Kotaro TOMURO (@KTomuro) header
Kotaro TOMURO (@KTomuro) profile picture

Kotaro TOMURO

@KTomuro

RNA / PhD Student at UTokyo and RIKEN

researchmap.jp/kotarotomuro
Joined April 2020
  • Tweets21
  • Following333
  • Followers76
Excited to share our new method “Ribo-Calibration” published on @NatureComms ! We enabled genome-wide kinetic analysis of translation in any sample! Thanks @IwasakiLabRIKEN for unwavering support! nature.com/articles/s41467-0…
Calibrated ribosome profiling assesses the dynamics of ribosomal flux on transcripts

Calibrated ribosome profiling assesses the dynamics of ribosomal flux on transcripts

Nature Communications - Ribosome profiling faces issues with rRNA contamination and measurements of ribosome numbers on transcripts. Here, the authors develop Ribo-FilterOut and Ribo-Calibration,...

nature.com
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Kotaro TOMURO retweeted
Takashi Fukaya (@FukayaLab) profile picture
Takashi Fukaya@FukayaLabSep 3
Happy to have contributed to the in vivo local translation part of this study using APEX-Ribo-Seq in Drosophila! biorxiv.org/content/10.1101/…
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New paper is out! We revealed the mechanisms of termination, re-initiation, recycling, and rescue in mitochondrial translation through a new derivative of Ribo-Seq. doi.org/10.1038/s41467-026-7…
Mitochondrial translation termination, recycling, reinitiation, and rescue for in-frame and...

Mitochondrial translation termination, recycling, reinitiation, and rescue for in-frame and...

Nature Communications - Mitochondria make essential proteins, but how this process ends and restarts is poorly understood. Here, the authors map mitochondrial ribosomes to reveal how stop signals...

nature.com
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New paper is out! We found that information about gravitational and mechanical forces is relayed to mitochondria and ultimately enhances translation inside the organelle. nature.com/articles/s41467-0…
Gravitational and mechanical forces shape mitochondrial translation

Gravitational and mechanical forces shape mitochondrial translation

Nature Communications - In this study, microgravity was found to disrupt mitochondrial translation through inhibition of laminin–integrin signaling and the downstream pathway, which is...

nature.com
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A new review article is out! This is a wonderful opportunity to exchange ideas with the Tim Stasevich lab (@tim_stasevich) toward the next breakthrough in techniques for studying translation. rnajournal.cshlp.org/content…
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新しい論文が公開されました！ 京都大学・緒方研究室との共同研究です。 巨大ウイルスが、コドン使用頻度と tRNA 供給のアンバランスをどのように克服しているのかを明らかにしました。 Ruixuan、緒方先生、おめでとうございます！ nature.com/articles/s41564-0…
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Our latest paper is out! We reported new mitochondrial Ribo-Seq methods. We truly appreciate the tremendous support from Tom Suzuki lab, Nureki lab, Wei lab, and Tomizawa/Chujo lab @RNAbiker ! cell.com/molecular-cell/abst…
Monitoring the complexity and dynamics of mitochondrial translation

Monitoring the complexity and dynamics of mitochondrial translation

Wakigawa et al. present advanced derivatives of mitochondrial ribosome profiling. By quantifying initiation, elongation, and ribosome collisions and by dissecting the impacts of tRNA anticodon-loop...

cell.com
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Thrilled and deeply thankful to be one of the recipients of the 2025 Angelika Amon Young Scientist Award. Big thanks to all the lab members at @IwasakiLabRIKEN and to our brilliant collaborators!!
Koch Institute at MIT (@kochinstitute) profile pictureKoch Institute at MIT@kochinstitute14 Aug 2025
Congrats to Sourav Ghosh (@souravSGW) of IIT Bombay (@BsbeIitb) & Kotaro Tomuro (@KTomuro) of @RIKEN/@UTokyo_News_en - our 2025 Amon Young Scientist Award winners! They present Nov 6, 10 a.m. at the Koch Institute. MIT community & Amon Lab alumni welcome. buff.ly/nzhbwPp
Side by side headshots of Sourav Ghosh and Kotaro Tomuro, winners of the 2025 Angelika Amon Young Scientist Award

