Basic Information

Profile

• Profile

  1975年生まれ、栃木県小山市出身。1993年3月 栃木県立栃木高等学校卒業。

Academic Degree

• 26 Mar. 1999

  東京工業大学修士（理学）
• 26 Mar. 2002

  東京工業大学博士（理学）

Academic Resume (Graduate Schools)

• 東京工業大学, 大学院生命理工学研究科バイオサイエンス専攻博士後期課程, 修了
• 東京工業大学, 大学院生命理工学研究科バイオサイエンス専攻修士課程, 修了

Academic Resume (Undergraduate School/Majors)

• 東京工業大学, 生命理工学部生体機構学科, 卒業

High School

• High School

  Tocghigi High School

Research History

• From Apr. 2026, To Present

  The University of Osaka, Research Institute for Microbial Diseases, 特任技術職員
• From Apr. 2025, To Mar. 2026

  Kyoto University, Graduate School of Science, Program-Specific Assistant Professor
• From Apr. 2022, To Mar. 2025

  Osaka University, Graduate School of Frontier Biosciences, 特任助教
• From Nov. 2020, To Jun. 2021

  リージョナルフィッシュ株式会社, 研究開発部, 主任研究員 / 研究スペシャリスト
• From Jul. 2019, To Oct. 2020

  Hiroshima University, Graduate School of Integrated Sciences for Life, Marine Biological Laboratory, Assistant Professor (Specially Appointed)
• From Jan. 2014, To Jun. 2019

  Kyoto University, Graduate School of Science Division of Biological Sciences, Program-Specific Researcher (JST CREST)
• From Apr. 2012, To Mar. 2013

  Tokyo Institute of Technology, Graduate School of Bioscience and Biotechnology, Department of Biological Information, 特別研究員
• From Apr. 2008, To Mar. 2012

  Tokyo Institute of Technology, Graduate School of Bioscience and Biotechnology, Department of Biological Information, Research Assistant Professor
• From Feb. 2007, To Mar. 2008

  Centre national de la recherche scientifique (CNRS), Institut de Biologie du Développement de Marseille (IBDM), JSPS Overseas Research Fellow
• From Feb. 2006, To Feb. 2007

  Centre national de la recherche scientifique (CNRS), Institut de Biologie du Développement de Marseille (IBDM), EMBO Long-term Fellow
• From Apr. 2005, To Jan. 2006

  Kyoto University, Graduate School of Science Division of Biological Sciences, JST CREST・研究員
• From Apr. 2002, To Mar. 2005

  Kyoto University, Graduate School of Science Division of Biological Sciences, 日本学術振興会・特別研究員PD
• From Apr. 1999, To Mar. 2002

  Tokyo Institute of Technology, Graduate School of Bioscience and Biotechnology, 日本学術振興会・特別研究員DC1

ID,URL

• ORCID ID

  0000-0002-9312-7857

• J-Global ID

  200901094700984055

researchmap URL

• https://researchmap.jp/kobaken

Research

Research Areas

• Life sciences, Developmental biology
• Life sciences, Cell biology, 細胞増殖制御
• Life sciences, Neuroscience - general, 神経発生

Research Interests

• 脊索動物
• 尾索動物
• ホヤ
• Tadpole larva
• 個体発生
• 胚発生
• 細胞分化
• Cell proliferation
• Cell cycle
• Neuron
• 遺伝子
• 遺伝子発現
• Microinjection
• Genome editing
• RNA-seq
• ChIP-seq
• ATAC-seq
• Single cell
• Transcriptome
• Bioinformatics

Papers

• Regulators specifying cell fate activate cell cycle regulator genes to determine cell numbers in ascidian larval tissues

  Kenji KOBAYASHI*#; Miki TOKUOKA*#; Hiroaki SATO; Manami ARIYOSHI; Shiori KAWAHARA; Shigeki FUJIWARA; Takeo KISHIMOTO; Yutaka SATOU; (*#: equally contribution & corresponding authors)

  Development, 16 Nov. 2022, Peer-reviewed, Lead author, Corresponding author

  
• Protein kinases and protein phosphatases encoded in the Ciona robusta genome

  Miki TOKUOKA; Kenji KOBAYASHI; Patrick LEMAIRE; Yutaka SATOU

  Genesis, 09 Mar. 2022, Peer-reviewed

  
• The gene regulatory system for specifying germ layers in early embryos of the simple chordate

  Miki TOKUOKA; Kazuki MAEDA; Kenji KOBAYASHI; Atsushi MOCHIZUKI; Yutaka SATOU

  Science Advances, 09 Jun. 2021, Peer-reviewed

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• Using linkage logic theory to control dynamics of a gene regulatory network of a chordate embryo

