Rchr
J-GLOBAL ID：201601009008410489
Update date: Jun. 24, 2024
Yamagami Ryota
ヤマガミ リョウタ | Yamagami Ryota
Affiliation and department：
Job title：
Assistant professor (Lecturer)
Research field (4)：
Biophysics
, Molecular biology
, Functional biochemistry
, Biochemistry
Research keywords (5)：
ribozyme
, Translation
, RNA folding
, tRNA
, RNA
Research theme for competitive and other funds (12)：
- 2023 - 2028 Analysis of in vivo tRNA under stress conditions
- 2024 - 2025 The regulation mechanism of epi-transcriptome by RNA structure
- 2023 - 2025 Quantification of in vivo tRNA abundance in cancer cells and its application to a novel biomarker
- 2022 - 2025 Identification of novel substrates of tRNA modification enzymes
- 2023 - 2024 Development of metal-ion sensing ribozyme
- 2021 - 2024 Development of a novel nucleic acid enzyme that efficiently functions inside cells
- 2021 - 2023 Development of a new nucleic acid enzyme and new functionality.
- 2021 - 2023 Development of a new method that unveils interactions between tRNA and tRNA modification enzyme
- 2021 - 2022 Development of a new method that unveils interactions between tRNA and tRNA modification enzyme
- 2019 - 2021 Elucidation of in vivo RNA folding mechanisms and its application
- 2017 - 2017 Mechanistic insight into RNA folding and function under in vivo condition
- 2014 - 2016 Functional analysis of folate-dependent methyltransferases
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Papers (28)：
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Shu Fujita, Yuzuru Sugio, Takuya Kawamura, Ryota Yamagami, Natsuhisa Oka, Akira Hirata, Takashi Yokogawa, Hiroyuki Hori. ArcS from Thermococcus kodakarensis transfers L-lysine to preQ0 nucleoside derivatives as minimum substrate RNAs. Journal of Biological Chemistry. 2024. in press
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Ryota Yamagami, Hina Kubota, Emi Kohno, Hiroyuki Hori. High-throughput mutational analysis of a methyltransferase ribozyme. Frontiers in RNA Research. 2024. 2
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Teppei Matsuda, Hiroyuki Hori, Ryota Yamagami. Rational design of oligonucleotides for enhanced in vitro transcription of small RNA. RNA (New York, N.Y.). 2024. 30. 6. 710-727
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Yoh Kohno, Asako Ito, Aya Okamoto, Ryota Yamagami, Akira Hirata, Hiroyuki Hori. Escherichia coli tRNA (Gm18) methyltransferase (TrmH) requires the correct localization of its methylation site (G18) in the D-loop for efficient methylation. Journal of biochemistry. 2023. 175. 1. 43-56
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McCauley O Meyer, Ryota Yamagami, Saehyun Choi, Christine D Keating, Philip C Bevilacqua. RNA folding studies inside peptide-rich droplets reveal roles of modified nucleosides at the origin of life. Science advances. 2023. 9. 38. eadh5152-15
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MISC (5)：
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内上祐介, 山上龍太, 安部真人, 田島茂, 林昌宏, 海老原秀喜, 好井健太朗, 堀弘幸, VASUDEVAN Subhash G, 澤崎達也, et al. Biochemical evaluation of DENV polyprotein synthesized with a wheat cell-free system for reconstitution of the replication complex. 日本ウイルス学会学術集会プログラム・予稿集(Web). 2023. 70th
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内上祐介, 江村祐希, VASUDEVAN Subhash G., 安部真人, 山上龍太, 堀弘幸, 高橋宏隆, 澤崎達也. コムギ無細胞系を用いたDENVポリプロテインの合成と複製複合体再構成に向けた酵素活性評価. 日本ウイルス学会学術集会プログラム・予稿集(Web). 2022. 69th
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越智杏奈, 真壁幸樹, 山上龍太, 平田章, 坂口怜子, HOU Ya-Ming, 渡辺和則, 濡木理, 桑島邦博, 堀弘幸. トポロジカルノット型tRNAメチル化酵素(TrmH)の触媒ドメインによる基質tRNAと基質にならないtRNAの識別. 日本RNA学会年会要旨集. 2014. 16th
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山上龍太, 山下光輝, 西増弘志, 冨川千恵, 越智杏奈, 岩下智香子, 平田章, 石谷隆一郎, 濡木理, 堀弘幸, et al. 葉酸依存性tRNA(m5U54)メチル化酵素TrmFOはどうやってtRNA中のU54を認識しているのか?. 日本RNA学会年会要旨集. 2013. 15th
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山上龍太, 山下光輝, 西増弘志, 冨川千恵, 越智杏奈, 岩下智香子, 平田章, 石谷隆一郎, 濡木理, 堀弘幸, et al. サーマス・サーモフィラス由来tRNAメチル化酵素TrmFOの基質認識機構. 日本RNA学会年会要旨集. 2012. 14th
Lectures and oral presentations (75)：
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Detection of RNA modification using next generation sequencing and its application
(2024)
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Does tmRNA possess pseudouridine modification?
(46th Annual meeting of the Molecular Biology Society of Japan 2023)
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Characterization of tRNA methyltransferase Trm14 from a hyper-thermophilic archaeon, Thermococcus kodakarensis
(46th Annual meeting of the Molecular Biology Society of Japan 2023)
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Identification of pseudouridine synthases responsible for pseudouridylation in anti-SD sequence of 16S rRNA in Thermus thermophilus
(46th Annual meeting of the Molecular Biology Society of Japan 2023)
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Biochemical analyses of Lys transfer reaction by ArcS-RaSEA complex
(46th Annual meeting of the Molecular Biology Society of Japan 2023)
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Professional career (1)：
Work history (7)：
- 2024/04 - 現在 Ehime University Graduate School of Science and Engineering Assistant professor (Lecturer)
- 2021/04 - 2024/03 Ehime University Graduate School of Science and Engineering Assistant professor
- 2019/04 - 2021/03 JSPS Overseas Reasarch Fellow (Pennsylvania State University)
- 2016/04 - 2021/03 Pennsylvania State University Post-doctoral fellow
- 2017/01 - 2017/12 The Uehara Memorial Foundation Research Fellow
- 2015/04 - 2016/03 JSPS Research Fellow (PD) (Ehime University)
- 2014/04 - 2015/03 JSPS Research Fellow (DC2) (Ehime University)
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Awards (6)：
- 2023/05 - JBS-Chushi branch 64th Annual meeting of JBS-Chushi branch presentation award Prediction of in vivo tRNA structure and its application
- 2022/11 - Ehime University Ehime University Award of Biological Science
- 2021/06 - RNA Society RNA2021 NSF Award
- 2019/06 - RNA Society RNA2019 Travel award
- 2017/01 - The Uehara Memorial Foundation Research Fellowship Elucidation of in vivo RNA folding
- 2013/04 - 那須奨学賞
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Association Membership(s) (3)：
RNA society
, THE RNA SOCIETY OF JAPAN
, THE MOLECULAR BIOLOGY SOCIETY OF JAPAN
