Kenta Sumiyama

Profile Information

Affiliation: RIKEN Unit leader

Degree: Ph.D(Tokyo University)

J-GLOBAL ID: 200901093399863313

External link: http://www.bdr.riken.jp/en/research/labs/sumiyama-k/index.html

東京大学理学部生物学科卒、同大学院理学系研究科生物科学専攻修了、博士（理学）。国立遺伝学研究所とYale大学Frank Ruddle研で博士研究員、国立遺伝学研究所助教を経て現職は理化学研究所・生命機能科学研究センター（BDR）・高速ゲノム変異マウス作製研究チーム・チームリーダー。
発生工学、分子生物学、分子進化学、発生生物学、遺伝学、ゲノム情報学などを基盤として、交配不要の迅速な次世代遺伝学を実現する発生工学技術開発を行うと共に、脊椎動物の発生制御システムの進化を対象に、哺乳類ゲノムの大部分を占める非コード領域に潜む遺伝子発現制御情報がどのようにコードされ進化しているのかを研究している。ときにゲノム上数Mbにも及ぶ長大な遺伝子発現制御システムが、突然変異による荷重により破綻することなく進化可能なのはなぜなのか（ロバスト性）、また人工的にこのシステムが再構築できるか（進化の実証実験）という課題に取り組んでいる。

Research Interests

Research Areas

Research History

Apr, 2020 - Present

RIKEN Center for Biosystems Dynamics Research (BDR) Laboratory for Mouse Genetic Engineering Team leader
Apr, 2018 - Mar, 2020

RIKEN Center for Biosystems Dynamics Research (BDR) Laboratory for Mouse Genetic Engineering Unit Leader
Jun, 2013 - Mar, 2018

RIKEN Quantitative Biology Center (QBiC), Cell Design Research Core, Laboratory for Mouse Genetic Engineering Unit leader
Apr, 2007 - Sep, 2013

National Institute of Genetics
Mar, 2003 - Mar, 2007

National Institute of Genetics

Education

Apr, 1991 - Mar, 1996

東京大学大学院理学系研究科生物科学
Apr, 1988 - Mar, 1991

The University of Tokyo Faculty of Science Department of Biological Sciences

Committee Memberships

2010 - 2013

日本進化学会広報
2008 - 2009

日本進化学会会計監査

Awards

Jun, 2013

第17回（2012年度）日本細胞生物学会論文賞（CSF Award）

隅山健太

Major Papers

The regulatory landscape of the Dlx gene system in branchial arches: Shared characteristics among Dlx bigene clusters and evolution.

Kenta Sumiyama, Akira Tanave

Development, growth & differentiation 62(5) 355 - 362 Jun, 2020 Peer-reviewedLead authorCorresponding author
FRET-assisted photoactivation of flavoproteins for in vivo two-photon optogenetics.

Tomoaki Kinjo, Kenta Terai, Shoichiro Horita, Norimichi Nomura, Kenta Sumiyama, Kaori Togashi, So Iwata, Michiyuki Matsuda

Nature methods 16(10) 1029 - 1036 Oct, 2019 Peer-reviewed
Next-generation human genetics for organism-level systems biology.

Hideki Ukai, Kenta Sumiyama, Hiroki R Ueda

Current opinion in biotechnology 58 137 - 145 Aug, 2019 Peer-reviewed
Muscarinic Acetylcholine Receptors Chrm1 and Chrm3 Are Essential for REM Sleep.

Yasutaka Niwa, Genki N Kanda, Rikuhiro G Yamada, Shoi Shi, Genshiro A Sunagawa, Maki Ukai-Tadenuma, Hiroshi Fujishima, Naomi Matsumoto, Koh-Hei Masumoto, Mamoru Nagano, Takeya Kasukawa, James Galloway, Dimitri Perrin, Yasufumi Shigeyoshi, Hideki Ukai, Hiroshi Kiyonari, Kenta Sumiyama, Hiroki R Ueda

Cell reports 24(9) 2231 - 2247 Aug 28, 2018 Peer-reviewed
Easy and efficient production of completely embryonic-stem-cell-derived mice using a micro-aggregation device.

Sumiyama K, Matsumoto N, Garçon-Yoshida J, Ukai H, Ueda HR, Tanaka Y

PloS one 13(9) e0203056 2018 Peer-reviewedLead authorCorresponding author
Mammalian Reverse Genetics without Crossing Reveals Nr3a as a Short-Sleeper Gene.

