---
_id: '15020'
abstract:
- lang: eng
text: "This thesis consists of four distinct pieces of work within theoretical biology,
with two themes in common: the concept of optimization in biological systems,
and the use of information-theoretic tools to quantify biological stochasticity
and statistical uncertainty.\r\nChapter 2 develops a statistical framework for
studying biological systems which we believe to be optimized for a particular
utility function, such as retinal neurons conveying information about visual stimuli.
We formalize such beliefs as maximum-entropy Bayesian priors, constrained by the
expected utility. We explore how such priors aid inference of system parameters
with limited data and enable optimality hypothesis testing: is the utility higher
than by chance?\r\nChapter 3 examines the ultimate biological optimization process:
evolution by natural selection. As some individuals survive and reproduce more
successfully than others, populations evolve towards fitter genotypes and phenotypes.
We formalize this as accumulation of genetic information, and use population genetics
theory to study how much such information can be accumulated per generation and
maintained in the face of random mutation and genetic drift. We identify the population
size and fitness variance as the key quantities that control information accumulation
and maintenance.\r\nChapter 4 reuses the concept of genetic information from Chapter
3, but from a different perspective: we ask how much genetic information organisms
actually need, in particular in the context of gene regulation. For example, how
much information is needed to bind transcription factors at correct locations
within the genome? Population genetics provides us with a refined answer: with
an increasing population size, populations achieve higher fitness by maintaining
more genetic information. Moreover, regulatory parameters experience selection
pressure to optimize the fitness-information trade-off, i.e. minimize the information
needed for a given fitness. This provides an evolutionary derivation of the optimization
priors introduced in Chapter 2.\r\nChapter 5 proves an upper bound on mutual information
between a signal and a communication channel output (such as neural activity).
Mutual information is an important utility measure for biological systems, but
its practical use can be difficult due to the large dimensionality of many biological
channels. Sometimes, a lower bound on mutual information is computed by replacing
the high-dimensional channel outputs with decodes (signal estimates). Our result
provides a corresponding upper bound, provided that the decodes are the maximum
posterior estimates of the signal."
acknowledged_ssus:
- _id: ScienComp
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Michal
full_name: Hledik, Michal
id: 4171253A-F248-11E8-B48F-1D18A9856A87
last_name: Hledik
citation:
ama: Hledik M. Genetic information and biological optimization. 2024. doi:10.15479/at:ista:15020
apa: Hledik, M. (2024). Genetic information and biological optimization.
Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:15020
chicago: Hledik, Michal. “Genetic Information and Biological Optimization.” Institute
of Science and Technology Austria, 2024. https://doi.org/10.15479/at:ista:15020.
ieee: M. Hledik, “Genetic information and biological optimization,” Institute of
Science and Technology Austria, 2024.
ista: Hledik M. 2024. Genetic information and biological optimization. Institute
of Science and Technology Austria.
mla: Hledik, Michal. Genetic Information and Biological Optimization. Institute
of Science and Technology Austria, 2024, doi:10.15479/at:ista:15020.
short: M. Hledik, Genetic Information and Biological Optimization, Institute of
Science and Technology Austria, 2024.
date_created: 2024-02-23T14:02:04Z
date_published: 2024-02-23T00:00:00Z
date_updated: 2024-03-06T14:22:52Z
day: '23'
ddc:
- '576'
- '519'
degree_awarded: PhD
department:
- _id: GradSch
- _id: NiBa
- _id: GaTk
doi: 10.15479/at:ista:15020
ec_funded: 1
file:
- access_level: open_access
checksum: b2d3da47c98d481577a4baf68944fe41
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creator: mhledik
date_created: 2024-02-23T13:50:53Z
date_updated: 2024-02-23T13:50:53Z
file_id: '15021'
file_name: hledik thesis pdfa 2b.pdf
file_size: 7102089
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checksum: eda9b9430da2610fee7ce1c1419a479a
content_type: application/zip
creator: mhledik
date_created: 2024-02-23T13:50:54Z
date_updated: 2024-02-23T14:20:16Z
file_id: '15022'
file_name: hledik thesis source.zip
file_size: 14014790
relation: source_file
file_date_updated: 2024-02-23T14:20:16Z
has_accepted_license: '1'
keyword:
- Theoretical biology
- Optimality
- Evolution
- Information
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: '158'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 2665AAFE-B435-11E9-9278-68D0E5697425
grant_number: RGP0034/2018
name: Can evolution minimize spurious signaling crosstalk to reach optimal performance?
- _id: bd6958e0-d553-11ed-ba76-86eba6a76c00
grant_number: '101055327'
name: Understanding the evolution of continuous genomes
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '7553'
relation: part_of_dissertation
status: public
- id: '12081'
relation: part_of_dissertation
status: public
- id: '7606'
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: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
title: Genetic information and biological optimization
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2024'
...
