---
_id: '14378'
abstract:
- lang: eng
text: 'Branching morphogenesis is a ubiquitous process that gives rise to high exchange
surfaces in the vasculature and epithelial organs. Lymphatic capillaries form
branched networks, which play a key role in the circulation of tissue fluid and
immune cells. Although mouse models and correlative patient data indicate that
the lymphatic capillary density directly correlates with functional output, i.e.,
tissue fluid drainage and trafficking efficiency of dendritic cells, the mechanisms
ensuring efficient tissue coverage remain poorly understood. Here, we use the
mouse ear pinna lymphatic vessel network as a model system and combine lineage-tracing,
genetic perturbations, whole-organ reconstructions and theoretical modeling to
show that the dermal lymphatic capillaries tile space in an optimal, space-filling
manner. This coverage is achieved by two complementary mechanisms: initial tissue
invasion provides a non-optimal global scaffold via self-organized branching morphogenesis,
while VEGF-C dependent side-branching from existing capillaries rapidly optimizes
local coverage by directionally targeting low-density regions. With these two
ingredients, we show that a minimal biophysical model can reproduce quantitatively
whole-network reconstructions, across development and perturbations. Our results
show that lymphatic capillary networks can exploit local self-organizing mechanisms
to achieve tissue-scale optimization.'
acknowledgement: "We thank Dr. Kari Alitalo (University of Helsinki and Wihuri Research
Institute) for critical reading of the manuscript, providing Vegfc+/− and Clp24ΔEC
mouse strains and for hosting K.V.’s Academy of Finland postdoctoral researcher
period (2015–2018). We thank Dr. Sara Wickström (University of Helsinki and Wihuri
Research Institute) for providing Sox9:Egfp mouse\r\nstrain and the discussions.
We thank Maija Atuegwu and Tapio Tainola for technical assistance. This work received
funding from the Academy of Finland (K.V., 315710), Sigrid Juselius Foundation (K.V.),
University of Helsinki (K.V.), Wihuri Research Institute (K.V.), the ERC under the
European Union’s Horizon 2020 research and innovation program (grant agreement\r\nNo.
851288 to E.H.) and under the Marie Skłodowska-Curie grant agreement No. 754411
(to M.C.U.). Part of the work was carried out with the support of HiLIFE Laboratory
Animal Centre Core Facility, University of Helsinki, Finland. Imaging was performed
at the Biomedicum Imaging Unit, Helsinki University, Helsinki, Finland, with the
support of Biocenter Finland. The AAVpreparations were produced at the Helsinki
Virus (HelVi) Core."
article_number: '5878'
article_processing_charge: Yes
article_type: original
author:
- 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: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Emmi
full_name: Tiilikainen, Emmi
last_name: Tiilikainen
- first_name: Inam
full_name: Liaqat, Inam
last_name: Liaqat
- first_name: Emma
full_name: Jakobsson, Emma
last_name: Jakobsson
- first_name: Harri
full_name: Nurmi, Harri
last_name: Nurmi
- first_name: Kari
full_name: Vaahtomeri, Kari
id: 368EE576-F248-11E8-B48F-1D18A9856A87
last_name: Vaahtomeri
orcid: 0000-0001-7829-3518
citation:
ama: Ucar MC, Hannezo EB, Tiilikainen E, et al. Self-organized and directed branching
results in optimal coverage in developing dermal lymphatic networks. Nature
Communications. 2023;14. doi:10.1038/s41467-023-41456-7
apa: Ucar, M. C., Hannezo, E. B., Tiilikainen, E., Liaqat, I., Jakobsson, E., Nurmi,
H., & Vaahtomeri, K. (2023). Self-organized and directed branching results
in optimal coverage in developing dermal lymphatic networks. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-023-41456-7
chicago: Ucar, Mehmet C, Edouard B Hannezo, Emmi Tiilikainen, Inam Liaqat, Emma
Jakobsson, Harri Nurmi, and Kari Vaahtomeri. “Self-Organized and Directed Branching
Results in Optimal Coverage in Developing Dermal Lymphatic Networks.” Nature
Communications. Springer Nature, 2023. https://doi.org/10.1038/s41467-023-41456-7.
ieee: M. C. Ucar et al., “Self-organized and directed branching results in
optimal coverage in developing dermal lymphatic networks,” Nature Communications,
vol. 14. Springer Nature, 2023.
ista: Ucar MC, Hannezo EB, Tiilikainen E, Liaqat I, Jakobsson E, Nurmi H, Vaahtomeri
K. 2023. Self-organized and directed branching results in optimal coverage in
developing dermal lymphatic networks. Nature Communications. 14, 5878.
mla: Ucar, Mehmet C., et al. “Self-Organized and Directed Branching Results in Optimal
Coverage in Developing Dermal Lymphatic Networks.” Nature Communications,
vol. 14, 5878, Springer Nature, 2023, doi:10.1038/s41467-023-41456-7.
short: M.C. Ucar, E.B. Hannezo, E. Tiilikainen, I. Liaqat, E. Jakobsson, H. Nurmi,
K. Vaahtomeri, Nature Communications 14 (2023).
corr_author: '1'
date_created: 2023-10-01T22:01:13Z
date_published: 2023-09-21T00:00:00Z
date_updated: 2025-04-14T07:43:56Z
day: '21'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1038/s41467-023-41456-7
ec_funded: 1
external_id:
isi:
- '001075884500007'
pmid:
- '37735168'
file:
- access_level: open_access
checksum: 4fe5423403f2531753bcd9e0fea48e05
content_type: application/pdf
creator: dernst
date_created: 2023-10-03T07:46:36Z
date_updated: 2023-10-03T07:46:36Z
file_id: '14384'
file_name: 2023_NatureComm_Ucar.pdf
file_size: 8143264
relation: main_file
success: 1
file_date_updated: 2023-10-03T07:46:36Z
fulldoi: https://doi.org/10.1038/s41467-023-41456-7
has_accepted_license: '1'
intvolume: ' 14'
isi: 1
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Self-organized and directed branching results in optimal coverage in developing
dermal lymphatic networks
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: '14426'
abstract:
- lang: eng
text: To meet the physiological demands of the body, organs need to establish a
functional tissue architecture and adequate size as the embryo develops to adulthood.
In the liver, uni- and bipotent progenitor differentiation into hepatocytes and
biliary epithelial cells (BECs), and their relative proportions, comprise the
functional architecture. Yet, the contribution of individual liver progenitors
at the organ level to both fates, and their specific proportion, is unresolved.
Combining mathematical modelling with organ-wide, multispectral FRaeppli-NLS lineage
tracing in zebrafish, we demonstrate that a precise BEC-to-hepatocyte ratio is
established (i) fast, (ii) solely by heterogeneous lineage decisions from uni-
and bipotent progenitors, and (iii) independent of subsequent cell type–specific
proliferation. Extending lineage tracing to adulthood determined that embryonic
cells undergo spatially heterogeneous three-dimensional growth associated with
distinct environments. Strikingly, giant clusters comprising almost half a ventral
lobe suggest lobe-specific dominant-like growth behaviours. We show substantial
hepatocyte polyploidy in juveniles representing another hallmark of postembryonic
liver growth. Our findings uncover heterogeneous progenitor contributions to tissue
architecture-defining cell type proportions and postembryonic organ growth as
key mechanisms forming the adult liver.
acknowledgement: "We thank the Ober group for discussion and comments on the manuscript.
We are grateful to\r\nDr. F. Lemaigre for feedback on the manuscript and Dr. T.
Piotrowski for invaluable support.\r\nWe thank the department of experimental medicine
(AEM) in Copenhagen for expert fish\r\ncare. We gratefully acknowledge the DanStem
Imaging Platform (University of Copenhagen)\r\nfor support and assistance in this
work.\r\nThis work is supported by Novo Nordisk Foundation grant NNF17CC0027852
(EAO);\r\nNordisk Foundation grant NNF19OC0058327 (EAO); Novo Nordisk Foundation
grant\r\nNNF17OC0031204 (PRL); https://novonordiskfonden.dk/en/; Danish National\r\nResearch
Foundation grant DNRF116 (EAO and AT); https://dg.dk/en/; John and Birthe Meyer\r\nFoundation
(PRL) and European Research Council (ERC) under the EU Horizon 2020 research and
Innovation Programme Grant Agreement No. 851288 (EH)."
article_number: e3002315
article_processing_charge: No
article_type: original
author:
- first_name: Iris A.
full_name: Unterweger, Iris A.
last_name: Unterweger
- first_name: Julie
full_name: Klepstad, Julie
last_name: Klepstad
- 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: Pia R.
full_name: Lundegaard, Pia R.
last_name: Lundegaard
- first_name: Ala
full_name: Trusina, Ala
last_name: Trusina
- first_name: Elke A.
full_name: Ober, Elke A.
last_name: Ober
citation:
ama: Unterweger IA, Klepstad J, Hannezo EB, Lundegaard PR, Trusina A, Ober EA. Lineage
tracing identifies heterogeneous hepatoblast contribution to cell lineages and
postembryonic organ growth dynamics. PLoS Biology. 2023;21(10). doi:10.1371/journal.pbio.3002315
apa: Unterweger, I. A., Klepstad, J., Hannezo, E. B., Lundegaard, P. R., Trusina,
A., & Ober, E. A. (2023). Lineage tracing identifies heterogeneous hepatoblast
contribution to cell lineages and postembryonic organ growth dynamics. PLoS
Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.3002315
chicago: Unterweger, Iris A., Julie Klepstad, Edouard B Hannezo, Pia R. Lundegaard,
Ala Trusina, and Elke A. Ober. “Lineage Tracing Identifies Heterogeneous Hepatoblast
Contribution to Cell Lineages and Postembryonic Organ Growth Dynamics.” PLoS
Biology. Public Library of Science, 2023. https://doi.org/10.1371/journal.pbio.3002315.
ieee: I. A. Unterweger, J. Klepstad, E. B. Hannezo, P. R. Lundegaard, A. Trusina,
and E. A. Ober, “Lineage tracing identifies heterogeneous hepatoblast contribution
to cell lineages and postembryonic organ growth dynamics,” PLoS Biology,
vol. 21, no. 10. Public Library of Science, 2023.
ista: Unterweger IA, Klepstad J, Hannezo EB, Lundegaard PR, Trusina A, Ober EA.
2023. Lineage tracing identifies heterogeneous hepatoblast contribution to cell
lineages and postembryonic organ growth dynamics. PLoS Biology. 21(10), e3002315.
mla: Unterweger, Iris A., et al. “Lineage Tracing Identifies Heterogeneous Hepatoblast
Contribution to Cell Lineages and Postembryonic Organ Growth Dynamics.” PLoS
Biology, vol. 21, no. 10, e3002315, Public Library of Science, 2023, doi:10.1371/journal.pbio.3002315.
short: I.A. Unterweger, J. Klepstad, E.B. Hannezo, P.R. Lundegaard, A. Trusina,
E.A. Ober, PLoS Biology 21 (2023).
date_created: 2023-10-15T22:01:10Z
date_published: 2023-10-04T00:00:00Z
date_updated: 2025-04-14T07:52:27Z
day: '04'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1371/journal.pbio.3002315
ec_funded: 1
file:
- access_level: open_access
checksum: 40a2b11b41d70a0e5939f8a52b66e389
content_type: application/pdf
creator: dernst
date_created: 2023-10-16T07:20:49Z
date_updated: 2023-10-16T07:20:49Z
file_id: '14431'
file_name: 2023_PloSBiology_Unterweger.pdf
file_size: 6193110
relation: main_file
success: 1
file_date_updated: 2023-10-16T07:20:49Z
fulldoi: https://doi.org/10.1371/journal.pbio.3002315
has_accepted_license: '1'
intvolume: ' 21'
issue: '10'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
publication: PLoS Biology
publication_identifier:
eissn:
- 1545-7885
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/JulieKlepstad/LiverDevelopment
scopus_import: '1'
status: public
title: Lineage tracing identifies heterogeneous hepatoblast contribution to cell lineages
and postembryonic organ growth dynamics
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: 21
year: '2023'
...
---
_id: '14827'
abstract:
- lang: eng
text: Understanding complex living systems, which are fundamentally constrained
by physical phenomena, requires combining experimental data with theoretical physical
and mathematical models. To develop such models, collaborations between experimental
cell biologists and theoreticians are increasingly important but these two groups
often face challenges achieving mutual understanding. To help navigate these challenges,
this Perspective discusses different modelling approaches, including bottom-up
hypothesis-driven and top-down data-driven models, and highlights their strengths
and applications. Using cell mechanics as an example, we explore the integration
of specific physical models with experimental data from the molecular, cellular
and tissue level up to multiscale input. We also emphasize the importance of constraining
model complexity and outline strategies for crosstalk between experimental design
and model development. Furthermore, we highlight how physical models can provide
conceptual insights and produce unifying and generalizable frameworks for biological
phenomena. Overall, this Perspective aims to promote fruitful collaborations that
advance our understanding of complex biological systems.
acknowledgement: "We thank Prisca Liberali and Edouard Hannezo for many inspiring
discussions; Mehmet Can Uçar, Nicoletta I Petridou and Qiutan Yang for a critical
reading of the manuscript, and Claudia Flandoli for the artwork in Figs 2 and 3.
