---
_id: '9558'
abstract:
- lang: eng
text: "We show that turbulent dynamics that arise in simulations of the three-dimensional
Navier--Stokes equations in a triply-periodic domain under sinusoidal forcing
can be described as transient visits to the neighborhoods of unstable time-periodic
solutions. Based on this description, we reduce the original system with more
than 10^5 degrees of freedom to a 17-node Markov chain where each node corresponds
to the neighborhood of a periodic orbit. The model accurately reproduces long-term
averages of the system's observables as weighted sums over the periodic orbits.\r\n"
acknowledged_ssus:
- _id: ScienComp
acknowledgement: "We thank the referees for improving this Letter with their comments.
We acknowledge stimulating discussions with\r\nH. Edelsbrunner. This work was supported
by Grant No. 662960 from the Simons Foundation (B. H.). The numerical calculations
were performed at TUBITAK ULAKBIM High Performance and Grid Computing Center (TRUBA
resources) and IST Austria High Performance Computing cluster."
article_number: '244502'
article_processing_charge: No
article_type: letter_note
arxiv: 1
author:
- first_name: Gökhan
full_name: Yalniz, Gökhan
id: 66E74FA2-D8BF-11E9-8249-8DE2E5697425
last_name: Yalniz
orcid: 0000-0002-8490-9312
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Nazmi B
full_name: Budanur, Nazmi B
id: 3EA1010E-F248-11E8-B48F-1D18A9856A87
last_name: Budanur
orcid: 0000-0003-0423-5010
citation:
ama: Yalniz G, Hof B, Budanur NB. Coarse graining the state space of a turbulent
flow using periodic orbits. Physical Review Letters. 2021;126(24). doi:10.1103/PhysRevLett.126.244502
apa: Yalniz, G., Hof, B., & Budanur, N. B. (2021). Coarse graining the state
space of a turbulent flow using periodic orbits. Physical Review Letters.
American Physical Society. https://doi.org/10.1103/PhysRevLett.126.244502
chicago: Yalniz, Gökhan, Björn Hof, and Nazmi B Budanur. “Coarse Graining the State
Space of a Turbulent Flow Using Periodic Orbits.” Physical Review Letters.
American Physical Society, 2021. https://doi.org/10.1103/PhysRevLett.126.244502.
ieee: G. Yalniz, B. Hof, and N. B. Budanur, “Coarse graining the state space of
a turbulent flow using periodic orbits,” Physical Review Letters, vol.
126, no. 24. American Physical Society, 2021.
ista: Yalniz G, Hof B, Budanur NB. 2021. Coarse graining the state space of a turbulent
flow using periodic orbits. Physical Review Letters. 126(24), 244502.
mla: Yalniz, Gökhan, et al. “Coarse Graining the State Space of a Turbulent Flow
Using Periodic Orbits.” Physical Review Letters, vol. 126, no. 24, 244502,
American Physical Society, 2021, doi:10.1103/PhysRevLett.126.244502.
short: G. Yalniz, B. Hof, N.B. Budanur, Physical Review Letters 126 (2021).
corr_author: '1'
date_created: 2021-06-16T15:45:36Z
date_published: 2021-06-18T00:00:00Z
date_updated: 2026-09-02T08:16:31Z
day: '18'
department:
- _id: GradSch
- _id: BjHo
doi: 10.1103/PhysRevLett.126.244502
external_id:
arxiv:
- '2007.02584'
isi:
- '000663310100008'
intvolume: ' 126'
isi: 1
issue: '24'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2007.02584
month: '06'
oa: 1
oa_version: Preprint
project:
- _id: 238598C6-32DE-11EA-91FC-C7463DDC885E
grant_number: '662960'
name: Revisiting the Turbulence Problem Using Statistical Mechanics
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/turbulent-flow-simplified/
record:
- id: '19591'
relation: popular_science
status: returned
- id: '19684'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Coarse graining the state space of a turbulent flow using periodic orbits
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 126
year: '2021'
...
---
_id: '8602'
abstract:
- lang: eng
text: Collective cell migration offers a rich field of study for non-equilibrium
physics and cellular biology, revealing phenomena such as glassy dynamics, pattern
formation and active turbulence. However, how mechanical and chemical signalling
are integrated at the cellular level to give rise to such collective behaviours
remains unclear. We address this by focusing on the highly conserved phenomenon
of spatiotemporal waves of density and extracellular signal-regulated kinase (ERK)
activation, which appear both in vitro and in vivo during collective cell migration
and wound healing. First, we propose a biophysical theory, backed by mechanical
and optogenetic perturbation experiments, showing that patterns can be quantitatively
explained by a mechanochemical coupling between active cellular tensions and the
mechanosensitive ERK pathway. Next, we demonstrate how this biophysical mechanism
can robustly induce long-ranged order and migration in a desired orientation,
and we determine the theoretically optimal wavelength and period for inducing
maximal migration towards free edges, which fits well with experimentally observed
dynamics. We thereby provide a bridge between the biophysical origin of spatiotemporal
instabilities and the design principles of robust and efficient long-ranged migration.
acknowledgement: We would like to thank G. Tkacik and all of the members of the Hannezo
and Hirashima groups for useful discussions, X. Trepat for help on traction force
microscopy and M. Matsuda for use of the lab facility. E.H. acknowledges grants
from the Austrian Science Fund (FWF) (P 31639) and the European Research Council
(851288). T.H. acknowledges a grant from JST, PRESTO (JPMJPR1949). This project
has received funding from the European Union’s Horizon 2020 research and innovation
programme under the Marie Skłodowska-Curie grant agreement no. 665385 (to D.B.),
from JSPS KAKENHI grant no. 17J02107 (to N.H.) and from the SPIRITS 2018 of Kyoto
University (to E.H. and T.H.).
article_processing_charge: No
article_type: original
author:
- first_name: Daniel R
full_name: Boocock, Daniel R
id: 453AF628-F248-11E8-B48F-1D18A9856A87
last_name: Boocock
orcid: 0000-0002-1585-2631
- first_name: Naoya
full_name: Hino, Naoya
last_name: Hino
- first_name: Natalia
full_name: Ruzickova, Natalia
id: D2761128-D73D-11E9-A1BF-BA0DE6697425
last_name: Ruzickova
- first_name: Tsuyoshi
full_name: Hirashima, Tsuyoshi
last_name: Hirashima
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
citation:
ama: Boocock DR, Hino N, Ruzickova N, Hirashima T, Hannezo EB. Theory of mechanochemical
patterning and optimal migration in cell monolayers. Nature Physics. 2021;17:267-274.
doi:10.1038/s41567-020-01037-7
apa: Boocock, D. R., Hino, N., Ruzickova, N., Hirashima, T., & Hannezo, E. B.
(2021). Theory of mechanochemical patterning and optimal migration in cell monolayers.
Nature Physics. Springer Nature. https://doi.org/10.1038/s41567-020-01037-7
chicago: Boocock, Daniel R, Naoya Hino, Natalia Ruzickova, Tsuyoshi Hirashima, and
Edouard B Hannezo. “Theory of Mechanochemical Patterning and Optimal Migration
in Cell Monolayers.” Nature Physics. Springer Nature, 2021. https://doi.org/10.1038/s41567-020-01037-7.
ieee: D. R. Boocock, N. Hino, N. Ruzickova, T. Hirashima, and E. B. Hannezo, “Theory
of mechanochemical patterning and optimal migration in cell monolayers,” Nature
Physics, vol. 17. Springer Nature, pp. 267–274, 2021.
ista: Boocock DR, Hino N, Ruzickova N, Hirashima T, Hannezo EB. 2021. Theory of
mechanochemical patterning and optimal migration in cell monolayers. Nature Physics.
17, 267–274.
mla: Boocock, Daniel R., et al. “Theory of Mechanochemical Patterning and Optimal
Migration in Cell Monolayers.” Nature Physics, vol. 17, Springer Nature,
2021, pp. 267–74, doi:10.1038/s41567-020-01037-7.
short: D.R. Boocock, N. Hino, N. Ruzickova, T. Hirashima, E.B. Hannezo, Nature Physics
17 (2021) 267–274.
corr_author: '1'
date_created: 2020-10-04T22:01:37Z
date_published: 2021-02-01T00:00:00Z
date_updated: 2026-09-02T22:30:04Z
day: '01'
department:
- _id: EdHa
doi: 10.1038/s41567-020-01037-7
ec_funded: 1
external_id:
isi:
- '000573519500002'
intvolume: ' 17'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2020.05.15.096479
month: '02'
oa: 1
oa_version: Preprint
page: 267-274
project:
- _id: 268294B6-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31639
name: Active mechano-chemical description of the cell cytoskeleton
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: Nature Physics
publication_identifier:
eissn:
- 1745-2481
issn:
- 1745-2473
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/wound-healing-waves/
record:
- id: '12964'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Theory of mechanochemical patterning and optimal migration in cell monolayers
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2021'
...
---
_id: '9817'
abstract:
- lang: eng
text: Elastic bending of initially flat slender elements allows the realization
and economic fabrication of intriguing curved shapes. In this work, we derive
an intuitive but rigorous geometric characterization of the design space of plane
elastic rods with variable stiffness. It enables designers to determine which
shapes are physically viable with active bending by visual inspection alone. Building
on these insights, we propose a method for efficiently designing the geometry
of a flat elastic rod that realizes a target equilibrium curve, which only requires
solving a linear program. We implement this method in an interactive computational
design tool that gives feedback about the feasibility of a design, and computes
the geometry of the structural elements necessary to realize it within an instant.
The tool also offers an iterative optimization routine that improves the fabricability
of a model while modifying it as little as possible. In addition, we use our geometric
characterization to derive an algorithm for analyzing and recovering the stability
of elastic curves that would otherwise snap out of their unstable equilibrium
shapes by buckling. We show the efficacy of our approach by designing and manufacturing
several physical models that are assembled from flat elements.
acknowledgement: "We thank the anonymous reviewers for their generous feedback, and
Michal Piovarči for his help in producing the supplemental video. This project has
received funding from the European Research Council (ERC) under the European Union’s
Horizon 2020 research and innovation programme (grant agreement No 715767).\r\n"
article_number: '126'
article_processing_charge: No
article_type: original
author:
- first_name: Christian
full_name: Hafner, Christian
id: 400429CC-F248-11E8-B48F-1D18A9856A87
last_name: Hafner
- first_name: Bernd
full_name: Bickel, Bernd
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
citation:
ama: Hafner C, Bickel B. The design space of plane elastic curves. ACM Transactions
on Graphics. 2021;40(4). doi:10.1145/3450626.3459800
apa: 'Hafner, C., & Bickel, B. (2021). The design space of plane elastic curves.
ACM Transactions on Graphics. Virtual: Association for Computing Machinery.
https://doi.org/10.1145/3450626.3459800'
chicago: Hafner, Christian, and Bernd Bickel. “The Design Space of Plane Elastic
Curves.” ACM Transactions on Graphics. Association for Computing Machinery,
2021. https://doi.org/10.1145/3450626.3459800.
ieee: C. Hafner and B. Bickel, “The design space of plane elastic curves,” ACM
Transactions on Graphics, vol. 40, no. 4. Association for Computing Machinery,
2021.
ista: Hafner C, Bickel B. 2021. The design space of plane elastic curves. ACM Transactions
on Graphics. 40(4), 126.
mla: Hafner, Christian, and Bernd Bickel. “The Design Space of Plane Elastic Curves.”
ACM Transactions on Graphics, vol. 40, no. 4, 126, Association for Computing
Machinery, 2021, doi:10.1145/3450626.3459800.
short: C. Hafner, B. Bickel, ACM Transactions on Graphics 40 (2021).
conference:
end_date: 2021-08-13
location: Virtual
name: 'SIGGRAF: Special Interest Group on Computer Graphics and Interactive Techniques'
start_date: 2021-08-09
date_created: 2021-08-08T22:01:26Z
date_published: 2021-07-19T00:00:00Z
date_updated: 2026-09-02T22:30:05Z
day: '19'
ddc:
- '516'
department:
- _id: BeBi
doi: 10.1145/3450626.3459800
ec_funded: 1
external_id:
isi:
- '000674930900091'
file:
- access_level: open_access
checksum: 7e5d08ce46b0451b3102eacd3d00f85f
content_type: application/pdf
creator: chafner
date_created: 2021-10-18T10:42:15Z
date_updated: 2021-10-18T10:42:15Z
file_id: '10150'
file_name: elastic-curves-paper.pdf
file_size: 17064290
relation: main_file
success: 1
- access_level: open_access
checksum: 0088643478be7c01a703b5b10767348f
content_type: application/pdf
creator: chafner
date_created: 2021-10-18T10:42:22Z
date_updated: 2021-10-18T10:42:22Z
file_id: '10151'
file_name: elastic-curves-supp.pdf
file_size: 547156
relation: supplementary_material
file_date_updated: 2021-10-18T10:42:22Z
has_accepted_license: '1'
intvolume: ' 40'
isi: 1
issue: '4'
keyword:
- Computing methodologies
- shape modeling
- modeling and simulation
- theory of computation
- computational geometry
- mathematics of computing
- mathematical optimization
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 24F9549A-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715767'
name: 'MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and
Modeling'
publication: ACM Transactions on Graphics
publication_identifier:
eissn:
- 1557-7368
issn:
- 0730-0301
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
related_material:
link:
- description: News on IST Website
relation: press_release
url: https://ist.ac.at/en/news/designing-with-elastic-structures/
record:
- id: '12897'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: The design space of plane elastic curves
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: 40
year: '2021'
...
