Osmium Tag for Post-transcriptionally Modified RNA

Turja Kanti Debnath; Akimitsu Okamoto

doi:10.1002/cbic.201800274

Osmium Tag for Post-transcriptionally Modified RNA

Chembiochem. 2018 Aug 6;19(15):1653-1656. doi: 10.1002/cbic.201800274. Epub 2018 Jun 26.

Authors

Turja Kanti Debnath¹, Akimitsu Okamoto^{1

2}

Affiliations

¹ Department of Advanced Interdisciplinary Studies, Graduate School of Engineering, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo, 153-8904, Japan.
² Research Center for Advanced Science and Technology, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo, 153-8904, Japan.

PMID: 29799158
DOI: 10.1002/cbic.201800274

Abstract

5-Methylcytidine (m⁵ C) and 5-methyluridine (m⁵ U) are highly abundant post-transcriptionally modified nucleotides that are observed in various natural RNAs. Such nucleotides were labeled through a chemical approach, as both underwent oxidation at the C5=C6 double bond, leading to the formation of osmium-bipyridine complexes, which could be identified by mass spectrometry. This osmium tag made it possible to distinguished m⁵ C and m⁵ U from their isomers, 2'-O-methylcytidine and 2'-O-methyluridine, respectively. Queuosine and 2-methylthio-N⁶ -isopentenyladenosine in tRNA were also tagged through complex formation.

Keywords: RNA; mass spectrometry; nucleotides; osmium; oxidation.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Cytidine / analogs & derivatives*
Cytidine / analysis
Isomerism
Mass Spectrometry
Osmium / chemistry*
Oxidation-Reduction
RNA / chemistry*
RNA Processing, Post-Transcriptional*
Uridine / analogs & derivatives*
Uridine / analysis

Substances

ribothymidine
Osmium
2'-O-methyluridine
2'-O-methylcytidine
Cytidine
RNA
5-methylcytidine
Uridine