  Kenji KOBAYASHI, Kazuki MAEDA, Miki TOKUOKA, Atsushi MOCHIZUKI,Yutaka SATOU

  Scientific Reports, 17 Feb. 2021, Peer-reviewed, Lead author

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• Gata is ubiquitously required for the earliest zygotic gene transcription in the ascidian embryo

  Kaoru S. IMAI; Kenji KOBAYASHI; Willi KARI; Ute ROTHBÄCHER; Naoki OOKUBO; Izumi ODA-ISHII; Yutaka SATOU

  Developmental Biology, 15 Feb. 2020, Peer-reviewed

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• Controlling cell fate specification system by key genes determined from network structure

  Kenji KOBAYASHI, Kazuki MAEDA, Miki TOKUOKA, Atsushi MOCHIZUKI, Yutaka SATOU

  iScience, 29 Jun. 2018, Peer-reviewed, Lead author

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• Distinct regulation of Snail in two muscle lineages of the ascidian embryo achieves temporal coordination of muscle development

  Miki TOKUOKA; Kenji KOBAYASHI; Yutaka SATOU

  Development, 06 Jun. 2018, Peer-reviewed

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• Differential gene expression along the animal-vegetal axis in the ascidian embryo is maintained by a dual functional protein Foxd

  Shin-ichi TOKUHIRO*; Miki TOKUOKA*; Kenji KOBAYASHI*; Atsushi KUBO; Izumi ODA-ISHII; Yutaka SATOU; (*: equally contribution)

  PLoS Genetics, 17 May 2017, Peer-reviewed, Lead author

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• Tfap2 and Sox1/2/3 cooperatively specify ectodermal fates in ascidian embryos

  Kaoru S. IMAI; Hiroki HIKAWA; Kenji KOBAYASHI; Yutaka SATOU

  Development, 01 Jan. 2017, Peer-reviewed

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• Differential gene expression in notochord and nerve cord fate segregation in the Ciona intestinalis embryo

  Kenji KOBAYASHI*, Lixy YAMADA*, Yutaka SATOU, Nori SATOH; (*: equally contribution)

  Genesis, Sep. 2013, Peer-reviewed, Lead author

  
• Novel genes involved in canonical Wnt/beta-catenin signaling pathway in early Ciona intestinalis embryos

  Shuichi WADA; Mayuko HAMADA; Kenji KOBAYASHI; Nori SATOH

  Development Growth & Differentiation, May 2008, Peer-reviewed

  
• Novel genes involved in Ciona intestinalis embryogenesis: Characterization of gene knockdown embryos

  Mayuko HAMADA; Shuichi WADA; Kenji KOBAYASHI; Nori SATOH

  Developmental Dynamics, Jul. 2007, Peer-reviewed

  
• Ci-Rga, a gene encoding an MtN3/saliva family transmembrane protein, is essential for tissue differentiation during embryogenesis of the ascidian Ciona intestinalis

  Mayuko HAMADA; Shuichi WADA; Kenji KOBAYASHI; Nori SATOH

  Differentiation, Sep. 2005, Peer-reviewed

  
• Microarray analysis of localization of maternal transcripts in eggs and early embryos of the ascidian, Ciona intestinalis

  Lixy YAMADA*; Kenji KOBAYASHI*; Yutaka SATOU; Nori SATOH; (*: equally contribution)

  Developmental Biology, Aug. 2005, Peer-reviewed, Lead author

  
• Morpholino-based gene knockdown screen of novel genes with developmental function in Ciona intestinalis

  Lixy YAMADA*; Eiichi SHOGUCHI*; Shuichi WADA*; Kenji KOBAYASHI*; Yasuaki MOCHIZUKI*; Yutaka SATOU; Nori SATOH; (*: equally contribution)

  Development, Dec. 2003, Peer-reviewed, Lead author

  
• Maternal macho-1 is an intrinsic factor that makes cell response to the same FGF signal differ between mesenchyme and notochord induction in ascidian embryos

  Kenji KOBAYASHI #; Kaichiro SAWADA; Hiroki YAMAMOTO; Shuichi WADA; Hidetoshi SAIGA; Hiroki NISHIDA; (#: corresponding author)

  Development, Nov. 2003, Peer-reviewed, Lead author, Corresponding author

  
• Suppression of macho-1-directed muscle fate by FGF and BMP is required for formation of posterior endoderm in ascidian embryos