---
_id: '9429'
abstract:
- lang: eng
text: De novo loss of function mutations in the ubiquitin ligase-encoding gene Cullin3
lead to autism spectrum disorder (ASD). In mouse, constitutive haploinsufficiency
leads to motor coordination deficits as well as ASD-relevant social and cognitive
impairments. However, induction of Cul3 haploinsufficiency later in life does
not lead to ASD-relevant behaviors, pointing to an important role of Cul3 during
a critical developmental window. Here we show that Cul3 is essential to regulate
neuronal migration and, therefore, constitutive Cul3 heterozygous mutant mice
display cortical lamination abnormalities. At the molecular level, we found that
Cul3 controls neuronal migration by tightly regulating the amount of Plastin3
(Pls3), a previously unrecognized player of neural migration. Furthermore, we
found that Pls3 cell-autonomously regulates cell migration by regulating actin
cytoskeleton organization, and its levels are inversely proportional to neural
migration speed. Finally, we provide evidence that cellular phenotypes associated
with autism-linked gene haploinsufficiency can be rescued by transcriptional activation
of the intact allele in vitro, offering a proof of concept for a potential therapeutic
approach for ASDs.
acknowledged_ssus:
- _id: PreCl
acknowledgement: We thank A. Coll Manzano, F. Freeman, M. Ladron de Guevara, and A.
Ç. Yahya for technical assistance, S. Deixler, A. Lepold, and A. Schlerka for the
management of our animal colony, as well as M. Schunn and the Preclinical Facility
team for technical assistance. We thank K. Heesom and her team at the University
of Bristol Proteomics Facility for the proteomics sample preparation, data generation,
and analysis support. We thank Y. B. Simon for kindly providing the plasmid for
lentiviral labeling. Further, we thank M. Sixt for his advice regarding cell migration
and the fruitful discussions. This work was supported by the ISTPlus postdoctoral
fellowship (Grant Agreement No. 754411) to B.B., by the European Union’s Horizon
2020 research and innovation program (ERC) grant 715508 (REVERSEAUTISM), and by
the Austrian Science Fund (FWF) to G.N. (DK W1232-B24 and SFB F7807-B) and to J.G.D
(I3600-B27).
article_number: '3058'
article_processing_charge: No
article_type: original
author:
- first_name: Jasmin
full_name: Morandell, Jasmin
id: 4739D480-F248-11E8-B48F-1D18A9856A87
last_name: Morandell
- first_name: Lena A
full_name: Schwarz, Lena A
id: 29A8453C-F248-11E8-B48F-1D18A9856A87
last_name: Schwarz
- first_name: Bernadette
full_name: Basilico, Bernadette
id: 36035796-5ACA-11E9-A75E-7AF2E5697425
last_name: Basilico
orcid: 0000-0003-1843-3173
- first_name: Saren
full_name: Tasciyan, Saren
id: 4323B49C-F248-11E8-B48F-1D18A9856A87
last_name: Tasciyan
orcid: 0000-0003-1671-393X
- first_name: Georgi A
full_name: Dimchev, Georgi A
id: 38C393BE-F248-11E8-B48F-1D18A9856A87
last_name: Dimchev
orcid: 0000-0001-8370-6161
- first_name: Armel
full_name: Nicolas, Armel
id: 2A103192-F248-11E8-B48F-1D18A9856A87
last_name: Nicolas
- first_name: Christoph M
full_name: Sommer, Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Caroline
full_name: Kreuzinger, Caroline
id: 382077BA-F248-11E8-B48F-1D18A9856A87
last_name: Kreuzinger
- first_name: Christoph
full_name: Dotter, Christoph
id: 4C66542E-F248-11E8-B48F-1D18A9856A87
last_name: Dotter
orcid: 0000-0002-9033-9096
- first_name: Lisa
full_name: Knaus, Lisa
id: 3B2ABCF4-F248-11E8-B48F-1D18A9856A87
last_name: Knaus
- first_name: Zoe
full_name: Dobler, Zoe
id: D23090A2-9057-11EA-883A-A8396FC7A38F
last_name: Dobler
- first_name: Emanuele
full_name: Cacci, Emanuele
last_name: Cacci
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
- 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: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
citation:
ama: Morandell J, Schwarz LA, Basilico B, et al. Cul3 regulates cytoskeleton protein
homeostasis and cell migration during a critical window of brain development.
Nature Communications. 2021;12(1). doi:10.1038/s41467-021-23123-x
apa: Morandell, J., Schwarz, L. A., Basilico, B., Tasciyan, S., Dimchev, G. A.,
Nicolas, A., … Novarino, G. (2021). Cul3 regulates cytoskeleton protein homeostasis
and cell migration during a critical window of brain development. Nature Communications.
Springer Nature. https://doi.org/10.1038/s41467-021-23123-x
chicago: Morandell, Jasmin, Lena A Schwarz, Bernadette Basilico, Saren Tasciyan,
Georgi A Dimchev, Armel Nicolas, Christoph M Sommer, et al. “Cul3 Regulates Cytoskeleton
Protein Homeostasis and Cell Migration during a Critical Window of Brain Development.”
Nature Communications. Springer Nature, 2021. https://doi.org/10.1038/s41467-021-23123-x.
ieee: J. Morandell et al., “Cul3 regulates cytoskeleton protein homeostasis
and cell migration during a critical window of brain development,” Nature Communications,
vol. 12, no. 1. Springer Nature, 2021.
ista: Morandell J, Schwarz LA, Basilico B, Tasciyan S, Dimchev GA, Nicolas A, Sommer
CM, Kreuzinger C, Dotter C, Knaus L, Dobler Z, Cacci E, Schur FK, Danzl JG, Novarino
G. 2021. Cul3 regulates cytoskeleton protein homeostasis and cell migration during
a critical window of brain development. Nature Communications. 12(1), 3058.
mla: Morandell, Jasmin, et al. “Cul3 Regulates Cytoskeleton Protein Homeostasis
and Cell Migration during a Critical Window of Brain Development.” Nature Communications,
vol. 12, no. 1, 3058, Springer Nature, 2021, doi:10.1038/s41467-021-23123-x.
short: J. Morandell, L.A. Schwarz, B. Basilico, S. Tasciyan, G.A. Dimchev, A. Nicolas,
C.M. Sommer, C. Kreuzinger, C. Dotter, L. Knaus, Z. Dobler, E. Cacci, F.K. Schur,
J.G. Danzl, G. Novarino, Nature Communications 12 (2021).
corr_author: '1'
date_created: 2021-05-28T11:49:46Z
date_published: 2021-05-24T00:00:00Z
date_updated: 2026-09-02T22:30:09Z
day: '24'
ddc:
- '572'
department:
- _id: GaNo
- _id: JoDa
- _id: FlSc
- _id: MiSi
- _id: LifeSc
- _id: Bio
doi: 10.1038/s41467-021-23123-x
ec_funded: 1
external_id:
isi:
- '000658769900010'
file:
- access_level: open_access
checksum: 337e0f7959c35ec959984cacdcb472ba
content_type: application/pdf
creator: kschuh
date_created: 2021-05-28T12:39:43Z
date_updated: 2021-05-28T12:39:43Z
file_id: '9430'
file_name: 2021_NatureCommunications_Morandell.pdf
file_size: 9358599
relation: main_file
success: 1
file_date_updated: 2021-05-28T12:39:43Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '1'
keyword:
- General Biochemistry
- Genetics and Molecular Biology
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: 25444568-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715508'
name: Probing the Reversibility of Autism Spectrum Disorders by Employing in vivo
and in vitro Models
- _id: 2548AE96-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W1232
name: Molecular Drug Targets
- _id: 05A0D778-7A3F-11EA-A408-12923DDC885E
grant_number: F7807
name: Stem Cell Modulation in Neural Development and Regeneration/ P07-Neural stem
cells in autism and epilepsy
- _id: 265CB4D0-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03600
name: Optical control of synaptic function via adhesion molecules
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: press_release
url: https://ist.ac.at/en/news/defective-gene-slows-down-brain-cells/
record:
- id: '19557'
relation: dissertation_contains
status: public
- id: '7800'
relation: earlier_version
status: public
- id: '12401'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Cul3 regulates cytoskeleton protein homeostasis and cell migration during a
critical window of brain development
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: '2021'
...
---
_id: '8966'
abstract:
- lang: eng
text: During development, a single cell is transformed into a highly complex organism
through progressive cell division, specification and rearrangement. An important
prerequisite for the emergence of patterns within the developing organism is to
establish asymmetries at various scales, ranging from individual cells to the
entire embryo, eventually giving rise to the different body structures. This becomes
especially apparent during gastrulation, when the earliest major lineage restriction
events lead to the formation of the different germ layers. Traditionally, the
unfolding of the developmental program from symmetry breaking to germ layer formation
has been studied by dissecting the contributions of different signaling pathways
and cellular rearrangements in the in vivo context of intact embryos. Recent efforts,
using the intrinsic capacity of embryonic stem cells to self-assemble and generate
embryo-like structures de novo, have opened new avenues for understanding the
many ways by which an embryo can be built and the influence of extrinsic factors
therein. Here, we discuss and compare divergent and conserved strategies leading
to germ layer formation in embryos as compared to in vitro systems, their upstream
molecular cascades and the role of extrinsic factors in this process.
acknowledgement: We thank Nicoletta Petridou, Diana Pinheiro, Cornelia Schwayer and
Stefania Tavano for feedback on the manuscript. Research in the Heisenberg lab is
supported by an ERC Advanced Grant (MECSPEC 742573) to C.-P.H. A.S. is a recipient
of a DOC Fellowship of the Austrian Academy of Science.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Alexandra
full_name: Schauer, Alexandra
id: 30A536BA-F248-11E8-B48F-1D18A9856A87
last_name: Schauer
orcid: 0000-0001-7659-9142
- 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: Schauer A, Heisenberg C-PJ. Reassembling gastrulation. Developmental Biology.
2021;474:71-81. doi:10.1016/j.ydbio.2020.12.014
apa: Schauer, A., & Heisenberg, C.-P. J. (2021). Reassembling gastrulation.
Developmental Biology. Elsevier. https://doi.org/10.1016/j.ydbio.2020.12.014
chicago: Schauer, Alexandra, and Carl-Philipp J Heisenberg. “Reassembling Gastrulation.”
Developmental Biology. Elsevier, 2021. https://doi.org/10.1016/j.ydbio.2020.12.014.
ieee: A. Schauer and C.-P. J. Heisenberg, “Reassembling gastrulation,” Developmental
Biology, vol. 474. Elsevier, pp. 71–81, 2021.
ista: Schauer A, Heisenberg C-PJ. 2021. Reassembling gastrulation. Developmental
Biology. 474, 71–81.
mla: Schauer, Alexandra, and Carl-Philipp J. Heisenberg. “Reassembling Gastrulation.”
Developmental Biology, vol. 474, Elsevier, 2021, pp. 71–81, doi:10.1016/j.ydbio.2020.12.014.
short: A. Schauer, C.-P.J. Heisenberg, Developmental Biology 474 (2021) 71–81.
date_created: 2020-12-22T09:53:34Z
date_published: 2021-06-01T00:00:00Z
date_updated: 2026-09-02T22:30:13Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.1016/j.ydbio.2020.12.014
ec_funded: 1
external_id:
isi:
- '000639461800008'
pmid:
- '33352181'
file:
- access_level: open_access
checksum: fa2a5731fd16ab171b029f32f031c440
content_type: application/pdf
creator: kschuh
date_created: 2021-08-11T10:28:06Z
date_updated: 2021-08-11T10:28:06Z
file_id: '9880'
file_name: 2021_DevBiology_Schauer.pdf
file_size: 1440321
relation: main_file
success: 1
file_date_updated: 2021-08-11T10:28:06Z
has_accepted_license: '1'
intvolume: ' 474'
isi: 1
keyword:
- Developmental Biology
- Cell Biology
- Molecular Biology
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 71-81
pmid: 1
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
- _id: 26B1E39C-B435-11E9-9278-68D0E5697425
grant_number: '25239'
name: 'Mesendoderm specification in zebrafish: The role of extraembryonic tissues'
publication: Developmental Biology
publication_identifier:
issn:
- 0012-1606
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '12891'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Reassembling gastrulation
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: 474
year: '2021'
...
---
_id: '9349'
abstract:
- lang: eng
text: 'The way in which interactions between mechanics and biochemistry lead to
the emergence of complex cell and tissue organization is an old question that
has recently attracted renewed interest from biologists, physicists, mathematicians
and computer scientists. Rapid advances in optical physics, microscopy and computational
image analysis have greatly enhanced our ability to observe and quantify spatiotemporal
patterns of signalling, force generation, deformation, and flow in living cells
and tissues. Powerful new tools for genetic, biophysical and optogenetic manipulation
are allowing us to perturb the underlying machinery that generates these patterns
in increasingly sophisticated ways. Rapid advances in theory and computing have
made it possible to construct predictive models that describe how cell and tissue
organization and dynamics emerge from the local coupling of biochemistry and mechanics.
