Yoshinori Akiyama

Profile Information

Affiliation: Kyoto University

Degree: 理学博士(京都大学)

ORCID ID: https://orcid.org/0000-0003-4483-5408
J-GLOBAL ID: 201401097662705880
researchmap Member ID: 7000008535

Research Areas

Life sciences / Molecular biology /

Papers

132

S2P intramembrane protease RseP degrades small membrane proteins and suppresses the cytotoxicity of intrinsic toxin HokB

Tatsuhiko Yokoyama, Yutaro Yamagata, Saisei Honna, Shinya Mizuno, Shizuka Katagiri, Rika Oi, Terukazu Nogi, Yohei Hizukuri, Yoshinori Akiyama

mBio, Jul 6, 2023 Peer-reviewedLast authorCorresponding author
Analyzing protein intermediate interactions in living E. coli cells using site-specific photo-crosslinking combined with chemical crosslinking.

Ryoji Miyazaki, Yoshinori Akiyama

STAR protocols, 4(2) 102178-102178, Mar 17, 2023 Peer-reviewedInvitedCorresponding author
Inner membrane YfgM-PpiD heterodimer acts as a functional unit that associates with the SecY/E/G translocon and promotes protein translocation.

Ryoji Miyazaki, Mengting Ai, Natusko Tanaka, Takehiro Suzuki, Naoshi Dhomae, Tomoya Tsukazaki, Yoshinori Akiyama, Hiroyuki Mori

The Journal of biological chemistry, 298(11) 102572-102572, Oct 6, 2022 Peer-reviewed
Mechanistic insights into intramembrane proteolysis by E. coli site-2 protease homolog RseP.

Yuki Imaizumi, Kazunori Takanuki, Takuya Miyake, Mizuki Takemoto, Kunio Hirata, Mika Hirose, Rika Oi, Tatsuya Kobayashi, Kenichi Miyoshi, Rie Aruga …

Science advances, 8(34) eabp9011, Aug 26, 2022 Peer-reviewedCorresponding author
Cryo-EM structure of the entire FtsH-HflKC AAA protease complex.

Zhu Qiao, Tatsuhiko Yokoyama, Xin-Fu Yan, Ing Tsyr Beh, Jian Shi, Sandip Basak, Yoshinori Akiyama, Yong-Gui Gao

Cell reports, 39(9) 110890-110890, May 31, 2022 Peer-reviewedCorresponding author
A Photo-Crosslinking Approach to Monitoring the Assembly of an LptD Intermediate with LptE in a Living Cell.

Ryoji Miyazaki, Hiroyuki Mori, Yoshinori Akiyama

Methods in molecular biology (Clifton, N.J.), 2548 97-107, 2022 Peer-reviewedInvitedCorresponding author
Edge-strand of BepA interacts with immature LptD on the β-barrel assembly machine to direct it to on- and off-pathways.

Ryoji Miyazaki, Tetsuro Watanabe, Kohei Yoshitani, Yoshinori Akiyama

eLife, 10, Aug 31, 2021 Peer-reviewedCorresponding author
Moving toward generalizable NZ-1 labeling for 3D structure determination with optimized epitope-tag insertion.

Risako Tamura-Sakaguchi, Rie Aruga, Mika Hirose, Toru Ekimoto, Takuya Miyake, Yohei Hizukuri, Rika Oi, Mika K Kaneko, Yukinari Kato, Yoshinori Akiyama …

Acta crystallographica. Section D, Structural biology, 77(Pt 5) 645-662, May 1, 2021 Peer-reviewed
The Escherichia coli S2P intramembrane protease RseP regulates ferric citrate uptake by cleaving the sigma factor regulator FecR.

Tatsuhiko Yokoyama, Tomoya Niinae, Kazuya Tsumagari, Koshi Imami, Yasushi Ishihama, Yohei Hizukuri, Yoshinori Akiyama

The Journal of biological chemistry, 296 100673-100673, Apr 15, 2021 Peer-reviewedCorresponding author
Fine interaction profiling of VemP and mechanisms responsible for its translocation-coupled arrest-cancelation.

Ryoji Miyazaki, Yoshinori Akiyama, Hiroyuki Mori

eLife, 9, Dec 15, 2020 Peer-reviewed
Reversible autoinhibitory regulation of Escherichia coli metallopeptidase BepA for selective β-barrel protein degradation.