---
_id: '14842'
abstract:
- lang: eng
text: Eva Benkova received a PhD in Biophysics at the Institute of Biophysics of
the Czech Academy of Sciences in 1998. After working as a postdoc at the Max Planck
Institute in Cologne and the Center for Plant Molecular Biology (ZMBP) in Tübingen,
she became a group leader at the Plant Systems Biology Department of the Vlaams
Instituut voor Biotechnologie (VIB) in Gent. In 2012, she transitioned to an Assistant
Professor position at the Institute of Science and Technology Austria (ISTA) where
she was later promoted to Professor. Since 2021, she has served as the Dean of
the ISTA Graduate School. As a plant developmental biologist, she focuses on unraveling
the molecular mechanisms and principles that underlie hormonal interactions in
plants. In her current work, she explores the intricate connections between hormones
and regulatory pathways that mediate the perception of environmental stimuli,
including abiotic stress and nitrate availability.
article_processing_charge: No
author:
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Benková E. Eva Benkova. Vol 34. Elsevier; 2024:R3-R5. doi:10.1016/j.cub.2023.11.039
apa: Benková, E. (2024). Eva Benkova. Current Biology (Vol. 34, pp.
R3–R5). Elsevier. https://doi.org/10.1016/j.cub.2023.11.039
chicago: Benková, Eva. Eva Benkova. Current Biology. Vol. 34. Elsevier,
2024. https://doi.org/10.1016/j.cub.2023.11.039.
ieee: E. Benková, Eva Benkova, vol. 34, no. 1. Elsevier, 2024, pp. R3–R5.
ista: Benková E. 2024. Eva Benkova, Elsevier,p.
mla: Benková, Eva. “Eva Benkova.” Current Biology, vol. 34, no. 1, Elsevier,
2024, pp. R3–5, doi:10.1016/j.cub.2023.11.039.
short: E. Benková, Eva Benkova, Elsevier, 2024.
date_created: 2024-01-21T23:00:56Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2024-03-12T12:19:12Z
day: '08'
department:
- _id: EvBe
doi: 10.1016/j.cub.2023.11.039
intvolume: ' 34'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.cub.2023.11.039
month: '01'
oa: 1
oa_version: Published Version
page: R3-R5
publication: Current Biology
publication_identifier:
eissn:
- 1879-0445
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Eva Benkova
type: other_academic_publication
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2024'
...
---
_id: '15084'
abstract:
- lang: eng
text: "GABAB receptor (GBR) activation inhibits neurotransmitter release in axon
terminals in the brain, except in medial habenula (MHb) terminals, which show
robust potentiation. However, mechanisms underlying this enigmatic potentiation
remain elusive. Here, we report that GBR activation on MHb terminals induces an
activity-dependent transition from a facilitating, tonic to a depressing, phasic
neurotransmitter release mode. This transition is accompanied by a 4.1-fold increase
in readily releasable vesicle pool (RRP) size and a 3.5-fold increase of docked
synaptic vesicles (SVs) at the presynaptic active zone (AZ). Strikingly, the depressing
phasic release exhibits looser coupling distance than the tonic release. Furthermore,
the tonic and phasic release are selectively affected by deletion of synaptoporin
(SPO) and Ca\r\n 2+\r\n -dependent
activator protein for secretion 2 (CAPS2), respectively. SPO modulates augmentation,
the short-term plasticity associated with tonic release, and CAPS2 retains the
increased RRP for initial responses in phasic response trains. The cytosolic protein
CAPS2 showed a SV-associated distribution similar to the vesicular transmembrane
protein SPO, and they were colocalized in the same terminals. We developed the
“Flash and Freeze-fracture” method, and revealed the release of SPO-associated
vesicles in both tonic and phasic modes and activity-dependent recruitment of
CAPS2 to the AZ during phasic release, which lasted several minutes. Overall,
these results indicate that GBR activation translocates CAPS2 to the AZ along
with the fusion of CAPS2-associated SVs, contributing to persistency of the RRP
increase. Thus, we identified structural and molecular mechanisms underlying tonic
and phasic neurotransmitter release and their transition by GBR activation in
MHb terminals."
acknowledged_ssus:
- _id: M-Shop
- _id: PreCl
- _id: EM-Fac
acknowledgement: We thank Erwin Neher and Ipe Ninan for critical comments on the manuscript.
This project has received funding from the European Research Council (ERC) and European
Commission, under the European Union’s Horizon 2020 research and innovation program
(ERC grant agreement no. 694539 to R.S. and the Marie Skłodowska-Curie grant agreement
no. 665385 to C.Ö.). This study was supported by the Cooperative Study Program of
Center for Animal Resources and Collaborative Study of NINS. We thank Kohgaku Eguchi
for statistical analysis, Yu Kasugai for additional EM imaging, Robert Beattie for
the design of the slice recovery chamber for Flash and Freeze experiments, Todor
Asenov from the ISTA machine shop for custom part preparations for high-pressure
freezing, the ISTA preclinical facility for animal caretaking, and the ISTA EM facilities
for technical support.
