---
_id: '12224'
abstract:
- lang: eng
text: Muskelin (Mkln1) is implicated in neuronal function, regulating plasma membrane
receptor trafficking. However, its influence on intrinsic brain activity and corresponding
behavioral processes remains unclear. Here we show that murine Mkln1
knockout causes non-habituating locomotor activity, increased exploratory drive,
and decreased locomotor response to amphetamine. Muskelin deficiency impairs social
novelty detection while promoting the retention of spatial reference memory and
fear extinction recall. This is strongly mirrored in either weaker or stronger
resting-state functional connectivity between critical circuits mediating locomotor
exploration and cognition. We show that Mkln1 deletion
alters dendrite branching and spine structure, coinciding with enhanced AMPAR-mediated
synaptic transmission but selective impairment in synaptic potentiation maintenance.
We identify muskelin at excitatory synapses and highlight its role in regulating
dendritic spine actin stability. Our findings point to aberrant spine actin modulation
and changes in glutamatergic synaptic function as critical mechanisms that contribute
to the neurobehavioral phenotype arising from Mkln1
ablation.
acknowledgement: "The authors are grateful to the UKE Animal Facilities (Hamburg)
for animal husbandry and Dr. Bastian Tiemann for his veterinary expertise and supervision
of animal care. We thank Dr. Franco Lombino for critically reading the manuscript
and for helpful discussion. This work was supported by grants from the Deutsche
Forschungsgemeinschaft (DFG) (FOR2419-KN556/11-1, FOR2419-KN556/11-2, KN556/12-1)
and the Landesforschungsförderung Hamburg (LFF-FV76) to M.K.\r\nOpen Access funding
enabled and organized by Projekt DEAL."
article_number: '589'
article_processing_charge: No
article_type: original
author:
- first_name: Mary W
full_name: Muhia, Mary W
id: ab7ed20f-09f7-11eb-909c-d5d0b443ee9d
last_name: Muhia
- first_name: PingAn
full_name: YuanXiang, PingAn
last_name: YuanXiang
- first_name: Jan
full_name: Sedlacik, Jan
last_name: Sedlacik
- first_name: Jürgen R.
full_name: Schwarz, Jürgen R.
last_name: Schwarz
- first_name: Frank F.
full_name: Heisler, Frank F.
last_name: Heisler
- first_name: Kira V.
full_name: Gromova, Kira V.
last_name: Gromova
- first_name: Edda
full_name: Thies, Edda
last_name: Thies
- first_name: Petra
full_name: Breiden, Petra
last_name: Breiden
- first_name: Yvonne
full_name: Pechmann, Yvonne
last_name: Pechmann
- first_name: Michael R.
full_name: Kreutz, Michael R.
last_name: Kreutz
- first_name: Matthias
full_name: Kneussel, Matthias
last_name: Kneussel
citation:
ama: Muhia MW, YuanXiang P, Sedlacik J, et al. Muskelin regulates actin-dependent
synaptic changes and intrinsic brain activity relevant to behavioral and cognitive
processes. Communications Biology. 2022;5. doi:10.1038/s42003-022-03446-1
apa: Muhia, M. W., YuanXiang, P., Sedlacik, J., Schwarz, J. R., Heisler, F. F.,
Gromova, K. V., … Kneussel, M. (2022). Muskelin regulates actin-dependent synaptic
changes and intrinsic brain activity relevant to behavioral and cognitive processes.
Communications Biology. Springer Nature. https://doi.org/10.1038/s42003-022-03446-1
chicago: Muhia, Mary W, PingAn YuanXiang, Jan Sedlacik, Jürgen R. Schwarz, Frank
F. Heisler, Kira V. Gromova, Edda Thies, et al. “Muskelin Regulates Actin-Dependent
Synaptic Changes and Intrinsic Brain Activity Relevant to Behavioral and Cognitive
Processes.” Communications Biology. Springer Nature, 2022. https://doi.org/10.1038/s42003-022-03446-1.
ieee: M. W. Muhia et al., “Muskelin regulates actin-dependent synaptic changes
and intrinsic brain activity relevant to behavioral and cognitive processes,”
Communications Biology, vol. 5. Springer Nature, 2022.
ista: Muhia MW, YuanXiang P, Sedlacik J, Schwarz JR, Heisler FF, Gromova KV, Thies
E, Breiden P, Pechmann Y, Kreutz MR, Kneussel M. 2022. Muskelin regulates actin-dependent
synaptic changes and intrinsic brain activity relevant to behavioral and cognitive
processes. Communications Biology. 5, 589.
mla: Muhia, Mary W., et al. “Muskelin Regulates Actin-Dependent Synaptic Changes
and Intrinsic Brain Activity Relevant to Behavioral and Cognitive Processes.”
Communications Biology, vol. 5, 589, Springer Nature, 2022, doi:10.1038/s42003-022-03446-1.
short: M.W. Muhia, P. YuanXiang, J. Sedlacik, J.R. Schwarz, F.F. Heisler, K.V. Gromova,
E. Thies, P. Breiden, Y. Pechmann, M.R. Kreutz, M. Kneussel, Communications Biology
5 (2022).
date_created: 2023-01-16T09:48:19Z
date_published: 2022-06-15T00:00:00Z
date_updated: 2023-08-04T09:25:59Z
day: '15'
ddc:
- '570'
department:
- _id: PreCl
doi: 10.1038/s42003-022-03446-1
external_id:
isi:
- '000811777900003'
file:
- access_level: open_access
checksum: bd95be1e77090208b79bc45ea8785d0b
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T08:23:46Z
date_updated: 2023-01-27T08:23:46Z
file_id: '12417'
file_name: 2022_CommBiology_Muhia.pdf
file_size: 3968356
relation: main_file
success: 1
file_date_updated: 2023-01-27T08:23:46Z
has_accepted_license: '1'
intvolume: ' 5'
isi: 1
keyword:
- General Agricultural and Biological Sciences
- General Biochemistry
- Genetics and Molecular Biology
- Medicine (miscellaneous)
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Communications Biology
publication_identifier:
issn:
- 2399-3642
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Muskelin regulates actin-dependent synaptic changes and intrinsic brain activity
relevant to behavioral and cognitive processes
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 5
year: '2022'
...
---
_id: '12225'
abstract:
- lang: eng
text: In social networks, users often engage with like-minded peers. This selective
exposure to opinions might result in echo chambers, i.e., political fragmentation
and social polarization of user interactions. When echo chambers form, opinions
have a bimodal distribution with two peaks on opposite sides. In certain issues,
where either extreme positions contain a degree of misinformation, neutral consensus
is preferable for promoting discourse. In this paper, we use an opinion dynamics
model that naturally forms echo chambers in order to find a feedback mechanism
that bridges these communities and leads to a neutral consensus. We introduce the
random dynamical nudge (RDN), which presents each agent
with input from a random selection of other agents’ opinions and does not require
surveillance of every person’s opinions. Our computational results in two different
models suggest that the RDN leads to a unimodal distribution of opinions centered
around the neutral consensus. Furthermore, the RDN is effective both for preventing
the formation of echo chambers and also for depolarizing existing echo chambers.
Due to the simple and robust nature of the RDN, social media networks might be
able to implement a version of this self-feedback mechanism, when appropriate,
to prevent the segregation of online communities on complex social issues.
acknowledgement: CBC and AKN would like to thank Neuromatch Academy https://www.neuromatchacademy.org
for introducing the authors to each other. We thank Dr. Krešimir Josic (University
of Houston) , Fabian Baumann (Humboldt University) and Dr. Igor M. Sokolov (Humboldt
University) for carefully reading the early versions of the manuscript and providing
constructive feedback. CBC is supported by the German Deutscher Akademischer Austauschdienst
(DAAD, https://daad.de), the South African National Research Foundation (NRF, https://nrf.ac.za),
the University of Cape Town (UCT, https://uct.ac.za), and the NOMIS Foundation through
the NOMIS Fellowships at IST Austria program (https://nomisfoundation.ch). SVV appreciate
the generosity of Tecnológico de Monterrey for covering the publication fee.
article_number: '9234'
article_processing_charge: No
article_type: original
author:
- first_name: Christopher
full_name: Currin, Christopher
id: e8321fc5-3091-11eb-8a53-83f309a11ac9
last_name: Currin
orcid: 0000-0002-4809-5059
- first_name: Sebastián Vallejo
full_name: Vera, Sebastián Vallejo
last_name: Vera
- first_name: Ali
full_name: Khaledi-Nasab, Ali
last_name: Khaledi-Nasab
citation:
ama: Currin C, Vera SV, Khaledi-Nasab A. Depolarization of echo chambers by random
dynamical nudge. Scientific Reports. 2022;12. doi:10.1038/s41598-022-12494-w
apa: Currin, C., Vera, S. V., & Khaledi-Nasab, A. (2022). Depolarization of
echo chambers by random dynamical nudge. Scientific Reports. Springer Nature.
https://doi.org/10.1038/s41598-022-12494-w
chicago: Currin, Christopher, Sebastián Vallejo Vera, and Ali Khaledi-Nasab. “Depolarization
of Echo Chambers by Random Dynamical Nudge.” Scientific Reports. Springer
Nature, 2022. https://doi.org/10.1038/s41598-022-12494-w.
ieee: C. Currin, S. V. Vera, and A. Khaledi-Nasab, “Depolarization of echo chambers
by random dynamical nudge,” Scientific Reports, vol. 12. Springer Nature,
2022.
ista: Currin C, Vera SV, Khaledi-Nasab A. 2022. Depolarization of echo chambers
by random dynamical nudge. Scientific Reports. 12, 9234.
mla: Currin, Christopher, et al. “Depolarization of Echo Chambers by Random Dynamical
Nudge.” Scientific Reports, vol. 12, 9234, Springer Nature, 2022, doi:10.1038/s41598-022-12494-w.
short: C. Currin, S.V. Vera, A. Khaledi-Nasab, Scientific Reports 12 (2022).
date_created: 2023-01-16T09:48:30Z
date_published: 2022-06-02T00:00:00Z
date_updated: 2023-08-04T09:26:30Z
day: '02'
ddc:
- '570'
department:
- _id: TiVo
doi: 10.1038/s41598-022-12494-w
external_id:
isi:
- '000805561200024'
pmid:
- '35654942'
file:
- access_level: open_access
checksum: e024a75f14ce5667795a31e44a259c52
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T08:56:18Z
date_updated: 2023-01-27T08:56:18Z
file_id: '12418'
file_name: 2022_ScientificReports_Currin.pdf
file_size: 3625627
relation: main_file
success: 1
file_date_updated: 2023-01-27T08:56:18Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
keyword:
- Multidisciplinary
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
publication: Scientific Reports
publication_identifier:
issn:
- 2045-2322
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Depolarization of echo chambers by random dynamical nudge
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 12
year: '2022'
...
---
_id: '12226'
abstract:
- lang: eng
text: "Background: Biases of DNA repair can shape the nucleotide landscape of genomes
at evolutionary timescales. The molecular mechanisms of those biases are still
poorly understood because it is difficult to isolate the contributions of DNA
repair from those of DNA damage.\r\n\r\nResults: Here, we develop a genome-wide
assay whereby the same DNA lesion is repaired in different genomic contexts. We
insert thousands of barcoded transposons carrying a reporter of DNA mismatch repair
in the genome of mouse embryonic stem cells. Upon inducing a double-strand break
between tandem repeats, a mismatch is generated if the break is repaired through
single-strand annealing. The resolution of the mismatch showed a 60–80% bias in
favor of the strand with the longest 3′ flap. The location of the lesion in the
genome and the type of mismatch had little influence on the bias. Instead, we
observe a complete reversal of the bias when the longest 3′ flap is moved to the
opposite strand by changing the position of the double-strand break in the reporter.\r\n\r\nConclusions:
These results suggest that the processing of the double-strand break has a major
influence on the repair of mismatches during single-strand annealing."
acknowledgement: We acknowledge the financial support of the Natural Sciences and
Engineering Research Council of Canada (NSERC RGPIN-2020-06377), the Spanish Ministry
of Economy, Industry and Competitiveness (“Centro de Excelencia Severo Ochoa 2013-2017”,
Plan Estatal PGC2018-099807-B-I00), of the CERCA Programme/Generalitat de Catalunya,
and of the European Research Council (Synergy Grant 609989). VOP was supported by
the European Union’s Horizon 2020 research and innovation program under the Marie
Skłodowska-Curie programme (665385). We also acknowledge the support of the Spanish
Ministry of Economy and Competitiveness (MEIC) to the EMBL partnership.
article_number: '93'
article_processing_charge: No
article_type: original
author:
- first_name: Victoria
full_name: Pokusaeva, Victoria
id: 3184041C-F248-11E8-B48F-1D18A9856A87
last_name: Pokusaeva
orcid: 0000-0001-7660-444X
- first_name: Aránzazu Rosado
full_name: Diez, Aránzazu Rosado
last_name: Diez
- first_name: Lorena
full_name: Espinar, Lorena
last_name: Espinar
- first_name: Albert Torelló
full_name: Pérez, Albert Torelló
last_name: Pérez
- first_name: Guillaume J.
full_name: Filion, Guillaume J.
last_name: Filion
citation:
ama: Pokusaeva V, Diez AR, Espinar L, Pérez AT, Filion GJ. Strand asymmetry influences
mismatch resolution during single-strand annealing. Genome Biology. 2022;23.
doi:10.1186/s13059-022-02665-3
apa: Pokusaeva, V., Diez, A. R., Espinar, L., Pérez, A. T., & Filion, G. J.
