---
OA_place: repository
OA_type: green
_id: '12312'
abstract:
- lang: eng
text: "Let $\\ell$ be a prime number. We classify the subgroups $G$ of $\\operatorname{Sp}_4(\\mathbb{F}_\\ell)$
and $\\operatorname{GSp}_4(\\mathbb{F}_\\ell)$ that act irreducibly on $\\mathbb{F}_\\ell^4$,
but such that every element of $G$ fixes an $\\mathbb{F}_\\ell$-vector subspace
of dimension 1. We use this classification to prove that the local-global principle
for isogenies of degree $\\ell$ between abelian surfaces over number fields holds
in many cases -- in particular, whenever the abelian surface has non-trivial endomorphisms
and $\\ell$ is large enough with respect to the field of definition. Finally,
we prove that there exist arbitrarily large primes $\\ell$ for which some abelian
surface\r\n$A/\\mathbb{Q}$ fails the local-global principle for isogenies of degree
$\\ell$."
acknowledgement: "It is a pleasure to thank Samuele Anni for his interest in this
project and for several discussions on the topic of this paper, which led in particular
to Remark 6.30 and to a better understanding of the difficulties with [6]. We also
thank John Cullinan for correspondence about [6] and Barinder Banwait for his many
insightful comments on the first version of this paper. Finally, we thank the referee
for their thorough reading of the manuscript.\r\nOpen access funding provided by
Università di Pisa within the CRUI-CARE Agreement. The authors have been partially
supported by MIUR (Italy) through PRIN 2017 “Geometric, algebraic and analytic methods
in arithmetic\" and PRIN 2022 “Semiabelian varieties, Galois representations and
related Diophantine problems\", and by the University of Pisa through PRA 2018-19
and 2022 “Spazi di moduli, rappresentazioni e strutture combinatorie\". The first
author is a member of the INdAM group GNSAGA."
article_number: '18'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Davide
full_name: Lombardo, Davide
last_name: Lombardo
- first_name: Matteo
full_name: Verzobio, Matteo
id: 7aa8f170-131e-11ed-88e1-a9efd01027cb
last_name: Verzobio
orcid: 0000-0002-0854-0306
date_created: 2023-01-16T11:45:53Z
date_published: 2024-01-26T00:00:00Z
date_updated: 2025-02-13T11:47:12Z
day: '26'
department:
- _id: TiBr
doi: 10.1007/s00029-023-00908-0
external_id:
arxiv:
- '2206.15240'
intvolume: ' 30'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2206.15240
month: '01'
oa: 1
oa_version: Preprint
publication: Selecta Mathematica
publication_identifier:
eissn:
- 1420-9020
issn:
- 4321-1234
issnl:
- 1022-1824
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: On the local-global principle for isogenies of abelian surfaces
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2024'
...
---
_id: '12875'
abstract:
- lang: eng
text: The superior colliculus (SC) in the mammalian midbrain is essential for multisensory
integration and is composed of a rich diversity of excitatory and inhibitory neurons
and glia. However, the developmental principles directing the generation of SC
cell-type diversity are not understood. Here, we pursued systematic cell lineage
tracing in silico and in vivo, preserving full spatial information, using genetic
mosaic analysis with double markers (MADM)-based clonal analysis with single-cell
sequencing (MADM-CloneSeq). The analysis of clonally related cell lineages revealed
that radial glial progenitors (RGPs) in SC are exceptionally multipotent. Individual
resident RGPs have the capacity to produce all excitatory and inhibitory SC neuron
types, even at the stage of terminal division. While individual clonal units show
no pre-defined cellular composition, the establishment of appropriate relative
proportions of distinct neuronal types occurs in a PTEN-dependent manner. Collectively,
our findings provide an inaugural framework at the single-RGP/-cell level of the
mammalian SC ontogeny.
acknowledged_ssus:
- _id: Bio
- _id: M-Shop
- _id: LifeSc
- _id: PreCl
acknowledgement: "We thank Liqun Luo for his continued support, for providing essential
resources for generating Fzd10-CreER mice which were generated in his laboratory,
and for comments on the manuscript; W. Zhong for providing Nestin-Cre transgenic
mouse line for this study; A. Heger for mouse colony management; R. Beattie and
T. Asenov for designing and producing components of acute slice recovery chamber
for MADM-CloneSeq experiments; and K. Leopold, J. Rodarte and N. Amberg for initial
experiments, technical support and/or assistance. This study was supported by the
Scientific Service Units (SSU) of IST Austria through resources provided by the
Imaging & Optics Facility (IOF), Laboratory Support Facility (LSF), Miba Machine
Shop, and Pre-clinical Facility (PCF). G.C. received funding from European Commission
(IST plus postdoctoral fellowship). This work was supported by ISTA institutional\r\nfunds;
the Austrian Science Fund Special Research Programmes (FWF SFB F78 Neuro Stem Modulation)
to S.H. "
article_processing_charge: Yes (via OA deal)
article_type: comment
author:
- first_name: Giselle T
full_name: Cheung, Giselle T
id: 471195F6-F248-11E8-B48F-1D18A9856A87
last_name: Cheung
orcid: 0000-0001-8457-2572
- first_name: Florian
full_name: Pauler, Florian
id: 48EA0138-F248-11E8-B48F-1D18A9856A87
last_name: Pauler
orcid: 0000-0002-7462-0048
- first_name: Peter
full_name: Koppensteiner, Peter
id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87
last_name: Koppensteiner
orcid: 0000-0002-3509-1948
- first_name: Thomas
full_name: Krausgruber, Thomas
last_name: Krausgruber
- first_name: Carmen
full_name: Streicher, Carmen
id: 36BCB99C-F248-11E8-B48F-1D18A9856A87
last_name: Streicher
- first_name: Martin
full_name: Schrammel, Martin
id: f13e7cae-e8bd-11ed-841a-96dedf69f46d
last_name: Schrammel
- first_name: Natalie Y
full_name: Özgen, Natalie Y
id: e68ece33-f6e0-11ea-865d-ae1031dcc090
last_name: Özgen
- first_name: Alexis
full_name: Ivec, Alexis
id: 1d144691-e8be-11ed-9b33-bdd3077fad4c
last_name: Ivec
- first_name: Christoph
full_name: Bock, Christoph
last_name: Bock
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
date_created: 2023-04-27T09:41:48Z
date_published: 2024-01-17T00:00:00Z
date_updated: 2025-05-14T09:39:37Z
day: '17'
ddc:
- '570'
department:
- _id: SiHi
- _id: RySh
doi: 10.1016/j.neuron.2023.11.009
external_id:
pmid:
- '38096816'
file:
- access_level: open_access
checksum: 32b3788f7085cf44a84108d8faaff3ce
content_type: application/pdf
creator: dernst
date_created: 2024-02-06T13:56:15Z
date_updated: 2024-02-06T13:56:15Z
file_id: '14944'
file_name: 2024_Neuron_Cheung.pdf
file_size: 5942467
relation: main_file
success: 1
file_date_updated: 2024-02-06T13:56:15Z
has_accepted_license: '1'
intvolume: ' 112'
issue: '2'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 230-246.e11
pmid: 1
project:
- _id: 059F6AB4-7A3F-11EA-A408-12923DDC885E
grant_number: F07805
name: Molecular Mechanisms of Neural Stem Cell Lineage Progression
publication: Neuron
publication_identifier:
eisbn:
- '1234995621'
issn:
- 0896-6273
issnl:
- 1234-5678
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/the-pedigree-of-brain-cells/
scopus_import: '1'
status: public
title: Multipotent progenitors instruct ontogeny of the superior colliculus
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: 112
year: '2024'
...
---
_id: '14213'
abstract:
- lang: eng
text: We introduce a method to segment the visual field into independently moving
regions, trained with no ground truth or supervision. It consists of an adversarial
conditional encoder-decoder architecture based on Slot Attention, modified to
use the image as context to decode optical flow without attempting to reconstruct
the image itself. In the resulting multi-modal representation, one modality (flow)
feeds the encoder to produce separate latent codes (slots), whereas the other
modality (image) conditions the decoder to generate the first (flow) from the
slots. This design frees the representation from having to encode complex nuisance
variability in the image due to, for instance, illumination and reflectance properties
of the scene. Since customary autoencoding based on minimizing the reconstruction
error does not preclude the entire flow from being encoded into a single slot,
we modify the loss to an adversarial criterion based on Contextual Information
Separation. The resulting min-max optimization fosters the separation of objects
and their assignment to different attention slots, leading to Divided Attention,
or DivA. DivA outperforms recent unsupervised multi-object motion segmentation
methods while tripling run-time speed up to 104FPS and reducing the performance
gap from supervised methods to 12% or less. DivA can handle different numbers
of objects and different image sizes at training and test time, is invariant to
permutation of object labels, and does not require explicit regularization.
article_processing_charge: No
arxiv: 1
author:
- first_name: Dong
full_name: Lao, Dong
last_name: Lao
- first_name: Zhengyang
full_name: Hu, Zhengyang
last_name: Hu
- first_name: Francesco
full_name: Locatello, Francesco
id: 26cfd52f-2483-11ee-8040-88983bcc06d4
last_name: Locatello
orcid: 0000-0002-4850-0683
- first_name: Yanchao
full_name: Yang, Yanchao
last_name: Yang
- first_name: Stefano
full_name: Soatto, Stefano
last_name: Soatto
conference:
end_date: 2024-01-03
location: Hong Kong, China
name: 'CPAL: Conference on Parsimony and Learning'
start_date: 2024-01-03
date_created: 2023-08-22T14:19:59Z
date_published: 2024-01-03T00:00:00Z
date_updated: 2025-02-13T08:10:28Z
day: '03'
ddc:
- '000'
department:
- _id: FrLo
external_id:
arxiv:
- '2304.01430'
file:
- access_level: open_access
checksum: 8fad894c34f1b3d5a14fb8ffb12f7277
content_type: application/pdf
creator: dernst
date_created: 2024-02-12T08:40:36Z
date_updated: 2024-02-12T08:40:36Z
file_id: '14978'
file_name: 2024_CPAL_Lao.pdf
file_size: 8038511
relation: main_file
success: 1
file_date_updated: 2024-02-12T08:40:36Z
has_accepted_license: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: 1st Conference on Parsimony and Learning
publication_identifier:
issnl:
- 1234-4321
publication_status: published
quality_controlled: '1'
status: public
title: 'Divided attention: Unsupervised multi-object discovery with contextually separated
slots'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '14251'
abstract:
- lang: eng
text: The phytohormone auxin and its directional transport through tissues play
a fundamental role in development of higher plants. This polar auxin transport
predominantly relies on PIN-FORMED (PIN) auxin exporters. Hence, PIN polarization
is crucial for development, but its evolution during the rise of morphological
complexity in land plants remains unclear. Here, we performed a cross-species
investigation by observing the trafficking and localization of endogenous and
exogenous PINs in two bryophytes, Physcomitrium patens and Marchantia polymorpha,
and in the flowering plant Arabidopsis thaliana. We confirmed that the GFP fusion
did not compromise the auxin export function of all examined PINs by using radioactive
auxin export assay and by observing the phenotypic changes in transgenic bryophytes.
Endogenous PINs polarize to filamentous apices, while exogenous Arabidopsis PINs
distribute symmetrically on the membrane in both bryophytes. In Arabidopsis root
epidermis, bryophytic PINs show no defined polarity. Pharmacological interference
revealed a strong cytoskeleton dependence of bryophytic but not Arabidopsis PIN
polarization. The divergence of PIN polarization and trafficking is also observed
within the bryophyte clade and between tissues of individual species. These results
collectively reveal a divergence of PIN trafficking and polarity mechanisms throughout
land plant evolution and a co-evolution of PIN sequence-based and cell-based polarity
mechanisms.
acknowledgement: This work was supported by the ERC grant (PR1023ERC02) to H. T. and
J. F., and by the ministry of science and technology (grant number 110-2636-B-005-001)
to K. J. L.
article_number: '100669'
article_processing_charge: Yes
article_type: original
author:
- first_name: Han
full_name: Tang, Han
id: 19BDF720-25A0-11EA-AC6E-928F3DDC885E
last_name: Tang
orcid: 0000-0001-6152-6637
- first_name: KJ
full_name: Lu, KJ
last_name: Lu
- first_name: Y
full_name: Zhang, Y
last_name: Zhang
- first_name: YL
full_name: Cheng, YL
last_name: Cheng
- first_name: SL
full_name: Tu, SL
last_name: Tu
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Tang H, Lu K, Zhang Y, Cheng Y, Tu S, Friml J. Divergence of trafficking and
polarization mechanisms for PIN auxin transporters during land plant evolution.
