SHIMADA Tomohiro 島田友裕

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Shimada Tomohiro 島田友裕

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Researcher Number	10535230
Other IDs
Affiliation (Current)	2025: 明治大学, 農学部, 専任教授
Affiliation (based on the past Project Information) *help	2020 – 2023: 明治大学, 農学部, 専任准教授 2017 – 2019: 明治大学, 農学部, 専任講師 2016: 東京工業大学, 科学技術創成研究院, 助教 2012 – 2014: 東京工業大学, 資源化学研究所, 助教 2009 – 2010: Hosei University, マイクロ・ナノテクノロジー研究センター, 研究員
Review Section/Research Field	Principal Investigator Basic Section 43050:Genome biology-related / Genome biology / Genome biology / 基礎ゲノム科学
Keywords	Principal Investigator 大腸菌 / Genomic SELEX / ゲノム転写制御 / RNAポリメラーゼ / Constitutive promoter / プロモーター / 遺伝子発現 / シグマ因子 / 転写因子CRP / YgfI … More / SrsR / YegW / GgaR / グリコーゲン代謝 / Genomic SELEX法 / 機能未知転写因子 / 転写制御ネットワーク / NtrC / RpoN / gSELEX / 窒素欠乏 / gSELEX法 / Repressive promoter / シグマ因子RpoN / 遺伝子発現調節 / ゲノム生物学 / Genomic SELEX (gSELEX) / Inducible promoter / constitutive promoter / 転写制御 / ゲノム / 代謝制御 / 100Sリボソーム / RMF / アセチル化 / CRP / 転写因子Cra / バイオフィルム / SELEX-chip / サルファ剤耐性遺伝子 / 薬剤耐性 / 転写因子LeuO / 病原性細菌 / 転写 / ゲノム発現制御 Less

Identification of the regulatory network of all functionally unknown transcription factors in Escherichia coli.Principal Investigator
- Principal Investigator
  
  島田友裕
- Project Period (FY)
  2022 – 2024
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 43050:Genome biology-related
- Research Institution
  Meiji University
Identification of the whole set of the constitutive promoters in Escherichia coliPrincipal Investigator
- Principal Investigator
  
  Shimada Tomohiro
- Project Period (FY)
  2019 – 2021
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 43050:Genome biology-related
- Research Institution
  Meiji University
Identification of the whole set of constitutive promoters in Escherichia coliPrincipal Investigator
- Principal Investigator
  
  Shimada Tomohiro
- Project Period (FY)
  2016 – 2018
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Genome biology
- Research Institution
  Meiji University
  Tokyo Institute of Technology
Role of acetylation of transcription factor CRP in network of metabolic regulationPrincipal Investigator
- Principal Investigator
  
  SHIMADA Tomohiro
- Project Period (FY)
  2012 – 2014
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Genome biology
- Research Institution
  Tokyo Institute of Technology
Analysis of Transcriptional Regulation of Genome by Pathogenicity Transcription Factor LeuO.Principal Investigator
- Principal Investigator
  
  SHIMADA Tomohiro
- Project Period (FY)
  2009 – 2010
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  基礎ゲノム科学
- Research Institution
  Hosei University

[Book] Genomic SELEX for the genome-wide search of regulation targets by transcription factors : SELEX-clos and SELEX-chip procedures. In: Micro- and Nano-Mechatronics and Human Science (Fukuda, T. eds.)2009
- Author(s)
  Shimada, T., et al.
- Data Source
  KAKENHI-PROJECT-21710198
[Journal Article] Regulatory Role of GgaR (YegW) for Glycogen Accumulation in Escherichia coli K-122024
- Author(s)
  Saito Shunsuke、Kobayashi Ikki、Hoshina Motoki、Uenaka Emi、Sakurai Atsushi、Imamura Sousuke、Shimada Tomohiro
- Journal Title
  
  Microorganisms
  
  Volume: 12 Issue: 1 Pages: 115-115
- DOI
  10.3390/microorganisms12010115
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22K06184
[Journal Article] Metal-Responsive Transcription Factors Co-Regulate Anti-Sigma Factor (Rsd) and Ribosome Dimerization Factor Expression2023
- Author(s)
  Yoshida Hideji、Shimada Tomohiro、Ishihama Akira
- Journal Title
  