We would also like to thank The Company of Biologists for the opportunity to attend
the 2023 workshop on Collective Cell Migration, and all workshop participants for
discussions.\r\nC.S. was supported by a European Molecular Biology Organization
(EMBO) Postdoctoral Fellowship (ALTF 660-2020) and Human Frontier Science Program
(HFSP) Postdoctoral fellowship (LT000746/2021-L). D.B.B. was supported by the NOMIS
Foundation as a NOMIS Fellow and by an EMBO Postdoctoral Fellowship (ALTF 343-2022)."
article_number: jcs.261515
article_processing_charge: No
article_type: original
author:
- first_name: Cornelia
full_name: Schwayer, Cornelia
id: 3436488C-F248-11E8-B48F-1D18A9856A87
last_name: Schwayer
orcid: 0000-0001-5130-2226
- first_name: David
full_name: Brückner, David
id: e1e86031-6537-11eb-953a-f7ab92be508d
last_name: Brückner
orcid: 0000-0001-7205-2975
citation:
ama: Schwayer C, Brückner D. Connecting theory and experiment in cell and tissue
mechanics. Journal of Cell Science. 2023;136(24). doi:10.1242/jcs.261515
apa: Schwayer, C., & Brückner, D. (2023). Connecting theory and experiment in
cell and tissue mechanics. Journal of Cell Science. The Company of Biologists.
https://doi.org/10.1242/jcs.261515
chicago: Schwayer, Cornelia, and David Brückner. “Connecting Theory and Experiment
in Cell and Tissue Mechanics.” Journal of Cell Science. The Company of
Biologists, 2023. https://doi.org/10.1242/jcs.261515.
ieee: C. Schwayer and D. Brückner, “Connecting theory and experiment in cell and
tissue mechanics,” Journal of Cell Science, vol. 136, no. 24. The Company
of Biologists, 2023.
ista: Schwayer C, Brückner D. 2023. Connecting theory and experiment in cell and
tissue mechanics. Journal of Cell Science. 136(24), jcs. 261515.
mla: Schwayer, Cornelia, and David Brückner. “Connecting Theory and Experiment in
Cell and Tissue Mechanics.” Journal of Cell Science, vol. 136, no. 24,
jcs. 261515, The Company of Biologists, 2023, doi:10.1242/jcs.261515.
short: C. Schwayer, D. Brückner, Journal of Cell Science 136 (2023).
corr_author: '1'
date_created: 2024-01-17T12:46:55Z
date_published: 2023-12-27T00:00:00Z
date_updated: 2025-09-09T14:22:02Z
day: '27'
department:
- _id: EdHa
- _id: CaHe
doi: 10.1242/jcs.261515
external_id:
isi:
- '001165394900011'
pmid:
- '38149871'
fulldoi: https://doi.org/10.1242/jcs.261515
intvolume: ' 136'
isi: 1
issue: '24'
keyword:
- Cell Biology
language:
- iso: eng
month: '12'
oa_version: None
pmid: 1
project:
- _id: 34e2a5b5-11ca-11ed-8bc3-b2265616ef0b
grant_number: ALTF 343-2022
name: A mechano-chemical theory for stem cell fate decisions in organoid development
publication: Journal of Cell Science
publication_identifier:
eissn:
- 1477-9137
issn:
- 0021-9533
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
scopus_import: '1'
status: public
title: Connecting theory and experiment in cell and tissue mechanics
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 136
year: '2023'
...
---
OA_place: publisher
_id: '12964'
abstract:
- lang: eng
text: "Pattern formation is of great importance for its contribution across different
biological behaviours. During developmental processes for example, patterns of
chemical gradients are\r\nestablished to determine cell fate and complex tissue
patterns emerge to define structures such\r\nas limbs and vascular networks. Patterns
are also seen in collectively migrating groups, for\r\ninstance traveling waves
of density emerging in moving animal flocks as well as collectively migrating
cells and tissues. To what extent these biological patterns arise spontaneously
through\r\nthe local interaction of individual constituents or are dictated by
higher level instructions is\r\nstill an open question however there is evidence
for the involvement of both types of process.\r\nWhere patterns arise spontaneously
there is a long standing interest in how far the interplay\r\nof mechanics, e.g.
force generation and deformation, and chemistry, e.g. gene regulation\r\nand signaling,
contributes to the behaviour. This is because many systems are able to both\r\nchemically
regulate mechanical force production and chemically sense mechanical deformation,\r\nforming
mechano-chemical feedback loops which can potentially become unstable towards\r\nspatio
and/or temporal patterning.\r\nWe work with experimental collaborators to investigate
the possibility that this type of\r\ninteraction drives pattern formation in biological
systems at different scales. We focus first on\r\ntissue-level ERK-density waves
observed during the wound healing response across different\r\nsystems where many
previous studies have proposed that patterns depend on polarized cell\r\nmigration
and arise from a mechanical flocking-like mechanism. By combining theory with\r\nmechanical
and optogenetic perturbation experiments on in vitro monolayers we instead find\r\nevidence
for mechanochemical pattern formation involving only scalar bilateral feedbacks\r\nbetween
ERK signaling and cell contraction. We perform further modeling and experiment\r\nto
study how this instability couples with polar cell migration in order to produce
a robust\r\nand efficient wound healing response. In a following chapter we implement
ERK-density\r\ncoupling and cell migration in a 2D active vertex model to investigate
the interaction of\r\nERK-density patterning with different tissue rheologies
and find that the spatio-temporal\r\ndynamics are able to both locally and globally
fluidize a tissue across the solid-fluid glass\r\ntransition. In a last chapter
we move towards lower spatial scales in the context of subcellular\r\npatterning
of the cell cytoskeleton where we investigate the transition between phases of\r\nspatially
homogeneous temporal oscillations and chaotic spatio-temporal patterning in the\r\ndynamics
of myosin and ROCK activities (a motor component of the actomyosin cytoskeleton\r\nand
its activator). Experimental evidence supports an intrinsic chemical oscillator
which we\r\nencode in a reaction model and couple to a contractile active gel
description of the cell cortex.\r\nThe model exhibits phases of chemical oscillations
and contractile spatial patterning which\r\nreproduce many features of the dynamics
seen in Drosophila oocyte epithelia in vivo. However,\r\nadditional pharmacological
perturbations to inhibit myosin contractility leaves the role of\r\ncontractile
instability unclear. We discuss alternative hypotheses and investigate the possibility\r\nof
reaction-diffusion instability."
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Daniel R
full_name: Boocock, Daniel R
id: 453AF628-F248-11E8-B48F-1D18A9856A87
last_name: Boocock
orcid: 0000-0002-1585-2631
citation:
ama: Boocock DR. Mechanochemical pattern formation across biological scales. 2023.
doi:10.15479/at:ista:12964
apa: Boocock, D. R. (2023). Mechanochemical pattern formation across biological
scales. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:12964
chicago: Boocock, Daniel R. “Mechanochemical Pattern Formation across Biological
Scales.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/at:ista:12964.
ieee: D. R. Boocock, “Mechanochemical pattern formation across biological scales,”
Institute of Science and Technology Austria, 2023.
ista: Boocock DR. 2023. Mechanochemical pattern formation across biological scales.
Institute of Science and Technology Austria.
mla: Boocock, Daniel R. Mechanochemical Pattern Formation across Biological Scales.
Institute of Science and Technology Austria, 2023, doi:10.15479/at:ista:12964.
short: D.R. Boocock, Mechanochemical Pattern Formation across Biological Scales,
Institute of Science and Technology Austria, 2023.
corr_author: '1'
date_created: 2023-05-15T14:52:36Z
date_published: 2023-05-17T00:00:00Z
date_updated: 2026-04-07T13:52:57Z
day: '17'
ddc:
- '530'
degree_awarded: PhD
department:
- _id: GradSch
- _id: EdHa
doi: 10.15479/at:ista:12964
ec_funded: 1
file:
- access_level: open_access
checksum: d51240675fc6dc0e3f5dc0c902695d3a
content_type: application/pdf
creator: dboocock
date_created: 2023-05-17T13:39:54Z
date_updated: 2024-05-18T22:30:03Z
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file_size: 40414730
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creator: dboocock
date_created: 2023-05-17T13:39:53Z
date_updated: 2024-05-18T22:30:03Z
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file_id: '12989'
file_name: thesis_boocock.zip
file_size: 34338567
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file_date_updated: 2024-05-18T22:30:03Z
fulldoi: https://doi.org/10.15479/at:ista:12964
has_accepted_license: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '05'
oa: 1
oa_version: Published Version
page: '146'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
isbn:
- 978-3-99078-032-9
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8602'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
title: Mechanochemical pattern formation across biological scales
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2023'
...
---
_id: '12837'
abstract:
- lang: eng
text: As developing tissues grow in size and undergo morphogenetic changes, their
material properties may be altered. Such changes result from tension dynamics
at cell contacts or cellular jamming. Yet, in many cases, the cellular mechanisms
controlling the physical state of growing tissues are unclear. We found that at
early developmental stages, the epithelium in the developing mouse spinal cord
maintains both high junctional tension and high fluidity. This is achieved via
a mechanism in which interkinetic nuclear movements generate cell area dynamics
that drive extensive cell rearrangements. Over time, the cell proliferation rate
declines, effectively solidifying the tissue. Thus, unlike well-studied jamming
transitions, the solidification uncovered here resembles a glass transition that
depends on the dynamical stresses generated by proliferation and differentiation.
Our finding that the fluidity of developing epithelia is linked to interkinetic
nuclear movements and the dynamics of growth is likely to be relevant to multiple
developing tissues.
acknowledgement: 'We thank S. Hippenmeyer for the reagents and C. P. Heisenberg, J.
Briscoe and K. Page for comments on the manuscript. This work was supported by IST
Austria; the European Research Council under Horizon 2020 research and innovation
programme grant no. 680037 and Horizon Europe grant 101044579 (A.K.); Austrian Science
Fund (FWF): F78 (Stem Cell Modulation) (A.K.); ISTFELLOW postdoctoral program (A.S.);
Narodowe Centrum Nauki, Poland SONATA, 2017/26/D/NZ2/00454 (M.Z.); and the Polish
National Agency for Academic Exchange (M.Z.).'
article_processing_charge: No
article_type: original
author:
- first_name: Laura
full_name: Bocanegra, Laura
id: 4896F754-F248-11E8-B48F-1D18A9856A87
last_name: Bocanegra
- first_name: Amrita
full_name: Singh, Amrita
id: 76250f9f-3a21-11eb-9a80-a6180a0d7958
last_name: Singh
- 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: Marcin P
full_name: Zagórski, Marcin P
id: 343DA0DC-F248-11E8-B48F-1D18A9856A87
last_name: Zagórski
orcid: 0000-0001-7896-7762
- first_name: Anna
full_name: Kicheva, Anna
id: 3959A2A0-F248-11E8-B48F-1D18A9856A87
last_name: Kicheva
orcid: 0000-0003-4509-4998
citation:
ama: Bocanegra L, Singh A, Hannezo EB, Zagórski MP, Kicheva A. Cell cycle dynamics
control fluidity of the developing mouse neuroepithelium. Nature Physics.
2023;19:1050-1058. doi:10.1038/s41567-023-01977-w
apa: Bocanegra, L., Singh, A., Hannezo, E. B., Zagórski, M. P., & Kicheva, A.
(2023). Cell cycle dynamics control fluidity of the developing mouse neuroepithelium.
Nature Physics. Springer Nature. https://doi.org/10.1038/s41567-023-01977-w
chicago: Bocanegra, Laura, Amrita Singh, Edouard B Hannezo, Marcin P Zagórski, and
Anna Kicheva. “Cell Cycle Dynamics Control Fluidity of the Developing Mouse Neuroepithelium.”
Nature Physics. Springer Nature, 2023. https://doi.org/10.1038/s41567-023-01977-w.
ieee: L. Bocanegra, A. Singh, E. B. Hannezo, M. P. Zagórski, and A. Kicheva, “Cell
cycle dynamics control fluidity of the developing mouse neuroepithelium,” Nature
Physics, vol. 19. Springer Nature, pp. 1050–1058, 2023.
ista: Bocanegra L, Singh A, Hannezo EB, Zagórski MP, Kicheva A. 2023. Cell cycle
dynamics control fluidity of the developing mouse neuroepithelium. Nature Physics.