article_number: e2301449121
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Peter
full_name: Koppensteiner, Peter
id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87
last_name: Koppensteiner
orcid: 0000-0002-3509-1948
- first_name: Pradeep
full_name: Bhandari, Pradeep
id: 45EDD1BC-F248-11E8-B48F-1D18A9856A87
last_name: Bhandari
orcid: 0000-0003-0863-4481
- first_name: Hüseyin C
full_name: Önal, Hüseyin C
id: 4659D740-F248-11E8-B48F-1D18A9856A87
last_name: Önal
orcid: 0000-0002-2771-2011
- first_name: Carolina
full_name: Borges Merjane, Carolina
id: 4305C450-F248-11E8-B48F-1D18A9856A87
last_name: Borges Merjane
orcid: 0000-0003-0005-401X
- first_name: Elodie
full_name: Le Monnier, Elodie
id: 3B59276A-F248-11E8-B48F-1D18A9856A87
last_name: Le Monnier
- first_name: Utsa
full_name: Roy, Utsa
id: 4d26cf11-5355-11ee-ae5a-eb05e255b9b2
last_name: Roy
- first_name: Yukihiro
full_name: Nakamura, Yukihiro
last_name: Nakamura
- first_name: Tetsushi
full_name: Sadakata, Tetsushi
last_name: Sadakata
- first_name: Makoto
full_name: Sanbo, Makoto
last_name: Sanbo
- first_name: Masumi
full_name: Hirabayashi, Masumi
last_name: Hirabayashi
- first_name: JeongSeop
full_name: Rhee, JeongSeop
last_name: Rhee
- first_name: Nils
full_name: Brose, Nils
last_name: Brose
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: Koppensteiner P, Bhandari P, Önal C, et al. GABAB receptors induce phasic release
from medial habenula terminals through activity-dependent recruitment of release-ready
vesicles. Proceedings of the National Academy of Sciences. 2024;121(8).
doi:10.1073/pnas.2301449121
apa: Koppensteiner, P., Bhandari, P., Önal, C., Borges Merjane, C., Le Monnier,
E., Roy, U., … Shigemoto, R. (2024). GABAB receptors induce phasic release from
medial habenula terminals through activity-dependent recruitment of release-ready
vesicles. Proceedings of the National Academy of Sciences. Proceedings
of the National Academy of Sciences. https://doi.org/10.1073/pnas.2301449121
chicago: Koppensteiner, Peter, Pradeep Bhandari, Cihan Önal, Carolina Borges Merjane,
Elodie Le Monnier, Utsa Roy, Yukihiro Nakamura, et al. “GABAB Receptors Induce
Phasic Release from Medial Habenula Terminals through Activity-Dependent Recruitment
of Release-Ready Vesicles.” Proceedings of the National Academy of Sciences.
Proceedings of the National Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2301449121.
ieee: P. Koppensteiner et al., “GABAB receptors induce phasic release from
medial habenula terminals through activity-dependent recruitment of release-ready
vesicles,” Proceedings of the National Academy of Sciences, vol. 121, no.
8. Proceedings of the National Academy of Sciences, 2024.
ista: Koppensteiner P, Bhandari P, Önal C, Borges Merjane C, Le Monnier E, Roy U,
Nakamura Y, Sadakata T, Sanbo M, Hirabayashi M, Rhee J, Brose N, Jonas PM, Shigemoto
R. 2024. GABAB receptors induce phasic release from medial habenula terminals
through activity-dependent recruitment of release-ready vesicles. Proceedings
of the National Academy of Sciences. 121(8), e2301449121.
mla: Koppensteiner, Peter, et al. “GABAB Receptors Induce Phasic Release from Medial
Habenula Terminals through Activity-Dependent Recruitment of Release-Ready Vesicles.”
Proceedings of the National Academy of Sciences, vol. 121, no. 8, e2301449121,
Proceedings of the National Academy of Sciences, 2024, doi:10.1073/pnas.2301449121.
short: P. Koppensteiner, P. Bhandari, C. Önal, C. Borges Merjane, E. Le Monnier,
U. Roy, Y. Nakamura, T. Sadakata, M. Sanbo, M. Hirabayashi, J. Rhee, N. Brose,
P.M. Jonas, R. Shigemoto, Proceedings of the National Academy of Sciences 121
(2024).
date_created: 2024-03-05T09:23:55Z
date_published: 2024-02-20T00:00:00Z
date_updated: 2024-03-12T13:44:18Z
day: '20'
ddc:
- '570'
department:
- _id: RySh
- _id: PeJo
doi: 10.1073/pnas.2301449121
ec_funded: 1
external_id:
pmid:
- '38346189'
file:
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checksum: b25b2a057c266ff317a48b0d54d6fc8a
content_type: application/pdf
creator: dernst
date_created: 2024-03-12T13:42:42Z
date_updated: 2024-03-12T13:42:42Z
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file_name: 2024_PNAS_Koppensteiner.pdf
file_size: 13648221
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success: 1
file_date_updated: 2024-03-12T13:42:42Z
has_accepted_license: '1'
intvolume: ' 121'
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month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25CA28EA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694539'
name: 'In situ analysis of single channel subunit composition in neurons: physiological
implication in synaptic plasticity and behaviour'
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/neuronal-insights-flash-and-freeze-fracture/
record:
- id: '13173'
relation: research_data
status: public
status: public
title: GABAB receptors induce phasic release from medial habenula terminals through
activity-dependent recruitment of release-ready vesicles
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 121
year: '2024'
...
---
_id: '15083'
abstract:
- lang: eng
text: 'Direct reciprocity is a powerful mechanism for cooperation in social
dilemmas. The very logic of reciprocity, however, seems to require that individuals
are symmetric, and that everyone has the same means to influence each others’
payoffs. Yet in many applications, individuals are asymmetric. Herein, we study
the effect of asymmetry in linear public good games. Individuals may differ in
their endowments (their ability to contribute to a public good) and in their productivities
(how effective their contributions are). Given the individuals’ productivities,
we ask which allocation of endowments is optimal for cooperation. To this end,
we consider two notions of optimality. The first notion focuses on the resilience
of cooperation. The respective endowment distribution ensures that full cooperation
is feasible even under the most adverse conditions. The second notion focuses
on efficiency. The corresponding endowment distribution maximizes group welfare.