Plant Communications. 2024;5(1). doi:10.1016/j.xplc.2023.100669
apa: Tang, H., Lu, K., Zhang, Y., Cheng, Y., Tu, S., & Friml, J. (2024). Divergence
of trafficking and polarization mechanisms for PIN auxin transporters during land
plant evolution. Plant Communications. Elsevier. https://doi.org/10.1016/j.xplc.2023.100669
chicago: Tang, Han, KJ Lu, Y Zhang, YL Cheng, SL Tu, and Jiří Friml. “Divergence
of Trafficking and Polarization Mechanisms for PIN Auxin Transporters during Land
Plant Evolution.” Plant Communications. Elsevier, 2024. https://doi.org/10.1016/j.xplc.2023.100669.
ieee: H. Tang, K. Lu, Y. Zhang, Y. Cheng, S. Tu, and J. Friml, “Divergence of trafficking
and polarization mechanisms for PIN auxin transporters during land plant evolution,”
Plant Communications, vol. 5, no. 1. Elsevier, 2024.
ista: Tang H, Lu K, Zhang Y, Cheng Y, Tu S, Friml J. 2024. Divergence of trafficking
and polarization mechanisms for PIN auxin transporters during land plant evolution.
Plant Communications. 5(1), 100669.
mla: Tang, Han, et al. “Divergence of Trafficking and Polarization Mechanisms for
PIN Auxin Transporters during Land Plant Evolution.” Plant Communications,
vol. 5, no. 1, 100669, Elsevier, 2024, doi:10.1016/j.xplc.2023.100669.
short: H. Tang, K. Lu, Y. Zhang, Y. Cheng, S. Tu, J. Friml, Plant Communications
5 (2024).
date_created: 2023-09-01T11:32:02Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2025-07-02T12:51:02Z
day: '08'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1016/j.xplc.2023.100669
ec_funded: 1
external_id:
pmid:
- '37528584'
file:
- access_level: open_access
checksum: edbc44c6d4a394d2bf70f92fdbb08f0a
content_type: application/pdf
creator: dernst
date_created: 2024-01-30T12:59:57Z
date_updated: 2024-01-30T12:59:57Z
file_id: '14911'
file_name: 2023_PlantCommunications_Tang.pdf
file_size: 2825565
relation: main_file
success: 1
file_date_updated: 2024-01-30T12:59:57Z
has_accepted_license: '1'
intvolume: ' 5'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
publication: Plant Communications
publication_identifier:
issn:
- 2590-3462
issnl:
- 1234-4567
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Divergence of trafficking and polarization mechanisms for PIN auxin transporters
during land plant evolution
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2024'
...
---
_id: '14479'
abstract:
- lang: eng
text: 'In animals, parasitic infections impose significant fitness costs.1,2,3,4,5,6
Infected animals can alter their feeding behavior to resist infection,7,8,9,10,11,12
but parasites can manipulate animal foraging behavior to their own benefits.13,14,15,16
How nutrition influences host-parasite interactions is not well understood, as
studies have mainly focused on the host and less on the parasite.9,12,17,18,19,20,21,22,23
We used the nutritional geometry framework24 to investigate the role of amino
acids (AA) and carbohydrates (C) in a host-parasite system: the Argentine ant,
Linepithema humile, and the entomopathogenic fungus, Metarhizium brunneum. First,
using 18 diets varying in AA:C composition, we established that the fungus performed
best on the high-amino-acid diet 1:4. Second, we found that the fungus reached
this optimal diet when given various diet pairings, revealing its ability to cope
with nutritional challenges. Third, we showed that the optimal fungal diet reduced
the lifespan of healthy ants when compared with a high-carbohydrate diet but had
no effect on infected ants. Fourth, we revealed that infected ant colonies, given
a choice between the optimal fungal diet and a high-carbohydrate diet, chose the
optimal fungal diet, whereas healthy colonies avoided it. Lastly, by disentangling
fungal infection from host immune response, we demonstrated that infected ants
foraged on the optimal fungal diet in response to immune activation and not as
a result of parasite manipulation. Therefore, we revealed that infected ant colonies
chose a diet that is costly for survival in the long term but beneficial in the
short term—a form of collective self-medication.'
acknowledgement: We are sincerely grateful to the referees for their valuable comments
and suggestions, which helped us to improve the paper. We are thankful to Jorgen
Eilenberg and Nicolai V. Meyling for the fungal strain, to Simon Tragust, Abel Bernadou,
and Brian Lazarro for insightful discussions, to Iago Sanmartín-Villar, Léa Briard,
Céline Maitrel, and Nolwenn Rissen for their help with the experiments. Furthermore,
we thank Anna V. Grasse for help with the immune gene expression analyses. We thank
Sergio Ibarra for creating the graphical abstract. E.C. was supported by a Fyssen
Foundation grant and the Alexander von Humboldt Foundation. A.D. was supported by
the CNRS.
article_processing_charge: No
article_type: original
author:
- first_name: Eniko
full_name: Csata, Eniko
last_name: Csata
- first_name: Alfonso
full_name: Perez-Escudero, Alfonso
last_name: Perez-Escudero
- first_name: Emmanuel
full_name: Laury, Emmanuel
last_name: Laury
- first_name: Hanna
full_name: Leitner, Hanna
id: 8fc5c6f6-5903-11ec-abad-c83f046253e7
last_name: Leitner
- first_name: Gerard
full_name: Latil, Gerard
last_name: Latil
- first_name: Juerge
full_name: Heinze, Juerge
last_name: Heinze
- first_name: Stephen
full_name: Simpson, Stephen
last_name: Simpson
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Audrey
full_name: Dussutour, Audrey
last_name: Dussutour
citation:
ama: Csata E, Perez-Escudero A, Laury E, et al. Fungal infection alters collective
nutritional intake of ant colonies. Current Biology. 2024;34(4):902-909.e6.
doi:10.1016/j.cub.2024.01.017
apa: Csata, E., Perez-Escudero, A., Laury, E., Leitner, H., Latil, G., Heinze, J.,
… Dussutour, A. (2024). Fungal infection alters collective nutritional intake
of ant colonies. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2024.01.017
chicago: Csata, Eniko, Alfonso Perez-Escudero, Emmanuel Laury, Hanna Leitner, Gerard
Latil, Juerge Heinze, Stephen Simpson, Sylvia Cremer, and Audrey Dussutour. “Fungal
Infection Alters Collective Nutritional Intake of Ant Colonies.” Current Biology.
Elsevier, 2024. https://doi.org/10.1016/j.cub.2024.01.017.
ieee: E. Csata et al., “Fungal infection alters collective nutritional intake
of ant colonies,” Current Biology, vol. 34, no. 4. Elsevier, p. 902–909.e6,
2024.
ista: Csata E, Perez-Escudero A, Laury E, Leitner H, Latil G, Heinze J, Simpson
S, Cremer S, Dussutour A. 2024. Fungal infection alters collective nutritional
intake of ant colonies. Current Biology. 34(4), 902–909.e6.
mla: Csata, Eniko, et al. “Fungal Infection Alters Collective Nutritional Intake
of Ant Colonies.” Current Biology, vol. 34, no. 4, Elsevier, 2024, p. 902–909.e6,
doi:10.1016/j.cub.2024.01.017.
short: E. Csata, A. Perez-Escudero, E. Laury, H. Leitner, G. Latil, J. Heinze, S.
Simpson, S. Cremer, A. Dussutour, Current Biology 34 (2024) 902–909.e6.
dataavailabilitystatement: no DAS
date_created: 2023-10-31T13:30:20Z
date_published: 2024-02-26T00:00:00Z
date_updated: 2026-03-18T11:15:21Z
day: '26'
department:
- _id: SyCr
doi: 10.1016/j.cub.2024.01.017
external_id:
pmid:
- '38307022'
intvolume: ' 34'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2023.10.26.564092
month: '02'
oa: 1
oa_version: Preprint
page: 902-909.e6
pmid: 1
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
issn:
- 0960-9822
issnl:
- 1234-5678
publication_status: published
publisher: Elsevier
quality_controlled: '1'
researchdata_availability: unclear
scopus_import: '1'
status: public
supplementarymaterial: yes
title: Fungal infection alters collective nutritional intake of ant colonies
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2024'
...
---
_id: '14705'
abstract:
- lang: eng
text: Since the commercialization of brine shrimp (genus Artemia) in the 1950s,
this lineage, and in particular the model species Artemia franciscana, has been
the subject of extensive research. However, our understanding of the genetic mechanisms
underlying various aspects of their reproductive biology, including sex determination,
are still lacking. This is partly due to the scarcity of genomic resources for
Artemia species and crustaceans in general. Here, we present a chromosome-level
genome assembly of Artemia franciscana (Kellogg 1906), from the Great Salt Lake,
USA. The genome is 1GB, and the majority of the genome (81%) is scaffolded into
21 linkage groups using a previously published high-density linkage map. We performed
coverage and FST analyses using male and female genomic and transcriptomic reads
to quantify the extent of differentiation between the Z and W chromosomes. Additionally,
we quantified the expression levels in male and female heads and gonads and found
further evidence for dosage compensation in this species.
article_processing_charge: No
author:
- first_name: Marwan N
full_name: Elkrewi, Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
citation:
ama: Elkrewi MN. Data from “Chromosome-level assembly of Artemia franciscana sheds
light on sex-chromosome differentiation.” 2024. doi:10.15479/AT:ISTA:14705
apa: Elkrewi, M. N. (2024). Data from “Chromosome-level assembly of Artemia franciscana
sheds light on sex-chromosome differentiation.” Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:14705
chicago: Elkrewi, Marwan N. “Data from ‘Chromosome-Level Assembly of Artemia Franciscana
Sheds Light on Sex-Chromosome Differentiation.’” Institute of Science and Technology
Austria, 2024. https://doi.org/10.15479/AT:ISTA:14705.
ieee: M. N. Elkrewi, “Data from ‘Chromosome-level assembly of Artemia franciscana
sheds light on sex-chromosome differentiation.’” Institute of Science and Technology
Austria, 2024.
ista: Elkrewi MN. 2024. Data from ‘Chromosome-level assembly of Artemia franciscana
sheds light on sex-chromosome differentiation’, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:14705.
mla: Elkrewi, Marwan N. Data from “Chromosome-Level Assembly of Artemia Franciscana
Sheds Light on Sex-Chromosome Differentiation.” Institute of Science and Technology
Austria, 2024, doi:10.15479/AT:ISTA:14705.
short: M.N. Elkrewi, (2024).
