Literature DB >> 28783151

Hydroxylation of a conserved tRNA modification establishes non-universal genetic code in echinoderm mitochondria.

Asuteka Nagao1, Mitsuhiro Ohara1, Kenjyo Miyauchi1, Shin-Ichi Yokobori2, Akihiko Yamagishi2, Kimitsuna Watanabe2, Tsutomu Suzuki1.   

Abstract

The genetic code is not frozen but still evolving, which can result in the acquisition of 'dialectal' codons that deviate from the universal genetic code. RNA modifications in the anticodon region of tRNAs play a critical role in establishing such non-universal genetic codes. In echinoderm mitochondria, the AAA codon specifies asparagine instead of lysine. By analyzing mitochondrial (mt-) tRNALys isolated from the sea urchin (Mesocentrotus nudus), we discovered a novel modified nucleoside, hydroxy-N6-threonylcarbamoyladenosine (ht6A), 3' adjacent to the anticodon (position 37). Biochemical analysis revealed that ht6A37 has the ability to prevent mt-tRNALys from misreading AAA as lysine, thereby indicating that hydroxylation of N6-threonylcarbamoyladenosine (t6A) contributes to the establishment of the non-universal genetic code in echinoderm mitochondria.

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Year:  2017        PMID: 28783151     DOI: 10.1038/nsmb.3449

Source DB:  PubMed          Journal:  Nat Struct Mol Biol        ISSN: 1545-9985            Impact factor:   15.369


  38 in total

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2.  Complete mitochondrial genome of sea urchin: Mesocentrotus nudus (Strongylocentrotidae, Echinoida).

Authors:  Gila Jung; Hee-Jung Choi; Sejin Pae; Youn-Ho Lee
Journal:  Mitochondrial DNA       Date:  2013-02-11

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Journal:  Proc Natl Acad Sci U S A       Date:  1988-02       Impact factor: 11.205

4.  The effect of queuosine on tRNA structure and function.

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Journal:  J Biomol Struct Dyn       Date:  1999-02

Review 5.  Human mitochondrial tRNAs: biogenesis, function, structural aspects, and diseases.

Authors:  Tsutomu Suzuki; Asuteka Nagao; Takeo Suzuki
Journal:  Annu Rev Genet       Date:  2011-09-06       Impact factor: 16.830

6.  Gene cloning, biochemical characterization and physiological role of a thermostable low-specificity L-threonine aldolase from Escherichia coli.

Authors:  J Q Liu; T Dairi; N Itoh; M Kataoka; S Shimizu; H Yamada
Journal:  Eur J Biochem       Date:  1998-07-01

7.  Transfer RNA Modification: Presence, Synthesis, and Function.

Authors:  Glenn R Björk; Tord G Hagervall
Journal:  EcoSal Plus       Date:  2014-05

8.  tRNA Modification and Genetic Code Variations in Animal Mitochondria.

Authors:  Kimitsuna Watanabe; Shin-Ichi Yokobori
Journal:  J Nucleic Acids       Date:  2011-10-09

9.  Automated parallel isolation of multiple species of non-coding RNAs by the reciprocal circulating chromatography method.

Authors:  Kenjyo Miyauchi; Tomoya Ohara; Tsutomu Suzuki
Journal:  Nucleic Acids Res       Date:  2007-01-23       Impact factor: 16.971

10.  A hydantoin isoform of cyclic N6-threonylcarbamoyladenosine (ct6A) is present in tRNAs.

Authors:  Michal Matuszewski; Jakub Wojciechowski; Kenjyo Miyauchi; Zofia Gdaniec; Wojciech M Wolf; Tsutomu Suzuki; Elzbieta Sochacka
Journal:  Nucleic Acids Res       Date:  2017-02-28       Impact factor: 16.971

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  7 in total

Review 1.  Probing the diversity and regulation of tRNA modifications.

Authors:  Satoshi Kimura; Veerasak Srisuknimit; Matthew K Waldor
Journal:  Curr Opin Microbiol       Date:  2020-07-11       Impact factor: 7.934

Review 2.  The expanding world of tRNA modifications and their disease relevance.

Authors:  Tsutomu Suzuki
Journal:  Nat Rev Mol Cell Biol       Date:  2021-03-03       Impact factor: 94.444

Review 3.  Naturally occurring modified ribonucleosides.

Authors:  Phillip J McCown; Agnieszka Ruszkowska; Charlotte N Kunkler; Kurtis Breger; Jacob P Hulewicz; Matthew C Wang; Noah A Springer; Jessica A Brown
Journal:  Wiley Interdiscip Rev RNA       Date:  2020-04-16       Impact factor: 9.349

4.  Dual pathways of tRNA hydroxylation ensure efficient translation by expanding decoding capability.

Authors:  Yusuke Sakai; Satoshi Kimura; Tsutomu Suzuki
Journal:  Nat Commun       Date:  2019-06-28       Impact factor: 14.919

5.  Specificity in the biosynthesis of the universal tRNA nucleoside N 6-threonylcarbamoyl adenosine (t6A)-TsaD is the gatekeeper.

Authors:  William Swinehart; Christopher Deutsch; Kathryn L Sarachan; Amit Luthra; Jo Marie Bacusmo; Valérie de Crécy-Lagard; Manal A Swairjo; Paul F Agris; Dirk Iwata-Reuyl
Journal:  RNA       Date:  2020-05-08       Impact factor: 4.942

6.  Efficient access to 3'-O-phosphoramidite derivatives of tRNA related N 6-threonylcarbamoyladenosine (t6A) and 2-methylthio-N 6-threonylcarbamoyladenosine (ms2t6A).

Authors:  Katarzyna Debiec; Elzbieta Sochacka
Journal:  RSC Adv       Date:  2021-01-07       Impact factor: 3.361

7.  Crystal structures and insights into precursor tRNA 5'-end processing by prokaryotic minimal protein-only RNase P.

Authors:  Yangyang Li; Shichen Su; Yanqing Gao; Guoliang Lu; Hehua Liu; Xi Chen; Zhiwei Shao; Yixi Zhang; Qiyuan Shao; Xin Zhao; Jie Yang; Chulei Cao; Jinzhong Lin; Jinbiao Ma; Jianhua Gan
Journal:  Nat Commun       Date:  2022-04-28       Impact factor: 17.694

  7 in total

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