(2022). Strand asymmetry influences mismatch resolution during single-strand annealing.
Genome Biology. Springer Nature. https://doi.org/10.1186/s13059-022-02665-3
chicago: Pokusaeva, Victoria, Aránzazu Rosado Diez, Lorena Espinar, Albert Torelló
Pérez, and Guillaume J. Filion. “Strand Asymmetry Influences Mismatch Resolution
during Single-Strand Annealing.” Genome Biology. Springer Nature, 2022.
https://doi.org/10.1186/s13059-022-02665-3.
ieee: V. Pokusaeva, A. R. Diez, L. Espinar, A. T. Pérez, and G. J. Filion, “Strand
asymmetry influences mismatch resolution during single-strand annealing,” Genome
Biology, vol. 23. Springer Nature, 2022.
ista: Pokusaeva V, Diez AR, Espinar L, Pérez AT, Filion GJ. 2022. Strand asymmetry
influences mismatch resolution during single-strand annealing. Genome Biology.
23, 93.
mla: Pokusaeva, Victoria, et al. “Strand Asymmetry Influences Mismatch Resolution
during Single-Strand Annealing.” Genome Biology, vol. 23, 93, Springer
Nature, 2022, doi:10.1186/s13059-022-02665-3.
short: V. Pokusaeva, A.R. Diez, L. Espinar, A.T. Pérez, G.J. Filion, Genome Biology
23 (2022).
date_created: 2023-01-16T09:48:44Z
date_published: 2022-04-12T00:00:00Z
date_updated: 2023-08-04T09:27:00Z
day: '12'
ddc:
- '570'
department:
- _id: MaJö
doi: 10.1186/s13059-022-02665-3
ec_funded: 1
external_id:
isi:
- '000781953800001'
pmid:
- '35414014'
file:
- access_level: open_access
checksum: 17bb091fec04d82ba20a3458c4cfd2bd
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T09:01:40Z
date_updated: 2023-01-27T09:01:40Z
file_id: '12419'
file_name: 2022_GenomeBiology_Pokusaeva.pdf
file_size: 4939342
relation: main_file
success: 1
file_date_updated: 2023-01-27T09:01:40Z
has_accepted_license: '1'
intvolume: ' 23'
isi: 1
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: Genome Biology
publication_identifier:
issn:
- 1474-760X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: software
url: 'https://github.com/cellcomplexitylab/strand_asymmetry '
- relation: software
url: https://hub.docker.com/r/gui11aume/strand_asymmetry
scopus_import: '1'
status: public
title: Strand asymmetry influences mismatch resolution during single-strand annealing
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 23
year: '2022'
...
---
_id: '12227'
abstract:
- lang: eng
text: Polydicyclopentadiene (pDCPD), a thermoset with excellent mechanical properties,
has enormous potential as a lightweight, tough, and stable matrix material owing
to its highly cross-linked macromolecular network. This work describes generating
pDCPD-based foams and hierarchically porous carbons derived therefrom by combining
ring-opening metathesis polymerization (ROMP) of DCPD, high internal phase emulsions
(HIPEs) as structural templates, and subsequent carbonization. The structure and
function of the carbon foams were characterized and discussed in detail using
scanning electron, transmission electron, or atomic force microscopy (SEM, TEM,
AFM), electron energy-loss spectroscopy (TEM-EELS), N2 sorption, and analyses
of electrical conductivity as well as mechanical properties. The resulting materials
exhibited uniform, shape-retaining shrinkage of only ∼1/3 after carbonization.
No structural failure was observed even when the pDCPD precursor foams were heated
to 1400 °C. Instead, the high porosity, void size, and 3D interconnectivity were
fully preserved, and the void diameters could be adjusted between 87 and 2.5 μm.
Moreover, foams have a carbon content >97%, an electronic conductivity of up to
2800 S·m–1, a Young’s modulus of up to 2.1 GPa, and a specific surface area of
up to 1200 m2·g–1. Surprisingly, the pDCPD foams were carbonized into shapes other
than monoliths, such as 10’s of micron thick membranes or foamy coatings adhered
to a metal foil or grid substrate. The latter coatings even adhere upon bending.
Finally, as a use case, carbonized foams were applied as porous cathodes for Li–O2
batteries where the foams show a favorable combination of porosity, active surface
area, and pore size for outstanding capacity.
acknowledgement: S.K. acknowledges the financial support from the Slovenian Research
Agency (grants P1-0021, P2-0150). Support by Graz University of Technology (LP-03
– Porous Materials@Work) and from VARTA Innovation GmbH is kindly acknowledged.
We thank Umicore for providing the initiator and Matjaž Mazaj (National Institute
of Chemistry, Ljubljana) and Karel Jerabek (Czech Academy of Sciences) for measurements
and fruitful discussions. S.A.F. is indebted to the Austrian Federal Ministry of
Science, Research and Economy; the Austrian Research Promotion Agency (Grant No.
845364); and ISTA for support.
article_processing_charge: No
article_type: original
author:
- first_name: Sebastijan
full_name: Kovačič, Sebastijan
last_name: Kovačič
- first_name: Bettina
full_name: Schafzahl, Bettina
last_name: Schafzahl
- first_name: Nadejda B.
full_name: Matsko, Nadejda B.
last_name: Matsko
- first_name: Katharina
full_name: Gruber, Katharina
last_name: Gruber
- first_name: Martin
full_name: Schmuck, Martin
last_name: Schmuck
- first_name: Stefan
full_name: Koller, Stefan
last_name: Koller
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
- first_name: Christian
full_name: Slugovc, Christian
last_name: Slugovc
citation:
ama: 'Kovačič S, Schafzahl B, Matsko NB, et al. Carbon foams via ring-opening metathesis
polymerization of emulsion templates: A facile method to make carbon current collectors
for battery applications. ACS Applied Energy Materials. 2022;5(11):14381-14390.
doi:10.1021/acsaem.2c02787'
apa: 'Kovačič, S., Schafzahl, B., Matsko, N. B., Gruber, K., Schmuck, M., Koller,
S., … Slugovc, C. (2022). Carbon foams via ring-opening metathesis polymerization
of emulsion templates: A facile method to make carbon current collectors for battery
applications. ACS Applied Energy Materials. American Chemical Society.
https://doi.org/10.1021/acsaem.2c02787'
chicago: 'Kovačič, Sebastijan, Bettina Schafzahl, Nadejda B. Matsko, Katharina Gruber,
Martin Schmuck, Stefan Koller, Stefan Alexander Freunberger, and Christian Slugovc.
“Carbon Foams via Ring-Opening Metathesis Polymerization of Emulsion Templates:
A Facile Method to Make Carbon Current Collectors for Battery Applications.” ACS
Applied Energy Materials. American Chemical Society, 2022. https://doi.org/10.1021/acsaem.2c02787.'
ieee: 'S. Kovačič et al., “Carbon foams via ring-opening metathesis polymerization
of emulsion templates: A facile method to make carbon current collectors for battery
applications,” ACS Applied Energy Materials, vol. 5, no. 11. American Chemical
Society, pp. 14381–14390, 2022.'
ista: 'Kovačič S, Schafzahl B, Matsko NB, Gruber K, Schmuck M, Koller S, Freunberger
SA, Slugovc C. 2022. Carbon foams via ring-opening metathesis polymerization of
emulsion templates: A facile method to make carbon current collectors for battery
applications. ACS Applied Energy Materials. 5(11), 14381–14390.'
mla: 'Kovačič, Sebastijan, et al. “Carbon Foams via Ring-Opening Metathesis Polymerization
of Emulsion Templates: A Facile Method to Make Carbon Current Collectors for Battery
Applications.” ACS Applied Energy Materials, vol. 5, no. 11, American Chemical
Society, 2022, pp. 14381–90, doi:10.1021/acsaem.2c02787.'
short: S. Kovačič, B. Schafzahl, N.B. Matsko, K. Gruber, M. Schmuck, S. Koller,
S.A. Freunberger, C. Slugovc, ACS Applied Energy Materials 5 (2022) 14381–14390.
date_created: 2023-01-16T09:48:53Z
date_published: 2022-10-16T00:00:00Z
date_updated: 2023-08-04T09:27:32Z
day: '16'
ddc:
- '540'
department:
- _id: StFr
doi: 10.1021/acsaem.2c02787
external_id:
isi:
- '000875635900001'
file:
- access_level: open_access
checksum: 572d15c250ab83d44f4e2c3aeb5f7388
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T09:09:15Z
date_updated: 2023-01-27T09:09:15Z
file_id: '12420'
file_name: 2022_AppliedEnergyMaterials_Kovacic.pdf
file_size: 13105589
relation: main_file
success: 1
file_date_updated: 2023-01-27T09:09:15Z
has_accepted_license: '1'
intvolume: ' 5'
isi: 1
issue: '11'
keyword:
- Electrical and Electronic Engineering
- Materials Chemistry
- Electrochemistry
- Energy Engineering and Power Technology
- Chemical Engineering (miscellaneous)
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 14381-14390
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: 'Carbon foams via ring-opening metathesis polymerization of emulsion templates:
A facile method to make carbon current collectors for battery applications'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 5
year: '2022'
...
---
_id: '12228'
abstract:
- lang: eng
text: The question of how RNA, as the principal carrier of genetic information evolved
is fundamentally important for our understanding of the origin of life. The RNA
molecule is far too complex to have formed in one evolutionary step, suggesting
that ancestral proto-RNAs (first ancestor of RNA) may have existed, which evolved
over time into the RNA of today. Here we show that isoxazole nucleosides, which
are quickly formed from hydroxylamine, cyanoacetylene, urea and ribose, are plausible
precursors for RNA. The isoxazole nucleoside can rearrange within an RNA-strand
to give cytidine, which leads to an increase of pairing stability. If the proto-RNA
contains a canonical seed-nucleoside with defined stereochemistry, the seed-nucleoside
can control the configuration of the anomeric center that forms during the in-RNA
transformation. The results demonstrate that RNA could have emerged from evolutionarily
primitive precursor isoxazole ribosides after strand formation.
acknowledgement: We thank Stefan Wiedemann for the synthesis of reference compounds
and Pia Heinrichs for assistance in the NMR measurements of the oligonucleotides.
We also thank Dr. Luis Escobar and Jonas Feldmann for valued discussions. This work
was supported by the German Research Foundation (DFG) for financial support via
CRC1309 (Project ID 325871075, A04), CRC1361 (Project ID 893547839, P02) and CRC1032
(Project ID 201269156, A5). This project has received funding from the European
Research Council (ERC) under the European Union's Horizon 2020 research and innovation
program under grant agreement No 741912 (EpiR). We are grateful for additional funding
from the Volkswagen Foundation (EvoRib). Open Access funding enabled and organized
by Projekt DEAL.
article_number: e202211945
article_processing_charge: No
article_type: original
author:
- first_name: Felix
full_name: Xu, Felix
last_name: Xu
- first_name: Antony
full_name: Crisp, Antony
last_name: Crisp
- first_name: Thea
full_name: Schinkel, Thea
last_name: Schinkel
- first_name: Romeo C. A.
full_name: Dubini, Romeo C. A.
last_name: Dubini
- first_name: Sarah
full_name: Hübner, Sarah
last_name: Hübner
- first_name: Sidney
full_name: Becker, Sidney
last_name: Becker
- first_name: Florian
full_name: Schelter, Florian
last_name: Schelter
- first_name: Petra
full_name: Rovo, Petra
id: c316e53f-b965-11eb-b128-bb26acc59c00
last_name: Rovo
orcid: 0000-0001-8729-7326
- first_name: Thomas
full_name: Carell, Thomas
last_name: Carell
citation:
ama: Xu F, Crisp A, Schinkel T, et al. Isoxazole nucleosides as building blocks
for a plausible proto‐RNA. Angewandte Chemie International Edition. 2022;61(45).
doi:10.1002/anie.202211945
apa: Xu, F., Crisp, A., Schinkel, T., Dubini, R. C. A., Hübner, S., Becker, S.,
… Carell, T. (2022). Isoxazole nucleosides as building blocks for a plausible
proto‐RNA. Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.202211945
chicago: Xu, Felix, Antony Crisp, Thea Schinkel, Romeo C. A. Dubini, Sarah Hübner,
Sidney Becker, Florian Schelter, Petra Rovo, and Thomas Carell. “Isoxazole Nucleosides
as Building Blocks for a Plausible Proto‐RNA.” Angewandte Chemie International
Edition. Wiley, 2022. https://doi.org/10.1002/anie.202211945.
ieee: F. Xu et al., “Isoxazole nucleosides as building blocks for a plausible
proto‐RNA,” Angewandte Chemie International Edition, vol. 61, no. 45. Wiley,
2022.
ista: Xu F, Crisp A, Schinkel T, Dubini RCA, Hübner S, Becker S, Schelter F, Rovo
P, Carell T. 2022. Isoxazole nucleosides as building blocks for a plausible proto‐RNA.