contributor:
- contributor_type: researcher
first_name: Vincent K
id: 57854184-AAE0-11E9-8D04-98D6E5697425
last_name: Bett
- contributor_type: project_member
first_name: Ariana
id: 2A0848E2-F248-11E8-B48F-1D18A9856A87
last_name: Macon
- contributor_type: supervisor
first_name: Beatriz
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- contributor_type: researcher
first_name: Marwan N
id: 0B46FACA-A8E1-11E9-9BD3-79D1E5697425
last_name: Elkrewi
orcid: 0000-0002-5328-7231
date_created: 2023-12-22T13:40:48Z
date_published: 2024-01-02T00:00:00Z
date_updated: 2026-05-18T12:46:40Z
day: '02'
ddc:
- '576'
department:
- _id: GradSch
- _id: BeVi
doi: 10.15479/AT:ISTA:14705
has_accepted_license: '1'
keyword:
- sex chromosome evolution
- genome assembly
- dosage compensation
month: '01'
oa_version: Published Version
project:
- _id: 34ae1506-11ca-11ed-8bc3-c14f4c474396
grant_number: F8810
name: The highjacking of meiosis for asexual reproduction
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '15009'
relation: used_in_publication
status: public
retracted: '1'
status: public
title: Data from "Chromosome-level assembly of Artemia franciscana sheds light on
sex-chromosome differentiation"
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '14711'
abstract:
- lang: eng
text: "In nature, different species find their niche in a range of environments,
each with its unique characteristics. While some thrive in uniform (homogeneous)
landscapes where environmental conditions stay relatively consistent across space,
others traverse the complexities of spatially heterogeneous terrains. Comprehending
how species are distributed and how they interact within these landscapes holds
the key to gaining insights into their evolutionary dynamics while also informing
conservation and management strategies.\r\n\r\nFor species inhabiting heterogeneous
landscapes, when the rate of dispersal is low compared to spatial fluctuations
in selection pressure, localized adaptations may emerge. Such adaptation in response
to varying selection strengths plays an important role in the persistence of populations
in our rapidly changing world. Hence, species in nature are continuously in a
struggle to adapt to local environmental conditions, to ensure their continued
survival. Natural populations can often adapt in time scales short enough for
evolutionary changes to influence ecological dynamics and vice versa, thereby
creating a feedback between evolution and demography. The analysis of this feedback
and the relative contributions of gene flow, demography, drift, and natural selection
to genetic variation and differentiation has remained a recurring theme in evolutionary
biology. Nevertheless, the effective role of these forces in maintaining variation
and shaping patterns of diversity is not fully understood. Even in homogeneous
environments devoid of local adaptations, such understanding remains elusive.
Understanding this feedback is crucial, for example in determining the conditions
under which extinction risk can be mitigated in peripheral populations subject
to deleterious mutation accumulation at the edges of species’ ranges\r\nas well
as in highly fragmented populations.\r\n\r\nIn this thesis we explore both uniform
and spatially heterogeneous metapopulations, investigating and providing theoretical
insights into the dynamics of local adaptation in the latter and examining the
dynamics of load and extinction as well as the impact of joint ecological and
evolutionary (eco-evolutionary) dynamics in the former. The thesis is divided
into 5 chapters.\r\n\r\nChapter 1 provides a general introduction into the subject
matter, clarifying concepts and ideas used throughout the thesis. In chapter 2,
we explore how fast a species distributed across a heterogeneous landscape adapts
to changing conditions marked by alterations in carrying capacity, selection pressure,
and migration rate.\r\n\r\nIn chapter 3, we investigate how migration selection
and drift influences adaptation and the maintenance of variation in a metapopulation
with three habitats, an extension of previous models of adaptation in two habitats.
We further develop analytical approximations for the critical threshold required
for polymorphism to persist.\r\n\r\nThe focus of chapter 4 of the thesis is on
understanding the interplay between ecology and evolution as coupled processes.
We investigate how eco-evolutionary feedback between migration, selection, drift,
and demography influences eco-evolutionary outcomes in marginal populations subject
to deleterious mutation accumulation. Using simulations as well as theoretical
approximations of the coupled dynamics of population size and allele frequency,
we analyze how gene flow from a large mainland source influences genetic load
and population size on an island (i.e., in a marginal population) under genetically
realistic assumptions. Analyses of this sort are important because small isolated
populations, are repeatedly affected by complex interactions between ecological
and evolutionary processes, which can lead to their death. Understanding these
interactions can therefore provide an insight into the conditions under which
extinction risk can be mitigated in peripheral populations thus, contributing
to conservation and restoration efforts.\r\n\r\nChapter 5 extends the analysis
in chapter 4 to consider the dynamics of load (due to deleterious mutation accumulation)
and extinction risk in a metapopulation. We explore the role of gene flow, selection,
and dominance on load and extinction risk and further pinpoint critical thresholds
required for metapopulation persistence.\r\n\r\nOverall this research contributes
to our understanding of ecological and evolutionary mechanisms that shape species’
persistence in fragmented landscapes, a crucial foundation for successful conservation
efforts and biodiversity management."
acknowledged_ssus:
- _id: SSU
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Oluwafunmilola O
full_name: Olusanya, Oluwafunmilola O
id: 41AD96DC-F248-11E8-B48F-1D18A9856A87
last_name: Olusanya
orcid: 0000-0003-1971-8314
date_created: 2023-12-26T22:49:53Z
date_published: 2024-01-19T00:00:00Z
date_updated: 2025-05-26T09:05:10Z
day: '19'
ddc:
- '576'
degree_awarded: MS
department:
- _id: NiBa
- _id: GradSch
doi: 10.15479/at:ista:14711
ec_funded: 1
file:
- access_level: closed
checksum: de179b1c6758f182ff0c70d8b38c1501
content_type: application/zip
creator: oolusany
date_created: 2024-01-03T18:30:13Z
date_updated: 2024-01-03T18:30:13Z
file_id: '14730'
file_name: FinalSubmission_Thesis_OLUSANYA.zip
file_size: 16986244
relation: source_file
- access_level: open_access
checksum: 0e331585e3cd4823320aab4e69e64ccf
content_type: application/pdf
creator: oolusany
date_created: 2024-01-03T18:31:34Z
date_updated: 2024-01-03T18:31:34Z
file_id: '14731'
file_name: FinalSubmission2_Thesis_OLUSANYA.pdf
file_size: 6460403
relation: main_file
success: 1
file_date_updated: 2024-01-03T18:31:34Z
has_accepted_license: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: '183'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: c08d3278-5a5b-11eb-8a69-fdb09b55f4b8
grant_number: P32896
name: Causes and consequences of population fragmentation
- _id: 34c872fe-11ca-11ed-8bc3-8534b82131e6
grant_number: '26380'
name: Polygenic Adaptation in a Metapopulation
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '10658'
relation: part_of_dissertation
status: public
- id: '10787'
relation: part_of_dissertation
status: public
- id: '14732'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Jitka
full_name: Polechova, Jitka
last_name: Polechova
- first_name: Himani
full_name: Sachdeva, Himani
last_name: Sachdeva
title: Local adaptation, genetic load and extinction in metapopulations
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '14769'
abstract:
- lang: eng
text: 'For a set of points in Rd, the Euclidean k-means problems consists of finding
k centers such that the sum of distances squared from each data point to its closest
center is minimized. Coresets are one the main tools developed recently to solve
this problem in a big data context. They allow to compress the initial dataset
while preserving its structure: running any algorithm on the coreset provides
a guarantee almost equivalent to running it on the full data. In this work, we
study coresets in a fully-dynamic setting: points are added and deleted with the
goal to efficiently maintain a coreset with which a k-means solution can be computed.
Based on an algorithm from Henzinger and Kale [ESA''20], we present an efficient
and practical implementation of a fully dynamic coreset algorithm, that improves
the running time by up to a factor of 20 compared to our non-optimized implementation
of the algorithm by Henzinger and Kale, without sacrificing more than 7% on the
quality of the k-means solution.'
acknowledgement: This project has received funding from the Euro-pean Research Council (ERC) under the EuropeanUnion’s Horizon 2020 research and innovation programme (Grant agreement No. 101019564 “The De-sign of Modern Fully Dynamic Data Structures (Mo-DynStruct)” and the Austrian Science Fund (FWF)project
Z 422-N, project “Static and Dynamic Hierar-chical Graph Decompositions”, I 5982-N, and project“Fast Algorithms for a Reactive Network Layer (Re-actNet)”,
P 33775-N, with additional funding from thenetidee SCIENCE Stiftung, 2020–2024.D. Sauplic has received funding from the Euro-pean Union’s Horizon 2020 research and innovation
programme under the Marie Sklodowska-Curie grant agreementNo 101034413.
article_processing_charge: No
arxiv: 1
author:
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: David
full_name: Saulpic, David
id: f8e48cf0-b0ff-11ed-b0e9-b4c35598f964
last_name: Saulpic
- first_name: Leonhard
full_name: Sidl, Leonhard
id: 8b563fd0-b441-11ee-9101-a3891c61efa6
last_name: Sidl
citation:
ama: 'Henzinger MH, Saulpic D, Sidl L. Experimental evaluation of fully dynamic
k-means via coresets. In: 2024 Proceedings of the Symposium on Algorithm Engineering
and Experiments. Society for Industrial & Applied Mathematics; 2024:220-233.
doi:10.1137/1.9781611977929.17'
apa: 'Henzinger, M. H., Saulpic, D., & Sidl, L. (2024). Experimental evaluation
of fully dynamic k-means via coresets. In 2024 Proceedings of the Symposium
on Algorithm Engineering and Experiments (pp. 220–233). Alexandria, VA, United
States: Society for Industrial & Applied Mathematics. https://doi.org/10.1137/1.9781611977929.17'
chicago: Henzinger, Monika H, David Saulpic, and Leonhard Sidl. “Experimental Evaluation
of Fully Dynamic K-Means via Coresets.” In 2024 Proceedings of the Symposium
on Algorithm Engineering and Experiments, 220–33. Society for Industrial &
Applied Mathematics, 2024. https://doi.org/10.1137/1.9781611977929.17.
ieee: M. H. Henzinger, D. Saulpic, and L. Sidl, “Experimental evaluation of fully
dynamic k-means via coresets,” in 2024 Proceedings of the Symposium on Algorithm
Engineering and Experiments, Alexandria, VA, United States, 2024, pp. 220–233.
ista: 'Henzinger MH, Saulpic D, Sidl L. 2024. Experimental evaluation of fully dynamic
k-means via coresets. 2024 Proceedings of the Symposium on Algorithm Engineering
and Experiments. ALENEX: Workshop on Algorithm Engineering and Experiments, 220–233.'
mla: Henzinger, Monika H., et al. “Experimental Evaluation of Fully Dynamic K-Means
via Coresets.” 2024 Proceedings of the Symposium on Algorithm Engineering and
Experiments, Society for Industrial & Applied Mathematics, 2024, pp. 220–33,
doi:10.1137/1.9781611977929.17.
short: M.H. Henzinger, D. Saulpic, L. Sidl, in:, 2024 Proceedings of the Symposium
on Algorithm Engineering and Experiments, Society for Industrial & Applied
Mathematics, 2024, pp. 220–233.
conference:
end_date: 2024-01-08
location: Alexandria, VA, United States
name: 'ALENEX: Workshop on Algorithm Engineering and Experiments'
start_date: 2024-01-07
date_created: 2024-01-09T16:22:47Z
date_published: 2024-01-04T00:00:00Z
date_updated: 2025-07-15T12:51:52Z
day: '04'
department:
- _id: MoHe
doi: 10.1137/1.9781611977929.17
ec_funded: 1
external_id:
arxiv:
- '2310.18034'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2310.18034
month: '01'
oa: 1
oa_version: Preprint
page: 220-233
project:
- _id: bd9ca328-d553-11ed-ba76-dc4f890cfe62
call_identifier: H2020
grant_number: '101019564'
name: The design and evaluation of modern fully dynamic data structures
- _id: 34def286-11ca-11ed-8bc3-da5948e1613c
grant_number: Z00422
name: Wittgenstein Award - Monika Henzinger
- _id: bda196b2-d553-11ed-ba76-8e8ee6c21103
grant_number: I05982
name: Static and Dynamic Hierarchical Graph Decompositions
- _id: bd9e3a2e-d553-11ed-ba76-8aa684ce17fe
grant_number: 'P33775 '
name: Fast Algorithms for a Reactive Network Layer
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: 2024 Proceedings of the Symposium on Algorithm Engineering and Experiments
publication_identifier:
eisbn:
- '9781611977929'
publication_status: published
publisher: Society for Industrial & Applied Mathematics
quality_controlled: '1'
scopus_import: '1'
status: public
title: Experimental evaluation of fully dynamic k-means via coresets
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
APC_amount: '12345'
_id: '14793'
abstract:
- lang: eng
text: Superconductor/semiconductor hybrid devices have attracted increasing interest
in the past years. Superconducting electronics aims to complement semiconductor
technology, while hybrid architectures are at the forefront of new ideas such
as topological superconductivity and protected qubits. In this work, we engineer
the induced superconductivity in two-dimensional germanium hole gas by varying
the distance between the quantum well and the aluminum. We demonstrate a hard
superconducting gap and realize an electrically and flux tunable superconducting
diode using a superconducting quantum interference device (SQUID). This allows
to tune the current phase relation (CPR), to a regime where single Cooper pair
tunneling is suppressed, creating a sin(2y) CPR. Shapiro experiments complement
this interpretation and the microwave drive allows to create a diode with ≈ 100%
efficiency. The reported results open up the path towards integration of spin
qubit devices, microwave resonators and (protected) superconducting qubits on the
same silicon technology compatible platform.
