---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
PlanS_conform: '1'
_id: '21231'
abstract:
- lang: eng
text: To assess cell migration in complex spatial environments, microfabricated
chips, such as mazes and pillar forests, are routinely used to impose spatial
and mechanical constraints, and cell trajectories are followed within these structures
by advanced imaging techniques. In systems mechanobiology, computational models
serve as essential tools to uncover how physical geometry influences intracellular
dynamics; however, decoding such complex behaviors requires advanced inference
techniques. Here, we integrated experimental observations of dendritic cell migration
in a geometrically constrained microenvironment into a Cellular Potts model. We
demonstrated that these spatial constraints modulate the motility dynamics, including
speed and directional changes. We show that classical summary statistics, such
as mean squared displacement and turning angle distributions, can resolve key
mechanistic features but fail to extract richer spatiotemporal patterns, limiting
accurate parameter inference. To solve this, we applied neural posterior estimation
with in-the-loop learning of summary features. This learned summary representation
of the data enables robust and flexible parameter inference, providing a data-driven
framework for model calibration and advancing quantitative analysis of cell migration
in structured microenvironments.
acknowledgement: 'This work was supported by the German Federal Ministry of Education
and Research (BMBF) (EMUNE/031L0293C), the European Union via the ERC grant INTEGRATE,
grant agreement number 101126146, and under Germany’s Excellence Strategy by the
Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) (EXC 2047—390685813,
EXC 2151—390873048, FOR5775 — 533863915, and 524747443), the University of Bonn
via the Schlegel Professorship of J.H., and the returning experts fellowship of
the Ministry of Innovation, Science, and Research of North-Rhine-Westphalia (AZ:
421-8.03.03.02-137069). J.M. is a member of the Nanofabrication Facility and is
supported by the Institute of Science and Technology Austria. E.K. acknowledges
the TRA Life and Health (University of Bonn) as part of the Excellence Strategy
of the federal and state governments. The authors thank Laeschkir Würthner for his
insightful comments on the implementation of the authors’ model. The views and opinions
expressed are those of the authors only and do not necessarily reflect those of
the funding agencies. Parts of Fig. 1 were created using BioRender. Open Access
funding enabled and organized by Projekt DEAL.'
article_number: '20'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Jonas
full_name: Arruda, Jonas
last_name: Arruda
- first_name: Emad
full_name: Alamoudi, Emad
last_name: Alamoudi
- first_name: Robert
full_name: Mueller, Robert
last_name: Mueller
- first_name: Marc
full_name: Vaisband, Marc
last_name: Vaisband
- first_name: Ronja
full_name: Molkenbur, Ronja
last_name: Molkenbur
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Eva
full_name: Kiermaier, Eva
last_name: Kiermaier
- first_name: Jan
full_name: Hasenauer, Jan
last_name: Hasenauer
citation:
ama: Arruda J, Alamoudi E, Mueller R, et al. Simulation-based inference of cell
migration dynamics in complex spatial environments. npj Systems Biology and
Applications. 2026;12. doi:10.1038/s41540-026-00648-9
apa: Arruda, J., Alamoudi, E., Mueller, R., Vaisband, M., Molkenbur, R., Merrin,
J., … Hasenauer, J. (2026). Simulation-based inference of cell migration dynamics
in complex spatial environments. Npj Systems Biology and Applications.
Springer Nature. https://doi.org/10.1038/s41540-026-00648-9
chicago: Arruda, Jonas, Emad Alamoudi, Robert Mueller, Marc Vaisband, Ronja Molkenbur,
Jack Merrin, Eva Kiermaier, and Jan Hasenauer. “Simulation-Based Inference of
Cell Migration Dynamics in Complex Spatial Environments.” Npj Systems Biology
and Applications. Springer Nature, 2026. https://doi.org/10.1038/s41540-026-00648-9.
ieee: J. Arruda et al., “Simulation-based inference of cell migration dynamics
in complex spatial environments,” npj Systems Biology and Applications,
vol. 12. Springer Nature, 2026.
ista: Arruda J, Alamoudi E, Mueller R, Vaisband M, Molkenbur R, Merrin J, Kiermaier
E, Hasenauer J. 2026. Simulation-based inference of cell migration dynamics in
complex spatial environments. npj Systems Biology and Applications. 12, 20.
mla: Arruda, Jonas, et al. “Simulation-Based Inference of Cell Migration Dynamics
in Complex Spatial Environments.” Npj Systems Biology and Applications,
vol. 12, 20, Springer Nature, 2026, doi:10.1038/s41540-026-00648-9.
short: J. Arruda, E. Alamoudi, R. Mueller, M. Vaisband, R. Molkenbur, J. Merrin,
E. Kiermaier, J. Hasenauer, Npj Systems Biology and Applications 12 (2026).
date_created: 2026-02-16T10:44:31Z
date_published: 2026-02-05T00:00:00Z
date_updated: 2026-02-23T10:10:10Z
day: '05'
ddc:
- '570'
department:
- _id: NanoFab
doi: 10.1038/s41540-026-00648-9
external_id:
pmid:
- '41611727'
file:
- access_level: open_access
checksum: 99b2e6bbaaedf45f22e07751948669f5
content_type: application/pdf
creator: dernst
date_created: 2026-02-23T10:09:03Z
date_updated: 2026-02-23T10:09:03Z
file_id: '21346'
file_name: 2026_npjSysBioApp_Arruda.pdf
file_size: 10217687
relation: main_file
success: 1
file_date_updated: 2026-02-23T10:09:03Z
has_accepted_license: '1'
intvolume: ' 12'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
publication: npj Systems Biology and Applications
publication_identifier:
eissn:
- 2056-7189
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Simulation-based inference of cell migration dynamics in complex spatial environments
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2026'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '19663'
abstract:
- lang: eng
text: The centrosome is a microtubule orchestrator, nucleating and anchoring microtubules
that grow radially and exert forces on cargos. At the same time, mechanical stresses
from the microenvironment and cellular shape changes compress and bend microtubules.
Yet, centrosomes are membraneless organelles, raising the question of how centrosomes
withstand mechanical forces. Here, we discover that centrosomes can deform and
even fracture. We reveal that centrosomes experience deformations during navigational
pathfinding within motile cells. Coherence of the centrosome is maintained by
Dyrk3 and cNAP1, preventing fracturing by forces. While cells can compensate for
the depletion of centriolar-based centrosomes, the fracturing of centrosomes impedes
cellular function by generating coexisting microtubule organizing centers that
compete during path navigation and thereby cause cellular entanglement in the
microenvironment. Our findings show that cells actively maintain the integrity
of the centrosome to withstand mechanical forces. These results suggest that centrosome
stability preservation is fundamental, given that almost all cells in multicellular
organisms experience forces.
acknowledgement: "We thank L. Pelkmans and D. Dormann for providing Dyrk3-EGFP plasmids;
M. Heuzé for providing a RFP-Pericentrin plasmid; T. Balla for providing a PH-Akt-GFP
plasmid; E. Snaar-Jagalska for providing a pLenti-V6.3 Ultra-Chili plasmid; T. Tang
for providing CEP120 a plasmid; D. Trono for providing pMD2.G and psSPAX2 plasmids;
M. Sixt for providing EB3-mCherry and EMTB-mCherry plasmids as well as 3T3 fibroblasts,
Lifeact-GFP Hoxb8 cells, and LX293 cells; M. Duggan for RNA isolation from migrating
DCs; M. Schuster from the Biomedical Sequencing Facility at CeMM; J. Schwarz for
providing Jurkat T cells; M. Götz for initial transcriptome analysis; M. Götz and
F. Merino for discussion and sharing reagents; F. Gärtner for discussions and support;
M. Benjamin Braun for critical reading of the manuscript; and the Core Facility
Bioimaging, the Core Facility Flow Cytometry, and the Animal Core Facility of the
Biomedical Center (BMC) for excellent support.\r\nThis work was supported by Peter
Hans Hofschneider Professorship of the Stiftung Experimentelle Biomedizin (J.R.);
German Research Foundation grant “CRC914, project A12” (J.R); German Research Foundation
grant “SPP2332, project 492014049” (J.R.); LMU Institutional Strategy LMU-Excellent
within the framework of the German Excellence Initiative (J.R.); Medical & Clinician
Scientist Program (MCSP) LMU Munich (J.K.); Deutsche Forschungsgemeinschaft (DFG;
German Research Foundation) under Germany’s Excellence Strategy – EXC2151 – 390873048
(D.B.); Deutsche Forschungsgemeinschaft (DFG; German Research Foundation) Grossgeräteantrag
457838313 and under Germany’s Excellence Strategy – EXC 2151 – 390873048 (E.K.);
Ministry of Innovation, Science and Research of North-Rhine-Westphalia (fellowship
AZ: 421-8.03.03.02-137069) (E.K.); TRA Life and Health (University of Bonn) as part
of the Excellence Strategy of the federal and state governments (E.K.); and CZI
grant DAF2020-225401 and grant (DOI https://doi.org/10.37921/120055ratwvi) from
the Chan Zuckerberg Initiative DAF (R.H.)."
article_number: eadx4047
article_processing_charge: Yes
article_type: original
author:
- first_name: Madeleine T.
full_name: Schmitt, Madeleine T.
last_name: Schmitt
- first_name: Janina
full_name: Kroll, Janina
last_name: Kroll
- first_name: Mauricio J.A.
full_name: Ruiz-Fernandez, Mauricio J.A.
last_name: Ruiz-Fernandez
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Shaunak
full_name: Ghosh, Shaunak
last_name: Ghosh
- first_name: Petra
full_name: Kameritsch, Petra
last_name: Kameritsch
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Johanna
full_name: Schmid, Johanna
last_name: Schmid
- first_name: Kasia
full_name: Stefanowski, Kasia
last_name: Stefanowski
- first_name: Andreas W.
full_name: Thomae, Andreas W.
last_name: Thomae
- first_name: Jingyuan
full_name: Cheng, Jingyuan
last_name: Cheng
- first_name: Gamze Naz
full_name: Öztan, Gamze Naz
last_name: Öztan
- first_name: Peter
full_name: Konopka, Peter
last_name: Konopka
- first_name: Germán Camargo
full_name: Ortega, Germán Camargo
last_name: Ortega
- first_name: Thomas
full_name: Penz, Thomas
last_name: Penz
- first_name: Luisa
full_name: Bach, Luisa
last_name: Bach
- first_name: Dirk
full_name: Baumjohann, Dirk
last_name: Baumjohann
- first_name: Christoph
full_name: Bock, Christoph
last_name: Bock
- first_name: Tobias
full_name: Straub, Tobias
last_name: Straub
- first_name: Felix
full_name: Meissner, Felix
last_name: Meissner
- first_name: Eva
full_name: Kiermaier, Eva
id: 3EB04B78-F248-11E8-B48F-1D18A9856A87
last_name: Kiermaier
orcid: 0000-0001-6165-5738
- first_name: Jörg
full_name: Renkawitz, Jörg
id: 3F0587C8-F248-11E8-B48F-1D18A9856A87
last_name: Renkawitz
orcid: 0000-0003-2856-3369
citation:
ama: Schmitt MT, Kroll J, Ruiz-Fernandez MJA, et al. Protecting centrosomes from
fracturing enables efficient cell navigation. Science Advances. 2025;11(17).
doi:10.1126/sciadv.adx4047
apa: Schmitt, M. T., Kroll, J., Ruiz-Fernandez, M. J. A., Hauschild, R., Ghosh,
S., Kameritsch, P., … Renkawitz, J. (2025). Protecting centrosomes from fracturing
enables efficient cell navigation. Science Advances. AAAS. https://doi.org/10.1126/sciadv.adx4047
chicago: Schmitt, Madeleine T., Janina Kroll, Mauricio J.A. Ruiz-Fernandez, Robert
Hauschild, Shaunak Ghosh, Petra Kameritsch, Jack Merrin, et al. “Protecting Centrosomes
from Fracturing Enables Efficient Cell Navigation.” Science Advances. AAAS,
2025. https://doi.org/10.1126/sciadv.adx4047.
ieee: M. T. Schmitt et al., “Protecting centrosomes from fracturing enables
efficient cell navigation,” Science Advances, vol. 11, no. 17. AAAS, 2025.
ista: Schmitt MT, Kroll J, Ruiz-Fernandez MJA, Hauschild R, Ghosh S, Kameritsch
P, Merrin J, Schmid J, Stefanowski K, Thomae AW, Cheng J, Öztan GN, Konopka P,
Ortega GC, Penz T, Bach L, Baumjohann D, Bock C, Straub T, Meissner F, Kiermaier
E, Renkawitz J. 2025. Protecting centrosomes from fracturing enables efficient
cell navigation. Science Advances. 11(17), eadx4047.
mla: Schmitt, Madeleine T., et al. “Protecting Centrosomes from Fracturing Enables
Efficient Cell Navigation.” Science Advances, vol. 11, no. 17, eadx4047,
AAAS, 2025, doi:10.1126/sciadv.adx4047.
short: M.T. Schmitt, J. Kroll, M.J.A. Ruiz-Fernandez, R. Hauschild, S. Ghosh, P.
Kameritsch, J. Merrin, J. Schmid, K. Stefanowski, A.W. Thomae, J. Cheng, G.N.
Öztan, P. Konopka, G.C. Ortega, T. Penz, L. Bach, D. Baumjohann, C. Bock, T. Straub,
F. Meissner, E. Kiermaier, J. Renkawitz, Science Advances 11 (2025).
date_created: 2025-05-11T22:02:38Z
date_published: 2025-04-25T00:00:00Z
date_updated: 2025-09-30T12:26:21Z
day: '25'
ddc:
- '570'
department:
- _id: Bio
- _id: NanoFab
doi: 10.1126/sciadv.adx4047
external_id:
isi:
- '001476113400016'
pmid:
- '40279414'
file:
- access_level: open_access
checksum: e8ba22922fa5b23ccfcce8865f57226c
content_type: application/pdf
creator: dernst
date_created: 2025-05-12T07:46:10Z
date_updated: 2025-05-12T07:46:10Z
file_id: '19679'
file_name: 2025_ScienceAdvance_Schmitt.pdf
file_size: 2707050
relation: main_file
success: 1
file_date_updated: 2025-05-12T07:46:10Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '17'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: c08e9ad1-5a5b-11eb-8a69-9d1cf3b07473
grant_number: CZI01
name: Tools for automation and feedback microscopy
publication: Science Advances
publication_identifier:
eissn:
- 2375-2548
publication_status: published
publisher: AAAS
quality_controlled: '1'
scopus_import: '1'
status: public
title: Protecting centrosomes from fracturing enables efficient cell navigation
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 11
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20082'
abstract:
- lang: eng
text: Efficient immune responses rely on the capacity of leukocytes to traverse
diverse and complex tissues. To meet such changing environmental conditions, leukocytes
usually adopt an ameboid configuration, using their forward-positioned nucleus
as a probe to identify and follow the path of least resistance among pre-existing
pores. We show that, in dense environments where even the largest pores preclude
free passage, leukocytes position their nucleus behind the centrosome and organelles.