Together, these advances have opened up a wealth of new opportunities to explore
how mechanochemical patterning shapes organismal development. In this roadmap,
we present a series of forward-looking case studies on mechanochemical patterning
in development, written by scientists working at the interface between the physical
and biological sciences, and covering a wide range of spatial and temporal scales,
organisms, and modes of development. Together, these contributions highlight the
many ways in which the dynamic coupling of mechanics and biochemistry shapes biological
dynamics: from mechanoenzymes that sense force to tune their activity and motor
output, to collectives of cells in tissues that flow and redistribute biochemical
signals during development.'
acknowledgement: The AK group is supported by IST Austria and by the ERC under European
Union Horizon 2020 research and innovation programme Grant 680037. Apologies to
those whose work could not be mentioned due to limited space. We thank all my lab
members, both past and present, for stimulating discussion. This work was funded
by a Singapore Ministry of Education Tier 3 Grant, MOE2016-T3-1-005. We thank Francis
Corson for continuous discussion and collaboration contributing to these views and
for figure 4(A). PC is sponsored by the Institut Pasteur and the European Union's
Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie
Grant Agreement No. 665807. Research in JG's laboratory is funded by the European
Research Council under the European Union's Seventh Framework Programme (FP7/2007-2013)/ERC
Grant Agreement No. 337635, Institut Pasteur, CNRS, Cercle FSER, Fondation pour
la Recherche Medicale, the Vallee Foundation and the ANR-19-CE-13-0024 Grant. We
thank Erez Braun and Alex Mogilner for comments on the manuscript and Niv Ierushalmi
for help with figure 5. This project has received funding from the European Union's
Horizon 2020 research and innovation programme under Grant Agreement No. ERC-2018-COG
Grant 819174-HydraMechanics awarded to KK. EH thanks all lab members, as well as
Pierre Recho, Tsuyoshi Hirashima, Diana Pinheiro and Carl-Philip Heisenberg, for
fruitful discussions on these topics—and apologize for not being able to cite many
very relevant publications due to the strict 10-reference limit. EH acknowledges
the support of Austrian Science Fund (FWF) (P 31639) and the European Research Council
under the European Union's Horizon 2020 Research and Innovation Programme Grant
Agreements (851288). The authors acknowledge the inspiring scientists whose work
could not be cited in this perspective due to space constraints; the members of
the Gartner Lab for helpful discussions; the Barbara and Gerson Bakar Foundation,
the Chan Zuckerberg Biohub Investigators Programme, the National Institute of Health,
and the Centre for Cellular Construction, an NSF Science and Technology Centre.
The Minc laboratory is currently funded by the CNRS and the European Research Council
(CoG Forcaster No. 647073). Research in the lab of J-LM is supported by the Institut
Curie, the Centre National de la Recherche Scientifique (CNRS), the Institut National
de la Santé Et de la Recherche Médicale (INSERM), and is funded by grants from the
ATIP-Avenir programme, the Fondation Schlumberger pour l'Éducation et la Recherche
via the Fondation pour la Recherche Médicale, the European Research Council Starting
Grant ERC-2017-StG 757557, the European Molecular Biology Organization Young Investigator
programme (EMBO YIP), the INSERM transversal programme Human Development Cell Atlas
(HuDeCA), Paris Sciences Lettres (PSL) 'nouvelle équipe' and QLife (17-CONV-0005)
grants and Labex DEEP (ANR-11-LABX-0044) which are part of the IDEX PSL (ANR-10-IDEX-0001-02).
We acknowledge useful discussions with Massimo Vergassola, Sebastian Streichan and
my lab members. Work in my laboratory on Drosophila embryogenesis is partly supported
by NIH-R01GM122936. The authors acknowledge the support by a grant from the European
Research Council (Grant No. 682161). Lenne group is funded by a grant from the 'Investissements
d'Avenir' French Government programme managed by the French National Research Agency
(ANR-16-CONV-0001) and by the Excellence Initiative of Aix-Marseille University—A*MIDEX,
and ANR projects MechaResp (ANR-17-CE13-0032) and AdGastrulo (ANR-19-CE13-0022).
article_number: '041501'
article_processing_charge: No
article_type: original
author:
- first_name: Pierre François
full_name: Lenne, Pierre François
last_name: Lenne
- first_name: Edwin
full_name: Munro, Edwin
last_name: Munro
- first_name: Idse
full_name: Heemskerk, Idse
last_name: Heemskerk
- first_name: Aryeh
full_name: Warmflash, Aryeh
last_name: Warmflash
- first_name: Laura
full_name: Bocanegra, Laura
id: 4896F754-F248-11E8-B48F-1D18A9856A87
last_name: Bocanegra
- first_name: Kasumi
full_name: Kishi, Kasumi
id: 3065DFC4-F248-11E8-B48F-1D18A9856A87
last_name: Kishi
orcid: 0000-0001-6060-4795
- first_name: Anna
full_name: Kicheva, Anna
id: 3959A2A0-F248-11E8-B48F-1D18A9856A87
last_name: Kicheva
orcid: 0000-0003-4509-4998
- first_name: Yuchen
full_name: Long, Yuchen
last_name: Long
- first_name: Antoine
full_name: Fruleux, Antoine
last_name: Fruleux
- first_name: Arezki
full_name: Boudaoud, Arezki
last_name: Boudaoud
- first_name: Timothy E.
full_name: Saunders, Timothy E.
last_name: Saunders
- first_name: Paolo
full_name: Caldarelli, Paolo
last_name: Caldarelli
- first_name: Arthur
full_name: Michaut, Arthur
last_name: Michaut
- first_name: Jerome
full_name: Gros, Jerome
last_name: Gros
- first_name: Yonit
full_name: Maroudas-Sacks, Yonit
last_name: Maroudas-Sacks
- first_name: Kinneret
full_name: Keren, Kinneret
last_name: Keren
- 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: Zev J.
full_name: Gartner, Zev J.
last_name: Gartner
- first_name: Benjamin
full_name: Stormo, Benjamin
last_name: Stormo
- first_name: Amy
full_name: Gladfelter, Amy
last_name: Gladfelter
- first_name: Alan
full_name: Rodrigues, Alan
last_name: Rodrigues
- first_name: Amy
full_name: Shyer, Amy
last_name: Shyer
- first_name: Nicolas
full_name: Minc, Nicolas
last_name: Minc
- first_name: Jean Léon
full_name: Maître, Jean Léon
last_name: Maître
- first_name: Stefano
full_name: Di Talia, Stefano
last_name: Di Talia
- first_name: Bassma
full_name: Khamaisi, Bassma
last_name: Khamaisi
- first_name: David
full_name: Sprinzak, David
last_name: Sprinzak
- first_name: Sham
full_name: Tlili, Sham
last_name: Tlili
citation:
ama: Lenne PF, Munro E, Heemskerk I, et al. Roadmap for the multiscale coupling
of biochemical and mechanical signals during development. Physical biology.
2021;18(4). doi:10.1088/1478-3975/abd0db
apa: Lenne, P. F., Munro, E., Heemskerk, I., Warmflash, A., Bocanegra, L., Kishi,
K., … Tlili, S. (2021). Roadmap for the multiscale coupling of biochemical and
mechanical signals during development. Physical Biology. IOP Publishing.
https://doi.org/10.1088/1478-3975/abd0db
chicago: Lenne, Pierre François, Edwin Munro, Idse Heemskerk, Aryeh Warmflash, Laura
Bocanegra, Kasumi Kishi, Anna Kicheva, et al. “Roadmap for the Multiscale Coupling
of Biochemical and Mechanical Signals during Development.” Physical Biology.
IOP Publishing, 2021. https://doi.org/10.1088/1478-3975/abd0db.
ieee: P. F. Lenne et al., “Roadmap for the multiscale coupling of biochemical
and mechanical signals during development,” Physical biology, vol. 18,
no. 4. IOP Publishing, 2021.
ista: Lenne PF, Munro E, Heemskerk I, Warmflash A, Bocanegra L, Kishi K, Kicheva
A, Long Y, Fruleux A, Boudaoud A, Saunders TE, Caldarelli P, Michaut A, Gros J,
Maroudas-Sacks Y, Keren K, Hannezo EB, Gartner ZJ, Stormo B, Gladfelter A, Rodrigues
A, Shyer A, Minc N, Maître JL, Di Talia S, Khamaisi B, Sprinzak D, Tlili S. 2021.
Roadmap for the multiscale coupling of biochemical and mechanical signals during
development. Physical biology. 18(4), 041501.
mla: Lenne, Pierre François, et al. “Roadmap for the Multiscale Coupling of Biochemical
and Mechanical Signals during Development.” Physical Biology, vol. 18,
no. 4, 041501, IOP Publishing, 2021, doi:10.1088/1478-3975/abd0db.
short: P.F. Lenne, E. Munro, I. Heemskerk, A. Warmflash, L. Bocanegra, K. Kishi,
A. Kicheva, Y. Long, A. Fruleux, A. Boudaoud, T.E. Saunders, P. Caldarelli, A.
Michaut, J. Gros, Y. Maroudas-Sacks, K. Keren, E.B. Hannezo, Z.J. Gartner, B.
Stormo, A. Gladfelter, A. Rodrigues, A. Shyer, N. Minc, J.L. Maître, S. Di Talia,
B. Khamaisi, D. Sprinzak, S. Tlili, Physical Biology 18 (2021).
date_created: 2021-04-25T22:01:29Z
date_published: 2021-04-14T00:00:00Z
date_updated: 2026-09-02T22:30:15Z
day: '14'
ddc:
- '570'
department:
- _id: AnKi
- _id: EdHa
doi: 10.1088/1478-3975/abd0db
ec_funded: 1
external_id:
isi:
- '000640396400001'
pmid:
- '33276350'
file:
- access_level: open_access
checksum: 4f52082549d3561c4c15d4d8d84ca5d8
content_type: application/pdf
creator: cziletti
date_created: 2021-04-27T08:38:35Z
date_updated: 2021-04-27T08:38:35Z
file_id: '9355'
file_name: 2021_PhysBio_Lenne.pdf
file_size: 6296324
relation: main_file
success: 1
file_date_updated: 2021-04-27T08:38:35Z
has_accepted_license: '1'
intvolume: ' 18'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
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: 268294B6-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P31639
name: Active mechano-chemical description of the cell cytoskeleton
- _id: 05943252-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '851288'
name: Design Principles of Branching Morphogenesis
publication: Physical biology
publication_identifier:
eissn:
- 1478-3975
publication_status: published
publisher: IOP Publishing
quality_controlled: '1'
related_material:
record:
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relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Roadmap for the multiscale coupling of biochemical and mechanical signals during
development
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: '2021'
...
---
OA_place: publisher
OA_type: hybrid
_id: '7883'
abstract:
- lang: eng
text: All vertebrates have a spinal cord with dimensions and shape specific to their
species. Yet how species‐specific organ size and shape are achieved is a fundamental
unresolved question in biology. The formation and sculpting of organs begins during
embryonic development. As it develops, the spinal cord extends in anterior–posterior
direction in synchrony with the overall growth of the body. The dorsoventral (DV)
and apicobasal lengths of the spinal cord neuroepithelium also change, while at
the same time a characteristic pattern of neural progenitor subtypes along the
DV axis is established and elaborated. At the basis of these changes in tissue
size and shape are biophysical determinants, such as the change in cell number,
cell size and shape, and anisotropic tissue growth. These processes are controlled
by global tissue‐scale regulators, such as morphogen signaling gradients as well
as mechanical forces. Current challenges in the field are to uncover how these
tissue‐scale regulatory mechanisms are translated to the cellular and molecular
level, and how regulation of distinct cellular processes gives rise to an overall
defined size. Addressing these questions will help not only to achieve a better
understanding of how size is controlled, but also of how tissue size is coordinated
with the specification of pattern.
acknowledgement: 'Austrian Academy of Sciences, Grant/Award Number: DOC fellowship
for Katarzyna Kuzmicz-Kowalska; Austrian Science Fund, Grant/Award Number: F78 (Stem
Cell Modulation); H2020 European Research Council, Grant/Award Number: 680037'
article_number: e383
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Katarzyna
full_name: Kuzmicz-Kowalska, Katarzyna
id: 4CED352A-F248-11E8-B48F-1D18A9856A87
last_name: Kuzmicz-Kowalska
- first_name: Anna
full_name: Kicheva, Anna
id: 3959A2A0-F248-11E8-B48F-1D18A9856A87
last_name: Kicheva
orcid: 0000-0003-4509-4998
citation:
ama: 'Kuzmicz-Kowalska K, Kicheva A. Regulation of size and scale in vertebrate
spinal cord development. Wiley Interdisciplinary Reviews: Developmental Biology.
2021. doi:10.1002/wdev.383'
apa: 'Kuzmicz-Kowalska, K., & Kicheva, A. (2021). Regulation of size and scale
in vertebrate spinal cord development. Wiley Interdisciplinary Reviews: Developmental
Biology. Wiley. https://doi.org/10.1002/wdev.383'
chicago: 'Kuzmicz-Kowalska, Katarzyna, and Anna Kicheva. “Regulation of Size and
Scale in Vertebrate Spinal Cord Development.” Wiley Interdisciplinary Reviews:
Developmental Biology. Wiley, 2021. https://doi.org/10.1002/wdev.383.'
ieee: 'K. Kuzmicz-Kowalska and A. Kicheva, “Regulation of size and scale in vertebrate
spinal cord development,” Wiley Interdisciplinary Reviews: Developmental Biology.
