Doctor of Science, Kyoto University, Mar. 2018

physical ethology

microorganisms

microscope observation

microfluidic device

biofilm

microrheology

ciliates

swimming motion

image analysis

cell segmentation

machine learning

fluid dynamics numerical calculation

boundary element method

lattice Boltzmann method

swimming droplet

Life Science, Biomaterials

Manufacturing Technology (Mechanical Engineering, Electrical and Electronic Engineering, Chemical Engineering), Fluid engineering, Microfluidics

Natural Science, Biophysics, chemical physics and soft matter physics

Master's degree program, Graduate School of Life Science

Doctoral (PhD) degree program, Graduate School of Life Science

Apr. 2026, Nikon Solutions CO., LTD., 2025 NIKON JOICO AWARD
3次元バクテリアバイオフィルム内部における細胞分裂速度・力学的物性の空間分布計測
Takuya Ohmura, 41191685

Sep. 2025, Biophysical Society of Japan, Early Career Presentation Award
In vivo microrheological measurement for 3D bacterial biofilm with machine learning image analysis
Takuya Ohmura, 41191685

Apr. 2025, Molecular Microbiology, Top Viewed Article published by Molecular Microbiology in 2023

Mar. 2025, Molecular Microbiology, Top Cited Article published by Molecular Microbiology in 2023

Nov. 2017, International Symposium on Fluctuation and Structure out of Equilibrium, Best Poster Award for Young Researcher
Swimming Behavior of Neutral Squirmer against Non-slip Boundary
Takuya Ohmura

Mar. 2017, 第七回京都若手ソフトマター研究会 優秀ポスター賞
壁面近傍の繊毛虫遊泳メカニズム
大村拓也

Mar. 2016, 新学術領域研究「ゆらぎと構造の協奏：非平衡系における普遍法則の確立」, 第2回若手勉強会「ソフトマター若手勉強会」 優秀ポスター賞
マランゴニ効果によって自発運動する油中水滴
大村拓也

Mechanical analysis of spatiotemporal traction stress dynamics in a bleb-driven migrating cell, Amoeba proteus
Rio Terauchi; Syun Echigoya; Charles Fosseprez; Atsushi Taniguchi; Takuya Ohmura; Jean-Paul Rieu; Katsuhiko Sato; Toshiyuki NAKAGAKI; Yukinori Nishigami
openRxiv, 15 Jun. 2026
Many adherent eukaryotic cells exhibit amoeboid locomotion, where traction stress exerted on the substrate is essential for movement. In this study, we investigated the spatiotemporal development of these forces in Amoeba proteus to clarify the mechanical dynamics underlying bleb-driven migration. By performing a multipole analysis of the stress distribution, we characterized the spatiotemporal patterns exhibited by motile cells. Furthermore, we tracked the behavior of individual localized peak structures within these profiles, which are thought to correspond to focal contact sites. These analyses revealed that the front-back asymmetry in the traction distribution correlates with the direction of migration. We also found that A. proteus exhibits a periodic pattern in which inward-directed stresses are alternately strengthened and weakened at the cell poles. Crucially, we identified a distinctive feature not observed in other cell types: the generation of large lateral traction forces at the cell center. Together, these results highlight both the universality and diversity of the biophysical mechanisms driving amoeboid locomotion.

Horizontal and vertical gene transfer shape the plasmid host range in surface-associated microbial systems
Kohei Takahashi; Kiko Ohara; Kosuke Higuchi; Takuya Ohmura; Satoshi Okabe; David R. Johnson; Mamoru Oshiki
iScience, 29, 4, 115299, Elsevier BV, 17 Apr. 2026, [Peer-reviewed], ［Internationally co-authored］, [International Magazine]
English, Scientific journal