  International Journal of Molecular Sciences
  
  Volume: 24 Issue: 5 Pages: 4717-4717
- DOI
  10.3390/ijms24054717
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22K06184
[Journal Article] Overview of the Molecular Mechanism of Bacterial Environmental Adaptation by Comprehensive Analysis2023
- Author(s)
  Shimada Tomohiro、Yoshida Hideji
- Journal Title
  
  International Journal of Molecular Sciences
  
  Volume: 24 Issue: 8 Pages: 7602-7602
- DOI
  10.3390/ijms24087602
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22K06184
[Journal Article] Expanded roles of lactate-sensing LldR in transcription regulation of the Escherichia coli K-12 genome: lactate utilisation and acid resistance2023
- Author(s)
  Anzai Takumi、Kijima Kaede、Fujimori Miki、Nakamoto Soma、Ishihama Akira、Shimada Tomohiro
- Journal Title
  
  Microbial Genomics
  
  Volume: 9 Issue: 5
- DOI
  10.1099/mgen.0.001015
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22K06184
[Journal Article] Genomic SELEX Reveals Pervasive Role of the Flagella Master Regulator FlhDC in Carbon Metabolism2023
- Author(s)
  Takada Hiraku、Kijima Kaede、Ishiguro Akira、Ishihama Akira、Shimada Tomohiro
- Journal Title
  
  International Journal of Molecular Sciences
  
  Volume: 24 Issue: 4 Pages: 3696-3696
- DOI
  10.3390/ijms24043696
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22K06184, KAKENHI-PROJECT-23K05017
[Journal Article] Cell-growth phase-dependent promoter replacement approach for improved poly(lactate-co-3-hydroxybutyrate) production in Escherichia coli2023
- Author(s)
  Nagao Yuki、Koh Sangho、Taguchi Seiichi、Shimada Tomohiro
- Journal Title
  
  Microbial Cell Factories
  
  Volume: 22 Issue: 1 Pages: 131-131
- DOI
  10.1186/s12934-023-02143-w
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-23K13870, KAKENHI-PROJECT-22K06184
[Journal Article] Transcription Factor SrsR (YgfI) Is a Novel Regulator for the Stress-Response Genes in Stationary Phase in Escherichia coli K-122022
- Author(s)
  Kobayashi Ikki、Mochizuki Kenji、Teramoto Jun、Imamura Sousuke、Takaya Kazuhiro、Ishihama Akira、Shimada Tomohiro
- Journal Title
  
  International Journal of Molecular Sciences
  
  Volume: 23 Issue: 11 Pages: 6055-6055
- DOI
  10.3390/ijms23116055
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22K06184
[Journal Article] Whole set of constitutive promoters for RpoN sigma factor and the regulatory role of its enhancer protein NtrC in Escherichia coli K-122021
- Author(s)
  Shimada Tomohiro、Furuhata Shun、Ishihama Akira
- Journal Title
  
  Microbial Genomics
  
  Volume: 7 Issue: 11
- DOI
  10.1099/mgen.0.000653
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19K06618
[Journal Article] Hierarchy of transcription factor network in <i>Escherichia coli</i> K-12: H-NS-mediated silencing and Anti-silencing by global regulators2021
- Author(s)
  Ishihama Akira、Shimada Tomohiro
- Journal Title
  
  FEMS Microbiology Reviews
  
  Volume: 45 Issue: 6
- DOI
  10.1093/femsre/fuab032
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19K06618
[Journal Article] Single-Target Regulators Constitute the Minority Group of Transcription Factors in Escherichia coli K-122021
- Author(s)
  Shimada Tomohiro、Ogasawara Hiroshi、Kobayashi Ikki、Kobayashi Naoki、Ishihama Akira
- Journal Title
  
  Frontiers in Microbiology
  
  Volume: 12
- DOI
  10.3389/fmicb.2021.697803
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19K06618
[Journal Article] Expanded roles of pyruvate-sensing PdhR in transcription regulation of the Escherichia coli K-12 genome: fatty acid catabolism and cell motility2020
- Author(s)
  Anzai Takumi、Imamura Sousuke、Ishihama Akira、Shimada Tomohiro
- Journal Title
  
  Microbial Genomics
  
  Volume: 6 Issue: 10
- DOI
  10.1099/mgen.0.000442
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19K06618
[Journal Article] Regulatory role of CsqR (YihW) in transcription of the genes for catabolism of the anionic sugar sulfoquinovose (SQ) in Escherichia coli K-122019
- Author(s)
  Shimada Tomohiro、Yamamoto Kaneyoshi、Nakano Masahiro、Watanabe Hiroki、Schleheck David、Ishihama Akira
- Journal Title
  
