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      Mammalian NSUN2 introduces 5-methylcytidines into mitochondrial tRNAs

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          Abstract

          Post-transcriptional modifications in mitochondrial tRNAs (mt-tRNAs) play critical roles in mitochondrial protein synthesis, which produces respiratory chain complexes. In this study, we took advantage of mass spectrometric analysis to map 5-methylcytidine (m 5C) at positions 48–50 in eight mouse and six human mt-tRNAs. We also confirmed the absence of m 5C in mt-tRNAs isolated from Nsun2 knockout (KO) mice, as well as from NSUN2 KO human culture cells. In addition, we successfully reconstituted m 5C at positions 48–50 of mt-tRNA in vitro with NSUN2 protein in the presence of S-adenosylmethionine. Although NSUN2 is predominantly localized to the nucleus and introduces m 5C into cytoplasmic tRNAs and mRNAs, structured illumination microscopy clearly revealed NSUN2 foci inside mitochondria. These observations provide novel insights into the role of NSUN2 in the physiology and pathology of mitochondrial functions.

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          Most cited references49

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          NIH Image to ImageJ: 25 years of image analysis.

          For the past 25 years NIH Image and ImageJ software have been pioneers as open tools for the analysis of scientific images. We discuss the origins, challenges and solutions of these two programs, and how their history can serve to advise and inform other software projects.
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            Surpassing the lateral resolution limit by a factor of two using structured illumination microscopy.

            Lateral resolution that exceeds the classical diffraction limit by a factor of two is achieved by using spatially structured illumination in a wide-field fluorescence microscope. The sample is illuminated with a series of excitation light patterns, which cause normally inaccessible high-resolution information to be encoded into the observed image. The recorded images are linearly processed to extract the new information and produce a reconstruction with twice the normal resolution. Unlike confocal microscopy, the resolution improvement is achieved with no need to discard any of the emission light. The method produces images of strikingly increased clarity compared to both conventional and confocal microscopes.
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              RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage.

              Dnmt2 proteins are the most conserved members of the DNA methyltransferase enzyme family, but their substrate specificity and biological functions have been a subject of controversy. We show here that, in addition to tRNA(Asp-GTC), tRNA(Val-AAC) and tRNA(Gly-GCC) are also methylated by Dnmt2. Drosophila Dnmt2 mutants showed reduced viability under stress conditions, and Dnmt2 relocalized to stress granules following heat shock. Strikingly, stress-induced cleavage of tRNAs was Dnmt2-dependent, and Dnmt2-mediated methylation protected tRNAs against ribonuclease cleavage. These results uncover a novel biological function of Dnmt2-mediated tRNA methylation, and suggest a role for Dnmt2 enzymes during the biogenesis of tRNA-derived small RNAs.
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                Author and article information

                Journal
                Nucleic Acids Res
                Nucleic Acids Res
                nar
                Nucleic Acids Research
                Oxford University Press
                0305-1048
                1362-4962
                19 September 2019
                09 July 2019
                09 July 2019
                : 47
                : 16
                : 8734-8745
                Affiliations
                [1 ] Department of Chemistry and Biotechnology, Graduate School of Engineering, the University of Tokyo , 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
                [2 ] Faculty of Pharmaceutical Sciences, Hokkaido University , Hokkaido 060-0812, Japan
                [3 ] Department of Molecular Physiology, Faculty of Life Sciences, Kumamoto University , Kumamoto 860-8556, Japan
                [4 ] Precursory Research for Embryonic Science and Technology (PRESTO), Japan Science and Technology Agency (JST) , Kawaguchi, Saitama 332-0012 Japan
                [5 ] Institute of Resource Development and Analysis, Kumamoto University , Kumamoto 860-0811, Japan
                Author notes
                To whom correspondence should be addressed. Tsutomu Suzuki. Tel: +81 3 5841 8752; Fax: +81 3 5841 0550; Email: ts@ 123456chembio.t.u-tokyo.ac.jp
                Correspondence may also be addressed to Takeo Suzuki. Tel: +81 3 5841 1260; Fax: +81 3 5841 0550; Email: t_suzuki@ 123456chembio.t.u-tokyo.ac.jp

                The authors wish it to be known that, in their opinion, the first two authors should be regarded as Joint First Authors.

                Author information
                http://orcid.org/0000-0002-5663-2627
                http://orcid.org/0000-0002-9731-1731
                Article
                gkz575
                10.1093/nar/gkz575
                6895283
                31287866
                ec4895e1-5f2f-4fb2-9bd2-ff09052497e9
                © The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@ 123456oup.com

                History
                : 20 June 2019
                : 15 June 2019
                : 30 April 2019
                Page count
                Pages: 12
                Funding
                Funded by: Ministry of Education, Culture, Sports, Science and Technology 10.13039/501100001700
                Funded by: Japan Society for the Promotion of Science 10.13039/501100001691
                Award ID: 26113003
                Award ID: 26220205
                Award ID: 18H05272
                Award ID: 26702035
                Award ID: 18H02094
                Categories
                RNA and RNA-protein complexes

                Genetics
                Genetics

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