Wiley, 2021.'
ista: 'Kuzmicz-Kowalska K, Kicheva A. 2021. Regulation of size and scale in vertebrate
spinal cord development. Wiley Interdisciplinary Reviews: Developmental Biology.,
e383.'
mla: 'Kuzmicz-Kowalska, Katarzyna, and Anna Kicheva. “Regulation of Size and Scale
in Vertebrate Spinal Cord Development.” Wiley Interdisciplinary Reviews: Developmental
Biology, e383, Wiley, 2021, doi:10.1002/wdev.383.'
short: 'K. Kuzmicz-Kowalska, A. Kicheva, Wiley Interdisciplinary Reviews: Developmental
Biology (2021).'
corr_author: '1'
date_created: 2020-05-24T22:01:00Z
date_published: 2021-04-15T00:00:00Z
date_updated: 2026-09-02T22:30:16Z
day: '15'
ddc:
- '570'
department:
- _id: AnKi
doi: 10.1002/wdev.383
ec_funded: 1
external_id:
isi:
- '000531419400001'
pmid:
- '32391980'
file:
- access_level: open_access
checksum: f0a7745d48afa09ea7025e876a0145a8
content_type: application/pdf
creator: dernst
date_created: 2020-11-24T13:11:39Z
date_updated: 2020-11-24T13:11:39Z
file_id: '8800'
file_name: 2020_WIREs_DevBio_KuzmiczKowalska.pdf
file_size: 2527276
relation: main_file
success: 1
file_date_updated: 2020-11-24T13:11:39Z
has_accepted_license: '1'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
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: 267AF0E4-B435-11E9-9278-68D0E5697425
name: The role of morphogens in the regulation of neural tube growth
- _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
publication: 'Wiley Interdisciplinary Reviews: Developmental Biology'
publication_identifier:
eissn:
- 1759-7692
issn:
- 1759-7684
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
record:
- id: '14323'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Regulation of size and scale in vertebrate spinal cord development
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '9250'
abstract:
- lang: eng
text: Aprotic alkali metal–O2 batteries face two major obstacles to their chemistry
occurring efficiently, the insulating nature of the formed alkali superoxides/peroxides
and parasitic reactions that are caused by the highly reactive singlet oxygen
(1O2). Redox mediators are recognized to be key for improving rechargeability.
However, it is unclear how they affect 1O2 formation, which hinders strategies
for their improvement. Here we clarify the mechanism of mediated peroxide and
superoxide oxidation and thus explain how redox mediators either enhance or suppress
1O2 formation. We show that charging commences with peroxide oxidation to a superoxide
intermediate and that redox potentials above ~3.5 V versus Li/Li+ drive 1O2 evolution
from superoxide oxidation, while disproportionation always generates some 1O2.
We find that 1O2 suppression requires oxidation to be faster than the generation
of 1O2 from disproportionation. Oxidation rates decrease with growing driving
force following Marcus inverted-region behaviour, establishing a region of maximum
rate.
acknowledged_ssus:
- _id: M-Shop
acknowledgement: S.A.F. is indebted to the European Research Council (ERC) under the
European Union’s Horizon 2020 research and innovation programme (grant agreement
No. 636069) as well as IST Austria. O.F thanks the French National Research Agency
(STORE-EX Labex Project ANR-10-LABX-76-01). We thank EL-Cell GmbH (Hamburg, Germany)
for the pressure test cell. We thank R. Saf for help with the mass spectrometry,
J. Schlegl for manufacturing instrumentation, M. Winkler of Acib GmbH, G. Strohmeier
and R. Fürst for HPLC measurements and S. Mondal and S. Stadlbauer for kinetic measurements.
article_processing_charge: No
article_type: original
author:
- first_name: Yann K.
full_name: Petit, Yann K.
last_name: Petit
- first_name: Eléonore
full_name: Mourad, Eléonore
last_name: Mourad
- first_name: Christian
full_name: Prehal, Christian
last_name: Prehal
- first_name: Christian
full_name: Leypold, Christian
last_name: Leypold
- first_name: Andreas
full_name: Windischbacher, Andreas
last_name: Windischbacher
- first_name: Daniel
full_name: Mijailovic, Daniel
last_name: Mijailovic
- first_name: Christian
full_name: Slugovc, Christian
last_name: Slugovc
- first_name: Sergey M.
full_name: Borisov, Sergey M.
last_name: Borisov
- first_name: Egbert
full_name: Zojer, Egbert
last_name: Zojer
- first_name: Sergio
full_name: Brutti, Sergio
last_name: Brutti
- first_name: Olivier
full_name: Fontaine, Olivier
last_name: Fontaine
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Petit YK, Mourad E, Prehal C, et al. Mechanism of mediated alkali peroxide
oxidation and triplet versus singlet oxygen formation. Nature Chemistry.
2021;13(5):465-471. doi:10.1038/s41557-021-00643-z
apa: Petit, Y. K., Mourad, E., Prehal, C., Leypold, C., Windischbacher, A., Mijailovic,
D., … Freunberger, S. A. (2021). Mechanism of mediated alkali peroxide oxidation
and triplet versus singlet oxygen formation. Nature Chemistry. Springer
Nature. https://doi.org/10.1038/s41557-021-00643-z
chicago: Petit, Yann K., Eléonore Mourad, Christian Prehal, Christian Leypold, Andreas
Windischbacher, Daniel Mijailovic, Christian Slugovc, et al. “Mechanism of Mediated
Alkali Peroxide Oxidation and Triplet versus Singlet Oxygen Formation.” Nature
Chemistry. Springer Nature, 2021. https://doi.org/10.1038/s41557-021-00643-z.
ieee: Y. K. Petit et al., “Mechanism of mediated alkali peroxide oxidation
and triplet versus singlet oxygen formation,” Nature Chemistry, vol. 13,
no. 5. Springer Nature, pp. 465–471, 2021.
ista: Petit YK, Mourad E, Prehal C, Leypold C, Windischbacher A, Mijailovic D, Slugovc
C, Borisov SM, Zojer E, Brutti S, Fontaine O, Freunberger SA. 2021. Mechanism
of mediated alkali peroxide oxidation and triplet versus singlet oxygen formation.
Nature Chemistry. 13(5), 465–471.
mla: Petit, Yann K., et al. “Mechanism of Mediated Alkali Peroxide Oxidation and
Triplet versus Singlet Oxygen Formation.” Nature Chemistry, vol. 13, no.
5, Springer Nature, 2021, pp. 465–71, doi:10.1038/s41557-021-00643-z.
short: Y.K. Petit, E. Mourad, C. Prehal, C. Leypold, A. Windischbacher, D. Mijailovic,
C. Slugovc, S.M. Borisov, E. Zojer, S. Brutti, O. Fontaine, S.A. Freunberger,
Nature Chemistry 13 (2021) 465–471.
corr_author: '1'
date_created: 2021-03-16T11:12:20Z
date_published: 2021-03-15T00:00:00Z
date_updated: 2024-10-09T21:00:28Z
day: '15'
ddc:
- '540'
department:
- _id: StFr
doi: 10.1038/s41557-021-00643-z
external_id:
isi:
- '000629296400001'
pmid:
- '33723377'
file:
- access_level: open_access
checksum: 3ee3f8dd79ed1b7bb0929fce184c8012
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T11:46:00Z
date_updated: 2021-09-16T22:30:03Z
embargo: 2021-09-15
file_id: '9276'
file_name: 2021_NatureChem_Petit_acceptedVersion.pdf
file_size: 1811448
relation: main_file
file_date_updated: 2021-09-16T22:30:03Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
issue: '5'
keyword:
- General Chemistry
- General Chemical Engineering
language:
- iso: eng
month: '03'
oa: 1
oa_version: Submitted Version
page: 465-471
pmid: 1
publication: Nature Chemistry
publication_identifier:
eissn:
- 1755-4349
issn:
- 1755-4330
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Mechanism of mediated alkali peroxide oxidation and triplet versus singlet
oxygen formation
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 13
year: '2021'
...
---
_id: '9438'
abstract:
- lang: eng
text: Rigorous investigation of synaptic transmission requires analysis of unitary
synaptic events by simultaneous recording from presynaptic terminals and postsynaptic
target neurons. However, this has been achieved at only a limited number of model
synapses, including the squid giant synapse and the mammalian calyx of Held. Cortical
presynaptic terminals have been largely inaccessible to direct presynaptic recording,
due to their small size. Here, we describe a protocol for improved subcellular
patch-clamp recording in rat and mouse brain slices, with the synapse in a largely
intact environment. Slice preparation takes ~2 h, recording ~3 h and post hoc
morphological analysis 2 d. Single presynaptic hippocampal mossy fiber terminals
are stimulated minimally invasively in the bouton-attached configuration, in which
the cytoplasmic content remains unperturbed, or in the whole-bouton configuration,
in which the cytoplasmic composition can be precisely controlled. Paired pre–postsynaptic
recordings can be integrated with biocytin labeling and morphological analysis,
allowing correlative investigation of synapse structure and function. Paired recordings
can be obtained from mossy fiber terminals in slices from both rats and mice,
implying applicability to genetically modified synapses. Paired recordings can
also be performed together with axon tract stimulation or optogenetic activation,
allowing comparison of unitary and compound synaptic events in the same target
cell. Finally, paired recordings can be combined with spontaneous event analysis,
permitting collection of miniature events generated at a single identified synapse.
In conclusion, the subcellular patch-clamp techniques detailed here should facilitate
analysis of biophysics, plasticity and circuit function of cortical synapses in
the mammalian central nervous system.
acknowledged_ssus:
- _id: M-Shop
acknowledgement: This project received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(grant agreement no. 692692 to P.J.) and the Fond zur Förderung der Wissenschaftlichen
Forschung (Z 312-B27, Wittgenstein award to P.J., V 739-B27 to C.B.M.). We are grateful
to F. Marr and C. Altmutter for excellent technical assistance and cell reconstruction,
E. Kralli-Beller for manuscript editing, and the Scientific Service Units of IST
Austria, especially T. Asenov and Miba machine shop, for maximally efficient support.
article_processing_charge: No
article_type: original
author:
- first_name: David H
full_name: Vandael, David H
id: 3AE48E0A-F248-11E8-B48F-1D18A9856A87
last_name: Vandael
orcid: 0000-0001-7577-1676
- first_name: Yuji
full_name: Okamoto, Yuji
id: 3337E116-F248-11E8-B48F-1D18A9856A87
last_name: Okamoto
orcid: 0000-0003-0408-6094
- first_name: Carolina
full_name: Borges Merjane, Carolina
id: 4305C450-F248-11E8-B48F-1D18A9856A87
last_name: Borges Merjane
orcid: 0000-0003-0005-401X
- first_name: Victor M
full_name: Vargas Barroso, Victor M
id: 2F55A9DE-F248-11E8-B48F-1D18A9856A87
last_name: Vargas Barroso
- first_name: Benjamin
full_name: Suter, Benjamin
id: 4952F31E-F248-11E8-B48F-1D18A9856A87
last_name: Suter
orcid: 0000-0002-9885-6936
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: Vandael DH, Okamoto Y, Borges Merjane C, Vargas Barroso VM, Suter B, Jonas
PM. Subcellular patch-clamp techniques for single-bouton stimulation and simultaneous
pre- and postsynaptic recording at cortical synapses. Nature Protocols.
2021;16(6):2947–2967. doi:10.1038/s41596-021-00526-0
apa: Vandael, D. H., Okamoto, Y., Borges Merjane, C., Vargas Barroso, V. M., Suter,
B., & Jonas, P. M. (2021). Subcellular patch-clamp techniques for single-bouton
stimulation and simultaneous pre- and postsynaptic recording at cortical synapses.
Nature Protocols. Springer Nature. https://doi.org/10.1038/s41596-021-00526-0
chicago: Vandael, David H, Yuji Okamoto, Carolina Borges Merjane, Victor M Vargas
Barroso, Benjamin Suter, and Peter M Jonas. “Subcellular Patch-Clamp Techniques
for Single-Bouton Stimulation and Simultaneous Pre- and Postsynaptic Recording
at Cortical Synapses.” Nature Protocols. Springer Nature, 2021. https://doi.org/10.1038/s41596-021-00526-0.
ieee: D. H. Vandael, Y. Okamoto, C. Borges Merjane, V. M. Vargas Barroso, B. Suter,
and P. M. Jonas, “Subcellular patch-clamp techniques for single-bouton stimulation
and simultaneous pre- and postsynaptic recording at cortical synapses,” Nature
Protocols, vol. 16, no. 6. Springer Nature, pp. 2947–2967, 2021.
ista: Vandael DH, Okamoto Y, Borges Merjane C, Vargas Barroso VM, Suter B, Jonas
PM. 2021. Subcellular patch-clamp techniques for single-bouton stimulation and
simultaneous pre- and postsynaptic recording at cortical synapses. Nature Protocols.
16(6), 2947–2967.
mla: Vandael, David H., et al. “Subcellular Patch-Clamp Techniques for Single-Bouton
Stimulation and Simultaneous Pre- and Postsynaptic Recording at Cortical Synapses.”