Yasushi Daimon, Shin-Ichiro Narita, Ryoji Miyazaki, Yohei Hizukuri, Hiroyuki Mori, Yoshiki Tanaka, Tomoya Tsukazaki, Yoshinori Akiyama

Proceedings of the National Academy of Sciences of the United States of America, 117(45) 27989-27996, Nov 10, 2020 Peer-reviewedCorresponding author
A photo-cross-linking approach to monitor protein dynamics in living cells.

Ryoji Miyazaki, Yoshinori Akiyama, Hiroyuki Mori

Biochimica et biophysica acta. General subjects, 1864(2) 129317-129317, Feb, 2020 Peer-reviewed
Involvement of a Membrane-Bound Amphiphilic Helix in Substrate Discrimination and Binding by an Escherichia coli S2P Peptidase RseP.

Takuya Miyake, Yohei Hizukuri, Yoshinori Akiyama

Frontiers in microbiology, 11 607381-607381, 2020 Peer-reviewedCorresponding author
Identification of an internal cavity in the PhoQ sensor domain for PhoQ activity and SafA-mediated control.

Yoshitani K, Ishii E, Taniguchi K, Sugimoto H, Shiro Y, Akiyama Y, Kato A, Utsumi R, Eguchi Y

Bioscience, biotechnology, and biochemistry, 83(4) 684-694, Apr, 2019 Peer-reviewed
An in vivo protease activity assay for investigating the functions of the Escherichia coli membrane protease HtpX.

Yoshitani K, Hizukuri Y, Akiyama Y

FEBS letters, 593(8) 842-851, Apr, 2019 Peer-reviewedCorresponding author
Structural Basis for the Function of the β-Barrel Assembly-Enhancing Protease BepA.

Shahrizal M, Daimon Y, Tanaka Y, Hayashi Y, Nakayama S, Iwaki S, Narita SI, Kamikubo H, Akiyama Y, Tsukazaki T

Journal of molecular biology, 431(3) 625-635, Feb, 2019 Peer-reviewedCorresponding author
Heat shock transcription factor σ³² defective in membrane transport can be suppressed by transposon insertion into genes encoding a restriction enzyme subunit or a putative autotransporter in Escherichia coli.

Yura T, Miyazaki R, Fujiwara K, Ito K, Chiba S, Mori H, Akiyama Y

Genes & genetic systems, 93(6) 229-235, Jan, 2019 Peer-reviewedCorresponding author
Identification and characterization of a translation arrest motif in VemP by systematic mutational analysis

Hiroyuki Mori, Sohei Sakashita, Jun Ito, Eiji Ishii, Yoshinori Akiyama

Journal of Biological Chemistry, 293(8) 2915-2926, Feb 23, 2018 Peer-reviewed
A photo-cross-linking approach to monitor folding and assembly of newly synthesized proteins in a living cell

Ryoji Miyazaki, Naomi Myougo, Hiroyuki Mori, Yoshinori Akiyama

Journal of Biological Chemistry, 293(2) 677-686, Jan 12, 2018 Peer-reviewedCorresponding author
The TPR domain of BepA is required for productive interaction with substrate proteins and the -barrel assembly machinery complex

Yasushi Daimon, Chigusa Iwama-Masui, Yoshiki Tanaka, Takuya Shiota, Takehiro Suzuki, Ryoji Miyazaki, Hiroto Sakurada, Trevor Lithgow, Naoshi Dohmae, Hiroyuki Mori …

MOLECULAR MICROBIOLOGY, 106(5) 760-776, Dec, 2017 Peer-reviewedCorresponding author

Misc.

169

細菌の遺伝子発現制御の新展開ビブリオ属細菌における翻訳アレストを介した遺伝子発現制御

石井英治, 松田重輝, 飯田哲也, 秋山芳展, 森博幸

日本細菌学雑誌, 78(1) 32-32, Feb, 2023
細菌膜内切断プロテアーゼRsePの基質取り込み・切断時におけるダイナミックな構造変化モデル

三宅拓也, 今泉友希, 高貫一徳, 小林達也, 横山達彦, 大井里香, 檜作洋平, 禾晃和, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 95回 1T07a-07, Nov, 2022
バクテリアの表層変化と生存戦略細菌パーシスター化における膜内切断プロテアーゼRsePの役割生理学的及び構造学的アプローチ

檜作洋平, 横山達彦, 三宅拓也, 小林達也, 今泉友希, 高貫一徳, 大井里香, 禾晃和, 秋山芳展

日本細菌学雑誌, 77(1) 19-19, Feb, 2022
A novel physiological function of RseP, an E. coli intramembrane protease: Transcriptional activation of genes involved in iron uptake through the cleavage of FecR.