Using analytical methods, we fully characterize these two endowment distributions.
This analysis reveals that both optimality notions favor some endowment inequality:
More productive players ought to get higher endowments. Yet the two notions disagree
on how unequal endowments are supposed to be. A focus on resilience results in
less inequality. With additional simulations, we show that the optimal endowment
allocation needs to account for both the resilience and the efficiency of cooperation.'
acknowledgement: 'This work was supported by the European Research Council CoG 863818
(ForM-SMArt) (to K.C.) and the European Research Council Starting Grant 850529:
E-DIRECT (to C.H.), the European Union’s Horizon 2020 research and innovation program
under the Marie Skłodowska-Curie Grant Agreement #754411 and the French Agence Nationale
de la Recherche (under the Investissement d’Avenir Programme, ANR-17-EURE-0010)
(to M.K.).'
article_number: e2315558121
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Valentin
full_name: Hübner, Valentin
id: 2c8aa207-dc7d-11ea-9b2f-f22972ecd910
last_name: Hübner
- first_name: Manuel
full_name: Staab, Manuel
last_name: Staab
- first_name: Christian
full_name: Hilbe, Christian
id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87
last_name: Hilbe
orcid: 0000-0001-5116-955X
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Maria
full_name: Kleshnina, Maria
last_name: Kleshnina
citation:
ama: Hübner V, Staab M, Hilbe C, Chatterjee K, Kleshnina M. Efficiency and resilience
of cooperation in asymmetric social dilemmas. Proceedings of the National Academy
of Sciences. 2024;121(10). doi:10.1073/pnas.2315558121
apa: Hübner, V., Staab, M., Hilbe, C., Chatterjee, K., & Kleshnina, M. (2024).
Efficiency and resilience of cooperation in asymmetric social dilemmas. Proceedings
of the National Academy of Sciences. Proceedings of the National Academy of
Sciences. https://doi.org/10.1073/pnas.2315558121
chicago: Hübner, Valentin, Manuel Staab, Christian Hilbe, Krishnendu Chatterjee,
and Maria Kleshnina. “Efficiency and Resilience of Cooperation in Asymmetric Social
Dilemmas.” Proceedings of the National Academy of Sciences. Proceedings
of the National Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2315558121.
ieee: V. Hübner, M. Staab, C. Hilbe, K. Chatterjee, and M. Kleshnina, “Efficiency
and resilience of cooperation in asymmetric social dilemmas,” Proceedings of
the National Academy of Sciences, vol. 121, no. 10. Proceedings of the National
Academy of Sciences, 2024.
ista: Hübner V, Staab M, Hilbe C, Chatterjee K, Kleshnina M. 2024. Efficiency and
resilience of cooperation in asymmetric social dilemmas. Proceedings of the National
Academy of Sciences. 121(10), e2315558121.
mla: Hübner, Valentin, et al. “Efficiency and Resilience of Cooperation in Asymmetric
Social Dilemmas.” Proceedings of the National Academy of Sciences, vol.
121, no. 10, e2315558121, Proceedings of the National Academy of Sciences, 2024,
doi:10.1073/pnas.2315558121.
short: V. Hübner, M. Staab, C. Hilbe, K. Chatterjee, M. Kleshnina, Proceedings of
the National Academy of Sciences 121 (2024).
date_created: 2024-03-05T09:18:49Z
date_published: 2024-03-05T00:00:00Z
date_updated: 2024-03-12T13:29:25Z
day: '05'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.1073/pnas.2315558121
ec_funded: 1
external_id:
pmid:
- '38408249'
file:
- access_level: open_access
checksum: 068520e3efd4d008bb9177e8aedb7d22
content_type: application/pdf
creator: dernst
date_created: 2024-03-12T13:12:22Z
date_updated: 2024-03-12T13:12:22Z
file_id: '15109'
file_name: 2024_PNAS_Huebner.pdf
file_size: 2203220
relation: main_file
success: 1
file_date_updated: 2024-03-12T13:12:22Z
has_accepted_license: '1'
intvolume: ' 121'
issue: '10'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 0599E47C-7A3F-11EA-A408-12923DDC885E
call_identifier: H2020
grant_number: '863818'
name: 'Formal Methods for Stochastic Models: Algorithms and Applications'
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Proceedings of the National Academy of Sciences
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
link:
- description: News on ISTA Website
relation: press_release
url: https://ista.ac.at/en/news/what-math-tells-us-about-social-dilemmas/
record:
- id: '15108'
relation: research_data
status: public
status: public
title: Efficiency and resilience of cooperation in asymmetric social dilemmas
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 121
year: '2024'
...