Nature Protocols, vol. 16, no. 6, Springer Nature, 2021, pp. 2947–2967,
doi:10.1038/s41596-021-00526-0.
short: D.H. Vandael, Y. Okamoto, C. Borges Merjane, V.M. Vargas Barroso, B. Suter,
P.M. Jonas, Nature Protocols 16 (2021) 2947–2967.
corr_author: '1'
date_created: 2021-05-30T22:01:24Z
date_published: 2021-06-01T00:00:00Z
date_updated: 2025-04-22T22:30:43Z
day: '01'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.1038/s41596-021-00526-0
ec_funded: 1
external_id:
isi:
- '000650528700003'
pmid:
- '33990799'
file:
- access_level: open_access
checksum: 7eb580abd8893cdb0b410cf41bc8c263
content_type: application/pdf
creator: cziletti
date_created: 2021-07-08T12:27:55Z
date_updated: 2021-12-02T23:30:05Z
embargo: 2021-12-01
file_id: '9639'
file_name: VandaeletalAuthorVersion2021.pdf
file_size: 38574802
relation: main_file
file_date_updated: 2021-12-02T23:30:05Z
has_accepted_license: '1'
intvolume: ' 16'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 2947–2967
pmid: 1
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glutamatergic synapse
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: Synaptic communication in neuronal microcircuits
- _id: 2696E7FE-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: V00739
name: Structural plasticity at mossy fiber-CA3 synapses
publication: Nature Protocols
publication_identifier:
eissn:
- 1750-2799
issn:
- 1754-2189
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Subcellular patch-clamp techniques for single-bouton stimulation and simultaneous
pre- and postsynaptic recording at cortical synapses
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2021'
...
---
_id: '9428'
abstract:
- lang: eng
text: Thermalization is the inevitable fate of many complex quantum systems, whose
dynamics allow them to fully explore the vast configuration space regardless of
the initial state---the behaviour known as quantum ergodicity. In a quest for
experimental realizations of coherent long-time dynamics, efforts have focused
on ergodicity-breaking mechanisms, such as integrability and localization. The
recent discovery of persistent revivals in quantum simulators based on Rydberg
atoms have pointed to the existence of a new type of behaviour where the system
rapidly relaxes for most initial conditions, while certain initial states give
rise to non-ergodic dynamics. This collective effect has been named ”quantum many-body
scarring’by analogy with a related form of weak ergodicity breaking that occurs
for a single particle inside a stadium billiard potential. In this Review, we
provide a pedagogical introduction to quantum many-body scars and highlight the
emerging connections with the semiclassical quantization of many-body systems.
We discuss the relation between scars and more general routes towards weak violations
of ergodicity due to embedded algebras and non-thermal eigenstates, and highlight
possible applications of scars in quantum technology.
acknowledgement: We thank our collaborators K. Bull, S. Choi, J.-Y. Desaules, W. W.
Ho, A. Hudomal, M. Lukin, I. Martin, H. Pichler, N. Regnault, I. Vasić and in particular
A. Michailidis and C. Turner, without whom this work would not have been possible.
We also benefited from discussions with E. Altman, B. A. Bernevig, A. Chandran,
P. Fendley, V. Khemani and L. Motrunich. M.S. was supported by the European Research
Council (ERC) under the European Union’s Horizon 2020 research and innovation programme
(grant agreement no. 850899). D.A.A. was supported by the Swiss National Science
Foundation and by the ERC under the European Union’s Horizon 2020 research and innovation
programme (grant agreement no. 864597). Z.P. acknowledges support by the Leverhulme
Trust Research Leadership Award RL-2019-015.
article_processing_charge: No
article_type: review
arxiv: 1
author:
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Dmitry A.
full_name: Abanin, Dmitry A.
last_name: Abanin
- first_name: Zlatko
full_name: Papić, Zlatko
last_name: Papić
citation:
ama: Serbyn M, Abanin DA, Papić Z. Quantum many-body scars and weak breaking of
ergodicity. Nature Physics. 2021;17(6):675–685. doi:10.1038/s41567-021-01230-2
apa: Serbyn, M., Abanin, D. A., & Papić, Z. (2021). Quantum many-body scars
and weak breaking of ergodicity. Nature Physics. Nature Research. https://doi.org/10.1038/s41567-021-01230-2
chicago: Serbyn, Maksym, Dmitry A. Abanin, and Zlatko Papić. “Quantum Many-Body
Scars and Weak Breaking of Ergodicity.” Nature Physics. Nature Research,
2021. https://doi.org/10.1038/s41567-021-01230-2.
ieee: M. Serbyn, D. A. Abanin, and Z. Papić, “Quantum many-body scars and weak breaking
of ergodicity,” Nature Physics, vol. 17, no. 6. Nature Research, pp. 675–685,
2021.
ista: Serbyn M, Abanin DA, Papić Z. 2021. Quantum many-body scars and weak breaking
of ergodicity. Nature Physics. 17(6), 675–685.
mla: Serbyn, Maksym, et al. “Quantum Many-Body Scars and Weak Breaking of Ergodicity.”
Nature Physics, vol. 17, no. 6, Nature Research, 2021, pp. 675–685, doi:10.1038/s41567-021-01230-2.
short: M. Serbyn, D.A. Abanin, Z. Papić, Nature Physics 17 (2021) 675–685.
date_created: 2021-05-28T09:03:50Z
date_published: 2021-06-01T00:00:00Z
date_updated: 2025-04-14T07:52:09Z
day: '01'
ddc:
- '539'
department:
- _id: MaSe
doi: 10.1038/s41567-021-01230-2
ec_funded: 1
external_id:
arxiv:
- '2011.09486'
isi:
- '000655563800002'
file:
- access_level: open_access
checksum: 316ed42ea1b42b0f1a3025bb476266fc
content_type: application/pdf
creator: patrickd
date_created: 2021-09-20T09:27:43Z
date_updated: 2021-12-02T23:30:03Z
embargo: 2021-12-01
file_id: '10026'
file_name: RevisedQMBSreview.pdf
file_size: 10028836
relation: main_file
file_date_updated: 2021-12-02T23:30:03Z
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Preprint
page: 675–685
project:
- _id: 23841C26-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '850899'
name: 'Non-Ergodic Quantum Matter: Universality, Dynamics and Control'
publication: Nature Physics
publication_identifier:
eissn:
- 1745-2481
publication_status: published
publisher: Nature Research
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantum many-body scars and weak breaking of ergodicity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2021'
...
---
OA_place: publisher
_id: '9397'
abstract:
- lang: eng
text: Accumulation of interstitial fluid (IF) between embryonic cells is a common
phenomenon in vertebrate embryogenesis. Unlike other model systems, where these
accumulations coalesce into a large central cavity – the blastocoel, in zebrafish,
IF is more uniformly distributed between the deep cells (DC) before the onset
of gastrulation. This is likely due to the presence of a large extraembryonic
structure – the yolk cell (YC) at the position where the blastocoel typically
forms in other model organisms. IF has long been speculated to play a role in
tissue morphogenesis during embryogenesis, but direct evidence supporting such
function is still sparse. Here we show that the relocalization of IF to the interface
between the YC and DC/epiblast is critical for axial mesendoderm (ME) cell protrusion
formation and migration along this interface, a key process in embryonic axis
formation. We further demonstrate that axial ME cell migration and IF relocalization
engage in a positive feedback loop, where axial ME migration triggers IF accumulation
ahead of the advancing axial ME tissue by mechanically compressing the overlying
epiblast cell layer. Upon compression, locally induced flow relocalizes the IF
through the porous epiblast tissue resulting in an IF accumulation ahead of the
leading axial ME. This IF accumulation, in turn, promotes cell protrusion formation
and migration of the leading axial ME cells, thereby facilitating axial ME extension.
Our findings reveal a central role of dynamic IF relocalization in orchestrating
germ layer morphogenesis during gastrulation.
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Karla
full_name: Huljev, Karla
id: 44C6F6A6-F248-11E8-B48F-1D18A9856A87
last_name: Huljev
citation:
ama: Huljev K. Coordinated spatiotemporal reorganization of interstitial fluid is
required for axial mesendoderm migration in zebrafish gastrulation. 2021. doi:10.15479/at:ista:9397
apa: Huljev, K. (2021). Coordinated spatiotemporal reorganization of interstitial
fluid is required for axial mesendoderm migration in zebrafish gastrulation.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:9397
chicago: Huljev, Karla. “Coordinated Spatiotemporal Reorganization of Interstitial
Fluid Is Required for Axial Mesendoderm Migration in Zebrafish Gastrulation.”
Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:9397.
ieee: K. Huljev, “Coordinated spatiotemporal reorganization of interstitial fluid
is required for axial mesendoderm migration in zebrafish gastrulation,” Institute
of Science and Technology Austria, 2021.
ista: Huljev K. 2021. Coordinated spatiotemporal reorganization of interstitial
fluid is required for axial mesendoderm migration in zebrafish gastrulation. Institute
of Science and Technology Austria.
mla: Huljev, Karla. Coordinated Spatiotemporal Reorganization of Interstitial
Fluid Is Required for Axial Mesendoderm Migration in Zebrafish Gastrulation.
Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:9397.
short: K. Huljev, Coordinated Spatiotemporal Reorganization of Interstitial Fluid
Is Required for Axial Mesendoderm Migration in Zebrafish Gastrulation, Institute
of Science and Technology Austria, 2021.
corr_author: '1'
date_created: 2021-05-17T12:31:30Z
date_published: 2021-05-18T00:00:00Z
date_updated: 2026-04-08T07:12:51Z
day: '18'
ddc:
- '571'
degree_awarded: PhD
department:
- _id: CaHe
- _id: GradSch
doi: 10.15479/at:ista:9397
file:
- access_level: closed
checksum: 7f98532f5324a0b2f3fa8de2967baa19
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: khuljev
date_created: 2021-05-17T12:29:12Z
date_updated: 2022-05-21T22:30:04Z
embargo_to: open_access
file_id: '9398'
file_name: KHuljev_Thesis_corrections.docx
file_size: 47799741
relation: source_file
- access_level: open_access
checksum: bf512f8a1e572a543778fc4b227c01ba
content_type: application/pdf
creator: khuljev
date_created: 2021-05-18T14:50:28Z
date_updated: 2022-05-21T22:30:04Z
embargo: 2022-05-20
file_id: '9401'
file_name: new_KHuljev_Thesis_corrections.pdf
file_size: 16542131
relation: main_file
file_date_updated: 2022-05-21T22:30:04Z
has_accepted_license: '1'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: '101'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- 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
title: Coordinated spatiotemporal reorganization of interstitial fluid is required
for axial mesendoderm migration in zebrafish gastrulation
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2021'
...
---
OA_place: publisher
_id: '9728'
abstract:
- lang: eng
text: "Most real-world flows are multiphase, yet we know little about them compared
to their single-phase counterparts. Multiphase flows are more difficult to investigate
as their dynamics occur in large parameter space and involve complex phenomena
such as preferential concentration, turbulence modulation, non-Newtonian rheology,
etc. Over the last few decades, experiments in particle-laden flows have taken
a back seat in favour of ever-improving computational resources. However, computers
are still not powerful enough to simulate a real-world fluid with millions of
finite-size particles. Experiments are essential not only because they offer a
reliable way to investigate real-world multiphase flows but also because they
serve to validate numerical studies and steer the research in a relevant direction.
In this work, we have experimentally investigated particle-laden flows in pipes,
and in particular, examined the effect of particles on the laminar-turbulent transition
and the drag scaling in turbulent flows.\r\n\r\nFor particle-laden pipe flows,
an earlier study [Matas et al., 2003] reported how the sub-critical (i.e., hysteretic)
transition that occurs via localised turbulent structures called puffs is affected
by the addition of particles. In this study, in addition to this known transition,
we found a super-critical transition to a globally fluctuating state with increasing
particle concentration. At the same time, the Newtonian-type transition via puffs
is delayed to larger Reynolds numbers. At an even higher concentration, only the
globally fluctuating state is found. The dynamics of particle-laden flows are
hence determined by two competing instabilities that give rise to three flow regimes:
Newtonian-type turbulence at low, a particle-induced globally fluctuating state
at high, and a coexistence state at intermediate concentrations.\r\n\r\nThe effect
of particles on turbulent drag is ambiguous, with studies reporting drag reduction,
no net change, and even drag increase. The ambiguity arises because, in addition
to particle concentration, particle shape, size, and density also affect the net
drag. Even similar particles might affect the flow dissimilarly in different Reynolds
number and concentration ranges. In the present study, we explored a wide range
of both Reynolds number and concentration, using spherical as well as cylindrical
particles. We found that the spherical particles do not reduce drag while the
cylindrical particles are drag-reducing within a specific Reynolds number interval.
The interval strongly depends on the particle concentration and the relative size
of the pipe and particles. Within this interval, the magnitude of drag reduction
reaches a maximum. These drag reduction maxima appear to fall onto a distinct
power-law curve irrespective of the pipe diameter and particle concentration,
and this curve can be considered as the maximum drag reduction asymptote for a
given fibre shape. Such an asymptote is well known for polymeric flows but had
not been identified for particle-laden flows prior to this work."
acknowledged_ssus:
- _id: M-Shop
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Nishchal
full_name: Agrawal, Nishchal
id: 469E6004-F248-11E8-B48F-1D18A9856A87
last_name: Agrawal
citation:
ama: Agrawal N. Transition to turbulence and drag reduction in particle-laden pipe
flows. 2021. doi:10.15479/at:ista:9728
apa: Agrawal, N. (2021). Transition to turbulence and drag reduction in particle-laden
pipe flows. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:9728
chicago: Agrawal, Nishchal. “Transition to Turbulence and Drag Reduction in Particle-Laden
Pipe Flows.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:9728.
ieee: N. Agrawal, “Transition to turbulence and drag reduction in particle-laden
pipe flows,” Institute of Science and Technology Austria, 2021.
ista: Agrawal N. 2021. Transition to turbulence and drag reduction in particle-laden
pipe flows. Institute of Science and Technology Austria.
mla: Agrawal, Nishchal. Transition to Turbulence and Drag Reduction in Particle-Laden
Pipe Flows. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:9728.
short: N. Agrawal, Transition to Turbulence and Drag Reduction in Particle-Laden
Pipe Flows, Institute of Science and Technology Austria, 2021.
corr_author: '1'
date_created: 2021-07-27T13:40:30Z
date_published: 2021-07-29T00:00:00Z
date_updated: 2026-04-16T08:43:20Z
day: '29'
ddc:
- '532'
degree_awarded: PhD
department:
- _id: GradSch
- _id: BjHo
doi: 10.15479/at:ista:9728
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embargo: 2022-07-28
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file_size: 18658048
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file_date_updated: 2022-07-29T22:30:05Z
has_accepted_license: '1'
keyword:
- Drag Reduction
- Transition to Turbulence
- Multiphase Flows
- particle Laden Flows
- Complex Flows
- Experiments
- Fluid Dynamics
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: '118'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6189'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
title: Transition to turbulence and drag reduction in particle-laden pipe flows
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: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2021'
...