19, 1050–1058.
mla: Bocanegra, Laura, et al. “Cell Cycle Dynamics Control Fluidity of the Developing
Mouse Neuroepithelium.” Nature Physics, vol. 19, Springer Nature, 2023,
pp. 1050–58, doi:10.1038/s41567-023-01977-w.
short: L. Bocanegra, A. Singh, E.B. Hannezo, M.P. Zagórski, A. Kicheva, Nature Physics
19 (2023) 1050–1058.
corr_author: '1'
date_created: 2023-04-16T22:01:09Z
date_published: 2023-07-01T00:00:00Z
date_updated: 2026-10-20T22:30:20Z
day: '01'
ddc:
- '570'
department:
- _id: EdHa
- _id: AnKi
doi: 10.1038/s41567-023-01977-w
ec_funded: 1
external_id:
isi:
- '000964029300003'
pmid:
- '37456593'
file:
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checksum: 858225a4205b74406e5045006cdd853f
content_type: application/pdf
creator: dernst
date_created: 2023-10-04T11:13:28Z
date_updated: 2023-10-04T11:13:28Z
file_id: '14392'
file_name: 2023_NaturePhysics_Boncanegra.pdf
file_size: 5532285
relation: main_file
success: 1
file_date_updated: 2023-10-04T11:13:28Z
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has_accepted_license: '1'
intvolume: ' 19'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: 1050-1058
pmid: 1
project:
- _id: B6FC0238-B512-11E9-945C-1524E6697425
call_identifier: H2020
grant_number: '680037'
name: Coordination of Patterning And Growth In the Spinal Cord
- _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: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Nature Physics
publication_identifier:
eissn:
- 1745-2481
issn:
- 1745-2473
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '13081'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Cell cycle dynamics control fluidity of the developing mouse neuroepithelium
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: 19
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: 2026-10-20T22:30:35Z
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'
fulldoi: https://doi.org/10.1126/sciimmunol.adc9584
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
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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:
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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'
...
---
_id: '13116'
abstract:
- lang: eng
text: 'The emergence of large-scale order in self-organized systems relies on local
interactions between individual components. During bacterial cell division, FtsZ
-- a prokaryotic homologue of the eukaryotic protein tubulin -- polymerizes into
treadmilling filaments that further organize into a cytoskeletal ring. In vitro,
FtsZ filaments can form dynamic chiral assemblies. However, how the active and
passive properties of individual filaments relate to these large-scale self-organized
structures remains poorly understood. Here, we connect single filament properties
with the mesoscopic scale by combining minimal active matter simulations and biochemical
reconstitution experiments. We show that density and flexibility of active chiral
filaments define their global order. At intermediate densities, curved, flexible
filaments organize into chiral rings and polar bands. An effectively nematic organization
dominates for high densities and for straight, mutant filaments with increased
rigidity. Our predicted phase diagram captures these features quantitatively,
demonstrating how the flexibility, density and chirality of active filaments affect
their collective behaviour. Our findings shed light on the fundamental properties
of active chiral matter and explain how treadmilling FtsZ filaments organize during
bacterial cell division. '
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: 'This work was supported by the European Research Council through
grant ERC 2015-StG-679239 and by the Austrian Science Fund (FWF) StandAlone P34607
to M.L., B. P.M. was also supported by the Kanazawa University WPI- NanoLSI Bio-SPM
collaborative research program. Z.D. has received funding from Doctoral Programme
of the Austrian Academy of Sciences (OeAW): Grant agreement 26360. We thank Jan
Brugues (MPI CBG, Dresden, Germany), Andela Saric (ISTA, Klosterneuburg, Austria),
Daniel Pearce (Uni Geneva, Switzerland) for valuable scientific input and comments
on the manuscript. We are also thankful for the support by the Scientific Service
Units (SSU) of IST Austria through resources provided by the Imaging and Optics
Facility (IOF) and the Lab Support Facility (LSF). '
article_processing_charge: No
author:
- first_name: Zuzana
full_name: Dunajova, Zuzana
id: 4B39F286-F248-11E8-B48F-1D18A9856A87
last_name: Dunajova
- first_name: Batirtze
full_name: Prats Mateu, Batirtze
id: 299FE892-F248-11E8-B48F-1D18A9856A87
last_name: Prats Mateu
- first_name: Philipp
full_name: Radler, Philipp
id: 40136C2A-F248-11E8-B48F-1D18A9856A87
last_name: Radler
orcid: '0000-0001-9198-2182 '
- first_name: Keesiang
full_name: Lim, Keesiang
last_name: Lim
- first_name: Dörte
full_name: Brandis, Dörte
last_name: Brandis
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Richard W.
full_name: Wong, Richard W.
last_name: Wong
- first_name: Jens
full_name: Elgeti, Jens
last_name: Elgeti
- 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: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
citation:
ama: Dunajova Z, Prats Mateu B, Radler P, et al. Chiral and nematic phases of flexible
active filaments. 2023. doi:10.15479/AT:ISTA:13116
apa: Dunajova, Z., Prats Mateu, B., Radler, P., Lim, K., Brandis, D., Velicky, P.,
… Loose, M. (2023). Chiral and nematic phases of flexible active filaments. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:13116
chicago: Dunajova, Zuzana, Batirtze Prats Mateu, Philipp Radler, Keesiang Lim, Dörte
Brandis, Philipp Velicky, Johann G Danzl, et al. “Chiral and Nematic Phases of
Flexible Active Filaments.” Institute of Science and Technology Austria, 2023.
https://doi.org/10.15479/AT:ISTA:13116.
ieee: Z. Dunajova et al., “Chiral and nematic phases of flexible active filaments.”
Institute of Science and Technology Austria, 2023.
ista: Dunajova Z, Prats Mateu B, Radler P, Lim K, Brandis D, Velicky P, Danzl JG,
Wong RW, Elgeti J, Hannezo EB, Loose M. 2023. Chiral and nematic phases of flexible
active filaments, Institute of Science and Technology Austria, 10.15479/AT:ISTA:13116.
mla: Dunajova, Zuzana, et al. Chiral and Nematic Phases of Flexible Active Filaments.
Institute of Science and Technology Austria, 2023, doi:10.15479/AT:ISTA:13116.
short: Z. Dunajova, B. Prats Mateu, P. Radler, K. Lim, D. Brandis, P. Velicky, J.G.
Danzl, R.W. Wong, J. Elgeti, E.B. Hannezo, M. Loose, (2023).
corr_author: '1'
date_created: 2023-06-02T12:30:40Z
date_published: 2023-07-26T00:00:00Z
date_updated: 2026-10-20T22:31:29Z
day: '26'
ddc:
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department:
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- _id: EdHa
- _id: JoDa
doi: 10.15479/AT:ISTA:13116
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fulldoi: https://doi.org/10.15479/AT:ISTA:13116
has_accepted_license: '1'
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 2595697A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '679239'
name: Self-Organization of the Bacterial Cell
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grant_number: P34607
name: In vitro reconstitution of bacterial cell division
- _id: 34d75525-11ca-11ed-8bc3-89b6307fee9d
grant_number: '26360'
name: Motile active matter models of migrating cells and chiral filaments
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '13314'
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status: public
- id: '21423'
relation: used_in_publication
status: public
status: public
title: Chiral and nematic phases of flexible active filaments
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2023'
...
---
_id: '13314'
abstract:
- lang: eng
text: The emergence of large-scale order in self-organized systems relies on local
interactions between individual components. During bacterial cell division, FtsZ—a
prokaryotic homologue of the eukaryotic protein tubulin—polymerizes into treadmilling
filaments that further organize into a cytoskeletal ring. In vitro, FtsZ filaments
can form dynamic chiral assemblies. However, how the active and passive properties
of individual filaments relate to these large-scale self-organized structures
remains poorly understood. Here we connect single-filament properties with the
mesoscopic scale by combining minimal active matter simulations and biochemical
reconstitution experiments. We show that the density and flexibility of active
chiral filaments define their global order. At intermediate densities, curved,
flexible filaments organize into chiral rings and polar bands. An effectively
nematic organization dominates for high densities and for straight, mutant filaments
with increased rigidity. Our predicted phase diagram quantitatively captures these
features, demonstrating how the flexibility, density and chirality of the active
filaments affect their collective behaviour. Our findings shed light on the fundamental
properties of active chiral matter and explain how treadmilling FtsZ filaments
organize during bacterial cell division.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: 'This work was supported by the European Research Council through
grant ERC 2015-StG-679239 and by the Austrian Science Fund (FWF) StandAlone P34607
to M.L., B. P.M. was also supported by the Kanazawa University WPI- NanoLSI Bio-SPM
collaborative research program. Z.D. has received funding from Doctoral Programme
of the Austrian Academy of Sciences (OeAW): Grant agreement 26360. We thank Jan
Brugues (MPI CBG, Dresden, Germany), Andela Saric (ISTA, Klosterneuburg, Austria),
Daniel Pearce (Uni Geneva, Switzerland) for valuable scientific input and comments
on the manuscript. We are also thankful for the support by the Scientific Service
Units (SSU) of IST Austria through resources provided by the Imaging and Optics
Facility (IOF) and the Lab Support Facility (LSF).'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Zuzana
full_name: Dunajova, Zuzana
id: 4B39F286-F248-11E8-B48F-1D18A9856A87
last_name: Dunajova
- first_name: Batirtze
full_name: Prats Mateu, Batirtze
id: 299FE892-F248-11E8-B48F-1D18A9856A87
last_name: Prats Mateu
- first_name: Philipp
full_name: Radler, Philipp
id: 40136C2A-F248-11E8-B48F-1D18A9856A87
last_name: Radler
orcid: '0000-0001-9198-2182 '
- first_name: Keesiang
full_name: Lim, Keesiang
last_name: Lim
- first_name: Dörte
full_name: Brandis, Dörte
id: 21d64d35-f128-11eb-9611-b8bcca7a12fd
last_name: Brandis
- first_name: Philipp
full_name: Velicky, Philipp
id: 39BDC62C-F248-11E8-B48F-1D18A9856A87
last_name: Velicky
orcid: 0000-0002-2340-7431
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Richard W.
full_name: Wong, Richard W.
last_name: Wong
- first_name: Jens
full_name: Elgeti, Jens
last_name: Elgeti
- 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: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
citation:
ama: Dunajova Z, Prats Mateu B, Radler P, et al. Chiral and nematic phases of flexible
active filaments. Nature Physics. 2023;19:1916-1926. doi:10.1038/s41567-023-02218-w
apa: Dunajova, Z., Prats Mateu, B., Radler, P., Lim, K., Brandis, D., Velicky, P.,
… Loose, M. (2023). Chiral and nematic phases of flexible active filaments. Nature
Physics. Springer Nature. https://doi.org/10.1038/s41567-023-02218-w
chicago: Dunajova, Zuzana, Batirtze Prats Mateu, Philipp Radler, Keesiang Lim, Dörte
Brandis, Philipp Velicky, Johann G Danzl, et al. “Chiral and Nematic Phases of
Flexible Active Filaments.” Nature Physics. Springer Nature, 2023. https://doi.org/10.1038/s41567-023-02218-w.
ieee: Z. Dunajova et al., “Chiral and nematic phases of flexible active filaments,”
Nature Physics, vol. 19. Springer Nature, pp. 1916–1926, 2023.
ista: Dunajova Z, Prats Mateu B, Radler P, Lim K, Brandis D, Velicky P, Danzl JG,
Wong RW, Elgeti J, Hannezo EB, Loose M. 2023. Chiral and nematic phases of flexible
active filaments. Nature Physics. 19, 1916–1926.
mla: Dunajova, Zuzana, et al. “Chiral and Nematic Phases of Flexible Active Filaments.”
Nature Physics, vol. 19, Springer Nature, 2023, pp. 1916–26, doi:10.1038/s41567-023-02218-w.
short: Z. Dunajova, B. Prats Mateu, P. Radler, K. Lim, D. Brandis, P. Velicky, J.G.
Danzl, R.W. Wong, J. Elgeti, E.B. Hannezo, M. Loose, Nature Physics 19 (2023)
1916–1926.
corr_author: '1'
date_created: 2023-07-27T14:44:45Z
date_published: 2023-12-01T00:00:00Z
date_updated: 2026-10-20T22:31:29Z
day: '01'
ddc:
- '530'
department:
- _id: JoDa
- _id: EdHa
- _id: MaLo
- _id: GradSch
doi: 10.1038/s41567-023-02218-w
ec_funded: 1
external_id:
isi:
- '001178645300041'
pmid:
- '38075437'
file:
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checksum: bc7673ca07d37309013a86166577b2f7
content_type: application/pdf
creator: dernst
date_created: 2024-01-30T14:28:30Z
date_updated: 2024-01-30T14:28:30Z
file_id: '14916'
file_name: 2023_NaturePhysics_Dunajova.pdf
file_size: 22471673
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success: 1
file_date_updated: 2024-01-30T14:28:30Z
fulldoi: https://doi.org/10.1038/s41567-023-02218-w
has_accepted_license: '1'
intvolume: ' 19'
isi: 1
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 1916-1926
pmid: 1
project:
- _id: 2595697A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '679239'
name: Self-Organization of the Bacterial Cell
- _id: fc38323b-9c52-11eb-aca3-ff8afb4a011d
grant_number: P34607
name: In vitro reconstitution of bacterial cell division
- _id: 34d75525-11ca-11ed-8bc3-89b6307fee9d
grant_number: '26360'
name: Motile active matter models of migrating cells and chiral filaments
publication: Nature Physics
publication_identifier:
eissn:
- 1745-2481
issn:
- 1745-2473
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
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relation: research_data
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relation: research_data
status: public
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relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Chiral and nematic phases of flexible active filaments
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: 19
year: '2023'
...