The local compression imposed on the cell body by its surroundings triggers assembly
of a central F-actin pool, located between cell front and nucleus. Central actin
pushes outward to transiently dilate a path for organelles and nucleus. Pools
of central and front actin are tightly coupled and experimental depletion of the
central pool enhances actin accumulation and protrusion formation at the cell
front. Although this shifted balance speeds up cells in permissive environments,
migration in restrictive environments is impaired, as the unleashed leading edge
dissociates from the trapped cell body. Our findings establish an actin regulatory
loop that balances path dilation with advancement of the leading edge to maintain
cellular coherence.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: This research was supported by the Scientific Service Units of ISTA
through resources provided by the Imaging and Optics, Preclinical and Lab Support
Facilities. In particular, we thank M. A. Symth and F. G. G. Leite, from the Virus
Service Team, who helped generating the lentiviral particles used in this study.
We thank all the members of the Sixt group for valuable discussions and feedback,
in particular, I. Mayer, for helping with T cell isolation and Z. (P.) Li for providing
the Actin–GFP DC line. We are also thankful to J. Mandl and C. Shen for their feedback
during the writing of this manuscript. This work was supported by a European Research
Council grant ERC-SyG 101071793 to M.S. M.J.A. was supported by an HFSP Postdoctoral
Fellowship LTF 177 2021 and A.J.G. by a Lise Meitner Fellowship of the FWF (Austrian
Science Fund). Y.F. was supported by the AMED-CREST (JP19gm1310005), the Medical
Research Center Initiative for High Depth Omics and CURE:JPMXP1323015486 for MIB,
Kyushu University. Open access funding provided by Institute of Science and Technology
(IST Austria).
article_processing_charge: Yes (via OA deal)
article_type: letter_note
author:
- first_name: Patricia
full_name: Dos Reis Rodrigues, Patricia
id: 26E95904-5160-11E9-9C0B-C5B0DC97E90F
last_name: Dos Reis Rodrigues
orcid: 0000-0003-1681-508X
- first_name: Mario
full_name: Avellaneda Sarrió, Mario
id: DC4BA84C-56E6-11EA-AD5D-348C3DDC885E
last_name: Avellaneda Sarrió
orcid: 0000-0001-6406-524X
- first_name: Nikola
full_name: Canigova, Nikola
id: 3795523E-F248-11E8-B48F-1D18A9856A87
last_name: Canigova
orcid: 0000-0002-8518-5926
- first_name: Florian R
full_name: Gärtner, Florian R
id: 397A88EE-F248-11E8-B48F-1D18A9856A87
last_name: Gärtner
orcid: 0000-0001-6120-3723
- first_name: Kari
full_name: Vaahtomeri, Kari
id: 368EE576-F248-11E8-B48F-1D18A9856A87
last_name: Vaahtomeri
orcid: 0000-0001-7829-3518
- first_name: Michael
full_name: Riedl, Michael
id: 3BE60946-F248-11E8-B48F-1D18A9856A87
last_name: Riedl
orcid: 0000-0003-4844-6311
- first_name: Ingrid
full_name: De Vries, Ingrid
id: 4C7D837E-F248-11E8-B48F-1D18A9856A87
last_name: De Vries
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Yoshinori
full_name: Fukui, Yoshinori
last_name: Fukui
- first_name: Alba
full_name: Juanes Garcia, Alba
id: 40F05888-F248-11E8-B48F-1D18A9856A87
last_name: Juanes Garcia
orcid: 0000-0002-1009-9652
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Dos Reis Rodrigues P, Avellaneda Sarrió M, Canigova N, et al. Migrating immune
cells globally coordinate protrusive forces. Nature Immunology. 2025;26:1258–1266.
doi:10.1038/s41590-025-02211-w
apa: Dos Reis Rodrigues, P., Avellaneda Sarrió, M., Canigova, N., Gärtner, F. R.,
Vaahtomeri, K., Riedl, M., … Sixt, M. K. (2025). Migrating immune cells globally
coordinate protrusive forces. Nature Immunology. Springer Nature. https://doi.org/10.1038/s41590-025-02211-w
chicago: Dos Reis Rodrigues, Patricia, Mario Avellaneda Sarrió, Nikola Canigova,
Florian R Gärtner, Kari Vaahtomeri, Michael Riedl, Ingrid de Vries, et al. “Migrating
Immune Cells Globally Coordinate Protrusive Forces.” Nature Immunology.
Springer Nature, 2025. https://doi.org/10.1038/s41590-025-02211-w.
ieee: P. Dos Reis Rodrigues et al., “Migrating immune cells globally coordinate
protrusive forces,” Nature Immunology, vol. 26. Springer Nature, pp. 1258–1266,
2025.
ista: Dos Reis Rodrigues P, Avellaneda Sarrió M, Canigova N, Gärtner FR, Vaahtomeri
K, Riedl M, de Vries I, Merrin J, Hauschild R, Fukui Y, Juanes Garcia A, Sixt
MK. 2025. Migrating immune cells globally coordinate protrusive forces. Nature
Immunology. 26, 1258–1266.
mla: Dos Reis Rodrigues, Patricia, et al. “Migrating Immune Cells Globally Coordinate
Protrusive Forces.” Nature Immunology, vol. 26, Springer Nature, 2025,
pp. 1258–1266, doi:10.1038/s41590-025-02211-w.
short: P. Dos Reis Rodrigues, M. Avellaneda Sarrió, N. Canigova, F.R. Gärtner, K.
Vaahtomeri, M. Riedl, I. de Vries, J. Merrin, R. Hauschild, Y. Fukui, A. Juanes
Garcia, M.K. Sixt, Nature Immunology 26 (2025) 1258–1266.
corr_author: '1'
date_created: 2025-07-27T22:01:26Z
date_published: 2025-08-01T00:00:00Z
date_updated: 2026-04-28T13:26:50Z
day: '01'
ddc:
- '570'
department:
- _id: MiSi
- _id: NanoFab
- _id: Bio
doi: 10.1038/s41590-025-02211-w
external_id:
isi:
- '001529134300001'
pmid:
- '40664976'
file:
- access_level: open_access
checksum: 0c725123dca7797c682609bff2c4c5ac
content_type: application/pdf
creator: dernst
date_created: 2025-07-31T08:00:33Z
date_updated: 2025-07-31T08:00:33Z
file_id: '20096'
file_name: 2025_NatureImmunology_ReisRodrigues.pdf
file_size: 13514646
relation: main_file
success: 1
file_date_updated: 2025-07-31T08:00:33Z
has_accepted_license: '1'
intvolume: ' 26'
isi: 1
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 1258–1266
pmid: 1
project:
- _id: bd91e723-d553-11ed-ba76-fe7eeb2185fd
grant_number: '101071793'
name: 'Pushing from within: Control of cell shape, integrity and motility by cytoskeletal
pushing forces'
- _id: c092d618-5a5b-11eb-8a69-f92e1e843fc8
grant_number: 944-2020
name: 'Bioelectric patrolling: the role of the local membrane potential in immune
cell migration'
publication: Nature Immunology
publication_identifier:
eissn:
- 1529-2916
issn:
- 1529-2908
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on ISTA website
relation: press_release
url: https://ista.ac.at/en/news/bench-pressing-cells/
record:
- id: '20149'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Migrating immune cells globally coordinate protrusive forces
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 26
year: '2025'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
PlanS_conform: '1'
_id: '20295'
abstract:
- lang: eng
text: 'Scanning Kelvin probe microscopy (SKPM) is a powerful technique for macroscopic
imaging of the electrostatic potential above a surface. Though most often used
to image work-function variations of conductive surfaces, it can also be used
to probe the surface charge on insulating surfaces. In both cases, relating the
measured potential to the underlying signal is non-trivial. Here, general relationships
are derived between the measured SKPM voltage and the underlying source, revealing
either can be cast as a convolution with an appropriately scaled point spread
function (PSF). For charge that exists on a thin insulating layer above a conductor,
the PSF has the same shape as what would occur from a work-function variation
alone, differing by a simple scaling factor. This relationship is confirmed by:
(1) backing it out from finite-element simulations of work-function and charge
signals, and (2) experimentally comparing the measured PSF from a small work-function
target to that from a small charge spot. This scaling factor is further validated
by comparing SKPM charge measurements with Faraday cup measurements for highly
charged samples from contact-charging experiments. These results highlight a heretofore
unappreciated connection between SKPM voltage and charge signals, offering a rigorous
recipe to extract either from experimental data.'
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
- _id: ScienComp
- _id: LifeSc
acknowledgement: This project received funding from the European Research Council
(ERC) under the European Union's Horizon 2020 research and innovation programme
(Grant agreement No. 949120). This research was supported by the Scientific Service
Units of The Institute of Science and Technology Austria (ISTA) through resources
provided by the Miba Machine Shop, Nanofabrication Facility, Scientific Computing
Facility, and Lab Support Facility. The authors wish to thank Dmytro Rak and Juan
Carlos Sobarzo for letting us use their equipment. The authors wish to thank Evgeniia
Volobueva for advice in preparing PFIB samples. The authors wish to thank the contributions
of the whole Waitukaitis group for useful discussions and feedback.
article_number: e00521
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Isaac C
full_name: Lenton, Isaac C
id: a550210f-223c-11ec-8182-e2d45e817efb
last_name: Lenton
orcid: 0000-0002-5010-6984
- first_name: Felix
full_name: Pertl, Felix
id: 6313aec0-15b2-11ec-abd3-ed67d16139af
last_name: Pertl
orcid: 0000-0003-0463-5794
- first_name: Lubuna B
full_name: Shafeek, Lubuna B
id: 3CD37A82-F248-11E8-B48F-1D18A9856A87
last_name: Shafeek
orcid: 0000-0001-7180-6050
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
citation:
ama: Lenton IC, Pertl F, Shafeek LB, Waitukaitis SR. A duality between surface charge
and work function in scanning Kelvin probe microscopy. Advanced Materials Interfaces.
2025;12(19). doi:10.1002/admi.202500521
apa: Lenton, I. C., Pertl, F., Shafeek, L. B., & Waitukaitis, S. R. (2025).
A duality between surface charge and work function in scanning Kelvin probe microscopy.
Advanced Materials Interfaces. Wiley. https://doi.org/10.1002/admi.202500521
chicago: Lenton, Isaac C, Felix Pertl, Lubuna B Shafeek, and Scott R Waitukaitis.
“A Duality between Surface Charge and Work Function in Scanning Kelvin Probe Microscopy.”
Advanced Materials Interfaces. Wiley, 2025. https://doi.org/10.1002/admi.202500521.
ieee: I. C. Lenton, F. Pertl, L. B. Shafeek, and S. R. Waitukaitis, “A duality between
surface charge and work function in scanning Kelvin probe microscopy,” Advanced
Materials Interfaces, vol. 12, no. 19. Wiley, 2025.
ista: Lenton IC, Pertl F, Shafeek LB, Waitukaitis SR. 2025. A duality between surface
charge and work function in scanning Kelvin probe microscopy. Advanced Materials
Interfaces. 12(19), e00521.
mla: Lenton, Isaac C., et al. “A Duality between Surface Charge and Work Function
in Scanning Kelvin Probe Microscopy.” Advanced Materials Interfaces, vol.
12, no. 19, e00521, Wiley, 2025, doi:10.1002/admi.202500521.
short: I.C. Lenton, F. Pertl, L.B. Shafeek, S.R. Waitukaitis, Advanced Materials
Interfaces 12 (2025).
corr_author: '1'
date_created: 2025-09-07T22:01:33Z
date_published: 2025-10-01T00:00:00Z
date_updated: 2025-12-30T09:31:25Z
day: '01'
ddc:
- '530'
department:
- _id: ScWa
- _id: NanoFab
doi: 10.1002/admi.202500521
ec_funded: 1
external_id:
arxiv:
- '2506.07187'
isi:
- '001560163400001'
file:
- access_level: open_access
checksum: 906fcc7733be8ce8a83600427b82cd5a
content_type: application/pdf
creator: dernst
date_created: 2025-12-30T09:31:11Z
date_updated: 2025-12-30T09:31:11Z
file_id: '20908'
file_name: 2025_AdvMaterialsInterfaces_Lenton.pdf
file_size: 1830117
relation: main_file
success: 1
file_date_updated: 2025-12-30T09:31:11Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '19'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 0aa60e99-070f-11eb-9043-a6de6bdc3afa
call_identifier: H2020
grant_number: '949120'
name: 'Tribocharge: a multi-scale approach to an enduring problem in physics'
publication: Advanced Materials Interfaces
publication_identifier:
eissn:
- 2196-7350
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: A duality between surface charge and work function in scanning Kelvin probe
microscopy
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
PlanS_conform: '1'
_id: '20859'
abstract:
- lang: eng
text: Effective immune responses rely on the efficient migration of leukocytes.
Yet, how temperature regulates migration dynamics at the single-cell level has
remained poorly understood. Using zebrafish embryos and mouse tissue explants,
we found that temperature positively regulates leukocyte migration speed, exploration,
and arrival frequencies to wounds and lymph vessels. Complementary 2D and 3D cultures
revealed that this thermokinetic control of cell migration is conserved across
immune cell types, independently of the 3D tissue environment. By applying precise
(sub-)cellular temperature modulation, we identified a rapid and reversible thermo-response
that depends on myosin II activity. Small physiological increases in temperature
(1°C –2°C), as present during fever-like conditions, profoundly increased immune
responses by accelerating arrival times at lymphatic vessels and tissue wounds.
These findings identify myosin-II-dependent actomyosin contractility as a critical
mechanical structure regulating single-cell thermo-adaptability, with physiological
implications for tuning the speed of immune responses in vivo.
acknowledged_ssus:
- _id: NanoFab
acknowledgement: 'The authors would like to acknowledge the Super Resolution Light
Microcopy and Nanoscopy (SLN) Facility of ICFO for their support with imaging experiments,
Johann Osmond (Nanofabrication laboratory, ICFO) for the design and production of
molds for generating confinement coverslip, Merche Rivas for cell culture of immune
cells and further support from the CRG Core Facilities for Genomics and Advanced
Light Microscopy. We would like to thank Michael Sixt for discussions on this work
and the Quidant, Ruprecht, and Wieser lab members for critical reading of the manuscript.
This research was supported by the Scientific Service Units (SSU) of IST-Austria
through resources provided by the Nanofabrication Facility (NFF). C.A. acknowledges
the funding from the European Union’s Horizon 2020 research and innovation programme
under the Marie Skłodowska-Curie grant agreement no 847517 and V.V. from the ICFOstepstone
– PhD Programme funded by the European Union’s Horizon 2020 research and innovation
programme under the Marie Skłodowska-Curie grant agreement no 665884. S.W. acknowledges
support through the Spanish Ministry of Economy and Competitiveness via MINECO’s
Plan Nacional (BFU2017-86296-P). V.R. acknowledges funding from the European Union’s
HORIZON-EIC-2021-PATHFINDEROPEN program under grant agreement no. 101046620 and
European Union''s Horizon Europe program under the grant agreement no. 101072123.