---
OA_place: publisher
_id: '9992'
abstract:
- lang: eng
text: "Blood – this is what animals use to heal wounds fast and efficient. Plants
do not have blood circulation and their cells cannot move. However, plants have
evolved remarkable capacities to regenerate tissues and organs preventing further
damage. In my PhD research, I studied the wound healing in the Arabidopsis root.
I used a UV laser to ablate single cells in the root tip and observed the consequent
wound healing. Interestingly, the inner adjacent cells induced a\r\ndivision plane
switch and subsequently adopted the cell type of the killed cell to replace it.
We termed this form of wound healing “restorative divisions”. This initial observation
triggered the questions of my PhD studies: How and why do cells orient their division
planes, how do they feel the wound and why does this happen only in inner adjacent
cells.\r\nFor answering these questions, I used a quite simple experimental setup:
5 day - old seedlings were stained with propidium iodide to visualize cell walls
and dead cells; ablation was carried out using a special laser cutter and a confocal
microscope. Adaptation of the novel vertical microscope system made it possible
to observe wounds in real time. This revealed that restorative divisions occur
at increased frequency compared to normal divisions. Additionally,\r\nthe major
plant hormone auxin accumulates in wound adjacent cells and drives the expression
of the wound-stress responsive transcription factor ERF115. Using this as a marker
gene for wound responses, we found that an important part of wound signalling
is the sensing of the collapse of the ablated cell. The collapse causes a radical
pressure drop, which results in strong tissue deformations. These deformations
manifest in an invasion of the now free spot specifically by the inner adjacent
cells within seconds, probably because of higher pressure of the inner tissues.
Long-term imaging revealed that those deformed cells continuously expand towards
the wound hole and that this is crucial for the restorative division. These wound-expanding
cells exhibit an abnormal, biphasic polarity of microtubule arrays\r\nbefore the
division. Experiments inhibiting cell expansion suggest that it is the biphasic
stretching that induces those MT arrays. Adapting the micromanipulator aspiration
system from animal scientists at our institute confirmed the hypothesis that stretching
influences microtubule stability. In conclusion, this shows that microtubules
react to tissue deformation\r\nand this facilitates the observed division plane
switch. This puts mechanical cues and tensions at the most prominent position
for explaining the growth and wound healing properties of plants. Hence, it shines
light onto the importance of understanding mechanical signal transduction. "
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Lukas
full_name: Hörmayer, Lukas
id: 2EEE7A2A-F248-11E8-B48F-1D18A9856A87
last_name: Hörmayer
orcid: 0000-0001-8295-2926
citation:
ama: Hörmayer L. Wound healing in the Arabidopsis root meristem. 2021. doi:10.15479/at:ista:9992
apa: Hörmayer, L. (2021). Wound healing in the Arabidopsis root meristem.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:9992
chicago: Hörmayer, Lukas. “Wound Healing in the Arabidopsis Root Meristem.” Institute
of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:9992.
ieee: L. Hörmayer, “Wound healing in the Arabidopsis root meristem,” Institute of
Science and Technology Austria, 2021.
ista: Hörmayer L. 2021. Wound healing in the Arabidopsis root meristem. Institute
of Science and Technology Austria.
mla: Hörmayer, Lukas. Wound Healing in the Arabidopsis Root Meristem. Institute
of Science and Technology Austria, 2021, doi:10.15479/at:ista:9992.
short: L. Hörmayer, Wound Healing in the Arabidopsis Root Meristem, Institute of
Science and Technology Austria, 2021.
corr_author: '1'
date_created: 2021-09-09T07:37:20Z
date_published: 2021-09-13T00:00:00Z
date_updated: 2026-04-08T07:11:47Z
day: '13'
ddc:
- '575'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JiFr
doi: 10.15479/at:ista:9992
ec_funded: 1
file:
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content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
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date_created: 2021-09-09T07:29:48Z
date_updated: 2021-09-15T22:30:26Z
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file_size: 25179004
relation: source_file
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checksum: 53911b06e93d7cdbbf4c7f4c162fa70f
content_type: application/pdf
creator: lhoermaye
date_created: 2021-09-09T14:25:08Z
date_updated: 2021-09-15T22:30:26Z
embargo: 2021-09-09
file_id: '9996'
file_name: Thesis_vfinal_pdfa.pdf
file_size: 6246900
relation: main_file
file_date_updated: 2021-09-15T22:30:26Z
has_accepted_license: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: '168'
project:
- _id: 262EF96E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29988
name: RNA-directed DNA methylation in plant development
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '6943'
relation: part_of_dissertation
status: public
- id: '8002'
relation: part_of_dissertation
status: public
- id: '6351'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
title: Wound healing in the Arabidopsis root meristem
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: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2021'
...
---
OA_place: publisher
_id: '9623'
abstract:
- lang: eng
text: "Cytoplasmic reorganizations are essential for morphogenesis. In large cells
like oocytes, these reorganizations become crucial in patterning the oocyte for
later stages of embryonic development. Ascidians oocytes reorganize their cytoplasm
(ooplasm) in a spectacular manner. Ooplasmic reorganization is initiated at fertilization
with the contraction of the actomyosin cortex along the animal-vegetal axis of
the oocyte, driving the accumulation of cortical endoplasmic reticulum (cER),
maternal mRNAs associated to it and a mitochondria-rich subcortical layer – the
myoplasm – in a region of the vegetal pole termed contraction pole (CP). Here
we have used the species Phallusia mammillata to investigate the changes in cell
shape that accompany these reorganizations and the mechanochemical mechanisms
underlining CP formation.\r\nWe report that the length of the animal-vegetal (AV)
axis oscillates upon fertilization: it first undergoes a cycle of fast elongation-lengthening
followed by a slow expansion of mainly the vegetal pole (VP) of the cell. We show
that the fast oscillation corresponds to a dynamic polarization of the actin cortex
as a result of a fertilization-induced increase in cortical tension in the oocyte
that triggers a rupture of the cortex at the animal pole and the establishment
of vegetal-directed cortical flows. These flows are responsible for the vegetal
accumulation of actin causing the VP to flatten. \r\nWe find that the slow expansion
of the VP, leading to CP formation, correlates with a relaxation of the vegetal
cortex and that the myoplasm plays a role in the expansion. We show that the myoplasm
is a solid-like layer that buckles under compression forces arising from the contracting
actin cortex at the VP. Straightening of the myoplasm when actin flows stops,
facilitates the expansion of the VP and the CP. Altogether, our results present
a previously unrecognized role for the myoplasm in ascidian ooplasmic segregation.
\r\n"
acknowledged_ssus:
- _id: Bio
- _id: EM-Fac
- _id: NanoFab
- _id: M-Shop
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Silvia
full_name: Caballero Mancebo, Silvia
id: 2F1E1758-F248-11E8-B48F-1D18A9856A87
last_name: Caballero Mancebo
orcid: 0000-0002-5223-3346
citation:
ama: Caballero Mancebo S. Fertilization-induced deformations are controlled by the
actin cortex and a mitochondria-rich subcortical layer in ascidian oocytes. 2021.
doi:10.15479/at:ista:9623
apa: Caballero Mancebo, S. (2021). Fertilization-induced deformations are controlled
by the actin cortex and a mitochondria-rich subcortical layer in ascidian oocytes.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:9623
chicago: Caballero Mancebo, Silvia. “Fertilization-Induced Deformations Are Controlled
by the Actin Cortex and a Mitochondria-Rich Subcortical Layer in Ascidian Oocytes.”
Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:9623.
ieee: S. Caballero Mancebo, “Fertilization-induced deformations are controlled by
the actin cortex and a mitochondria-rich subcortical layer in ascidian oocytes,”
Institute of Science and Technology Austria, 2021.
ista: Caballero Mancebo S. 2021. Fertilization-induced deformations are controlled
by the actin cortex and a mitochondria-rich subcortical layer in ascidian oocytes.
Institute of Science and Technology Austria.
mla: Caballero Mancebo, Silvia. Fertilization-Induced Deformations Are Controlled
by the Actin Cortex and a Mitochondria-Rich Subcortical Layer in Ascidian Oocytes.
Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:9623.
short: S. Caballero Mancebo, Fertilization-Induced Deformations Are Controlled by
the Actin Cortex and a Mitochondria-Rich Subcortical Layer in Ascidian Oocytes,
Institute of Science and Technology Austria, 2021.
corr_author: '1'
date_created: 2021-07-01T14:50:17Z
date_published: 2021-07-01T00:00:00Z
date_updated: 2026-07-06T12:45:39Z
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: CaHe
doi: 10.15479/at:ista:9623
file:
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checksum: e039225a47ef32666d59bf35ddd30ecf
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: scaballe
date_created: 2021-07-01T14:48:54Z
date_updated: 2022-07-02T22:30:06Z
embargo_to: open_access
file_id: '9624'
file_name: PhDThesis_SCM.docx
file_size: 131946790
relation: source_file
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content_type: application/pdf
creator: scaballe
date_created: 2021-07-01T14:46:25Z
date_updated: 2022-07-02T22:30:06Z
embargo: 2022-07-01
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has_accepted_license: '1'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
page: '111'
publication_identifier:
isbn:
- 978-3-99078-012-1
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '9006'
relation: part_of_dissertation
status: public
- id: '9750'
relation: part_of_dissertation
status: public
status: public
supervisor:
- 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
title: Fertilization-induced deformations are controlled by the actin cortex and a
mitochondria-rich subcortical layer in ascidian oocytes
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: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2021'
...
---
OA_place: publisher
_id: '10307'
abstract:
- lang: eng
text: Bacteria-host interactions represent a continuous trade-off between benefit
and risk. Thus, the host immune response is faced with a non-trivial problem –
accommodate beneficial commensals and remove harmful pathogens. This is especially
difficult as molecular patterns, such as lipopolysaccharide or specific surface
organelles such as pili, are conserved in both, commensal and pathogenic bacteria.
Type 1 pili, tightly regulated by phase variation, are considered an important
virulence factor of pathogenic bacteria as they facilitate invasion into host
cells. While invasion represents a de facto passive mechanism for pathogens to
escape the host immune response, we demonstrate a fundamental role of type 1 pili
as active modulators of the innate and adaptive immune response.
acknowledged_ssus:
- _id: LifeSc
- _id: Bio
- _id: PreCl
- _id: EM-Fac
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Kathrin
full_name: Tomasek, Kathrin
id: 3AEC8556-F248-11E8-B48F-1D18A9856A87
last_name: Tomasek
orcid: 0000-0003-3768-877X
citation:
ama: Tomasek K. Pathogenic Escherichia coli hijack the host immune response. 2021.
doi:10.15479/at:ista:10307
apa: Tomasek, K. (2021). Pathogenic Escherichia coli hijack the host immune response.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:10307
chicago: Tomasek, Kathrin. “Pathogenic Escherichia Coli Hijack the Host Immune Response.”
Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:10307.
ieee: K. Tomasek, “Pathogenic Escherichia coli hijack the host immune response,”
Institute of Science and Technology Austria, 2021.
ista: Tomasek K. 2021. Pathogenic Escherichia coli hijack the host immune response.
Institute of Science and Technology Austria.
mla: Tomasek, Kathrin. Pathogenic Escherichia Coli Hijack the Host Immune Response.
Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:10307.
short: K. Tomasek, Pathogenic Escherichia Coli Hijack the Host Immune Response,
Institute of Science and Technology Austria, 2021.
corr_author: '1'
date_created: 2021-11-18T15:05:06Z
date_published: 2021-11-18T00:00:00Z
date_updated: 2026-07-06T12:48:19Z
day: '18'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: MiSi
- _id: CaGu
- _id: GradSch
doi: 10.15479/at:ista:10307
file:
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checksum: b39c9e0ef18d0484d537a67551effd02
content_type: application/pdf
creator: ktomasek
date_created: 2021-11-18T15:07:31Z
date_updated: 2022-12-20T23:30:05Z
embargo: 2022-11-18
file_id: '10308'
file_name: ThesisTomasekKathrin.pdf
file_size: 13266088
relation: main_file
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checksum: c0c440ee9e5ef1102a518a4f9f023e7c
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: ktomasek
date_created: 2021-11-18T15:07:46Z
date_updated: 2022-12-20T23:30:05Z
embargo_to: open_access
file_id: '10309'
file_name: ThesisTomasekKathrin.docx
file_size: 7539509
relation: source_file
file_date_updated: 2022-12-20T23:30:05Z
has_accepted_license: '1'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: '73'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '10316'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-4561-241X
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
title: Pathogenic Escherichia coli hijack the host immune response
type: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2021'
...