---
_id: '15108'
abstract:
- lang: eng
text: "in the research article \"Efficiency and resilience of cooperation in asymmetric
social dilemmas\" (by Valentin Hübner, Manuel Staab, Christian Hilbe, Krishnendu
Chatterjee, and Maria Kleshnina).\r\n\r\nWe used different implementations for
the case of two and three players, both described below."
article_processing_charge: No
author:
- first_name: Valentin
full_name: Hübner, Valentin
id: 2c8aa207-dc7d-11ea-9b2f-f22972ecd910
last_name: Hübner
- first_name: Maria
full_name: Kleshnina, Maria
last_name: Kleshnina
citation:
ama: Hübner V, Kleshnina M. Computer code for “Efficiency and resilience of cooperation
in asymmetric social dilemmas.” 2024. doi:10.5281/ZENODO.10639167
apa: Hübner, V., & Kleshnina, M. (2024). Computer code for “Efficiency and resilience
of cooperation in asymmetric social dilemmas.” Zenodo. https://doi.org/10.5281/ZENODO.10639167
chicago: Hübner, Valentin, and Maria Kleshnina. “Computer Code for ‘Efficiency and
Resilience of Cooperation in Asymmetric Social Dilemmas.’” Zenodo, 2024. https://doi.org/10.5281/ZENODO.10639167.
ieee: V. Hübner and M. Kleshnina, “Computer code for ‘Efficiency and resilience
of cooperation in asymmetric social dilemmas.’” Zenodo, 2024.
ista: Hübner V, Kleshnina M. 2024. Computer code for ‘Efficiency and resilience
of cooperation in asymmetric social dilemmas’, Zenodo, 10.5281/ZENODO.10639167.
mla: Hübner, Valentin, and Maria Kleshnina. Computer Code for “Efficiency and
Resilience of Cooperation in Asymmetric Social Dilemmas.” Zenodo, 2024, doi:10.5281/ZENODO.10639167.
short: V. Hübner, M. Kleshnina, (2024).
date_created: 2024-03-12T13:02:58Z
date_published: 2024-02-09T00:00:00Z
date_updated: 2024-03-12T13:29:26Z
day: '09'
ddc:
- '000'
department:
- _id: KrCh
doi: 10.5281/ZENODO.10639167
has_accepted_license: '1'
main_file_link:
- open_access: '1'
url: https://10.5281/zenodo.10639167
month: '02'
oa: 1
oa_version: Published Version
publisher: Zenodo
related_material:
record:
- id: '15083'
relation: used_in_publication
status: public
status: public
title: Computer code for "Efficiency and resilience of cooperation in asymmetric social
dilemmas"
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_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '15097'
abstract:
- lang: eng
text: Global storm-resolving models (GSRMs) use strongly refined horizontal grids
compared with the climate models typically used in the Coupled Model Intercomparison
Project (CMIP) but employ comparable vertical grid spacings. Here, we study how
changes in the vertical grid spacing and adjustments to the integration time step
affect the basic climate quantities simulated by the ICON-Sapphire atmospheric
GSRM. Simulations are performed over a 45 d period for five different vertical
grids with between 55 and 540 vertical layers and maximum tropospheric vertical
grid spacings of between 800 and 50 m, respectively. The effects of changes in
the vertical grid spacing are compared with the effects of reducing the horizontal
grid spacing from 5 to 2.5 km. For most of the quantities considered, halving
the vertical grid spacing has a smaller effect than halving the horizontal grid
spacing, but it is not negligible. Each halving of the vertical grid spacing,
along with the necessary reductions in time step length, increases cloud liquid
water by about 7 %, compared with an approximate 16 % decrease for halving the
horizontal grid spacing. The effect is due to both the vertical grid refinement
and the time step reduction. There is no tendency toward convergence in the range
of grid spacings tested here. The cloud ice amount also increases with a refinement
in the vertical grid, but it is hardly affected by the time step length and does
show a tendency to converge. While the effect on shortwave radiation is globally
dominated by the altered reflection due to the change in the cloud liquid water
content, the effect on longwave radiation is more difficult to interpret because
changes in the cloud ice concentration and cloud fraction are anticorrelated in
some regions. The simulations show that using a maximum tropospheric vertical
grid spacing larger than 400 m would increase the truncation error strongly. Computing
time investments in a further vertical grid refinement can affect the truncation
errors of GSRMs similarly to comparable investments in horizontal refinement,
because halving the vertical grid spacing is generally cheaper than halving the
horizontal grid spacing. However, convergence of boundary layer cloud properties
cannot be expected, even for the smallest maximum tropospheric grid spacing of
50 m used in this study.
acknowledgement: "The authors wish to thank Ann Kristin Naumann and three anonymous
reviewers for very helpful comments on an earlier version of this paper. We are
grateful to René Redler and Karl-Hermann Wieners for useful recommendations regarding
running the simulations. We thank Luis Kornblueh for providing an external vertical
grid generator and resolving the memory requirements for the very fine vertical
grids. We acknowledge Hauke Schulz for providing the radiosonde data. The simulations
were run at the German Climate Computing Center (DKRZ), and we thank the DKRZ staff
for their support.\r\nHauke Schmidt and Diego Jimenez-de la Cuesta received financial
support from the SOCTOC project within the framework of the ROMIC program, funded
by the German Ministry of Education and Research (BMBF) (grant no. 01LG1903A).\r\nThe
article processing charges for this open-access publication were covered by the
Max Planck Society."