Geometrical preference of anchoring sites in the unicellular organism Stentor coeruleus
Syun Echigoya; Takuya Ohmura; Katsuhiko Sato; Toshiyuki Nakagaki; Yukinori Nishigami
Proceedings of the National Academy of Sciences, 123, 9, e2518816123, Proceedings of the National Academy of Sciences, 03 Mar. 2026, [Peer-reviewed], [International Magazine]
Scientific journal, Organisms often inhabit environments comprising complex structures across various scales. Animals rely on visual information from surrounding geometrical structures for navigation. Even at the microscale, various microsediments form complex structures in microbial habitats. The movement of microorganisms is passively affected by collisions and hydrodynamic interactions with surrounding structures. However, the influence of microenvironmental geometry on behavioral changes of unicellular organisms that lack visual perception remains unclear. Here, we developed geometrically structured chambers to investigate anchoring site preferences in the swimming ciliate Stentor coeruleus . Our experiments revealed that S. coeruleus preferentially anchored in narrow regions characterized by specific geometrical features, including corner angle, depth, and curvature at the corner end. Before anchoring, free-swimming S. coeruleus changed its behavior to move along the boundary wall of the chambers, accompanied by Ca ²⁺ -induced asymmetrical body deformation. To further investigate how S. coeruleus moves along the wall continuously, we conducted a hydrodynamic simulation and revealed that the asymmetric morphology causes asymmetric propulsive forces, explaining wall-following behavior through physical interactions with a wall. Thus, morphological change near a wall causes wall-following behavior, facilitating the identification of these narrow anchoring sites. Our findings indicate that environmental geometry drives behavioral transitions in S. coeruleus through simple biophysical processes, enabling spatial selection without visual cues. Overall, these results suggest that microgeometry plays a key role in shaping ecological niches for unicellular microorganisms., 49882689

In Vivo Microrheology Reveals Local Elastic and Plastic Responses Inside 3D Bacterial Biofilms
Takuya Ohmura; Dominic J. Skinner; Konstantin Neuhaus; Gary P. T. Choi; Jörn Dunkel; Knut Drescher
Advanced Materials, 36, 29, 2314059, Wiley, 16 May 2024, [Peer-reviewed], [Lead author], ［Internationally co-authored］, [International Magazine]
English, Scientific journal, Abstract

Bacterial biofilms are highly abundant 3D living materials capable of performing complex biomechanical and biochemical functions, including programmable growth, self‐repair, filtration, and bioproduction. Methods to measure internal mechanical properties of biofilms in vivo with spatial resolution on the cellular scale have been lacking. Here, thousands of cells are tracked inside living 3D biofilms of the bacterium Vibrio cholerae during and after the application of shear stress, for a wide range of stress amplitudes, periods, and biofilm sizes, which revealed anisotropic elastic and plastic responses of both cell displacements and cell reorientations. Using cellular tracking to infer parameters of a general mechanical model, spatially‐resolved measurements of the elastic modulus inside the biofilm are obtained, which correlate with the spatial distribution of the polysaccharides within the biofilm matrix. The noninvasive microrheology and force‐inference approach introduced here provides a general framework for studying mechanical properties with high spatial resolution in living materials.

Single‐cell segmentation in bacterial biofilms with an optimized deep learning method enables tracking of cell lineages and measurements of growth rates
Eric Jelli; Takuya Ohmura; Niklas Netter; Martin Abt; Eva Jiménez‐Siebert; Konstantin Neuhaus; Daniel K. H. Rode; Carey D. Nadell; Knut Drescher
Molecular Microbiology, 119, 6, 659, 676, Wiley, 17 Apr. 2023, [Peer-reviewed], [Lead author], ［Internationally co-authored］, [International Magazine]
English, Scientific journal

AIRE illuminates the feature of medullary thymic epithelial cells in thymic carcinoma
Minoru Matsumoto; Takuya Ohmura; Yuto Hanibuchi; Mayuko Ichimura‐Shimizu; Yasuyo Saijo; Hirohisa Ogawa; Ryuichiro Miyazawa; Junko Morimoto; Koichi Tsuneyama; Mitsuru Matsumoto; Takeshi Oya
Cancer Medicine, 12, 8, 9843, 9848, Wiley, 13 Mar. 2023, [Peer-reviewed], ［Internationally co-authored］, [International Magazine]
English, Scientific journal

Motion of a swimming droplet under external perturbations: A model-based approach
Saori Suda; Tomoharu Suda; Takuya Ohmura; Masatoshi Ichikawa
Physical Review E, 106, 3, 034610, Sep. 2022, [Peer-reviewed], ［Internationally co-authored］, [International Magazine]
English, Scientific journal

Simple dynamics underlying the survival behaviors of ciliates
Takuya Ohmura; Yukinori Nishigami; Masatoshi Ichikawa
Biophysics and Physicobiology, 19, e190026, Biophysical Society of Japan, 2022, [Peer-reviewed], [Invited], [Lead author, Corresponding author], ［Internationally co-authored］, [Domestic magazines]
English, Scientific journal

Accumulation of tetrahymena pyriformis on interfaces
Kohei Okuyama; Yukinori Nishigami; Takuya Ohmura; Masatoshi Ichikawa
Micromachines, 12, 11, 1339, Nov. 2021, [Peer-reviewed], ［Internationally co-authored］, [International Magazine]
English, Scientific journal