---
_id: '9006'
abstract:
- lang: eng
text: Cytoplasm is a gel-like crowded environment composed of various macromolecules,
organelles, cytoskeletal networks, and cytosol. The structure of the cytoplasm
is highly organized and heterogeneous due to the crowding of its constituents
and their effective compartmentalization. In such an environment, the diffusive
dynamics of the molecules are restricted, an effect that is further amplified
by clustering and anchoring of molecules. Despite the crowded nature of the cytoplasm
at the microscopic scale, large-scale reorganization of the cytoplasm is essential
for important cellular functions, such as cell division and polarization. How
such mesoscale reorganization of the cytoplasm is achieved, especially for large
cells such as oocytes or syncytial tissues that can span hundreds of micrometers
in size, is only beginning to be understood. In this review, we will discuss recent
advances in elucidating the molecular, cellular, and biophysical mechanisms by
which the cytoskeleton drives cytoplasmic reorganization across different scales,
structures, and species.
acknowledgement: We would like to thank Justine Renno for illustrations and Edouard
Hannezo and members of the Heisenberg group for their comments on previous versions
of the manuscript.
article_processing_charge: No
article_type: original
author:
- first_name: Shayan
full_name: Shamipour, Shayan
id: 40B34FE2-F248-11E8-B48F-1D18A9856A87
last_name: Shamipour
- first_name: Silvia
full_name: Caballero Mancebo, Silvia
id: 2F1E1758-F248-11E8-B48F-1D18A9856A87
last_name: Caballero Mancebo
orcid: 0000-0002-5223-3346
- first_name: 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: Shamipour S, Caballero Mancebo S, Heisenberg C-PJ. Cytoplasm’s got moves. Developmental
Cell. 2021;56(2):P213-226. doi:10.1016/j.devcel.2020.12.002
apa: Shamipour, S., Caballero Mancebo, S., & Heisenberg, C.-P. J. (2021). Cytoplasm’s
got moves. Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2020.12.002
chicago: Shamipour, Shayan, Silvia Caballero Mancebo, and Carl-Philipp J Heisenberg.
“Cytoplasm’s Got Moves.” Developmental Cell. Elsevier, 2021. https://doi.org/10.1016/j.devcel.2020.12.002.
ieee: S. Shamipour, S. Caballero Mancebo, and C.-P. J. Heisenberg, “Cytoplasm’s
got moves,” Developmental Cell, vol. 56, no. 2. Elsevier, pp. P213-226,
2021.
ista: Shamipour S, Caballero Mancebo S, Heisenberg C-PJ. 2021. Cytoplasm’s got moves.
Developmental Cell. 56(2), P213-226.
mla: Shamipour, Shayan, et al. “Cytoplasm’s Got Moves.” Developmental Cell,
vol. 56, no. 2, Elsevier, 2021, pp. P213-226, doi:10.1016/j.devcel.2020.12.002.
short: S. Shamipour, S. Caballero Mancebo, C.-P.J. Heisenberg, Developmental Cell
56 (2021) P213-226.
corr_author: '1'
date_created: 2021-01-17T23:01:10Z
date_published: 2021-01-25T00:00:00Z
date_updated: 2026-09-02T22:30:26Z
day: '25'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.1016/j.devcel.2020.12.002
external_id:
isi:
- '000613273900009'
pmid:
- '33321104'
intvolume: ' 56'
isi: 1
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.devcel.2020.12.002
month: '01'
oa: 1
oa_version: Published Version
page: P213-226
pmid: 1
publication: Developmental Cell
publication_identifier:
eissn:
- 1878-1551
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '9623'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Cytoplasm's got moves
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 56
year: '2021'
...
---
_id: '10316'
abstract:
- lang: eng
text: A key attribute of persistent or recurring bacterial infections is the ability
of the pathogen to evade the host’s immune response. Many Enterobacteriaceae express
type 1 pili, a pre-adapted virulence trait, to invade host epithelial cells and
establish persistent infections. However, the molecular mechanisms and strategies
by which bacteria actively circumvent the immune response of the host remain poorly
understood. Here, we identified CD14, the major co-receptor for lipopolysaccharide
detection, on dendritic cells as a previously undescribed binding partner of FimH,
the protein located at the tip of the type 1 pilus of Escherichia coli. The FimH
amino acids involved in CD14 binding are highly conserved across pathogenic and
non-pathogenic strains. Binding of pathogenic bacteria to CD14 lead to reduced
dendritic cell migration and blunted expression of co-stimulatory molecules, both
rate-limiting factors of T cell activation. While defining an active molecular
mechanism of immune evasion by pathogens, the interaction between FimH and CD14
represents a potential target to interfere with persistent and recurrent infections,
such as urinary tract infections or Crohn’s disease.
acknowledged_ssus:
- _id: Bio
- _id: PreCl
- _id: EM-Fac
acknowledgement: We thank Ulrich Dobrindt for providing UPEC strain CFT073, Vlad Gavra
and Maximilian Götz, Bor Kavčič, Jonna Alanko and Eva Kiermaier for help with experiments
and Robert Hauschild, Julian Stopp and Saren Tasciyan for help with data analysis.
We thank the IST Austria Scientific Service Units, especially the Bioimaging facility,
the Preclinical facility and the Electron microscopy facility for technical support,
Jakob Wallner and all members of the Guet and Sixt lab for fruitful discussions
and Daria Siekhaus for critically reading the manuscript. This work was supported
by grants from the Austrian Research Promotion Agency (FEMtech 868984) to I.G.,
the European Research Council (CoG 724373) and the Austrian Science Fund (FWF P29911)
to M.S.
article_processing_charge: No
author:
- first_name: Kathrin
full_name: Tomasek, Kathrin
id: 3AEC8556-F248-11E8-B48F-1D18A9856A87
last_name: Tomasek
orcid: 0000-0003-3768-877X
- first_name: Alexander F
full_name: Leithner, Alexander F
id: 3B1B77E4-F248-11E8-B48F-1D18A9856A87
last_name: Leithner
orcid: 0000-0002-1073-744X
- first_name: Ivana
full_name: Glatzová, Ivana
id: 727b3c7d-4939-11ec-89b3-b9b0750ab74d
last_name: Glatzová
- first_name: Michael S.
full_name: Lukesch, Michael S.
last_name: Lukesch
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
- 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: Tomasek K, Leithner AF, Glatzová I, Lukesch MS, Guet CC, Sixt MK. Type 1 piliated
uropathogenic Escherichia coli hijack the host immune response by binding to CD14.
bioRxiv. doi:10.1101/2021.10.18.464770
apa: Tomasek, K., Leithner, A. F., Glatzová, I., Lukesch, M. S., Guet, C. C., &
Sixt, M. K. (n.d.). Type 1 piliated uropathogenic Escherichia coli hijack the
host immune response by binding to CD14. bioRxiv. https://doi.org/10.1101/2021.10.18.464770
chicago: Tomasek, Kathrin, Alexander F Leithner, Ivana Glatzová, Michael S. Lukesch,
Calin C Guet, and Michael K Sixt. “Type 1 Piliated Uropathogenic Escherichia Coli
Hijack the Host Immune Response by Binding to CD14.” BioRxiv, n.d. https://doi.org/10.1101/2021.10.18.464770.
ieee: K. Tomasek, A. F. Leithner, I. Glatzová, M. S. Lukesch, C. C. Guet, and M.
K. Sixt, “Type 1 piliated uropathogenic Escherichia coli hijack the host immune
response by binding to CD14,” bioRxiv. .
ista: Tomasek K, Leithner AF, Glatzová I, Lukesch MS, Guet CC, Sixt MK. Type 1 piliated
uropathogenic Escherichia coli hijack the host immune response by binding to CD14.
bioRxiv, 10.1101/2021.10.18.464770.
mla: Tomasek, Kathrin, et al. “Type 1 Piliated Uropathogenic Escherichia Coli Hijack
the Host Immune Response by Binding to CD14.” BioRxiv, doi:10.1101/2021.10.18.464770.
short: K. Tomasek, A.F. Leithner, I. Glatzová, M.S. Lukesch, C.C. Guet, M.K. Sixt,
BioRxiv (n.d.).
corr_author: '1'
das_tickbox: '1'
date_created: 2021-11-19T12:24:16Z
date_published: 2021-10-18T00:00:00Z
date_updated: 2026-09-02T22:30:27Z
day: '18'
department:
- _id: CaGu
- _id: MiSi
doi: 10.1101/2021.10.18.464770
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.biorxiv.org/content/10.1101/2021.10.18.464770v1
month: '10'
oa: 1
oa_version: Preprint
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
- _id: 26018E70-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29911
name: Mechanical adaptation of lamellipodial actin
publication: bioRxiv
publication_status: draft
related_material:
record:
- id: '11843'
relation: later_version
status: public
- id: '10307'
relation: dissertation_contains
status: public
status: public
title: Type 1 piliated uropathogenic Escherichia coli hijack the host immune response
by binding to CD14
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '10077'
abstract:
- lang: eng
text: Although much is known about how single neurons in the hippocampus represent
an animal’s position, how cell-cell interactions contribute to spatial coding
remains poorly understood. Using a novel statistical estimator and theoretical
modeling, both developed in the framework of maximum entropy models, we reveal
highly structured cell-to-cell interactions whose statistics depend on familiar
vs. novel environment. In both conditions the circuit interactions optimize the
encoding of spatial information, but for regimes that differ in the signal-to-noise
ratio of their spatial inputs. Moreover, the topology of the interactions facilitates
linear decodability, making the information easy to read out by downstream circuits.
These findings suggest that the efficient coding hypothesis is not applicable
only to individual neuron properties in the sensory periphery, but also to neural
interactions in the central brain.
acknowledgement: We thank Peter Baracskay, Karola Kaefer and Hugo Malagon-Vina for
the acquisition of the data. We thank Federico Stella for comments on an earlier
version of the manuscript. MN was supported by European Union Horizon 2020 grant
665385, JC was supported by European Research Council consolidator grant 281511,
GT was supported by the Austrian Science Fund (FWF) grant P34015, CS was supported
by an IST fellow grant, National Institute of Mental Health Award 1R01MH125571-01,
by the National Science Foundation under NSF Award No. 1922658 and a Google faculty
award.
article_processing_charge: No
author:
- first_name: Michele
full_name: Nardin, Michele
id: 30BD0376-F248-11E8-B48F-1D18A9856A87
last_name: Nardin
orcid: 0000-0001-8849-6570
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
- first_name: Cristina
full_name: Savin, Cristina
id: 3933349E-F248-11E8-B48F-1D18A9856A87
last_name: Savin
citation:
ama: Nardin M, Csicsvari JL, Tkačik G, Savin C. The structure of hippocampal CA1
interactions optimizes spatial coding across experience. bioRxiv. doi:10.1101/2021.09.28.460602
apa: Nardin, M., Csicsvari, J. L., Tkačik, G., & Savin, C. (n.d.). The structure
of hippocampal CA1 interactions optimizes spatial coding across experience. bioRxiv.
https://doi.org/10.1101/2021.09.28.460602
chicago: Nardin, Michele, Jozsef L Csicsvari, Gašper Tkačik, and Cristina Savin.
“The Structure of Hippocampal CA1 Interactions Optimizes Spatial Coding across
Experience.” BioRxiv, n.d. https://doi.org/10.1101/2021.09.28.460602.
ieee: M. Nardin, J. L. Csicsvari, G. Tkačik, and C. Savin, “The structure of hippocampal
CA1 interactions optimizes spatial coding across experience,” bioRxiv.
.
ista: Nardin M, Csicsvari JL, Tkačik G, Savin C. The structure of hippocampal CA1
interactions optimizes spatial coding across experience. bioRxiv, 10.1101/2021.09.28.460602.
mla: Nardin, Michele, et al. “The Structure of Hippocampal CA1 Interactions Optimizes
Spatial Coding across Experience.” BioRxiv, doi:10.1101/2021.09.28.460602.
short: M. Nardin, J.L. Csicsvari, G. Tkačik, C. Savin, BioRxiv (n.d.).
das_tickbox: '1'
date_created: 2021-10-04T06:23:34Z
date_published: 2021-09-29T00:00:00Z
date_updated: 2026-09-02T22:30:26Z
day: '29'
department:
- _id: GradSch
- _id: JoCs
- _id: GaTk
doi: 10.1101/2021.09.28.460602
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.biorxiv.org/content/10.1101/2021.09.28.460602
month: '09'
oa: 1
oa_version: Preprint
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 257A4776-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '281511'
name: Memory-related information processing in neuronal circuits of the hippocampus
and entorhinal cortex
- _id: 626c45b5-2b32-11ec-9570-e509828c1ba6
grant_number: P34015
name: Efficient coding with biophysical realism
publication: bioRxiv
publication_status: draft
related_material:
record:
- id: '11932'
relation: dissertation_contains
status: public
- id: '14656'
relation: later_version
status: public
status: public
title: The structure of hippocampal CA1 interactions optimizes spatial coding across
experience
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2021'
...
---
_id: '10167'
abstract:
- lang: eng
text: Schistosomes, the human parasites responsible for snail fever, are female-heterogametic.