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
acknowledgement: "We acknowledge Alexander Brinkmann, Alessandro Crippa, Francesco
Giazotto, Andrew Higginbotham, Andrea Iorio, Giordano Scappucci, Christian Schonenberger,
and Lukas Splitthoff for helpful discussions. We thank Marcel Verheijen for the
support in the TEM analysis. This research and related results were made possible
with the support of the NOMIS\r\nFoundation. It was supported by the Scientific
Service Units of ISTA through resources provided by the MIBA Machine Shop and the
nanofabrication facility, the European Union’s Horizon 2020 research andinnovation
programme under Grant Agreement No 862046, the HORIZONRIA\r\n101069515 project,
the European Innovation Council Pathfinder grant no. 101115315 (QuKiT), and the
FWF Projects #P-32235, #P-36507 and #F-8606. For the purpose of open access, the
authors have applied a CC BY public copyright licence to any Author Accepted Manuscript
version arising from this submission. R.S.S. acknowledges Spanish CM “Talento Program\"\r\nProject
No. 2022-T1/IND-24070. J.J. acknowledges European Research Council TOCINA 834290."
article_number: '169'
article_processing_charge: Yes
article_type: original
author:
- first_name: Marco
full_name: Valentini, Marco
id: C0BB2FAC-D767-11E9-B658-BC13E6697425
last_name: Valentini
- first_name: Oliver
full_name: Sagi, Oliver
id: 71616374-A8E9-11E9-A7CA-09ECE5697425
last_name: Sagi
- first_name: Levon
full_name: Baghumyan, Levon
id: 7aa1f788-b527-11ee-aa9e-e6111a79e0c7
last_name: Baghumyan
- first_name: Thijs
full_name: de Gijsel, Thijs
id: a0ece13c-b527-11ee-929d-bad130106eee
last_name: de Gijsel
- first_name: Jason
full_name: Jung, Jason
id: 4C9ACE7A-F248-11E8-B48F-1D18A9856A87
last_name: Jung
- first_name: Stefano
full_name: Calcaterra, Stefano
last_name: Calcaterra
- first_name: Andrea
full_name: Ballabio, Andrea
last_name: Ballabio
- first_name: Juan L
full_name: Aguilera Servin, Juan L
id: 2A67C376-F248-11E8-B48F-1D18A9856A87
last_name: Aguilera Servin
orcid: 0000-0002-2862-8372
- first_name: Kushagra
full_name: Aggarwal, Kushagra
id: b22ab905-3539-11eb-84c3-fc159dcd79cb
last_name: Aggarwal
orcid: 0000-0001-9985-9293
- first_name: Marian
full_name: Janik, Marian
id: 396A1950-F248-11E8-B48F-1D18A9856A87
last_name: Janik
- first_name: Thomas
full_name: Adletzberger, Thomas
id: 38756BB2-F248-11E8-B48F-1D18A9856A87
last_name: Adletzberger
- first_name: Rubén
full_name: Seoane Souto, Rubén
last_name: Seoane Souto
- first_name: Martin
full_name: Leijnse, Martin
last_name: Leijnse
- first_name: Jeroen
full_name: Danon, Jeroen
last_name: Danon
- first_name: Constantin
full_name: Schrade, Constantin
last_name: Schrade
- first_name: Erik
full_name: Bakkers, Erik
last_name: Bakkers
- 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: Valentini M, Sagi O, Baghumyan L, et al. Parity-conserving Cooper-pair transport
and ideal superconducting diode in planar germanium. Nature Communications.
2024;15. doi:10.1038/s41467-023-44114-0
apa: Valentini, M., Sagi, O., Baghumyan, L., de Gijsel, T., Jung, J., Calcaterra,
S., … Katsaros, G. (2024). Parity-conserving Cooper-pair transport and ideal superconducting
diode in planar germanium. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-023-44114-0
chicago: Valentini, Marco, Oliver Sagi, Levon Baghumyan, Thijs de Gijsel, Jason
Jung, Stefano Calcaterra, Andrea Ballabio, et al. “Parity-Conserving Cooper-Pair
Transport and Ideal Superconducting Diode in Planar Germanium.” Nature Communications.
Springer Nature, 2024. https://doi.org/10.1038/s41467-023-44114-0.
ieee: M. Valentini et al., “Parity-conserving Cooper-pair transport and ideal
superconducting diode in planar germanium,” Nature Communications, vol.
15. Springer Nature, 2024.
ista: Valentini M, Sagi O, Baghumyan L, de Gijsel T, Jung J, Calcaterra S, Ballabio
A, Aguilera Servin JL, Aggarwal K, Janik M, Adletzberger T, Seoane Souto R, Leijnse
M, Danon J, Schrade C, Bakkers E, Chrastina D, Isella G, Katsaros G. 2024. Parity-conserving
Cooper-pair transport and ideal superconducting diode in planar germanium. Nature
Communications. 15, 169.
mla: Valentini, Marco, et al. “Parity-Conserving Cooper-Pair Transport and Ideal
Superconducting Diode in Planar Germanium.” Nature Communications, vol.
15, 169, Springer Nature, 2024, doi:10.1038/s41467-023-44114-0.
short: M. Valentini, O. Sagi, L. Baghumyan, T. de Gijsel, J. Jung, S. Calcaterra,
A. Ballabio, J.L. Aguilera Servin, K. Aggarwal, M. Janik, T. Adletzberger, R.
Seoane Souto, M. Leijnse, J. Danon, C. Schrade, E. Bakkers, D. Chrastina, G. Isella,
G. Katsaros, Nature Communications 15 (2024).
dataavailabilitystatement: All experimental data included in this work are available
at https://zenodo.org/records/10119346.
date_created: 2024-01-14T23:00:56Z
date_published: 2024-01-02T00:00:00Z
date_updated: 2026-02-26T11:39:00Z
day: '02'
ddc:
- '530'
department:
- _id: GeKa
doi: 10.1038/s41467-023-44114-0
ec_funded: 1
external_id:
oaworkID:
- w4390499170
pmid:
- '38167818'
file:
- access_level: open_access
checksum: ef79173b45eeaf984ffa61ef2f8a52ab
content_type: application/pdf
creator: dernst
date_created: 2024-01-17T11:03:00Z
date_updated: 2024-01-17T11:03:00Z
file_id: '14825'
file_name: 2024_NatureComm_Valentini.pdf
file_size: 2336595
relation: main_file
success: 1
file_date_updated: 2024-01-17T11:03:00Z
has_accepted_license: '1'
intvolume: ' 15'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 237E5020-32DE-11EA-91FC-C7463DDC885E
call_identifier: H2020
grant_number: '862046'
name: TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS
- _id: 34c0acea-11ca-11ed-8bc3-8775e10fd452
grant_number: '101069515'
name: Integrated GermaNIum quanTum tEchnology
- _id: bdc2ca30-d553-11ed-ba76-cf164a5bb811
grant_number: '101115315'
name: Quantum bits with Kitaev Transmons
- _id: 237B3DA4-32DE-11EA-91FC-C7463DDC885E
call_identifier: FWF
grant_number: P32235
name: Towards scalable hut wire quantum devices
- _id: bd8bd29e-d553-11ed-ba76-f0070d4b237a
grant_number: P36507
name: Merging spin and superconducting qubits in planar Ge
- _id: 34a66131-11ca-11ed-8bc3-a31681c6b03e
grant_number: F8606
name: Conventional and unconventional topological superconductors
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
researchdata_availability: yes
scopus_import: '1'
status: public
supplementarymaterial: yes
title: Parity-conserving Cooper-pair transport and ideal superconducting diode in
planar germanium
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: 15
year: '2024'
...
---
_id: '14794'
abstract:
- lang: eng
text: "Mosaic analysis with double markers (MADM) technology enables the sparse
labeling of genetically defined neurons. We present a protocol for time-lapse
imaging of cortical projection neuron migration in mice using MADM. We describe
steps for the isolation, culturing, and 4D imaging of neuronal dynamics in MADM-labeled
brain tissue. While this protocol is compatible with other single-cell labeling
methods, the MADM approach provides a genetic platform for the functional assessment
of cell-autonomous candidate gene function and the relative contribution of non-cell-autonomous
effects.\r\n\r\nFor complete details on the use and execution of this protocol,
please refer to Hansen et al. (2022),1 Contreras et al. (2021),2 and Amberg and
Hippenmeyer (2021).3"
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: We thank Florian Pauler for discussion and his expert technical support.
This research was supported by the Scientific Service Units (SSU) at IST Austria
through resources provided by the Imaging and Optics Facility (IOF) and Preclinical
Facility (PCF). A.H.H. was a recipient of a DOC Fellowship (24812) of the Austrian
Academy of Sciences.
article_number: '102795'
article_processing_charge: Yes
article_type: review
author:
- first_name: Andi H
full_name: Hansen, Andi H
id: 38853E16-F248-11E8-B48F-1D18A9856A87
last_name: Hansen
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Hansen AH, Hippenmeyer S. Time-lapse imaging of cortical projection neuron
migration in mice using mosaic analysis with double markers. STAR Protocols.
2024;5(1). doi:10.1016/j.xpro.2023.102795
apa: Hansen, A. H., & Hippenmeyer, S. (2024). Time-lapse imaging of cortical
projection neuron migration in mice using mosaic analysis with double markers.
STAR Protocols. Elsevier. https://doi.org/10.1016/j.xpro.2023.102795
chicago: Hansen, Andi H, and Simon Hippenmeyer. “Time-Lapse Imaging of Cortical
Projection Neuron Migration in Mice Using Mosaic Analysis with Double Markers.”
STAR Protocols. Elsevier, 2024. https://doi.org/10.1016/j.xpro.2023.102795.
ieee: A. H. Hansen and S. Hippenmeyer, “Time-lapse imaging of cortical projection
neuron migration in mice using mosaic analysis with double markers,” STAR Protocols,
vol. 5, no. 1. Elsevier, 2024.
ista: Hansen AH, Hippenmeyer S. 2024. Time-lapse imaging of cortical projection
neuron migration in mice using mosaic analysis with double markers. STAR Protocols.
5(1), 102795.
mla: Hansen, Andi H., and Simon Hippenmeyer. “Time-Lapse Imaging of Cortical Projection
Neuron Migration in Mice Using Mosaic Analysis with Double Markers.” STAR Protocols,
vol. 5, no. 1, 102795, Elsevier, 2024, doi:10.1016/j.xpro.2023.102795.
short: A.H. Hansen, S. Hippenmeyer, STAR Protocols 5 (2024).
date_created: 2024-01-14T23:00:56Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2025-08-11T11:49:30Z
day: '01'
department:
- _id: SiHi
doi: 10.1016/j.xpro.2023.102795
external_id:
oaworkID:
- '34426698 '
pmid:
- '38165800'
intvolume: ' 5'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.xpro.2023.102795
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2625A13E-B435-11E9-9278-68D0E5697425
grant_number: '24812'
name: Molecular Mechanisms of Radial Neuronal Migration
publication: STAR Protocols
publication_identifier:
eissn:
- 2666-1667
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- relation: software
url: http://github.com/hippenmeyerlab
scopus_import: '1'
status: public
title: Time-lapse imaging of cortical projection neuron migration in mice using mosaic
analysis with double markers
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2024'
...