Near-wall rheotaxis of the ciliate tetrahymena induced by the kinesthetic sensing of cilia
Takuya Ohmura; Yukinori Nishigami; Atsushi Taniguchi; Shigenori Nonaka; Takuji Ishikawa; Masatoshi Ichikawa
Science Advances, 7, 43, eabi5878, Oct. 2021, [Peer-reviewed], [Lead author, Corresponding author], ［Internationally co-authored］, [International Magazine]
English, Scientific journal

Straight-to-Curvilinear Motion Transition of a Swimming Droplet Caused by the Susceptibility to Fluctuations
Saori Suda; Tomoharu Suda; Takuya Ohmura; Masatoshi Ichikawa
Physical Review Letters, 127, 8, 088005, 20 Aug. 2021, [Peer-reviewed], ［Internationally co-authored］, [International Magazine]
English, Scientific journal

Influence of cellular shape on sliding behavior of ciliates
Yukinori Nishigami; Takuya Ohmura; Atsushi Taniguchi; Shigenori Nonaka; Junichi Manabe; Takuji Ishikawa; Masatoshi Ichikawa
Communicative and Integrative Biology, 11, 4, e1506666, 04 Jul. 2018, [Peer-reviewed], [Lead author], [International Magazine]
English, Scientific journal

Simple mechanosense and response of cilia motion reveal the intrinsic habits of ciliates
Takuya Ohmura; Yukinori Nishigami; Atsushi Taniguchi; Shigenori Nonaka; Junichi Manabe; Takuji Ishikawa; Masatoshi Ichikawa
Proceedings of the National Academy of Sciences of the United States of America, 115, 13, 3231, 3236, 27 Mar. 2018, [Peer-reviewed], [Lead author], [International Magazine]
English, Scientific journal

Oscillation and collective conveyance of water-in-oil droplets by microfluidic bolus flow
Takuya Ohmura; Masatoshi Ichikawa; Ken Ichiro Kamei; Yusuke T. Maeda
Applied Physics Letters, 107, 7, 074102, 17 Aug. 2015, [Peer-reviewed], [Lead author], [International Magazine]
English, Scientific journal

Response measurement on a micro-swimmer against flow
市川正敏; 小林琢実; 大村拓也; 西上幸範, 日本物理学会講演概要集(CD-ROM), 79, 2, 2024

Accumulation of ciliates Tetrahymena on interfaces and its diffusion model
奥山紘平; 西上幸範; 大村拓也; 市川正敏, 日本物理学会講演概要集(CD-ROM), 77, 1, 2022

Fluid Dynamic Model Reveals a Mechano-sensing System Underlying the Behavior of Ciliates
OHMURA Takuya; NISHIGAMI Yukinori; ICHIKAWA Masatoshi, Seibutsu Butsuri, 61, 1, 016, 019, 2021, [Invited], [Lead author, Corresponding author], ［Internationally co-authored］, [Domestic magazines]
Ciliates are microorganisms found in water environments that feed by accumulating close to solid-liquid interfaces such as pond bottom and waterweed surface. The ability of swimming ciliates to remain near surfaces is crucial for efficient nutrient acquisition. Here, we investigated the dynamics of the near-surface swimming behavior. In our experiments, the cilia of these ciliates lost their propelling activity when encountering a surface, suggesting they have a mechano-sensing system, and the ciliate slid along the surface. Our simulations revealed that not only the loss of ciliary activity but also the cell body aspect ratio was critical for this sliding motion., The Biophysical Society of Japan General Incorporated Association, Japanese, Introduction scientific journal

実験と流体数値計算からアプローチする遊泳微生物の行動
大村 拓也, アンサンブル, 21, 1, 67, 71, 31 Jan. 2019, [Invited], [Lead author, Last author, Corresponding author], [Domestic magazines]
ゾウリムシに代表される繊毛虫，あるいはバクテリア，哺乳類の精子は，流体中を遊泳しながら移動する．こういったマイクロメートルスケールにおける遊泳運動を低レイノルズ領域の流体現象と見なすと，ストークス方程式から導出したシンプルな数理モデルで分類することができる．近年，モデルによる検証から，一見複雑怪奇な遊泳細胞が示す「行動」を，最小限の物理要素によって説明することが可能になりつつある．本研究では，繊毛虫と呼ばれる原生動物の生存にとって有利な行動を対象に，流体数値計算からそのメカニズムが実測可能な２つの物理要素だけで説明可能なことを明らかにした． , 分子シミュレーション学会, Japanese, Introduction scientific journal