---
_id: '10825'
abstract:
- lang: eng
text: In development, lineage segregation is coordinated in time and space. An important
example is the mammalian inner cell mass, in which the primitive endoderm (PrE,
founder of the yolk sac) physically segregates from the epiblast (EPI, founder
of the fetus). While the molecular requirements have been well studied, the physical
mechanisms determining spatial segregation between EPI and PrE remain elusive.
Here, we investigate the mechanical basis of EPI and PrE sorting. We find that
rather than the differences in static cell surface mechanical parameters as in
classical sorting models, it is the differences in surface fluctuations that robustly
ensure physical lineage sorting. These differential surface fluctuations systematically
correlate with differential cellular fluidity, which we propose together constitute
a non-equilibrium sorting mechanism for EPI and PrE lineages. By combining experiments
and modeling, we identify cell surface dynamics as a key factor orchestrating
the correct spatial segregation of the founder embryonic lineages.
acknowledgement: We are grateful to H. Niwa for Dox regulatable PB vector; G. Charras
for EzrinT567D cDNA; K. Jones for tdTomato ESCs, R26-Confetti ESCs, and laboratory
assistance; M. Kinoshita for pPB-CAG-H2B-BFP plasmid; P. Humphreys and D. Clements
for imaging support; G. Chu, P. Attlesey, and staff for animal husbandry; S. Pallett
for laboratory assistance; C. Mulas for critical feedback on the project; T. Boroviak
for single-cell RNA-seq; the EMBL Genomics Core Facility for sequencing; and M.
Merkel for developing and sharing the original version of the 3D Voronoi code. This
work was financially supported by BBSRC ( BB/Moo4023/1 and BB/T007044/1 to K.J.C.
and J.N., Alert16 grant BB/R000042 to E.K.P.), Leverhulme Trust ( RPG-2014-080 to
K.J.C. and J.N.), European Research Council ( 772798 -CellFateTech to K.J.C., 311637
-MorphoCorDiv and 820188 -NanoMechShape to E.K.P., Starting Grant 851288 to E.H.,
and 772426 -MeChemGui to K.F.), the Isaac Newton Trust (to E.K.P.), Medical Research
Council UK (MRC program award MC_UU_00012/5 to E.K.P.), the European Union’s Horizon
2020 research and innovation program under the Marie Sklodowska-Curie grant agreement
no. 641639 ( ITN Biopol , H.D.B. and E.K.P.), the Alexander von Humboldt Foundation
(Alexander von Humboldt Professorship to K.F.), EMBO ALTF 522-2021 (to P.S.), Centre
for Trophoblast Research (Next Generation fellowship to S.A.), and JSPS Overseas
Research Fellowships (to A.Y.). The Wellcome-MRC Cambridge Stem Cell Institute receives
core funding from Wellcome Trust ( 203151/Z/16/Z ) and MRC ( MC_PC_17230 ). For
the purpose of open access, the author has applied a CC BY public copyright licence
to any Author Accepted Manuscript version arising from this submission.
article_processing_charge: No
article_type: original
author:
- first_name: Ayaka
full_name: Yanagida, Ayaka
last_name: Yanagida
- first_name: Elena
full_name: Corujo-Simon, Elena
last_name: Corujo-Simon
- first_name: Christopher K.
full_name: Revell, Christopher K.
last_name: Revell
- first_name: Preeti
full_name: Sahu, Preeti
id: 55BA52EE-A185-11EA-88FD-18AD3DDC885E
last_name: Sahu
- first_name: Giuliano G.
full_name: Stirparo, Giuliano G.
last_name: Stirparo
- first_name: Irene M.
full_name: Aspalter, Irene M.
last_name: Aspalter
- first_name: Alex K.
full_name: Winkel, Alex K.
last_name: Winkel
- first_name: Ruby
full_name: Peters, Ruby
last_name: Peters
- first_name: Henry
full_name: De Belly, Henry
last_name: De Belly
- first_name: Davide A.D.
full_name: Cassani, Davide A.D.
last_name: Cassani
- first_name: Sarra
full_name: Achouri, Sarra
last_name: Achouri
- first_name: Raphael
full_name: Blumenfeld, Raphael
last_name: Blumenfeld
- first_name: Kristian
full_name: Franze, Kristian
last_name: Franze
- 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: Ewa K.
full_name: Paluch, Ewa K.
last_name: Paluch
- first_name: Jennifer
full_name: Nichols, Jennifer
last_name: Nichols
- first_name: Kevin J.
full_name: Chalut, Kevin J.
last_name: Chalut
citation:
ama: Yanagida A, Corujo-Simon E, Revell CK, et al. Cell surface fluctuations regulate
early embryonic lineage sorting. Cell. 2022;185(5):777-793.e20. doi:10.1016/j.cell.2022.01.022
apa: Yanagida, A., Corujo-Simon, E., Revell, C. K., Sahu, P., Stirparo, G. G., Aspalter,
I. M., … Chalut, K. J. (2022). Cell surface fluctuations regulate early embryonic
lineage sorting. Cell. Cell Press. https://doi.org/10.1016/j.cell.2022.01.022
chicago: Yanagida, Ayaka, Elena Corujo-Simon, Christopher K. Revell, Preeti Sahu,
Giuliano G. Stirparo, Irene M. Aspalter, Alex K. Winkel, et al. “Cell Surface
Fluctuations Regulate Early Embryonic Lineage Sorting.” Cell. Cell Press,
2022. https://doi.org/10.1016/j.cell.2022.01.022.
ieee: A. Yanagida et al., “Cell surface fluctuations regulate early embryonic
lineage sorting,” Cell, vol. 185, no. 5. Cell Press, p. 777–793.e20, 2022.
ista: Yanagida A, Corujo-Simon E, Revell CK, Sahu P, Stirparo GG, Aspalter IM, Winkel
AK, Peters R, De Belly H, Cassani DAD, Achouri S, Blumenfeld R, Franze K, Hannezo
EB, Paluch EK, Nichols J, Chalut KJ. 2022. Cell surface fluctuations regulate
early embryonic lineage sorting. Cell. 185(5), 777–793.e20.
mla: Yanagida, Ayaka, et al. “Cell Surface Fluctuations Regulate Early Embryonic
Lineage Sorting.” Cell, vol. 185, no. 5, Cell Press, 2022, p. 777–793.e20,
doi:10.1016/j.cell.2022.01.022.
short: A. Yanagida, E. Corujo-Simon, C.K. Revell, P. Sahu, G.G. Stirparo, I.M. Aspalter,
A.K. Winkel, R. Peters, H. De Belly, D.A.D. Cassani, S. Achouri, R. Blumenfeld,
K. Franze, E.B. Hannezo, E.K. Paluch, J. Nichols, K.J. Chalut, Cell 185 (2022)
777–793.e20.
date_created: 2022-03-06T23:01:52Z
date_published: 2022-02-22T00:00:00Z
date_updated: 2025-07-10T11:50:00Z
day: '22'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1016/j.cell.2022.01.022
ec_funded: 1
external_id:
isi:
- '000796293700007'
pmid:
- '35196500'
file:
- access_level: open_access
checksum: ae305060e8031297771b89dae9e36a29
content_type: application/pdf
creator: dernst
date_created: 2022-03-07T07:55:23Z
date_updated: 2022-03-07T07:55:23Z
file_id: '10831'
file_name: 2022_Cell_Yanagida.pdf
file_size: 8478995
relation: main_file
success: 1
file_date_updated: 2022-03-07T07:55:23Z
fulldoi: https://doi.org/10.1016/j.cell.2022.01.022
has_accepted_license: '1'
intvolume: ' 185'
isi: 1
issue: '5'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 777-793.e20
pmid: 1
project:
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
publication: Cell
publication_identifier:
eissn:
- 1097-4172
issn:
- 0092-8674
publication_status: published
publisher: Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cell surface fluctuations regulate early embryonic lineage sorting
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: 185
year: '2022'
...
---
_id: '12209'
abstract:
- lang: eng
text: Embryo development requires biochemical signalling to generate patterns of
cell fates and active mechanical forces to drive tissue shape changes. However,
how these processes are coordinated, and how tissue patterning is preserved despite
the cellular flows occurring during morphogenesis, remains poorly understood.
Gastrulation is a crucial embryonic stage that involves both patterning and internalization
of the mesendoderm germ layer tissue. Here we show that, in zebrafish embryos,
a gradient in Nodal signalling orchestrates pattern-preserving internalization
movements by triggering a motility-driven unjamming transition. In addition to
its role as a morphogen determining embryo patterning, graded Nodal signalling
mechanically subdivides the mesendoderm into a small fraction of highly protrusive
leader cells, able to autonomously internalize via local unjamming, and less protrusive
followers, which need to be pulled inwards by the leaders. The Nodal gradient
further enforces a code of preferential adhesion coupling leaders to their immediate
followers, resulting in a collective and ordered mode of internalization that
preserves mesendoderm patterning. Integrating this dual mechanical role of Nodal
signalling into minimal active particle simulations quantitatively predicts both
physiological and experimentally perturbed internalization movements. This provides
a quantitative framework for how a morphogen-encoded unjamming transition can
bidirectionally couple tissue mechanics with patterning during complex three-dimensional
morphogenesis.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: "We thank K. Sampath, A. Pauli and Y. Bellaїche for feedback on the
manuscript. We also thank the members of the Heisenberg group, in particular A.
Schauer and F. Nur Arslan, for help, technical advice and discussions, and the Bioimaging
and Life Science facilities at IST\r\nAustria for continuous support. We thank C.
Flandoli for the artwork in the figures. This work was supported by postdoctoral
fellowships from EMBO (LTF-850-2017) and HFSP (LT000429/2018-L2) to D.P. and the
European Union (European Research Council starting grant 851288 to É.H. and European
Research Council advanced grant 742573 to C.-P.H.)."
article_processing_charge: No
article_type: original
author:
- first_name: Diana C
full_name: Nunes Pinheiro, Diana C
id: 2E839F16-F248-11E8-B48F-1D18A9856A87
last_name: Nunes Pinheiro
orcid: 0000-0003-4333-7503
- first_name: Roland
full_name: Kardos, Roland
id: 4039350E-F248-11E8-B48F-1D18A9856A87
last_name: Kardos
- 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: 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: Nunes Pinheiro DC, Kardos R, Hannezo EB, Heisenberg C-PJ. Morphogen gradient
orchestrates pattern-preserving tissue morphogenesis via motility-driven unjamming.
Nature Physics. 2022;18(12):1482-1493. doi:10.1038/s41567-022-01787-6
apa: Nunes Pinheiro, D. C., Kardos, R., Hannezo, E. B., & Heisenberg, C.-P.
J. (2022). Morphogen gradient orchestrates pattern-preserving tissue morphogenesis
via motility-driven unjamming. Nature Physics. Springer Nature. https://doi.org/10.1038/s41567-022-01787-6
chicago: Nunes Pinheiro, Diana C, Roland Kardos, Edouard B Hannezo, and Carl-Philipp
J Heisenberg. “Morphogen Gradient Orchestrates Pattern-Preserving Tissue Morphogenesis
via Motility-Driven Unjamming.” Nature Physics. Springer Nature, 2022.
https://doi.org/10.1038/s41567-022-01787-6.
ieee: D. C. Nunes Pinheiro, R. Kardos, E. B. Hannezo, and C.-P. J. Heisenberg, “Morphogen
gradient orchestrates pattern-preserving tissue morphogenesis via motility-driven
unjamming,” Nature Physics, vol. 18, no. 12. Springer Nature, pp. 1482–1493,
2022.
ista: Nunes Pinheiro DC, Kardos R, Hannezo EB, Heisenberg C-PJ. 2022. Morphogen
gradient orchestrates pattern-preserving tissue morphogenesis via motility-driven
unjamming. Nature Physics. 18(12), 1482–1493.
mla: Nunes Pinheiro, Diana C., et al. “Morphogen Gradient Orchestrates Pattern-Preserving
Tissue Morphogenesis via Motility-Driven Unjamming.” Nature Physics, vol.
18, no. 12, Springer Nature, 2022, pp. 1482–93, doi:10.1038/s41567-022-01787-6.
short: D.C. Nunes Pinheiro, R. Kardos, E.B. Hannezo, C.-P.J. Heisenberg, Nature
Physics 18 (2022) 1482–1493.
corr_author: '1'
date_created: 2023-01-16T09:45:19Z
date_published: 2022-12-01T00:00:00Z
date_updated: 2025-04-14T07:46:59Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
- _id: EdHa
doi: 10.1038/s41567-022-01787-6
ec_funded: 1
external_id:
isi:
- '000871319900002'
file:
- access_level: open_access
checksum: c86a8e8d80d1bfc46d56a01e88a2526a
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T07:32:01Z
date_updated: 2023-01-27T07:32:01Z
file_id: '12412'
file_name: 2022_NaturePhysics_Pinheiro.pdf
file_size: 36703569
relation: main_file
success: 1
file_date_updated: 2023-01-27T07:32:01Z
fulldoi: https://doi.org/10.1038/s41567-022-01787-6
has_accepted_license: '1'
intvolume: ' 18'
isi: 1
issue: '12'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
page: 1482-1493
project:
- _id: 26520D1E-B435-11E9-9278-68D0E5697425
grant_number: ALTF 850-2017
name: Coordination of mesendoderm cell fate specification and internalization during
zebrafish gastrulation
- _id: 26520D1E-B435-11E9-9278-68D0E5697425
grant_number: ALTF 850-2017
name: Coordination of mesendoderm cell fate specification and internalization during
zebrafish gastrulation
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
- _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: Nature Physics
publication_identifier:
eissn:
- 1745-2481
issn:
- 1745-2473
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Morphogen gradient orchestrates pattern-preserving tissue morphogenesis via
motility-driven unjamming
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 18
year: '2022'
...
