Basic Information

Faculty

• Faculty of Science

Email Address

• Email Address

  shiraishi.taro.7kkyoto-u.ac.jp

Academic Degree

• 22 Mar. 2012

  東京大学修士（農学）
• 07 Feb. 2020

  東京大学博士（農学）

Academic Resume (Graduate Schools)

• 東京大学, 大学院農学生命科学研究科応用生命工学専攻博士課程, 退学
• 東京大学, 大学院農学生命科学研究科応用生命工学専攻修士課程, 修了

Academic Resume (Undergraduate School/Majors)

• 東京大学, 農学部生命化学・工学専修, 卒業

Research History

• From Jun. 2025, To Present

  Kyoto University, Graduate School of Science Division of Chemistry, Lecturer
• From Apr. 2022, To May 2025

  The University of Tokyo, Graduate School of Agricultural and Life Sciences Biotechnology, Assistant professor
• From Mar. 2021, To Apr. 2022

  ETH zürich, Institute of Microbiology, Postdoc
• From Apr. 2019, To Mar. 2021

  The University of Tokyo, Graduate School of Agricultural and Life Sciences Biotechnology, 特任研究員
• From Apr. 2015, To Mar. 2019

  The University of Tokyo, Biotechnology Research Center, 細胞機能工学研究室, 助教

ID,URL

• ORCID ID

  0000-0002-6540-8029

• J-Global ID

  202201006953843497

researchmap URL

• https://researchmap.jp/utshirag.ecc.u-tokyo

Research

Research Areas

• Life sciences, Bioorganic chemistry, 天然物化学

Papers

• A Discrete, Iterative Type I Polyketide Synthase System Catalyzing the Formation of Unusual Fatty Acid Chains

  Hao Xu; Taro Shiraishi; Tomohisa Kuzuyama

  Journal of the American Chemical Society, 15 Jul. 2026

  
• Biosynthesis of Kaitocephalin: A Neuroprotective Natural Product Featuring a Peptide‐Like yet Nonpeptidic Scaffold

  Yukari Maeno; Taro Shiraishi; Naoya Saito; Jun‐ichi Maruyama; Kazuo Shin‐ya; Tomohisa Kuzuyama

  Angewandte Chemie, 23 Mar. 2026

  
• A novel transformer-based platform for the prediction and design of biosynthetic gene clusters for (un)natural products.

  Tomoki Kawano; Taro Shiraishi; Tomohisa Kuzuyama; Maiko Umemura

  PLoS computational biology, Feb. 2026, Peer-reviewed

  
• Chemical richness and diversity of uncultivated ‘Entotheonella’ symbionts in marine sponges

  Maria Dell; Masato Kogawa; Alena B. Streiff; Taro Shiraishi; Alessandro Lotti; Christoph M. Meier; Michelle A. Schorn; Christopher Field; Jackson K. B. Cahn; Hiromi Yokoyama; Yuito Yamada; Eike Peters; Yoko Egami; Yu Nakashima; Karen Co Tan; Christian Rückert; Mohammad Alanjary; Jörn Kalinowski; Tomohisa Kuzuyama; Paco Cardenas; Shirley Pomponi; Detmer Sipkema; Amy Wright; Kentaro Takada; Ikuro Abe; Toshiyuki Wakimoto; Haruko Takeyama; Jörn Piel

  Nature Chemical Biology, Feb. 2026, Peer-reviewed

  
• High-throughput prediction of protein–protein interactions uncovers hidden molecular networks in biosynthetic gene clusters

  Yoshitaka Moriwaki; Taro Shiraishi; Yohei Katsuyama; Kenichi Matsuda; Toyoyuki Ose; Atsushi Minami; Hideaki Oikawa; Tomohisa Kuzuyama; Ryuichiro Ishitani; Tohru Terada

  27 Oct. 2025

  
• Mechanistic Characterization of Diterpene Synthase Pairs for Tricyclic Diterpenes from Cyanobacteria

  Jiayi Yu; Taro Shiraishi; Kizerbo A. Taizoumbe; Yusaku Karasuno; Ayako Yoshida; Makoto Nishiyama; Jeroen S. Dickschat; Tomohisa Kuzuyama

  Journal of the American Chemical Society, 09 Apr. 2025, Peer-reviewed

  
• In vivo and in vitro Reconstitution of Biosynthesis of N‐Prenylated Phenazines Revealing Diverse Phenazine‐Modifying Enzymes

  Teruhito Kato; Dan Xia; Taro Ozaki; Tomoyo Nakao; Ping Zhao; Makoto Nishiyama; Taro Shiraishi; Tomohisa Kuzuyama

  ChemBioChem, 14 Jan. 2025, Peer-reviewed, Invited

  
• Discovery of type II polyketide synthase-like enzymes for the biosynthesis of cispentacin

  Genki Hibi; Taro Shiraishi; Tatsuki Umemura; Kenji Nemoto; Yusuke Ogura; Makoto Nishiyama; Tomohisa Kuzuyama

  Nature Communications, 06 Dec. 2023, Peer-reviewed

  
• Complete Biosynthetic Pathway of the Phosphonate Phosphonothrixin: Two Distinct Thiamine Diphosphate-Dependent Enzymes Divide the Work to Form a C–C Bond