遊泳繊毛虫の走流性
大村拓也; 大村拓也; 西上幸範; 市川正敏, 日本物理学会講演概要集(CD-ROM), 74, 1, 2019

繊毛虫の固液界面への集合
西上幸範; 大村拓也; 市川正敏, 日本原生生物学会大会講演要旨集, 51st, 2018

壁付近における繊毛虫遊泳:実験と流体数値計算
大村拓也; 西上幸範; 市川正敏; 眞鍋準一; 石川拓司, 日本物理学会講演概要集(CD-ROM), 72, 1, 2017

せん断流れ下における繊毛虫遊泳運動
大村拓也; 西上幸範; 市川正敏, 日本物理学会講演概要集(CD-ROM), 72, 2, 2017

Tetrahymenaの走流性に関する研究
西上幸範; 大村拓也; 市川正敏, 日本原生生物学会大会講演要旨集, 49th, 2016

17pPSA-82 Reproduction of the periodic motion of a small droplet in a numerical simulation using lattice Boltzmann method
Ohmura T.; Ichikawa M.; Kamei K.; Maeda Y., Meeting Abstracts of the Physical Society of Japan, 70, 2, 2733, 2733, 2015
The Physical Society of Japan, Japanese

21pAK-3 Periodic motion dynamics of microfluidic W/O droplets
Ohmura T.; Kamei K.; Ichikawa M.; Maeda Y., Meeting Abstracts of the Physical Society of Japan, 70, 1, 2899, 2899, 2015
The Physical Society of Japan, Japanese

28aAD-11 Periodic motion dynamics of microfluidic W/O droplets
Ohmura Takuya; Kamei Kenichiro; Ichikawa Masatoshi; Maeda Yusuke, Meeting Abstracts of the Physical Society of Japan, 69, 1, 314, 314, 2014
The Physical Society of Japan, Japanese

Collective motion of one-dimensional W/O droplet crystal in a microchannel
Ohmura Takuya; Kamei Kenichiro; Ichikawa Masatoshi; Maeda Yusuke, Meeting Abstracts of the Physical Society of Japan, 68, 0, 223, 223, 2013
The Physical Society of Japan, Japanese

〔Major achievements〕Behavior and Ecology of Aquatic Microorganisms as Microscale Mechanical Phenomena
Takuya Ohmura
Japan Society of Fluid Mechanics Annual Meeting 2026, 25 Sep. 2026, Invited oral presentation
24 Sep. 2026 - 26 Sep. 2026, [Invited]

Mechanical approaches for behaviors of microorganisms
Takuya Ohmura
Integrative Microbial Science Community Annual Meeting 2026, 29 Jun. 2026, English, Oral presentation
29 Jun. 2026 - 01 Jul. 2026, [International presentation]

細胞形状のスイッチングがもたらす遊泳微生物の行動ダイナミクス
大村拓也; 越後谷駿; 中垣俊之; 西上幸範
日本物理学会 2026年春季大会, 26 Mar. 2026, Oral presentation
23 Mar. 2026 - 26 Mar. 2026, 49882689

〔Major achievements〕Rheological measurement inside 3D bacterial communities with microfluidic system
大村拓也
2025年度研究集会「生物流体力学におけるデータ処理」, 29 Oct. 2025, Invited oral presentation
29 Oct. 2025 - 31 Oct. 2025, [Invited]

3次元イメージングによるバイオフィルム内部の細胞分裂頻度・力学物性・細胞外マトリクス分布測定
大村拓也
第３回北海道バイオ“Mix-up”, 29 Sep. 2025, Oral presentation
29 Sep. 2025 - 30 Sep. 2025, [Domestic Conference]

〔Major achievements〕In vivo microrheological measurement for 3D bacterial biofilm with machine learning image analysis
Takuya Ohmura; Dominic J. Skinner; Konstantin Neuhaus; Gary P.T. Choi; Jörn Dunkel; Knut Drescher
The 63rd Annual Meeting of the Biophysical Society of Japan, 24 Sep. 2025, English, Invited oral presentation
24 Sep. 2025 - 26 Sep. 2025, [Invited], [Domestic Conference], ［Internationally co-authored］

〔主要な業績〕固液境界上で遊泳繊毛虫が見せる生存戦略的行動に潜む力学機構
大村拓也
日本物理学会 第80回年次大会, 17 Sep. 2025, Invited oral presentation
[Invited], [Domestic Conference]

How do numerical swimmers achieve behavior of microorganisms contacting a non-slip boundary?
Takuya Ohmura
The 3rd Taiwan-Japan International WorkShop on Applied Mathematics, 02 May 2025, English, Oral presentation
01 May 2025 - 02 May 2025

