Current Affiliation Organization 【 display / non-display 】

Current Affiliation Organization 【 display / non-display 】

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Research Areas 【 display / non-display 】

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Published Papers 【 display / non-display 】

• Glycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth

  Xuewei Zhao, Ding Ma, Kensuke Ishiguro, Hironori Saito, Shinichiro Akichika, Ikuya Matsuzawa, Mari Mito, Toru Irie, Kota Ishibashi, Kimi Wakabayashi, Yuriko Sakaguchi, Takeshi Yokoyama, Yuichiro Mishima, Mikako Shirouzu, Shintaro Iwasaki, Takeo Suzuki, Tsutomu Suzuki

  Cell ( Elsevier BV )    2023.11 [ Peer Review Accepted ]

  Type of publication: Research paper (scientific journal)

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• Restoration of mitochondrial function through activation of hypomodified tRNAs with pathogenic mutations associated with mitochondrial diseases

  Tomoda, E. Nagao, A. Shirai, Y. Asano, K. Suzuki, T. Battersby, B. J. Suzuki, T.

  Nucleic Acids Res     2023.03 [ Peer Review Accepted ]

  Type of publication: Research paper (scientific journal)

• Mass Spectrometric Analysis of Mitochondrial RNA Modifications

  Yuma Ishigami, Tsutomu Suzuki, Takeo Suzuki

  Methods in Molecular Biology ( Springer US )  2192   89 - 101   2021

  Type of publication: Research paper (other science council materials etc.)

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• Complete chemical structures of human mitochondrial tRNAs.

  Takeo Suzuki, Yuka Yashiro, Ittoku Kikuchi, Yuma Ishigami, Hironori Saito, Ikuya Matsuzawa, Shunpei Okada, Mari Mito, Shintaro Iwasaki, Ding Ma, Xuewei Zhao, Kana Asano, Huan Lin, Yohei Kirino, Yuriko Sakaguchi, Tsutomu Suzuki

  Nature communications   11 ( 1 ) 4269 - 4269   2020.08 [ Peer Review Accepted ]

  Type of publication: Research paper (scientific journal)

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  Mitochondria generate most cellular energy via oxidative phosphorylation. Twenty-two species of mitochondrial (mt-)tRNAs encoded in mtDNA translate essential subunits of the respiratory chain complexes. mt-tRNAs contain post-transcriptional modifications introduced by nuclear-encoded tRNA-modifying enzymes. They are required for deciphering genetic code accurately, as well as stabilizing tRNA. Loss of tRNA modifications frequently results in severe pathological consequences. Here, we perform a comprehensive analysis of post-transcriptional modifications of all human mt-tRNAs, including 14 previously-uncharacterized species. In total, we find 18 kinds of RNA modifications at 137 positions (8.7% in 1575 nucleobases) in 22 species of human mt-tRNAs. An up-to-date list of 34 genes responsible for mt-tRNA modifications are provided. We identify two genes required for queuosine (Q) formation in mt-tRNAs. Our results provide insight into the molecular mechanisms underlying the decoding system and could help to elucidate the molecular pathogenesis of human mitochondrial diseases caused by aberrant tRNA modifications.

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• Distinct Modified Nucleosides in tRNATrp from the Hyperthermophilic Archaeon Thermococcus kodakarensis and Requirement of tRNA m2G10/m22G10 Methyltransferase (Archaeal Trm11) for Survival at High Temperatures.

  Akira Hirata, Takeo Suzuki, Tomoko Nagano, Daishiro Fujii, Mizuki Okamoto, Manaka Sora, Todd M Lowe, Tamotsu Kanai, Haruyuki Atomi, Tsutomu Suzuki, Hiroyuki Hori

  Journal of bacteriology   201 ( 21 )   2019.11 [ Peer Review Accepted ]

  Type of publication: Research paper (scientific journal)

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  tRNA m2G10/m22G10 methyltransferase (archaeal Trm11) methylates the 2-amino group in guanosine at position 10 in tRNA and forms N2,N2-dimethylguanosine (m22G10) via N2-methylguanosine (m2G10). We determined the complete sequence of tRNATrp, one of the substrate tRNAs for archaeal Trm11 from Thermococcus kodakarensis, a hyperthermophilic archaeon. Liquid chromatography/mass spectrometry following enzymatic digestion of tRNATrp identified 15 types of modified nucleoside at 21 positions. Several modifications were found at novel positions in tRNA, including 2'-O-methylcytidine at position 6, 2-thiocytidine at position 17, 2'-O-methyluridine at position 20, 5,2'-O-dimethylcytidine at position 32, and 2'-O-methylguanosine at position 42. Furthermore, methylwyosine was found at position 37 in this tRNATrp, although 1-methylguanosine is generally found at this location in tRNATrp from other archaea. We constructed trm11 (Δtrm11) and some gene disruptant strains and compared their tRNATrp with that of the wild-type strain, which confirmed the absence of m22G10 and other corresponding modifications, respectively. The lack of 2-methylguanosine (m2G) at position 67 in the trm11 trm14 double disruptant strain suggested that this methylation is mediated by Trm14, which was previously identified as an m2G6 methyltransferase. The Δtrm11 strain grew poorly at 95°C, indicating that archaeal Trm11 is required for T. kodakarensis survival at high temperatures. The m22G10 modification might have effects on stabilization of tRNA and/or correct folding of tRNA at the high temperatures. Collectively, these results provide new clues to the function of modifications and the substrate specificities of modification enzymes in archaeal tRNA, enabling us to propose a strategy for tRNA stabilization of this archaeon at high temperatures.IMPORTANCEThermococcus kodakarensis is a hyperthermophilic archaeon that can grow at 60 to 100°C. The sequence of tRNATrp from this archaeon was determined by liquid chromatography/mass spectrometry. Fifteen types of modified nucleoside were observed at 21 positions, including 5 modifications at novel positions; in addition, methylwyosine at position 37 was newly observed in an archaeal tRNATrp The construction of trm11 (Δtrm11) and other gene disruptant strains confirmed the enzymes responsible for modifications in this tRNA. The lack of 2-methylguanosine (m2G) at position 67 in the trm11 trm14 double disruptant strain suggested that this position is methylated by Trm14, which was previously identified as an m2G6 methyltransferase. The Δtrm11 strain grew poorly at 95°C, indicating that archaeal Trm11 is required for T. kodakarensis survival at high temperatures.

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