Programmable sequence-specific click-labeling of RNA using archaeal box C/D RNP methyltransferases.

Nucleic Acids Research
Migle TomkuvieneSaulius Klimasauskas

Abstract

Biophysical and mechanistic investigation of RNA function requires site-specific incorporation of spectroscopic and chemical probes, which is difficult to achieve using current technologies. We have in vitro reconstituted a functional box C/D small ribonucleoprotein RNA 2'-O-methyltransferase (C/D RNP) from the thermophilic archaeon Pyrococcus abyssi and demonstrated its ability to transfer a prop-2-ynyl group from a synthetic cofactor analog to a series of preselected target sites in model tRNA and pre-mRNA molecules. Target selection of the RNP was programmed by changing a dodecanucleotide guide sequence in a 64-nt C/D guide RNA leading to efficient derivatization of three out of four new targets in each RNA substrate. We also show that the transferred terminal alkyne can be further appended with a fluorophore using a bioorthogonal azide-alkyne 1,3-cycloaddition (click) reaction. The described approach for the first time permits synthetically tunable sequence-specific labeling of RNA with single-nucleotide precision.

References

Mar 13, 2001·Methods : a Companion to Methods in Enzymology·B LiuM J Fournier
Aug 3, 2001·The EMBO Journal·D J KleinT A Steitz
Aug 16, 2002·The Journal of Biological Chemistry·Jutta HagerUrsula Jakob
Nov 7, 2003·Nucleic Acids Research·Marie-Line BortolinBéatrice Clouet-d'Orval
Feb 21, 2004·Biochemical and Biophysical Research Communications·Lu DengBi-Cheng Wang
Nov 4, 2004·Molecular Microbiology·Sonia M ZieschePatrick P Dennis
Nov 19, 2005·Nucleic Acids Research·Sophie NolivosBéatrice Clouet-d'Orval
Dec 31, 2005·Nucleic Acids Research·Kevin L SchneiderTodd M Lowe
Jan 13, 2006·Nature Chemical Biology·Christian DalhoffElmar Weinhold
Jan 27, 2007·Trends in Biotechnology·Saulius Klimasauskas, Elmar Weinhold
Feb 8, 2007·Nucleic Acids Research·Steve L ReichowGabriele Varani
Feb 21, 2007·Journal of the American Chemical Society·Grazvydas LukinaviciusSaulius Klimasauskas
Aug 4, 2007·Methods in Enzymology·Yuri MotorinChristiane Branlant
Jan 8, 2008·ACS Chemical Biology·Christine S ChowTek N Lamichhane
Apr 3, 2008·Angewandte Chemie·Philipp M E GramlichThomas Carell
Sep 25, 2008·Angewandte Chemie·Philipp M E GramlichThomas Carell
Mar 10, 2009·Bioconjugate Chemistry·Kazumitsu OnizukaShigeki Sasaki
Sep 12, 2009·Science·Franziska BleichertSusan J Baserga
Dec 7, 2010·Chembiochem : a European Journal of Chemical Biology·Eduardo Paredes, Subha R Das
Jan 19, 2011·Chembiochem : a European Journal of Chemical Biology·Olivier BindaOr Gozani
May 3, 2012·Chembiochem : a European Journal of Chemical Biology·Sophie WillnowElmar Weinhold

