Publications
26. ‘Tuning’ of ribosome levels mediated by RNase I and hibernating ribosomes.
Minami A, Tanzawa T*, Yang Z, Funatsu T, Kuzuyama T, Yoshida H, Kato T, Ogawa T*.
bioRxiv. 2024 doi: 10.1101/2024.07.29.605612.
25. Establishment of the improved colonization of Escherichia coli laboratory strain in the intestine mediated by single gene deletion.
Minami A, Asai T, Tachibana T, Tanaka Y, Nakajima M, Tamura S, Nakazawa M, Tsuru Y, Fujiyama Y, Tagawa YI, Kuzuyama T, Kakuta S*, Ogawa T*.
Biochem Biophys Res Commun. 2024 Nov 19;734:150448. doi: 10.1016/j.bbrc.2024.150448.
24. QM/MM Study of the Catalytic Mechanism and Substrate Specificity of the Aromatic Substrate C-Methyltransferase Fur6.
Zhao F, Moriwaki Y, Noguchi T, Shimizu K, Kuzuyama T, Terada T*.
Biochemistry. 2024 Mar 19;63(6):806. doi: 10.1021/acs.biochem.3c00556.
23. RNase T2-involved selective autophagy of ribosomes induced by starvation in yeast.
Minami A, Nishi K, Yamada R, Jinnai G, Shima H, Oishi S, Akagawa H, Aono T, Hidaka M, Masaki H, Kuzuyama T, Noda Y, Ogawa T*.
bioRxiv. 2023 doi: 10.1101/2023.07.14.548783.
22. Discovery of type II polyketide synthase-like enzymes for the biosynthesis of cispentacin.
Hibi G, Shiraishi T, Umemura T, Nemoto K, Ogura Y, Nishiyama M, Kuzuyama T*.
Nat Commun. 2023 Dec 6;14(1):8065. doi: 10.1038/s41467-023-43731-z.
press release
21. Dethiobiotin uptake and utilization by bacteria possessing bioYB operon.
Ikeda T, Ogawa T, Aono T*.
Res Microbiol. 2023 Nov-Dec;174(8):104131. doi: 10.1016/j.resmic.2023.104131.
20. Substrate Recognition Mechanism of a Trichostatin A-Forming Hydroxyamidotransferase.
Nagata R*, Nishiyama M, Kuzuyama T*.
Biochemistry 2023 Jun 20;62(12):1833-1837. doi: 10.1021/acs.biochem.3c00025.
Selected as Front Cover Art!
19. Complete Biosynthetic Pathway of the Phosphonate Phosphonothrixin: Two Distinct Thiamine Diphosphate-Dependent Enzymes Divide the Work to Form a C–C Bond.
Zhu Y, Shiraishi T, Lin J, Inaba K, Ito A, Ogura Y, Nishiyama M, Kuzuyama T*.
J Am Chem Soc. 2022 Sep 21;144(37):16715-16719. doi: 10.1021/jacs.2c06546.
This article was introduced in “Hot of the press”(Natural Product Reports)
18. Cryptic Oxidative Transamination of Hydroxynaphthoquinone in Natural Product Biosynthesis.
Noguchi T, Isogai S, Terada T, Nishiyama M, Kuzuyama T*.
J Am Chem Soc. 2022 Mar 30;144(12):5435-5440. doi: 10.1021/jacs.1c13074.
press release
17. Structural Basis for the Prenylation Reaction of Carbazole-Containing Natural Products Catalyzed by Squalene Synthase-like Enzymes.
Nagata R, Suemune H, Kobayashi M, Shinada T, Shin-ya K, Nishiyama M, Hino T, Sato Y, Kuzuyama T*, Nagano S*.
Angew Chem Int Ed Engl. 2022 Mar 9:61(20):e202117430. doi: 10.1002/anie.202117430.
press release
16. Total Synthesis and Stereochemistry Assignment of Nucleoside Antibiotic A-94964.
Shao X, Zheng C, Xu P, Shiraishi T, Kuzuyama T, Molinaro A, Silipo A, Yu B.