〔Major achievements〕Heterogeneous mechanical property inside 3D bacterial biofilms
Takuya Ohmura; Dominic J. Skinner; Konstantin Neuhaus; Gary P. T. Choi; Jörn Dunkel; Knut Drescher
APS (American Physical Society) Global Physics Summit, 19 Mar. 2025, English, Oral presentation
17 Mar. 2025 - 21 Mar. 2025

３次元バクテリアバイオフィルムのマイクロレオロジー測定
Takuya Ohmura; Dominic J. Skinner; Konstantin Neuhaus; Gary P. T. Choi; Jörn Dunkel; Knut Drescher
2024年度日本生物物理学会北海道支部－東北支部合同例会, 21 Feb. 2025, Oral presentation

〔Major achievements〕Spatial Correlation between Biofilm Material Property and Extracellular Matrix Component
Takuya Ohmura; Dominic J. Skinner; Konstantin Neuhaus; Gary P. T. Choi; Jörn Dunkel; Knut Drescher
The 47th Annual Meeting of the Molecular Biology Society of Japan, 27 Nov. 2024, English, Public symposium
26 Nov. 2024 - 29 Nov. 2024, [Invited]

〔Major achievements〕Heterogeneous Mechanical Property within 3D Bacterial Biofilm
Takuya Ohmura
The 21 st Young Scientist Seminar (YSS2024), 23 Nov. 2024, English, Invited oral presentation
[Invited]

3次元バクテリアバイオフィルムの構造力学
大村拓也; Praveen K. Singh; Knut Drescher
日本物理学会 第79回年次大会, 17 Sep. 2024, Oral presentation
16 Sep. 2024 - 19 Sep. 2024

3次元バクテリアバイオフィルムの空間弾性応答と塑性応答
Takuya Ohmura; Dominic J. Skinner; Konstantin Neuhaus; Gary P. T. Choi; Jörn Dunkel; Knut Drescher
日本物理学会 2024年春季大会, Oral presentation
18 Mar. 2024 - 21 Mar. 2024

〔主要な業績〕3次元的に広がるバイオフィルムの設計図とその耐震性
大村拓也
大隅基礎科学創成財団 微生物機能探究コンソーシアムG1定例会, 04 Sep. 2023, Japanese, Public discourse
[Invited]

〔Major achievements〕Rheotaxis of the ciliate
Takuya Ohmura; Yukinori Nishigami; Masatoshi Ichikawa
DPG Meeting of the Condensed Matter Section (SKM), 07 Sep. 2022, English, Oral presentation
04 Sep. 2022 - 09 Sep. 2022

〔Major achievements〕3D segmentation of biofilms with convolutional neural networks
Takuya Ohmura
RIMS Workshop, Mathematical Mechanobiology, 2021, 14 Jul. 2021, English, Invited oral presentation
[Invited]

3D segmentation of biofilms with Convolutional neural networks
Eric Jelli; Takuya Ohmura; Martin Ab; Knut Drescher
5th International Symposium on Image-based Systems Biology, 01 Oct. 2020, English, Oral presentation
01 Oct. 2020 - 02 Oct. 2020

Near-wall Dynamics of Swimming Ciliate
Takuya Ohmura; Yukinori Nishigami; Masatoshi Ichikawa
Mathematical Methods in Biofluid Mechanics, 28 Oct. 2019, English, Oral presentation
28 Oct. 2019 - 30 Oct. 2019

遊泳繊毛虫の走流性
大村拓也; 西上幸範; 市川正敏
日本物理学会 第74回年次大会, 17 Mar. 2019, Oral presentation
14 Mar. 2019 - 17 Mar. 2019

Physical Mechanism behind Sliding Behavior of the Ciliate
Takuya Ohmura; Yukinori Nishigami; Masatoshi Ichikawa
Physical approaches to understanding microbial life, 03 Sep. 2018, English, Oral presentation
28 Aug. 2018 - 06 Sep. 2018

物理理論からアプローチする微生物の行動メカニズム
大村拓也
第6回ヨーロッパ若手日本人研究者交流会, 05 May 2018, Oral presentation
04 May 2018 - 05 May 2018

Anomalous swimming of a ciliary microorganism adjacent to a wall
T. Ohmura; Y. Nishigami; J. Manabe; T. Ishikawa; M. Ichikawa
APS March Meeting 2018, 07 Mar. 2018, English, Oral presentation
05 Mar. 2018 - 09 Mar. 2018

Simple Mechano-Sense and Response of Cilia Motion Reveal the Intrinsic Habits of Ciliates
大村拓也
若手研究会「統計物理学とその周辺」, 02 Mar. 2018, Oral presentation
01 Mar. 2018 - 02 Mar. 2018