横山達彦, 新苗智也, 津曲和哉, 今見考志, 石濱泰, 檜作洋平, 秋山芳展

日本農芸化学会大会講演要旨集(Web), 2021, 2021
PiXie Analysis for Monitoring Dynamic Protein Interaction and Folding in a Living Cell

MIYAZAKI Ryoji, MORI Hiroyuki, AKIYAMA Yoshinori

Seibutsu Butsuri, 61(1) 36-39, 2021
TAシステムを介した細菌の休眠と覚醒:生化学と一細胞解析の融和を目指したアプローチ大腸菌膜内切断プロテアーゼRsePを介したTA systemの制御細胞休眠・覚醒における意義

檜作洋平, 横山達彦, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 93回 [3S10m-01], Sep, 2020
細菌の外膜生合成と品質管理に関わる2機能性プロテアーゼBepAの基質認識機構

宮崎亮次, 吉谷亘平, 森博幸, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 93回 [P-188], Sep, 2020
バクテリアの表層構造の構築と機能大腸菌内膜で働く膜内切断プロテアーゼRsePの新規切断基質探索パーシスター化制御への関与

檜作洋平, 横山達彦, 秋山芳展

日本細菌学雑誌, 75(1) 15-15, Jan, 2020
大腸菌S2PファミリープロテアーゼRsePの基質探索:鉄取り込みに関与する転写制御因子の切断とその生理的意義

横山達彦, 新苗智也, 津曲和哉, 今見考志, 石濱泰, 檜作洋平, 秋山芳展

日本生化学会大会(Web), 93rd [1Z04-189)], 2020
Promotion of mRNA degradation by the nascent polypeptide chain-dependent membrane localization in bacteria

石井英治, 石井英治, 秋山芳展, 森博幸

日本農芸化学会大会講演要旨集(Web), 2020, 2020
バクテリアの表層構造の構築と機能大腸菌内膜で働く膜内切断プロテアーゼRsePの新規切断基質探索パーシスター化制御への関与

檜作洋平, 横山達彦, 秋山芳展

日本細菌学雑誌, 75(1) 15-15, Jan, 2020
FRET蛍光ペプチドを用いた大腸菌S2Pファミリー膜内切断プロテアーゼのリアルタイム切断kinetics計測系の構築

檜作洋平, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 92回 [1P-080], Sep, 2019
大腸菌膜内切断プロテアーゼRsePの新規基質切断とその生理的意義低分子膜タンパク質HokBの切断を介したパーシスター形成制御

横山達彦, 檜作洋平, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 92回 [1P-081], Sep, 2019
大腸菌膜内切断プロテアーゼRsePの基質切断と構造維持に重要な膜表在・両親媒性ヘリックスの解析

三宅拓也, 檜作洋平, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 92回 [1P-082], Sep, 2019
改良型部位特異的in vivo光架橋法による生細胞内での翻訳途上ポリペプチド鎖の相互作用動態解析

宮崎亮次, 秋山芳展, 森博幸

日本生化学会大会プログラム・講演要旨集, 92回 [2P-076], Sep, 2019
FRET蛍光ペプチドを用いた大腸菌S2Pファミリー膜内切断プロテアーゼのリアルタイム切断kinetics計測系の構築

檜作洋平, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 92回 [1P-080], Sep, 2019
大腸菌膜内切断プロテアーゼRsePの新規基質切断とその生理的意義低分子膜タンパク質HokBの切断を介したパーシスター形成制御

横山達彦, 檜作洋平, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 92回 [1P-081], Sep, 2019
大腸菌膜内切断プロテアーゼRsePの基質切断と構造維持に重要な膜表在・両親媒性ヘリックスの解析

三宅拓也, 檜作洋平, 秋山芳展

日本生化学会大会プログラム・講演要旨集, 92回 [1P-082], Sep, 2019
改良型部位特異的in vivo光架橋法による生細胞内での翻訳途上ポリペプチド鎖の相互作用動態解析

宮崎亮次, 秋山芳展, 森博幸

日本生化学会大会プログラム・講演要旨集, 92回 [2P-076], Sep, 2019
大腸菌PhoQセンサードメインのSDポケットの構造と機能

吉谷亘平, 石井英治, 吉谷亘平, 石井英治, 谷口勝英, 杉本宏, 杉本宏, 城宜嗣, 秋山芳展, 加藤明宣 …

日本農芸化学会大会講演要旨集(Web), 2019, 2019

Books and Other Publications

FtsH

Teru Ogura, Tkashi Okuno, Ryoji Suno, Yoshinori Akiyama (Role: Contributor)