E.K. acknowledges funding by a fellowship of the Ministry of Innovation, Science
and Research of North-Rhine-Westphalia (AZ: 421-8.03.03.02-137069) and the Deutsche
Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence
Strategy – EXC 2151 – 390873048 and by the TRA Life and Health (University of Bonn)
as part of the Excellence Strategy of the federal and state governments.'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Iván
full_name: Company-Garrido, Iván
last_name: Company-Garrido
- first_name: Alberto
full_name: Zurita Carpio, Alberto
last_name: Zurita Carpio
- first_name: Mariona
full_name: Colomer-Rosell, Mariona
last_name: Colomer-Rosell
- first_name: Bernard
full_name: Ciraulo, Bernard
last_name: Ciraulo
- first_name: Ronja
full_name: Molkenbur, Ronja
last_name: Molkenbur
- first_name: Peter
full_name: Lanzerstorfer, Peter
last_name: Lanzerstorfer
- first_name: Fabio
full_name: Pezzano, Fabio
last_name: Pezzano
- first_name: Costanza
full_name: Agazzi, Costanza
last_name: Agazzi
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Saumey
full_name: Jain, Saumey
last_name: Jain
- first_name: Jeroen M.
full_name: Jacques, Jeroen M.
last_name: Jacques
- first_name: Valeria
full_name: Venturini, Valeria
last_name: Venturini
- first_name: Christian
full_name: Knapp, Christian
last_name: Knapp
- first_name: Yufei
full_name: Xie, Yufei
last_name: Xie
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Julian
full_name: Weghuber, Julian
last_name: Weghuber
- first_name: Marcel
full_name: Schaaf, Marcel
last_name: Schaaf
- first_name: Romain
full_name: Quidant, Romain
last_name: Quidant
- first_name: Eva
full_name: Kiermaier, Eva
id: 3EB04B78-F248-11E8-B48F-1D18A9856A87
last_name: Kiermaier
orcid: 0000-0001-6165-5738
- first_name: Jaime
full_name: Ortega Arroyo, Jaime
last_name: Ortega Arroyo
- first_name: Verena
full_name: Ruprecht, Verena
id: 4D71A03A-F248-11E8-B48F-1D18A9856A87
last_name: Ruprecht
orcid: 0000-0003-4088-8633
- first_name: Stefan
full_name: Wieser, Stefan
id: 355AA5A0-F248-11E8-B48F-1D18A9856A87
last_name: Wieser
orcid: 0000-0002-2670-2217
citation:
ama: Company-Garrido I, Zurita Carpio A, Colomer-Rosell M, et al. Myosin II regulates
cellular thermo-adaptability and the efficiency of immune responses. Developmental
Cell. 2025. doi:10.1016/j.devcel.2025.10.006
apa: Company-Garrido, I., Zurita Carpio, A., Colomer-Rosell, M., Ciraulo, B., Molkenbur,
R., Lanzerstorfer, P., … Wieser, S. (2025). Myosin II regulates cellular thermo-adaptability
and the efficiency of immune responses. Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2025.10.006
chicago: Company-Garrido, Iván, Alberto Zurita Carpio, Mariona Colomer-Rosell, Bernard
Ciraulo, Ronja Molkenbur, Peter Lanzerstorfer, Fabio Pezzano, et al. “Myosin II
Regulates Cellular Thermo-Adaptability and the Efficiency of Immune Responses.”
Developmental Cell. Elsevier, 2025. https://doi.org/10.1016/j.devcel.2025.10.006.
ieee: I. Company-Garrido et al., “Myosin II regulates cellular thermo-adaptability
and the efficiency of immune responses,” Developmental Cell. Elsevier,
2025.
ista: Company-Garrido I, Zurita Carpio A, Colomer-Rosell M, Ciraulo B, Molkenbur
R, Lanzerstorfer P, Pezzano F, Agazzi C, Hauschild R, Jain S, Jacques JM, Venturini
V, Knapp C, Xie Y, Merrin J, Weghuber J, Schaaf M, Quidant R, Kiermaier E, Ortega
Arroyo J, Ruprecht V, Wieser S. 2025. Myosin II regulates cellular thermo-adaptability
and the efficiency of immune responses. Developmental Cell.
mla: Company-Garrido, Iván, et al. “Myosin II Regulates Cellular Thermo-Adaptability
and the Efficiency of Immune Responses.” Developmental Cell, Elsevier,
2025, doi:10.1016/j.devcel.2025.10.006.
short: I. Company-Garrido, A. Zurita Carpio, M. Colomer-Rosell, B. Ciraulo, R. Molkenbur,
P. Lanzerstorfer, F. Pezzano, C. Agazzi, R. Hauschild, S. Jain, J.M. Jacques,
V. Venturini, C. Knapp, Y. Xie, J. Merrin, J. Weghuber, M. Schaaf, R. Quidant,
E. Kiermaier, J. Ortega Arroyo, V. Ruprecht, S. Wieser, Developmental Cell (2025).
date_created: 2025-12-28T23:01:27Z
date_published: 2025-11-04T00:00:00Z
date_updated: 2025-12-29T09:23:58Z
day: '04'
ddc:
- '570'
department:
- _id: Bio
- _id: NanoFab
doi: 10.1016/j.devcel.2025.10.006
external_id:
pmid:
- '41192429'
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.devcel.2025.10.006
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: Developmental Cell
publication_identifier:
eissn:
- 1878-1551
issn:
- 1534-5807
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Myosin II regulates cellular thermo-adaptability and the efficiency of immune
responses
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2025'
...
---
OA_place: repository
_id: '21427'
abstract:
- lang: eng
text: While tumor malignancy has been extensively studied under the prism of genetic
and epigenetic heterogeneity, tumor cell states also critically depend on reciprocal
interactions with the microenvironment. This raises the hitherto untested possibility
that heterogeneity of the untransformed tumor stroma can actively fuel malignant
progression. As biological heterogeneity is inherently difficult to control, we
adopted a reductionist approach and let tumor cells invade micro-engineered environments
harboring obstacles with precision-controlled geometry. We find that not only
the presence of obstacles, but more surprisingly their spatial disorder, causes
a drastic shift from a collective to a single-cell mode of invasion – comparable
in strength to cadherin loss. Combining live-imaging and perturbation experiments
with minimal biophysical modeling, we demonstrate that cell detachments result
both from local geometrical constraints and a global integration of spatial disorder
over time. We show that different types of microenvironments map onto different
universality classes of invasion dynamics - homogeneous substrates follow Kardar–Parisi–Zhang
(KPZ) scaling, while disordered ones exhibit exponents consistent with KPZ with
quenched disorder (KPZq). Our findings highlight generic physical principles for
how the mode of cancer cell invasion depends on environmental heterogeneity, with
potential implications to understand tumor evolution in vivo.
acknowledgement: "European Research Council, https://ror.org/0472cxd90, 101071793\r\nAustrian
Academy of Sciences, 26360"
article_processing_charge: No
author:
- first_name: Zuzana
full_name: Dunajova, Zuzana
id: 4B39F286-F248-11E8-B48F-1D18A9856A87
last_name: Dunajova
- first_name: Saren
full_name: Tasciyan, Saren
id: 4323B49C-F248-11E8-B48F-1D18A9856A87
last_name: Tasciyan
orcid: 0000-0003-1671-393X
- first_name: Juraj
full_name: Majek, Juraj
id: 3e6d9473-f38e-11ec-8ae0-c4e05a8aa9e1
last_name: Majek
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Erik
full_name: Sahai, Erik
last_name: Sahai
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
citation:
ama: Dunajova Z, Tasciyan S, Majek J, et al. Substrate heterogeneity promotes cancer
cell dissemination through interface roughening. doi:10.1101/2025.05.20.655037
apa: Dunajova, Z., Tasciyan, S., Majek, J., Merrin, J., Sahai, E., Sixt, M. K.,
& Hannezo, E. B. (n.d.). Substrate heterogeneity promotes cancer cell dissemination
through interface roughening. bioRxiv. https://doi.org/10.1101/2025.05.20.655037
chicago: Dunajova, Zuzana, Saren Tasciyan, Juraj Majek, Jack Merrin, Erik Sahai,
Michael K Sixt, and Edouard B Hannezo. “Substrate Heterogeneity Promotes Cancer
Cell Dissemination through Interface Roughening.” bioRxiv, n.d. https://doi.org/10.1101/2025.05.20.655037.
ieee: Z. Dunajova et al., “Substrate heterogeneity promotes cancer cell dissemination
through interface roughening.” bioRxiv.
ista: Dunajova Z, Tasciyan S, Majek J, Merrin J, Sahai E, Sixt MK, Hannezo EB. Substrate
heterogeneity promotes cancer cell dissemination through interface roughening.
10.1101/2025.05.20.655037.
mla: Dunajova, Zuzana, et al. Substrate Heterogeneity Promotes Cancer Cell Dissemination
through Interface Roughening. bioRxiv, doi:10.1101/2025.05.20.655037.
short: Z. Dunajova, S. Tasciyan, J. Majek, J. Merrin, E. Sahai, M.K. Sixt, E.B.
Hannezo, (n.d.).
corr_author: '1'
date_created: 2026-03-11T08:40:06Z
date_published: 2025-09-25T00:00:00Z
date_updated: 2026-06-10T09:41:11Z
day: '25'
ddc:
- '539'
- '570'
department:
- _id: GradSch
- _id: EdHa
- _id: MiSi
- _id: NanoFab
- _id: AnSa
doi: 10.1101/2025.05.20.655037
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2025.05.20.655037
month: '09'
oa: 1
oa_version: Preprint
project:
- _id: bd91e723-d553-11ed-ba76-fe7eeb2185fd
grant_number: '101071793'
name: 'Pushing from within: Control of cell shape, integrity and motility by cytoskeletal
pushing forces'
- _id: 34d75525-11ca-11ed-8bc3-89b6307fee9d
grant_number: '26360'
name: Motile active matter models of migrating cells and chiral filaments
publication_status: draft
publisher: bioRxiv
related_material:
record:
- id: '21423'
relation: dissertation_contains
status: public
- id: '21439'
relation: research_data
status: public
status: public
title: Substrate heterogeneity promotes cancer cell dissemination through interface
roughening
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: preprint
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2025'
...
---
OA_place: publisher
OA_type: hybrid
_id: '18807'
abstract:
- lang: eng
text: Developing tissues interpret dynamic changes in morphogen activity to generate
cell type diversity. To quantitatively study bone morphogenetic protein (BMP)
signaling dynamics in the mouse neural tube, we developed an embryonic stem cell
differentiation system tailored for growing tissues. Differentiating cells form
striking self-organized patterns of dorsal neural tube cell types driven by sequential
phases of BMP signaling that are observed both in vitro and in vivo. Data-driven
biophysical modeling showed that these dynamics result from coupling fast negative
feedback with slow positive regulation of signaling by the specification of an
endogenous BMP source. Thus, in contrast to relays that propagate morphogen signaling
in space, we identify a BMP signaling relay that operates in time. This mechanism
allows for a rapid initial concentration-sensitive response that is robustly terminated,
thereby regulating balanced sequential cell type generation. Our study provides
an experimental and theoretical framework to understand how signaling dynamics
are exploited in developing tissues.
acknowledgement: We thank A. Miller and N. Papalopulu for reagents and J. Briscoe
for comments on the manuscript. Work in the A.K. lab is supported by ISTA; the European
Research Council under Horizon Europe, grant 101044579; and the Austrian Science
Fund (FWF), grant https://doi.org/10.55776/F78. S.L. is supported by Gesellschaft
für Forschungsförderung Niederösterreich m.b.H. fellowship SC19-011. D.B.B. was
supported by the NOMIS foundation as a NOMIS Fellow and by an EMBO Postdoctoral
Fellowship (ALTF 343-2022).
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Stefanie
full_name: Rus, Stefanie
id: 4D9EC9B6-F248-11E8-B48F-1D18A9856A87
last_name: Rus
orcid: 0000-0001-8703-1093
- first_name: David
full_name: Brückner, David
id: e1e86031-6537-11eb-953a-f7ab92be508d
last_name: Brückner
orcid: 0000-0001-7205-2975
- first_name: Thomas
full_name: Minchington, Thomas
id: 7d1648cb-19e9-11eb-8e7a-f8c037fb3e3f
last_name: Minchington
- first_name: Martina
full_name: Greunz, Martina
id: 48A59534-F248-11E8-B48F-1D18A9856A87
last_name: Greunz
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Anna
full_name: Kicheva, Anna
id: 3959A2A0-F248-11E8-B48F-1D18A9856A87
last_name: Kicheva
orcid: 0000-0003-4509-4998
citation:
ama: Rus S, Brückner D, Minchington T, et al. Self-organized pattern formation in
the developing mouse neural tube by a temporal relay of BMP signaling. Developmental
Cell. 2025;60(4):567-580. doi:10.1016/j.devcel.2024.10.024
apa: Rus, S., Brückner, D., Minchington, T., Greunz, M., Merrin, J., Hannezo, E.
B., & Kicheva, A. (2025). Self-organized pattern formation in the developing
mouse neural tube by a temporal relay of BMP signaling. Developmental Cell.
Elsevier. https://doi.org/10.1016/j.devcel.2024.10.024
chicago: Rus, Stefanie, David Brückner, Thomas Minchington, Martina Greunz, Jack
Merrin, Edouard B Hannezo, and Anna Kicheva. “Self-Organized Pattern Formation
in the Developing Mouse Neural Tube by a Temporal Relay of BMP Signaling.” Developmental
Cell. Elsevier, 2025. https://doi.org/10.1016/j.devcel.2024.10.024.
ieee: S. Rus et al., “Self-organized pattern formation in the developing
mouse neural tube by a temporal relay of BMP signaling,” Developmental Cell,
vol. 60, no. 4. Elsevier, pp. 567–580, 2025.
ista: Rus S, Brückner D, Minchington T, Greunz M, Merrin J, Hannezo EB, Kicheva
A. 2025. Self-organized pattern formation in the developing mouse neural tube
by a temporal relay of BMP signaling. Developmental Cell. 60(4), 567–580.
mla: Rus, Stefanie, et al. “Self-Organized Pattern Formation in the Developing Mouse
Neural Tube by a Temporal Relay of BMP Signaling.” Developmental Cell,
vol. 60, no. 4, Elsevier, 2025, pp. 567–80, doi:10.1016/j.devcel.2024.10.024.
short: S. Rus, D. Brückner, T. Minchington, M. Greunz, J. Merrin, E.B. Hannezo,
A. Kicheva, Developmental Cell 60 (2025) 567–580.
corr_author: '1'
date_created: 2025-01-09T11:25:47Z
date_published: 2025-02-24T00:00:00Z
date_updated: 2026-06-23T22:30:48Z
day: '24'
ddc:
- '570'
department:
- _id: AnKi
- _id: EdHa
- _id: NanoFab
doi: 10.1016/j.devcel.2024.10.024
external_id:
isi:
- '001434279000001'
pmid:
- '39603235'
file:
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checksum: bb58db4a908a1f4aabe4004706154541
content_type: application/pdf
creator: dernst
date_created: 2025-04-16T10:54:07Z
date_updated: 2025-04-16T10:54:07Z
file_id: '19584'
file_name: 2025_DevelopmentalCell_Lehr.pdf
file_size: 6994499
relation: main_file
success: 1
file_date_updated: 2025-04-16T10:54:07Z
has_accepted_license: '1'
intvolume: ' 60'
isi: 1
issue: '4'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 567-580
pmid: 1
project:
- _id: bd7e737f-d553-11ed-ba76-d69ffb5ee3aa
grant_number: '101044579'
name: Mechanisms of tissue size regulation in spinal cord development
- _id: 059DF620-7A3F-11EA-A408-12923DDC885E
grant_number: F7802
name: Stem Cell Modulation in Neural Development and Regeneration/ P02-Morphogen
control of growth and pattern in the spinal cord
- _id: 9B9B39FA-BA93-11EA-9121-9846C619BF3A
grant_number: SC19-011
name: The regulatory logic of pattern formation in the vertebrate dorsal neural
tube
publication: Developmental Cell
publication_identifier:
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '19763'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Self-organized pattern formation in the developing mouse neural tube by a temporal
relay of BMP signaling
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 60
year: '2025'
...