  Keisuke KONDOH; Kenji KOBAYASHI; Hiroki NISHIDA

  Development, Jul. 2003, Peer-reviewed

  
• A genomewide survey of developmentally relevant genes in Ciona intestinalis - IV. Genes for HMG transcriptional regulators, bZip and GATA/Gli/Zic/Snail

  Lixy YAMADA*; Kenji KOBAYASHI*; Bernard DEGNAN; Nori SATOH; Yutaka SATOU; (*: equally contribution)

  Development Genes and Evolution, Jun. 2003, Peer-reviewed, Lead author

  
• A genomewide survey of developmentally relevant genes in Ciona intestinalis - II. Genes for homeobox transcription factors

  Shuichi WADA; Miki TOKUOKA; Eiichi SHOGUCHI; Kenji KOBAYASHI; Anna Di GREGORIO; Antonietta SPAGNUOLO; Margherita BRANNO; Yuji KOHARA; Daniel ROKHSAR; Michael LEVINE; Hidetoshi SAIGA; Nori SATOH; Yutaka SATOU

  Development Genes and Evolution, Jun. 2003, Peer-reviewed

  
• The draft genome of Ciona intestinalis: Insights into chordate and vertebrate origins

  Dehal P; Satou Y; Campbell RK; Chapman J; Degnan B; De Tomaso A; Davidson B; Di Gregorio A; Gelpke M; Goodstein DM; Harafuji N; Hastings KEM; Ho I; Hotta K; Huang W; Kawashima T; Lemaire P; Martinez D; Meinertzhagen IA; Necula S; Nonaka M; Putnam N; Rash S; Saiga H; Satake M; Terry A; Yamada L; Wang H; Awazu S; Azumi K; Boore J; Branno M; Chin-bow S; DeSantis R; Doyle S; Francino P; Keys DN; Haga S; Hayashi H; Hino K; Imai KS; Inaba K; Kano S; Kobayashi K; Kobayashi M; Lee B; Makabe KW; Manohar C; Matassi G; Medina M; Mochizuki Y; Mount S; Morishita T; Miura S; Nakayama A; Nishizaka S; Nomoto H; Ohta F; Oishi K; Rigoutsos I; Sano M; Sasaki A; Sasakura Y; Shoguchi E; Shin-i T; Spagnuolo A; Stainier D; Suzuki MM; Tassy O; Takatori N; Tokuoka M; Yagi K; Yoshizaki F; Wada S; Zhang C; Hyatt PD; Larimer F; Detter C; Doggett N; Glavina T; Hawkins T; Richardson P; Lucas S; Kohara Y; Levine M; Satoh N; Rokhsar DS

  Science, Dec. 2002, Peer-reviewed

  
• Nuclear plasticity and timing mechanisms of the initiation of alkaline phosphatase expression in cytoplasm-transferred blastomeres of ascidians

  Kenji KOBAYASHI #; Hiroki NISHIDA; (#: corresponding author)

  Developmental Biology, Jun. 2001, Peer-reviewed, Lead author, Corresponding author

  

Misc.

• Controling cell fate based on the structure of gene regulatory network

  望月敦史; 小林健司; 佐藤ゆたか; 石川雅人; 永樂元次; 遊佐宏介

  日本ゲノム編集学会大会要旨集, 2024

  
• GABA mediates experience-dependent regulation of myelination in the mouse visual pathway

  Yasuyuki Osanai; Batpurev Battulga; Reiji Yamazaki; Kenta Kobayashi; Kenji Kobayashi; Yuka Nakamura; Masaki Ueno; Hiroaki Mizukami; Yumiko Yoshimura; Nobuhiko Ohno

  bioRxiv, 06 Mar. 2025

  
• Microinjection of exogenous nucleic acids into eggs: Ciona species

  Kenji KOBAYASHI; Yutaka SATOU

  Advances in Experimental Medicine and Biology (Transgenic Ascidians), Mar. 2018, Peer-reviewed, Invited

  
• [Morpholino oligonucleotide-based screen of novel genes with developmental function]

  Shuichi WADA; Lixy YAMADA; Kenji KOBAYASHI; Eiichi SHOGUCHI; Noriyuki SATOH

  Seikagaku, Jul. 2003, Invited

  

External funds: Kakenhi

• ホヤ幼生の神経系細胞の発生過程における細胞増殖制御機構の解明―増殖と分化相関

  Grant-in-Aid for Scientific Research (C)

  Basic Section 44020:Developmental biology-related

  Osaka University

  小林 健司

  From 01 Apr. 2024, To 31 Mar. 2027, Granted

  脊索動物;ホヤ;胚発生;オタマジャクシ幼生;神経系細胞;細胞増殖制御;細胞分化;増殖分化相関;神経系

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-24K09473/