---
_id: '12217'
abstract:
- lang: eng
text: The development dynamics and self-organization of glandular branched epithelia
is of utmost importance for our understanding of diverse processes ranging from
normal tissue growth to the growth of cancerous tissues. Using single primary
murine pancreatic ductal adenocarcinoma (PDAC) cells embedded in a collagen matrix
and adapted media supplementation, we generate organoids that self-organize into
highly branched structures displaying a seamless lumen connecting terminal end
buds, replicating in vivo PDAC architecture. We identify distinct morphogenesis
phases, each characterized by a unique pattern of cell invasion, matrix deformation,
protein expression, and respective molecular dependencies. We propose a minimal
theoretical model of a branching and proliferating tissue, capturing the dynamics
of the first phases. Observing the interaction of morphogenesis, mechanical environment
and gene expression in vitro sets a benchmark for the understanding of self-organization
processes governing complex organoid structure formation processes and branching
morphogenesis.
acknowledgement: "A.R.B. acknowledges the financial support of the European Research
Council (ERC) through the funding of the grant Principles of Integrin Mechanics
and Adhesion (PoINT) and the German Research Foundation (DFG, SFB 1032, project
ID 201269156). E.H. was supported by the European Union (European Research Council
Starting Grant 851288). D.S., M.R., and R.R. acknowledge the support by the German
Research Foundation (DFG, SFB1321 Modeling and Targeting Pancreatic Cancer, Project
S01, project ID 329628492). C.S. and M.R. acknowledge the support by the German
Research Foundation (DFG, SFB1321 Modeling and Targeting Pancreatic Cancer, Project
12, project ID 329628492). M.R. was supported by the German Research Foundation
(DFG RE 3723/4-1). A.P. and M.R. were supported by the German Cancer Aid (Max-Eder
Program 111273 and 70114328).\r\nOpen Access funding enabled and organized by Projekt
DEAL."
article_number: '5219'
article_processing_charge: No
article_type: original
author:
- first_name: S.
full_name: Randriamanantsoa, S.
last_name: Randriamanantsoa
- first_name: A.
full_name: Papargyriou, A.
last_name: Papargyriou
- first_name: H. C.
full_name: Maurer, H. C.
last_name: Maurer
- first_name: K.
full_name: Peschke, K.
last_name: Peschke
- first_name: M.
full_name: Schuster, M.
last_name: Schuster
- first_name: G.
full_name: Zecchin, G.
last_name: Zecchin
- first_name: K.
full_name: Steiger, K.
last_name: Steiger
- first_name: R.
full_name: Öllinger, R.
last_name: Öllinger
- first_name: D.
full_name: Saur, D.
last_name: Saur
- first_name: C.
full_name: Scheel, C.
last_name: Scheel
- first_name: R.
full_name: Rad, R.
last_name: Rad
- 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: M.
full_name: Reichert, M.
last_name: Reichert
- first_name: A. R.
full_name: Bausch, A. R.
last_name: Bausch
citation:
ama: Randriamanantsoa S, Papargyriou A, Maurer HC, et al. Spatiotemporal dynamics
of self-organized branching in pancreas-derived organoids. Nature Communications.
2022;13. doi:10.1038/s41467-022-32806-y
apa: Randriamanantsoa, S., Papargyriou, A., Maurer, H. C., Peschke, K., Schuster,
M., Zecchin, G., … Bausch, A. R. (2022). Spatiotemporal dynamics of self-organized
branching in pancreas-derived organoids. Nature Communications. Springer
Nature. https://doi.org/10.1038/s41467-022-32806-y
chicago: Randriamanantsoa, S., A. Papargyriou, H. C. Maurer, K. Peschke, M. Schuster,
G. Zecchin, K. Steiger, et al. “Spatiotemporal Dynamics of Self-Organized Branching
in Pancreas-Derived Organoids.” Nature Communications. Springer Nature,
2022. https://doi.org/10.1038/s41467-022-32806-y.
ieee: S. Randriamanantsoa et al., “Spatiotemporal dynamics of self-organized
branching in pancreas-derived organoids,” Nature Communications, vol. 13.
Springer Nature, 2022.
ista: Randriamanantsoa S, Papargyriou A, Maurer HC, Peschke K, Schuster M, Zecchin
G, Steiger K, Öllinger R, Saur D, Scheel C, Rad R, Hannezo EB, Reichert M, Bausch
AR. 2022. Spatiotemporal dynamics of self-organized branching in pancreas-derived
organoids. Nature Communications. 13, 5219.
mla: Randriamanantsoa, S., et al. “Spatiotemporal Dynamics of Self-Organized Branching
in Pancreas-Derived Organoids.” Nature Communications, vol. 13, 5219, Springer
Nature, 2022, doi:10.1038/s41467-022-32806-y.
short: S. Randriamanantsoa, A. Papargyriou, H.C. Maurer, K. Peschke, M. Schuster,
G. Zecchin, K. Steiger, R. Öllinger, D. Saur, C. Scheel, R. Rad, E.B. Hannezo,
M. Reichert, A.R. Bausch, Nature Communications 13 (2022).
date_created: 2023-01-16T09:46:53Z
date_published: 2022-09-05T00:00:00Z
date_updated: 2025-06-11T13:53:55Z
day: '05'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1038/s41467-022-32806-y
ec_funded: 1
external_id:
isi:
- '000850348400025'
pmid:
- '36064947'
file:
- access_level: open_access
checksum: 295261b5172274fd5b8f85a6a6058828
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T08:14:48Z
date_updated: 2023-01-27T08:14:48Z
file_id: '12416'
file_name: 2022_NatureCommunications_Randriamanantsoa.pdf
file_size: 22645149
relation: main_file
success: 1
file_date_updated: 2023-01-27T08:14:48Z
fulldoi: https://doi.org/10.1038/s41467-022-32806-y
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
keyword:
- General Physics and Astronomy
- General Biochemistry
- Genetics and Molecular Biology
- General Chemistry
- Multidisciplinary
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
publication: Nature Communications
publication_identifier:
issn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '13068'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Spatiotemporal dynamics of self-organized branching in pancreas-derived organoids
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: 13
year: '2022'
...
---
_id: '12253'
abstract:
- lang: eng
text: The sculpting of germ layers during gastrulation relies on the coordinated
migration of progenitor cells, yet the cues controlling these long-range directed
movements remain largely unknown. While directional migration often relies on
a chemokine gradient generated from a localized source, we find that zebrafish
ventrolateral mesoderm is guided by a self-generated gradient of the initially
uniformly expressed and secreted protein Toddler/ELABELA/Apela. We show that the
Apelin receptor, which is specifically expressed in mesodermal cells, has a dual
role during gastrulation, acting as a scavenger receptor to generate a Toddler
gradient, and as a chemokine receptor to sense this guidance cue. Thus, we uncover
a single receptor–based self-generated gradient as the enigmatic guidance cue
that can robustly steer the directional migration of mesoderm through the complex
and continuously changing environment of the gastrulating embryo.
acknowledgement: 'We thank K. Aumayer and the team of the biooptics facility at the
Vienna Biocenter, particularly P. Pasierbek and T. Müller, for support with microscopy;
K. Panser, C. Pribitzer, and the animal facility personnel for taking care of zebrafish;
M. Binner and A. Bandura for help with genotyping; M. Codina Tobias for help with
establishing the conditions for the Toddler overexpression compensation experiment;
T. Lubiana Alves for sharing the code for scRNA-Seq analyses; the Heisenberg laboratory,
particularly D. Pinheiro, for joint laboratory meetings, discussions on the project,
and providing the tg(gsc:CAAX-GFP) fish line; the Raz laboratory for providing the
Lifeact-GFP plasmid; A. Andersen, A. Schier, C.-P. Heisenberg, and E. Tanaka for
comments on the manuscript; and the entire Pauli laboratory, particularly K. Gert
and V. Deneke, for valuable discussions and feedback on the manuscript. Funding:
Work in A.P.’s laboratory has been supported by the IMP, which receives institutional
funding from Boehringer Ingelheim and the Austrian Research Promotion Agency (Headquarter
grant FFG-852936), as well as the FWF START program (Y 1031-B28 to A.P.), the Human
Frontier Science Program (HFSP) Career Development Award (CDA00066/2015 to A.P.)
and Young Investigator Grant (RGY0079/2020 to A.P.), the SFB RNA-Deco (project number
F 80 to A.P.), a Whitman Center Fellowship from the Marine Biological Laboratory
(to A.P.), and EMBO-YIP funds (to A.P.). This work was supported by the European
Union (European Research Council Starting Grant 851288 to E.H.). For the purpose
of Open Access, the authors have applied a CC BY public copyright license to any
Author Accepted Manuscript (AAM) version arising from this submission.'
article_number: eadd2488
article_processing_charge: No
article_type: original
author:
- first_name: Jessica
full_name: Stock, Jessica
last_name: Stock
- first_name: Tomas
full_name: Kazmar, Tomas
last_name: Kazmar
- first_name: Friederike
full_name: Schlumm, Friederike
last_name: Schlumm
- 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: Andrea
full_name: Pauli, Andrea
last_name: Pauli
citation:
ama: Stock J, Kazmar T, Schlumm F, Hannezo EB, Pauli A. A self-generated Toddler
gradient guides mesodermal cell migration. Science Advances. 2022;8(37).
doi:10.1126/sciadv.add2488
apa: Stock, J., Kazmar, T., Schlumm, F., Hannezo, E. B., & Pauli, A. (2022).
A self-generated Toddler gradient guides mesodermal cell migration. Science
Advances. American Association for the Advancement of Science. https://doi.org/10.1126/sciadv.add2488
chicago: Stock, Jessica, Tomas Kazmar, Friederike Schlumm, Edouard B Hannezo, and
Andrea Pauli. “A Self-Generated Toddler Gradient Guides Mesodermal Cell Migration.”
Science Advances. American Association for the Advancement of Science,
2022. https://doi.org/10.1126/sciadv.add2488.
ieee: J. Stock, T. Kazmar, F. Schlumm, E. B. Hannezo, and A. Pauli, “A self-generated
Toddler gradient guides mesodermal cell migration,” Science Advances, vol.
8, no. 37. American Association for the Advancement of Science, 2022.
ista: Stock J, Kazmar T, Schlumm F, Hannezo EB, Pauli A. 2022. A self-generated
Toddler gradient guides mesodermal cell migration. Science Advances. 8(37), eadd2488.
mla: Stock, Jessica, et al. “A Self-Generated Toddler Gradient Guides Mesodermal
Cell Migration.” Science Advances, vol. 8, no. 37, eadd2488, American Association
for the Advancement of Science, 2022, doi:10.1126/sciadv.add2488.
short: J. Stock, T. Kazmar, F. Schlumm, E.B. Hannezo, A. Pauli, Science Advances
8 (2022).
date_created: 2023-01-16T09:57:10Z
date_published: 2022-09-14T00:00:00Z
date_updated: 2025-04-14T07:52:27Z
day: '14'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1126/sciadv.add2488
ec_funded: 1
external_id:
isi:
- '000888875000009'
pmid:
- '36103529'
file:
- access_level: open_access
checksum: f59cdb824e5d4221045def81f46f6c65
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T09:27:49Z
date_updated: 2023-01-30T09:27:49Z
file_id: '12444'
file_name: 2022_ScienceAdvances_Stock.pdf
file_size: 1636732
relation: main_file
success: 1
file_date_updated: 2023-01-30T09:27:49Z
fulldoi: https://doi.org/10.1126/sciadv.add2488
has_accepted_license: '1'
intvolume: ' 8'
isi: 1
issue: '37'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
publication: Science Advances
publication_identifier:
issn:
- 2375-2548
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: A self-generated Toddler gradient guides mesodermal cell migration
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 8
year: '2022'
...
---
_id: '12274'
abstract:
- lang: eng
text: The morphology and functionality of the epithelial lining differ along the
intestinal tract, but tissue renewal at all sites is driven by stem cells at the
base of crypts1,2,3. Whether stem cell numbers and behaviour vary at different
sites is unknown. Here we show using intravital microscopy that, despite similarities
in the number and distribution of proliferative cells with an Lgr5 signature in
mice, small intestinal crypts contain twice as many effective stem cells as large
intestinal crypts. We find that, although passively displaced by a conveyor-belt-like
upward movement, small intestinal cells positioned away from the crypt base can
function as long-term effective stem cells owing to Wnt-dependent retrograde cellular
movement. By contrast, the near absence of retrograde movement in the large intestine
restricts cell repositioning, leading to a reduction in effective stem cell number.