ALT Side by side headshots of Sourav Ghosh and Kotaro Tomuro, winners of the 2025 Angelika Amon Young Scientist Award

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Our latest preprint is online! New Ribo-Seq methods for hundreds of samples in a shot!
bioRxiv Molecular Biology (@biorxiv_molbio) profile picturebioRxiv Molecular Biology@biorxiv_molbio8 Aug 2025
Ultra-parallel ribosome profiling platform with RNA-dependent RNA amplification biorxiv.org/content/10.1101/… #biorxiv_molbio
Ultra-parallel ribosome profiling platform with RNA-dependent RNA amplification

Ultra-parallel ribosome profiling platform with RNA-dependent RNA amplification

Translation regulation plays a pivotal role in the diversification of gene expression and the response to intra- and extracellular environmental cues. Ribosome profiling (or Ribo-Seq) serves as a...

biorxiv.org
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Kotaro TOMURO retweeted
Yuichi Shichino (@u1_7no) profile picture
Yuichi Shichino@u1_7no1 Aug 2025
【お知らせ】筑波大学医学医療系で独立の機会をいただき、次世代シーケンサー解析と観察技術を基軸に、局所翻訳制御の網羅的理解を目指す研究室を主宰する予定です（こんな仕事ですbiorxiv.org/content/10.1101/…）。一緒に研究してくれる方を探しています！興味のある方、ぜひお気軽にDMください。
Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq

Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq

Local translation at specific subcellular regions is proposed to define appropriate protein destinations and functions. However, our understanding of local translation is still far from complete, due...

biorxiv.org
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Kotaro TOMURO retweeted
kyogo kawaguchi (@kyogok) profile picture
kyogo kawaguchi@kyogok4 Jun 2025
Exciting new study from @IwasakiLabRIKEN, led by Kotaro @KTomuro & Yuichi @u1_7no, that I was lucky to be part of! A new method reveals many mRNAs are locally translated. Too much for one tweet—check it out: biorxiv.org/content/10.1101/…
Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq

Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq

Local translation at specific subcellular regions is proposed to define appropriate protein destinations and functions. However, our understanding of local translation is still far from complete, due...

biorxiv.org
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Our latest preprint is online! Local translation atlas across organelles is revealed!
bioRxiv Molecular Biology (@biorxiv_molbio) profile picturebioRxiv Molecular Biology@biorxiv_molbio30 May 2025
Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq biorxiv.org/content/10.1101/… #biorxiv_molbio
Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq

Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq

Local translation at specific subcellular regions is proposed to define appropriate protein destinations and functions. However, our understanding of local translation is still far from complete, due...

biorxiv.org
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A review regarding the technical advances in ribosome profiling is online! doi.org/10.1042/BST20253061

Advances in ribosome profiling technologies

Ribosome profiling (or Ribo-seq) has emerged as a powerful approach for revealing the regulatory mechanisms of protein synthesis, on the basis of deep sequencing of ribosome footprints. Recent...

portlandpress.com
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A new preprint is online!
bioRxiv Molecular Biology (@biorxiv_molbio) profile picturebioRxiv Molecular Biology@biorxiv_molbio4 May 2025
Mitochondrial translation termination, recycling, reinitiation, and rescue for in-frame and out-of-frame contexts biorxiv.org/content/10.1101/… #biorxiv_molbio
Mitochondrial translation termination, recycling, reinitiation, and rescue for in-frame and...

Mitochondrial translation termination, recycling, reinitiation, and rescue for in-frame and...