---
_id: '14795'
abstract:
- lang: eng
text: Metazoan development relies on the formation and remodeling of cell-cell contacts.
Dynamic reorganization of adhesion receptors and the actomyosin cell cortex in
space and time plays a central role in cell-cell contact formation and maturation.
Nevertheless, how this process is mechanistically achieved when new contacts are
formed remains unclear. Here, by building a biomimetic assay composed of progenitor
cells adhering to supported lipid bilayers functionalized with E-cadherin ectodomains,
we show that cortical F-actin flows, driven by the depletion of myosin-2 at the
cell contact center, mediate the dynamic reorganization of adhesion receptors
and cell cortex at the contact. E-cadherin-dependent downregulation of the small
GTPase RhoA at the forming contact leads to both a depletion of myosin-2 and a
decrease of F-actin at the contact center. At the contact rim, in contrast, myosin-2
becomes enriched by the retraction of bleb-like protrusions, resulting in a cortical
tension gradient from the contact rim to its center. This tension gradient, in
turn, triggers centrifugal F-actin flows, leading to further accumulation of F-actin
at the contact rim and the progressive redistribution of E-cadherin from the contact
center to the rim. Eventually, this combination of actomyosin downregulation and
flows at the contact determines the characteristic molecular organization, with
E-cadherin and F-actin accumulating at the contact rim, where they are needed
to mechanically link the contractile cortices of the adhering cells.
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: "We are grateful to Edwin Munro for their feedback and help with
the single particle analysis. We thank members of the Heisenberg and Loose labs
for their help and feedback on the manuscript, notably Xin Tong for making the PCS2-mCherry-AHPH
plasmid. Finally, we thank the Aquatics and Imaging & Optics facilities of ISTA
for their continuous support, especially Yann Cesbron for assistance with the laser
cutter. This work was supported by an ERC\r\nAdvanced Grant (MECSPEC) to C.-P.H."
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Feyza N
full_name: Arslan, Feyza N
id: 49DA7910-F248-11E8-B48F-1D18A9856A87
last_name: Arslan
orcid: 0000-0001-5809-9566
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Arslan FN, Hannezo EB, Merrin J, Loose M, Heisenberg C-PJ. Adhesion-induced
cortical flows pattern E-cadherin-mediated cell contacts. Current Biology.
2024;34(1):171-182.e8. doi:10.1016/j.cub.2023.11.067
apa: Arslan, F. N., Hannezo, E. B., Merrin, J., Loose, M., & Heisenberg, C.-P.
J. (2024). Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts.
Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2023.11.067
chicago: Arslan, Feyza N, Edouard B Hannezo, Jack Merrin, Martin Loose, and Carl-Philipp
J Heisenberg. “Adhesion-Induced Cortical Flows Pattern E-Cadherin-Mediated Cell
Contacts.” Current Biology. Elsevier, 2024. https://doi.org/10.1016/j.cub.2023.11.067.
ieee: F. N. Arslan, E. B. Hannezo, J. Merrin, M. Loose, and C.-P. J. Heisenberg,
“Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts,” Current
Biology, vol. 34, no. 1. Elsevier, p. 171–182.e8, 2024.
ista: Arslan FN, Hannezo EB, Merrin J, Loose M, Heisenberg C-PJ. 2024. Adhesion-induced
cortical flows pattern E-cadherin-mediated cell contacts. Current Biology. 34(1),
171–182.e8.
mla: Arslan, Feyza N., et al. “Adhesion-Induced Cortical Flows Pattern E-Cadherin-Mediated
Cell Contacts.” Current Biology, vol. 34, no. 1, Elsevier, 2024, p. 171–182.e8,
doi:10.1016/j.cub.2023.11.067.
short: F.N. Arslan, E.B. Hannezo, J. Merrin, M. Loose, C.-P.J. Heisenberg, Current
Biology 34 (2024) 171–182.e8.
corr_author: '1'
date_created: 2024-01-14T23:00:56Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2025-07-22T14:58:27Z
day: '08'
ddc:
- '570'
department:
- _id: CaHe
- _id: EdHa
- _id: MaLo
- _id: NanoFab
doi: 10.1016/j.cub.2023.11.067
ec_funded: 1
external_id:
arxiv:
- '2410.03589'
file:
- access_level: open_access
checksum: 51220b76d72a614208f84bdbfbaf9b72
content_type: application/pdf
creator: dernst
date_created: 2024-01-16T10:53:31Z
date_updated: 2024-01-16T10:53:31Z
file_id: '14813'
file_name: 2024_CurrentBiology_Arslan.pdf
file_size: 5183861
relation: main_file
success: 1
file_date_updated: 2024-01-16T10:53:31Z
has_accepted_license: '1'
intvolume: ' 34'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 171-182.e8
project:
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
issn:
- 0960-9822
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2024'
...
---
_id: '14797'
abstract:
- lang: eng
text: We study a random matching problem on closed compact 2 -dimensional Riemannian
manifolds (with respect to the squared Riemannian distance), with samples of random
points whose common law is absolutely continuous with respect to the volume measure
with strictly positive and bounded density. We show that given two sequences of
numbers n and m=m(n) of points, asymptotically equivalent as n goes to infinity,
the optimal transport plan between the two empirical measures μn and νm is
quantitatively well-approximated by (Id,exp(∇hn))#μn where hn solves a linear
elliptic PDE obtained by a regularized first-order linearization of the Monge-Ampère
equation. This is obtained in the case of samples of correlated random points
for which a stretched exponential decay of the α -mixing coefficient holds and
for a class of discrete-time Markov chains having a unique absolutely continuous
invariant measure with respect to the volume measure.
acknowledgement: "NC has received funding from the European Research Council (ERC)
under the European Union’s Horizon 2020 research and innovation programme (Grant
agreement No 948819).\r\nFM is supported by the Deutsche Forschungsgemeinschaft
(DFG, German Research Foundation) through the SPP 2265 Random Geometric Systems.
FM has been funded by the Deutsche Forschungsgemeinschaft (DFG, German Research
Foundation) under Germany’s Excellence Strategy EXC 2044 -390685587, Mathematics
Münster: Dynamics–Geometry–Structure. FM has been funded by the Max Planck Institute
for Mathematics in the Sciences."
article_processing_charge: Yes (in subscription journal)
article_type: original
arxiv: 1
author:
- first_name: Nicolas
full_name: Clozeau, Nicolas
id: fea1b376-906f-11eb-847d-b2c0cf46455b
last_name: Clozeau
- first_name: Francesco
full_name: Mattesini, Francesco
last_name: Mattesini
citation:
ama: Clozeau N, Mattesini F. Annealed quantitative estimates for the quadratic 2D-discrete
random matching problem. Probability Theory and Related Fields. 2024. doi:10.1007/s00440-023-01254-0
apa: Clozeau, N., & Mattesini, F. (2024). Annealed quantitative estimates for
the quadratic 2D-discrete random matching problem. Probability Theory and Related
Fields. Springer Nature. https://doi.org/10.1007/s00440-023-01254-0
chicago: Clozeau, Nicolas, and Francesco Mattesini. “Annealed Quantitative Estimates
for the Quadratic 2D-Discrete Random Matching Problem.” Probability Theory
and Related Fields. Springer Nature, 2024. https://doi.org/10.1007/s00440-023-01254-0.
ieee: N. Clozeau and F. Mattesini, “Annealed quantitative estimates for the quadratic
2D-discrete random matching problem,” Probability Theory and Related Fields.
Springer Nature, 2024.
ista: Clozeau N, Mattesini F. 2024. Annealed quantitative estimates for the quadratic
2D-discrete random matching problem. Probability Theory and Related Fields.
mla: Clozeau, Nicolas, and Francesco Mattesini. “Annealed Quantitative Estimates
for the Quadratic 2D-Discrete Random Matching Problem.” Probability Theory
and Related Fields, Springer Nature, 2024, doi:10.1007/s00440-023-01254-0.
short: N. Clozeau, F. Mattesini, Probability Theory and Related Fields (2024).
date_created: 2024-01-14T23:00:57Z
date_published: 2024-01-04T00:00:00Z
date_updated: 2025-08-12T12:22:41Z
day: '04'
ddc:
- '510'
department:
- _id: JuFi
doi: 10.1007/s00440-023-01254-0
ec_funded: 1
external_id:
arxiv:
- '2303.00353'
has_accepted_license: '1'
keyword:
- Troll
- Norway
- Fjell
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s00440-023-01254-0
month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 0aa76401-070f-11eb-9043-b5bb049fa26d
call_identifier: H2020
grant_number: '948819'
name: Bridging Scales in Random Materials
publication: Probability Theory and Related Fields
publication_identifier:
eissn:
- 1432-2064
issn:
- 0178-8051
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Annealed quantitative estimates for the quadratic 2D-discrete random matching
problem
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: '2024'
...
---
_id: '14802'
abstract:
- lang: eng
text: Frequency-stable lasers form the back bone of precision measurements in science
and technology. Such lasers typically attain their stability through frequency
locking to reference cavities. State-of-the-art locking performances to date had
been achieved using frequency modulation based methods, complemented with active
drift cancellation systems. We demonstrate an all passive, modulation-free laser-cavity
locking technique (squash locking) that utilizes changes in spatial beam ellipticity
for error signal generation, and a coherent polarization post-selection for noise
resilience. By comparing two identically built proof-of-principle systems, we
show a frequency locking instability of 5×10−7 relative to
the cavity linewidth at 10 s averaging. The results surpass the demonstrated performances
of methods engineered over the last five decades, potentially enabling an advancement
in the precision control of lasers, while creating avenues for bridging the performance
gaps between industrial grade lasers with scientific ones due to the afforded
simplicity and scalability.
acknowledgement: We thank Rishabh Sahu and Sebastian Wald for technical contributions
to the experiment. Funding by Institute of Science and Technology Austria.
article_processing_charge: Yes
article_type: original
arxiv: 1
author:
- first_name: Fritz R
full_name: Diorico, Fritz R
id: 2E054C4C-F248-11E8-B48F-1D18A9856A87
last_name: Diorico
orcid: 0000-0002-4947-8924
- first_name: Artem
full_name: Zhutov, Artem
id: 0f02ed6a-b514-11ee-b891-8379c5f19cb7
last_name: Zhutov
- first_name: Onur
full_name: Hosten, Onur
id: 4C02D85E-F248-11E8-B48F-1D18A9856A87
last_name: Hosten
orcid: 0000-0002-2031-204X
date_created: 2024-01-15T10:25:38Z
date_published: 2024-01-20T00:00:00Z
date_updated: 2024-08-19T09:52:20Z
day: '20'
ddc:
- '530'
department:
- _id: OnHo
doi: 10.1364/optica.507451
external_id:
arxiv:
- '2202.13212'
file:
- access_level: open_access
checksum: eb99ca7d0fe73e22f121875175546ed7
content_type: application/pdf
creator: dernst
date_created: 2024-01-17T08:53:16Z
date_updated: 2024-01-17T08:53:16Z
file_id: '14824'
file_name: 2023_Optica_Diorico.pdf
file_size: 4558986
relation: main_file
success: 1
file_date_updated: 2024-01-17T08:53:16Z
has_accepted_license: '1'
intvolume: ' 11'
issue: '1'
keyword:
- Atomic and Molecular Physics
- and Optics
- Electronic
- Optical and Magnetic Materials
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 26-31
publication: Optica
publication_identifier:
issn:
- 2334-2536
publication_status: published
publisher: Optica Publishing Group
quality_controlled: '1'
status: public
title: 'Laser-cavity locking utilizing beam ellipticity: accessing the 10−7
instability scale relative to cavity linewidth'
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: 11
year: '2024'
...