---
_id: '14795'
abstract:
- lang: eng
text: Metazoan development relies on the formation and remodeling of cell-cell contacts.
Dynamic reorganization of adhesion receptors and the actomyosin cell cortex in
space and time plays a central role in cell-cell contact formation and maturation.
Nevertheless, how this process is mechanistically achieved when new contacts are
formed remains unclear. Here, by building a biomimetic assay composed of progenitor
cells adhering to supported lipid bilayers functionalized with E-cadherin ectodomains,
we show that cortical F-actin flows, driven by the depletion of myosin-2 at the
cell contact center, mediate the dynamic reorganization of adhesion receptors
and cell cortex at the contact. E-cadherin-dependent downregulation of the small
GTPase RhoA at the forming contact leads to both a depletion of myosin-2 and a
decrease of F-actin at the contact center. At the contact rim, in contrast, myosin-2
becomes enriched by the retraction of bleb-like protrusions, resulting in a cortical
tension gradient from the contact rim to its center. This tension gradient, in
turn, triggers centrifugal F-actin flows, leading to further accumulation of F-actin
at the contact rim and the progressive redistribution of E-cadherin from the contact
center to the rim. Eventually, this combination of actomyosin downregulation and
flows at the contact determines the characteristic molecular organization, with
E-cadherin and F-actin accumulating at the contact rim, where they are needed
to mechanically link the contractile cortices of the adhering cells.
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: "We are grateful to Edwin Munro for their feedback and help with
the single particle analysis. We thank members of the Heisenberg and Loose labs
for their help and feedback on the manuscript, notably Xin Tong for making the PCS2-mCherry-AHPH
plasmid. Finally, we thank the Aquatics and Imaging & Optics facilities of ISTA
for their continuous support, especially Yann Cesbron for assistance with the laser
cutter. This work was supported by an ERC\r\nAdvanced Grant (MECSPEC) to C.-P.H."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Feyza N
full_name: Arslan, Feyza N
id: 49DA7910-F248-11E8-B48F-1D18A9856A87
last_name: Arslan
orcid: 0000-0001-5809-9566
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Arslan FN, Hannezo EB, Merrin J, Loose M, Heisenberg C-PJ. Adhesion-induced
cortical flows pattern E-cadherin-mediated cell contacts. Current Biology.
2024;34(1):171-182.e8. doi:10.1016/j.cub.2023.11.067
apa: Arslan, F. N., Hannezo, E. B., Merrin, J., Loose, M., & Heisenberg, C.-P.
J. (2024). Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts.
Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2023.11.067
chicago: Arslan, Feyza N, Edouard B Hannezo, Jack Merrin, Martin Loose, and Carl-Philipp
J Heisenberg. “Adhesion-Induced Cortical Flows Pattern E-Cadherin-Mediated Cell
Contacts.” Current Biology. Elsevier, 2024. https://doi.org/10.1016/j.cub.2023.11.067.
ieee: F. N. Arslan, E. B. Hannezo, J. Merrin, M. Loose, and C.-P. J. Heisenberg,
“Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts,” Current
Biology, vol. 34, no. 1. Elsevier, p. 171–182.e8, 2024.
ista: Arslan FN, Hannezo EB, Merrin J, Loose M, Heisenberg C-PJ. 2024. Adhesion-induced
cortical flows pattern E-cadherin-mediated cell contacts. Current Biology. 34(1),
171–182.e8.
mla: Arslan, Feyza N., et al. “Adhesion-Induced Cortical Flows Pattern E-Cadherin-Mediated
Cell Contacts.” Current Biology, vol. 34, no. 1, Elsevier, 2024, p. 171–182.e8,
doi:10.1016/j.cub.2023.11.067.
short: F.N. Arslan, E.B. Hannezo, J. Merrin, M. Loose, C.-P.J. Heisenberg, Current
Biology 34 (2024) 171–182.e8.
corr_author: '1'
date_created: 2024-01-14T23:00:56Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2025-09-04T11:39:10Z
day: '08'
ddc:
- '570'
department:
- _id: CaHe
- _id: EdHa
- _id: MaLo
- _id: NanoFab
doi: 10.1016/j.cub.2023.11.067
ec_funded: 1
external_id:
isi:
- '001154500400001'
pmid:
- '38134934'
file:
- access_level: open_access
checksum: 51220b76d72a614208f84bdbfbaf9b72
content_type: application/pdf
creator: dernst
date_created: 2024-01-16T10:53:31Z
date_updated: 2024-01-16T10:53:31Z
file_id: '14813'
file_name: 2024_CurrentBiology_Arslan.pdf
file_size: 5183861
relation: main_file
success: 1
file_date_updated: 2024-01-16T10:53:31Z
has_accepted_license: '1'
intvolume: ' 34'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 171-182.e8
pmid: 1
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
issn:
- 0960-9822
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 34
year: '2024'
...
---
_id: '14846'
abstract:
- lang: eng
text: Contraction and flow of the actin cell cortex have emerged as a common principle
by which cells reorganize their cytoplasm and take shape. However, how these cortical
flows interact with adjacent cytoplasmic components, changing their form and localization,
and how this affects cytoplasmic organization and cell shape remains unclear.
Here we show that in ascidian oocytes, the cooperative activities of cortical
actomyosin flows and deformation of the adjacent mitochondria-rich myoplasm drive
oocyte cytoplasmic reorganization and shape changes following fertilization. We
show that vegetal-directed cortical actomyosin flows, established upon oocyte
fertilization, lead to both the accumulation of cortical actin at the vegetal
pole of the zygote and compression and local buckling of the adjacent elastic
solid-like myoplasm layer due to friction forces generated at their interface.
Once cortical flows have ceased, the multiple myoplasm buckles resolve into one
larger buckle, which again drives the formation of the contraction pole—a protuberance
of the zygote’s vegetal pole where maternal mRNAs accumulate. Thus, our findings
reveal a mechanism where cortical actomyosin network flows determine cytoplasmic
reorganization and cell shape by deforming adjacent cytoplasmic components through
friction forces.
acknowledged_ssus:
- _id: EM-Fac
- _id: Bio
- _id: NanoFab
acknowledgement: We would like to thank A. McDougall, E. Hannezo and the Heisenberg
lab for fruitful discussions and reagents. We also thank E. Munro for the iMyo-YFP
and Bra>iMyo-mScarlet constructs. This research was supported by the Scientific
Service Units of the Institute of Science and Technology Austria through resources
provided by the Electron Microscopy Facility, Imaging and Optics Facility and the
Nanofabrication Facility. This work was supported by a Joint Project Grant from
the FWF (I 3601-B27).
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Silvia
full_name: Caballero Mancebo, Silvia
id: 2F1E1758-F248-11E8-B48F-1D18A9856A87
last_name: Caballero Mancebo
orcid: 0000-0002-5223-3346
- first_name: Rushikesh
full_name: Shinde, Rushikesh
last_name: Shinde
- first_name: Madison
full_name: Bolger-Munro, Madison
id: 516F03FA-93A3-11EA-A7C5-D6BE3DDC885E
last_name: Bolger-Munro
orcid: 0000-0002-8176-4824
- first_name: Matilda
full_name: Peruzzo, Matilda
id: 3F920B30-F248-11E8-B48F-1D18A9856A87
last_name: Peruzzo
orcid: 0000-0002-3415-4628
- first_name: Gregory
full_name: Szep, Gregory
id: 4BFB7762-F248-11E8-B48F-1D18A9856A87
last_name: Szep
- first_name: Irene
full_name: Steccari, Irene
id: 2705C766-9FE2-11EA-B224-C6773DDC885E
last_name: Steccari
- first_name: David
full_name: Labrousse Arias, David
id: CD573DF4-9ED3-11E9-9D77-3223E6697425
last_name: Labrousse Arias
- first_name: Vanessa
full_name: Zheden, Vanessa
id: 39C5A68A-F248-11E8-B48F-1D18A9856A87
last_name: Zheden
orcid: 0000-0002-9438-4783
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Andrew
full_name: Callan-Jones, Andrew
last_name: Callan-Jones
- first_name: Raphaël
full_name: Voituriez, Raphaël
last_name: Voituriez
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Caballero Mancebo S, Shinde R, Bolger-Munro M, et al. Friction forces determine
cytoplasmic reorganization and shape changes of ascidian oocytes upon fertilization.
Nature Physics. 2024;20:310-321. doi:10.1038/s41567-023-02302-1
apa: Caballero Mancebo, S., Shinde, R., Bolger-Munro, M., Peruzzo, M., Szep, G.,
Steccari, I., … Heisenberg, C.-P. J. (2024). Friction forces determine cytoplasmic
reorganization and shape changes of ascidian oocytes upon fertilization. Nature
Physics. Springer Nature. https://doi.org/10.1038/s41567-023-02302-1
chicago: Caballero Mancebo, Silvia, Rushikesh Shinde, Madison Bolger-Munro, Matilda
Peruzzo, Gregory Szep, Irene Steccari, David Labrousse Arias, et al. “Friction
Forces Determine Cytoplasmic Reorganization and Shape Changes of Ascidian Oocytes
upon Fertilization.” Nature Physics. Springer Nature, 2024. https://doi.org/10.1038/s41567-023-02302-1.
ieee: S. Caballero Mancebo et al., “Friction forces determine cytoplasmic
reorganization and shape changes of ascidian oocytes upon fertilization,” Nature
Physics, vol. 20. Springer Nature, pp. 310–321, 2024.
ista: Caballero Mancebo S, Shinde R, Bolger-Munro M, Peruzzo M, Szep G, Steccari
I, Labrousse Arias D, Zheden V, Merrin J, Callan-Jones A, Voituriez R, Heisenberg
C-PJ. 2024. Friction forces determine cytoplasmic reorganization and shape changes
of ascidian oocytes upon fertilization. Nature Physics. 20, 310–321.
mla: Caballero Mancebo, Silvia, et al. “Friction Forces Determine Cytoplasmic Reorganization
and Shape Changes of Ascidian Oocytes upon Fertilization.” Nature Physics,
vol. 20, Springer Nature, 2024, pp. 310–21, doi:10.1038/s41567-023-02302-1.
short: S. Caballero Mancebo, R. Shinde, M. Bolger-Munro, M. Peruzzo, G. Szep, I.
Steccari, D. Labrousse Arias, V. Zheden, J. Merrin, A. Callan-Jones, R. Voituriez,
C.-P.J. Heisenberg, Nature Physics 20 (2024) 310–321.
corr_author: '1'
date_created: 2024-01-21T23:00:57Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2025-09-04T11:48:28Z
day: '01'
ddc:
- '530'
department:
- _id: CaHe
- _id: JoFi
- _id: MiSi
- _id: EM-Fac
- _id: NanoFab
doi: 10.1038/s41567-023-02302-1
external_id:
isi:
- '001138880800005'
pmid:
- '38370025'
file:
- access_level: open_access
checksum: 7891ebe7c900ae47469ab127031dd1ec
content_type: application/pdf
creator: dernst
date_created: 2024-07-16T12:12:43Z
date_updated: 2024-07-16T12:12:43Z
file_id: '17267'
file_name: 2024_NaturePhysics_CaballeroMancebo.pdf
file_size: 9897883
relation: main_file
success: 1
file_date_updated: 2024-07-16T12:12:43Z
has_accepted_license: '1'
intvolume: ' 20'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 310-321
pmid: 1
project:
- _id: 2646861A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03601
name: Control of embryonic cleavage pattern
publication: Nature Physics
publication_identifier:
eissn:
- 1745-2481
issn:
- 1745-2473
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/stranger-than-friction-a-force-initiating-life/
scopus_import: '1'
status: public
title: Friction forces determine cytoplasmic reorganization and shape changes of ascidian
oocytes upon fertilization
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 20
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '15018'
abstract:
- lang: eng
text: The epitaxial growth of a strained Ge layer, which is a promising candidate
for the channel material of a hole spin qubit, has been demonstrated on 300 mm
Si wafers using commercially available Si0.3Ge0.7 strain relaxed buffer (SRB)
layers. The assessment of the layer and the interface qualities for a buried strained
Ge layer embedded in Si0.3Ge0.7 layers is reported. The XRD reciprocal space mapping
confirmed that the reduction of the growth temperature enables the 2-dimensional
growth of the Ge layer fully strained with respect to the Si0.3Ge0.7. Nevertheless,
dislocations at the top and/or bottom interface of the Ge layer were observed
by means of electron channeling contrast imaging, suggesting the importance of
the careful dislocation assessment. The interface abruptness does not depend on
the selection of the precursor gases, but it is strongly influenced by the growth
temperature which affects the coverage of the surface H-passivation. The mobility
of 2.7 × 105 cm2/Vs is promising, while the low percolation density of 3 × 1010
/cm2 measured with a Hall-bar device at 7 K illustrates the high quality of the
heterostructure thanks to the high Si0.3Ge0.7 SRB quality.
acknowledgement: The Ge project received funding from the European Union's Horizon
Europe programme under the Grant Agreement 101069515 – IGNITE. Siltronic AG is acknowledged
for providing the SRB wafers. This work was supported by Imec's Industrial Affiliation
Program on Quantum Computing.
article_number: '108231'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Yosuke
full_name: Shimura, Yosuke
last_name: Shimura
- first_name: Clement
full_name: Godfrin, Clement
last_name: Godfrin
- first_name: Andriy
full_name: Hikavyy, Andriy
last_name: Hikavyy
- first_name: Roy
full_name: Li, Roy
last_name: Li
- first_name: Juan L
full_name: Aguilera Servin, Juan L
id: 2A67C376-F248-11E8-B48F-1D18A9856A87
last_name: Aguilera Servin
orcid: 0000-0002-2862-8372
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
- first_name: Paola
full_name: Favia, Paola
last_name: Favia
- first_name: Han
full_name: Han, Han
last_name: Han
- first_name: Danny
full_name: Wan, Danny
last_name: Wan
- first_name: Kristiaan
full_name: de Greve, Kristiaan
last_name: de Greve
- first_name: Roger
full_name: Loo, Roger
last_name: Loo
citation:
ama: Shimura Y, Godfrin C, Hikavyy A, et al. Compressively strained epitaxial Ge
layers for quantum computing applications. Materials Science in Semiconductor
Processing. 2024;174(5). doi:10.1016/j.mssp.2024.108231
apa: Shimura, Y., Godfrin, C., Hikavyy, A., Li, R., Aguilera Servin, J. L., Katsaros,
G., … Loo, R. (2024). Compressively strained epitaxial Ge layers for quantum computing
applications. Materials Science in Semiconductor Processing. Elsevier.