  Microbiology
  
  Volume: 165 Issue: 1 Pages: 78-89
- DOI
  10.1099/mic.0.000740
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07195
[Journal Article] Regulatory Role of PlaR (YiaJ) for Plant Utilization in Escherichia coli K-122019
- Author(s)
  Shimada Tomohiro、Yokoyama Yui、Anzai Takumi、Yamamoto Kaneyoshi、Ishihama Akira
- Journal Title
  
  Scientific Reports
  
  Volume: 9 Issue: 1 Pages: 20415-20415
- DOI
  10.1038/s41598-019-56886-x
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19K06618
[Journal Article] Single-target regulators form a minor group of transcription factors in Escherichia coli K-122018
- Author(s)
  Shimada Tomohiro、Ogasawara Hiroshi、Ishihama Akira
- Journal Title
  
  Nucleic Acids Research
  
  Volume: 46 Issue: 8 Pages: 3921-3936
- DOI
  10.1093/nar/gky138
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07195, KAKENHI-PROJECT-15K18670, KAKENHI-PROJECT-18K05388
[Journal Article] Altered Distribution of RNA Polymerase Lacking the Omega Subunit within the Prophages along the Escherichia coli K-12 Genome2018
- Author(s)
  Yamamoto Kaneyoshi、Yamanaka Yuki、Shimada Tomohiro、Sarkar Paramita、Yoshida Myu、Bhardwaj Neerupma、Watanabe Hiroki、Taira Yuki、Chatterji Dipankar、Ishihama Akira
- Journal Title
  
  mSystems
  
  Volume: 3 Issue: 1
- DOI
  10.1128/msystems.00172-17
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07195
[Journal Article] Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of Escherichia coli to Stationary Phase2018
- Author(s)
  Yoshida Hideji、Shimada Tomohiro、Ishihama Akira
- Journal Title
  
  mSystems
  
  Volume: 3 Issue: 5 Pages: 1-22
- DOI
  10.1128/msystems.00057-18
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07195
[Journal Article] Genomic SELEX Screening of Regulatory Targets of Escherichia coli Transcription Factors2018
- Author(s)
  Shimada Tomohiro、Ogasawara Hiroshi、Ishihama Akira
- Journal Title
  
  Methods in Molecular Biology
  
  Volume: 1837 Pages: 49-69
- DOI
  10.1007/978-1-4939-8675-0_4
- ISBN
  9781493986743, 9781493986750
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07195, KAKENHI-PROJECT-18K05388
[Journal Article] The whole set of the constitutive promoters recognized by four minor sigma subunits of Escherichia coli RNA polymerase2017
- Author(s)
  Shimada Tomohiro、Tanaka Kan、Ishihama Akira
- Journal Title
  
  PLOS ONE
  
  Volume: 12 Issue: 6 Pages: e0179181-e0179181
- DOI
  10.1371/journal.pone.0179181
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07195, KAKENHI-PUBLICLY-17H05720
[Journal Article] Regulatory role of XynR (YagI) in catabolism of xylonate in Escherichia coli K-122017
- Author(s)
  Shimada Tomohiro、Momiyama Eri、Yamanaka Yuki、Watanabe Hiroki、Yamamoto Kaneyoshi、Ishihama Akira
- Journal Title
  
  FEMS Microbiology Letters
  
  Volume: 364 Issue: 22
- DOI
  10.1093/femsle/fnx220
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07195
[Journal Article] Transcription factor DecR (YbaO) controls detoxification of L-cysteine in Escherichia coli.2016
- Author(s)
  Tomohiro Shimada, Kan Tanaka, and Akira Ishihama
- Journal Title
  
  Microbiology
  
  Volume: 162 Issue: 9 Pages: 1698-1707
- DOI
  10.1099/mic.0.000337
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K14539, KAKENHI-PROJECT-16K07195
[Journal Article] Unprecedented high-resolution view of bacterial operon architecture revealed by RNA sequencing.2014
- Author(s)
  Conway T, Creecy JP, Maddox SM, Grissom JE, Conkle TL, Shadid TM, Teramoto J, San Miguel P, Shimada T, Ishihama A, Mori H, Wanner BL.
- Journal Title
  