---
_id: '14821'
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Heloisa
full_name: Chiossi, Heloisa
id: 2BBA502C-F248-11E8-B48F-1D18A9856A87
last_name: Chiossi
citation:
ama: Chiossi HSC. Adaptive hierarchical representations in the hippocampus. 2024.
doi:10.15479/at:ista:14821
apa: Chiossi, H. S. C. (2024). Adaptive hierarchical representations in the hippocampus.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:14821
chicago: Chiossi, Heloisa S. C. “Adaptive Hierarchical Representations in the Hippocampus.”
Institute of Science and Technology Austria, 2024. https://doi.org/10.15479/at:ista:14821.
ieee: H. S. C. Chiossi, “Adaptive hierarchical representations in the hippocampus,”
Institute of Science and Technology Austria, 2024.
ista: Chiossi HSC. 2024. Adaptive hierarchical representations in the hippocampus.
Institute of Science and Technology Austria.
mla: Chiossi, Heloisa S. C. Adaptive Hierarchical Representations in the Hippocampus.
Institute of Science and Technology Austria, 2024, doi:10.15479/at:ista:14821.
short: H.S.C. Chiossi, Adaptive Hierarchical Representations in the Hippocampus,
Institute of Science and Technology Austria, 2024.
date_created: 2024-01-16T14:25:21Z
date_published: 2024-01-19T00:00:00Z
date_updated: 2024-02-01T09:50:29Z
day: '19'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JoCs
doi: 10.15479/at:ista:14821
ec_funded: 1
file:
- access_level: closed
checksum: d3fa3de1abd5af5204c13e9d55375615
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: hchiossi
date_created: 2024-01-19T11:04:05Z
date_updated: 2024-01-19T11:04:05Z
file_id: '14838'
file_name: PhD_Thesis_190124.docx
file_size: 8656268
relation: source_file
- access_level: closed
checksum: 13adc8dcfb5b6b18107f89f0a98fa8bd
content_type: application/pdf
creator: hchiossi
date_created: 2024-01-19T11:03:59Z
date_updated: 2024-01-19T11:03:59Z
embargo: 2025-01-19
embargo_to: open_access
file_id: '14839'
file_name: PhD_Thesis_190124.pdf
file_size: 6567275
relation: main_file
file_date_updated: 2024-01-19T11:04:05Z
has_accepted_license: '1'
language:
- iso: eng
month: '01'
oa_version: Published Version
page: '89'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
status: public
supervisor:
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
title: Adaptive hierarchical representations in the hippocampus
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2024'
...
---
_id: '14826'
abstract:
- lang: eng
text: The plant-signaling molecule auxin triggers fast and slow cellular responses
across land plants and algae. The nuclear auxin pathway mediates gene expression
and controls growth and development in land plants, but this pathway is absent
from algal sister groups. Several components of rapid responses have been identified
in Arabidopsis, but it is unknown if these are part of a conserved mechanism.
We recently identified a fast, proteome-wide phosphorylation response to auxin.
Here, we show that this response occurs across 5 land plant and algal species
and converges on a core group of shared targets. We found conserved rapid physiological
responses to auxin in the same species and identified rapidly accelerated fibrosarcoma
(RAF)-like protein kinases as central mediators of auxin-triggered phosphorylation
across species. Genetic analysis connects this kinase to both auxin-triggered
protein phosphorylation and rapid cellular response, thus identifying an ancient
mechanism for fast auxin responses in the green lineage.
acknowledgement: 'We are grateful to Asuka Shitaku and Eri Koide for generating and
sharing the Marchantia PRAF-mCitrine line and Peng-Cheng Wang for sharing the Arabidopsis
raf mutant. We are grateful to our team members for discussions and helpful advice.
This work was supported by funding from the Netherlands Organization for Scientific
Research (NWO): VICI grant 865.14.001 and ENW-KLEIN OCENW.KLEIN.027 grants to D.W.;
VENI grant VI.VENI.212.003 to A.K.; the European Research Council AdG DIRNDL (contract
number 833867) to D.W.; CoG CATCH to J.S.; StG CELLONGATE (contract 803048) to M.F.;
and AdG ETAP (contract 742985) to J.F.; MEXT KAKENHI grant number JP19H05675 to
T.K.; JSPS KAKENHI grant number JP20H03275 to R.N.; Takeda Science Foundation to
R.N.; and the Austrian Science Fund (FWF, P29988) to J.F.'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Andre
full_name: Kuhn, Andre
last_name: Kuhn
- first_name: Mark
full_name: Roosjen, Mark
last_name: Roosjen
- first_name: Sumanth
full_name: Mutte, Sumanth
last_name: Mutte
- first_name: Shiv Mani
full_name: Dubey, Shiv Mani
last_name: Dubey
- first_name: Vanessa Polet
full_name: Carrillo Carrasco, Vanessa Polet
last_name: Carrillo Carrasco
- first_name: Sjef
full_name: Boeren, Sjef
last_name: Boeren
- first_name: Aline
full_name: Monzer, Aline
id: 2DB5D88C-D7B3-11E9-B8FD-7907E6697425
last_name: Monzer
- first_name: Jasper
full_name: Koehorst, Jasper
last_name: Koehorst
- first_name: Takayuki
full_name: Kohchi, Takayuki
last_name: Kohchi
- first_name: Ryuichi
full_name: Nishihama, Ryuichi
last_name: Nishihama
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Joris
full_name: Sprakel, Joris
last_name: Sprakel
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
citation:
ama: Kuhn A, Roosjen M, Mutte S, et al. RAF-like protein kinases mediate a deeply
conserved, rapid auxin response. Cell. 2024;187(1):130-148.e17. doi:10.1016/j.cell.2023.11.021
apa: Kuhn, A., Roosjen, M., Mutte, S., Dubey, S. M., Carrillo Carrasco, V. P., Boeren,
S., … Weijers, D. (2024). RAF-like protein kinases mediate a deeply conserved,
rapid auxin response. Cell. Elsevier. https://doi.org/10.1016/j.cell.2023.11.021
chicago: Kuhn, Andre, Mark Roosjen, Sumanth Mutte, Shiv Mani Dubey, Vanessa Polet
Carrillo Carrasco, Sjef Boeren, Aline Monzer, et al. “RAF-like Protein Kinases
Mediate a Deeply Conserved, Rapid Auxin Response.” Cell. Elsevier, 2024.
https://doi.org/10.1016/j.cell.2023.11.021.
ieee: A. Kuhn et al., “RAF-like protein kinases mediate a deeply conserved,
rapid auxin response,” Cell, vol. 187, no. 1. Elsevier, p. 130–148.e17,
2024.
ista: Kuhn A, Roosjen M, Mutte S, Dubey SM, Carrillo Carrasco VP, Boeren S, Monzer
A, Koehorst J, Kohchi T, Nishihama R, Fendrych M, Sprakel J, Friml J, Weijers
D. 2024. RAF-like protein kinases mediate a deeply conserved, rapid auxin response.
Cell. 187(1), 130–148.e17.
mla: Kuhn, Andre, et al. “RAF-like Protein Kinases Mediate a Deeply Conserved, Rapid
Auxin Response.” Cell, vol. 187, no. 1, Elsevier, 2024, p. 130–148.e17,
doi:10.1016/j.cell.2023.11.021.
short: A. Kuhn, M. Roosjen, S. Mutte, S.M. Dubey, V.P. Carrillo Carrasco, S. Boeren,
A. Monzer, J. Koehorst, T. Kohchi, R. Nishihama, M. Fendrych, J. Sprakel, J. Friml,
D. Weijers, Cell 187 (2024) 130–148.e17.
date_created: 2024-01-17T12:45:40Z
date_published: 2024-01-04T00:00:00Z
date_updated: 2024-01-22T13:43:40Z
day: '04'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1016/j.cell.2023.11.021
ec_funded: 1
external_id:
pmid:
- '38128538'
file:
- access_level: open_access
checksum: 06fd236a9ee0b46ccb05f44695bfc34b
content_type: application/pdf
creator: dernst
date_created: 2024-01-22T13:41:41Z
date_updated: 2024-01-22T13:41:41Z
file_id: '14874'
file_name: 2024_Cell_Kuhn.pdf
file_size: 13194060
relation: main_file
success: 1
file_date_updated: 2024-01-22T13:41:41Z
has_accepted_license: '1'
intvolume: ' 187'
issue: '1'
keyword:
- General Biochemistry
- Genetics and Molecular Biology
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: 130-148.e17
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 262EF96E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29988
name: RNA-directed DNA methylation in plant development
publication: Cell
publication_identifier:
eissn:
- 1097-4172
issn:
- 0092-8674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: RAF-like protein kinases mediate a deeply conserved, rapid auxin response
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 187
year: '2024'
...
---
_id: '14828'
abstract:
- lang: eng
text: Production of hydrogen at large scale requires development of non-noble, inexpensive,
and high-performing catalysts for constructing water-splitting devices. Herein,
we report the synthesis of Zn-doped NiO heterostructure (ZnNiO) catalysts at room
temperature via a coprecipitation method followed by drying (at 80 °C, 6 h) and
calcination at an elevated temperature of 400 °C for 5 h under three distinct
conditions, namely, air, N2, and vacuum. The vacuum-synthesized catalyst demonstrates
a low overpotential of 88 mV at −10 mA cm–2 and a small Tafel slope of 73 mV dec–1
suggesting relatively higher charge transfer kinetics for hydrogen evolution reactions
(HER) compared with the specimens synthesized under N2 or O2 atmosphere. It also
demonstrates an oxygen evolution (OER) overpotential of 260 mV at 10 mA cm–2 with
a low Tafel slope of 63 mV dec–1. In a full-cell water-splitting device, the vacuum-synthesized
ZnNiO heterostructure demonstrates a cell voltage of 1.94 V at 50 mA cm–2 and
shows remarkable stability over 24 h at a high current density of 100 mA cm–2.
It is also demonstrated in this study that Zn-doping, surface, and interface engineering
in transition-metal oxides play a crucial role in efficient electrocatalytic water
splitting. Also, the results obtained from density functional theory (DFT + U
= 0–8 eV), where U is the on-site Coulomb repulsion parameter also known as Hubbard
U, based electronic structure calculations confirm that Zn doping constructively
modifies the electronic structure, in both the valence band and the conduction
band, and found to be suitable in tailoring the carrier’s effective masses of
electrons and holes. The decrease in electron’s effective masses together with
large differences between the effective masses of electrons and holes is noticed,
which is found to be mainly responsible for achieving the best water-splitting
performance from a 9% Zn-doped NiO sample prepared under vacuum.
acknowledgement: This work was supported by the Technology Innovation Program (20011622,
Development of Battery System Applied High-Efficiency Heat Control Polymer and Part
Component) funded by the Ministry of Trade, Industry & Energy (MOTIE, Korea). Author
acknowledge to Prof. Tsunehiro Takeuchi from Toyota Technological Institute, Nagoya,
Japan for the support of computational resources.
article_processing_charge: No
article_type: original
author:
- first_name: Gundegowda Kalligowdanadoddi
full_name: Kiran, Gundegowda Kalligowdanadoddi
last_name: Kiran
- first_name: Saurabh
full_name: Singh, Saurabh
id: 12d625da-9cb3-11ed-9667-af09d37d3f0a
last_name: Singh
orcid: 0000-0003-2209-5269
- first_name: Neelima
full_name: Mahato, Neelima
last_name: Mahato
- first_name: Thupakula Venkata Madhukar
full_name: Sreekanth, Thupakula Venkata Madhukar
last_name: Sreekanth
- first_name: Gowra Raghupathy
full_name: Dillip, Gowra Raghupathy
last_name: Dillip
- first_name: Kisoo
full_name: Yoo, Kisoo
last_name: Yoo
- first_name: Jonghoon
full_name: Kim, Jonghoon
last_name: Kim
citation:
ama: Kiran GK, Singh S, Mahato N, et al. Interface engineering modulation combined
with electronic structure modification of Zn-doped NiO heterostructure for efficient
water-splitting activity. ACS Applied Energy Materials. 2024;7(1):214-229.
doi:10.1021/acsaem.3c02519
apa: Kiran, G. K., Singh, S., Mahato, N., Sreekanth, T. V. M., Dillip, G. R., Yoo,
K., & Kim, J. (2024). Interface engineering modulation combined with electronic
structure modification of Zn-doped NiO heterostructure for efficient water-splitting
activity. ACS Applied Energy Materials. American Chemical Society. https://doi.org/10.1021/acsaem.3c02519
chicago: Kiran, Gundegowda Kalligowdanadoddi, Saurabh Singh, Neelima Mahato, Thupakula
Venkata Madhukar Sreekanth, Gowra Raghupathy Dillip, Kisoo Yoo, and Jonghoon Kim.