Genshiro A Sunagawa, Kenta Sumiyama, Maki Ukai-Tadenuma, Dimitri Perrin, Hiroshi Fujishima, Hideki Ukai, Osamu Nishimura, Shoi Shi, Rei-Ichiro Ohno, Ryohei Narumi, Yoshihiro Shimizu, Daisuke Tone, Koji L Ode, Shigehiro Kuraku, Hiroki R Ueda

Cell reports 14(3) 662 - 677 Jan 26, 2016 Peer-reviewedLead author
The African coelacanth genome provides insights into tetrapod evolution.

Chris T Amemiya, Jessica Alföldi, Alison P Lee, Shaohua Fan, Hervé Philippe, Iain Maccallum, Ingo Braasch, Tereza Manousaki, Igor Schneider, Nicolas Rohner, Chris Organ, Domitille Chalopin, Jeramiah J Smith, Mark Robinson, Rosemary A Dorrington, Marco Gerdol, Bronwen Aken, Maria Assunta Biscotti, Marco Barucca, Denis Baurain, Aaron M Berlin, Gregory L Blatch, Francesco Buonocore, Thorsten Burmester, Michael S Campbell, Adriana Canapa, John P Cannon, Alan Christoffels, Gianluca De Moro, Adrienne L Edkins, Lin Fan, Anna Maria Fausto, Nathalie Feiner, Mariko Forconi, Junaid Gamieldien, Sante Gnerre, Andreas Gnirke, Jared V Goldstone, Wilfried Haerty, Mark E Hahn, Uljana Hesse, Steve Hoffmann, Jeremy Johnson, Sibel I Karchner, Shigehiro Kuraku, Marcia Lara, Joshua Z Levin, Gary W Litman, Evan Mauceli, Tsutomu Miyake, M Gail Mueller, David R Nelson, Anne Nitsche, Ettore Olmo, Tatsuya Ota, Alberto Pallavicini, Sumir Panji, Barbara Picone, Chris P Ponting, Sonja J Prohaska, Dariusz Przybylski, Nil Ratan Saha, Vydianathan Ravi, Filipe J Ribeiro, Tatjana Sauka-Spengler, Giuseppe Scapigliati, Stephen M J Searle, Ted Sharpe, Oleg Simakov, Peter F Stadler, John J Stegeman, Kenta Sumiyama, Diana Tabbaa, Hakim Tafer, Jason Turner-Maier, Peter van Heusden, Simon White, Louise Williams, Mark Yandell, Henner Brinkmann, Jean-Nicolas Volff, Clifford J Tabin, Neil Shubin, Manfred Schartl, David B Jaffe, John H Postlethwait, Byrappa Venkatesh, Federica Di Palma, Eric S Lander, Axel Meyer, Kerstin Lindblad-Toh

Nature 496(7445) 311 - 6 Apr 18, 2013 Peer-reviewed
Theria-Specific Homeodomain and cis-Regulatory Element Evolution of the Dlx3-4 Bigene Cluster in 12 Different Mammalian Species

Kenta Sumiyama, Tsutomu Miyake, Jane Grimwood, Andrew Stuart, Mark Dickson, Jeremy Schmutz, Frank H. Ruddle, Richard M. Myers, Chris T. Amemiya

JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION 318B(8) 639 - 650 Dec, 2012 Peer-reviewedLead authorCorresponding author
Live Imaging of Protein Kinase Activities in Transgenic Mice Expressing FRET Biosensors

Yuji Kamioka, Kenta Sumiyama, Rei Mizuno, Yoshiharu Sakai, Eishu Hirata, Etsuko Kiyokawa, Michiyuki Matsuda

CELL STRUCTURE AND FUNCTION 37(1) 65 - 73 2012 Peer-reviewedLead author
Loss-of-Function Mutation in a Repressor Module of Human-Specifically Activated Enhancer HACNS1

Kenta Sumiyama, Naruya Saitou

MOLECULAR BIOLOGY AND EVOLUTION 28(11) 3005 - 3007 Nov, 2011 Peer-reviewedLead authorCorresponding author
A simple and highly efficient transgenesis method in mice with the Tol2 transposon system and cytoplasmic microinjection

Kenta Sumiyama, Koichi Kawakami, Kazuhiro Yagita

GENOMICS 95(5) 306 - 311 May, 2010 Peer-reviewedLead authorCorresponding author
Transposon-mediated BAC transgenesis in zebrafish and mice