Moreover, after suppression of the retrograde movement in the small intestine,
the number of effective stem cells is reduced, and the rate of monoclonal conversion
of crypts is accelerated. Together, these results show that the number of effective
stem cells is determined by active retrograde movement, revealing a new channel
of stem cell regulation that can be experimentally and pharmacologically manipulated.
acknowledgement: We thank the members of the van Rheenen laboratory for reading the
manuscript, and the members of the bioimaging, FACS and animal facility of the NKI
for experimental support. We acknowledge the staff at the MedH Flow Cytometry core
facility, Karolinska Institutet, and LCI facility/Nikon Center of Excellence, Karolinska
Institutet. This work was financially supported by the Netherlands Organization
of Scientific Research NWO (Veni grant 863.15.011 to S.I.J.E. and Vici grant 09150182110004
to J.v.R.) and the CancerGenomics.nl (Netherlands Organisation for Scientific Research)
program (to J.v.R.) the Doctor Josef Steiner Foundation (to J.v.R). B.D.S. acknowledges
funding from the Royal Society E.P. Abraham Research Professorship (RP\R1\180165)
and the Wellcome Trust (098357/Z/12/Z and 219478/Z/19/Z). B.C.-M. acknowledges the
support of the field of excellence ‘Complexity of life in basic research and innovation’
of the University of Graz. O.J.S. and their laboratory acknowledge CRUK core funding
to the CRUK Beatson Institute (A17196 and A31287) and CRUK core funding to the Sansom
laboratory (A21139). P.K. and their laboratory are supported by grants from the
Swedish Research Council (2018-03078), Cancerfonden (190634), Academy of Finland
Centre of Excellence (266869, 304591 and 320185) and the Jane and Aatos Erkko Foundation.
P.L. has received funding from the European Research Council (ERC) under the European
Union’s Horizon 2020 research and innovation programme (grant agreement no. 758617).
E.H. acknowledges funding from the European Research Council (ERC) under the European
Union’s Horizon 2020 research and innovation programme (grant agreement no. 851288).
article_processing_charge: No
article_type: original
author:
- first_name: Maria
full_name: Azkanaz, Maria
last_name: Azkanaz
- first_name: Bernat
full_name: Corominas-Murtra, Bernat
id: 43BE2298-F248-11E8-B48F-1D18A9856A87
last_name: Corominas-Murtra
orcid: 0000-0001-9806-5643
- first_name: Saskia I. J.
full_name: Ellenbroek, Saskia I. J.
last_name: Ellenbroek
- first_name: Lotte
full_name: Bruens, Lotte
last_name: Bruens
- first_name: Anna T.
full_name: Webb, Anna T.
last_name: Webb
- first_name: Dimitrios
full_name: Laskaris, Dimitrios
last_name: Laskaris
- first_name: Koen C.
full_name: Oost, Koen C.
last_name: Oost
- first_name: Simona J. A.
full_name: Lafirenze, Simona J. A.
last_name: Lafirenze
- first_name: Karl
full_name: Annusver, Karl
last_name: Annusver
- first_name: Hendrik A.
full_name: Messal, Hendrik A.
last_name: Messal
- first_name: Sharif
full_name: Iqbal, Sharif
last_name: Iqbal
- first_name: Dustin J.
full_name: Flanagan, Dustin J.
last_name: Flanagan
- first_name: David J.
full_name: Huels, David J.
last_name: Huels
- first_name: Felipe
full_name: Rojas-Rodríguez, Felipe
last_name: Rojas-Rodríguez
- first_name: Miguel
full_name: Vizoso, Miguel
last_name: Vizoso
- first_name: Maria
full_name: Kasper, Maria
last_name: Kasper
- first_name: Owen J.
full_name: Sansom, Owen J.
last_name: Sansom
- first_name: Hugo J.
full_name: Snippert, Hugo J.
last_name: Snippert
- first_name: Prisca
full_name: Liberali, Prisca
last_name: Liberali
- first_name: Benjamin D.
full_name: Simons, Benjamin D.
last_name: Simons
- first_name: Pekka
full_name: Katajisto, Pekka
last_name: Katajisto
- 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: Jacco
full_name: van Rheenen, Jacco
last_name: van Rheenen
citation:
ama: Azkanaz M, Corominas-Murtra B, Ellenbroek SIJ, et al. Retrograde movements
determine effective stem cell numbers in the intestine. Nature. 2022;607(7919):548-554.
doi:10.1038/s41586-022-04962-0
apa: Azkanaz, M., Corominas-Murtra, B., Ellenbroek, S. I. J., Bruens, L., Webb,
A. T., Laskaris, D., … van Rheenen, J. (2022). Retrograde movements determine
effective stem cell numbers in the intestine. Nature. Springer Nature.
https://doi.org/10.1038/s41586-022-04962-0
chicago: Azkanaz, Maria, Bernat Corominas-Murtra, Saskia I. J. Ellenbroek, Lotte
Bruens, Anna T. Webb, Dimitrios Laskaris, Koen C. Oost, et al. “Retrograde Movements
Determine Effective Stem Cell Numbers in the Intestine.” Nature. Springer
Nature, 2022. https://doi.org/10.1038/s41586-022-04962-0.
ieee: M. Azkanaz et al., “Retrograde movements determine effective stem cell
numbers in the intestine,” Nature, vol. 607, no. 7919. Springer Nature,
pp. 548–554, 2022.
ista: Azkanaz M, Corominas-Murtra B, Ellenbroek SIJ, Bruens L, Webb AT, Laskaris
D, Oost KC, Lafirenze SJA, Annusver K, Messal HA, Iqbal S, Flanagan DJ, Huels
DJ, Rojas-Rodríguez F, Vizoso M, Kasper M, Sansom OJ, Snippert HJ, Liberali P,
Simons BD, Katajisto P, Hannezo EB, van Rheenen J. 2022. Retrograde movements
determine effective stem cell numbers in the intestine. Nature. 607(7919), 548–554.
mla: Azkanaz, Maria, et al. “Retrograde Movements Determine Effective Stem Cell
Numbers in the Intestine.” Nature, vol. 607, no. 7919, Springer Nature,
2022, pp. 548–54, doi:10.1038/s41586-022-04962-0.
short: M. Azkanaz, B. Corominas-Murtra, S.I.J. Ellenbroek, L. Bruens, A.T. Webb,
D. Laskaris, K.C. Oost, S.J.A. Lafirenze, K. Annusver, H.A. Messal, S. Iqbal,
D.J. Flanagan, D.J. Huels, F. Rojas-Rodríguez, M. Vizoso, M. Kasper, O.J. Sansom,
H.J. Snippert, P. Liberali, B.D. Simons, P. Katajisto, E.B. Hannezo, J. van Rheenen,
Nature 607 (2022) 548–554.
corr_author: '1'
date_created: 2023-01-16T10:01:29Z
date_published: 2022-07-13T00:00:00Z
date_updated: 2025-04-14T07:52:27Z
day: '13'
department:
- _id: EdHa
doi: 10.1038/s41586-022-04962-0
ec_funded: 1
external_id:
isi:
- '000824430000004'
pmid:
- '35831497'
fulldoi: https://doi.org/10.1038/s41586-022-04962-0
intvolume: ' 607'
isi: 1
issue: '7919'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://helda.helsinki.fi/items/94433455-4854-45c0-9de8-7326caea8780
month: '07'
oa: 1
oa_version: Submitted Version
page: 548-554
pmid: 1
project:
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/JaccovanRheenenLab/Retrograde_movement_Azkanaz_Nature_2022
scopus_import: '1'
status: public
title: Retrograde movements determine effective stem cell numbers in the intestine
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 607
year: '2022'
...
---
_id: '12277'
abstract:
- lang: eng
text: Cell migration in confining physiological environments relies on the concerted
dynamics of several cellular components, including protrusions, adhesions with
the environment, and the cell nucleus. However, it remains poorly understood how
the dynamic interplay of these components and the cell polarity determine the
emergent migration behavior at the cellular scale. Here, we combine data-driven
inference with a mechanistic bottom-up approach to develop a model for protrusion
and polarity dynamics in confined cell migration, revealing how the cellular dynamics
adapt to confining geometries. Specifically, we use experimental data of joint
protrusion-nucleus migration trajectories of cells on confining micropatterns
to systematically determine a mechanistic model linking the stochastic dynamics
of cell polarity, protrusions, and nucleus. This model indicates that the cellular
dynamics adapt to confining constrictions through a switch in the polarity dynamics
from a negative to a positive self-reinforcing feedback loop. Our model further
reveals how this feedback loop leads to stereotypical cycles of protrusion-nucleus
dynamics that drive the migration of the cell through constrictions. These cycles
are disrupted upon perturbation of cytoskeletal components, indicating that the
positive feedback is controlled by cellular migration mechanisms. Our data-driven
theoretical approach therefore identifies polarity feedback adaptation as a key
mechanism in confined cell migration.
acknowledgement: "We thank Grzegorz Gradziuk, StevenRiedijk, Janni Harju, and M. R.
Schnucki for helpful discussions, and Andriy Goychuk for advice on the image segmentation.
This project\r\nwas funded by the Deutsche Forschungsgemeinschaft (DFG, German Research
Foundation), Project No. 201269156—SFB 1032 (Projects B01 and B12). D. B. B. is
supported by the NOMIS Foundation and in part by a DFG fellowship within the Graduate
School of Quantitative Biosciences Munich (QBM), as well as by the Joachim Herz
Stiftung."
article_number: '031041'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: David
full_name: Brückner, David
id: e1e86031-6537-11eb-953a-f7ab92be508d
last_name: Brückner
orcid: 0000-0001-7205-2975
- first_name: Matthew
full_name: Schmitt, Matthew
last_name: Schmitt
- first_name: Alexandra
full_name: Fink, Alexandra
last_name: Fink
- first_name: Georg
full_name: Ladurner, Georg
last_name: Ladurner
- first_name: Johannes
full_name: Flommersfeld, Johannes
last_name: Flommersfeld
- first_name: Nicolas
full_name: Arlt, Nicolas
last_name: Arlt
- 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: Joachim O.
full_name: Rädler, Joachim O.
last_name: Rädler
- first_name: Chase P.
full_name: Broedersz, Chase P.
last_name: Broedersz
citation:
ama: Brückner D, Schmitt M, Fink A, et al. Geometry adaptation of protrusion and
polarity dynamics in confined cell migration. Physical Review X. 2022;12(3).
doi:10.1103/physrevx.12.031041
apa: Brückner, D., Schmitt, M., Fink, A., Ladurner, G., Flommersfeld, J., Arlt,
N., … Broedersz, C. P. (2022). Geometry adaptation of protrusion and polarity
dynamics in confined cell migration. Physical Review X. American Physical
Society. https://doi.org/10.1103/physrevx.12.031041
chicago: Brückner, David, Matthew Schmitt, Alexandra Fink, Georg Ladurner, Johannes
Flommersfeld, Nicolas Arlt, Edouard B Hannezo, Joachim O. Rädler, and Chase P.
Broedersz. “Geometry Adaptation of Protrusion and Polarity Dynamics in Confined
Cell Migration.” Physical Review X. American Physical Society, 2022. https://doi.org/10.1103/physrevx.12.031041.
ieee: D. Brückner et al., “Geometry adaptation of protrusion and polarity
dynamics in confined cell migration,” Physical Review X, vol. 12, no. 3.
American Physical Society, 2022.
ista: Brückner D, Schmitt M, Fink A, Ladurner G, Flommersfeld J, Arlt N, Hannezo
EB, Rädler JO, Broedersz CP. 2022. Geometry adaptation of protrusion and polarity
dynamics in confined cell migration. Physical Review X. 12(3), 031041.
mla: Brückner, David, et al. “Geometry Adaptation of Protrusion and Polarity Dynamics
in Confined Cell Migration.” Physical Review X, vol. 12, no. 3, 031041,
American Physical Society, 2022, doi:10.1103/physrevx.12.031041.
short: D. Brückner, M. Schmitt, A. Fink, G. Ladurner, J. Flommersfeld, N. Arlt,
E.B. Hannezo, J.O. Rädler, C.P. Broedersz, Physical Review X 12 (2022).
date_created: 2023-01-16T10:02:06Z
date_published: 2022-09-20T00:00:00Z
date_updated: 2023-08-04T10:25:49Z
day: '20'
ddc:
- '530'
- '570'
department:
- _id: EdHa
doi: 10.1103/physrevx.12.031041
external_id:
arxiv:
- '2106.01014'
isi:
- '000861534700001'
file:
- access_level: open_access
checksum: 40a8fbc3663bf07b37cb80020974d40d
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T11:07:27Z
date_updated: 2023-01-30T11:07:27Z
file_id: '12458'
file_name: 2022_PhysicalReviewX_Brueckner.pdf
file_size: 4686804
relation: main_file
success: 1
file_date_updated: 2023-01-30T11:07:27Z
fulldoi: https://doi.org/10.1103/physrevx.12.031041
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '3'
keyword:
- General Physics and Astronomy
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
publication: Physical Review X
publication_identifier:
issn:
- 2160-3308
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Geometry adaptation of protrusion and polarity dynamics in confined cell migration
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 12
year: '2022'
...