Angewandte Chemie International Edition. 61(45), e202211945.
mla: Xu, Felix, et al. “Isoxazole Nucleosides as Building Blocks for a Plausible
Proto‐RNA.” Angewandte Chemie International Edition, vol. 61, no. 45, e202211945,
Wiley, 2022, doi:10.1002/anie.202211945.
short: F. Xu, A. Crisp, T. Schinkel, R.C.A. Dubini, S. Hübner, S. Becker, F. Schelter,
P. Rovo, T. Carell, Angewandte Chemie International Edition 61 (2022).
date_created: 2023-01-16T09:49:05Z
date_published: 2022-11-07T00:00:00Z
date_updated: 2023-08-04T09:32:42Z
day: '07'
ddc:
- '540'
department:
- _id: NMR
doi: 10.1002/anie.202211945
external_id:
isi:
- '000866428500001'
file:
- access_level: open_access
checksum: 4e8152454d12025d13f6e6e9ca06b5d0
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T10:28:45Z
date_updated: 2023-01-27T10:28:45Z
file_id: '12422'
file_name: 2022_AngewandteChemieInternat_Xu.pdf
file_size: 1076715
relation: main_file
success: 1
file_date_updated: 2023-01-27T10:28:45Z
has_accepted_license: '1'
intvolume: ' 61'
isi: 1
issue: '45'
keyword:
- General Chemistry
- Catalysis
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
publication: Angewandte Chemie International Edition
publication_identifier:
eissn:
- 1521-3773
issn:
- 1433-7851
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Isoxazole nucleosides as building blocks for a plausible proto‐RNA
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 61
year: '2022'
...
---
_id: '12229'
abstract:
- lang: eng
text: "We present Bullshark, the first directed acyclic graph (DAG) based asynchronous
Byzantine Atomic Broadcast protocol that is optimized for the common synchronous
case. Like previous DAG-based BFT protocols [19, 25], Bullshark requires no extra
communication to achieve consensus on top of building the DAG. That is, parties
can totally order the vertices of the DAG by interpreting their local view of
the DAG edges. Unlike other asynchronous DAG-based protocols, Bullshark provides
a practical low latency fast-path that exploits synchronous periods and deprecates
the need for notoriously complex view-change and view-synchronization mechanisms.
Bullshark achieves this while maintaining all the desired properties of its predecessor
DAG-Rider [25]. Namely, it has optimal amortized communication complexity, it
provides fairness and asynchronous liveness, and safety is guaranteed even under
a quantum adversary.\r\n\r\nIn order to show the practicality and simplicity of
our approach, we also introduce a standalone partially synchronous version of
Bullshark, which we evaluate against the state of the art. The implemented protocol
is embarrassingly simple (200 LOC on top of an existing DAG-based mempool implementation).
It is highly efficient, achieving for example, 125,000 transactions per second
with a 2 seconds latency for a deployment of 50 parties. In the same setting,
the state of the art pays a steep 50% latency increase as it optimizes for asynchrony."
article_processing_charge: No
arxiv: 1
author:
- first_name: Alexander
full_name: Spiegelman, Alexander
last_name: Spiegelman
- first_name: Neil
full_name: Giridharan, Neil
last_name: Giridharan
- first_name: Alberto
full_name: Sonnino, Alberto
last_name: Sonnino
- first_name: Eleftherios
full_name: Kokoris Kogias, Eleftherios
id: f5983044-d7ef-11ea-ac6d-fd1430a26d30
last_name: Kokoris Kogias
citation:
ama: 'Spiegelman A, Giridharan N, Sonnino A, Kokoris Kogias E. Bullshark: DAG BFT
protocols made practical. In: Proceedings of the 2022 ACM SIGSAC Conference
on Computer and Communications Security. Association for Computing Machinery;
2022:2705–2718. doi:10.1145/3548606.3559361'
apa: 'Spiegelman, A., Giridharan, N., Sonnino, A., & Kokoris Kogias, E. (2022).
Bullshark: DAG BFT protocols made practical. In Proceedings of the 2022 ACM
SIGSAC Conference on Computer and Communications Security (pp. 2705–2718).
Los Angeles, CA, United States: Association for Computing Machinery. https://doi.org/10.1145/3548606.3559361'
chicago: 'Spiegelman, Alexander, Neil Giridharan, Alberto Sonnino, and Eleftherios
Kokoris Kogias. “Bullshark: DAG BFT Protocols Made Practical.” In Proceedings
of the 2022 ACM SIGSAC Conference on Computer and Communications Security,
2705–2718. Association for Computing Machinery, 2022. https://doi.org/10.1145/3548606.3559361.'
ieee: 'A. Spiegelman, N. Giridharan, A. Sonnino, and E. Kokoris Kogias, “Bullshark:
DAG BFT protocols made practical,” in Proceedings of the 2022 ACM SIGSAC Conference
on Computer and Communications Security, Los Angeles, CA, United States, 2022,
pp. 2705–2718.'
ista: 'Spiegelman A, Giridharan N, Sonnino A, Kokoris Kogias E. 2022. Bullshark:
DAG BFT protocols made practical. Proceedings of the 2022 ACM SIGSAC Conference
on Computer and Communications Security. CCS: CConference on Computer and Communications
Security, 2705–2718.'
mla: 'Spiegelman, Alexander, et al. “Bullshark: DAG BFT Protocols Made Practical.”
Proceedings of the 2022 ACM SIGSAC Conference on Computer and Communications
Security, Association for Computing Machinery, 2022, pp. 2705–2718, doi:10.1145/3548606.3559361.'
short: A. Spiegelman, N. Giridharan, A. Sonnino, E. Kokoris Kogias, in:, Proceedings
of the 2022 ACM SIGSAC Conference on Computer and Communications Security, Association
for Computing Machinery, 2022, pp. 2705–2718.
conference:
end_date: 2022-11-11
location: Los Angeles, CA, United States
name: 'CCS: CConference on Computer and Communications Security'
start_date: 2022-11-07
date_created: 2023-01-16T09:49:48Z
date_published: 2022-11-01T00:00:00Z
date_updated: 2023-01-27T10:33:17Z
day: '01'
department:
- _id: ElKo
doi: 10.1145/3548606.3559361
external_id:
arxiv:
- '2201.05677'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2201.05677
month: '11'
oa: 1
oa_version: Preprint
page: 2705–2718
publication: Proceedings of the 2022 ACM SIGSAC Conference on Computer and Communications
Security
publication_identifier:
isbn:
- '9781450394505'
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Bullshark: DAG BFT protocols made practical'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2022'
...
---
_id: '12231'
abstract:
- lang: eng
text: Ventral tail bending, which is transient but pronounced, is found in many
chordate embryos and constitutes an interesting model of how tissue interactions
control embryo shape. Here, we identify one key upstream regulator of ventral
tail bending in embryos of the ascidian Ciona. We show that during the early tailbud
stages, ventral epidermal cells exhibit a boat-shaped morphology (boat cell) with
a narrow apical surface where phosphorylated myosin light chain (pMLC) accumulates.
We further show that interfering with the function of the BMP ligand Admp led
to pMLC localizing to the basal instead of the apical side of ventral epidermal
cells and a reduced number of boat cells. Finally, we show that cutting ventral
epidermal midline cells at their apex using an ultraviolet laser relaxed ventral
tail bending. Based on these results, we propose a previously unreported function
for Admp in localizing pMLC to the apical side of ventral epidermal cells, which
causes the tail to bend ventrally by resisting antero-posterior notochord extension
at the ventral side of the tail.
acknowledgement: "iona intestinalis adults were provided by Dr Yutaka Satou (Kyoto
University) and Dr Manabu Yoshida (the University of Tokyo) with support from the
National Bio-Resource Project of AMED, Japan. We thank Dr Hidehiko Hashimoto and
Dr Yuji Mizotani for technical information about 1P-myosin antibody staining. We
thank Dr Kaoru Imai and Dr Yutaka Satou for valuable discussion about Admp and for
the DNA construct of Bmp2/4 under the Dlx.b upstream sequence. We thank Ms Maki
Kogure for constructing the FUSION360 of the intercalating epidermal cell.\r\nThis
work was supported by funding from the Japan Society for the Promotion of Science
(JP16H01451, JP21H00440). Open Access funding provided by Keio University: Keio
Gijuku Daigaku."
article_number: dev200215
article_processing_charge: No
article_type: original
author:
- first_name: Yuki S.
full_name: Kogure, Yuki S.
last_name: Kogure
- first_name: Hiromochi
full_name: Muraoka, Hiromochi
last_name: Muraoka
- first_name: Wataru C.
full_name: Koizumi, Wataru C.
last_name: Koizumi
- first_name: Raphaël
full_name: Gelin-alessi, Raphaël
last_name: Gelin-alessi
- first_name: Benoit G
full_name: Godard, Benoit G
id: 3263621A-F248-11E8-B48F-1D18A9856A87
last_name: Godard
- first_name: Kotaro
full_name: Oka, Kotaro
last_name: Oka
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
- first_name: Kohji
full_name: Hotta, Kohji
last_name: Hotta
citation:
ama: Kogure YS, Muraoka H, Koizumi WC, et al. Admp regulates tail bending by controlling
ventral epidermal cell polarity via phosphorylated myosin localization in Ciona.
Development. 2022;149(21). doi:10.1242/dev.200215
apa: Kogure, Y. S., Muraoka, H., Koizumi, W. C., Gelin-alessi, R., Godard, B. G.,
Oka, K., … Hotta, K. (2022). Admp regulates tail bending by controlling ventral
epidermal cell polarity via phosphorylated myosin localization in Ciona. Development.
The Company of Biologists. https://doi.org/10.1242/dev.200215
chicago: Kogure, Yuki S., Hiromochi Muraoka, Wataru C. Koizumi, Raphaël Gelin-alessi,
Benoit G Godard, Kotaro Oka, Carl-Philipp J Heisenberg, and Kohji Hotta. “Admp
Regulates Tail Bending by Controlling Ventral Epidermal Cell Polarity via Phosphorylated
Myosin Localization in Ciona.” Development. The Company of Biologists,
2022. https://doi.org/10.1242/dev.200215.
ieee: Y. S. Kogure et al., “Admp regulates tail bending by controlling ventral
epidermal cell polarity via phosphorylated myosin localization in Ciona,” Development,
vol. 149, no. 21. The Company of Biologists, 2022.
ista: Kogure YS, Muraoka H, Koizumi WC, Gelin-alessi R, Godard BG, Oka K, Heisenberg
C-PJ, Hotta K. 2022. Admp regulates tail bending by controlling ventral epidermal
cell polarity via phosphorylated myosin localization in Ciona. Development. 149(21),
dev200215.
mla: Kogure, Yuki S., et al. “Admp Regulates Tail Bending by Controlling Ventral
Epidermal Cell Polarity via Phosphorylated Myosin Localization in Ciona.” Development,
vol. 149, no. 21, dev200215, The Company of Biologists, 2022, doi:10.1242/dev.200215.
short: Y.S. Kogure, H. Muraoka, W.C. Koizumi, R. Gelin-alessi, B.G. Godard, K. Oka,
C.-P.J. Heisenberg, K. Hotta, Development 149 (2022).
date_created: 2023-01-16T09:50:12Z
date_published: 2022-11-01T00:00:00Z
date_updated: 2023-08-04T09:33:24Z
day: '01'
ddc:
- '570'
department:
- _id: CaHe
doi: 10.1242/dev.200215
external_id:
isi:
- '000903991700002'
pmid:
- '36227591'
file:
- access_level: open_access
checksum: 871b9c58eb79b9e60752de25a46938d6
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T10:36:50Z
date_updated: 2023-01-27T10:36:50Z
file_id: '12423'
file_name: 2022_Development_Kogure.pdf
file_size: 9160451
relation: main_file
success: 1
file_date_updated: 2023-01-27T10:36:50Z
has_accepted_license: '1'
intvolume: ' 149'
isi: 1
issue: '21'
keyword:
- Developmental Biology
- Molecular Biology
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: Development
publication_identifier:
eissn:
- 1477-9129
issn:
- 0950-1991
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
scopus_import: '1'
status: public
title: Admp regulates tail bending by controlling ventral epidermal cell polarity
via phosphorylated myosin localization in Ciona
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 149
year: '2022'
...