Maximiliano L. Suster, Kenta Sumiyama, Koichi Kawakami

BMC GENOMICS 10 477 Oct, 2009 Peer-reviewed
A cluster of three long-range enhancers directs regional Shh expression in the epithelial linings

Tomoko Sagai, Takanori Amano, Masaru Tamura, Yoichi Mizushina, Kenta Sumiyama, Toshihiko Shiroishi

DEVELOPMENT 136(10) 1665 - 1674 May, 2009 Peer-reviewed
Possible involvement of SINEs in mammalian-specific brain formation

Takeshi Sasaki, Hidenori Nishihara, Mika Hirakawa, Koji Fujimura, Mikiko Tanaka, Nobuhiro Kokubo, Chiharu Kimura-Yoshida, Isao Matsuo, Kenta Sumiyama, Naruya Saitou, Tomomi Shimogori, Norihiro Okada

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 105(11) 4220 - 4225 Mar, 2008 Peer-reviewed
Regulation of Dlx3 gene expression in visceral arches by evolutionarily conserved enhancer elements

K Sumiyama, FH Ruddle

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 100(7) 4030 - 4034 Apr, 2003 Peer-reviewedLead author
The role of gene duplication in the evolution and function of the vertebrate Dlx/distal-less bigene clusters.

Sumiyama K, Irvine SQ, Ruddle FH

Journal of structural and functional genomics 3 151 - 159 2003 Peer-reviewedLead author
Adaptive evolution of the IgA hinge region in primates

K Sumiyama, N Saitou, S Ueda

MOLECULAR BIOLOGY AND EVOLUTION 19(7) 1093 - 1099 Jul, 2002 Peer-reviewedLead authorCorresponding author
Genomic structure and functional control of the Dlx3-7 bigene cluster

K Sumiyama, SQ Irvine, DW Stock, KM Weiss, K Kawasaki, N Shimizu, CS Shashikant, W Miller, FH Ruddle

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 99(2) 780 - 785 Jan, 2002 Peer-reviewedLead author
An efficient cis-element discovery method using multiple sequence comparisons based on evolutionary relationships

K Sumiyama, CB Kim, FH Ruddle

GENOMICS 71(2) 260 - 262 Jan, 2001 Peer-reviewedLead author
Class III POU genes: Generation of homopolymeric amino acid repeats under GC pressure in mammals

K Sumiyama, K WashioWatanabe, N Saitou, T Hayakawa, S Ueda

JOURNAL OF MOLECULAR EVOLUTION 43(3) 170 - 178 Sep, 1996 Peer-reviewedLead author

Misc.

Functional analyses of Dlx cluster genes using genome-editing methods

Akira Tanave, Kenta Sumiyama

Medical Science Digest 45(9) 50 - 51 Jul, 2019 InvitedLast authorCorresponding author
トリプルCRISPR法による第一世代両アリル完全ノックアウトマウス作製

隅山健太, 砂川玄志郎, 鵜飼(蓼沼)磨貴, ディミトリーペリン, 上田泰己

日本実験動物学会総会講演要旨集 64th 228 Apr 28, 2017
Triple-target CRISPR enabled almost perfect whole-body bi-allelic knockouts at first generation

Kenta Sumiyama, Genshiro Sunagawa, Maki Ukai-Tadenuma, Dimitri Perrin, Hiroki Ueda

GENES & GENETIC SYSTEMS 91(6) 334 - 334 Dec, 2016
トリプルCRISPR法による第一世代での両アリル完全ノックアウトマウス作製

隅山健太, 砂川玄志郎, 鵜飼(蓼沼)磨貴, PERRIN Dimitri, 上田泰己

日本遺伝学会大会プログラム・予稿集 88th 111 Aug 22, 2016
High expression of PACAP gene and the molecular mechanism found in wild-mouse strain showing elevated anxiety-like behavior

Akira Tanave, Tsuyoshi Koide, Kenta Sumiyama, Aki Takahashi

INTERNATIONAL JOURNAL OF NEUROPSYCHOPHARMACOLOGY 19 53 - 53 Jun, 2016

Books and Other Publications

遺伝子が語る生命38億年の謎 - なぜ、ゾウはネズミより長生きか？国立遺伝学研究所 (編) 第Ⅱ部人類進化の謎第８章ヒトゲノムの暗黒部分の謎―どのような遺伝子の変化がヒトを進化させてきたのか？

隅山健太(Role: Contributor, 80-88)