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Citations

Mar 26, 2014·Chemical Communications : Chem Comm·Josephin Marie HolsteinAndrea Rentmeister
May 16, 2014·Journal of the American Chemical Society·Lea BüttnerClaudia Höbartner
Jan 24, 2014·Nucleic Acids Research·Charlotte VrankenRobert K Neely
Feb 18, 2016·Methods : a Companion to Methods in Enzymology·Fabian Muttach, Andrea Rentmeister
Feb 13, 2016·Journal of the American Chemical Society·Anna-Winona StruckJason Micklefield
Dec 24, 2015·Angewandte Chemie·Fabian Muttach, Andrea Rentmeister
Sep 1, 2014·Current Opinion in Biotechnology·Anna K Rath, Andrea Rentmeister
Aug 31, 2016·Topics in Current Chemistry·Stephanie Kath-Schorr
Jun 25, 2013·Angewandte Chemie·Daniela SchulzAndrea Rentmeister
Nov 28, 2012·Chembiochem : a European Journal of Chemical Biology·Anna-Winona StruckJason Micklefield
Sep 17, 2014·Chembiochem : a European Journal of Chemical Biology·Daniela Schulz, Andrea Rentmeister
Dec 1, 2015·Methods : a Companion to Methods in Enzymology·Josephin M Holstein, Andrea Rentmeister
Aug 30, 2014·Journal of the American Chemical Society·Alexandra PlotnikovaSaulius Klimašauskas
Sep 17, 2013·Current Opinion in Chemical Biology·Rui Wang, Minkui Luo
Mar 11, 2015·Protein Engineering, Design & Selection : PEDS·Josephin Marie HolsteinAndrea Rentmeister
Jan 16, 2015·Current Opinion in Chemical Biology·Dennis Gillingham, Ramla Shahid
May 14, 2016·Organic & Biomolecular Chemistry·Anupam A SawantSeergazhi G Srivatsan
Aug 25, 2012·Journal of the American Chemical Society·Ian R BothwellMinkui Luo
Apr 6, 2013·ACS Chemical Biology·Gražvydas LukinavičiusSaulius Klimašauskas
Sep 27, 2016·Angewandte Chemie·Matthieu FonvielleMélanie Etheve-Quelquejeu
Nov 24, 2016·Organic & Biomolecular Chemistry·Fabian MuttachAndrea Rentmeister
Dec 13, 2016·Angewandte Chemie·Jochem DeenJohan Hofkens
Nov 22, 2016·Chemistry : a European Journal·Josephin M HolsteinAndrea Rentmeister
Aug 1, 2018·Chemical Communications : Chem Comm·Dnyaneshwar RasaleDennis Gillingham
May 10, 2016·F1000Research·Lilith V J C MannackAndrea Rentmeister
Oct 23, 2018·Chemistry : a European Journal·Katja Hartstock, Andrea Rentmeister
Jan 16, 2019·Chembiochem : a European Journal of Chemical Biology·Franziska DollAndreas Zumbusch
Apr 13, 2019·Chemical Communications : Chem Comm·Hyun Shin ParkEric T Kool
Aug 9, 2019·Wiley Interdisciplinary Reviews. RNA·Nils MuthmannAndrea Rentmeister
Mar 12, 2016·Current Protocols in Nucleic Acid Chemistry·Viktoras MasevičiusSaulius Klimašauskas
Mar 13, 2020·Angewandte Chemie·Mohammad Ghaem MaghamiClaudia Höbartner
Jan 24, 2020·Chemical Communications : Chem Comm·Nicolas V CornelissenAndrea Rentmeister
Dec 1, 2017·Chemical Communications : Chem Comm·Lea AnhäuserAndrea Rentmeister
Mar 12, 2013·Chemical Communications : Chem Comm·Claudine M DojahnChristoph Arenz
Oct 24, 2020·Angewandte Chemie·Anna OvcharenkoAndrea Rentmeister
Jan 5, 2021·Chembiochem : a European Journal of Chemical Biology·Jinguo HuangXiang Zhou
Oct 22, 2020·Chemical Society Reviews·Nils KlöckerAndrea Rentmeister
May 28, 2021·Chembiochem : a European Journal of Chemical Biology·Hannah DepmeierStephanie Kath-Schorr
Aug 5, 2017·ACS Central Science·Kristina Rau, Andrea Rentmeister
Dec 31, 2020·ACS Central Science·Sigitas MikutisGonçalo J L Bernardes
Nov 30, 2019·Journal of the American Chemical Society·Mohammad Ghaem MaghamiClaudia Höbartner

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