Physics of Microbial Motility

Project Information

PHYMOT

Grant agreement ID: 955910

DOI

10.3030/955910

Project closed

EC signature date 20 August 2020

Start date 1 February 2021

End date 28 February 2025

Funded under

• EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions

Total cost

€ 4 093 777,80

EU contribution

€ 4 093 777,80

Coordinated by

FORSCHUNGSZENTRUM JULICH GMBH
Germany

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Documents, reports (38)

Sensing and environment

Dataset of biological processes involved in microbial sensing for validation of theories

Magnetotactic bacteria under constraints

Report on the swimming strategies of magnetotactic bacteria in response to mechanical constraints

Bacteria response to multiple gradients

Report on the response of bacteria to multiple and competing gradients

Imaging under controlled condition

Image device comprising sample environment control

International Workshop W(2)

International workshop with presentation of ESR research projects.

Prototype of ‘trypanobot'

Prototype of ‘trypanobot’

Chemotaxis and environment

Report on microbial motility and chemotaxis under realistic landscape conditions

Flagella interactions in swarming bacteria

Report on and images of interacting cells in bacterial swarms

Feeding efficiency

Diagram of the feeding-mortality risk

Public lectures

Public lectures on microswimmers

Theory of leaking ‘active billiards'

Theoretical model for non-elastic scattering between microswimmers and microswimmers and geometrical restrictions with focus on escape

Multiple cultures

Microfluidic device for simultaneous studies of cocultures egbacteriaepithelium

Improved mechanical model of the axoneme

Report on improved mechanical model of the axoneme

Cell-cell scattering

Diagram and data for scattering of bacteria with varying mobility cell shape and surfaces adhesiveness

Feeding flows in nano flagellates

Images of feeding flows in marine nanoflagellates

Hydrodynamics in bacteria swarms

Theoretical model of hydrodynamics in swarming bacteria

3D simulataneous imaging of bacteria and flagella

3D trajectories of bacteria visualizing in parallel body and flagella bundle

Scientific publications

Research results published in high-impact peer-review journals

Viscoelastic properties of flagellum

Documentation of the viscoelastic properties of a flagellum

3D bacteria imaging

Images of 3D trajectories of bacteria

Control of parasite swimming

Report on the beating dynamics and collective behavior of trypanosomes at their various live cycles

Swim strategies in complex environment

Generic model for optimal swim strategy in complex environment

Press release to media

Press release—ETN/Marie Curie Actions

Flagella in cell-cell interactions

Report on a quantitative description of flagellar dynamics of interacting bacteria

International workshop W(1)

Workshop with international participants and presentation of ESR research projects.

In-situ real-time microscope

Development of an advanced microscope for environmental microbiology

International Conference

Conference with international participation

Theory of cilia beating

Theoretical model for flagella beating

Real-time bacteria tracking

Optical microscope with real time feedback control

Cell migration in biofilms

Report on the collective motion of bacteria in biofilms

Model of axonemal dynein dynamics

Datadriven models for dynein activity

Bacteria-algae symbiosis

Report on the nature of bacteria/algae symbiosis (41); D3.5 3D trajectories of bacteria visualizing in parallel body and flagella bundle

Collective effects in disordered and confined environments

Report on collective dynamics

Bacteria run-and-tumble statistics

Report on link between bacteria trajectories and run and tumble statistics

Mechanical properties of the basal bodies

Report on lengthdependent mechanical properties of flagella

Press release achievements

Press release—PHYMOT achievements

Jamming active suspensions

Report on jamming

Self-chemotaxis in host-parasite interactions

Report on the complete infection cycle of hosts by marine parasites

Other (2)

PHYMOT web page
PHYMOT Wikipedia page

Open Research Data Pilot (1)

Data management plan

Publications

Peer reviewed articles (19)

High‐speed escape jumps in haptophytes: Mechanism and triggering fluid signal

Author(s): Federica Miano, Seyed Saeed Asadzadeh, Fredrik Ryderheim, Anders Andersen, Thomas Kiørboe
Published in: Limnology and Oceanography, Issue 69, 2024, Page(s) 2846-2858, ISSN 0024-3590
Publisher: American Society of Limnonogy and Oceanography
DOI: 10.1002/lno.12713