  MBio
  
  Volume: 5 Issue: 4
- DOI
  10.1128/mbio.01442-14
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-24710214, KAKENHI-PROJECT-25250028, KAKENHI-PROJECT-25430173
[Journal Article] The whole set of constitutive promoters recognized by RNA polymerase RpoD holoenzyme of Escherichia coli2014
- Author(s)
  Tomohiro Shimada, Yukiko Yamazaki, Kan Tanaka and Akira Ishihama
- Journal Title
  
  PLos One
  
  Volume: 9 Issue: 3 Pages: e90447-e90447
- DOI
  10.1371/journal.pone.0090447
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24248061, KAKENHI-PROJECT-24710214, KAKENHI-PROJECT-25430173
[Journal Article] Roles of cell division control factor SdiA: recognition of quorum sensing signals and modulation of transcription regulation targets2014
- Author(s)
  Tomohiro Shimada1,2,3, Kaori Shimada, Makoto Matsui, Yuichi Kitai, Jun Igarashi, Hiroaki Suga, Akira Ishihama
- Journal Title
  
  Genes to Cells
  
  Volume: 19 Issue: 5 Pages: 405-418
- DOI
  10.1111/gtc.12139
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-24710214, KAKENHI-PROJECT-25430173
[Journal Article] Regulation of the rmf gene encoding ribosome modulation factor in Escherichia coli: Involvement of cAMP receptor protein.2013
- Author(s)
  Shimada, T., Yhoshida, H. and Ishihama, A.
- Journal Title
  
  Journal of Bacteriology
  
  Volume: 印刷中
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24710214
[Journal Article] A novel regulator PgrR for switch control of peptideglycan recycling in Escherichia coli.2012
- Author(s)
  Shimada, T., Yamazaki, K. and Ishihama, A.
- Journal Title
  
  Genes to Cells
  
  Volume: 18 Issue: 2 Pages: 123-134
- DOI
  10.1111/gtc.12026
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24710214, KAKENHI-PROJECT-25430173
[Journal Article] Novel Roles of cAMP Receptor Protein (CRP) in Regulation of Transport and Metabolism of Carbon Sources2011
- Author(s)
  Tomohiro Shimada
- Journal Title
  
  PLoS ONE
  
  Volume: (掲載確定)
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21710198
[Journal Article] Novel Members of the Cra Regulon Involved in Carbon Metabolism in Escherichia coli.2011
- Author(s)
  Shimada, T., Yamamoto, K., Ishihama, A.
- Journal Title
  
  Journal of Bacteriology. 193
  
  Pages: 649-59
- URL
  http://jb.asm.org/cgi/content/full/193/3/649?view=long&pmid=21115656
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21710198
[Journal Article] Novel Members of the cAMP Receptor Protein (CRP) Regulon for Transport and Metabolism of Carbon Sources.2011
- Author(s)
  Shimada, T., Yamamoto, K., Fujita, N., Ishihama, A.
- Journal Title
  
  PLoS ONE. in press
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21710198
[Journal Article] Novel Members of the Cra Regulon Involved in Carbon Metabolism in Escherichia coli2011
- Author(s)
  Tomohiro Shimada
- Journal Title
  
  Journal of Bacteriology
  
  Volume: 193 Pages: 649-659
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21710198
[Journal Article] Involvement of the leucine response transcription factor LeuO in regulation of the genes for sulfa drug efflux.2009
- Author(s)
  Shimada, T., Yamamoto, K., Ishihama, A.
- Journal Title
  
  Journal of Bacteriology. 191
  
  Pages: 4562-71
- URL
  http://jb.asm.org/cgi/content/full/191/14/4562?view=long&pmid=19429622
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21710198
[Journal Article] Involvement of the leucine response transcription factor LeuO in regulation of the genes for sulfa drug efflux.2009
- Author(s)
  Tomohiro Shimada
- Journal Title
  