---
_id: '12232'
abstract:
- lang: eng
text: We derive a precise asymptotic formula for the density of the small singular
values of the real Ginibre matrix ensemble shifted by a complex parameter z as
the dimension tends to infinity. For z away from the real axis the formula coincides
with that for the complex Ginibre ensemble we derived earlier in Cipolloni et
al. (Prob Math Phys 1:101–146, 2020). On the level of the one-point function of
the low lying singular values we thus confirm the transition from real to complex
Ginibre ensembles as the shift parameter z becomes genuinely complex; the analogous
phenomenon has been well known for eigenvalues. We use the superbosonization formula
(Littelmann et al. in Comm Math Phys 283:343–395, 2008) in a regime where the
main contribution comes from a three dimensional saddle manifold.
acknowledgement: Open access funding provided by Swiss Federal Institute of Technology
Zurich. Supported by Dr. Max Rössler, the Walter Haefner Foundation and the ETH
Zürich Foundation.
article_processing_charge: No
article_type: original
author:
- first_name: Giorgio
full_name: Cipolloni, Giorgio
id: 42198EFA-F248-11E8-B48F-1D18A9856A87
last_name: Cipolloni
orcid: 0000-0002-4901-7992
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Dominik J
full_name: Schröder, Dominik J
id: 408ED176-F248-11E8-B48F-1D18A9856A87
last_name: Schröder
orcid: 0000-0002-2904-1856
citation:
ama: Cipolloni G, Erdös L, Schröder DJ. Density of small singular values of the
shifted real Ginibre ensemble. Annales Henri Poincaré. 2022;23(11):3981-4002.
doi:10.1007/s00023-022-01188-8
apa: Cipolloni, G., Erdös, L., & Schröder, D. J. (2022). Density of small singular
values of the shifted real Ginibre ensemble. Annales Henri Poincaré. Springer
Nature. https://doi.org/10.1007/s00023-022-01188-8
chicago: Cipolloni, Giorgio, László Erdös, and Dominik J Schröder. “Density of Small
Singular Values of the Shifted Real Ginibre Ensemble.” Annales Henri Poincaré.
Springer Nature, 2022. https://doi.org/10.1007/s00023-022-01188-8.
ieee: G. Cipolloni, L. Erdös, and D. J. Schröder, “Density of small singular values
of the shifted real Ginibre ensemble,” Annales Henri Poincaré, vol. 23,
no. 11. Springer Nature, pp. 3981–4002, 2022.
ista: Cipolloni G, Erdös L, Schröder DJ. 2022. Density of small singular values
of the shifted real Ginibre ensemble. Annales Henri Poincaré. 23(11), 3981–4002.
mla: Cipolloni, Giorgio, et al. “Density of Small Singular Values of the Shifted
Real Ginibre Ensemble.” Annales Henri Poincaré, vol. 23, no. 11, Springer
Nature, 2022, pp. 3981–4002, doi:10.1007/s00023-022-01188-8.
short: G. Cipolloni, L. Erdös, D.J. Schröder, Annales Henri Poincaré 23 (2022) 3981–4002.
date_created: 2023-01-16T09:50:26Z
date_published: 2022-11-01T00:00:00Z
date_updated: 2023-08-04T09:33:52Z
day: '01'
ddc:
- '510'
department:
- _id: LaEr
doi: 10.1007/s00023-022-01188-8
external_id:
isi:
- '000796323500001'
file:
- access_level: open_access
checksum: 5582f059feeb2f63e2eb68197a34d7dc
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T11:06:47Z
date_updated: 2023-01-27T11:06:47Z
file_id: '12424'
file_name: 2022_AnnalesHenriP_Cipolloni.pdf
file_size: 1333638
relation: main_file
success: 1
file_date_updated: 2023-01-27T11:06:47Z
has_accepted_license: '1'
intvolume: ' 23'
isi: 1
issue: '11'
keyword:
- Mathematical Physics
- Nuclear and High Energy Physics
- Statistical and Nonlinear Physics
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 3981-4002
publication: Annales Henri Poincaré
publication_identifier:
eissn:
- 1424-0661
issn:
- 1424-0637
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Density of small singular values of the shifted real Ginibre ensemble
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 23
year: '2022'
...
---
_id: '12233'
abstract:
- lang: eng
text: A novel recursive list decoding (RLD) algorithm for Reed-Muller (RM) codes
based on successive permutations (SP) of the codeword is presented. A low-complexity
SP scheme applied to a subset of the symmetry group of RM codes is first proposed
to carefully select a good codeword permutation on the fly. Then, the proposed
SP technique is integrated into an improved RLD algorithm that initializes different
decoding paths with random codeword permutations, which are sampled from the full
symmetry group of RM codes. Finally, efficient latency and complexity reduction
schemes are introduced that virtually preserve the error-correction performance
of the proposed decoder. Simulation results demonstrate that at the target frame
error rate of 10−3 for the RM code of length 256 with 163 information bits, the
proposed decoder reduces 6% of the computational complexity and 22% of the decoding
latency of the state-of-the-art semi-parallel simplified successive-cancellation
decoder with fast Hadamard transform (SSC-FHT) that uses 96 permutations from
the full symmetry group of RM codes, while relatively maintaining the error-correction
performance and memory consumption of the semi-parallel permuted SSC-FHT decoder.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Nghia
full_name: Doan, Nghia
last_name: Doan
- first_name: Seyyed Ali
full_name: Hashemi, Seyyed Ali
last_name: Hashemi
- first_name: Marco
full_name: Mondelli, Marco
id: 27EB676C-8706-11E9-9510-7717E6697425
last_name: Mondelli
orcid: 0000-0002-3242-7020
- first_name: Warren J.
full_name: Gross, Warren J.
last_name: Gross
citation:
ama: Doan N, Hashemi SA, Mondelli M, Gross WJ. Decoding Reed-Muller codes with successive
codeword permutations. IEEE Transactions on Communications. 2022;70(11):7134-7145.
doi:10.1109/tcomm.2022.3211101
apa: Doan, N., Hashemi, S. A., Mondelli, M., & Gross, W. J. (2022). Decoding
Reed-Muller codes with successive codeword permutations. IEEE Transactions
on Communications. Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/tcomm.2022.3211101
chicago: Doan, Nghia, Seyyed Ali Hashemi, Marco Mondelli, and Warren J. Gross. “Decoding
Reed-Muller Codes with Successive Codeword Permutations.” IEEE Transactions
on Communications. Institute of Electrical and Electronics Engineers, 2022.
https://doi.org/10.1109/tcomm.2022.3211101.
ieee: N. Doan, S. A. Hashemi, M. Mondelli, and W. J. Gross, “Decoding Reed-Muller
codes with successive codeword permutations,” IEEE Transactions on Communications,
vol. 70, no. 11. Institute of Electrical and Electronics Engineers, pp. 7134–7145,
2022.
ista: Doan N, Hashemi SA, Mondelli M, Gross WJ. 2022. Decoding Reed-Muller codes
with successive codeword permutations. IEEE Transactions on Communications. 70(11),
7134–7145.
mla: Doan, Nghia, et al. “Decoding Reed-Muller Codes with Successive Codeword Permutations.”
IEEE Transactions on Communications, vol. 70, no. 11, Institute of Electrical
and Electronics Engineers, 2022, pp. 7134–45, doi:10.1109/tcomm.2022.3211101.
short: N. Doan, S.A. Hashemi, M. Mondelli, W.J. Gross, IEEE Transactions on Communications
70 (2022) 7134–7145.
date_created: 2023-01-16T09:50:38Z
date_published: 2022-11-01T00:00:00Z
date_updated: 2023-08-04T09:34:43Z
day: '01'
department:
- _id: MaMo
doi: 10.1109/tcomm.2022.3211101
external_id:
arxiv:
- '2109.02122'
isi:
- '000937284600006'
intvolume: ' 70'
isi: 1
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2109.02122'
month: '11'
oa: 1
oa_version: Preprint
page: 7134-7145
publication: IEEE Transactions on Communications
publication_identifier:
eissn:
- 1558-0857
issn:
- 0090-6778
publication_status: published
publisher: Institute of Electrical and Electronics Engineers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Decoding Reed-Muller codes with successive codeword permutations
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 70
year: '2022'
...
---
_id: '12234'
abstract:
- lang: eng
text: Hybrid speciation—the origin of new species resulting from the hybridization
of genetically divergent lineages—was once considered rare, but genomic data suggest
that it may occur more often than once thought. In this study, Noguerales and
Ortego found genomic evidence supporting the hybrid origin of a grasshopper that
is able to exploit a broader range of host plants than either of its putative
parents.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Sean
full_name: Stankowski, Sean
id: 43161670-5719-11EA-8025-FABC3DDC885E
last_name: Stankowski
citation:
ama: 'Stankowski S. Digest: On the origin of a possible hybrid species. Evolution.
2022;76(11):2784-2785. doi:10.1111/evo.14632'
apa: 'Stankowski, S. (2022). Digest: On the origin of a possible hybrid species.
Evolution. Wiley. https://doi.org/10.1111/evo.14632'
chicago: 'Stankowski, Sean. “Digest: On the Origin of a Possible Hybrid Species.”
Evolution. Wiley, 2022. https://doi.org/10.1111/evo.14632.'
ieee: 'S. Stankowski, “Digest: On the origin of a possible hybrid species,” Evolution,
vol. 76, no. 11. Wiley, pp. 2784–2785, 2022.'
ista: 'Stankowski S. 2022. Digest: On the origin of a possible hybrid species. Evolution.
76(11), 2784–2785.'
mla: 'Stankowski, Sean. “Digest: On the Origin of a Possible Hybrid Species.” Evolution,
vol. 76, no. 11, Wiley, 2022, pp. 2784–85, doi:10.1111/evo.14632.'
short: S. Stankowski, Evolution 76 (2022) 2784–2785.
date_created: 2023-01-16T09:50:48Z
date_published: 2022-11-01T00:00:00Z
date_updated: 2023-08-04T09:35:48Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/evo.14632
external_id:
isi:
- '000855751600001'
file:
- access_level: open_access
checksum: 4c0f05083b414ac0323a1b9ee1abc275
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T11:28:38Z
date_updated: 2023-01-27T11:28:38Z
file_id: '12425'
file_name: 2022_Evolution_Stankowski.pdf
file_size: 287282
relation: main_file
success: 1
file_date_updated: 2023-01-27T11:28:38Z
has_accepted_license: '1'
intvolume: ' 76'
isi: 1
issue: '11'
keyword:
- General Agricultural and Biological Sciences
- Genetics
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 2784-2785
publication: Evolution
publication_identifier:
eissn:
- 1558-5646
issn:
- 0014-3820
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Digest: On the origin of a possible hybrid species'
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 76
year: '2022'
...
---
_id: '12235'
abstract:
- lang: eng
text: "Background: About 800 women die every day worldwide from pregnancy-related
complications, including excessive blood loss, infections and high-blood pressure
(World Health Organization, 2019). To improve screening for high-risk pregnancies,
we set out to identify patterns of maternal hematological changes associated with
future pregnancy complications.\r\n\r\nMethods: Using mixed effects models, we
established changes in 14 complete blood count (CBC) parameters for 1710 healthy
pregnancies and compared them to measurements from 98 pregnancy-induced hypertension,
106 gestational diabetes and 339 postpartum hemorrhage cases.\r\n\r\nResults:
Results show interindividual variations, but good individual repeatability in
CBC values during physiological pregnancies, allowing the identification of specific
alterations in women with obstetric complications. For example, in women with
uncomplicated pregnancies, haemoglobin count decreases of 0.12 g/L (95% CI −0.16,
−0.09) significantly per gestation week (p value <.001). Interestingly, this decrease
is three times more pronounced in women who will develop pregnancy-induced hypertension,
with an additional decrease of 0.39 g/L (95% CI −0.51, −0.26). We also confirm
that obstetric complications and white CBC predict the likelihood of giving birth
earlier during pregnancy.\r\n\r\nConclusion: We provide a comprehensive description
of the associations between haematological changes through pregnancy and three
major obstetric complications to support strategies for prevention, early-diagnosis
and maternal care."
acknowledgement: This project was funded by an SNSF Eccellenza Grant to MRR (PCEGP3-181181),
and by core funding from the Institute of Science and Technology Austria. We would
like to thank the participants of the study and all the midwives and doctors involved
for the computerized obstetrical data from the CHUV Maternity Hospital. Open access
funding provided by Universite de Lausanne.
article_processing_charge: No
article_type: original
author:
- first_name: Marion
full_name: Patxot, Marion
last_name: Patxot
- first_name: Miloš
full_name: Stojanov, Miloš
last_name: Stojanov
- first_name: Sven Erik
full_name: Ojavee, Sven Erik
last_name: Ojavee
- first_name: Rosanna Pescini
full_name: Gobert, Rosanna Pescini
last_name: Gobert
- first_name: Zoltán
full_name: Kutalik, Zoltán
last_name: Kutalik
- first_name: Mathilde
full_name: Gavillet, Mathilde
last_name: Gavillet
- first_name: David
full_name: Baud, David
last_name: Baud
- first_name: Matthew Richard
full_name: Robinson, Matthew Richard
id: E5D42276-F5DA-11E9-8E24-6303E6697425
last_name: Robinson
orcid: 0000-0001-8982-8813
citation:
ama: 'Patxot M, Stojanov M, Ojavee SE, et al. Haematological changes from conception
to childbirth: An indicator of major pregnancy complications. European Journal
of Haematology. 2022;109(5):566-575. doi:10.1111/ejh.13844'
apa: 'Patxot, M., Stojanov, M., Ojavee, S. E., Gobert, R. P., Kutalik, Z., Gavillet,
M., … Robinson, M. R. (2022). Haematological changes from conception to childbirth:
An indicator of major pregnancy complications. European Journal of Haematology.