Angew Chem Int Ed Engl. 2022 Mar 28;61(14):e202200818. doi: 10.1002/anie.202200818.
15. Biosynthesis of the nucleoside antibiotic angustmycins: identification and characterization of the biosynthetic gene cluster reveal unprecedented dehydratase required for exo-glycal formation.
Shiraishi T, Xia J, Kato T, Kuzuyama T.*
J Antibiot. 2021 Nov;74(11):830-833. doi: 10.1038/s41429-021-00466-7.
14. A novel oxazole-containing tetraene compound, JBIR-159, produced by heterologous expression of the cryptic trans-AT type polyketide synthase biosynthetic gene cluster.
Hashimoto T, Hashimoto J, Kagaya N, Nishimura T, Suenaga H, Nishiyama M, Kuzuyama T, Shin-ya K.*
J Antibiot. 2021 May;74(5):354-358. doi: 10.1038/s41429-021-00410-9.
13. Biosynthetic pathways and enzymes involved in the production of phosphonic acid natural products.
Shiraishi T, Kuzuyama T.*
Biosci Biotechnol Biochem. 2021 Jan 7;85(1):42-52. doi: 10.1093/bbb/zbaa052.
Selected as a cover picture!
12. Reconstitution of a Highly Reducing Type II PKS System Reveals 6π-Electrocyclization Is Required for o-Dialkylbenzene Biosynthesis.
Zhang J, Yuzawa S, Thong WL, Shinada T, Nishiyama M, Kuzuyama T.*
J Am Chem Soc. 2021 Fub 24;143(7):2962-2969. doi: 10.1021/jacs.0c13378.
press release
11. Substrate recognition mechanism of tRNA-targeting ribonuclease, colicin D, and an insight into tRNA cleavage-mediated translation impairment.
Ogawa T, Takahashi K, Ishida W, Aono T, Hidaka M, Terada T, Masaki H.*
RNA Biol. 2021 Aug;18(8):1193-1205. doi: 10.1080/15476286.2020.1838782.
press release
10. Recent advances in the biosynthesis of nucleoside antibiotics.
Shiraishi T, Kuzuyama T.*
J Antibiot. 2019 Dec;72(12):913-923. doi: 10.1038/s41429-019-0236-2.
9. An Unusual Skeletal Rearrangement in the Biosynthesis of the Sesquiterpene Trichobrasilenol from Trichoderma.
Murai K,† Lauterbach L,† Teramoto K, Quan Z, Barra L, Yamamoto T, Nonaka K, Shiomi K, Nishiyama M, Kuzuyama T,* Dickschat JS.*
Angew Chem Int Ed Engl. 2019 Aug 16. doi: 10.1002/anie.201907964.
8. An Unprecedented Cyclization Mechanism in the Biosynthesis of Carbazole Alkaloids in Streptomyces.
Kobayashi M, Tomita T, Shin-ya K, Nishiyama M, Kuzuyama T.*
Angew Chem Int Ed Engl. 2019 Jul 26. doi: 10.1002/anie.201906864.
7. Biochemical characterization of archaeal homocitrate synthase from Sulfolobus acidocaldarius.
Suzuki T, Akiyama N, Yoshida A, Tomita T, Lassak K, Haurat MF, Okada T, Takahashi K, Albers SV, Kuzuyama T, Nishiyama M.*
FEBS Lett. 2019 Jul 22. doi: 10.1002/1873-3468.13550.
6. Comprehensive Derivatization of Thioviridamides by Heterologous Expression.
Kudo K, Koiwai H, Kagaya N, Nishiyama M, Kuzuyama T, Shin-ya K, Ikeda H.*
ACS Chem Biol. 2019 Jun 21;14(6):1135-1140. doi: 10.1021/acschembio.9b00330.
5. The Amipurimycin and Miharamycin Biosynthetic Gene Clusters: Unraveling the Origins of 2-Aminopurinyl Peptidyl Nucleoside Antibiotics.