  Journal of Bacteriology. 191
  
  Pages: 4562-71
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21710198
[Patent] 転写調節による多元ポリ乳酸の合成法2022
- Inventor(s)
  島田友裕、田口精一
- Industrial Property Rights Holder
  島田友裕、田口精一
- Industrial Property Rights Type
  特許
- Industrial Property Number
  2022-021439
- Filing Date
  2022
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌における機能未知転写因子YegWによる新規グリコーゲン代謝制御2024
- Author(s)
  齋藤駿介、小林一幾、保科元気、島田友裕
- Organizer
  日本農芸化学会2024年度大会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌における遺伝子発現活性の調節による生分解性プラスチックLAHBの生産量向上及び乳酸分率制御の試み2023
- Author(s)
  長尾優輝、田口精一、島田友裕
- Organizer
  日本農芸化学会2023年度大会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 転写と翻訳を同時に制御するストレス応答転写因子2023
- Author(s)
  吉田秀司、島田友裕、牧泰史、古池晶、石浜明
- Organizer
  第１９回２１世紀大腸菌研究会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌におけるナトリウムイオン応答転写因子NhaRの新規ゲノム転写制御ネットワークおよびその生理的意義2023
- Author(s)
  出島晴翔、古幡駿、島田友裕
- Organizer
  日本農芸化学会関東支部2023年度大会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] プロモーター置換法による進化型ポリ乳酸の生産性向上2023
- Author(s)
  長尾優輝、高相昊、田口精一、島田友裕
- Organizer
  日本農芸化学会関東支部2023年度大会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌におけるクエン酸応答二成分制御系CitA/CitBによるcitrate fermentationを用いた嫌気呼吸2023
- Author(s)
  来島楓、島田友裕
- Organizer
  日本農芸化学会関東支部2023年度大会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌のCurli形成制御に関する包括的解析2023
- Author(s)
  小笠原寛、大山壮哉、松吉志、堀田修平、佐野晃太郎、石塚俊行、加藤佑輝、島田友裕、石浜明
- Organizer
  第１９回２１世紀大腸菌研究会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌における機能未知転写因子YegWによる新規グリコーゲン代謝制御2023
- Author(s)
  齋藤駿介、小林一幾、保科元気、島田友裕
- Organizer
  日本農芸化学会関東支部2023年度大会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌の機能未知転写因子の転写制御ネットワークの網羅的同定2023
- Author(s)
  島田友裕
- Organizer
  第46回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌K-12株におけるRpoN RNAPホロ酵素の”Constitutive promoter”および”Repressive promoter”の同定2023
- Author(s)
  古幡駿、石浜明、島田友裕
- Organizer
  第１７回日本ゲノム微生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌における機能未知転写因子YegWの機能解明2023
- Author(s)
  齋藤駿介、保科元気、小林一幾、石浜明、島田友裕
- Organizer
  第１７回日本ゲノム微生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌における機能未知転写因子YegWによる新規グリコーゲン代謝制御2023
- Author(s)
  齋藤駿介、小林一幾、保科元気、島田友裕
- Organizer
  第46回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌におけるクエン酸応答二成分制御系CitA/CitBを介したクエン酸嫌気呼吸によるエネルギー産生制御2023
- Author(s)
  来島楓、島田友裕
- Organizer
  第１７回日本ゲノム微生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌における遺伝子発現活性の調節による生分解性プラスチックLAHBの生産量向上および乳酸分率制御の試み2023
- Author(s)
  長尾優輝、田口精一、島田　友裕
- Organizer
  第１７回日本ゲノム微生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌におけるナトリウムイオン応答転写因子NhaRの新規ゲノム転写制御ネットワークおよびその生理的意義2023
- Author(s)
  出島晴翔、古幡駿、島田友裕
- Organizer
  第46回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌のアミロイド線維形成制御に関する包括的研究2022
- Author(s)
  小笠原寛、石塚俊行、堀田修平、山路幸太郎、大山壮哉、前川雄飛、島田友裕、石浜明
- Organizer
  第４５回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌のゲノム転写制御ネットワークの全体像2022
- Author(s)
  島田友裕
- Organizer
  第４５回日本分子生物学会年会
- Invited
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌において様々なストレス下で転写・翻訳を同時制御する転写因子群の解析2022
- Author(s)
  吉田秀司、島田友裕、牧泰史、古池晶、石浜明
- Organizer
  第４５回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌における機能未知転写因子YegWの転写制御ネットワークの解明2022
- Author(s)
  齋藤駿介、小林一幾、保科元気、石浜明、島田友裕
- Organizer
  第４５回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌K-12株におけるRpoN RNAポリメラーゼホロ酵素の”Constitutive promoter”および”Repressive promoter”の同定2022
- Author(s)
  古幡駿、石浜明、島田友裕
- Organizer
  第４５回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌における乳酸応答転写因子LldRによるゲノム転写制御ネットワークの解明2022
- Author(s)
  来島楓、安西拓実、藤森美希、中元颯馬、石浜明、島田友裕
- Organizer
  第４５回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-22K06184
[Presentation] 大腸菌K-12株のゲノム転写制御ネットワークにおけるSingle-target regulatorsの機能解析2021
- Author(s)
  島田友裕、小笠原寛、小林一幾、小林尚貴、石浜明
- Organizer
  第４４回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-19K06618