Wiley. https://doi.org/10.1111/ejh.13844'
chicago: 'Patxot, Marion, Miloš Stojanov, Sven Erik Ojavee, Rosanna Pescini Gobert,
Zoltán Kutalik, Mathilde Gavillet, David Baud, and Matthew Richard Robinson. “Haematological
Changes from Conception to Childbirth: An Indicator of Major Pregnancy Complications.”
European Journal of Haematology. Wiley, 2022. https://doi.org/10.1111/ejh.13844.'
ieee: 'M. Patxot et al., “Haematological changes from conception to childbirth:
An indicator of major pregnancy complications,” European Journal of Haematology,
vol. 109, no. 5. Wiley, pp. 566–575, 2022.'
ista: 'Patxot M, Stojanov M, Ojavee SE, Gobert RP, Kutalik Z, Gavillet M, Baud D,
Robinson MR. 2022. Haematological changes from conception to childbirth: An indicator
of major pregnancy complications. European Journal of Haematology. 109(5), 566–575.'
mla: 'Patxot, Marion, et al. “Haematological Changes from Conception to Childbirth:
An Indicator of Major Pregnancy Complications.” European Journal of Haematology,
vol. 109, no. 5, Wiley, 2022, pp. 566–75, doi:10.1111/ejh.13844.'
short: M. Patxot, M. Stojanov, S.E. Ojavee, R.P. Gobert, Z. Kutalik, M. Gavillet,
D. Baud, M.R. Robinson, European Journal of Haematology 109 (2022) 566–575.
date_created: 2023-01-16T09:50:58Z
date_published: 2022-11-01T00:00:00Z
date_updated: 2023-08-04T09:36:21Z
day: '01'
ddc:
- '570'
- '610'
department:
- _id: MaRo
doi: 10.1111/ejh.13844
external_id:
isi:
- '000849690500001'
pmid:
- '36059200'
file:
- access_level: open_access
checksum: a676d732f67c2990197e34f96b219370
content_type: application/pdf
creator: dernst
date_created: 2023-01-27T11:42:43Z
date_updated: 2023-01-27T11:42:43Z
file_id: '12426'
file_name: 2022_EuropJourHaematology_Patxot.pdf
file_size: 1225073
relation: main_file
success: 1
file_date_updated: 2023-01-27T11:42:43Z
has_accepted_license: '1'
intvolume: ' 109'
isi: 1
issue: '5'
keyword:
- Hematology
- General Medicine
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 566-575
pmid: 1
publication: European Journal of Haematology
publication_identifier:
eissn:
- 1600-0609
issn:
- 0902-4441
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Haematological changes from conception to childbirth: An indicator of major
pregnancy complications'
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 109
year: '2022'
...
---
_id: '12236'
abstract:
- lang: eng
text: High-entropy materials offer numerous advantages as catalysts, including a
flexible composition to tune the catalytic activity and selectivity and a large
variety of adsorption/reaction sites for multistep or multiple reactions. Herein,
we report on the synthesis, properties, and electrocatalytic performance of an
amorphous high-entropy boride based on abundant transition metals, CoFeNiMnZnB.
This metal boride provides excellent performance toward the oxygen evolution reaction
(OER), including a low overpotential of 261 mV at 10 mA cm–2, a reduced Tafel
slope of 56.8 mV dec–1, and very high stability. The outstanding OER performance
of CoFeNiMnZnB is attributed to the synergistic interactions between the different
metals, the leaching of Zn ions, the generation of oxygen vacancies, and the in
situ formation of an amorphous oxyhydroxide at the CoFeNiMnZnB surface during
the OER.
acknowledgement: This work was supported by the Spanish MCIN project COMBENERGY (PID2019-105490RB-C32).
X.W. and L.Y. thank the China Scholarship Council (CSC) for the scholarship support.
article_processing_charge: No
article_type: original
author:
- first_name: Xiang
full_name: Wang, Xiang
last_name: Wang
- first_name: Yong
full_name: Zuo, Yong
last_name: Zuo
- first_name: Sharona
full_name: Horta, Sharona
id: 03a7e858-01b1-11ec-8b71-99ae6c4a05bc
last_name: Horta
- first_name: Ren
full_name: He, Ren
last_name: He
- first_name: Linlin
full_name: Yang, Linlin
last_name: Yang
- first_name: Ahmad
full_name: Ostovari Moghaddam, Ahmad
last_name: Ostovari Moghaddam
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
- first_name: Xueqiang
full_name: Qi, Xueqiang
last_name: Qi
- first_name: Andreu
full_name: Cabot, Andreu
last_name: Cabot
citation:
ama: Wang X, Zuo Y, Horta S, et al. CoFeNiMnZnB as a high-entropy metal boride to
boost the oxygen evolution reaction. ACS Applied Materials & Interfaces.
2022;14(42):48212-48219. doi:10.1021/acsami.2c11627
apa: Wang, X., Zuo, Y., Horta, S., He, R., Yang, L., Ostovari Moghaddam, A., … Cabot,
A. (2022). CoFeNiMnZnB as a high-entropy metal boride to boost the oxygen evolution
reaction. ACS Applied Materials & Interfaces. American Chemical Society.
https://doi.org/10.1021/acsami.2c11627
chicago: Wang, Xiang, Yong Zuo, Sharona Horta, Ren He, Linlin Yang, Ahmad Ostovari
Moghaddam, Maria Ibáñez, Xueqiang Qi, and Andreu Cabot. “CoFeNiMnZnB as a High-Entropy
Metal Boride to Boost the Oxygen Evolution Reaction.” ACS Applied Materials
& Interfaces. American Chemical Society, 2022. https://doi.org/10.1021/acsami.2c11627.
ieee: X. Wang et al., “CoFeNiMnZnB as a high-entropy metal boride to boost
the oxygen evolution reaction,” ACS Applied Materials & Interfaces,
vol. 14, no. 42. American Chemical Society, pp. 48212–48219, 2022.
ista: Wang X, Zuo Y, Horta S, He R, Yang L, Ostovari Moghaddam A, Ibáñez M, Qi X,
Cabot A. 2022. CoFeNiMnZnB as a high-entropy metal boride to boost the oxygen
evolution reaction. ACS Applied Materials & Interfaces. 14(42), 48212–48219.
mla: Wang, Xiang, et al. “CoFeNiMnZnB as a High-Entropy Metal Boride to Boost the
Oxygen Evolution Reaction.” ACS Applied Materials & Interfaces, vol.
14, no. 42, American Chemical Society, 2022, pp. 48212–19, doi:10.1021/acsami.2c11627.
short: X. Wang, Y. Zuo, S. Horta, R. He, L. Yang, A. Ostovari Moghaddam, M. Ibáñez,
X. Qi, A. Cabot, ACS Applied Materials & Interfaces 14 (2022) 48212–48219.
date_created: 2023-01-16T09:51:10Z
date_published: 2022-10-14T00:00:00Z
date_updated: 2023-10-04T08:28:14Z
day: '14'
department:
- _id: MaIb
doi: 10.1021/acsami.2c11627
external_id:
isi:
- '000873782700001'
pmid:
- '36239982'
intvolume: ' 14'
isi: 1
issue: '42'
keyword:
- General Materials Science
language:
- iso: eng
month: '10'
oa_version: None
page: 48212-48219
pmid: 1
publication: ACS Applied Materials & Interfaces
publication_identifier:
eissn:
- 1944-8252
issn:
- 1944-8244
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: CoFeNiMnZnB as a high-entropy metal boride to boost the oxygen evolution reaction
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2022'
...
---
_id: '12237'
abstract:
- lang: eng
text: Thermoelectric technology requires synthesizing complex materials where not
only the crystal structure but also other structural features such as defects,
grain size and orientation, and interfaces must be controlled. To date, conventional
solid-state techniques are unable to provide this level of control. Herein, we
present a synthetic approach in which dense inorganic thermoelectric materials
are produced by the consolidation of well-defined nanoparticle powders. The idea
is that controlling the characteristics of the powder allows the chemical transformations
that take place during consolidation to be guided, ultimately yielding inorganic
solids with targeted features. Different from conventional methods, syntheses
in solution can produce particles with unprecedented control over their size,
shape, crystal structure, composition, and surface chemistry. However, to date,
most works have focused only on the low-cost benefits of this strategy. In this
perspective, we first cover the opportunities that solution processing of the
powder offers, emphasizing the potential structural features that can be controlled
by precisely engineering the inorganic core of the particle, the surface, and
the organization of the particles before consolidation. We then discuss the challenges
of this synthetic approach and more practical matters related to solution processing.
Finally, we suggest some good practices for adequate knowledge transfer and improving
reproducibility among different laboratories.
acknowledgement: This work was financially supported by ISTA and the Werner Siemens
Foundation. M.C. has received funding from the European Union’s Horizon 2020 research
and innovation program under the Marie Skłodowska-Curie Grant Agreement no. 665385.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Christine
full_name: Fiedler, Christine
id: bd3fceba-dc74-11ea-a0a7-c17f71817366
last_name: Fiedler
- first_name: Tobias
full_name: Kleinhanns, Tobias
id: 8BD9DE16-AB3C-11E9-9C8C-2A03E6697425
last_name: Kleinhanns
- first_name: Maria
full_name: Garcia, Maria
id: 6e5c50b8-97dc-11ed-be98-b0a74c84cae0
last_name: Garcia
- first_name: Seungho
full_name: Lee, Seungho
id: BB243B88-D767-11E9-B658-BC13E6697425
last_name: Lee
orcid: 0000-0002-6962-8598
- first_name: Mariano
full_name: Calcabrini, Mariano
id: 45D7531A-F248-11E8-B48F-1D18A9856A87
last_name: Calcabrini
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
citation:
ama: 'Fiedler C, Kleinhanns T, Garcia M, Lee S, Calcabrini M, Ibáñez M. Solution-processed
inorganic thermoelectric materials: Opportunities and challenges. Chemistry
of Materials. 2022;34(19):8471-8489. doi:10.1021/acs.chemmater.2c01967'
apa: 'Fiedler, C., Kleinhanns, T., Garcia, M., Lee, S., Calcabrini, M., & Ibáñez,
M. (2022). Solution-processed inorganic thermoelectric materials: Opportunities
and challenges. Chemistry of Materials. American Chemical Society. https://doi.org/10.1021/acs.chemmater.2c01967'
chicago: 'Fiedler, Christine, Tobias Kleinhanns, Maria Garcia, Seungho Lee, Mariano
Calcabrini, and Maria Ibáñez. “Solution-Processed Inorganic Thermoelectric Materials:
Opportunities and Challenges.” Chemistry of Materials. American Chemical
Society, 2022. https://doi.org/10.1021/acs.chemmater.2c01967.'
ieee: 'C. Fiedler, T. Kleinhanns, M. Garcia, S. Lee, M. Calcabrini, and M. Ibáñez,
“Solution-processed inorganic thermoelectric materials: Opportunities and challenges,”
Chemistry of Materials, vol. 34, no. 19. American Chemical Society, pp.
8471–8489, 2022.'
ista: 'Fiedler C, Kleinhanns T, Garcia M, Lee S, Calcabrini M, Ibáñez M. 2022. Solution-processed
inorganic thermoelectric materials: Opportunities and challenges. Chemistry of
Materials. 34(19), 8471–8489.'
mla: 'Fiedler, Christine, et al. “Solution-Processed Inorganic Thermoelectric Materials:
Opportunities and Challenges.” Chemistry of Materials, vol. 34, no. 19,
American Chemical Society, 2022, pp. 8471–89, doi:10.1021/acs.chemmater.2c01967.'
short: C. Fiedler, T. Kleinhanns, M. Garcia, S. Lee, M. Calcabrini, M. Ibáñez, Chemistry
of Materials 34 (2022) 8471–8489.
date_created: 2023-01-16T09:51:26Z
date_published: 2022-09-20T00:00:00Z
date_updated: 2023-08-04T09:38:26Z
day: '20'
ddc:
- '540'
department:
- _id: MaIb
doi: 10.1021/acs.chemmater.2c01967
ec_funded: 1
external_id:
isi:
- '000917837600001'
pmid:
- '36248227'
file:
- access_level: open_access
checksum: f7143e44ab510519d1949099c3558532
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T07:35:09Z
date_updated: 2023-01-30T07:35:09Z
file_id: '12434'
file_name: 2022_ChemistryMaterials_Fiedler.pdf
file_size: 10923495
relation: main_file
success: 1
file_date_updated: 2023-01-30T07:35:09Z
has_accepted_license: '1'
intvolume: ' 34'
isi: 1
issue: '19'
keyword:
- Materials Chemistry
- General Chemical Engineering
- General Chemistry
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 8471-8489
pmid: 1
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication: Chemistry of Materials
publication_identifier:
eissn:
- 1520-5002
issn:
- 0897-4756
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
related_material:
record:
- id: '12885'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 'Solution-processed inorganic thermoelectric materials: Opportunities and challenges'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 34
year: '2022'
...