Romo AJ,† Shiraishi T,† Ikeuchi H, Lin GM, Geng Y, Lee YH, Liem PH, Ma T, Ogasawara Y, Shin-ya K, Nishiyama M, Kuzuyama T,* Liu HW.*
J Am Chem Soc. 2019 May 31. doi: 10.1021/jacs.9b03021.
4. Glutamate Dehydrogenase from Thermus thermophilus Is Activated by AMP and Leucine as a Complex with Catalytically Inactive Adenine Phosphoribosyltransferase Homolog.
Tomita T, Matsushita H, Yoshida A, Kosono S, Yoshida M, Kuzuyama T, Nishiyama M.*
J Bacteriol. 2019 Jun 21;201(14). pii: e00710-18. doi: 10.1128/JB.00710-18.
3. Protein acetylation on 2-isopropylmalate synthase from Thermus thermophilus HB27.
Yoshida A, Yoshida M, Kuzuyama T, Nishiyama M, Kosono S.*
Extremophiles. 2019 Jul;23(4):377-388. doi: 10.1007/s00792-019-01090-y.
2. Biosynthesis of the uridine-derived nucleoside antibiotic A-94964: identification and characterization of the biosynthetic gene cluster provide insight into the biosynthetic pathway.
Shiraishi T, Nishiyama M, Kuzuyama T.*
Org Biomol Chem. 2019 Jan 16;17(3):461-466. doi: 10.1039/c8ob02765j.
1. Structural and Mechanistic Insight into Terpene Synthases that Catalyze the Irregular Non-Head-to-Tail Coupling of Prenyl Substrates.
Kobayashi M, Kuzuyama T.*
Chembiochem. 2019 Jan 2;20(1):29-33. doi: 10.1002/cbic.201800510.
Awards
- 2024/03/22
Taiyo Kuramoto(B4) the Dean’s Award / FY2023 Faculty of Agriculture, UTokyo - 2024/03/21
Dr. Genki Hibi(D3) the Dean’s Award / FY2023 Graduate School of Agricultural and Life Sciences, UTokyo - 2023/09/29
Jiayi Yu(D2) the Presentation Award / 33rd Annual Meeting of the Society for Isoprenoids Japan - 2023/09/07
Dr. Taro Shiraishi(Assistant Professor) the 2023 Hamada Award / Society for Actinomycetes Japan - 2023/07/07
Atsushi Minami(D3) the Organizer Award / 24th Annual Meeting of the RNA Society of Japan - 2023/03/14
Yuxun Zhu(D2) the Topics Award / 2023 annual meeting of JSBBA - 2022/09/29
Atsushi Minami(D2) picked up to a symposium / the 60th Annual Meeting of the Biophysical Society of Japan - 2022/09/16
Yuxun Zhu(D2) the Outstanding Poster Award / 2022 Annual Meeting of the Society for Actinomycetes Japan - 2022/08/27
Genki Hibi(D2) the Outstanding Presentation Award / 2022 JSBBA Kanto Blanch annual meeting - 2022/06/30
Yuxun Zhu(D2) the Outstanding Presentation Award / 4th Global Innovation Workshop
Hao Xu(M2) the Poster Award / 4th Global Innovation Workshop - 2022/03/17
Genki Hibi(D1) the Topics Award / 2022 annual meeting of JSBBA - 2021/11/05
Tomohiro Noguchi(D3) the Encouragement Award / the 63rd Symposium on the Chemistry of Natural Products - 2021/09/18
Dr. Satoshi Yuzawa(Collaborative Researcher) the 2021 Hamada Award / Society for Actinomycetes Japan - 2021/08/28
Tomohiro Noguchi(D3) the Outstanding Presentation Award / 2021 JSBBA Kanto Blanch annual meeting - 2020/11/10
Atsushi Minami(M2) Outstanding Presentation Award / 2nd Global Innovation Workshop - 2020/10/30
Daisuke Yoshidome(D3) the Outstanding Poster Award / the 20th University of Tokyo Life Science Symposium