[Presentation] 大腸菌K-12株におけるRpoN RNAポリメラーゼホロ酵素の”Constitutive promoter”および”Repressive promoter”2021
- Author(s)
  古幡駿、石浜明、島田友裕
- Organizer
  第４４回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-19K06618
[Presentation] 大腸菌K-12株における新規定常期ストレス応答転写因子YgfIの機能解明2021
- Author(s)
  小林一幾、石浜明、島田友裕
- Organizer
  第４４回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-19K06618
[Presentation] アンチシグマ因子(Rsd)とリボソーム二量体化因子(RMF)の発現を同時制御する金属応答転写因子2021
- Author(s)
  吉田秀司、島田友裕、牧泰史、石浜明
- Organizer
  第４４回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-19K06618
[Presentation] 大腸菌K-12株における機能未知転写因子YiaUの制御標的遺伝子群の同定と機能解明2021
- Author(s)
  真島友希、村山里枝、石浜明、島田友裕
- Organizer
  第４４回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-19K06618
[Presentation] Expanded roles of pyruvate-sensing PdhR in transcription regulation of Escherichia coli K-12 genome2021
- Author(s)
  安西拓実、今村壮輔、石浜明、島田友裕
- Organizer
  日本農芸化学会2020年度大会
- Data Source
  KAKENHI-PROJECT-19K06618
[Presentation] Expanded roles of pyruvate-sensing PdhR in transcription regulation of Escherichia coli K-12 genome: fatty acid catabolism and cell motility2020
- Author(s)
  安西拓実、今村壮輔、石浜明、島田友裕
- Organizer
  第４３回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-19K06618
[Presentation] 大腸菌における植物由来化合物を利用するためのグローバルレギュレーターPlaR(YiaJ)のゲノム転写制御ネットワークの解明2020
- Author(s)
  島田友裕、安西拓実、石浜明
- Organizer
  第１４回日本ゲノム微生物学会年会
- Data Source
  KAKENHI-PROJECT-19K06618
[Presentation] TetR-family大腸菌転写因子RcdAによるbiofilm master regulator遺伝子csgD発現活性化機構の解明2018
- Author(s)
  堀田修平、島田友裕、平田章、石浜明、小笠原寛
- Organizer
  第４１回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-16K07195
[Presentation] Genomic SELEX法を用いた大腸菌転写制御ネットワークの解明2018
- Author(s)
  島田友裕
- Organizer
  遺伝研研究会
- Data Source
  KAKENHI-PROJECT-16K07195
[Presentation] 大腸菌K-12株のゲノム転写制御ネットワークにおけるSingle-target regulatorsの機能解析2018
- Author(s)
  島田友裕、小笠原寛、石浜明
- Organizer
  第４１回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-16K07195
[Presentation] 100Sリボソームの形成に関与する転写因子2018
- Author(s)
  吉田秀司、島田友裕、牧泰史、古池晶、上田雅美、和田千恵子、和田明、石浜明
- Organizer
  第４１回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-16K07195
[Presentation] Genomic SELEX法を用いた大腸菌転写制御ネットワークの解明2018
- Author(s)
  島田友裕
- Organizer
  第１７回微生物研究会
- Invited
- Data Source
  KAKENHI-PROJECT-16K07195
[Presentation] 大腸菌におけるメタボリックスイッチ制御機構の解明2015
- Author(s)
  島田友裕、山梨智也、鮒信学、田中寛
- Organizer
  日本農芸化学会2015年度大会
- Place of Presentation
  岡山大学津島キャンパス
- Year and Date
  2015-03-27
- Data Source
  KAKENHI-PROJECT-24710214
[Presentation] 大腸菌RNAポリメラーゼRpoDホロ酵素によって認識されるConstitutive promotersの探索と解析2014
- Author(s)
  島田　友裕, 山崎　由紀子, 田中　寛, 石浜　明
- Organizer
  ２０１４年日本ゲノム微生物学会
- Place of Presentation
  東京農業大学
- Data Source
  KAKENHI-PROJECT-24710214
[Presentation] The Whole Set of Constitutive Promoters Recognized by RNA polymerase RpoD Holoenzyme of Escherichia coli2013
- Author(s)
  Tomohiro Shimada, Yukiko Yamazaki, Kan Tanaka and Akira Ishihama
- Organizer
  第３６回日本分子生物学会
- Place of Presentation
  神戸ポートアイランド
- Data Source
  KAKENHI-PROJECT-24710214
[Presentation] 大腸菌炭素源代謝グローバルレギュレーターCRPの新規機能2013
- Author(s)
  島田　友裕
- Organizer
  国立遺伝学研究所 2013年度研究集会
- Place of Presentation
  国立遺伝学研究所
- Data Source
  KAKENHI-PROJECT-24710214
[Presentation] 大腸菌ゲノムのサイレンシング機構2012
- Author(s)
  島田友裕、山崎由紀子、石浜　明
- Organizer
  第35回日本分子生物学会年会
- Place of Presentation
  福岡国際会議場
- Data Source
  KAKENHI-PROJECT-24710214
[Presentation] 大腸菌をモデル生物とした細胞の代謝・増殖制御機構の解明2012
- Author(s)
  島田友裕、斎藤菜摘、田中　寛
- Organizer
  第七回メタボロームシンポジウム
- Place of Presentation
  慶応義塾大学
- Data Source
  KAKENHI-PROJECT-24710214
[Presentation] ふたつの転写因子CRPとCraによる大腸菌炭素源代謝遺伝子群の転写制御の全体像2011
- Author(s)
  島田友裕
- Organizer
  日本農芸化学会
- Place of Presentation
  京都女子大学(京都)
- Year and Date
  2011-03-26
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] ふたつの転写因子CRPとCraによる大腸菌炭素源代謝遺伝子群の転写制御の全体像2011
- Author(s)
  島田友裕, 藤田信之, 山本兼由, 石浜明
- Organizer
  2011年度日本農芸化学会大会
- Place of Presentation
  京都女子大学・京都