“Interface Engineering Modulation Combined with Electronic Structure Modification
of Zn-Doped NiO Heterostructure for Efficient Water-Splitting Activity.” ACS
Applied Energy Materials. American Chemical Society, 2024. https://doi.org/10.1021/acsaem.3c02519.
ieee: G. K. Kiran et al., “Interface engineering modulation combined with
electronic structure modification of Zn-doped NiO heterostructure for efficient
water-splitting activity,” ACS Applied Energy Materials, vol. 7, no. 1.
American Chemical Society, pp. 214–229, 2024.
ista: Kiran GK, Singh S, Mahato N, Sreekanth TVM, Dillip GR, Yoo K, Kim J. 2024.
Interface engineering modulation combined with electronic structure modification
of Zn-doped NiO heterostructure for efficient water-splitting activity. ACS Applied
Energy Materials. 7(1), 214–229.
mla: Kiran, Gundegowda Kalligowdanadoddi, et al. “Interface Engineering Modulation
Combined with Electronic Structure Modification of Zn-Doped NiO Heterostructure
for Efficient Water-Splitting Activity.” ACS Applied Energy Materials,
vol. 7, no. 1, American Chemical Society, 2024, pp. 214–29, doi:10.1021/acsaem.3c02519.
short: G.K. Kiran, S. Singh, N. Mahato, T.V.M. Sreekanth, G.R. Dillip, K. Yoo, J.
Kim, ACS Applied Energy Materials 7 (2024) 214–229.
date_created: 2024-01-17T12:48:35Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2025-07-22T14:07:29Z
day: '08'
department:
- _id: MaIb
doi: 10.1021/acsaem.3c02519
external_id:
isi:
- '001138342900001'
oaworkID:
- w4389780443
intvolume: ' 7'
isi: 1
issue: '1'
keyword:
- Electrical and Electronic Engineering
- Materials Chemistry
- Electrochemistry
- Energy Engineering and Power Technology
- Chemical Engineering (miscellaneous)
language:
- iso: eng
month: '01'
oa_version: None
page: 214-229
publication: ACS Applied Energy Materials
publication_identifier:
issn:
- 2574-0962
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Interface engineering modulation combined with electronic structure modification
of Zn-doped NiO heterostructure for efficient water-splitting activity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2024'
...
---
_id: '14834'
abstract:
- lang: eng
text: Bacteria divide by binary fission. The protein machine responsible for this
process is the divisome, a transient assembly of more than 30 proteins in and
on the surface of the cytoplasmic membrane. Together, they constrict the cell
envelope and remodel the peptidoglycan layer to eventually split the cell into
two. For Escherichia coli, most molecular players involved in this process have
probably been identified, but obtaining the quantitative information needed for
a mechanistic understanding can often not be achieved from experiments in vivo
alone. Since the discovery of the Z-ring more than 30 years ago, in vitro reconstitution
experiments have been crucial to shed light on molecular processes normally hidden
in the complex environment of the living cell. In this review, we summarize how
rebuilding the divisome from purified components – or at least parts of it - have
been instrumental to obtain the detailed mechanistic understanding of the bacterial
cell division machinery that we have today.
acknowledgement: We acknowledge members of the Loose laboratory at ISTA for helpful
discussions—in particular M. Kojic for his insightful comments. This work was supported
by the Austrian Science Fund (FWF P34607) to M.L.
article_number: '151380'
article_processing_charge: Yes
article_type: review
author:
- first_name: Philipp
full_name: Radler, Philipp
id: 40136C2A-F248-11E8-B48F-1D18A9856A87
last_name: Radler
orcid: '0000-0001-9198-2182 '
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
citation:
ama: 'Radler P, Loose M. A dynamic duo: Understanding the roles of FtsZ and FtsA
for Escherichia coli cell division through in vitro approaches. European Journal
of Cell Biology. 2024;103(1). doi:10.1016/j.ejcb.2023.151380'
apa: 'Radler, P., & Loose, M. (2024). A dynamic duo: Understanding the roles
of FtsZ and FtsA for Escherichia coli cell division through in vitro approaches.
European Journal of Cell Biology. Elsevier. https://doi.org/10.1016/j.ejcb.2023.151380'
chicago: 'Radler, Philipp, and Martin Loose. “A Dynamic Duo: Understanding the Roles
of FtsZ and FtsA for Escherichia Coli Cell Division through in Vitro Approaches.”
European Journal of Cell Biology. Elsevier, 2024. https://doi.org/10.1016/j.ejcb.2023.151380.'
ieee: 'P. Radler and M. Loose, “A dynamic duo: Understanding the roles of FtsZ and
FtsA for Escherichia coli cell division through in vitro approaches,” European
Journal of Cell Biology, vol. 103, no. 1. Elsevier, 2024.'
ista: 'Radler P, Loose M. 2024. A dynamic duo: Understanding the roles of FtsZ and
FtsA for Escherichia coli cell division through in vitro approaches. European
Journal of Cell Biology. 103(1), 151380.'
mla: 'Radler, Philipp, and Martin Loose. “A Dynamic Duo: Understanding the Roles
of FtsZ and FtsA for Escherichia Coli Cell Division through in Vitro Approaches.”
European Journal of Cell Biology, vol. 103, no. 1, 151380, Elsevier, 2024,
doi:10.1016/j.ejcb.2023.151380.'
short: P. Radler, M. Loose, European Journal of Cell Biology 103 (2024).
date_created: 2024-01-18T08:16:43Z
date_published: 2024-01-12T00:00:00Z
date_updated: 2024-01-23T08:37:13Z
day: '12'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1016/j.ejcb.2023.151380
external_id:
pmid:
- '38218128'
has_accepted_license: '1'
intvolume: ' 103'
issue: '1'
keyword:
- Cell Biology
- General Medicine
- Histology
- Pathology and Forensic Medicine
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.ejcb.2023.151380
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: fc38323b-9c52-11eb-aca3-ff8afb4a011d
grant_number: P34607
name: "Understanding bacterial cell division by in vitro\r\nreconstitution"
publication: European Journal of Cell Biology
publication_identifier:
issn:
- 0171-9335
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'A dynamic duo: Understanding the roles of FtsZ and FtsA for Escherichia coli
cell division through in vitro approaches'
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: 103
year: '2024'
...
---
_id: '14841'
abstract:
- lang: eng
text: De novo heterozygous variants in KCNC2 encoding the voltage-gated potassium
(K+) channel subunit Kv3.2 are a recently described cause of developmental and
epileptic encephalopathy (DEE). A de novo variant in KCNC2 c.374G > A (p.Cys125Tyr)
was identified via exome sequencing in a patient with DEE. Relative to wild-type
Kv3.2, Kv3.2-p.Cys125Tyr induces K+ currents exhibiting a large hyperpolarizing
shift in the voltage dependence of activation, accelerated activation, and delayed
deactivation consistent with a relative stabilization of the open conformation,
along with increased current density. Leveraging the cryogenic electron microscopy
(cryo-EM) structure of Kv3.1, molecular dynamic simulations suggest that a strong
π-π stacking interaction between the variant Tyr125 and Tyr156 in the α-6 helix
of the T1 domain promotes a relative stabilization of the open conformation of
the channel, which underlies the observed gain of function. A multicompartment
computational model of a Kv3-expressing parvalbumin-positive cerebral cortex fast-spiking
γ-aminobutyric acidergic (GABAergic) interneuron (PV-IN) demonstrates how the
Kv3.2-Cys125Tyr variant impairs neuronal excitability and dysregulates inhibition
in cerebral cortex circuits to explain the resulting epilepsy.
acknowledgement: This work was supported by an ERC Consolidator Grant (SYNAPSEEK)
to T.P.V., the NOMIS Foundation through the NOMIS Fellowships program at IST Austria
to C.B.C., a Jefferson Synaptic Biology Center Pilot Project Grant to M.C., NIH
NINDS U54 NS108874 (PI, Alfred L. George), and NIH NINDS R01 NS122887 to E.M.G.
The computations were enabled by resources provided by the Swedish National Infrastructure
for Computing (SNIC) at the PDC Center for High-Performance Computing, KTH Royal
Institute of Technology, partially funded by the Swedish Research Council through
grant agreement no. 2018-05973. We thank Akshay Sridhar for the fruitful discussion
of the project.
article_number: e2307776121
article_processing_charge: No
article_type: original
author:
- first_name: Jerome
full_name: Clatot, Jerome
last_name: Clatot
- first_name: Christopher
full_name: Currin, Christopher
id: e8321fc5-3091-11eb-8a53-83f309a11ac9
last_name: Currin
orcid: 0000-0002-4809-5059
- first_name: Qiansheng
full_name: Liang, Qiansheng
last_name: Liang
- first_name: Tanadet
full_name: Pipatpolkai, Tanadet
last_name: Pipatpolkai
- first_name: Shavonne L.
full_name: Massey, Shavonne L.
last_name: Massey
- first_name: Ingo
full_name: Helbig, Ingo
last_name: Helbig
- first_name: Lucie
full_name: Delemotte, Lucie
last_name: Delemotte
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
- first_name: Manuel
full_name: Covarrubias, Manuel
last_name: Covarrubias
- first_name: Ethan M.
full_name: Goldberg, Ethan M.
last_name: Goldberg
citation:
ama: Clatot J, Currin C, Liang Q, et al. A structurally precise mechanism links
an epilepsy-associated KCNC2 potassium channel mutation to interneuron dysfunction.
Proceedings of the National Academy of Sciences of the United States of America.
2024;121(3). doi:10.1073/pnas.2307776121
apa: Clatot, J., Currin, C., Liang, Q., Pipatpolkai, T., Massey, S. L., Helbig,
I., … Goldberg, E. M. (2024). A structurally precise mechanism links an epilepsy-associated
KCNC2 potassium channel mutation to interneuron dysfunction. Proceedings of
the National Academy of Sciences of the United States of America. Proceedings
of the National Academy of Sciences. https://doi.org/10.1073/pnas.2307776121
chicago: Clatot, Jerome, Christopher Currin, Qiansheng Liang, Tanadet Pipatpolkai,
Shavonne L. Massey, Ingo Helbig, Lucie Delemotte, Tim P Vogels, Manuel Covarrubias,
and Ethan M. Goldberg. “A Structurally Precise Mechanism Links an Epilepsy-Associated
KCNC2 Potassium Channel Mutation to Interneuron Dysfunction.” Proceedings of
the National Academy of Sciences of the United States of America. Proceedings
of the National Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2307776121.
ieee: J. Clatot et al., “A structurally precise mechanism links an epilepsy-associated
KCNC2 potassium channel mutation to interneuron dysfunction,” Proceedings of
the National Academy of Sciences of the United States of America, vol. 121,
no. 3. Proceedings of the National Academy of Sciences, 2024.
ista: Clatot J, Currin C, Liang Q, Pipatpolkai T, Massey SL, Helbig I, Delemotte
L, Vogels TP, Covarrubias M, Goldberg EM. 2024. A structurally precise mechanism
links an epilepsy-associated KCNC2 potassium channel mutation to interneuron dysfunction.
Proceedings of the National Academy of Sciences of the United States of America.