  Yuxun Zhu; Taro Shiraishi; Jianwen Lin; Keito Inaba; Atsuro Ito; Yusuke Ogura; Makoto Nishiyama; Tomohisa Kuzuyama

  Journal of the American Chemical Society, 21 Sep. 2022, Peer-reviewed

  
• Total Synthesis and Stereochemistry Assignment of Nucleoside Antibiotic A-94964

  Xiaofei Shao; Chang Zheng; Peng Xu; Taro Shiraishi; Tomohisa Kuzuyama; Antonio Molinaro; Alba Silipo; Biao Yu

  Angewandte Chemie - International Edition, 28 Mar. 2022, Peer-reviewed

  
• Biosynthesis of the nucleoside antibiotic angustmycins: identification and characterization of the biosynthetic gene cluster reveal unprecedented dehydratase required for exo-glycal formation

  Taro Shiraishi; Jiaqi Xia; Teruhito Kato; Tomohisa Kuzuyama

  The Journal of Antibiotics, 17 Nov. 2021, Peer-reviewed, Lead author

  
• Biosynthetic pathways and enzymes involved in the production of phosphonic acid natural products

  Taro Shiraishi; Tomohisa Kuzuyama

  Bioscience, Biotechnology, and Biochemistry, 07 Jan. 2021, Peer-reviewed, Invited, Lead author

  
• Guanidyl modification of the 1-azabicyclo[3.1.0]hexane ring in ficellomycin essential for its biological activity

  Sumire Kurosawa; Kenichi Matsuda; Fumihito Hasebe; Taro Shiraishi; Kazuo Shin-ya; Tomohisa Kuzuyama; Makoto Nishiyama

  Organic & Biomolecular Chemistry, 2020, Peer-reviewed

  
• Recent advances in the biosynthesis of nucleoside antibiotics

  Taro Shiraishi; Tomohisa Kuzuyama

  The Journal of Antibiotics, 25 Dec. 2019, Peer-reviewed, Lead author

  
• The Amipurimycin and Miharamycin Biosynthetic Gene Clusters: Unraveling the Origins of 2-Aminopurinyl Peptidyl Nucleoside Antibiotics

  Taro Shiraishi

  Journal of the American Chemical Society, 31 May 2019, Peer-reviewed, Lead author

  
• 新奇骨格を創成する革新的生合成マシナリーの開拓

  白石 太郎; 葛山 智久

  ファルマシア, 2019, Invited, Lead author

  
• Biosynthesis of the uridine-derived nucleoside antibiotic A-94964: identification and characterization of the biosynthetic gene cluster provide insight into the biosynthetic pathway

  Taro Shiraishi; Makoto Nishiyama; Tomohisa Kuzuyama

  Organic & Biomolecular Chemistry, 2019, Peer-reviewed, Lead author

  
• Identification and heterologous expression of the actinoallolide biosynthetic gene cluster

  Inahashi, Y.; Shiraishi, T.; Tak{\'e}, A.; Matsumoto, A.; Takahashi, Y.; ?mura, S.; Kuzuyama, T.; Nakashima, T.

  Journal of Antibiotics, 2018, Peer-reviewed

  
• Fosfomycin Biosynthesis via Transient Cytidylylation of 2-Hydroxyethylphosphonate by the Bifunctional Fom1 Enzyme

  Cho, S.-H.; Kim, S.-Y.; Tomita, T.; Shiraishi, T.; Park, J.-S.; Sato, S.; Kudo, F.; Eguchi, T.; Funa, N.; Nishiyama, M.; Kuzuyama, T.

  ACS Chemical Biology, 2017, Peer-reviewed

  
• Biosynthesis of Trehangelin in Polymorphospora rubra K07–0510: Identification of Metabolic Pathway to Angelyl-CoA

  Inahashi, Y.; Shiraishi, T.; Palm, K.; Takahashi, Y.; mura, S.; Kuzuyama, T.; Nakashima, T.

  ChemBioChem, 2016, Peer-reviewed

  
• Amino-group carrier-protein-mediated secondary metabolite biosynthesis in Streptomyces

  Hasebe, F.; Matsuda, K.; Shiraishi, T.; Futamura, Y.; Nakano, T.; Tomita, T.; Ishigami, K.; Taka, H.; Mineki, R.; Fujimura, T.; Osada, H.; Kuzuyama, T.; Nishiyama, M.

  Nature Chemical Biology, 2016, Peer-reviewed

  
• Biosynthesis of the antituberculous agent caprazamycin: Identification of caprazol-3"-phosphate, an unprecedented caprazamycin-related metabolite

  Shiraishi, T.; Hiro, N.; Igarashi, M.; Nishiyama, M.; Kuzuyama, T.

  Journal of General and Applied Microbiology, 2016, Peer-reviewed, Lead author

  

Misc.