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] 大腸菌炭素源代謝制御のふたつの転写因子CRPとCraによるゲノム転写制御の全体像: Genomic SELEX法を用いた解析2010
- Author(s)
  島田友裕, 藤田信之, 山本兼由, 石浜明
- Organizer
  生化・分子生物学会合同大会
- Place of Presentation
  神戸ポートアイランド・兵庫
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] 大腸菌炭素源代謝制御のふたつの転写因子CRPとCraによるゲノム転写制御の全体像:Genomic SELEX法を用いた解析2010
- Author(s)
  島田友裕
- Organizer
  生化・分子生物学合同大会
- Place of Presentation
  神戸ポートアイランド(兵庫)
- Year and Date
  2010-12-07
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] 大腸菌転写因子CRPのゲノム上結合部位の全体像:Genomic SELEX法を用いた解析2010
- Author(s)
  島田友裕
- Organizer
  第4回日本ゲノム微生物学会年会
- Place of Presentation
  九州大学(福岡)
- Year and Date
  2010-03-08
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Genome-wide Genomic-SELEX Search of Regulation Targets by Transcription Factors.2010
- Author(s)
  Shimada, T., et al.
- Organizer
  Jacques Monod Commemorative Minisymposium.
- Place of Presentation
  Paris. France.
- Year and Date
  2010-05-31
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Genome-wide Genomic-SELEX Search of Regulation Targets by Transcription Factors2010
- Author(s)
  Tomohiro Shimada
- Organizer
  Jacques Monod Commemorative Mini symposium
- Place of Presentation
  パリ(フランス)
- Year and Date
  2010-05-31
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] 大腸菌転写因子CRPのゲノム上結合部位の全体像: Genomic SELEX法を用いた解析2010
- Author(s)
  島田友裕, 藤田信之, 山本兼由, 石浜明
- Organizer
  第四回日本ゲノム微生物学会年会
- Place of Presentation
  九州大学・福岡県
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Involvement of the Leucine Response Transcription Factor LeuO in Regulation of the Genes for Sulfa Drug Efflux2009
- Author(s)
  Tomohiro Shimada
- Organizer
  第32回日本分子生物学会年会
- Place of Presentation
  パシフィコ横浜(神奈川)
- Year and Date
  2009-12-09
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Genomic SELEXを用いた大腸菌転写因子LeuOの転写制御機構解析2009
- Author(s)
  島田友裕, 山本兼由, 石浜明
- Organizer
  第6回21世紀大腸菌研究会
- Place of Presentation
  KKRホテル熱海・静岡
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Growth phase-dependent regulation of csgD, the master regulator of biofilm formation : Interplay between multiple transcription factors.2009
- Author(s)
  Ishihama, A., Ogasawara, H., Shimada, T., Teramoto, J., Kori,A., Yamada, K., Yamamoto, K.
- Organizer
  3^<rd> Internatl. Conf. Environmental, Industrial and Applied Microbiology (BioMicroWorld 2009)
- Place of Presentation
  Lisbon, Portugal.
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Genomic SELEX for the Genome-wide Search of Regulation Targets by Transcription Factors : SELEX-clos and SELEX-chip Procedures2009
- Author(s)
  Tomohiro Shimada
- Organizer
  2009 International Symposium on Micro-NanoMechatronics and Human Science
- Place of Presentation
  名古屋大学(愛知)
- Year and Date
  2009-11-09
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Involvement of the Leucine Response Transcription Factor LeuO in Regulation of the Genes for Sulfa Drug Efflux2009
- Author(s)
  Tomohiro Shimada, Kaneyoshi Yamamoto, Akira Ishihama
- Organizer
  第32回日本分子生物学会年会
- Place of Presentation
  パシフィコ横浜・神奈川
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Comprehensive analysis for the recognition sequences of DNA-binding transcription factors within the E.coli genome using the newly developed promoter chip.2009
- Author(s)
  Yamamoto, K., Shimada, T., Ishihama, A.
- Organizer
  21^<st> RNA Polymerase Workshop
- Place of Presentation
  Bristol, UK
- Data Source
  KAKENHI-PROJECT-21710198
[Presentation] Novel technologies for the genome-wide search of regulation targets by transcription factors : genomic SELEX and SELEX-chip. Micro- and Nano-Mechatronics and Human Science2009
- Author(s)
  Shimada, T., et al.
- Organizer
  2009 IEEE International Symposium on IEEE Robotics and Automation Society, USA.
- Place of Presentation
  Nagoya. Japan.
- Data Source
  KAKENHI-PROJECT-21710198