https://doi.org/10.1016/j.mssp.2024.108231
chicago: Shimura, Yosuke, Clement Godfrin, Andriy Hikavyy, Roy Li, Juan L Aguilera
Servin, Georgios Katsaros, Paola Favia, et al. “Compressively Strained Epitaxial
Ge Layers for Quantum Computing Applications.” Materials Science in Semiconductor
Processing. Elsevier, 2024. https://doi.org/10.1016/j.mssp.2024.108231.
ieee: Y. Shimura et al., “Compressively strained epitaxial Ge layers for
quantum computing applications,” Materials Science in Semiconductor Processing,
vol. 174, no. 5. Elsevier, 2024.
ista: Shimura Y, Godfrin C, Hikavyy A, Li R, Aguilera Servin JL, Katsaros G, Favia
P, Han H, Wan D, de Greve K, Loo R. 2024. Compressively strained epitaxial Ge
layers for quantum computing applications. Materials Science in Semiconductor
Processing. 174(5), 108231.
mla: Shimura, Yosuke, et al. “Compressively Strained Epitaxial Ge Layers for Quantum
Computing Applications.” Materials Science in Semiconductor Processing,
vol. 174, no. 5, 108231, Elsevier, 2024, doi:10.1016/j.mssp.2024.108231.
short: Y. Shimura, C. Godfrin, A. Hikavyy, R. Li, J.L. Aguilera Servin, G. Katsaros,
P. Favia, H. Han, D. Wan, K. de Greve, R. Loo, Materials Science in Semiconductor
Processing 174 (2024).
date_created: 2024-02-22T14:10:40Z
date_published: 2024-05-20T00:00:00Z
date_updated: 2025-04-14T08:01:27Z
day: '20'
ddc:
- '530'
department:
- _id: GeKa
- _id: NanoFab
doi: 10.1016/j.mssp.2024.108231
external_id:
isi:
- '001188520000001'
file:
- access_level: open_access
checksum: 62e8e9ae960387a3dca32ec7f5e413ab
content_type: application/pdf
creator: dernst
date_created: 2024-07-22T11:56:08Z
date_updated: 2024-07-22T11:56:08Z
file_id: '17312'
file_name: 2024_MaterialsScience_Shimura.pdf
file_size: 4220165
relation: main_file
success: 1
file_date_updated: 2024-07-22T11:56:08Z
has_accepted_license: '1'
intvolume: ' 174'
isi: 1
issue: '5'
keyword:
- Mechanical Engineering
- Mechanics of Materials
- Condensed Matter Physics
- General Materials Science
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
project:
- _id: 34c0acea-11ca-11ed-8bc3-8775e10fd452
grant_number: '101069515'
name: Integrated Germanium Quantum Technology
publication: Materials Science in Semiconductor Processing
publication_identifier:
issn:
- 1369-8001
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Compressively strained epitaxial Ge layers for quantum computing applications
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 174
year: '2024'
...
---
_id: '17373'
abstract:
- lang: eng
text: Scanning Kelvin probe microscopy (SKPM) is a powerful technique for investigating
the electrostatic properties of material surfaces, enabling the imaging of variations
in work function, topology, surface charge density, or combinations thereof. Regardless
of the underlying signal source, SKPM results in a voltage image, which is spatially
distorted due to the finite size of the probe, long-range electrostatic interactions,
mechanical and electrical noise, and the finite response time of the electronics.
In order to recover the underlying signal, it is necessary to deconvolve the measurement
with an appropriate point spread function (PSF) that accounts the aforementioned
distortions, but determining this PSF is difficult. Here, we describe how such
PSFs can be determined experimentally and show how they can be used to recover
the underlying information of interest. We first consider the physical principles
that enable SKPM and discuss how these affect the system PSF. We then show how
one can experimentally measure PSFs by looking at well-defined features, and that
these compare well to simulated PSFs, provided scans are performed extremely slowly
and carefully. Next, we work at realistic scan speeds and show that the idealized
PSFs fail to capture temporal distortions in the scan direction. While simulating
PSFs for these situations would be quite challenging, we show that measuring PSFs
with similar scan conditions works well. Our approach clarifies the basic principles
and inherent challenges to SKPM measurements and gives practical methods to improve
results.
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
- _id: LifeSc
- _id: ScienComp
acknowledgement: This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation program (Grant
Agreement No. 949120). This research was supported by the Scientific Service Units
of the Institute of Science and Technology Austria (ISTA) through resources provided
by the Miba Machine Shop, Nanofabrication Facility, Scientific Computing Facility,
and Lab Support Facility. The authors wish to thank Dmytro Rak and Juan Carlos Sobarzo
for letting us use their equipment. The authors wish to thank the contributions
of the whole Waitukaitis Group for useful discussions and feedback.
article_number: '045305'
article_processing_charge: No
article_type: original
author:
- first_name: Isaac C
full_name: Lenton, Isaac C
id: a550210f-223c-11ec-8182-e2d45e817efb
last_name: Lenton
orcid: 0000-0002-5010-6984
- first_name: Felix
full_name: Pertl, Felix
id: 6313aec0-15b2-11ec-abd3-ed67d16139af
last_name: Pertl
orcid: 0000-0003-0463-5794
- first_name: Lubuna B
full_name: Shafeek, Lubuna B
id: 3CD37A82-F248-11E8-B48F-1D18A9856A87
last_name: Shafeek
orcid: 0000-0001-7180-6050
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
citation:
ama: 'Lenton IC, Pertl F, Shafeek LB, Waitukaitis SR. Beyond the blur: Using experimentally
determined point spread functions to improve scanning Kelvin probe imaging. Journal
of Applied Physics. 2024;136(4). doi:10.1063/5.0215151'
apa: 'Lenton, I. C., Pertl, F., Shafeek, L. B., & Waitukaitis, S. R. (2024).
Beyond the blur: Using experimentally determined point spread functions to improve
scanning Kelvin probe imaging. Journal of Applied Physics. AIP Publishing.
https://doi.org/10.1063/5.0215151'
chicago: 'Lenton, Isaac C, Felix Pertl, Lubuna B Shafeek, and Scott R Waitukaitis.
“Beyond the Blur: Using Experimentally Determined Point Spread Functions to Improve
Scanning Kelvin Probe Imaging.” Journal of Applied Physics. AIP Publishing,
2024. https://doi.org/10.1063/5.0215151.'
ieee: 'I. C. Lenton, F. Pertl, L. B. Shafeek, and S. R. Waitukaitis, “Beyond the
blur: Using experimentally determined point spread functions to improve scanning
Kelvin probe imaging,” Journal of Applied Physics, vol. 136, no. 4. AIP
Publishing, 2024.'
ista: 'Lenton IC, Pertl F, Shafeek LB, Waitukaitis SR. 2024. Beyond the blur: Using
experimentally determined point spread functions to improve scanning Kelvin probe
imaging. Journal of Applied Physics. 136(4), 045305.'
mla: 'Lenton, Isaac C., et al. “Beyond the Blur: Using Experimentally Determined
Point Spread Functions to Improve Scanning Kelvin Probe Imaging.” Journal of
Applied Physics, vol. 136, no. 4, 045305, AIP Publishing, 2024, doi:10.1063/5.0215151.'
short: I.C. Lenton, F. Pertl, L.B. Shafeek, S.R. Waitukaitis, Journal of Applied
Physics 136 (2024).
corr_author: '1'
date_created: 2024-08-04T22:01:21Z
date_published: 2024-07-28T00:00:00Z
date_updated: 2025-09-08T08:47:42Z
day: '28'
ddc:
- '530'
department:
- _id: ScWa
- _id: NanoFab
doi: 10.1063/5.0215151
ec_funded: 1
external_id:
isi:
- '001281681100003'
file:
- access_level: open_access
checksum: 6141d05cd68d540a7446dce9490975db
content_type: application/pdf
creator: dernst
date_created: 2024-08-05T08:19:58Z
date_updated: 2024-08-05T08:19:58Z
file_id: '17386'
file_name: 2024_JourApplPhysics_Lenton.pdf
file_size: 2537502
relation: main_file
success: 1
file_date_updated: 2024-08-05T08:19:58Z
has_accepted_license: '1'
intvolume: ' 136'
isi: 1
issue: '4'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 0aa60e99-070f-11eb-9043-a6de6bdc3afa
call_identifier: H2020
grant_number: '949120'
name: 'Tribocharge: a multi-scale approach to an enduring problem in physics'
publication: Journal of Applied Physics
publication_identifier:
eissn:
- 1089-7550
issn:
- 0021-8979
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Beyond the blur: Using experimentally determined point spread functions to
improve scanning Kelvin probe imaging'
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 136
year: '2024'
...
---
OA_place: publisher
OA_type: hybrid
_id: '17479'
abstract:
- lang: eng
text: Phonon polaritons (PhPs), light coupled to lattice vibrations, in the highly
anisotropic polar layered material molybdenum trioxide (α-MoO3) are currently
the focus of intense research efforts due to their extreme subwavelength field
confinement, directional propagation, and unprecedented low losses. Nevertheless,
prior research has primarily concentrated on exploiting the squeezing and steering
capabilities of α-MoO3 PhPs, without inquiring much into the dominant microscopic
mechanism that determines their long lifetimes, which is key for their implementation
in nanophotonic applications. This study delves into the fundamental processes
that govern PhP damping in α-MoO3 by combining ab initio calculations with scattering-type
scanning near-field optical microscopy (s-SNOM) and Fourier transform infrared
(FTIR) spectroscopy measurements across a broad temperature range (8–300 K). The
remarkable agreement between our theoretical predictions and experimental observations
allows us to identify third-order anharmonic phonon–phonon scattering as the main
damping mechanism of α-MoO3 PhPs. These findings shed light on the fundamental
limits of low-loss PhPs, which is a crucial factor for assessing their implementation
into nanophotonic devices.
acknowledgement: 'Funding Sources ─ A.I.F.T.-M. and G.Á.-P. acknowledge support through
the Severo Ochoa program from the Government of the Principality of Asturias (references
PA-21-PF-BP20-117 and PA20-PF-BP19-053, respectively). A.B.K. and J.T.-G. acknowledge
support from the Swiss National Science Foundation (grant # 200020_201096). J.M.-S.
acknowledges financial support from the Ramón y Cajal Program of the Government
of Spain and FSE (RYC2018-026196-I), the Spanish Ministry of Science and Innovation
(State Plan for Scientific and Technical Research and Innovation grant number PID2019-110308GA-I00/AEI/10.13039/501100011033)
and project PCI2022-132953 funded by MCIN/AEI/10.13039/501100011033 and the EU “NextGenerationEU”/PRTR”.
P.A.-G. acknowledges support from the European Research Council under starting grant
no. 715496, 2DNANOPTICA and the Spanish Ministry of Science and Innovation (State
Plan for Scientific and Technical Research and Innovation grant number PID2019-111156GB-I00).
A.Y.N. acknowledges the Spanish Ministry of Science and Innovation (grant PID2020-115221GB-C42)
and the Basque Department of Education (grant PIBA-2023-1-0007). M.V. and J.I.M.
acknowledge support by Spanish MCIN/AEI/10.13039/501100011033/FEDER, UE under grant
PID2022-136784NB and by Asturias FICYT under grant AYUD/2021/51185 with the support
of FEDER funds. I.E. acknowledges funding from the Spanish Ministry of Science and
Innovation (Grant No. PID2022-142861NA-I00) and the Department of Education, Universities,
and Research of the Eusko Jaurlaritza and the University of the Basque Country UPV/EHU
(Grant No. IT1527-22). J. Duan acknowledges the support from the Beijing Natural
Science Foundation (Grant No. Z240005), and National Natural Science Foundation
of China.'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Javier
full_name: Taboada-Gutiérrez, Javier
last_name: Taboada-Gutiérrez
- first_name: Yixi
full_name: Zhou, Yixi
last_name: Zhou
- first_name: Ana I.F.
full_name: Tresguerres-Mata, Ana I.F.
last_name: Tresguerres-Mata
- first_name: Christian
full_name: Lanza, Christian
last_name: Lanza
- first_name: Abel
full_name: Martínez-Suárez, Abel
last_name: Martínez-Suárez
- first_name: Gonzalo
full_name: Álvarez-Pérez, Gonzalo
last_name: Álvarez-Pérez
- first_name: Jiahua
full_name: Duan, Jiahua
last_name: Duan
- first_name: José Ignacio
full_name: Martín, José Ignacio
last_name: Martín
- first_name: María
full_name: Vélez, María
last_name: Vélez
- first_name: Ivan
full_name: Prieto Gonzalez, Ivan
id: 2A307FE2-F248-11E8-B48F-1D18A9856A87
last_name: Prieto Gonzalez
orcid: 0000-0002-7370-5357
- first_name: Adrien
full_name: Bercher, Adrien
last_name: Bercher
- first_name: Jérémie
full_name: Teyssier, Jérémie
last_name: Teyssier
- first_name: Ion
full_name: Errea, Ion
last_name: Errea
- first_name: Alexey Y.
full_name: Nikitin, Alexey Y.
last_name: Nikitin
- first_name: Javier
full_name: Martín-Sánchez, Javier
last_name: Martín-Sánchez
- first_name: Alexey B.
full_name: Kuzmenko, Alexey B.
last_name: Kuzmenko
- first_name: Pablo
full_name: Alonso-González, Pablo
last_name: Alonso-González
citation:
ama: Taboada-Gutiérrez J, Zhou Y, Tresguerres-Mata AIF, et al. Unveiling the mechanism
of phonon-polariton damping in α‑MoO3. ACS Photonics. 2024;11(9):3570-3577.
doi:10.1021/acsphotonics.4c00485
apa: Taboada-Gutiérrez, J., Zhou, Y., Tresguerres-Mata, A. I. F., Lanza, C., Martínez-Suárez,
A., Álvarez-Pérez, G., … Alonso-González, P. (2024). Unveiling the mechanism of
phonon-polariton damping in α‑MoO3. ACS Photonics. American Chemical Society.
https://doi.org/10.1021/acsphotonics.4c00485
chicago: Taboada-Gutiérrez, Javier, Yixi Zhou, Ana I.F. Tresguerres-Mata, Christian
Lanza, Abel Martínez-Suárez, Gonzalo Álvarez-Pérez, Jiahua Duan, et al. “Unveiling
the Mechanism of Phonon-Polariton Damping in Α‑MoO3.” ACS Photonics. American
Chemical Society, 2024. https://doi.org/10.1021/acsphotonics.4c00485.