---
_id: '12238'
abstract:
- lang: eng
text: Upon the initiation of collective cell migration, the cells at the free edge
are specified as leader cells; however, the mechanism underlying the leader cell
specification remains elusive. Here, we show that lamellipodial extension after
the release from mechanical confinement causes sustained extracellular signal-regulated
kinase (ERK) activation and underlies the leader cell specification. Live-imaging
of Madin-Darby canine kidney (MDCK) cells and mouse epidermis through the use
of Förster resonance energy transfer (FRET)-based biosensors showed that leader
cells exhibit sustained ERK activation in a hepatocyte growth factor (HGF)-dependent
manner. Meanwhile, follower cells exhibit oscillatory ERK activation waves in
an epidermal growth factor (EGF) signaling-dependent manner. Lamellipodial extension
at the free edge increases the cellular sensitivity to HGF. The HGF-dependent
ERK activation, in turn, promotes lamellipodial extension, thereby forming a positive
feedback loop between cell extension and ERK activation and specifying the cells
at the free edge as the leader cells. Our findings show that the integration of
physical and biochemical cues underlies the leader cell specification during collective
cell migration.
acknowledgement: We thank the members of the Matsuda Laboratory for their helpful
discussion and encouragement, and we thank K. Hirano and K. Takakura for their technical
assistance. This work was supported by the Kyoto University Live Imaging Center.
Financial support was provided in the form of JSPS KAKENHI grants (nos. 17J02107
and 20K22653 to N.H., and 20H05898 and 19H00993 to M.M.), a JST CREST grant (no.
JPMJCR1654 to M.M.), a Moonshot R&D grant (no. JPMJPS2022-11 to M.M.), Generalitat
de Catalunya and the CERCA Programme (no. SGR-2017-01602 to X.T.), MICCINN/FEDER
(no. PGC2018-099645-B-I00 to X.T.), and European Research Council (no. Adv-883739
to X.T.). IBEC is a recipient of a Severo Ochoa Award of Excellence from the MINECO.
This work was partly supported by an Extramural Collaborative Research Grant of
Cancer Research Institute, Kanazawa University.
article_processing_charge: No
article_type: original
author:
- first_name: Naoya
full_name: Hino, Naoya
id: 5299a9ce-7679-11eb-a7bc-d1e62b936307
last_name: Hino
- first_name: Kimiya
full_name: Matsuda, Kimiya
last_name: Matsuda
- first_name: Yuya
full_name: Jikko, Yuya
last_name: Jikko
- first_name: Gembu
full_name: Maryu, Gembu
last_name: Maryu
- first_name: Katsuya
full_name: Sakai, Katsuya
last_name: Sakai
- first_name: Ryu
full_name: Imamura, Ryu
last_name: Imamura
- first_name: Shinya
full_name: Tsukiji, Shinya
last_name: Tsukiji
- first_name: Kazuhiro
full_name: Aoki, Kazuhiro
last_name: Aoki
- first_name: Kenta
full_name: Terai, Kenta
last_name: Terai
- first_name: Tsuyoshi
full_name: Hirashima, Tsuyoshi
last_name: Hirashima
- first_name: Xavier
full_name: Trepat, Xavier
last_name: Trepat
- first_name: Michiyuki
full_name: Matsuda, Michiyuki
last_name: Matsuda
citation:
ama: Hino N, Matsuda K, Jikko Y, et al. A feedback loop between lamellipodial extension
and HGF-ERK signaling specifies leader cells during collective cell migration.
Developmental Cell. 2022;57(19):2290-2304.e7. doi:10.1016/j.devcel.2022.09.003
apa: Hino, N., Matsuda, K., Jikko, Y., Maryu, G., Sakai, K., Imamura, R., … Matsuda,
M. (2022). A feedback loop between lamellipodial extension and HGF-ERK signaling
specifies leader cells during collective cell migration. Developmental Cell.
Elsevier. https://doi.org/10.1016/j.devcel.2022.09.003
chicago: Hino, Naoya, Kimiya Matsuda, Yuya Jikko, Gembu Maryu, Katsuya Sakai, Ryu
Imamura, Shinya Tsukiji, et al. “A Feedback Loop between Lamellipodial Extension
and HGF-ERK Signaling Specifies Leader Cells during Collective Cell Migration.”
Developmental Cell. Elsevier, 2022. https://doi.org/10.1016/j.devcel.2022.09.003.
ieee: N. Hino et al., “A feedback loop between lamellipodial extension and
HGF-ERK signaling specifies leader cells during collective cell migration,” Developmental
Cell, vol. 57, no. 19. Elsevier, p. 2290–2304.e7, 2022.
ista: Hino N, Matsuda K, Jikko Y, Maryu G, Sakai K, Imamura R, Tsukiji S, Aoki K,
Terai K, Hirashima T, Trepat X, Matsuda M. 2022. A feedback loop between lamellipodial
extension and HGF-ERK signaling specifies leader cells during collective cell
migration. Developmental Cell. 57(19), 2290–2304.e7.
mla: Hino, Naoya, et al. “A Feedback Loop between Lamellipodial Extension and HGF-ERK
Signaling Specifies Leader Cells during Collective Cell Migration.” Developmental
Cell, vol. 57, no. 19, Elsevier, 2022, p. 2290–2304.e7, doi:10.1016/j.devcel.2022.09.003.
short: N. Hino, K. Matsuda, Y. Jikko, G. Maryu, K. Sakai, R. Imamura, S. Tsukiji,
K. Aoki, K. Terai, T. Hirashima, X. Trepat, M. Matsuda, Developmental Cell 57
(2022) 2290–2304.e7.
date_created: 2023-01-16T09:51:39Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-08-04T09:38:53Z
day: '01'
department:
- _id: CaHe
doi: 10.1016/j.devcel.2022.09.003
external_id:
isi:
- '000898428700006'
pmid:
- '36174555'
intvolume: ' 57'
isi: 1
issue: '19'
keyword:
- Developmental Biology
- Cell Biology
- General Biochemistry
- Genetics and Molecular Biology
- Molecular Biology
language:
- iso: eng
month: '10'
oa_version: None
page: 2290-2304.e7
pmid: 1
publication: Developmental Cell
publication_identifier:
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: A feedback loop between lamellipodial extension and HGF-ERK signaling specifies
leader cells during collective cell migration
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 57
year: '2022'
...
---
_id: '12239'
abstract:
- lang: eng
text: Biological systems are the sum of their dynamic three-dimensional (3D) parts.
Therefore, it is critical to study biological structures in 3D and at high resolution
to gain insights into their physiological functions. Electron microscopy of metal
replicas of unroofed cells and isolated organelles has been a key technique to
visualize intracellular structures at nanometer resolution. However, many of these
methods require specialized equipment and personnel to complete them. Here, we
present novel accessible methods to analyze biological structures in unroofed
cells and biochemically isolated organelles in 3D and at nanometer resolution,
focusing on Arabidopsis clathrin-coated vesicles (CCVs). While CCVs are essential
trafficking organelles, their detailed structural information is lacking due to
their poor preservation when observed via classical electron microscopy protocols
experiments. First, we establish a method to visualize CCVs in unroofed cells
using scanning transmission electron microscopy tomography, providing sufficient
resolution to define the clathrin coat arrangements. Critically, the samples are
prepared directly on electron microscopy grids, removing the requirement to use
extremely corrosive acids, thereby enabling the use of this method in any electron
microscopy lab. Secondly, we demonstrate that this standardized sample preparation
allows the direct comparison of isolated CCV samples with those visualized in
cells. Finally, to facilitate the high-throughput and robust screening of metal
replicated samples, we provide a deep learning analysis method to screen the “pseudo
3D” morphologies of CCVs imaged with 2D modalities. Collectively, our work establishes
accessible ways to examine the 3D structure of biological samples and provide
novel insights into the structure of plant CCVs.
acknowledged_ssus:
- _id: EM-Fac
- _id: LifeSc
- _id: Bio
acknowledgement: A.J. is supported by funding from the Austrian Science Fund I3630B25
(to J.F.). This research was supported by the Scientific Service Units of Institute
of Science and Technology Austria (ISTA) through resources provided by the Electron
Microscopy Facility, Lab Support Facility, and the Imaging and Optics Facility.
We acknowledge Prof. David Robinson (Heidelberg) and Prof. Jan Traas (Lyon) for
making us aware of previously published classical on-grid preparation methods. No
conflict of interest declared.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Alexander J
full_name: Johnson, Alexander J
id: 46A62C3A-F248-11E8-B48F-1D18A9856A87
last_name: Johnson
orcid: 0000-0002-2739-8843
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Christoph M
full_name: Sommer, Christoph M
id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87
last_name: Sommer
orcid: 0000-0003-1216-9105
- first_name: Tommaso
full_name: Costanzo, Tommaso
id: D93824F4-D9BA-11E9-BB12-F207E6697425
last_name: Costanzo
orcid: 0000-0001-9732-3815
- first_name: Dana A.
full_name: Dahhan, Dana A.
last_name: Dahhan
- first_name: Sebastian Y.
full_name: Bednarek, Sebastian Y.
last_name: Bednarek
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Johnson AJ, Kaufmann W, Sommer CM, et al. Three-dimensional visualization of
planta clathrin-coated vesicles at ultrastructural resolution. Molecular Plant.
2022;15(10):1533-1542. doi:10.1016/j.molp.2022.09.003
apa: Johnson, A. J., Kaufmann, W., Sommer, C. M., Costanzo, T., Dahhan, D. A., Bednarek,
S. Y., & Friml, J. (2022). Three-dimensional visualization of planta clathrin-coated
vesicles at ultrastructural resolution. Molecular Plant. Elsevier. https://doi.org/10.1016/j.molp.2022.09.003
chicago: Johnson, Alexander J, Walter Kaufmann, Christoph M Sommer, Tommaso Costanzo,
Dana A. Dahhan, Sebastian Y. Bednarek, and Jiří Friml. “Three-Dimensional Visualization
of Planta Clathrin-Coated Vesicles at Ultrastructural Resolution.” Molecular
Plant. Elsevier, 2022. https://doi.org/10.1016/j.molp.2022.09.003.
ieee: A. J. Johnson et al., “Three-dimensional visualization of planta clathrin-coated
vesicles at ultrastructural resolution,” Molecular Plant, vol. 15, no.
10. Elsevier, pp. 1533–1542, 2022.
ista: Johnson AJ, Kaufmann W, Sommer CM, Costanzo T, Dahhan DA, Bednarek SY, Friml
J. 2022. Three-dimensional visualization of planta clathrin-coated vesicles at
ultrastructural resolution. Molecular Plant. 15(10), 1533–1542.
mla: Johnson, Alexander J., et al. “Three-Dimensional Visualization of Planta Clathrin-Coated
Vesicles at Ultrastructural Resolution.” Molecular Plant, vol. 15, no.
10, Elsevier, 2022, pp. 1533–42, doi:10.1016/j.molp.2022.09.003.
short: A.J. Johnson, W. Kaufmann, C.M. Sommer, T. Costanzo, D.A. Dahhan, S.Y. Bednarek,
J. Friml, Molecular Plant 15 (2022) 1533–1542.
date_created: 2023-01-16T09:51:49Z
date_published: 2022-10-03T00:00:00Z
date_updated: 2023-08-04T09:39:24Z
day: '03'
ddc:
- '580'
department:
- _id: JiFr
- _id: EM-Fac
- _id: Bio
doi: 10.1016/j.molp.2022.09.003
external_id:
isi:
- '000882769800009'
pmid:
- '36081349'
file:
- access_level: open_access
checksum: 04d5c12490052d03e4dc4412338a43dd
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T07:46:51Z
date_updated: 2023-01-30T07:46:51Z
file_id: '12435'
file_name: 2022_MolecularPlant_Johnson.pdf
file_size: 2307251
relation: main_file
success: 1
file_date_updated: 2023-01-30T07:46:51Z
has_accepted_license: '1'
intvolume: ' 15'
isi: 1
issue: '10'
keyword:
- Plant Science
- Molecular Biology
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 1533-1542
pmid: 1
project:
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
publication: Molecular Plant
publication_identifier:
issn:
- 1674-2052
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural
resolution
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 15
year: '2022'
...
---
_id: '12243'
abstract:
- lang: eng
text: 'We consider the eigenvalues of a large dimensional real or complex Ginibre
matrix in the region of the complex plane where their real parts reach their maximum
value. This maximum follows the Gumbel distribution and that these extreme eigenvalues
form a Poisson point process as the dimension asymptotically tends to infinity.
In the complex case, these facts have already been established by Bender [Probab.