Microbial narrow-escape is facilitated by wall interactions

Author(s): Mathieu Souzy, Antoine Allard, Jean-François Louf, Matteo Contino, Idan Tuval, Marco Polin
Published in: Physical Review Research, Issue 4, 2022, Page(s) L022029, ISSN 2643-1564
Publisher: American Physical Society
DOI: 10.1103/physrevresearch.4.l022029

Foraging mechanisms in excavate flagellates shed light on the functional ecology of early eukaryotes

Author(s): Sei Suzuki-Tellier, Federica Miano, Seyed Saeed Asadzadeh, Alastair G. B. Simpson, Thomas Kiørboe
Published in: Proceedings of the National Academy of Sciences, Issue 121, 2024, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.2317264121

Single‐cell segmentation in bacterial biofilms with an optimized deep learning method enables tracking of cell lineages and measurements of growth rates

Author(s): Eric Jelli, Takuya Ohmura, Niklas Netter, Martin Abt, Eva Jiménez‐Siebert, Konstantin Neuhaus, Daniel K. H. Rode, Carey D. Nadell, Knut Drescher
Published in: Molecular Microbiology, Issue 119, 2023, Page(s) 659-676, ISSN 0950-382X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/mmi.15064

Slower swimming promotes chemotactic encounters between bacteria and small phytoplankton

Author(s): Riccardo Foffi, Douglas R. Brumley, François J. Peaudecerf, Roman Stocker, Jonasz Słomka
Published in: Proceedings of the National Academy of Sciences, Issue 122, 2025, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.2411074122

Modelling motility of Trypanosoma brucei

Author(s): Florian A. Overberg, Narges Jamshidi Khameneh, Timothy Krüger, Markus Engstler, Gerhard Gompper, Dmitry A. Fedosov
Published in: PLOS Computational Biology, Issue 21, 2025, Page(s) e1013111, ISSN 1553-7358
Publisher: Public Library of Science (PLoS)
DOI: 10.1371/journal.pcbi.1013111

VxrB Influences Antagonism within Biofilms by Controlling Competition through Extracellular Matrix Production and Type 6 Secretion

Author(s): Jennifer K. Teschler, Eva Jiménez-Siebert, Hannah Jeckel, Praveen K. Singh, Jin Hwan Park, Stefan Pukatzki, Carey D. Nadell, Knut Drescher, Fitnat H. Yildiz
Published in: mBio, Issue 13, 2022, Page(s) e0188522, ISSN 2150-7511
Publisher: American Society for Microbiology
DOI: 10.1128/mbio.01885-22

Collective behavior of squirmers in thin films

Author(s): Bohan Wu-Zhang, Dmitry A. Fedosov, Gerhard Gompper
Published in: Soft Matter, Issue 20, 2024, Page(s) 5687-5702, ISSN 1744-683X
Publisher: Royal Society of Chemistry
DOI: 10.1039/d4sm00075g

Steering self-organisation through confinement

Author(s): Nuno A. M. Araújo, Liesbeth M. C. Janssen, Thomas Barois, Guido Boffetta, Itai Cohen, Alessandro Corbetta, Olivier Dauchot, Marjolein Dijkstra, William M. Durham, Audrey Dussutour, Simon Garnier, Hanneke Gelderblom, Ramin Golestanian, Lucio Isa, Gijsje H. Koenderink, Hartmut Löwen, Ralf Metzler, Marco Polin, C. Patrick Royall, Anđela Šarić, Anupam Sengupta, Cécile Sykes, Vito Trianni, Idan T
Published in: Soft Matter, Issue 19, 2024, Page(s) 1695-1704, ISSN 1744-683X
Publisher: Royal Society of Chemistry
DOI: 10.1039/d2sm01562e

Optimal run-and-tumble in slit-like confinement

Author(s): T. Pietrangeli, C. Ybert, C. Cottin-Bizonne, F. Detcheverry
Published in: Physical Review Research, Issue 6, 2024, ISSN 2643-1564
Publisher: Physical Reveiw Research APS
DOI: 10.1103/physrevresearch.6.023028

Multipad agarose plate: a rapid and high-throughput approach for antibiotic susceptibility testing

Author(s): Morten Kals, Leonardo Mancini, Jurij Kotar, Allen Donald, Pietro Cicuta
Published in: Journal of The Royal Society Interface, Issue 21, 2024, ISSN 1742-5662
Publisher: The Royal Society
DOI: 10.1098/rsif.2023.0730

Shared biophysical mechanisms determine early biofilm architecture development across different bacterial species.

