie International Edition, 58/51, 2019, Page(s) 18691-18696, ISSN 1433-7851
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201911746

A Click‐Chemistry‐Based Enrichable Crosslinker for Structural and Protein Interaction Analysis by Mass Spectrometry

Author(s): Michael Stadlmeier, Leander Simon Runtsch, Filipp Streshnev, Martin Wühr, Thomas Carell
Published in: ChemBioChem, 21/1-2, 2019, Page(s) 103-107, ISSN 1439-4227
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/cbic.201900611

Influencing Epigenetic Information with a Hydrolytically Stable Carbocyclic 5‐Aza‐2′‐deoxycytidine

Author(s): Thomas M. Wildenhof, Sarah Schiffers, Franziska R. Traube, Peter Mayer, Thomas Carell
Published in: Angewandte Chemie International Edition, 58/37, 2019, Page(s) 12984-12987, ISSN 1433-7851
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201904794

ALKBH5-induced demethylation of mono- and dimethylated adenosine

Author(s): Timm T. Ensfelder, Matthias Q. Kurz, Katharina Iwan, Simon Geiger, Sarah Matheisl, Markus Müller, Roland Beckmann, Thomas Carell
Published in: Chemical Communications, 54/62, 2018, Page(s) 8591-8593, ISSN 1359-7345
Publisher: Royal Society of Chemistry
DOI: 10.1039/c8cc03980a

Synthesis of an acp 3 U phosphoramidite and incorporation of the hypermodified base into RNA

Author(s): Milda Nainytė, Tynchtyk Amatov, Thomas Carell
Published in: Chemical Communications, 55/81, 2019, Page(s) 12216-12218, ISSN 1359-7345
Publisher: Royal Society of Chemistry
DOI: 10.1039/c9cc06314e

Synthesis of galactosyl‐queuosine and distribution of hypermodified Q‐nucleosides in mouse tissues

Author(s): Peter Thumbs, Timm T. Ensfelder, Markus Hillmeier, Mirko Wagner, Matthias Heiss, Constanze Scheel, Alexander Schön, Markus Müller, Stylianos Michalakis, Stefanie Kellner, Thomas Carell
Published in: Angewandte Chemie International Edition, 11.03.2020, 2020, ISSN 1433-7851
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/anie.202002295

Analysis of an Active Deformylation Mechanism of 5‐Formyl‐deoxycytidine (fdC) in Stem Cells

Author(s): Alexander Schön, Ewelina Kaminska, Florian Schelter, Eveliina Ponkkonen, Eva Korytiaková, Sarah Schiffers, Thomas Carell
Published in: Angewandte Chemie International Edition, 59/14, 2020, Page(s) 5591-5594, ISSN 1433-7851
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/anie.202000414

Unified prebiotically plausible synthesis of pyrimidine and purine RNA ribonucleotides

Author(s): Sidney Becker, Jonas Feldmann, Stefan Wiedemann, Hidenori Okamura, Christina Schneider, Katharina Iwan, Antony Crisp, Martin Rossa, Tynchtyk Amatov, Thomas Carell
Published in: Science, 366/6461, 2019, Page(s) 76-82, ISSN 0036-8075
Publisher: American Association for the Advancement of Science
DOI: 10.1126/science.aax2747

Deformylation of 5-Formylcytidine in Different Cell Types.

Author(s): Eva Korytiaková; Ewelina Kaminska; Markus Müller; Thomas Carell
Published in: Angewandte Chemie (International Ed. in English), 60, 2021, Page(s) 16869-16873, ISSN 1521-3773
Publisher: Wiley-VCH
DOI: 10.1002/anie.202107089