Elsevier Ltd, 2013
HtpX

Yoshinori Akiyama, Koreaki Ito (Role: Contributor)

Elsevier Ltd, 2013
RseP

Yohei Hizukuri, Koraki Ito, Yoshinori Akiyama (Role: Contributor)

Elsevier Ltd, 2013

Research Projects

大腸菌BepAによる外膜タンパク質トリアージ機構とその制御

科学研究費助成事業, 基盤研究(B), 日本学術振興会, Apr, 2022 - Mar, 2026

秋山芳展, 森博幸
Physiological functions and selective substrate-cleavage mechanism of E. coli intramembrane protease RseP

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, Apr, 2018 - Mar, 2021

Akiyama Yoshinori
Molecular mechanism for quality control of bacterial outer membrane by the periplasmic protease BepA

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (C), Japan Society for the Promotion of Science, Apr, 2015 - Mar, 2018

Narita Shin-ichiro, AKIYAMA Yoshinori, DAIMON Yasushi
Mechanism of selective substrate cleqvage and novel cellular functions ofintramembrane protease RseP

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, Apr, 2015 - Mar, 2018

Akiyama Yoshinori
Elucidation of substrate recognition mechanism of I-CLiP in the trans- and juxta-membrane regions

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, Apr, 2014 - Mar, 2018

NOGI Terukazu, AKIYAMA Yoshinori, HIZUKURI Yohei, OI Rika, TAKANUKI Kazunori, TAMURA Risako
ビブリオ菌における新生鎖機能を介したタンパク質膜透過の制御

科学研究費助成事業, 新学術領域研究(研究領域提案型), 日本学術振興会, Apr, 2015 - Mar, 2017

秋山芳展
Analysis of a chaperone/protease involved in quality control of bacterial cell surface

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (C), Japan Society for the Promotion of Science, Apr, 2012 - Mar, 2015

NARITA Shin-ichiro, AKIYAMA Yoshinori, DAIMON Yasushi
A novel regulation mechanism of cellular functions by intramembrane proteolysis

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, Apr, 2012 - Mar, 2015

AKIYAMA Yoshinori, MORI Hiroyuki
Degradation mechanisms of sigma 32 by membrane targeting via SRP pathway

Grants-in-Aid for Scientific Research, Grant-in-Aid for Challenging Exploratory Research, Japan Society for the Promotion of Science, 2011 - 2012

MORI Hiroyuki, AKIYAMA Yoshinori, ITO Koreaki
SecDF function and roles of the proton motive force in protein translocation

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, 2010 - 2012

MORI Hiroyuki, AKIYAMA Yoshinori, TSUKAZAKI Tomoya, MINAMINO Tohru
Nascent chain biology

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (A), Japan Society for the Promotion of Science, 2008 - 2012

ITO Koreaki, CHIBA Shinobu, AKIYAMA Yoshinori, MORI Hiroyuki
Quality control of E. coli membrane proteins

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research on Priority Areas, Japan Society for the Promotion of Science, 2007 - 2011

AKIYAMA Yoshinori, MORI Hiroyuki
膜内切断(RIP)プロテアーゼの細胞機能

科学研究費助成事業, 特定領域研究, 日本学術振興会, 2009 - 2010

千葉志信, 秋山芳展
X-ray Crystallographic analysis of membrane-bound AAA+ protease FtsH

Grants-in-Aid for Scientific Research, Grant-in-Aid for Young Scientists (B), Japan Society for the Promotion of Science, 2009 - 2010

SUNO Ryoji, AKIYAMA Yoshinori, IWATA So
Analysis of the membrane stress response in E. coli

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, 2008 - 2010

AKIYAMA Yoshinori, MORI Hiroyuki
大腸菌膜内切断(RIP)プロテアーゼの細胞機能と制御

科学研究費助成事業, 特定領域研究, 日本学術振興会, 2007 - 2008

秋山芳展
Molecular mechanism ofreguLaled inframembrane proteolysis (RIP)

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, 2005 - 2007

AKIYAMA Yoshinori
Cellular systems that control protein dynamism across the membrane

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research on Priority Areas, Japan Society for the Promotion of Science, 2002 - 2006

ITO Koreaki, AKIYAMA Yoshinori, MORI Hiroyuki
Control of extracytoplasmic stress responses by regulated intramembrane proteolysis

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, 2003 - 2004

AKIYAMA Yoshinori
Regulation mechanism of the DsbA/DsbB system that catalyzes disulfine bond formation

Grants-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Japan Society for the Promotion of Science, 2000 - 2001

ITO Koreaki, MORI Hiroyuki, AKIYAMA Yoshinori

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