Author(s): Hannah Jeckel; Francisco Díaz-Pascual; Dominic J. Skinner; Boya Song; Eva Jiménez-Siebert; Kerstin Strenger; Eric Jelli; Sanika Vaidya; Jörn Dunkel; Knut Drescher
Published in: PLOS Biology, Issue 4, 2022, Page(s) e3001846, ISSN 1545-7885
Publisher: Public Library of Science
DOI: 10.1371/journal.pbio.3001846

Distinctive chemotactic responses of three marine herbivore protists to DMSP and related compounds

Author(s): Queralt Güell-Bujons, Medea Zanoli, Idan Tuval, Albert Calbet, Rafel Simó
Published in: The ISME Journal, Issue 18, 2024, ISSN 1751-7362
Publisher: Nature Publishing Group
DOI: 10.1093/ismejo/wrae130

Acoustic tethering of microorganisms

Author(s): M. Rode, A. Bioue, F. Miano, H. Bruus, T. Kiørboe and A. Andersen
Published in: Journal of Experimental Biology, 2022, ISSN 0022-0949
Publisher: The Company of Biologists Ltd.
DOI: 10.1242/jeb.244089

Antibiotics change the population growth rate heterogeneity and morphology of bacteria

Author(s): Morten Kals, Emma Kals, Jurij Kotar, Allen Donald, Leonardo Mancini, Pietro Cicuta
Published in: PLOS Pathogens, Issue 21, 2025, Page(s) e1012924, ISSN 1553-7374
Publisher: Public Library of Science (PLoS)
DOI: 10.1371/journal.ppat.1012924

Vector-borne Trypanosoma brucei parasites develop in artificial human skin and persist as skin tissue forms

Author(s): Christian Reuter, Laura Hauf, Fabian Imdahl, Rituparno Sen, Ehsan Vafadarnejad, Philipp Fey, Tamara Finger, Nicola G. Jones, Heike Walles, Lars Barquist, Antoine-Emmanuel Saliba, Florian Groeber-Becker, Markus Engstler
Published in: Nature Communications, Issue 14, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-43437-2

Encounter rates prime interactions between microorganisms

Author(s): Jonasz Słomka, Uria Alcolombri, Francesco Carrara, Riccardo Foffi, François J. Peaudecerf, Matti Zbinden and Roman Stocker
Published in: Interface Focus, Issue 13: 20220059, 2023, Page(s) 1-9, ISSN 2042-8901
Publisher: Royal Society
DOI: 10.1098/rsfs.2022.0059

Viscotaxis of beating flagella

Author(s): Shubham Anand, Jens Elgeti, Gerhard Gompper
Published in: Soft Matter, 2025, ISSN 1744-683X
Publisher: Royal Society of Chemistry
DOI: 10.1039/d4sm01328j

The 2025 Motile Active Matter Roadmap

Author(s): Gerhard Gompper, Howard A Stone, Christina Kurzthaler, David Saintillan, Fernado Peruani, Dmitry Fedosov, Thorsten Auth, Cecile Cottin-Bizonne, Christophe Ybert, Eric Clement, Thierry Darnige, Anke Lindner, Raymond E Goldstein, Benno Liebchen, Jack Binysh, Anton Souslov, Lucio Isa, Roberto di Leonardo, GIACOMO FRANGIPANE, Hongri Gu, Bradley J Nelson, Fridtjof Brauns, M Cristina Marchetti, Frank Ci
Published in: Journal of Physics: Condensed Matter, 2025, ISSN 0953-8984
Publisher: Institute of Physics Publishing
DOI: 10.1088/1361-648x/adac98