ieee: J. Taboada-Gutiérrez et al., “Unveiling the mechanism of phonon-polariton
damping in α‑MoO3,” ACS Photonics, vol. 11, no. 9. American Chemical Society,
pp. 3570–3577, 2024.
ista: Taboada-Gutiérrez J, Zhou Y, Tresguerres-Mata AIF, Lanza C, Martínez-Suárez
A, Álvarez-Pérez G, Duan J, Martín JI, Vélez M, Prieto Gonzalez I, Bercher A,
Teyssier J, Errea I, Nikitin AY, Martín-Sánchez J, Kuzmenko AB, Alonso-González
P. 2024. Unveiling the mechanism of phonon-polariton damping in α‑MoO3. ACS Photonics.
11(9), 3570–3577.
mla: Taboada-Gutiérrez, Javier, et al. “Unveiling the Mechanism of Phonon-Polariton
Damping in Α‑MoO3.” ACS Photonics, vol. 11, no. 9, American Chemical Society,
2024, pp. 3570–77, doi:10.1021/acsphotonics.4c00485.
short: J. Taboada-Gutiérrez, Y. Zhou, A.I.F. Tresguerres-Mata, C. Lanza, A. Martínez-Suárez,
G. Álvarez-Pérez, J. Duan, J.I. Martín, M. Vélez, I. Prieto Gonzalez, A. Bercher,
J. Teyssier, I. Errea, A.Y. Nikitin, J. Martín-Sánchez, A.B. Kuzmenko, P. Alonso-González,
ACS Photonics 11 (2024) 3570–3577.
date_created: 2024-09-01T22:01:09Z
date_published: 2024-09-01T00:00:00Z
date_updated: 2025-09-08T09:05:01Z
day: '01'
ddc:
- '530'
department:
- _id: NanoFab
doi: 10.1021/acsphotonics.4c00485
external_id:
arxiv:
- '2408.09811'
isi:
- '001298164600001'
pmid:
- '39310295'
file:
- access_level: open_access
checksum: bd7e6a138c406e93eaf0a6268fc42bfe
content_type: application/pdf
creator: dernst
date_created: 2025-01-09T14:01:06Z
date_updated: 2025-01-09T14:01:06Z
file_id: '18819'
file_name: 2024_ACSPhotonics_TaboadaGutierrez_.pdf
file_size: 2664512
relation: main_file
success: 1
file_date_updated: 2025-01-09T14:01:06Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '9'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 3570-3577
pmid: 1
publication: ACS Photonics
publication_identifier:
eissn:
- 2330-4022
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Unveiling the mechanism of phonon-polariton damping in α‑MoO3
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 11
year: '2024'
...
---
APC_amount: 804 EUR
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '18601'
abstract:
- lang: eng
text: "Geometrically controlled stem cell differentiation promotes reproducible
pattern formation. Here, we present a protocol to fabricate elastomeric stencils
for patterned stem cell differentiation. We describe procedures for using photolithography
to produce molds, followed by molding polydimethylsiloxane (PDMS) to obtain stencils
with through holes. We then provide instructions for culturing cells on stencils
and, finally, removing stencils to allow colony growth and cell migration. This
approach yields reproducible two-dimensional organoids tailored for quantitative
studies of growth and pattern formation.\r\nFor complete details on the use and
execution of this protocol, please refer to Lehr et al.1"
acknowledged_ssus:
- _id: NanoFab
acknowledgement: We thank the nanofabrication facility at ISTA for technical assistance.
Work in the A.K. lab is supported by ISTA, the European Research Council under Horizon
Europe (grant 101044579), and the Austrian Science Fund (FWF) (grant https://doi.org/10.55776/F78).
S.L. is supported by Gesellschaft für Forschungsförderung Niederösterreich m.b.H.
fellowship SC19-011.
article_number: '103187'
article_processing_charge: Yes
article_type: original
author:
- first_name: Stefanie
full_name: Rus, Stefanie
id: 4D9EC9B6-F248-11E8-B48F-1D18A9856A87
last_name: Rus
orcid: 0000-0001-8703-1093
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Monika Aleksandra
full_name: Kulig, Monika Aleksandra
id: 3331f5ae-e896-11ec-af79-eeb79769bcb7
last_name: Kulig
- first_name: Thomas
full_name: Minchington, Thomas
id: 7d1648cb-19e9-11eb-8e7a-f8c037fb3e3f
last_name: Minchington
- first_name: Anna
full_name: Kicheva, Anna
id: 3959A2A0-F248-11E8-B48F-1D18A9856A87
last_name: Kicheva
orcid: 0000-0003-4509-4998
citation:
ama: Rus S, Merrin J, Kulig MA, Minchington T, Kicheva A. Protocol for fabricating
elastomeric stencils for patterned stem cell differentiation. STAR Protocols.
2024;5(4). doi:10.1016/j.xpro.2024.103187
apa: Rus, S., Merrin, J., Kulig, M. A., Minchington, T., & Kicheva, A. (2024).
Protocol for fabricating elastomeric stencils for patterned stem cell differentiation.
STAR Protocols. Elsevier. https://doi.org/10.1016/j.xpro.2024.103187
chicago: Rus, Stefanie, Jack Merrin, Monika Aleksandra Kulig, Thomas Minchington,
and Anna Kicheva. “Protocol for Fabricating Elastomeric Stencils for Patterned
Stem Cell Differentiation.” STAR Protocols. Elsevier, 2024. https://doi.org/10.1016/j.xpro.2024.103187.
ieee: S. Rus, J. Merrin, M. A. Kulig, T. Minchington, and A. Kicheva, “Protocol
for fabricating elastomeric stencils for patterned stem cell differentiation,”
STAR Protocols, vol. 5, no. 4. Elsevier, 2024.
ista: Rus S, Merrin J, Kulig MA, Minchington T, Kicheva A. 2024. Protocol for fabricating
elastomeric stencils for patterned stem cell differentiation. STAR Protocols.
5(4), 103187.
mla: Rus, Stefanie, et al. “Protocol for Fabricating Elastomeric Stencils for Patterned
Stem Cell Differentiation.” STAR Protocols, vol. 5, no. 4, 103187, Elsevier,
2024, doi:10.1016/j.xpro.2024.103187.
short: S. Rus, J. Merrin, M.A. Kulig, T. Minchington, A. Kicheva, STAR Protocols
5 (2024).
corr_author: '1'
date_created: 2024-12-01T23:01:53Z
date_published: 2024-12-20T00:00:00Z
date_updated: 2026-06-23T22:30:48Z
day: '20'
ddc:
- '570'
department:
- _id: AnKi
- _id: NanoFab
doi: 10.1016/j.xpro.2024.103187
external_id:
pmid:
- '39602310'
file:
- access_level: open_access
checksum: 0c61a6f9978608a103865905e06f4581
content_type: application/pdf
creator: dernst
date_created: 2024-12-03T10:53:23Z
date_updated: 2024-12-03T10:53:23Z
file_id: '18610'
file_name: 2024_STARProtoc_Lehr.pdf
file_size: 4989169
relation: main_file
success: 1
file_date_updated: 2024-12-03T10:53:23Z
has_accepted_license: '1'
intvolume: ' 5'
issue: '4'
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: bd7e737f-d553-11ed-ba76-d69ffb5ee3aa
grant_number: '101044579'
name: Mechanisms of tissue size regulation in spinal cord development
- _id: 9B9B39FA-BA93-11EA-9121-9846C619BF3A
grant_number: SC19-011
name: The regulatory logic of pattern formation in the vertebrate dorsal neural
tube
publication: STAR Protocols
publication_identifier:
eissn:
- 2666-1667
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '19763'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Protocol for fabricating elastomeric stencils for patterned stem cell differentiation
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2024'
...
---
_id: '13052'
abstract:
- lang: eng
text: Imaging of the immunological synapse (IS) between dendritic cells (DCs) and
T cells in suspension is hampered by suboptimal alignment of cell-cell contacts
along the vertical imaging plane. This requires optical sectioning that often
results in unsatisfactory resolution in time and space. Here, we present a workflow
where DCs and T cells are confined between a layer of glass and polydimethylsiloxane
(PDMS) that orients the cells along one, horizontal imaging plane, allowing for
fast en-face-imaging of the DC-T cell IS.
acknowledged_ssus:
- _id: Bio
- _id: NanoFab
- _id: M-Shop
acknowledgement: 'A.L. was funded by an Erwin Schrödinger postdoctoral fellowship
of the Austrian Science Fund (FWF, project number: J4542-B) and is an EMBO non-stipendiary
postdoctoral fellow. This work was supported by a European Research Council grant
ERC-CoG-72437 to M.S. We thank the Imaging & Optics facility, the Nanofabrication
facility, and the Miba Machine Shop of ISTA for their excellent support.'
alternative_title:
- Methods in Molecular Biology
article_processing_charge: No
author:
- first_name: Alexander F
full_name: Leithner, Alexander F
id: 3B1B77E4-F248-11E8-B48F-1D18A9856A87
last_name: Leithner
orcid: 0000-0002-1073-744X
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: 'Leithner AF, Merrin J, Sixt MK. En-Face Imaging of T Cell-Dendritic Cell Immunological
Synapses. In: Baldari C, Dustin M, eds. The Immune Synapse. Vol 2654. MIMB.
New York, NY: Springer Nature; 2023:137-147. doi:10.1007/978-1-0716-3135-5_9'
apa: 'Leithner, A. F., Merrin, J., & Sixt, M. K. (2023). En-Face Imaging of
T Cell-Dendritic Cell Immunological Synapses. In C. Baldari & M. Dustin (Eds.),
The Immune Synapse (Vol. 2654, pp. 137–147). New York, NY: Springer Nature.
https://doi.org/10.1007/978-1-0716-3135-5_9'
chicago: 'Leithner, Alexander F, Jack Merrin, and Michael K Sixt. “En-Face Imaging
of T Cell-Dendritic Cell Immunological Synapses.” In The Immune Synapse,
edited by Cosima Baldari and Michael Dustin, 2654:137–47. MIMB. New York, NY:
Springer Nature, 2023. https://doi.org/10.1007/978-1-0716-3135-5_9.'
ieee: 'A. F. Leithner, J. Merrin, and M. K. Sixt, “En-Face Imaging of T Cell-Dendritic
Cell Immunological Synapses,” in The Immune Synapse, vol. 2654, C. Baldari
and M. Dustin, Eds. New York, NY: Springer Nature, 2023, pp. 137–147.'
ista: 'Leithner AF, Merrin J, Sixt MK. 2023.En-Face Imaging of T Cell-Dendritic
Cell Immunological Synapses. In: The Immune Synapse. Methods in Molecular Biology,
vol. 2654, 137–147.'
mla: Leithner, Alexander F., et al. “En-Face Imaging of T Cell-Dendritic Cell Immunological
Synapses.” The Immune Synapse, edited by Cosima Baldari and Michael Dustin,
vol. 2654, Springer Nature, 2023, pp. 137–47, doi:10.1007/978-1-0716-3135-5_9.
short: A.F. Leithner, J. Merrin, M.K. Sixt, in:, C. Baldari, M. Dustin (Eds.), The
Immune Synapse, Springer Nature, New York, NY, 2023, pp. 137–147.
date_created: 2023-05-22T08:41:48Z
date_published: 2023-04-28T00:00:00Z
date_updated: 2025-04-14T07:42:07Z
day: '28'
department:
- _id: MiSi
- _id: NanoFab
doi: 10.1007/978-1-0716-3135-5_9
ec_funded: 1
editor:
- first_name: Cosima
full_name: Baldari, Cosima
last_name: Baldari
- first_name: Michael
full_name: Dustin, Michael
last_name: Dustin
external_id:
pmid:
- '37106180'
intvolume: ' 2654'
language:
- iso: eng
month: '04'
oa_version: None
page: 137-147
place: New York, NY
pmid: 1
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
publication: The Immune Synapse
publication_identifier:
eisbn:
- '9781071631355'
eissn:
- 1940-6029
isbn:
- '9781071631348'
issn:
- 1064-3745
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
series_title: MIMB
status: public
title: En-Face Imaging of T Cell-Dendritic Cell Immunological Synapses
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 2654
year: '2023'
...
---
_id: '13342'
abstract:
- lang: eng
text: Motile cells moving in multicellular organisms encounter microenvironments
of locally heterogeneous mechanochemical composition. Individual compositional
parameters like chemotactic signals, adhesiveness, and pore sizes are well known
to be sensed by motile cells, providing individual guidance cues for cellular
pathfinding. However, motile cells encounter diverse mechanochemical signals at
the same time, raising the question of how cells respond to locally diverse and
potentially competing signals on their migration routes. Here, we reveal that
motile amoeboid cells require nuclear repositioning, termed nucleokinesis, for
adaptive pathfinding in heterogeneous mechanochemical microenvironments. Using
mammalian immune cells and the amoebaDictyostelium discoideum,
we discover that frequent, rapid and long-distance nucleokinesis is a basic component
of amoeboid pathfinding, enabling cells to reorientate quickly between locally
competing cues. Amoeboid nucleokinesis comprises a two-step cell polarity switch
and is driven by myosin II-forces, sliding the nucleus from a ‘losing’ to the
‘winning’ leading edge to re-adjust the nuclear to the cellular path. Impaired
nucleokinesis distorts fast path adaptions and causes cellular arrest in the microenvironment.
Our findings establish that nucleokinesis is required for amoeboid cell navigation.
Given that motile single-cell amoebae, many immune cells, and some cancer cells
utilize an amoeboid migration strategy, these results suggest that amoeboid nucleokinesis
underlies cellular navigation during unicellular biology, immunity, and disease.
acknowledgement: We thank Christoph Mayr and Bingzhi Wang for initial experiments
on amoeboid nucleokinesis, Ana-Maria Lennon-Duménil and Aline Yatim for bone marrow
from MyoIIA-Flox*CD11c-Cre mice, Michael Sixt and Aglaja Kopf for EMTB-mCherry,
EB3-mCherry, Lifeact-GFP, Lfc knockout, and Myh9-GFP expressing HoxB8 cells, Malte
Benjamin Braun, Mauricio Ruiz, and Madeleine T. Schmitt for critical reading of
the manuscript, and the Core Facility Bioimaging, the Core Facility Flow Cytometry,
and the Animal Core Facility of the Biomedical Center (BMC) for excellent support.