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Hauke
full_name: Schmidt, Hauke
last_name: Schmidt
- first_name: Sebastian
full_name: Rast, Sebastian
last_name: Rast
- first_name: Jiawei
full_name: Bao, Jiawei
id: bb9a7399-fefd-11ed-be3c-ae648fd1d160
last_name: Bao
- first_name: Amrit
full_name: Cassim, Amrit
last_name: Cassim
- first_name: Shih Wei
full_name: Fang, Shih Wei
last_name: Fang
- first_name: Diego
full_name: Jimenez-De La Cuesta, Diego
last_name: Jimenez-De La Cuesta
- first_name: Paul
full_name: Keil, Paul
last_name: Keil
- first_name: Lukas
full_name: Kluft, Lukas
last_name: Kluft
- first_name: Clarissa
full_name: Kroll, Clarissa
last_name: Kroll
- first_name: Theresa
full_name: Lang, Theresa
last_name: Lang
- first_name: Ulrike
full_name: Niemeier, Ulrike
last_name: Niemeier
- first_name: Andrea
full_name: Schneidereit, Andrea
last_name: Schneidereit
- first_name: Andrew I.L.
full_name: Williams, Andrew I.L.
last_name: Williams
- first_name: Bjorn
full_name: Stevens, Bjorn
last_name: Stevens
citation:
ama: Schmidt H, Rast S, Bao J, et al. Effects of vertical grid spacing on the climate
simulated in the ICON-Sapphire global storm-resolving model. Geoscientific
Model Development. 2024;17(4):1563-1584. doi:10.5194/gmd-17-1563-2024
apa: Schmidt, H., Rast, S., Bao, J., Cassim, A., Fang, S. W., Jimenez-De La Cuesta,
D., … Stevens, B. (2024). Effects of vertical grid spacing on the climate simulated
in the ICON-Sapphire global storm-resolving model. Geoscientific Model Development.
European Geosciences Union. https://doi.org/10.5194/gmd-17-1563-2024
chicago: Schmidt, Hauke, Sebastian Rast, Jiawei Bao, Amrit Cassim, Shih Wei Fang,
Diego Jimenez-De La Cuesta, Paul Keil, et al. “Effects of Vertical Grid Spacing
on the Climate Simulated in the ICON-Sapphire Global Storm-Resolving Model.” Geoscientific
Model Development. European Geosciences Union, 2024. https://doi.org/10.5194/gmd-17-1563-2024.
ieee: H. Schmidt et al., “Effects of vertical grid spacing on the climate
simulated in the ICON-Sapphire global storm-resolving model,” Geoscientific
Model Development, vol. 17, no. 4. European Geosciences Union, pp. 1563–1584,
2024.
ista: Schmidt H, Rast S, Bao J, Cassim A, Fang SW, Jimenez-De La Cuesta D, Keil
P, Kluft L, Kroll C, Lang T, Niemeier U, Schneidereit A, Williams AIL, Stevens
B. 2024. Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire
global storm-resolving model. Geoscientific Model Development. 17(4), 1563–1584.
mla: Schmidt, Hauke, et al. “Effects of Vertical Grid Spacing on the Climate Simulated
in the ICON-Sapphire Global Storm-Resolving Model.” Geoscientific Model Development,
vol. 17, no. 4, European Geosciences Union, 2024, pp. 1563–84, doi:10.5194/gmd-17-1563-2024.
short: H. Schmidt, S. Rast, J. Bao, A. Cassim, S.W. Fang, D. Jimenez-De La Cuesta,
P. Keil, L. Kluft, C. Kroll, T. Lang, U. Niemeier, A. Schneidereit, A.I.L. Williams,
B. Stevens, Geoscientific Model Development 17 (2024) 1563–1584.
date_created: 2024-03-10T23:00:53Z
date_published: 2024-02-22T00:00:00Z
date_updated: 2024-03-13T09:01:20Z
day: '22'
ddc:
- '550'
department:
- _id: CaMu
doi: 10.5194/gmd-17-1563-2024
file:
- access_level: open_access
checksum: 270d2340402729b0532f7072ea914cae
content_type: application/pdf
creator: dernst
date_created: 2024-03-13T08:59:21Z
date_updated: 2024-03-13T08:59:21Z
file_id: '15111'
file_name: 2024_GeoscientificModelDev_Schmidt.pdf
file_size: 13364601
relation: main_file
success: 1
file_date_updated: 2024-03-13T08:59:21Z
has_accepted_license: '1'
intvolume: ' 17'
issue: '4'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 1563-1584
publication: Geoscientific Model Development
publication_identifier:
eissn:
- 1991-9603
issn:
- 1991-959X
publication_status: published
publisher: European Geosciences Union
quality_controlled: '1'
scopus_import: '1'
status: public
title: Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire
global storm-resolving model
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: 17
year: '2024'
...
---
_id: '12311'
abstract:
- lang: eng
text: In this note, we prove a formula for the cancellation exponent kv,n between
division polynomials ψn and ϕn associated with a sequence {nP}n∈N of points
on an elliptic curve E defined over a discrete valuation field K. The formula
greatly generalizes the previously known special cases and treats also the case
of non-standard Kodaira types for non-perfect residue fields.
acknowledgement: Silverman, and Paul Voutier for the comments on the earlier version
of this paper. The first author acknowledges the support by Dioscuri programme initiated
by the Max Planck Society, jointly managed with the National Science Centre (Poland),
and mutually funded by the Polish Ministry of Science and Higher Education and the
German Federal Ministry of Education and Research. The second author has been supported
by MIUR (Italy) through PRIN 2017 ‘Geometric, algebraic and analytic methods in
arithmetic’ and has received funding from the European Union's Horizon 2020 research
and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413.
article_number: '2203.02015'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Bartosz
full_name: Naskręcki, Bartosz
last_name: Naskręcki
- first_name: Matteo
full_name: Verzobio, Matteo
id: 7aa8f170-131e-11ed-88e1-a9efd01027cb
last_name: Verzobio
orcid: 0000-0002-0854-0306
citation:
ama: 'Naskręcki B, Verzobio M. Common valuations of division polynomials. Proceedings
of the Royal Society of Edinburgh Section A: Mathematics. 2024. doi:10.1017/prm.2024.7'
apa: 'Naskręcki, B., & Verzobio, M. (2024). Common valuations of division polynomials.