悠書館 Jun, 2014 (ISBN: 9784903487922)
遺伝子図鑑国立遺伝学研究所「遺伝子図鑑」編集委員会編 7-12 遺伝子重複

隅山健太(Role: Contributor, 160-161)

Oct, 2013 (ISBN: 9784903487793)
進化学事典 (日本進化学会編)

隅山健太(Role: Contributor, 17-3 転写と翻訳調節)

共立出版 Apr, 2012 (ISBN: 9784320057777)
＜series モデル動物利用マニュアル＞生物機能モデルと新しいリソース・リサーチツール

隅山健太, 川上浩一(Role: Contributor, 第６節新しい生殖工学技術第４項トランスポゾンを使った新しい高効率トランスジェニックマウス作製法)

エル・アイ・シー 2011 (ISBN: 9784900487482)
「絵でわかる人類の進化」斎藤成也編

斎藤成也, 海部陽介, 米田穣, 隅山健太(Role: Contributor, 第２章 26-44頁)

講談社 2009 (ISBN: 9784061547599)

Presentations

103

第2回中高生のためのオンライン特別授業「最近話題のあの技術この技術驚異の発見・発明！ゲノム編集

隅山健太

理化学研究所神戸キャンパス第2回中高生のためのオンライン特別授業 Jan 15, 2021
Evolution of vertebrate morphogenetic gene regulatory mechanisms: Dlx gene cluster as an example

SUMIYAMA Kenta

Sep 13, 2019
「高速ゲノム変異マウス作製支援研究の紹介」

隅山健太

理化学研究所生命機能科学研究センター BDRスプリングコース2019 Mar, 2019
Next generation mammalian genetics

SUMIYAMA Kenta

Osaka Univ. FBS Special lecture Feb, 2019
「トリプルCRISPR法による交配無しでのダブルノックアウト、トリプルノックアウトマウス作製」

田邉彰, 隅山健太

大阪大学大学院医学系研究科第12回若手研究フォーラム Feb, 2019

Teaching Experience

Professional Memberships

Research Projects

哺乳類鋤鼻器進化におけるDlx4遺伝子コオプション進化の解析

文部科学省科学研究費補助金(基盤研究(B)) Apr, 2018 - Mar, 2021

隅山健太
細胞間コミュニケーションのライブイメージング

文部科学省科学研究費補助金(新学術領域研究(研究領域提案型)) 2015 - 2019

松田道行
ゲノム編集技術応用によるシス制御因子駆動型進化メカニズムの実験検証

文部科学省科学研究費補助金(基盤研究(B)) 2015 - 2017

隅山健太
新しいゲノム遺伝子相関を創出する脊椎動物特有の遠位エンハンサーによる進化

文部科学省科学研究費補助金(新学術領域研究(研究領域提案型)) 2014 - 2015

隅山健太
新しいゲノム遺伝子相関を創出する脊椎動物特有の遠位エンハンサーによる進化

文部科学省科学研究費補助金(新学術領域研究(研究領域提案型)) 2012 - 2013

隅山健太

Industrial Property Rights

WO2016-104716 遺伝子のノックアウト方法

上田泰己, 砂川玄志郎, 隅山健太, 鵜飼磨貴, ペリンディミトリ
特許第5802674号蛍光共鳴エネルギー移動の原理に基づく一分子型FRETバイオセンサーのリンカー

松田道行, 小松直貴, 青木一洋, 上岡裕治, 幸長弘子, 稲岡芳恵, 櫻井敦朗, 清川悦子, 隅山健太
WO2012-043477 蛍光共鳴エネルギー移動の原理に基づく一分子型FRETバイオセンサーのリンカー

松田道行, 小松直貴, 青木一洋, 上岡裕治, 幸長弘子, 稲岡芳恵, 櫻井敦朗, 清川悦子, 隅山健太
F120006680 LINKER FOR UNIMOLECULAR FRET BIOSENSOR BASED ON PRINCIPLE OF FLUORESCENCE RESONANCE ENERGY TRANSFER

MATSUDA, Michiyuki KOMATSU, Naoki AOKI, Kazuhiro KAMIOKA, Yuuji YUKINAGA, Hiroko INAOKA, Yoshie SAKURAI, Aturou KIYOKAWA, Etuko SUMIYAMA, Kenta
United States Patent 6,917,883 Efficient cis-element discovery method using multiple sequence comparisons based on evolutionary relationships.

Ruddle, Frank H. (Ne, Haven, CT, Sumiyama, Kenta (New, Haven, CT, Kim, Chang-Bae (New, Haven, CT