Theory Relat. Fields 147, 241 (2010)] and in the real case by Akemann and Phillips
[J. Stat. Phys. 155, 421 (2014)] even for the more general elliptic ensemble with
a sophisticated saddle point analysis. The purpose of this article is to give
a very short direct proof in the Ginibre case with an effective error term. Moreover,
our estimates on the correlation kernel in this regime serve as a key input for
accurately locating [Formula: see text] for any large matrix X with i.i.d. entries
in the companion paper [G. Cipolloni et al., arXiv:2206.04448 (2022)]. '
acknowledgement: "The authors are grateful to G. Akemann for bringing Refs. 19 and
24–26 to their attention. Discussions with Guillaume Dubach on a preliminary version
of this project are acknowledged.\r\nL.E. and Y.X. were supported by the ERC Advanced
Grant “RMTBeyond” under Grant No. 101020331. D.S. was supported by Dr. Max Rössler,
the Walter Haefner Foundation, and the ETH Zürich Foundation."
article_number: '103303'
article_processing_charge: Yes (via OA deal)
article_type: original
arxiv: 1
author:
- first_name: Giorgio
full_name: Cipolloni, Giorgio
id: 42198EFA-F248-11E8-B48F-1D18A9856A87
last_name: Cipolloni
orcid: 0000-0002-4901-7992
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Dominik J
full_name: Schröder, Dominik J
id: 408ED176-F248-11E8-B48F-1D18A9856A87
last_name: Schröder
orcid: 0000-0002-2904-1856
- first_name: Yuanyuan
full_name: Xu, Yuanyuan
id: 7902bdb1-a2a4-11eb-a164-c9216f71aea3
last_name: Xu
citation:
ama: Cipolloni G, Erdös L, Schröder DJ, Xu Y. Directional extremal statistics for
Ginibre eigenvalues. Journal of Mathematical Physics. 2022;63(10). doi:10.1063/5.0104290
apa: Cipolloni, G., Erdös, L., Schröder, D. J., & Xu, Y. (2022). Directional
extremal statistics for Ginibre eigenvalues. Journal of Mathematical Physics.
AIP Publishing. https://doi.org/10.1063/5.0104290
chicago: Cipolloni, Giorgio, László Erdös, Dominik J Schröder, and Yuanyuan Xu.
“Directional Extremal Statistics for Ginibre Eigenvalues.” Journal of Mathematical
Physics. AIP Publishing, 2022. https://doi.org/10.1063/5.0104290.
ieee: G. Cipolloni, L. Erdös, D. J. Schröder, and Y. Xu, “Directional extremal statistics
for Ginibre eigenvalues,” Journal of Mathematical Physics, vol. 63, no.
10. AIP Publishing, 2022.
ista: Cipolloni G, Erdös L, Schröder DJ, Xu Y. 2022. Directional extremal statistics
for Ginibre eigenvalues. Journal of Mathematical Physics. 63(10), 103303.
mla: Cipolloni, Giorgio, et al. “Directional Extremal Statistics for Ginibre Eigenvalues.”
Journal of Mathematical Physics, vol. 63, no. 10, 103303, AIP Publishing,
2022, doi:10.1063/5.0104290.
short: G. Cipolloni, L. Erdös, D.J. Schröder, Y. Xu, Journal of Mathematical Physics
63 (2022).
date_created: 2023-01-16T09:52:58Z
date_published: 2022-10-14T00:00:00Z
date_updated: 2023-08-04T09:40:02Z
day: '14'
ddc:
- '510'
- '530'
department:
- _id: LaEr
doi: 10.1063/5.0104290
ec_funded: 1
external_id:
arxiv:
- '2206.04443'
isi:
- '000869715800001'
file:
- access_level: open_access
checksum: 2db278ae5b07f345a7e3fec1f92b5c33
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T08:01:10Z
date_updated: 2023-01-30T08:01:10Z
file_id: '12436'
file_name: 2022_JourMathPhysics_Cipolloni2.pdf
file_size: 7356807
relation: main_file
success: 1
file_date_updated: 2023-01-30T08:01:10Z
has_accepted_license: '1'
intvolume: ' 63'
isi: 1
issue: '10'
keyword:
- Mathematical Physics
- Statistical and Nonlinear Physics
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 62796744-2b32-11ec-9570-940b20777f1d
call_identifier: H2020
grant_number: '101020331'
name: Random matrices beyond Wigner-Dyson-Mehta
publication: Journal of Mathematical Physics
publication_identifier:
eissn:
- 1089-7658
issn:
- 0022-2488
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Directional extremal statistics for Ginibre eigenvalues
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 63
year: '2022'
...
---
_id: '12244'
abstract:
- lang: eng
text: Environmental cues influence the highly dynamic morphology of microglia. Strategies
to characterize these changes usually involve user-selected morphometric features,
which preclude the identification of a spectrum of context-dependent morphological
phenotypes. Here we develop MorphOMICs, a topological data analysis approach,
which enables semiautomatic mapping of microglial morphology into an atlas of
cue-dependent phenotypes and overcomes feature-selection biases and biological
variability. We extract spatially heterogeneous and sexually dimorphic morphological
phenotypes for seven adult mouse brain regions. This sex-specific phenotype declines
with maturation but increases over the disease trajectories in two neurodegeneration
mouse models, with females showing a faster morphological shift in affected brain
regions. Remarkably, microglia morphologies reflect an adaptation upon repeated
exposure to ketamine anesthesia and do not recover to control morphologies. Finally,
we demonstrate that both long primary processes and short terminal processes provide
distinct insights to morphological phenotypes. MorphOMICs opens a new perspective
to characterize microglial morphology.
acknowledged_ssus:
- _id: PreCl
- _id: Bio
- _id: ScienComp
acknowledgement: We thank the scientific service units at ISTA, in particular M. Schunn’s
team at the preclinical facility, and especially our colony manager S. Haslinger,
for excellent support. We are also grateful to the ISTA Imaging & Optics Facility,
and in particular C. Sommer for helping with the data file conversions. We thank
R. Erhart from the ISTA Scientific Computing Unit for improving the script performance.
We thank M. Maes, B. Nagy, S. Oakeley and M. Benevento and all members of the Siegert
group for constant feedback on the project and on the manuscript. This research
was supported by the European Union Horizon 2020 research and innovation program
under the Marie Skłodowska-Curie Actions program (754411 to R.J.A.C.), and by the
European Research Council (grant no. 715571 to S.S.). L.K. was supported by funding
to the Blue Brain Project, a research center of the École polytechnique fédérale
de Lausanne, from the Swiss government’s ETH Board of the Swiss Federal Institutes
of Technology. L.-H.T. was supported by NIH (grant no. R37NS051874) and by the JPB
Foundation. The funders had no role in study design, data collection and analysis,
decision to publish or preparation of the manuscript.
article_processing_charge: No
article_type: original
author:
- first_name: Gloria
full_name: Colombo, Gloria
id: 3483CF6C-F248-11E8-B48F-1D18A9856A87
last_name: Colombo
orcid: 0000-0001-9434-8902
- first_name: Ryan J
full_name: Cubero, Ryan J
id: 850B2E12-9CD4-11E9-837F-E719E6697425
last_name: Cubero
orcid: 0000-0003-0002-1867
- first_name: Lida
full_name: Kanari, Lida
last_name: Kanari
- first_name: Alessandro
full_name: Venturino, Alessandro
id: 41CB84B2-F248-11E8-B48F-1D18A9856A87
last_name: Venturino
orcid: 0000-0003-2356-9403
- first_name: Rouven
full_name: Schulz, Rouven
id: 4C5E7B96-F248-11E8-B48F-1D18A9856A87
last_name: Schulz
orcid: 0000-0001-5297-733X
- first_name: Martina
full_name: Scolamiero, Martina
last_name: Scolamiero
- first_name: Jens
full_name: Agerberg, Jens
last_name: Agerberg
- first_name: Hansruedi
full_name: Mathys, Hansruedi
last_name: Mathys
- first_name: Li-Huei
full_name: Tsai, Li-Huei
last_name: Tsai
- first_name: Wojciech
full_name: Chachólski, Wojciech
last_name: Chachólski
- first_name: Kathryn
full_name: Hess, Kathryn
last_name: Hess
- first_name: Sandra
full_name: Siegert, Sandra
id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
last_name: Siegert
orcid: 0000-0001-8635-0877
citation:
ama: Colombo G, Cubero RJ, Kanari L, et al. A tool for mapping microglial morphology,
morphOMICs, reveals brain-region and sex-dependent phenotypes. Nature Neuroscience.
2022;25(10):1379-1393. doi:10.1038/s41593-022-01167-6
apa: Colombo, G., Cubero, R. J., Kanari, L., Venturino, A., Schulz, R., Scolamiero,
M., … Siegert, S. (2022). A tool for mapping microglial morphology, morphOMICs,
reveals brain-region and sex-dependent phenotypes. Nature Neuroscience.
Springer Nature. https://doi.org/10.1038/s41593-022-01167-6
chicago: Colombo, Gloria, Ryan J Cubero, Lida Kanari, Alessandro Venturino, Rouven
Schulz, Martina Scolamiero, Jens Agerberg, et al. “A Tool for Mapping Microglial
Morphology, MorphOMICs, Reveals Brain-Region and Sex-Dependent Phenotypes.” Nature
Neuroscience. Springer Nature, 2022. https://doi.org/10.1038/s41593-022-01167-6.
ieee: G. Colombo et al., “A tool for mapping microglial morphology, morphOMICs,
reveals brain-region and sex-dependent phenotypes,” Nature Neuroscience,
vol. 25, no. 10. Springer Nature, pp. 1379–1393, 2022.
ista: Colombo G, Cubero RJ, Kanari L, Venturino A, Schulz R, Scolamiero M, Agerberg
J, Mathys H, Tsai L-H, Chachólski W, Hess K, Siegert S. 2022. A tool for mapping
microglial morphology, morphOMICs, reveals brain-region and sex-dependent phenotypes.
Nature Neuroscience. 25(10), 1379–1393.
mla: Colombo, Gloria, et al. “A Tool for Mapping Microglial Morphology, MorphOMICs,
Reveals Brain-Region and Sex-Dependent Phenotypes.” Nature Neuroscience,
vol. 25, no. 10, Springer Nature, 2022, pp. 1379–93, doi:10.1038/s41593-022-01167-6.
short: G. Colombo, R.J. Cubero, L. Kanari, A. Venturino, R. Schulz, M. Scolamiero,
J. Agerberg, H. Mathys, L.-H. Tsai, W. Chachólski, K. Hess, S. Siegert, Nature
Neuroscience 25 (2022) 1379–1393.
date_created: 2023-01-16T09:53:07Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2024-03-25T23:30:10Z
day: '01'
ddc:
- '570'
department:
- _id: SaSi
doi: 10.1038/s41593-022-01167-6
ec_funded: 1
external_id:
isi:
- '000862214700001'
pmid:
- '36180790'
file:
- access_level: open_access
checksum: 28431146873096f52e0107b534f178c9
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T08:06:56Z
date_updated: 2023-01-30T08:06:56Z
file_id: '12437'
file_name: 2022_NatureNeuroscience_Colombo.pdf
file_size: 23789835
relation: main_file
success: 1
file_date_updated: 2023-01-30T08:06:56Z
has_accepted_license: '1'
intvolume: ' 25'
isi: 1
issue: '10'
keyword:
- General Neuroscience
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 1379-1393
pmid: 1
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
- _id: 25D4A630-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '715571'
name: Microglia action towards neuronal circuit formation and function in health
and disease
publication: Nature Neuroscience
publication_identifier:
eissn:
- 1546-1726
issn:
- 1097-6256
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on ISTA website
relation: press_release
url: https://ista.ac.at/en/news/morphomics-revealing-the-hidden-meaning-of-microglia-shape/
record:
- id: '12378'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: A tool for mapping microglial morphology, morphOMICs, reveals brain-region
and sex-dependent phenotypes
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 25
year: '2022'
...
---
_id: '12245'
abstract:
- lang: eng
text: MicroRNAs (miRs) have an important role in tuning dynamic gene expression.
However, the mechanism by which they are quantitatively controlled is unknown.