---
_id: '10530'
abstract:
- lang: eng
text: "Cell dispersion from a confined area is fundamental in a number of biological
processes,\r\nincluding cancer metastasis. To date, a quantitative understanding
of the interplay of single\r\ncell motility, cell proliferation, and intercellular
contacts remains elusive. In particular, the role\r\nof E- and N-Cadherin junctions,
central components of intercellular contacts, is still\r\ncontroversial. Combining
theoretical modeling with in vitro observations, we investigate the\r\ncollective
spreading behavior of colonies of human cancer cells (T24). The spreading of these\r\ncolonies
is driven by stochastic single-cell migration with frequent transient cell-cell
contacts.\r\nWe find that inhibition of E- and N-Cadherin junctions decreases
colony spreading and average\r\nspreading velocities, without affecting the strength
of correlations in spreading velocities of\r\nneighboring cells. Based on a biophysical
simulation model for cell migration, we show that the\r\nbehavioral changes upon
disruption of these junctions can be explained by reduced repulsive\r\nexcluded
volume interactions between cells. This suggests that in cancer cell migration,\r\ncadherin-based
intercellular contacts sharpen cell boundaries leading to repulsive rather than\r\ncohesive
interactions between cells, thereby promoting efficient cell spreading during
collective\r\nmigration.\r\n"
acknowledgement: Funded by the Deutsche Forschungsgemeinschaft (DFG, German Research
Foundation) - Project-ID 201269156 - SFB 1032 (Projects B8 and B12). D.B.B. is supported
in part by a DFG fellowship within the Graduate School of Quantitative Biosciences
Munich (QBM) and by the Joachim Herz Stiftung.
article_processing_charge: No
article_type: original
author:
- first_name: Themistoklis
full_name: Zisis, Themistoklis
last_name: Zisis
- first_name: David
full_name: Brückner, David
id: e1e86031-6537-11eb-953a-f7ab92be508d
last_name: Brückner
orcid: 0000-0001-7205-2975
- first_name: Tom
full_name: Brandstätter, Tom
last_name: Brandstätter
- first_name: Wei Xiong
full_name: Siow, Wei Xiong
last_name: Siow
- first_name: Joseph
full_name: d’Alessandro, Joseph
last_name: d’Alessandro
- first_name: Angelika M.
full_name: Vollmar, Angelika M.
last_name: Vollmar
- first_name: Chase P.
full_name: Broedersz, Chase P.
last_name: Broedersz
- first_name: Stefan
full_name: Zahler, Stefan
last_name: Zahler
citation:
ama: Zisis T, Brückner D, Brandstätter T, et al. Disentangling cadherin-mediated
cell-cell interactions in collective cancer cell migration. Biophysical Journal.
2022;121(1):P44-60. doi:10.1016/j.bpj.2021.12.006
apa: Zisis, T., Brückner, D., Brandstätter, T., Siow, W. X., d’Alessandro, J., Vollmar,
A. M., … Zahler, S. (2022). Disentangling cadherin-mediated cell-cell interactions
in collective cancer cell migration. Biophysical Journal. Elsevier. https://doi.org/10.1016/j.bpj.2021.12.006
chicago: Zisis, Themistoklis, David Brückner, Tom Brandstätter, Wei Xiong Siow,
Joseph d’Alessandro, Angelika M. Vollmar, Chase P. Broedersz, and Stefan Zahler.
“Disentangling Cadherin-Mediated Cell-Cell Interactions in Collective Cancer Cell
Migration.” Biophysical Journal. Elsevier, 2022. https://doi.org/10.1016/j.bpj.2021.12.006.
ieee: T. Zisis et al., “Disentangling cadherin-mediated cell-cell interactions
in collective cancer cell migration,” Biophysical Journal, vol. 121, no.
1. Elsevier, pp. P44-60, 2022.
ista: Zisis T, Brückner D, Brandstätter T, Siow WX, d’Alessandro J, Vollmar AM,
Broedersz CP, Zahler S. 2022. Disentangling cadherin-mediated cell-cell interactions
in collective cancer cell migration. Biophysical Journal. 121(1), P44-60.
mla: Zisis, Themistoklis, et al. “Disentangling Cadherin-Mediated Cell-Cell Interactions
in Collective Cancer Cell Migration.” Biophysical Journal, vol. 121, no.
1, Elsevier, 2022, pp. P44-60, doi:10.1016/j.bpj.2021.12.006.
short: T. Zisis, D. Brückner, T. Brandstätter, W.X. Siow, J. d’Alessandro, A.M.
Vollmar, C.P. Broedersz, S. Zahler, Biophysical Journal 121 (2022) P44-60.
date_created: 2021-12-10T09:48:19Z
date_published: 2022-01-04T00:00:00Z
date_updated: 2025-06-11T13:59:29Z
day: '04'
ddc:
- '570'
department:
- _id: EdHa
- _id: GaTk
doi: 10.1016/j.bpj.2021.12.006
external_id:
isi:
- '000740815400007'
pmid:
- '34890578'
file:
- access_level: open_access
checksum: 1aa7c3478e0c8256b973b632efd1f6b4
content_type: application/pdf
creator: dernst
date_created: 2022-07-29T10:17:10Z
date_updated: 2022-07-29T10:17:10Z
file_id: '11697'
file_name: 2022_BiophysicalJour_Zisis.pdf
file_size: 4475504
relation: main_file
success: 1
file_date_updated: 2022-07-29T10:17:10Z
fulldoi: https://doi.org/10.1016/j.bpj.2021.12.006
has_accepted_license: '1'
intvolume: ' 121'
isi: 1
issue: '1'
keyword:
- Biophysics
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: P44-60
pmid: 1
project:
- _id: 9B861AAC-BA93-11EA-9121-9846C619BF3A
name: NOMIS Fellowship Program
publication: Biophysical Journal
publication_identifier:
issn:
- 0006-3495
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Disentangling cadherin-mediated cell-cell interactions in collective cancer
cell 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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 121
year: '2022'
...
---
_id: '10705'
abstract:
- lang: eng
text: Although rigidity and jamming transitions have been widely studied in physics
and material science, their importance in a number of biological processes, including
embryo development, tissue homeostasis, wound healing, and disease progression,
has only begun to be recognized in the past few years. The hypothesis that biological
systems can undergo rigidity/jamming transitions is attractive, as it would allow
these systems to change their material properties rapidly and strongly. However,
whether such transitions indeed occur in biological systems, how they are being
regulated, and what their physiological relevance might be, is still being debated.
Here, we review theoretical and experimental advances from the past few years,
focusing on the regulation and role of potential tissue rigidity transitions in
different biological processes.
acknowledgement: We thank present and former members of the Heisenberg and Hannezo
groups, in particular Bernat Corominas-Murtra and Nicoletta Petridou, for helpful
discussions, and Claudia Flandoli for the artwork. We apologize for not being able
to cite a number of highly relevant studies, to stay within the maximum allowed
number of citations.
article_processing_charge: No
article_type: original
author:
- 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: 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: Hannezo EB, Heisenberg C-PJ. Rigidity transitions in development and disease.
Trends in Cell Biology. 2022;32(5):P433-444. doi:10.1016/j.tcb.2021.12.006
apa: Hannezo, E. B., & Heisenberg, C.-P. J. (2022). Rigidity transitions in
development and disease. Trends in Cell Biology. Cell Press. https://doi.org/10.1016/j.tcb.2021.12.006
chicago: Hannezo, Edouard B, and Carl-Philipp J Heisenberg. “Rigidity Transitions
in Development and Disease.” Trends in Cell Biology. Cell Press, 2022.
https://doi.org/10.1016/j.tcb.2021.12.006.
ieee: E. B. Hannezo and C.-P. J. Heisenberg, “Rigidity transitions in development
and disease,” Trends in Cell Biology, vol. 32, no. 5. Cell Press, pp. P433-444,
2022.
ista: Hannezo EB, Heisenberg C-PJ. 2022. Rigidity transitions in development and
disease. Trends in Cell Biology. 32(5), P433-444.
mla: Hannezo, Edouard B., and Carl-Philipp J. Heisenberg. “Rigidity Transitions
in Development and Disease.” Trends in Cell Biology, vol. 32, no. 5, Cell
Press, 2022, pp. P433-444, doi:10.1016/j.tcb.2021.12.006.
short: E.B. Hannezo, C.-P.J. Heisenberg, Trends in Cell Biology 32 (2022) P433-444.
corr_author: '1'
date_created: 2022-01-30T23:01:34Z
date_published: 2022-05-01T00:00:00Z
date_updated: 2024-10-09T21:01:30Z
day: '01'
department:
- _id: EdHa
- _id: CaHe
doi: 10.1016/j.tcb.2021.12.006
external_id:
isi:
- '000795773900009'
pmid:
- '35058104'
fulldoi: https://doi.org/10.1016/j.tcb.2021.12.006
intvolume: ' 32'
isi: 1
issue: '5'
language:
- iso: eng
month: '05'
oa_version: None
page: P433-444
pmid: 1
publication: Trends in Cell Biology
publication_identifier:
eissn:
- 1879-3088
issn:
- 0962-8924
publication_status: published
publisher: Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Rigidity transitions in development and disease
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 32
year: '2022'
...
---
_id: '9794'
abstract:
- lang: eng
text: 'Lymph nodes (LNs) comprise two main structural elements: fibroblastic reticular
cells that form dedicated niches for immune cell interaction and capsular fibroblasts
that build a shell around the organ. Immunological challenge causes LNs to increase
more than tenfold in size within a few days. Here, we characterized the biomechanics
of LN swelling on the cellular and organ scale. We identified lymphocyte trapping
by influx and proliferation as drivers of an outward pressure force, causing fibroblastic
reticular cells of the T-zone (TRCs) and their associated conduits to stretch.
After an initial phase of relaxation, TRCs sensed the resulting strain through
cell matrix adhesions, which coordinated local growth and remodeling of the stromal
network. While the expanded TRC network readopted its typical configuration, a
massive fibrotic reaction of the organ capsule set in and countered further organ
expansion. Thus, different fibroblast populations mechanically control LN swelling
in a multitier fashion.'
acknowledged_ssus:
- _id: Bio
- _id: EM-Fac
- _id: PreCl
- _id: LifeSc
acknowledgement: This research was supported by the Scientific Service Units of IST
Austria through resources provided by the Imaging and Optics, Electron Microscopy,
Preclinical and Life Science Facilities. We thank C. Moussion for providing anti-PNAd
antibody and D. Critchley for Talin1-floxed mice, and E. Papusheva for providing
a custom 3D channel alignment script. This work was supported by a European Research
Council grant ERC-CoG-72437 to M.S. M.H. was supported by Czech Sciencundation GACR
20-24603Y and Charles University PRIMUS/20/MED/013.
article_processing_charge: No
article_type: original
author:
- first_name: Frank P
full_name: Assen, Frank P
id: 3A8E7F24-F248-11E8-B48F-1D18A9856A87
last_name: Assen
orcid: 0000-0003-3470-6119
- first_name: Jun
full_name: Abe, Jun
last_name: Abe
- first_name: Miroslav
full_name: Hons, Miroslav
id: 4167FE56-F248-11E8-B48F-1D18A9856A87
last_name: Hons
orcid: 0000-0002-6625-3348
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Shayan
full_name: Shamipour, Shayan
id: 40B34FE2-F248-11E8-B48F-1D18A9856A87
last_name: Shamipour
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Tommaso
full_name: Costanzo, Tommaso
id: D93824F4-D9BA-11E9-BB12-F207E6697425
last_name: Costanzo
orcid: 0000-0001-9732-3815
- first_name: Gabriel
full_name: Krens, Gabriel
id: 2B819732-F248-11E8-B48F-1D18A9856A87
last_name: Krens
orcid: 0000-0003-4761-5996
- first_name: Markus
full_name: Brown, Markus
id: 3DAB9AFC-F248-11E8-B48F-1D18A9856A87
last_name: Brown
- first_name: Burkhard
full_name: Ludewig, Burkhard
last_name: Ludewig
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- 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
- first_name: Wolfgang
full_name: Weninger, Wolfgang
last_name: Weninger
- 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: Sanjiv A.
full_name: Luther, Sanjiv A.
last_name: Luther
- first_name: Jens V.
full_name: Stein, Jens V.
last_name: Stein
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-4561-241X
citation:
ama: Assen FP, Abe J, Hons M, et al. Multitier mechanics control stromal adaptations
in swelling lymph nodes. Nature Immunology. 2022;23:1246-1255. doi:10.1038/s41590-022-01257-4
apa: Assen, F. P., Abe, J., Hons, M., Hauschild, R., Shamipour, S., Kaufmann, W.,
… Sixt, M. K. (2022). Multitier mechanics control stromal adaptations in swelling
lymph nodes. Nature Immunology. Springer Nature. https://doi.org/10.1038/s41590-022-01257-4
chicago: Assen, Frank P, Jun Abe, Miroslav Hons, Robert Hauschild, Shayan Shamipour,
Walter Kaufmann, Tommaso Costanzo, et al. “Multitier Mechanics Control Stromal
Adaptations in Swelling Lymph Nodes.” Nature Immunology. Springer Nature,
2022. https://doi.org/10.1038/s41590-022-01257-4.
ieee: F. P. Assen et al., “Multitier mechanics control stromal adaptations
in swelling lymph nodes,” Nature Immunology, vol. 23. Springer Nature,
pp. 1246–1255, 2022.
ista: Assen FP, Abe J, Hons M, Hauschild R, Shamipour S, Kaufmann W, Costanzo T,
Krens G, Brown M, Ludewig B, Hippenmeyer S, Heisenberg C-PJ, Weninger W, Hannezo
EB, Luther SA, Stein JV, Sixt MK. 2022. Multitier mechanics control stromal adaptations
in swelling lymph nodes. Nature Immunology. 23, 1246–1255.
mla: Assen, Frank P., et al. “Multitier Mechanics Control Stromal Adaptations in
Swelling Lymph Nodes.” Nature Immunology, vol. 23, Springer Nature, 2022,
pp. 1246–55, doi:10.1038/s41590-022-01257-4.
short: F.P. Assen, J. Abe, M. Hons, R. Hauschild, S. Shamipour, W. Kaufmann, T.