Proceedings of the Royal Society of Edinburgh Section A: Mathematics. Cambridge
University Press. https://doi.org/10.1017/prm.2024.7'
chicago: 'Naskręcki, Bartosz, and Matteo Verzobio. “Common Valuations of Division
Polynomials.” Proceedings of the Royal Society of Edinburgh Section A: Mathematics.
Cambridge University Press, 2024. https://doi.org/10.1017/prm.2024.7.'
ieee: 'B. Naskręcki and M. Verzobio, “Common valuations of division polynomials,”
Proceedings of the Royal Society of Edinburgh Section A: Mathematics. Cambridge
University Press, 2024.'
ista: 'Naskręcki B, Verzobio M. 2024. Common valuations of division polynomials.
Proceedings of the Royal Society of Edinburgh Section A: Mathematics., 2203.02015.'
mla: 'Naskręcki, Bartosz, and Matteo Verzobio. “Common Valuations of Division Polynomials.”
Proceedings of the Royal Society of Edinburgh Section A: Mathematics, 2203.02015,
Cambridge University Press, 2024, doi:10.1017/prm.2024.7.'
short: 'B. Naskręcki, M. Verzobio, Proceedings of the Royal Society of Edinburgh
Section A: Mathematics (2024).'
date_created: 2023-01-16T11:45:22Z
date_published: 2024-02-26T00:00:00Z
date_updated: 2024-03-13T11:55:21Z
day: '26'
ddc:
- '510'
department:
- _id: TiBr
doi: 10.1017/prm.2024.7
ec_funded: 1
external_id:
arxiv:
- '2203.02015'
has_accepted_license: '1'
keyword:
- Elliptic curves
- Néron models
- division polynomials
- height functions
- discrete valuation rings
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1017/prm.2024.7
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: fc2ed2f7-9c52-11eb-aca3-c01059dda49c
call_identifier: H2020
grant_number: '101034413'
name: 'IST-BRIDGE: International postdoctoral program'
publication: 'Proceedings of the Royal Society of Edinburgh Section A: Mathematics'
publication_identifier:
eissn:
- 1473-7124
issn:
- 0308-2105
publication_status: epub_ahead
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Common valuations of division polynomials
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: '15099'
abstract:
- lang: eng
text: Speciation is a key evolutionary process that is not yet fully understood.
Combining population genomic and ecological data from multiple diverging pairs
of marine snails (Littorina) supports the search for speciation mechanisms. Placing
pairs on a one-dimensional speciation continuum, from undifferentiated populations
to species, obscured the complexity of speciation. Adding multiple axes helped
to describe either speciation routes or reproductive isolation in the snails.
Divergent ecological selection repeatedly generated barriers between ecotypes,
but appeared less important in completing speciation while genetic incompatibilities
played a key role. Chromosomal inversions contributed to genomic barriers, but
with variable impact. A multidimensional (hypercube) approach supported framing
of questions and identification of knowledge gaps and can be useful to understand
speciation in many other systems.
acknowledgement: KJ, MR, and RKB were supported by grants from the Swedish Research
Council (2021-0419, 2021-05243, and 2018-03695, respectively). RKB was also supported
by the Leverhulme Trust (RPG-2021-141), RF by FCT- Portuguese Science Foundation
(PTDC/BIA-EVL/1614/2021 and 2020.00275.CEECIND), and AMW by Norwegian Research Council
RCN (Project number 315287). We thank the members of the Integration of Speciation
Research network for stimulating discussions, the Littorina research community for
important contributions of data and analyses, and Cynthia Riginos for useful comments
on an earlier draft.
article_processing_charge: Yes (in subscription journal)
article_type: review
author:
- first_name: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Rui
full_name: Faria, Rui
last_name: Faria
- first_name: Alan
full_name: Le Moan, Alan
last_name: Le Moan
- first_name: Marina
full_name: Rafajlović, Marina
last_name: Rafajlović
- first_name: Anja M
full_name: Westram, Anja M
id: 3C147470-F248-11E8-B48F-1D18A9856A87
last_name: Westram
orcid: 0000-0003-1050-4969
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
citation:
ama: Johannesson K, Faria R, Le Moan A, et al. Diverse pathways to speciation revealed
by marine snails. Trends in Genetics. 2024. doi:10.1016/j.tig.2024.01.002
apa: Johannesson, K., Faria, R., Le Moan, A., Rafajlović, M., Westram, A. M., Butlin,
R. K., & Stankowski, S. (2024). Diverse pathways to speciation revealed by
marine snails. Trends in Genetics. Cell Press. https://doi.org/10.1016/j.tig.2024.01.002
chicago: Johannesson, Kerstin, Rui Faria, Alan Le Moan, Marina Rafajlović, Anja
M Westram, Roger K. Butlin, and Sean Stankowski. “Diverse Pathways to Speciation
Revealed by Marine Snails.” Trends in Genetics. Cell Press, 2024. https://doi.org/10.1016/j.tig.2024.01.002.