Different parts of their ZW sex chromosomes have stopped recombining in distinct
lineages, creating “evolutionary strata” of various ages. Although the Z-chromosome
is well characterized at the genomic and molecular level, the W-chromosome has
remained largely unstudied from an evolutionary perspective, as only a few W-linked
genes have been detected outside of the model species Schistosoma mansoni. Here,
we characterize the gene content and evolution of the W-chromosomes of S. mansoni
and of the divergent species S. japonicum. We use a combined RNA/DNA k-mer based
pipeline to assemble around 100 candidate W-specific transcripts in each of the
species. About half of them map to known protein coding genes, the majority homologous
to S. mansoni Z-linked genes. We perform an extended analysis of the evolutionary
strata present in the two species (including characterizing a previously undetected
young stratum in S. japonicum) to infer patterns of sequence and expression evolution
of W-linked genes at different time points after recombination was lost. W-linked
genes show evidence of degeneration, including high rates of protein evolution
and reduced expression. Most are found in young lineage-specific strata, with
only a few high expression ancestral W-genes remaining, consistent with the progressive
erosion of nonrecombining regions. Among these, the splicing factor u2af2 stands
out as a promising candidate for primary sex determination, opening new avenues
for understanding the molecular basis of the reproductive biology of this group.
acknowledged_ssus:
- _id: ScienComp
acknowledgement: The authors thank IT support at IST Austria for providing an optimal
environment for bioinformatic analyses. This work was supported by an Austrian Science
Foundation FWF grant (Project P28842) to B.V.
article_processing_charge: No
article_type: original
author:
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
- first_name: Mikhail A.
full_name: Moldovan, Mikhail A.
id: c8bb7f32-3315-11ec-b58b-e5950e6c14a0
last_name: Moldovan
orcid: 0000-0002-8876-6494
- first_name: Marion A L
full_name: Picard, Marion A L
id: 2C921A7A-F248-11E8-B48F-1D18A9856A87
last_name: Picard
orcid: 0000-0002-8101-2518
- first_name: Beatriz
full_name: Vicoso, Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
citation:
ama: Elkrewi MN, Moldovan MA, Picard MAL, Vicoso B. Schistosome W-linked genes inform
temporal dynamics of sex chromosome evolution and suggest candidate for sex determination.
Molecular Biology and Evolution. 2021;138(12):5345-5358. doi:10.1093/molbev/msab178
apa: Elkrewi, M. N., Moldovan, M. A., Picard, M. A. L., & Vicoso, B. (2021).
Schistosome W-linked genes inform temporal dynamics of sex chromosome evolution
and suggest candidate for sex determination. Molecular Biology and Evolution.
Oxford University Press. https://doi.org/10.1093/molbev/msab178
chicago: Elkrewi, Marwan N, Mikhail A. Moldovan, Marion A L Picard, and Beatriz
Vicoso. “Schistosome W-Linked Genes Inform Temporal Dynamics of Sex Chromosome
Evolution and Suggest Candidate for Sex Determination.” Molecular Biology and
Evolution. Oxford University Press, 2021. https://doi.org/10.1093/molbev/msab178.
ieee: M. N. Elkrewi, M. A. Moldovan, M. A. L. Picard, and B. Vicoso, “Schistosome
W-linked genes inform temporal dynamics of sex chromosome evolution and suggest
candidate for sex determination,” Molecular Biology and Evolution, vol.
138, no. 12. Oxford University Press, pp. 5345–58, 2021.
ista: Elkrewi MN, Moldovan MA, Picard MAL, Vicoso B. 2021. Schistosome W-linked
genes inform temporal dynamics of sex chromosome evolution and suggest candidate
for sex determination. Molecular Biology and Evolution. 138(12), 5345–58.
mla: Elkrewi, Marwan N., et al. “Schistosome W-Linked Genes Inform Temporal Dynamics
of Sex Chromosome Evolution and Suggest Candidate for Sex Determination.” Molecular
Biology and Evolution, vol. 138, no. 12, Oxford University Press, 2021, pp.
5345–58, doi:10.1093/molbev/msab178.
short: M.N. Elkrewi, M.A. Moldovan, M.A.L. Picard, B. Vicoso, Molecular Biology
and Evolution 138 (2021) 5345–58.
corr_author: '1'
das_tickbox: '1'
date_created: 2021-10-21T07:49:12Z
date_published: 2021-06-19T00:00:00Z
date_updated: 2026-09-02T22:30:28Z
day: '19'
ddc:
- '610'
department:
- _id: BeVi
doi: 10.1093/molbev/msab178
external_id:
isi:
- '000741368600009'
pmid:
- '34146097'
file:
- access_level: open_access
checksum: 1b096702fb356d9c0eb88e1b3fcff5f8
content_type: application/pdf
creator: dernst
date_created: 2022-05-06T09:47:18Z
date_updated: 2022-05-06T09:47:18Z
file_id: '11352'
file_name: 2021_MolecularBiolEvolution_Elkrewi.pdf
file_size: 1008594
relation: main_file
success: 1
file_date_updated: 2022-05-06T09:47:18Z
has_accepted_license: '1'
intvolume: ' 138'
isi: 1
issue: '12'
keyword:
- sex chromosomes
- evolutionary strata
- W-linked gene
- sex determining gene
- schistosome parasites
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 5345-58
pmid: 1
project:
- _id: 250ED89C-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P28842-B22
name: Sex chromosome evolution under male- and female- heterogamety
publication: Molecular Biology and Evolution
publication_identifier:
eissn:
- 1537-1719
issn:
- 0737-4038
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
related_material:
record:
- id: '19386'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Schistosome W-linked genes inform temporal dynamics of sex chromosome evolution
and suggest candidate for sex determination
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: 138
year: '2021'
...
---
_id: '8909'
abstract:
- lang: eng
text: Spin qubits are considered to be among the most promising candidates for building
a quantum processor. Group IV hole spin qubits have moved into the focus of interest
due to the ease of operation and compatibility with Si technology. In addition,
Ge offers the option for monolithic superconductor-semiconductor integration.
Here we demonstrate a hole spin qubit operating at fields below 10 mT, the critical
field of Al, by exploiting the large out-of-plane hole g-factors in planar Ge
and by encoding the qubit into the singlet-triplet states of a double quantum
dot. We observe electrically controlled X and Z-rotations with tunable frequencies
exceeding 100 MHz and dephasing times of 1μs which we extend beyond 15μs with
echo techniques. These results show that Ge hole singlet triplet qubits outperform
their electronic Si and GaAs based counterparts in speed and coherence, respectively.
In addition, they are on par with Ge single spin qubits, but can be operated at
much lower fields underlining their potential for on chip integration with superconducting
technologies.
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
acknowledgement: This research was supported by the Scientific Service Units of Institute
of Science and Technology (IST) Austria through resources provided by the Miba Machine
Shop and the nanofabrication facility, and was made possible with the support of
the NOMIS Foundation. This project has received funding from the European Union’s
Horizon 2020 research and innovation programme under Marie Sklodowska-Curie grant
agreements no. 844511 and no. 75441, and by the Austrian Science Fund FWF-P 30207
project. A.B. acknowledges support from the European Union Horizon 2020 FET project
microSPIRE, no. 766955. M. Botifoll and J.A. acknowledge funding from Generalitat
de Catalunya 2017 SGR 327. The Catalan Institute of Nanoscience and Nanotechnology
(ICN2) is supported by the Severo Ochoa programme from the Spanish Ministery of
Economy (MINECO) (grant no. SEV-2017-0706) and is funded by the Catalonian Research
Centre (CERCA) Programme, Generalitat de Catalunya. Part of the present work has
been performed within the framework of the Universitat Autónoma de Barcelona Materials
Science PhD programme. Part of the HAADF scanning transmission electron microscopy
was conducted in the Laboratorio de Microscopias Avanzadas at Instituto de Nanociencia
de Aragon, Universidad de Zaragoza. ICN2 acknowledge support from the Spanish Superior
Council of Scientific Research (CSIC) Research Platform on Quantum Technologies
PTI-001. M.B. acknowledges funding from the Catalan Agency for Management of University
and Research Grants (AGAUR) Generalitat de Catalunya formation of investigators
(FI) PhD grant.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Daniel
full_name: Jirovec, Daniel
id: 4C473F58-F248-11E8-B48F-1D18A9856A87
last_name: Jirovec
orcid: 0000-0002-7197-4801
- first_name: Andrea C
full_name: Hofmann, Andrea C
id: 340F461A-F248-11E8-B48F-1D18A9856A87
last_name: Hofmann
- first_name: Andrea
full_name: Ballabio, Andrea
last_name: Ballabio
- first_name: Philipp M.
full_name: Mutter, Philipp M.
last_name: Mutter
- first_name: Giulio
full_name: Tavani, Giulio
last_name: Tavani
- first_name: Marc
full_name: Botifoll, Marc
last_name: Botifoll
- first_name: Alessandro
full_name: Crippa, Alessandro
id: 1F2B21A2-F6E7-11E9-9B82-F7DBE5697425
last_name: Crippa
orcid: 0000-0002-2968-611X
- first_name: Josip
full_name: Kukucka, Josip
id: 3F5D8856-F248-11E8-B48F-1D18A9856A87
last_name: Kukucka
- first_name: Oliver
full_name: Sagi, Oliver
id: 71616374-A8E9-11E9-A7CA-09ECE5697425
last_name: Sagi
- first_name: Frederico
full_name: Martins, Frederico
id: 38F80F9A-1CB8-11EA-BC76-B49B3DDC885E
last_name: Martins
orcid: 0000-0003-2668-2401
- first_name: Jaime
full_name: Saez Mollejo, Jaime
id: e0390f72-f6e0-11ea-865d-862393336714
last_name: Saez Mollejo
- first_name: Ivan
full_name: Prieto Gonzalez, Ivan
id: 2A307FE2-F248-11E8-B48F-1D18A9856A87
last_name: Prieto Gonzalez
orcid: 0000-0002-7370-5357
- first_name: Maksim
full_name: Borovkov, Maksim
id: 2ac7a0a2-3562-11eb-9256-fbd18ea55087
last_name: Borovkov
- first_name: Jordi
full_name: Arbiol, Jordi
last_name: Arbiol
- first_name: Daniel
full_name: Chrastina, Daniel
last_name: Chrastina
- first_name: Giovanni
full_name: Isella, Giovanni
last_name: Isella
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: Jirovec D, Hofmann AC, Ballabio A, et al. A singlet triplet hole spin qubit
in planar Ge. Nature Materials. 2021;20(8):1106–1112. doi:10.1038/s41563-021-01022-2
apa: Jirovec, D., Hofmann, A. C., Ballabio, A., Mutter, P. M., Tavani, G., Botifoll,
M., … Katsaros, G. (2021). A singlet triplet hole spin qubit in planar Ge. Nature
Materials. Springer Nature. https://doi.org/10.1038/s41563-021-01022-2
chicago: Jirovec, Daniel, Andrea C Hofmann, Andrea Ballabio, Philipp M. Mutter,
Giulio Tavani, Marc Botifoll, Alessandro Crippa, et al. “A Singlet Triplet Hole
Spin Qubit in Planar Ge.” Nature Materials. Springer Nature, 2021. https://doi.org/10.1038/s41563-021-01022-2.
ieee: D. Jirovec et al., “A singlet triplet hole spin qubit in planar Ge,”
Nature Materials, vol. 20, no. 8. Springer Nature, pp. 1106–1112, 2021.
ista: Jirovec D, Hofmann AC, Ballabio A, Mutter PM, Tavani G, Botifoll M, Crippa
A, Kukucka J, Sagi O, Martins F, Saez Mollejo J, Prieto Gonzalez I, Borovkov M,
Arbiol J, Chrastina D, Isella G, Katsaros G. 2021. A singlet triplet hole spin
qubit in planar Ge. Nature Materials. 20(8), 1106–1112.
mla: Jirovec, Daniel, et al. “A Singlet Triplet Hole Spin Qubit in Planar Ge.” Nature
Materials, vol. 20, no. 8, Springer Nature, 2021, pp. 1106–1112, doi:10.1038/s41563-021-01022-2.
short: D. Jirovec, A.C. Hofmann, A. Ballabio, P.M. Mutter, G. Tavani, M. Botifoll,
A. Crippa, J. Kukucka, O. Sagi, F. Martins, J. Saez Mollejo, I. Prieto Gonzalez,
M. Borovkov, J. Arbiol, D. Chrastina, G. Isella, G. Katsaros, Nature Materials
20 (2021) 1106–1112.
corr_author: '1'
date_created: 2020-12-02T10:50:47Z
date_published: 2021-08-01T00:00:00Z
date_updated: 2026-09-02T22:30:43Z
day: '01'
department:
- _id: GeKa
- _id: NanoFab
- _id: GradSch
doi: 10.1038/s41563-021-01022-2
ec_funded: 1
external_id:
arxiv:
- '2011.13755'
isi:
- '000657596400001'
pmid:
- '34083775'
intvolume: ' 20'
isi: 1
issue: '8'
language:
- iso: eng
main_file_link:
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url: https://arxiv.org/abs/2011.13755
month: '08'
oa: 1
oa_version: Preprint
page: 1106–1112
pmid: 1
project:
- _id: 26A151DA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '844511'
name: Majorana bound states in Ge/SiGe heterostructures
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: 2641CE5E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P30207
name: Hole spin orbit qubits in Ge quantum wells
- _id: 262116AA-B435-11E9-9278-68D0E5697425
name: Hybrid Semiconductor - Superconductor Quantum Devices
publication: Nature Materials
publication_identifier:
eissn:
- 1476-4660
issn:
- 1476-1122
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/quantum-computing-with-holes/
record:
- id: '9323'
relation: research_data
status: public
- id: '10058'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: A singlet triplet hole spin qubit in planar Ge
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2021'
...