Costanzo, G. Krens, M. Brown, B. Ludewig, S. Hippenmeyer, C.-P.J. Heisenberg,
W. Weninger, E.B. Hannezo, S.A. Luther, J.V. Stein, M.K. Sixt, Nature Immunology
23 (2022) 1246–1255.
corr_author: '1'
date_created: 2021-08-06T09:09:11Z
date_published: 2022-07-11T00:00:00Z
date_updated: 2025-06-11T13:52:43Z
day: '11'
ddc:
- '570'
department:
- _id: SiHi
- _id: CaHe
- _id: EdHa
- _id: EM-Fac
- _id: Bio
- _id: MiSi
doi: 10.1038/s41590-022-01257-4
ec_funded: 1
external_id:
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page: 1246-1255
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project:
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call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
publication: Nature Immunology
publication_identifier:
eissn:
- 1529-2916
issn:
- 1529-2908
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Multitier mechanics control stromal adaptations in swelling lymph nodes
tmp:
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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
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year: '2022'
...
---
_id: '13058'
abstract:
- lang: eng
text: The zip file includes source data used in the main text of the manuscript
"Theory of branching morphogenesis by local interactions and global guidance",
as well as a representative Jupyter notebook to reproduce the main figures. A
sample script for the simulations of branching and annihilating random walks is
also included (Sample_script_for_simulations_of_BARWs.ipynb) to generate exemplary
branched networks under external guidance. A detailed description of the simulation
setup is provided in the supplementary information of the manuscipt.
article_processing_charge: No
author:
- first_name: Mehmet C
full_name: Ucar, Mehmet C
id: 50B2A802-6007-11E9-A42B-EB23E6697425
last_name: Ucar
orcid: 0000-0003-0506-4217
citation:
ama: Ucar MC. Source data for the manuscript “Theory of branching morphogenesis
by local interactions and global guidance.” 2021. doi:10.5281/ZENODO.5257160
apa: Ucar, M. C. (2021). Source data for the manuscript “Theory of branching morphogenesis
by local interactions and global guidance.” Zenodo. https://doi.org/10.5281/ZENODO.5257160
chicago: Ucar, Mehmet C. “Source Data for the Manuscript ‘Theory of Branching Morphogenesis
by Local Interactions and Global Guidance.’” Zenodo, 2021. https://doi.org/10.5281/ZENODO.5257160.
ieee: M. C. Ucar, “Source data for the manuscript ‘Theory of branching morphogenesis
by local interactions and global guidance.’” Zenodo, 2021.
ista: Ucar MC. 2021. Source data for the manuscript ‘Theory of branching morphogenesis
by local interactions and global guidance’, Zenodo, 10.5281/ZENODO.5257160.
mla: Ucar, Mehmet C. Source Data for the Manuscript “Theory of Branching Morphogenesis
by Local Interactions and Global Guidance.” Zenodo, 2021, doi:10.5281/ZENODO.5257160.
short: M.C. Ucar, (2021).
corr_author: '1'
date_created: 2023-05-23T13:46:34Z
date_published: 2021-08-25T00:00:00Z
date_updated: 2025-04-15T06:54:54Z
day: '25'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.5281/ZENODO.5257160
fulldoi: https://doi.org/10.5281/ZENODO.5257160
main_file_link:
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url: https://doi.org/10.5281/zenodo.5257161
month: '08'
oa: 1
oa_version: Published Version
publisher: Zenodo
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status: public
title: Source data for the manuscript "Theory of branching morphogenesis by local
interactions and global guidance"
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type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '13068'
abstract:
- lang: eng
text: Source data and source code for the graphs in "Spatiotemporal dynamics of
self-organized branching pancreatic cancer-derived organoids".
article_processing_charge: No
author:
- first_name: Samuel
full_name: Randriamanantsoa, Samuel
last_name: Randriamanantsoa
- first_name: Aristeidis
full_name: Papargyriou, Aristeidis
last_name: Papargyriou
- first_name: Carlo
full_name: Maurer, Carlo
last_name: Maurer
- first_name: Katja
full_name: Peschke, Katja
last_name: Peschke
- first_name: Maximilian
full_name: Schuster, Maximilian
last_name: Schuster
- first_name: Giulia
full_name: Zecchin, Giulia
last_name: Zecchin
- first_name: Katja
full_name: Steiger, Katja
last_name: Steiger
- first_name: Rupert
full_name: Öllinger, Rupert
last_name: Öllinger
- first_name: Dieter
full_name: Saur, Dieter
last_name: Saur
- first_name: Christina
full_name: Scheel, Christina
last_name: Scheel
- first_name: Roland
full_name: Rad, Roland
last_name: Rad
- 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: Maximilian
full_name: Reichert, Maximilian
last_name: Reichert
- first_name: Andreas R.
full_name: Bausch, Andreas R.
last_name: Bausch
citation:
ama: Randriamanantsoa S, Papargyriou A, Maurer C, et al. Spatiotemporal dynamics
of self-organized branching in pancreas-derived organoids. 2021. doi:10.5281/ZENODO.5148117
apa: Randriamanantsoa, S., Papargyriou, A., Maurer, C., Peschke, K., Schuster, M.,
Zecchin, G., … Bausch, A. R. (2021). Spatiotemporal dynamics of self-organized
branching in pancreas-derived organoids. Zenodo. https://doi.org/10.5281/ZENODO.5148117
chicago: Randriamanantsoa, Samuel, Aristeidis Papargyriou, Carlo Maurer, Katja Peschke,
Maximilian Schuster, Giulia Zecchin, Katja Steiger, et al. “Spatiotemporal Dynamics
of Self-Organized Branching in Pancreas-Derived Organoids.” Zenodo, 2021. https://doi.org/10.5281/ZENODO.5148117.
ieee: S. Randriamanantsoa et al., “Spatiotemporal dynamics of self-organized
branching in pancreas-derived organoids.” Zenodo, 2021.
ista: Randriamanantsoa S, Papargyriou A, Maurer C, Peschke K, Schuster M, Zecchin
G, Steiger K, Öllinger R, Saur D, Scheel C, Rad R, Hannezo EB, Reichert M, Bausch
AR. 2021. Spatiotemporal dynamics of self-organized branching in pancreas-derived
organoids, Zenodo, 10.5281/ZENODO.5148117.
mla: Randriamanantsoa, Samuel, et al. Spatiotemporal Dynamics of Self-Organized
Branching in Pancreas-Derived Organoids. Zenodo, 2021, doi:10.5281/ZENODO.5148117.
short: S. Randriamanantsoa, A. Papargyriou, C. Maurer, K. Peschke, M. Schuster,
G. Zecchin, K. Steiger, R. Öllinger, D. Saur, C. Scheel, R. Rad, E.B. Hannezo,
M. Reichert, A.R. Bausch, (2021).
date_created: 2023-05-23T16:39:24Z
date_published: 2021-07-30T00:00:00Z
date_updated: 2025-06-11T13:53:54Z
day: '30'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.5281/ZENODO.5148117
fulldoi: https://doi.org/10.5281/ZENODO.5148117
main_file_link:
- open_access: '1'
url: https://doi.org/10.5281/zenodo.6577226
month: '07'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
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relation: used_in_publication
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status: public
title: Spatiotemporal dynamics of self-organized branching in pancreas-derived organoids
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
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type: research_data_reference
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year: '2021'
...
---
_id: '10178'
abstract:
- lang: eng
text: In dense biological tissues, cell types performing different roles remain
segregated by maintaining sharp interfaces. To better understand the mechanisms
for such sharp compartmentalization, we study the effect of an imposed heterotypic
tension at the interface between two distinct cell types in a fully 3D Voronoi
model for confluent tissues. We find that cells rapidly sort and self-organize
to generate a tissue-scale interface between cell types, and cells adjacent to
this interface exhibit signature geometric features including nematic-like ordering,
bimodal facet areas, and registration, or alignment, of cell centers on either
side of the two-tissue interface. The magnitude of these features scales directly
with the magnitude of the imposed tension, suggesting that biologists can estimate
the magnitude of tissue surface tension between two tissue types simply by segmenting
a 3D tissue. To uncover the underlying physical mechanisms driving these geometric
features, we develop two minimal, ordered models using two different underlying
lattices that identify an energetic competition between bulk cell shapes and tissue
interface area. When the interface area dominates, changes to neighbor topology
are costly and occur less frequently, which generates the observed geometric features.
acknowledgement: "We thank Paula Sanematsu, Matthias Merkel, Daniel Sussman, Cristina
Marchetti and Edouard Hannezo for helpful discussions, and M Merkel for developing
and sharing the original version of the 3D Voronoi code. This work was primarily
funded by NSF-PHY-1607416, NSF-PHY-2014192 , and are in the division of physics
at the National Science Foundation. PS and MLM acknowledge additional support from
Simons Grant No. 454947.\r\n"
article_number: '093043'
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Preeti
full_name: Sahu, Preeti
id: 55BA52EE-A185-11EA-88FD-18AD3DDC885E
last_name: Sahu
- first_name: J. M.
full_name: Schwarz, J. M.
last_name: Schwarz
- first_name: M. Lisa
full_name: Manning, M. Lisa
last_name: Manning
citation:
ama: Sahu P, Schwarz JM, Manning ML. Geometric signatures of tissue surface tension
in a three-dimensional model of confluent tissue. New Journal of Physics.
2021;23(9). doi:10.1088/1367-2630/ac23f1
apa: Sahu, P., Schwarz, J. M., & Manning, M. L. (2021). Geometric signatures
of tissue surface tension in a three-dimensional model of confluent tissue. New
Journal of Physics. IOP Publishing. https://doi.org/10.1088/1367-2630/ac23f1
chicago: Sahu, Preeti, J. M. Schwarz, and M. Lisa Manning. “Geometric Signatures
of Tissue Surface Tension in a Three-Dimensional Model of Confluent Tissue.” New
Journal of Physics. IOP Publishing, 2021. https://doi.org/10.1088/1367-2630/ac23f1.
ieee: P. Sahu, J. M. Schwarz, and M. L. Manning, “Geometric signatures of tissue
surface tension in a three-dimensional model of confluent tissue,” New Journal
of Physics, vol. 23, no. 9. IOP Publishing, 2021.
ista: Sahu P, Schwarz JM, Manning ML. 2021. Geometric signatures of tissue surface
tension in a three-dimensional model of confluent tissue. New Journal of Physics.
23(9), 093043.
mla: Sahu, Preeti, et al. “Geometric Signatures of Tissue Surface Tension in a Three-Dimensional
Model of Confluent Tissue.” New Journal of Physics, vol. 23, no. 9, 093043,
IOP Publishing, 2021, doi:10.1088/1367-2630/ac23f1.
short: P. Sahu, J.M. Schwarz, M.L. Manning, New Journal of Physics 23 (2021).
date_created: 2021-10-24T22:01:34Z
date_published: 2021-09-29T00:00:00Z
date_updated: 2026-04-02T13:54:56Z
day: '29'
ddc:
- '570'
department:
- _id: EdHa
doi: 10.1088/1367-2630/ac23f1
external_id:
arxiv:
- '2102.05397'
isi:
- '000702042400001'
file:
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checksum: ace603e8f0962b3ba55f23fa34f57764
content_type: application/pdf
creator: cziletti
date_created: 2021-10-28T12:06:01Z
date_updated: 2021-10-28T12:06:01Z
file_id: '10193'
file_name: 2021_NewJPhys_Sahu.pdf
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has_accepted_license: '1'
intvolume: ' 23'
isi: 1
issue: '9'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
publication: New Journal of Physics
publication_identifier:
eissn:
- 1367-2630
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Geometric signatures of tissue surface tension in a three-dimensional model
of confluent tissue
tmp:
image: /images/cc_by.png
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user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
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...