ieee: K. Johannesson et al., “Diverse pathways to speciation revealed by
marine snails,” Trends in Genetics. Cell Press, 2024.
ista: Johannesson K, Faria R, Le Moan A, Rafajlović M, Westram AM, Butlin RK, Stankowski
S. 2024. Diverse pathways to speciation revealed by marine snails. Trends in Genetics.
mla: Johannesson, Kerstin, et al. “Diverse Pathways to Speciation Revealed by Marine
Snails.” Trends in Genetics, Cell Press, 2024, doi:10.1016/j.tig.2024.01.002.
short: K. Johannesson, R. Faria, A. Le Moan, M. Rafajlović, A.M. Westram, R.K. Butlin,
S. Stankowski, Trends in Genetics (2024).
date_created: 2024-03-10T23:00:54Z
date_published: 2024-02-22T00:00:00Z
date_updated: 2024-03-13T12:08:57Z
day: '22'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1016/j.tig.2024.01.002
external_id:
pmid:
- '38395682'
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.tig.2024.01.002
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
publication: Trends in Genetics
publication_identifier:
eissn:
- 1362-4555
issn:
- 0168-9525
publication_status: epub_ahead
publisher: Cell Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Diverse pathways to speciation revealed by marine snails
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: '15098'
abstract:
- lang: eng
text: The paper is devoted to the analysis of the global well-posedness and the
interior regularity of the 2D Navier–Stokes equations with inhomogeneous stochastic
boundary conditions. The noise, white in time and coloured in space, can be interpreted
as the physical law describing the driving mechanism on the atmosphere–ocean interface,
i.e. as a balance of the shear stress of the ocean and the horizontal wind force.
acknowledgement: The authors thank Professor Franco Flandoli for useful discussions
and valuable insight into the subject. In particular, A.A. would like to thank professor
Franco Flandoli for hosting and financially contributing to his research visit at
Scuola Normale di Pisa in January 2023, where this work started. E.L. would like
to express sincere gratitude to Professor Marco Fuhrman for igniting his interest
in this particular field of research. E.L. want to thank Professor Matthias Hieber
and Dr. Martin Saal for useful discussions. Finally, the authors thank the anonymous
referee for helpful comments which improved the paper from its initial version.Open
access funding provided by Scuola Normale Superiore within the CRUI-CARE Agreement.
A. Agresti has received funding from the European Research Council (ERC) under the
European Union’s Horizon 2020 research and innovation programme (Grant Agreement
No. 948819).
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Antonio
full_name: Agresti, Antonio
id: 673cd0cc-9b9a-11eb-b144-88f30e1fbb72
last_name: Agresti
orcid: 0000-0002-9573-2962
- first_name: Eliseo
full_name: Luongo, Eliseo
last_name: Luongo
citation:
ama: Agresti A, Luongo E. Global well-posedness and interior regularity of 2D Navier-Stokes
equations with stochastic boundary conditions. Mathematische Annalen. 2024.
doi:10.1007/s00208-024-02812-0
apa: Agresti, A., & Luongo, E. (2024). Global well-posedness and interior regularity
of 2D Navier-Stokes equations with stochastic boundary conditions. Mathematische
Annalen. Springer Nature. https://doi.org/10.1007/s00208-024-02812-0
chicago: Agresti, Antonio, and Eliseo Luongo. “Global Well-Posedness and Interior
Regularity of 2D Navier-Stokes Equations with Stochastic Boundary Conditions.”
Mathematische Annalen. Springer Nature, 2024. https://doi.org/10.1007/s00208-024-02812-0.
ieee: A. Agresti and E. Luongo, “Global well-posedness and interior regularity of
2D Navier-Stokes equations with stochastic boundary conditions,” Mathematische
Annalen. Springer Nature, 2024.
ista: Agresti A, Luongo E. 2024. Global well-posedness and interior regularity of
2D Navier-Stokes equations with stochastic boundary conditions. Mathematische
Annalen.
mla: Agresti, Antonio, and Eliseo Luongo. “Global Well-Posedness and Interior Regularity
of 2D Navier-Stokes Equations with Stochastic Boundary Conditions.” Mathematische
Annalen, Springer Nature, 2024, doi:10.1007/s00208-024-02812-0.
short: A. Agresti, E. Luongo, Mathematische Annalen (2024).
date_created: 2024-03-10T23:00:54Z
date_published: 2024-02-27T00:00:00Z
date_updated: 2024-03-13T12:20:23Z
day: '27'
department:
- _id: JuFi
doi: 10.1007/s00208-024-02812-0
ec_funded: 1
external_id:
arxiv:
- '2306.11081'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s00208-024-02812-0
month: '02'
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: Mathematische Annalen
publication_identifier:
eissn:
- 1432-1807
issn:
- 0025-5831
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Global well-posedness and interior regularity of 2D Navier-Stokes equations
with stochastic boundary conditions
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
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: 2024-03-14T13:14:18Z
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/
record:
- id: '15101'
relation: dissertation_contains
status: public
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'
...