This study was supported by the Peter Hans Hofschneider Professorship of the foundation
“Stiftung Experimentelle Biomedizin” (to JR), the LMU Institutional Strategy LMU-Excellent
within the framework of the German Excellence Initiative (to JR), and the Deutsche
Forschungsgemeinschaft (DFG; German Research Foundation; SFB914 project A12, to
JR), and the CZI grant DAF2020-225401 (https://doi.org/10.37921/120055ratwvi) from
the Chan Zuckerberg Initiative DAF (to RH; an advised fund of Silicon Valley Community
Foundation (funder https://doi.org/10.13039/100014989)). Open Access funding enabled
and organized by Projekt DEAL.
article_number: e114557
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Janina
full_name: Kroll, Janina
last_name: Kroll
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Arthur
full_name: Kuznetcov, Arthur
last_name: Kuznetcov
- first_name: Kasia
full_name: Stefanowski, Kasia
last_name: Stefanowski
- first_name: Monika D.
full_name: Hermann, Monika D.
last_name: Hermann
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Lubuna B
full_name: Shafeek, Lubuna B
id: 3CD37A82-F248-11E8-B48F-1D18A9856A87
last_name: Shafeek
orcid: 0000-0001-7180-6050
- first_name: Annette
full_name: Müller-Taubenberger, Annette
last_name: Müller-Taubenberger
- first_name: Jörg
full_name: Renkawitz, Jörg
id: 3F0587C8-F248-11E8-B48F-1D18A9856A87
last_name: Renkawitz
orcid: 0000-0003-2856-3369
citation:
ama: Kroll J, Hauschild R, Kuznetcov A, et al. Adaptive pathfinding by nucleokinesis
during amoeboid migration. EMBO Journal. 2023. doi:10.15252/embj.2023114557
apa: Kroll, J., Hauschild, R., Kuznetcov, A., Stefanowski, K., Hermann, M. D., Merrin,
J., … Renkawitz, J. (2023). Adaptive pathfinding by nucleokinesis during amoeboid
migration. EMBO Journal. Embo Press. https://doi.org/10.15252/embj.2023114557
chicago: Kroll, Janina, Robert Hauschild, Arthur Kuznetcov, Kasia Stefanowski, Monika
D. Hermann, Jack Merrin, Lubuna B Shafeek, Annette Müller-Taubenberger, and Jörg
Renkawitz. “Adaptive Pathfinding by Nucleokinesis during Amoeboid Migration.”
EMBO Journal. Embo Press, 2023. https://doi.org/10.15252/embj.2023114557.
ieee: J. Kroll et al., “Adaptive pathfinding by nucleokinesis during amoeboid
migration,” EMBO Journal. Embo Press, 2023.
ista: Kroll J, Hauschild R, Kuznetcov A, Stefanowski K, Hermann MD, Merrin J, Shafeek
LB, Müller-Taubenberger A, Renkawitz J. 2023. Adaptive pathfinding by nucleokinesis
during amoeboid migration. EMBO Journal., e114557.
mla: Kroll, Janina, et al. “Adaptive Pathfinding by Nucleokinesis during Amoeboid
Migration.” EMBO Journal, e114557, Embo Press, 2023, doi:10.15252/embj.2023114557.
short: J. Kroll, R. Hauschild, A. Kuznetcov, K. Stefanowski, M.D. Hermann, J. Merrin,
L.B. Shafeek, A. Müller-Taubenberger, J. Renkawitz, EMBO Journal (2023).
date_created: 2023-08-01T08:59:06Z
date_published: 2023-11-21T00:00:00Z
date_updated: 2025-09-09T12:44:04Z
day: '21'
ddc:
- '570'
department:
- _id: NanoFab
- _id: Bio
doi: 10.15252/embj.2023114557
external_id:
isi:
- '001120971800001'
pmid:
- '37987147'
file:
- access_level: open_access
checksum: 6261d0041c7e8d284c39712c40079730
content_type: application/pdf
creator: dernst
date_created: 2023-11-27T08:45:56Z
date_updated: 2023-11-27T08:45:56Z
file_id: '14611'
file_name: 2023_EmboJournal_Kroll.pdf
file_size: 4862497
relation: main_file
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file_date_updated: 2023-11-27T08:45:56Z
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isi: 1
language:
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month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: EMBO Journal
publication_identifier:
eissn:
- 1460-2075
issn:
- 0261-4189
publication_status: published
publisher: Embo Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Adaptive pathfinding by nucleokinesis during amoeboid migration
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
year: '2023'
...
---
_id: '14361'
abstract:
- lang: eng
text: Whether one considers swarming insects, flocking birds, or bacterial colonies,
collective motion arises from the coordination of individuals and entails the
adjustment of their respective velocities. In particular, in close confinements,
such as those encountered by dense cell populations during development or regeneration,
collective migration can only arise coordinately. Yet, how individuals unify their
velocities is often not understood. Focusing on a finite number of cells in circular
confinements, we identify waves of polymerizing actin that function as a pacemaker
governing the speed of individual cells. We show that the onset of collective
motion coincides with the synchronization of the wave nucleation frequencies across
the population. Employing a simpler and more readily accessible mechanical model
system of active spheres, we identify the synchronization of the individuals’
internal oscillators as one of the essential requirements to reach the corresponding
collective state. The mechanical ‘toy’ experiment illustrates that the global
synchronous state is achieved by nearest neighbor coupling. We suggest by analogy
that local coupling and the synchronization of actin waves are essential for the
emergent, self-organized motion of cell collectives.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: M-Shop
acknowledgement: We thank K. O’Keeffe, E. Hannezo, P. Devreotes, C. Dessalles, and
E. Martens for discussion and/or critical reading of the manuscript; the Bioimaging
Facility of ISTA for excellent support, as well as the Life Science Facility and
the Miba Machine Shop of ISTA. This work was supported by the European Research
Council (ERC StG 281556 and CoG 724373) to M.S.
article_number: '5633'
article_processing_charge: Yes
article_type: original
author:
- first_name: Michael
full_name: Riedl, Michael
id: 3BE60946-F248-11E8-B48F-1D18A9856A87
last_name: Riedl
orcid: 0000-0003-4844-6311
- first_name: Isabelle D
full_name: Mayer, Isabelle D
id: 61763940-15b2-11ec-abd3-cfaddfbc66b4
last_name: Mayer
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
citation:
ama: Riedl M, Mayer ID, Merrin J, Sixt MK, Hof B. Synchronization in collectively
moving inanimate and living active matter. Nature Communications. 2023;14.
doi:10.1038/s41467-023-41432-1
apa: Riedl, M., Mayer, I. D., Merrin, J., Sixt, M. K., & Hof, B. (2023). Synchronization
in collectively moving inanimate and living active matter. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-023-41432-1
chicago: Riedl, Michael, Isabelle D Mayer, Jack Merrin, Michael K Sixt, and Björn
Hof. “Synchronization in Collectively Moving Inanimate and Living Active Matter.”
Nature Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-41432-1.
ieee: M. Riedl, I. D. Mayer, J. Merrin, M. K. Sixt, and B. Hof, “Synchronization
in collectively moving inanimate and living active matter,” Nature Communications,
vol. 14. Springer Nature, 2023.
ista: Riedl M, Mayer ID, Merrin J, Sixt MK, Hof B. 2023. Synchronization in collectively
moving inanimate and living active matter. Nature Communications. 14, 5633.
mla: Riedl, Michael, et al. “Synchronization in Collectively Moving Inanimate and
Living Active Matter.” Nature Communications, vol. 14, 5633, Springer Nature,
2023, doi:10.1038/s41467-023-41432-1.
short: M. Riedl, I.D. Mayer, J. Merrin, M.K. Sixt, B. Hof, Nature Communications
14 (2023).
corr_author: '1'
date_created: 2023-09-24T22:01:10Z
date_published: 2023-09-13T00:00:00Z
date_updated: 2025-04-14T13:10:03Z
day: '13'
ddc:
- '530'
- '570'
department:
- _id: MiSi
- _id: NanoFab
- _id: BjHo
doi: 10.1038/s41467-023-41432-1
ec_funded: 1
external_id:
isi:
- '001087583700030'
pmid:
- '37704595'
file:
- access_level: open_access
checksum: 82d2d4ad736cc8493db8ce45cd313f7b
content_type: application/pdf
creator: dernst
date_created: 2023-09-25T08:32:37Z
date_updated: 2023-09-25T08:32:37Z
file_id: '14366'
file_name: 2023_NatureComm_Riedl.pdf
file_size: 2317272
relation: main_file
success: 1
file_date_updated: 2023-09-25T08:32:37Z
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25A603A2-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281556'
name: Cytoskeletal force generation and force transduction of migrating leukocytes
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Synchronization in collectively moving inanimate and living active matter
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2023'
...
---
_id: '14274'
abstract:
- lang: eng
text: Immune responses rely on the rapid and coordinated migration of leukocytes.
Whereas it is well established that single-cell migration is often guided by gradients
of chemokines and other chemoattractants, it remains poorly understood how these
gradients are generated, maintained, and modulated. By combining experimental
data with theory on leukocyte chemotaxis guided by the G protein–coupled receptor
(GPCR) CCR7, we demonstrate that in addition to its role as the sensory receptor
that steers migration, CCR7 also acts as a generator and a modulator of chemotactic
gradients. Upon exposure to the CCR7 ligand CCL19, dendritic cells (DCs) effectively
internalize the receptor and ligand as part of the canonical GPCR desensitization
response. We show that CCR7 internalization also acts as an effective sink for
the chemoattractant, dynamically shaping the spatiotemporal distribution of the
chemokine. This mechanism drives complex collective migration patterns, enabling
DCs to create or sharpen chemotactic gradients. We further show that these self-generated
gradients can sustain the long-range guidance of DCs, adapt collective migration
patterns to the size and geometry of the environment, and provide a guidance cue
for other comigrating cells. Such a dual role of CCR7 as a GPCR that both senses
and consumes its ligand can thus provide a novel mode of cellular self-organization.
acknowledgement: "We thank I. de Vries and the Scientific Service Units (Life Sciences,
Bioimaging, Nanofabrication, Preclinical and Miba Machine Shop) of the Institute
of Science and Technology Austria for excellent support, as well as all the rotation
students assisting in the laboratory work (B. Zens, H. Schön, and D. Babic).\r\nThis
work was supported by grants from the European Research Council under the European
Union’s Horizon 2020 research to M.S. (grant agreement no. 724373) and to E.H. (grant
agreement no. 851288), and a grant by the Austrian Science Fund (DK Nanocell W1250-B20)
to M.S. J.A. was supported by the Jenny and Antti Wihuri Foundation and Research
Council of Finland's Flagship Programme InFLAMES (decision number: 357910). M.C.U.
was supported by the European Union’s Horizon 2020 research and innovation programme
under the Marie Skłodowska-Curie grant agreement no. 754411."
article_number: adc9584
article_processing_charge: No
article_type: original
author:
- first_name: Jonna H
full_name: Alanko, Jonna H
id: 2CC12E8C-F248-11E8-B48F-1D18A9856A87
last_name: Alanko
orcid: 0000-0002-7698-3061
- first_name: Mehmet C
full_name: Ucar, Mehmet C
id: 50B2A802-6007-11E9-A42B-EB23E6697425
last_name: Ucar
orcid: 0000-0003-0506-4217
- first_name: Nikola
full_name: Canigova, Nikola
id: 3795523E-F248-11E8-B48F-1D18A9856A87
last_name: Canigova
orcid: 0000-0002-8518-5926
- first_name: Julian A
full_name: Stopp, Julian A
id: 489E3F00-F248-11E8-B48F-1D18A9856A87
last_name: Stopp
- first_name: Jan
full_name: Schwarz, Jan
id: 346C1EC6-F248-11E8-B48F-1D18A9856A87
last_name: Schwarz
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Alanko JH, Ucar MC, Canigova N, et al. CCR7 acts as both a sensor and a sink
for CCL19 to coordinate collective leukocyte migration. Science Immunology.
2023;8(87). doi:10.1126/sciimmunol.adc9584
apa: Alanko, J. H., Ucar, M. C., Canigova, N., Stopp, J. A., Schwarz, J., Merrin,
J., … Sixt, M. K. (2023). CCR7 acts as both a sensor and a sink for CCL19 to coordinate
collective leukocyte migration. Science Immunology. American Association
for the Advancement of Science. https://doi.org/10.1126/sciimmunol.adc9584
chicago: Alanko, Jonna H, Mehmet C Ucar, Nikola Canigova, Julian A Stopp, Jan Schwarz,
Jack Merrin, Edouard B Hannezo, and Michael K Sixt. “CCR7 Acts as Both a Sensor
and a Sink for CCL19 to Coordinate Collective Leukocyte Migration.” Science
Immunology. American Association for the Advancement of Science, 2023. https://doi.org/10.1126/sciimmunol.adc9584.
ieee: J. H. Alanko et al., “CCR7 acts as both a sensor and a sink for CCL19
to coordinate collective leukocyte migration,” Science Immunology, vol.
8, no. 87. American Association for the Advancement of Science, 2023.
ista: Alanko JH, Ucar MC, Canigova N, Stopp JA, Schwarz J, Merrin J, Hannezo EB,
Sixt MK. 2023. CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective
leukocyte migration. Science Immunology. 8(87), adc9584.
mla: Alanko, Jonna H., et al. “CCR7 Acts as Both a Sensor and a Sink for CCL19 to
Coordinate Collective Leukocyte Migration.” Science Immunology, vol. 8,
no. 87, adc9584, American Association for the Advancement of Science, 2023, doi:10.1126/sciimmunol.adc9584.
short: J.H. Alanko, M.C. Ucar, N. Canigova, J.A. Stopp, J. Schwarz, J. Merrin, E.B.
Hannezo, M.K. Sixt, Science Immunology 8 (2023).
corr_author: '1'
date_created: 2023-09-06T08:07:51Z
date_published: 2023-09-01T00:00:00Z
date_updated: 2026-06-23T22:31:00Z
day: '01'
ddc:
- '570'
department:
- _id: MiSi
- _id: EdHa
- _id: NanoFab
doi: 10.1126/sciimmunol.adc9584
ec_funded: 1
external_id:
isi:
- '001062110600003'
pmid:
- '37656776'
intvolume: ' 8'
isi: 1
issue: '87'
keyword:
- General Medicine
- Immunology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1126/sciimmunol.adc9584
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
- _id: 265E2996-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W01250-B20
name: Nano-Analytics of Cellular Systems
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Science Immunology
publication_identifier:
issn:
- 2470-9468
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
related_material:
record:
- id: '14279'
relation: research_data
status: public
- id: '19745'
relation: dissertation_contains
status: public
- id: '14697'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte
migration
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2023'
...
---
OA_place: publisher
OA_type: hybrid
_id: '11182'
abstract:
- lang: eng
text: Immune cells are constantly on the move through multicellular organisms to
explore and respond to pathogens and other harmful insults. While moving, immune
cells efficiently traverse microenvironments composed of tissue cells and extracellular
fibers, which together form complex environments of various porosity, stiffness,
topography, and chemical composition. In this protocol we describe experimental
procedures to investigate immune cell migration through microenvironments of heterogeneous
porosity. In particular, we describe micro-channels, micro-pillars, and collagen
networks as cell migration paths with alternative pore size choices. Employing
micro-channels or micro-pillars that divide at junctions into alternative paths
with initially differentially sized pores allows us to precisely (1) measure the
cellular translocation time through these porous path junctions, (2) quantify
the cellular preference for individual pore sizes, and (3) image cellular components
like the nucleus and the cytoskeleton. This reductionistic experimental setup
thus can elucidate how immune cells perform decisions in complex microenvironments
of various porosity like the interstitium. The setup further allows investigation
of the underlying forces of cellular squeezing and the consequences of cellular
deformation on the integrity of the cell and its organelles. As a complementary
approach that does not require any micro-engineering expertise, we describe the
usage of three-dimensional collagen networks with different pore sizes. Whereas
we here focus on dendritic cells as a model for motile immune cells, the described
protocols are versatile as they are also applicable for other immune cell types
like neutrophils and non-immune cell types such as mesenchymal and cancer cells.