Swimming behavior of ciliates in microfluidic flow
大村拓也; 西上幸範; 市川正敏
アクティブマター研究会2018, 19 Jan. 2018, Oral presentation
19 Jan. 2018 - 20 Jan. 2018

流体力学から解き明かす微生物のふるまい：繊毛虫遊泳運動
大村拓也; 西上幸範; 眞鍋準一; 石川拓司; 市川正敏
生物流体力学における基礎問題と応用問題, 31 Oct. 2017, Oral presentation
30 Oct. 2017 - 01 Nov. 2017

微生物の行動に対する力学的アプローチ：壁面付近における繊毛虫遊泳
大村拓也; 西上幸範; 眞鍋準一; 石川拓司; 市川正敏
第7回ソフトマター研究会, 23 Oct. 2017, Oral presentation
23 Oct. 2017 - 25 Oct. 2017

〔主要な業績〕流体力学から迫る繊毛虫遊泳運動
大村拓也
時空間秩序・生命物理研究会2017, 15 Oct. 2017, Japanese, Invited oral presentation
[Invited]

せん断流れ下における繊毛虫遊泳運動
大村拓也; 西上幸範; 市川正敏
日本物理学会 2017年秋季大会, 23 Sep. 2017, Oral presentation
21 Sep. 2017 - 24 Sep. 2017

〔主要な業績〕Swimming behavior of a ciliate near a wall
大村拓也
第55回日本生物物理学会年会, 19 Sep. 2017
[Invited]

〔主要な業績〕壁面付近における繊毛虫遊泳の実験と境界要素法を用いた数値計算
大村拓也; 西上幸範; 眞鍋準一; 石川拓司; 市川正敏
日本流体力学会 年会2017, 30 Aug. 2017, Oral presentation
30 Aug. 2017 - 01 Sep. 2017

実験と流体数値計算から迫る繊毛虫の遊泳運動
大村拓也
流体若手夏の学校2017, 09 Aug. 2017, Oral presentation
08 Aug. 2017 - 10 Aug. 2017

固液界面付近における繊毛虫の遊泳運動
大村拓也
非線形ソフトマター研究会2016, 29 Oct. 2016, Oral presentation
29 Oct. 2016 - 30 Oct. 2016

固液壁面付近における繊毛虫の遊泳運動
大村拓也; 西上幸範; 眞鍋準一; 石川拓司; 市川正敏
生物流体現象におけるミクロ運動とマクロ運動, 25 Oct. 2016, Oral presentation
24 Oct. 2016 - 26 Oct. 2016

化学マランゴニ効果によって駆動する油中水滴の往復振動運動
大村拓也; 西田裕悟; 市川正敏
日本物理学会 2016年秋季大会, 13 Sep. 2016, Oral presentation
13 Sep. 2016 - 16 Sep. 2016

〔主要な業績〕Hydrodynamics of ciliates swimming on wall
Takuya Ohmura
Workshop on Micro-Organisms in Stokes Flows, 31 Aug. 2016, English
[Invited]

微小空間内で油中水滴が示す周期運動：実験と流体数値計算
大村拓也
流体若手夏の学校2015, 10 Aug. 2015, Oral presentation
10 Aug. 2015 - 12 Aug. 2015

微小空間における油中水滴の周期運動と流体数値計算
大村拓也; 亀井謙一郎; 市川正敏; 前多裕介
日本物理学会 第70回年次大会, 21 Mar. 2015, Oral presentation
21 Mar. 2015 - 24 Mar. 2015

流体相互作用による微小油中水滴の周期運動ダイナミクス
大村拓也; 亀井謙一郎; 市川正敏; 前多裕介
第五回京都若手ソフトマター研究会, 13 Mar. 2015, Oral presentation
13 Mar. 2015 - 13 Mar. 2015

Asymmetric oscillation and dynamic clustering of water-in-oil droplets by hydrodynamic interactions
Takuya Ohmura; Ken-Ichiro Kamei; Masatoshi Ichikawa; Yusuke Maeda
APS March Meeting 2015, 05 Mar. 2015, English, Oral presentation
02 Mar. 2015 - 06 Mar. 2015

Microfluidicsを用いた微小油中水滴の周期運動ダイナミクス
大村拓也; 亀井謙一郎; 市川正敏; 前多裕介
京都非線形ソフトマター研究会2014, 17 Oct. 2014, Oral presentation
17 Oct. 2014 - 18 Oct. 2014

粘性流体中の微小液滴が示す振動現象
大村拓也
流体若手夏の学校2014, 04 Aug. 2014, Oral presentation
04 Aug. 2014 - 06 Aug. 2014