• Biosynthesis of kaitocephalin

  前野優香理; 齋藤直也; 白石太郎; 白石太郎; 小川哲弘; 小川哲弘; 丸山潤一; 丸山潤一; 新家一男; 葛山智久; 葛山智久

  日本農芸化学会大会講演要旨集(Web), 2024

  

Awards

• 17 Sep. 2023

  浜田賞（日本放線菌学会）

External funds: Kakenhi

• 天然物BGCにコードされた輸送体の解析手法の確立と機能解明

  Grant-in-Aid for Early-Career Scientists

  Basic Section 37020:Chemistry and chemical methodology of biomolecules-related

  The University of Tokyo

  白石 太郎

  From 01 Apr. 2025, To 31 Mar. 2027, Granted

  天然物化学;輸送体

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-25K18133/
• Development of a Next-Generation Enzyme-Substrate Complex Prediction Method Considering the Reaction Information and Predicted 3D Structure

  Grant-in-Aid for Scientific Research (B)

  Basic Section 37010:Bio-related chemistry

  Institute of Science Tokyo

  森脇 由隆

  From 01 Apr. 2025, To 31 Mar. 2028, Granted

  機械学習;生化学;タンパク質立体構造予測;代謝

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-25K01890/
• Construction of a peptide-nucleoside conjugate library by engineering the biosynthetic machinery of natural product

  Grant-in-Aid for Research Activity Start-up

  0601:Agricultural chemistry and related fields

  The University of Tokyo

  Taro Shiraishi

  From 31 Aug. 2022, To 31 Mar. 2025, Project Closed

  天然物化学;生合成;ヌクレオシド;ペプチド;化合物ライブラリー;核酸;核酸系化合物;放線菌

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-22K20567/
• 構造多様性一挙構築型生体反応の集積・予知・創出

  Grant-in-Aid for Transformative Research Areas (A)

  Transformative Research Areas, Section (II)

  The University of Tokyo

  葛山 智久

  From 16 Jun. 2022, To 31 Mar. 2027, Granted

  天然化合物;生合成;酵素;反応機構;結晶構造;生体分子;天然有機化合物;ポリケチド;ホスホン酸;天然物化学;生合成酵素;テルペン

  https://kaken.nii.ac.jp/grant/KAKENHI-PLANNED-22H05120/
• Development and precise functional analysis of innovative biosynthetic machinery to create complex skeletons

  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

  Science and Engineering

  The University of Tokyo

  Tomohisa Kuzuyama

  From 30 Jun. 2016, To 31 Mar. 2021, Project Closed

  生物活性物質;天然化合物;遺伝子;酵素;生合成;反応機構;電子環状反応;生合成マシナリー;放線菌;ヌクレオシド;ポリケチド;Biosynthesis;nucleoside antibiotic;carbazole;terpene;reaction mechanism;生合成遺伝子;天然物;テルペノイド;ホスホン酸;ポリケタイド;生体触媒;結晶構造解析

  https://kaken.nii.ac.jp/grant/KAKENHI-PLANNED-16H06453/

Education

Teaching subject(s)

• From 01 Apr. 2026, To 31 Mar. 2027

  Chemistry for non-science majors II

  N355, Fall, Institute for Liberal Arts and Sciences, 2
• From 01 Apr. 2026, To 31 Mar. 2027

  Fundamental Chemical Experiments

  N308, Fall, Institute for Liberal Arts and Sciences, 2
• From 01 Apr. 2026, To 31 Mar. 2027

  Seminar on Biochemistry IC

  7090, Spring, Graduate School of Science, 1
• From 01 Apr. 2026, To 31 Mar. 2027

  Seminar on Biochemistry IB

  7089, Fall, Graduate School of Science, 1
• From 01 Apr. 2026, To 31 Mar. 2027

  Seminar on Biochemistry IA

  7088, Spring, Graduate School of Science, 1
• From 01 Apr. 2026, To 31 Mar. 2027

  Advanced Biochemistry IB

  7193, Fall, Graduate School of Science, 1
• From 01 Apr. 2026, To 31 Mar. 2027

  Advanced Biochemistry IA

  7192, Spring, Graduate School of Science, 1
• From 01 Apr. 2026, To 31 Mar. 2027

  Seminar on Biochemistry ID

  7091, Fall, Graduate School of Science, 1
• From 01 Apr. 2026, To 31 Mar. 2027

  Advanced Biochemistry ID

  7195, Fall, Graduate School of Science, 1
• From 01 Apr. 2026, To 31 Mar. 2027

  Advanced Biochemistry IC

  7194, Spring, Graduate School of Science, 1
• From 01 Apr. 2026, To 31 Mar. 2027

  Special study course II (Chemistry) 16

  5643, Year-long, Faculty of Science, 12
• From 01 Apr. 2026, To 31 Mar. 2027

  Advanced Course in Molecular Biology and Biochemistry

  7031, Fall, Graduate School of Science, 2
• From 01 Apr. 2026, To 31 Mar. 2027

  Exercises in Biochemistry

  3628, Fall, Faculty of Science, 2
• From 01 Apr. 2026, To 31 Mar. 2027

  Biochemistry IV

  4614, Spring, Faculty of Science, 2
• From 01 Apr. 2026, To 31 Mar. 2027

  Chemical Laboratory B

  8635, Fall, Faculty of Science, 8