1. Ishihama Akira

# of Collaborated Projects: 1 results

# of Collaborated Products: 10 results
2. 田中寛

# of Collaborated Projects: 0 results

# of Collaborated Products: 2 results
3. 高相昊

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

SHIMADA Tomohiro 島田 友裕

Shimada Tomohiro 島田 友裕

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Co-Researchers

Identification of the regulatory network of all functionally unknown transcription factors in Escherichia coli.Principal Investigator

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Identification of the whole set of the constitutive promoters in Escherichia coliPrincipal Investigator

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Identification of the whole set of constitutive promoters in Escherichia coliPrincipal Investigator

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Role of acetylation of transcription factor CRP in network of metabolic regulationPrincipal Investigator

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Analysis of Transcriptional Regulation of Genome by Pathogenicity Transcription Factor LeuO.Principal Investigator

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[Book] Genomic SELEX for the genome-wide search of regulation targets by transcription factors : SELEX-clos and SELEX-chip procedures. In: Micro- and Nano-Mechatronics and Human Science (Fukuda, T. eds.)2009

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Data Source

[Journal Article] Regulatory Role of GgaR (YegW) for Glycogen Accumulation in Escherichia coli K-122024

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[Journal Article] Metal-Responsive Transcription Factors Co-Regulate Anti-Sigma Factor (Rsd) and Ribosome Dimerization Factor Expression2023

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[Journal Article] Overview of the Molecular Mechanism of Bacterial Environmental Adaptation by Comprehensive Analysis2023

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[Journal Article] Expanded roles of lactate-sensing LldR in transcription regulation of the Escherichia coli K-12 genome: lactate utilisation and acid resistance2023

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[Journal Article] Genomic SELEX Reveals Pervasive Role of the Flagella Master Regulator FlhDC in Carbon Metabolism2023

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[Journal Article] Cell-growth phase-dependent promoter replacement approach for improved poly(lactate-co-3-hydroxybutyrate) production in Escherichia coli2023

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[Journal Article] Transcription Factor SrsR (YgfI) Is a Novel Regulator for the Stress-Response Genes in Stationary Phase in Escherichia coli K-122022

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[Journal Article] Whole set of constitutive promoters for RpoN sigma factor and the regulatory role of its enhancer protein NtrC in Escherichia coli K-122021

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[Journal Article] Hierarchy of transcription factor network in <i>Escherichia coli</i> K-12: H-NS-mediated silencing and Anti-silencing by global regulators2021

Author(s)

SHIMADA Tomohiro 島田友裕

Shimada Tomohiro 島田友裕