Microfluidicsを用いた微小油中水滴の周期運動ダイナミクス
大村拓也; 亀井謙一郎; 市川正敏; 前多裕介
日本物理学会 第69回年次大会, 28 Mar. 2014, Oral presentation
27 Mar. 2014 - 30 Mar. 2014

マイクロ流路における一次元液滴結晶の運動現象
大村拓也; 亀井謙一郎; 市川正敏; 前多裕介
日本物理学会 2013年秋季大会, 25 Sep. 2013, Oral presentation
25 Sep. 2013 - 28 Sep. 2013

Apr. 2026 - Present
Seiwa Scholars Society

Dec. 2025 - Present
Integrative Microbial Science Community

May 2025 - Present
The Biophysical Society of Japan

Sep. 2023 - Present
Ohsumi Frontier Science Foundation

Jun. 2013 - Present
The Physical Society of Japan

Behavioral heuristics of protists in complex situations
Grants-in-Aid for Scientific Research
01 Apr. 2026 - 31 Mar. 2029
中垣 俊之; 國田 樹; 西上 幸範; 佐藤 勝彦; 大村 拓也; 手老 篤史
Japan Society for the Promotion of Science, Grant-in-Aid for Scientific Research (A), Hokkaido University, 26H02509

Revealing mechanism to regulate propelling forces under photoresponsive unidirectional motion of spherically symmetric microorganism
Inamori Incubate Research Grants
Apr. 2026 - Mar. 2028
Takuya Ohmura
Inamori Foundation, Principal investigator, Competitive research funding

「代謝」と「力学」から解き明かすバクテリア集団形成の時空間ダイナミクス
若手フィージビリティスタディ共同研究
Apr. 2026 - Mar. 2027
大坂夏木; 大村拓也
人と知と物質で未来を創るクロスオーバーアライアンス, Coinvestigator

人工･天然バイオ界面現象の理解に基づく生体親和性材料の設計・合成
CORE2-Aラボ
Apr. 2025 - Mar. 2027
田中賢; 林智広; 中垣俊之; 西上幸範; 大村拓也; 櫻井保志; 井関隆之
人と知と物質で未来を創るクロスオーバーアライアンス, Coinvestigator, 2025C002

Why do ciliates swim along helical trajectories?
Grants-in-Aid for Scientific Research
Apr. 2025 - Mar. 2027
大村 拓也
Japan Society for the Promotion of Science, Grant-in-Aid for Early-Career Scientists, Hokkaido University, Principal investigator, Competitive research funding, 25K17535

高深度イメージング＋定量的な時空間解析による細胞構造解析基盤の構築
総合研究基盤連携センター（GFC）支援事業R&T（Researcher & Technician）コラボプロジェクト
Dec. 2025 - Mar. 2026
高橋晃平; 小林健太郎; 大村拓也
北海道大学総合研究基盤連携センター, 北海道大学, Coinvestigator

蛍光イメージング×数理シミュレーションによる環境微生物群衆中の薬剤耐性遺伝子伝播ダイナミクスの解明
第11回北海道大学部局横断シンポジウム研究助成 金賞
Oct. 2025 - Mar. 2026
大村拓也; 佐藤 豊孝; 高橋 晃平
Principal investigator

希少放線菌が形成するコロニーの立体構造解析
基盤共同研究
Apr. 2025 - Mar. 2026
納庄一樹; 大村拓也
物質・デバイス領域共同研究拠点

乳幼児の言語発達および単語学習能力を予測する視線動態解析の提案
基盤共同研究
Apr. 2025 - Mar. 2026
萩原広道; 大村拓也
物質・デバイス領域共同研究拠点

Identifying cell-cell interaction principles that shape spatiotemporal biofilm development
Cross-Disciplinary Fellowship
Apr. 2019 - Mar. 2022
Takuya Ohmura
Human Frontier Science Program (HFSP), Max Planck Institute for Terrestrial Microbiology - Marburg - GERMANY, Principal investigator, Competitive research funding