Because mitochondria diverged from a bacterial ancestor during evolution, the mitochondrial protein synthesis system includes both mRNAs and translation factors with unique characteristics. However,...

biorxiv.org
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RNP granuleの中のRNAを網羅的に解析する手法をまとめたreviewが@Polymer_Journalからpublishされました！ぜひご覧ください nature.com/articles/s41428-0…

Expanding toolkit for RNP granule transcriptomics

Polymer Journal - Ribonucleoprotein (RNP) granules are membraneless organelles formed through the condensation of RNA and proteins, which serve critical functions in diverse biological processes...

nature.com
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【研究成果】新しい研究成果を発表しました。■齋藤研究室（無脊椎動物遺伝研究室）「精子形成の新しいメカニズムを解明 〜tRNAの化学修飾が鍵〜」 👇論文（英語）はこちら doi.org/10.1038/s41467-024-5… 👇解説記事（日本語）はこちら nig.ac.jp/nig/ja/2024/09/res…

Mettl1-dependent m7G tRNA modification is essential for maintaining spermatogenesis and fertility...

Nature Communications - Here the authors reveal essential functions of Mettl1, catalyzing N7-guanosine methylation (m7G) of tRNAs, in Drosophila male fertility through a regulation of the...

nature.com
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The collaborative research paper, in which we contributed by Ribo-Seq, has been published online in Nature Communications (@NatureComms). Congratulations to Saito-san and Kaneko-san! nature.com/articles/s41467-0…
Mettl1-dependent m7G tRNA modification is essential for maintaining spermatogenesis and fertility...

Mettl1-dependent m7G tRNA modification is essential for maintaining spermatogenesis and fertility...

Nature Communications - Here the authors reveal essential functions of Mettl1, catalyzing N7-guanosine methylation (m7G) of tRNAs, in Drosophila male fertility through a regulation of the...

nature.com
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Kotaro TOMURO retweeted
Yuichi Shichino (@u1_7no) profile picture
Yuichi Shichino@u1_7no25 Sep 2024
岩崎研から共同研究成果のご報告です。遺伝研の齋藤研と共同でtRNAにm7G修飾を入れるMettl1がショウジョウバエの精子形成/生殖能力に必須であることを明らかにし @NatureComms に報告しました。岩崎研は @KTomuro くんがRibo-Seq解析で協力しました。金子さんおめでとう！nature.com/articles/s41467-0…
Mettl1-dependent m7G tRNA modification is essential for maintaining spermatogenesis and fertility...

Mettl1-dependent m7G tRNA modification is essential for maintaining spermatogenesis and fertility...

Nature Communications - Here the authors reveal essential functions of Mettl1, catalyzing N7-guanosine methylation (m7G) of tRNAs, in Drosophila male fertility through a regulation of the...

nature.com
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Our latest manuscript, related to #RNA #RibosomeProfiling #RiboSeq, was online @NatureComms! We reported that a compound DMDA-PatA functions as an mRNA-selective translation inhibitor, clamping target DEAD-box RNA binding proteins on GNG motifs. nature.com/articles/s41467-0…
DMDA-PatA mediates RNA sequence-selective translation repression by anchoring eIF4A and DDX3 to GNG...

DMDA-PatA mediates RNA sequence-selective translation repression by anchoring eIF4A and DDX3 to GNG...

Nature Communications - Here the authors report that DMDA-PatA, an anti-tumor compound, functions as a mRNA-selective translational inhibitor. This drug clamps the target eIF4A and DDX3 RNA-binding...

nature.com
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プレスリリース｜時はタンパク質合成なり －翻訳速度の網羅的計測－ 詳細はこちらをご覧ください⬇️ riken.jp/press/2024/20240826… #理研プレス #科学道
時はタンパク質合成なり

時はタンパク質合成なり

理研らの共同研究グループは、細胞内で「翻訳」を行うリボソームの数やタンパク質がつくられる速度を初めて網羅的に計測しました。

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We are happy to announce that our latest manuscript, related to #RNA #RibosomeProfiling #RiboSeq, was published in @NatureComms ! We reported a new method to measure ribosome stoichiometry (ribosome number) and kinetics in a genome-wide manner. nature.com/articles/s41467-0…
Calibrated ribosome profiling assesses the dynamics of ribosomal flux on transcripts

Calibrated ribosome profiling assesses the dynamics of ribosomal flux on transcripts

Nature Communications - Ribosome profiling faces issues with rRNA contamination and measurements of ribosome numbers on transcripts. Here, the authors develop Ribo-FilterOut and Ribo-Calibration,...

nature.com
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