We show that the amount of mature miR-9, a key regulator of neuronal development,
increases during zebrafish neurogenesis in a sharp stepwise manner. We characterize
the spatiotemporal profile of seven distinct microRNA primary transcripts (pri-mir)-9s
that produce the same mature miR-9 and show that they are sequentially expressed
during hindbrain neurogenesis. Expression of late-onset pri-mir-9-1 is added on
to, rather than replacing, the expression of early onset pri-mir-9-4 and -9-5
in single cells. CRISPR/Cas9 mutation of the late-onset pri-mir-9-1 prevents the
developmental increase of mature miR-9, reduces late neuronal differentiation
and fails to downregulate Her6 at late stages. Mathematical modelling shows that
an adaptive network containing Her6 is insensitive to linear increases in miR-9
but responds to stepwise increases of miR-9. We suggest that a sharp stepwise
increase of mature miR-9 is created by sequential and additive temporal activation
of distinct loci. This may be a strategy to overcome adaptation and facilitate
a transition of Her6 to a new dynamic regime or steady state.
acknowledgement: "We are grateful to Dr Tom Pettini for the advice on smiFISH technique
and Dr Laure Bally-Cuif for sharing plasmids. The authors also thank the Biological
Services Facility, Bioimaging and Systems Microscopy Facilities of the University
of Manchester for technical support.\r\nThis work was supported by a Wellcome Trust
Senior Research Fellowship (090868/Z/09/Z) and a Wellcome Trust Investigator Award
(224394/Z/21/Z) to N.P. and a Medical Research Council Career Development Award
to C.S.M. (MR/V032534/1). J.B. was supported by a Wellcome Trust Four-Year PhD Studentship
in Basic Science (219992/Z/19/Z). Open Access funding provided by The University
of Manchester. Deposited in PMC for immediate release."
article_number: dev200474
article_processing_charge: No
article_type: original
author:
- first_name: Ximena
full_name: Soto, Ximena
last_name: Soto
- first_name: Joshua
full_name: Burton, Joshua
last_name: Burton
- first_name: Cerys S.
full_name: Manning, Cerys S.
last_name: Manning
- first_name: Thomas
full_name: Minchington, Thomas
id: 7d1648cb-19e9-11eb-8e7a-f8c037fb3e3f
last_name: Minchington
- first_name: Robert
full_name: Lea, Robert
last_name: Lea
- first_name: Jessica
full_name: Lee, Jessica
last_name: Lee
- first_name: Jochen
full_name: Kursawe, Jochen
last_name: Kursawe
- first_name: Magnus
full_name: Rattray, Magnus
last_name: Rattray
- first_name: Nancy
full_name: Papalopulu, Nancy
last_name: Papalopulu
citation:
ama: Soto X, Burton J, Manning CS, et al. Sequential and additive expression of
miR-9 precursors control timing of neurogenesis. Development. 2022;149(19).
doi:10.1242/dev.200474
apa: Soto, X., Burton, J., Manning, C. S., Minchington, T., Lea, R., Lee, J., …
Papalopulu, N. (2022). Sequential and additive expression of miR-9 precursors
control timing of neurogenesis. Development. The Company of Biologists.
https://doi.org/10.1242/dev.200474
chicago: Soto, Ximena, Joshua Burton, Cerys S. Manning, Thomas Minchington, Robert
Lea, Jessica Lee, Jochen Kursawe, Magnus Rattray, and Nancy Papalopulu. “Sequential
and Additive Expression of MiR-9 Precursors Control Timing of Neurogenesis.” Development.
The Company of Biologists, 2022. https://doi.org/10.1242/dev.200474.
ieee: X. Soto et al., “Sequential and additive expression of miR-9 precursors
control timing of neurogenesis,” Development, vol. 149, no. 19. The Company
of Biologists, 2022.
ista: Soto X, Burton J, Manning CS, Minchington T, Lea R, Lee J, Kursawe J, Rattray
M, Papalopulu N. 2022. Sequential and additive expression of miR-9 precursors
control timing of neurogenesis. Development. 149(19), dev200474.
mla: Soto, Ximena, et al. “Sequential and Additive Expression of MiR-9 Precursors
Control Timing of Neurogenesis.” Development, vol. 149, no. 19, dev200474,
The Company of Biologists, 2022, doi:10.1242/dev.200474.
short: X. Soto, J. Burton, C.S. Manning, T. Minchington, R. Lea, J. Lee, J. Kursawe,
M. Rattray, N. Papalopulu, Development 149 (2022).
date_created: 2023-01-16T09:53:17Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-08-04T09:41:08Z
day: '01'
ddc:
- '570'
department:
- _id: AnKi
doi: 10.1242/dev.200474
external_id:
isi:
- '000918161000003'
pmid:
- '36189829'
file:
- access_level: open_access
checksum: d7c29b74e9e4032308228cc704a30e88
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T08:35:44Z
date_updated: 2023-01-30T08:35:44Z
file_id: '12438'
file_name: 2022_Development_Soto.pdf
file_size: 9348839
relation: main_file
success: 1
file_date_updated: 2023-01-30T08:35:44Z
has_accepted_license: '1'
intvolume: ' 149'
isi: 1
issue: '19'
keyword:
- Developmental Biology
- Molecular Biology
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: Development
publication_identifier:
eissn:
- 1477-9129
issn:
- 0950-1991
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
related_material:
link:
- relation: software
url: ' https://github.com/burtonjosh/StepwiseMir9'
scopus_import: '1'
status: public
title: Sequential and additive expression of miR-9 precursors control timing of neurogenesis
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 149
year: '2022'
...
---
_id: '12246'
abstract:
- lang: eng
text: The Lieb–Oxford inequality provides a lower bound on the Coulomb energy of
a classical system of N identical charges only in terms of their one-particle
density. We prove here a new estimate on the best constant in this inequality.
Numerical evaluation provides the value 1.58, which is a significant improvement
to the previously known value 1.64. The best constant has recently been shown
to be larger than 1.44. In a second part, we prove that the constant can be reduced
to 1.25 when the inequality is restricted to Hartree–Fock states. This is the
first proof that the exchange term is always much lower than the full indirect
Coulomb energy.
acknowledgement: We would like to thank David Gontier for useful advice on the numerical
simulations. This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation program (Grant
Agreements MDFT No. 725528 of M.L. and AQUAMS No. 694227 of R.S.). We are thankful
for the hospitality of the Institut Henri Poincaré in Paris, where part of this
work was done.
article_number: '92'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Mathieu
full_name: Lewin, Mathieu
last_name: Lewin
- first_name: Elliott H.
full_name: Lieb, Elliott H.
last_name: Lieb
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Lewin M, Lieb EH, Seiringer R. Improved Lieb–Oxford bound on the indirect and
exchange energies. Letters in Mathematical Physics. 2022;112(5). doi:10.1007/s11005-022-01584-5
apa: Lewin, M., Lieb, E. H., & Seiringer, R. (2022). Improved Lieb–Oxford bound
on the indirect and exchange energies. Letters in Mathematical Physics.
Springer Nature. https://doi.org/10.1007/s11005-022-01584-5
chicago: Lewin, Mathieu, Elliott H. Lieb, and Robert Seiringer. “Improved Lieb–Oxford
Bound on the Indirect and Exchange Energies.” Letters in Mathematical Physics.
Springer Nature, 2022. https://doi.org/10.1007/s11005-022-01584-5.
ieee: M. Lewin, E. H. Lieb, and R. Seiringer, “Improved Lieb–Oxford bound on the
indirect and exchange energies,” Letters in Mathematical Physics, vol.
112, no. 5. Springer Nature, 2022.
ista: Lewin M, Lieb EH, Seiringer R. 2022. Improved Lieb–Oxford bound on the indirect
and exchange energies. Letters in Mathematical Physics. 112(5), 92.
mla: Lewin, Mathieu, et al. “Improved Lieb–Oxford Bound on the Indirect and Exchange
Energies.” Letters in Mathematical Physics, vol. 112, no. 5, 92, Springer
Nature, 2022, doi:10.1007/s11005-022-01584-5.
short: M. Lewin, E.H. Lieb, R. Seiringer, Letters in Mathematical Physics 112 (2022).
date_created: 2023-01-16T09:53:54Z
date_published: 2022-09-15T00:00:00Z
date_updated: 2023-09-05T15:17:34Z
day: '15'
department:
- _id: RoSe
doi: 10.1007/s11005-022-01584-5
ec_funded: 1
external_id:
arxiv:
- '2203.12473'
isi:
- '000854762600001'
intvolume: ' 112'
isi: 1
issue: '5'
keyword:
- Mathematical Physics
- Statistical and Nonlinear Physics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2203.12473
month: '09'
oa: 1
oa_version: Preprint
project:
- _id: 25C6DC12-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694227'
name: Analysis of quantum many-body systems
publication: Letters in Mathematical Physics
publication_identifier:
eissn:
- 1573-0530
issn:
- 0377-9017
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Improved Lieb–Oxford bound on the indirect and exchange energies
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 112
year: '2022'
...
---
_id: '12247'
abstract:
- lang: eng
text: Chromosomal inversions have been shown to play a major role in a local adaptation
by suppressing recombination between alternative arrangements and maintaining
beneficial allele combinations. However, so far, their importance relative to
the remaining genome remains largely unknown. Understanding the genetic architecture
of adaptation requires better estimates of how loci of different effect sizes
contribute to phenotypic variation. Here, we used three Swedish islands where
the marine snail Littorina saxatilis has repeatedly evolved into two distinct
ecotypes along a habitat transition. We estimated the contribution of inversion
polymorphisms to phenotypic divergence while controlling for polygenic effects
in the remaining genome using a quantitative genetics framework. We confirmed
the importance of inversions but showed that contributions of loci outside inversions
are of similar magnitude, with variable proportions dependent on the trait and
the population. Some inversions showed consistent effects across all sites, whereas
others exhibited site-specific effects, indicating that the genomic basis for
replicated phenotypic divergence is only partly shared. The contributions of sexual
dimorphism as well as environmental factors to phenotypic variation were significant
but minor compared to inversions and polygenic background. Overall, this integrated
approach provides insight into the multiple mechanisms contributing to parallel
phenotypic divergence.
acknowledgement: We thank everyone who helped with fieldwork, snail processing, and
DNA extractions, particularly Laura Brettell, Mårten Duvetorp, Juan Galindo, Anne-Lise
Liabot, Irena Senčić, and Zuzanna Zagrodzka. We also thank Rui Faria and Jenny Larsson
for their contributions, with inversions and shell shape respectively. KJ was funded
by the Swedish research council Vetenskapsrådet, grant number 2017-03798. R.K.B.
and E.K. were funded by the European Research Council (ERC-2015-AdG-693030-BARRIERS).
R.K.B. was also funded by the Natural Environment Research Council and the Swedish
Research Council Vetenskapsrådet.
article_processing_charge: No
article_type: original
author:
- first_name: Eva L.
full_name: Koch, Eva L.
last_name: Koch
- first_name: Mark
full_name: Ravinet, Mark
last_name: Ravinet
- 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: Kerstin
full_name: Johannesson, Kerstin
last_name: Johannesson
- first_name: Roger K.
full_name: Butlin, Roger K.
last_name: Butlin
citation:
ama: Koch EL, Ravinet M, Westram AM, Johannesson K, Butlin RK. Genetic architecture
of repeated phenotypic divergence in Littorina saxatilis evolution. Evolution.
2022;76(10):2332-2346. doi:10.1111/evo.14602
apa: Koch, E. L., Ravinet, M., Westram, A. M., Johannesson, K., & Butlin, R.
K. (2022). Genetic architecture of repeated phenotypic divergence in Littorina
saxatilis evolution. Evolution. Wiley. https://doi.org/10.1111/evo.14602
chicago: Koch, Eva L., Mark Ravinet, Anja M Westram, Kerstin Johannesson, and Roger
K. Butlin. “Genetic Architecture of Repeated Phenotypic Divergence in Littorina
Saxatilis Evolution.” Evolution. Wiley, 2022. https://doi.org/10.1111/evo.14602.
ieee: E. L. Koch, M. Ravinet, A. M. Westram, K. Johannesson, and R. K. Butlin, “Genetic
architecture of repeated phenotypic divergence in Littorina saxatilis evolution,”
Evolution, vol. 76, no. 10. Wiley, pp. 2332–2346, 2022.
ista: Koch EL, Ravinet M, Westram AM, Johannesson K, Butlin RK. 2022. Genetic architecture
of repeated phenotypic divergence in Littorina saxatilis evolution. Evolution.
76(10), 2332–2346.
mla: Koch, Eva L., et al. “Genetic Architecture of Repeated Phenotypic Divergence
in Littorina Saxatilis Evolution.” Evolution, vol. 76, no. 10, Wiley, 2022,
pp. 2332–46, doi:10.1111/evo.14602.
short: E.L. Koch, M. Ravinet, A.M. Westram, K. Johannesson, R.K. Butlin, Evolution
76 (2022) 2332–2346.
date_created: 2023-01-16T09:54:15Z
date_published: 2022-10-01T00:00:00Z
date_updated: 2023-08-04T09:42:11Z
day: '01'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1111/evo.14602
external_id:
isi:
- '000848449100001'
pmid:
- '35994296'
file:
- access_level: open_access
checksum: defd8a4bea61cf00a3c88d4a30e2728c
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T08:45:35Z
date_updated: 2023-01-30T08:45:35Z
file_id: '12439'
file_name: 2022_Evolution_Koch.pdf
file_size: 2990581
relation: main_file
success: 1
file_date_updated: 2023-01-30T08:45:35Z
has_accepted_license: '1'
intvolume: ' 76'
isi: 1
issue: '10'
keyword:
- General Agricultural and Biological Sciences
- Genetics
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 2332-2346
pmid: 1
publication: Evolution
publication_identifier:
eissn:
- 1558-5646
issn:
- 0014-3820
publication_status: published
publisher: Wiley
quality_controlled: '1'
related_material:
record:
- id: '13066'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Genetic architecture of repeated phenotypic divergence in Littorina saxatilis
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 76
year: '2022'
...