Elucidation of the Mechanism of a Ciliate Swimming: Near a Wall and Under Shear Flow
Grants-in-Aid for Scientific Research
26 Apr. 2017 - 31 Mar. 2019
大村 拓也
本年度はまず、前年度に報告者らが明らかにした繊毛虫のスライド運動モデルの一般性を検証した。繊毛虫テトラヒメナ（Tetrahymena pyriformis）の場合、スライド運動は繊毛打による推進力の非対称性、細胞形状の楕円体アスペクト比から説明可能であった。そこで、テトラヒメナよりもアスペクト比の大きい繊毛虫ゾウリムシ（Paramecium caudatum）のスライド運動を観測し、細胞周りの流れ場計測から推進力の非対称性を確認した。さらに数値計算で推進力非対称性と形状アスペクト比を軸としたスライド運動の相図を作成したところ、ゾウリムシのスライド運動のパラメータも本モデルの適用範囲内であることが明らかになった。
次に、せん断流れ下における繊毛虫遊泳運動を調べた。繊毛虫は自然界で安定した生活環境に留まって生存効率を上げるため、外部流れに逆らって泳ぐ性質、正の走流性を持つが、そのメカニズムは明らかになっていない。報告者らはT. pyriformisの走流性に対し、マイクロ流路内と圧力制御ポンプを用いてせん断流れを制御した実験を実施した。結果、細胞はあるせん断力以下で正の走流性を示し、壁面付近を流れに逆らってスライド運動していることを確認した。前述の繊毛虫スライド運動モデルにせん断流れを与えて遊泳運動を計算したところ、実験結果と同様の壁面上を流れに逆らうスライド運動を再現できた。走流性を示すせん断力の閾値も実験と計算でよく一致し、繊毛虫の正の走流性もスライド運動に必要な推進力非対称性、細胞の形状だけで説明可能であることを示した。
また、本年度はドイツのマックスプランク陸生微生物学研究所に長期滞在し、研究活動を行った。本研究計画を実施することで身に着けた流体工学の知見と微生物を扱う実験・画像解析技術を生かし、せん断流れ下におけるバクテリアの定量実験を実施した。
Japan Society for the Promotion of Science, Grant-in-Aid for JSPS Fellows, Kyoto University, Principal investigator, 17J10331

The ISME Journal
2025
Peer review
Peer review etc

Proposal Review for American Chemical Society Petroleum Research Fund
2024
Review
Review

第七回京都若手ソフトマター研究会
08 Mar. 2017
Planning etc
Academic society etc
大村拓也

ソライロラッパムシは「すみっこ」好きだった
27 Mar. 2026
Other than myself
科学新聞
49882689, [Paper]

単細胞生物ソライロラッパムシにおける固着場所の幾何選好性
17 Mar. 2026
USACO
国内研究者論文詳細
https://www.usaco.co.jp/article/detail.html?itemid=2734&dispmid=610&TabModule439=0, 49882689, [Internet]

空色のラッパムシの「すみっこ好き」を発見 ―目も脳もない単細胞の空間把握―
11 Mar. 2026
Other than myself
kusuguru株式会社
ナゾロジー
https://nazology.kusuguru.co.jp/archives/192781, 49882689, [Internet]

【物理・数理を活かして、原生生物の行動を解き明かす #2】 物理学者が追う原生生物の行動学
Jun. 2025
北海道大学 広報・社会連携本部 広報・コミュニケーション部門
リサーチタイムズ
https://www.hokudai.ac.jp/researchtimes/2025/06/-2-1.html, [Internet]

流れに逆らって泳ぐ微生物
16 Jan. 2022
Other than myself
読売新聞
41183276, [Paper]

Feb. 2026
ソライロラッパムシの「すみっこ」好きを発見～目の無い単細胞生物の空間把握メカニズム～
プレスリリース
https://www.hokudai.ac.jp/news/2026/02/post-2199.html

Jul. 2024
Advanced Materials Editors' Choice
Advanced Materials, 36(29), 2024.
https://advanced.onlinelibrary.wiley.com/doi/full/10.1002/adma.202314059

Apr. 2023
Front Cover, Molecular Microbiology
Molecular Microbiology, 119(6), 2023.
https://onlinelibrary.wiley.com/doi/10.1111/mmi.14932

Apr. 2023
Editor's Choice Articles, Molecular Microbiology
Molecular Microbiology, 119(6), 2023.
https://onlinelibrary.wiley.com/doi/full/10.1111/mmi.15064

Oct. 2021
泳ぐ微生物が海まで流されない理由 －SDGsに欠かせない小さな生物たちの振る舞いを解明－
プレスリリース
https://www.kyoto-u.ac.jp/ja/research-news/2021-10-21-0

Aug. 2021
Front Cover, Physical Review Letters
Physical Review Letters, 127(8), 2021
https://journals.aps.org/prl/issues/127/8

Mar. 2018
簡単な物理モデルで解き明かす微生物の生存戦略 －繊毛虫テトラヒメナの壁面付近への集積メカニズムを解明－
プレスリリース
https://www.kyoto-u.ac.jp/ja/research-news/2018-03-22