121(3), e2307776121.
mla: Clatot, Jerome, et al. “A Structurally Precise Mechanism Links an Epilepsy-Associated
KCNC2 Potassium Channel Mutation to Interneuron Dysfunction.” Proceedings of
the National Academy of Sciences of the United States of America, vol. 121,
no. 3, e2307776121, Proceedings of the National Academy of Sciences, 2024, doi:10.1073/pnas.2307776121.
short: J. Clatot, C. Currin, Q. Liang, T. Pipatpolkai, S.L. Massey, I. Helbig, L.
Delemotte, T.P. Vogels, M. Covarrubias, E.M. Goldberg, Proceedings of the National
Academy of Sciences of the United States of America 121 (2024).
date_created: 2024-01-21T23:00:56Z
date_published: 2024-01-16T00:00:00Z
date_updated: 2024-01-23T10:20:40Z
day: '16'
department:
- _id: TiVo
doi: 10.1073/pnas.2307776121
ec_funded: 1
external_id:
pmid:
- '38194456'
intvolume: ' 121'
issue: '3'
language:
- iso: eng
month: '01'
oa_version: None
pmid: 1
project:
- _id: 0aacfa84-070f-11eb-9043-d7eb2c709234
call_identifier: H2020
grant_number: '819603'
name: Learning the shape of synaptic plasticity rules for neuronal architectures
and function through machine learning.
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- relation: software
url: 'https://github.com/ChrisCurrin/pv-kcnc2 '
scopus_import: '1'
status: public
title: A structurally precise mechanism links an epilepsy-associated KCNC2 potassium
channel mutation to interneuron dysfunction
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 121
year: '2024'
...
---
_id: '14843'
abstract:
- lang: eng
text: The coupling between Ca2+ channels and release sensors is a key factor defining
the signaling properties of a synapse. However, the coupling nanotopography at
many synapses remains unknown, and it is unclear how it changes during development.
To address these questions, we examined coupling at the cerebellar inhibitory
basket cell (BC)-Purkinje cell (PC) synapse. Biophysical analysis of transmission
by paired recording and intracellular pipette perfusion revealed that the effects
of exogenous Ca2+ chelators decreased during development, despite constant reliance
of release on P/Q-type Ca2+ channels. Structural analysis by freeze-fracture replica
labeling (FRL) and transmission electron microscopy (EM) indicated that presynaptic
P/Q-type Ca2+ channels formed nanoclusters throughout development, whereas docked
vesicles were only clustered at later developmental stages. Modeling suggested
a developmental transformation from a more random to a more clustered coupling
nanotopography. Thus, presynaptic signaling developmentally approaches a point-to-point
configuration, optimizing speed, reliability, and energy efficiency of synaptic
transmission.
acknowledged_ssus:
- _id: EM-Fac
- _id: PreCl
- _id: M-Shop
acknowledgement: We thank Drs. David DiGregorio and Erwin Neher for critically reading
an earlier version of the manuscript, Ralf Schneggenburger for helpful discussions,
Benjamin Suter and Katharina Lichter for support with image analysis, Chris Wojtan
for advice on numerical solution of partial differential equations, Maria Reva for
help with Ripley analysis, Alois Schlögl for programming, and Akari Hagiwara and
Toshihisa Ohtsuka for anti-ELKS antibody. We are grateful to Florian Marr, Christina
Altmutter, and Vanessa Zheden for excellent technical assistance and to Eleftheria
Kralli-Beller for manuscript editing. This research was supported by the Scientific
Services Units (SSUs) of ISTA (Electron Microscopy Facility, Preclinical Facility,
and Machine Shop). The project received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation program (grant
agreement no. 692692), the Fonds zur Förderung der Wissenschaftlichen Forschung
(Z 312-B27, Wittgenstein award; P 36232-B), all to P.J., and a DOC fellowship of
the Austrian Academy of Sciences to J.-J.C.
article_processing_charge: No
article_type: original
author:
- first_name: JingJing
full_name: Chen, JingJing
id: 2C4E65C8-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Chong
full_name: Chen, Chong
id: 3DFD581A-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Itaru
full_name: Arai, Itaru
id: 32A73F6C-F248-11E8-B48F-1D18A9856A87
last_name: Arai
- first_name: Olena
full_name: Kim, Olena
id: 3F8ABDDA-F248-11E8-B48F-1D18A9856A87
last_name: Kim
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- 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: Chen J, Kaufmann W, Chen C, et al. Developmental transformation of Ca2+ channel-vesicle
nanotopography at a central GABAergic synapse. Neuron. doi:10.1016/j.neuron.2023.12.002
apa: Chen, J., Kaufmann, W., Chen, C., Arai, itaru, Kim, O., Shigemoto, R., &
Jonas, P. M. (n.d.). Developmental transformation of Ca2+ channel-vesicle nanotopography
at a central GABAergic synapse. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2023.12.002
chicago: Chen, JingJing, Walter Kaufmann, Chong Chen, itaru Arai, Olena Kim, Ryuichi
Shigemoto, and Peter M Jonas. “Developmental Transformation of Ca2+ Channel-Vesicle
Nanotopography at a Central GABAergic Synapse.” Neuron. Elsevier, n.d.
https://doi.org/10.1016/j.neuron.2023.12.002.
ieee: J. Chen et al., “Developmental transformation of Ca2+ channel-vesicle
nanotopography at a central GABAergic synapse,” Neuron. Elsevier.
ista: Chen J, Kaufmann W, Chen C, Arai itaru, Kim O, Shigemoto R, Jonas PM. Developmental
transformation of Ca2+ channel-vesicle nanotopography at a central GABAergic synapse.
Neuron.
mla: Chen, JingJing, et al. “Developmental Transformation of Ca2+ Channel-Vesicle
Nanotopography at a Central GABAergic Synapse.” Neuron, Elsevier, doi:10.1016/j.neuron.2023.12.002.
short: J. Chen, W. Kaufmann, C. Chen, itaru Arai, O. Kim, R. Shigemoto, P.M. Jonas,
Neuron (n.d.).
date_created: 2024-01-21T23:00:56Z
date_published: 2024-01-11T00:00:00Z
date_updated: 2024-03-05T09:31:24Z
day: '11'
department:
- _id: PeJo
- _id: EM-Fac
- _id: RySh
doi: 10.1016/j.neuron.2023.12.002
ec_funded: 1
external_id:
pmid:
- '38215739'
language:
- iso: eng
month: '01'
oa_version: None
pmid: 1
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glumatergic synapse
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: The Wittgenstein Prize
- _id: bd88be38-d553-11ed-ba76-81d5a70a6ef5
grant_number: P36232
name: Mechanisms of GABA release in hippocampal circuits
- _id: 26B66A3E-B435-11E9-9278-68D0E5697425
grant_number: '25383'
name: Development of nanodomain coupling between Ca2+ channels and release sensors
at a central inhibitory synapse
publication: Neuron
publication_identifier:
eissn:
- 1097-4199
issn:
- 0896-6273
publication_status: inpress
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/synapses-brought-to-the-point/
scopus_import: '1'
status: public
title: Developmental transformation of Ca2+ channel-vesicle nanotopography at a central
GABAergic synapse
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '14845'
abstract:
- lang: eng
text: We study a linear rotor in a bosonic bath within the angulon formalism. Our
focus is on systems where isotropic or anisotropic impurity-boson interactions
support a shallow bound state. To study the fate of the angulon in the vicinity
of bound-state formation, we formulate a beyond-linear-coupling angulon Hamiltonian.
First, we use it to study attractive, spherically symmetric impurity-boson interactions
for which the linear rotor can be mapped onto a static impurity. The well-known
polaron formalism provides an adequate description in this limit. Second, we consider
anisotropic potentials, and show that the presence of a shallow bound state with
pronounced anisotropic character leads to a many-body instability that washes
out the angulon dynamics.
acknowledgement: "We would like to thank G. Bighin, I. Cherepanov, E. Paerschke, and
E. Yakaboylu for insightful discussions on a wide range of topics. This work has
been supported by the European Research Council (ERC) Starting Grant No. 801770
(ANGULON). A.G. and A.G.V. acknowledge support from the European Union’s Horizon
2020 research and innovation\r\nprogram under the Marie Skłodowska-Curie Grant Agreement
No. 754411. Numerical calculations were performed on the Euler cluster managed by
the HPC team at ETH Zurich.\r\nR.S. acknowledges support by the Deutsche Forschungsgemeinschaft
under Germany’s Excellence Strategy Grant No. EXC 2181/1-390900948 (the Heidelberg
STRUCTURES Excellence Cluster). T.D. acknowledges support from the Isaac Newton
Studentship and the Science and Technology Facilities Council under Grant No. ST/V50659X/1."
article_number: '014102'
article_processing_charge: No
article_type: original
author:
- first_name: Tibor
full_name: Dome, Tibor
id: 7e3293e2-b9dc-11ee-97a9-cd73400f6994
last_name: Dome
orcid: 0000-0003-2586-3702
- first_name: Artem
full_name: Volosniev, Artem
id: 37D278BC-F248-11E8-B48F-1D18A9856A87
last_name: Volosniev
orcid: 0000-0003-0393-5525
- first_name: Areg
full_name: Ghazaryan, Areg
id: 4AF46FD6-F248-11E8-B48F-1D18A9856A87
last_name: Ghazaryan
orcid: 0000-0001-9666-3543
- first_name: Laleh
full_name: Safari, Laleh
id: 3C325E5E-F248-11E8-B48F-1D18A9856A87
last_name: Safari
- first_name: Richard
full_name: Schmidt, Richard
last_name: Schmidt
- first_name: Mikhail
full_name: Lemeshko, Mikhail
id: 37CB05FA-F248-11E8-B48F-1D18A9856A87
last_name: Lemeshko
orcid: 0000-0002-6990-7802
citation:
ama: Dome T, Volosniev A, Ghazaryan A, Safari L, Schmidt R, Lemeshko M. Linear rotor
in an ideal Bose gas near the threshold for binding. Physical Review B.
2024;109(1). doi:10.1103/PhysRevB.109.014102
apa: Dome, T., Volosniev, A., Ghazaryan, A., Safari, L., Schmidt, R., & Lemeshko,
M. (2024). Linear rotor in an ideal Bose gas near the threshold for binding. Physical
Review B. American Physical Society. https://doi.org/10.1103/PhysRevB.109.014102
chicago: Dome, Tibor, Artem Volosniev, Areg Ghazaryan, Laleh Safari, Richard Schmidt,
and Mikhail Lemeshko. “Linear Rotor in an Ideal Bose Gas near the Threshold for
Binding.” Physical Review B. American Physical Society, 2024. https://doi.org/10.1103/PhysRevB.109.014102.
ieee: T. Dome, A. Volosniev, A. Ghazaryan, L. Safari, R. Schmidt, and M. Lemeshko,
“Linear rotor in an ideal Bose gas near the threshold for binding,” Physical
Review B, vol. 109, no. 1. American Physical Society, 2024.
ista: Dome T, Volosniev A, Ghazaryan A, Safari L, Schmidt R, Lemeshko M. 2024. Linear
rotor in an ideal Bose gas near the threshold for binding. Physical Review B.
109(1), 014102.
mla: Dome, Tibor, et al. “Linear Rotor in an Ideal Bose Gas near the Threshold for
Binding.” Physical Review B, vol. 109, no. 1, 014102, American Physical
Society, 2024, doi:10.1103/PhysRevB.109.014102.
short: T. Dome, A. Volosniev, A. Ghazaryan, L. Safari, R. Schmidt, M. Lemeshko,
Physical Review B 109 (2024).
date_created: 2024-01-21T23:00:57Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2024-01-23T10:51:09Z
day: '01'
department:
- _id: MiLe
doi: 10.1103/PhysRevB.109.014102
ec_funded: 1
intvolume: ' 109'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
project:
- _id: 2688CF98-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '801770'
name: 'Angulon: physics and applications of a new quasiparticle'
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issn:
- 2469-9950
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Linear rotor in an ideal Bose gas near the threshold for binding
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2024'
...