In summary, we here describe protocols to identify the mechanisms and principles
of cellular probing, decision making, and squeezing during cellular movement through
microenvironments of heterogeneous porosity.
acknowledgement: "We thank Kasia Stefanowski for excellent technical assistance, and
the Core Facility Bioimaging of the Biomedical Center (BMC) of the Ludwig-Maximilian
University for excellent support. We gratefully acknowledge financial support from
the Peter Hans Hofschneider Professorship of the Stiftung Experimentelle Biomedizin
(to J.R), from the DFG (Collaborative Research Center SFB914, project A12; and Priority
Programme SPP2332, project 492014049; both to J.R) and from the LMU Institutional
Strategy LMU-Excellent within the framework of the German Excellence Initiative
(to J.R).\r\nOpen access funding enabled and organized by Projekt DEAL."
article_number: e407
article_processing_charge: No
article_type: original
author:
- first_name: Janina
full_name: Kroll, Janina
last_name: Kroll
- first_name: Mauricio J.A.
full_name: Ruiz-Fernandez, Mauricio J.A.
last_name: Ruiz-Fernandez
- first_name: Malte B.
full_name: Braun, Malte B.
last_name: Braun
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Jörg
full_name: Renkawitz, Jörg
id: 3F0587C8-F248-11E8-B48F-1D18A9856A87
last_name: Renkawitz
orcid: 0000-0003-2856-3369
citation:
ama: Kroll J, Ruiz-Fernandez MJA, Braun MB, Merrin J, Renkawitz J. Quantifying the
probing and selection of microenvironmental pores by motile immune cells. Current
Protocols. 2022;2(4). doi:10.1002/cpz1.407
apa: Kroll, J., Ruiz-Fernandez, M. J. A., Braun, M. B., Merrin, J., & Renkawitz,
J. (2022). Quantifying the probing and selection of microenvironmental pores by
motile immune cells. Current Protocols. Wiley. https://doi.org/10.1002/cpz1.407
chicago: Kroll, Janina, Mauricio J.A. Ruiz-Fernandez, Malte B. Braun, Jack Merrin,
and Jörg Renkawitz. “Quantifying the Probing and Selection of Microenvironmental
Pores by Motile Immune Cells.” Current Protocols. Wiley, 2022. https://doi.org/10.1002/cpz1.407.
ieee: J. Kroll, M. J. A. Ruiz-Fernandez, M. B. Braun, J. Merrin, and J. Renkawitz,
“Quantifying the probing and selection of microenvironmental pores by motile immune
cells,” Current Protocols, vol. 2, no. 4. Wiley, 2022.
ista: Kroll J, Ruiz-Fernandez MJA, Braun MB, Merrin J, Renkawitz J. 2022. Quantifying
the probing and selection of microenvironmental pores by motile immune cells.
Current Protocols. 2(4), e407.
mla: Kroll, Janina, et al. “Quantifying the Probing and Selection of Microenvironmental
Pores by Motile Immune Cells.” Current Protocols, vol. 2, no. 4, e407,
Wiley, 2022, doi:10.1002/cpz1.407.
short: J. Kroll, M.J.A. Ruiz-Fernandez, M.B. Braun, J. Merrin, J. Renkawitz, Current
Protocols 2 (2022).
date_created: 2022-04-17T22:01:46Z
date_published: 2022-04-05T00:00:00Z
date_updated: 2024-10-14T13:16:54Z
day: '05'
ddc:
- '570'
department:
- _id: NanoFab
doi: 10.1002/cpz1.407
external_id:
pmid:
- '35384410'
file:
- access_level: open_access
checksum: 72152d005c367777f6cf2f6a477f0d52
content_type: application/pdf
creator: dernst
date_created: 2022-05-02T08:16:10Z
date_updated: 2022-05-02T08:16:10Z
file_id: '11347'
file_name: 2022_CurrentProtocols_Kroll.pdf
file_size: 2142703
relation: main_file
success: 1
file_date_updated: 2022-05-02T08:16:10Z
has_accepted_license: '1'
intvolume: ' 2'
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: Current Protocols
publication_identifier:
eissn:
- 2691-1299
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantifying the probing and selection of microenvironmental pores by motile
immune cells
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 0043cee0-e5fc-11ee-9736-f83bc23afbf0
volume: 2
year: '2022'
...
---
_id: '12109'
abstract:
- lang: eng
text: Kelvin probe force microscopy (KPFM) is a powerful tool for studying contact
electrification (CE) at the nanoscale, but converting KPFM voltage maps to charge
density maps is nontrivial due to long-range forces and complex system geometry.
Here we present a strategy using finite-element method (FEM) simulations to determine
the Green's function of the KPFM probe/insulator/ground system, which allows us
to quantitatively extract surface charge. Testing our approach with synthetic
data, we find that accounting for the atomic force microscope (AFM) tip, cone,
and cantilever is necessary to recover a known input and that existing methods
lead to gross miscalculation or even the incorrect sign of the underlying charge.
Applying it to experimental data, we demonstrate its capacity to extract realistic
surface charge densities and fine details from contact-charged surfaces. Our method
gives a straightforward recipe to convert qualitative KPFM voltage data into quantitative
charge data over a range of experimental conditions, enabling quantitative CE
at the nanoscale.
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
- _id: ScienComp
acknowledgement: "This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(Grant Agreement\r\nNo. 949120). This research was supported by the Scientific Service
Units of the Institute of Science and Technology Austria (ISTA) through resources
provided by the Miba Machine\r\nShop, the Nanofabrication Facility, and the Scientific
Computing Facility. We thank F. Stumpf from Park Systems for useful discussions
and support with scanning probe microscopy.\r\nF.P. and J.C.S. contributed equally
to this work."
article_number: '125605'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Felix
full_name: Pertl, Felix
id: 6313aec0-15b2-11ec-abd3-ed67d16139af
last_name: Pertl
orcid: 0000-0003-0463-5794
- first_name: Juan Carlos A
full_name: Sobarzo Ponce, Juan Carlos A
id: 4B807D68-AE37-11E9-AC72-31CAE5697425
last_name: Sobarzo Ponce
- first_name: Lubuna B
full_name: Shafeek, Lubuna B
id: 3CD37A82-F248-11E8-B48F-1D18A9856A87
last_name: Shafeek
orcid: 0000-0001-7180-6050
- first_name: Tobias
full_name: Cramer, Tobias
last_name: Cramer
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
citation:
ama: Pertl F, Sobarzo Ponce JCA, Shafeek LB, Cramer T, Waitukaitis SR. Quantifying
nanoscale charge density features of contact-charged surfaces with an FEM/KPFM-hybrid
approach. Physical Review Materials. 2022;6(12). doi:10.1103/PhysRevMaterials.6.125605
apa: Pertl, F., Sobarzo Ponce, J. C. A., Shafeek, L. B., Cramer, T., & Waitukaitis,
S. R. (2022). Quantifying nanoscale charge density features of contact-charged
surfaces with an FEM/KPFM-hybrid approach. Physical Review Materials. American
Physical Society. https://doi.org/10.1103/PhysRevMaterials.6.125605
chicago: Pertl, Felix, Juan Carlos A Sobarzo Ponce, Lubuna B Shafeek, Tobias Cramer,
and Scott R Waitukaitis. “Quantifying Nanoscale Charge Density Features of Contact-Charged
Surfaces with an FEM/KPFM-Hybrid Approach.” Physical Review Materials.
American Physical Society, 2022. https://doi.org/10.1103/PhysRevMaterials.6.125605.
ieee: F. Pertl, J. C. A. Sobarzo Ponce, L. B. Shafeek, T. Cramer, and S. R. Waitukaitis,
“Quantifying nanoscale charge density features of contact-charged surfaces with
an FEM/KPFM-hybrid approach,” Physical Review Materials, vol. 6, no. 12.
American Physical Society, 2022.
ista: Pertl F, Sobarzo Ponce JCA, Shafeek LB, Cramer T, Waitukaitis SR. 2022. Quantifying
nanoscale charge density features of contact-charged surfaces with an FEM/KPFM-hybrid
approach. Physical Review Materials. 6(12), 125605.
mla: Pertl, Felix, et al. “Quantifying Nanoscale Charge Density Features of Contact-Charged
Surfaces with an FEM/KPFM-Hybrid Approach.” Physical Review Materials,
vol. 6, no. 12, 125605, American Physical Society, 2022, doi:10.1103/PhysRevMaterials.6.125605.
short: F. Pertl, J.C.A. Sobarzo Ponce, L.B. Shafeek, T. Cramer, S.R. Waitukaitis,
Physical Review Materials 6 (2022).
corr_author: '1'
date_created: 2023-01-08T23:00:53Z
date_published: 2022-12-29T00:00:00Z
date_updated: 2026-04-07T11:50:54Z
day: '29'
department:
- _id: ScWa
- _id: NanoFab
doi: 10.1103/PhysRevMaterials.6.125605
ec_funded: 1
external_id:
arxiv:
- '2209.01889'
isi:
- '000908384800001'
intvolume: ' 6'
isi: 1
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2209.01889'
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: 0aa60e99-070f-11eb-9043-a6de6bdc3afa
call_identifier: H2020
grant_number: '949120'
name: 'Tribocharge: a multi-scale approach to an enduring problem in physics'
publication: Physical Review Materials
publication_identifier:
eissn:
- 2475-9953
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
record:
- id: '20203'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Quantifying nanoscale charge density features of contact-charged surfaces with
an FEM/KPFM-hybrid approach
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 6
year: '2022'
...
---
_id: '12259'
abstract:
- lang: eng
text: 'Theoretical foundations of chaos have been predominantly laid out for finite-dimensional
dynamical systems, such as the three-body problem in classical mechanics and the
Lorenz model in dissipative systems. In contrast, many real-world chaotic phenomena,
e.g., weather, arise in systems with many (formally infinite) degrees of freedom,
which limits direct quantitative analysis of such systems using chaos theory.
In the present work, we demonstrate that the hydrodynamic pilot-wave systems offer
a bridge between low- and high-dimensional chaotic phenomena by allowing for a
systematic study of how the former connects to the latter. Specifically, we present
experimental results, which show the formation of low-dimensional chaotic attractors
upon destabilization of regular dynamics and a final transition to high-dimensional
chaos via the merging of distinct chaotic regions through a crisis bifurcation.
Moreover, we show that the post-crisis dynamics of the system can be rationalized
as consecutive scatterings from the nonattracting chaotic sets with lifetimes
following exponential distributions. '
acknowledgement: 'This work was partially funded by the Institute of Science and Technology
Austria Interdisciplinary Project Committee Grant “Pilot-Wave Hydrodynamics: Chaos
and Quantum Analogies.”'
article_number: '093138'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: George H
full_name: Choueiri, George H
id: 448BD5BC-F248-11E8-B48F-1D18A9856A87
last_name: Choueiri
- first_name: Balachandra
full_name: Suri, Balachandra
id: 47A5E706-F248-11E8-B48F-1D18A9856A87
last_name: Suri
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Nazmi B
full_name: Budanur, Nazmi B
id: 3EA1010E-F248-11E8-B48F-1D18A9856A87
last_name: Budanur
orcid: 0000-0003-0423-5010
citation:
ama: 'Choueiri GH, Suri B, Merrin J, Serbyn M, Hof B, Budanur NB. Crises and chaotic
scattering in hydrodynamic pilot-wave experiments. Chaos: An Interdisciplinary
Journal of Nonlinear Science. 2022;32(9). doi:10.1063/5.0102904'
apa: 'Choueiri, G. H., Suri, B., Merrin, J., Serbyn, M., Hof, B., & Budanur,
N. B. (2022). Crises and chaotic scattering in hydrodynamic pilot-wave experiments.
Chaos: An Interdisciplinary Journal of Nonlinear Science. AIP Publishing.
https://doi.org/10.1063/5.0102904'
chicago: 'Choueiri, George H, Balachandra Suri, Jack Merrin, Maksym Serbyn, Björn
Hof, and Nazmi B Budanur. “Crises and Chaotic Scattering in Hydrodynamic Pilot-Wave
Experiments.” Chaos: An Interdisciplinary Journal of Nonlinear Science.
AIP Publishing, 2022. https://doi.org/10.1063/5.0102904.'
ieee: 'G. H. Choueiri, B. Suri, J. Merrin, M. Serbyn, B. Hof, and N. B. Budanur,
“Crises and chaotic scattering in hydrodynamic pilot-wave experiments,” Chaos:
An Interdisciplinary Journal of Nonlinear Science, vol. 32, no. 9. AIP Publishing,
2022.'
ista: 'Choueiri GH, Suri B, Merrin J, Serbyn M, Hof B, Budanur NB. 2022. Crises
and chaotic scattering in hydrodynamic pilot-wave experiments. Chaos: An Interdisciplinary
Journal of Nonlinear Science. 32(9), 093138.'
mla: 'Choueiri, George H., et al. “Crises and Chaotic Scattering in Hydrodynamic
Pilot-Wave Experiments.” Chaos: An Interdisciplinary Journal of Nonlinear Science,
vol. 32, no. 9, 093138, AIP Publishing, 2022, doi:10.1063/5.0102904.'
short: 'G.H. Choueiri, B. Suri, J. Merrin, M. Serbyn, B. Hof, N.B. Budanur, Chaos:
An Interdisciplinary Journal of Nonlinear Science 32 (2022).'
date_created: 2023-01-16T09:58:16Z
date_published: 2022-09-26T00:00:00Z
date_updated: 2025-06-11T13:41:34Z
day: '26'
ddc:
- '530'
department:
- _id: MaSe
- _id: BjHo
- _id: NanoFab
doi: 10.1063/5.0102904
external_id:
arxiv:
- '2206.01531'
isi:
- '000861009600005'
pmid:
- '36182399'
file:
- access_level: open_access
checksum: 17881eff8b21969359a2dd64620120ba
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T09:41:12Z
date_updated: 2023-01-30T09:41:12Z
file_id: '12445'
file_name: 2022_Chaos_Choueiri.pdf
file_size: 3209644
relation: main_file
success: 1
file_date_updated: 2023-01-30T09:41:12Z
has_accepted_license: '1'
intvolume: ' 32'
isi: 1
issue: '9'
keyword:
- Applied Mathematics
- General Physics and Astronomy
- Mathematical Physics
- Statistical and Nonlinear Physics
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
publication: 'Chaos: An Interdisciplinary Journal of Nonlinear Science'
publication_identifier:
eissn:
- 1089-7682
issn:
- 1054-1500
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Crises and chaotic scattering in hydrodynamic pilot-wave experiments
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 32
year: '2022'
...