---
_id: '10766'
abstract:
- lang: eng
text: Tension of the actomyosin cell cortex plays a key role in determining cell–cell
contact growth and size. The level of cortical tension outside of the cell–cell
contact, when pulling at the contact edge, scales with the total size to which
a cell–cell contact can grow [J.-L. Maître et al., Science 338, 253–256 (2012)].
Here, we show in zebrafish primary germ-layer progenitor cells that this monotonic
relationship only applies to a narrow range of cortical tension increase and that
above a critical threshold, contact size inversely scales with cortical tension.
This switch from cortical tension increasing to decreasing progenitor cell–cell
contact size is caused by cortical tension promoting E-cadherin anchoring to the
actomyosin cytoskeleton, thereby increasing clustering and stability of E-cadherin
at the contact. After tension-mediated E-cadherin stabilization at the contact
exceeds a critical threshold level, the rate by which the contact expands in response
to pulling forces from the cortex sharply drops, leading to smaller contacts at
physiologically relevant timescales of contact formation. Thus, the activity of
cortical tension in expanding cell–cell contact size is limited by tension-stabilizing
E-cadherin–actin complexes at the contact.
acknowledged_ssus:
- _id: Bio
- _id: EM-Fac
- _id: PreCl
acknowledgement: 'We thank Guillaume Salbreaux, Silvia Grigolon, Edouard Hannezo,
and Vanessa Barone for discussions and comments on the manuscript and Shayan Shamipour
and Daniel Capek for help with data analysis. We also thank the Imaging & Optics,
Electron Microscopy, and Zebrafish Facility Scientific Service Units at the Institute
of Science and Technology Austria (ISTA)Nasser Darwish-Miranda for continuous support.
We acknowledge Hitoshi Morita for the gift of VinculinB-GFP plasmid. This research
was supported by an ISTA Fellow Marie-Curie Co-funding of regional, national, and
international programmes Grant P_IST_EU01 (to J.S.), European Molecular Biology
Organization Long-Term Fellowship Grant, ALTF reference number: 187-2013 (to M.S.),
Schroedinger Fellowship J4332-B28 (to M.S.), and European Research Council Advanced
Grant (MECSPEC; to C.-P.H.).'
article_number: e2122030119
article_processing_charge: No
article_type: original
author:
- first_name: Jana
full_name: Slovakova, Jana
id: 30F3F2F0-F248-11E8-B48F-1D18A9856A87
last_name: Slovakova
- first_name: Mateusz K
full_name: Sikora, Mateusz K
id: 2F74BCDE-F248-11E8-B48F-1D18A9856A87
last_name: Sikora
- first_name: Feyza N
full_name: Arslan, Feyza N
id: 49DA7910-F248-11E8-B48F-1D18A9856A87
last_name: Arslan
orcid: 0000-0001-5809-9566
- first_name: Silvia
full_name: Caballero Mancebo, Silvia
id: 2F1E1758-F248-11E8-B48F-1D18A9856A87
last_name: Caballero Mancebo
orcid: 0000-0002-5223-3346
- first_name: Gabriel
full_name: Krens, Gabriel
id: 2B819732-F248-11E8-B48F-1D18A9856A87
last_name: Krens
orcid: 0000-0003-4761-5996
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Slovakova J, Sikora MK, Arslan FN, et al. Tension-dependent stabilization of
E-cadherin limits cell-cell contact expansion in zebrafish germ-layer progenitor
cells. Proceedings of the National Academy of Sciences of the United States
of America. 2022;119(8). doi:10.1073/pnas.2122030119
apa: Slovakova, J., Sikora, M. K., Arslan, F. N., Caballero Mancebo, S., Krens,
G., Kaufmann, W., … Heisenberg, C.-P. J. (2022). Tension-dependent stabilization
of E-cadherin limits cell-cell contact expansion in zebrafish germ-layer progenitor
cells. Proceedings of the National Academy of Sciences of the United States
of America. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.2122030119
chicago: Slovakova, Jana, Mateusz K Sikora, Feyza N Arslan, Silvia Caballero Mancebo,
Gabriel Krens, Walter Kaufmann, Jack Merrin, and Carl-Philipp J Heisenberg. “Tension-Dependent
Stabilization of E-Cadherin Limits Cell-Cell Contact Expansion in Zebrafish Germ-Layer
Progenitor Cells.” Proceedings of the National Academy of Sciences of the United
States of America. Proceedings of the National Academy of Sciences, 2022.
https://doi.org/10.1073/pnas.2122030119.
ieee: J. Slovakova et al., “Tension-dependent stabilization of E-cadherin
limits cell-cell contact expansion in zebrafish germ-layer progenitor cells,”
Proceedings of the National Academy of Sciences of the United States of America,
vol. 119, no. 8. Proceedings of the National Academy of Sciences, 2022.
ista: Slovakova J, Sikora MK, Arslan FN, Caballero Mancebo S, Krens G, Kaufmann
W, Merrin J, Heisenberg C-PJ. 2022. Tension-dependent stabilization of E-cadherin
limits cell-cell contact expansion in zebrafish germ-layer progenitor cells. Proceedings
of the National Academy of Sciences of the United States of America. 119(8), e2122030119.
mla: Slovakova, Jana, et al. “Tension-Dependent Stabilization of E-Cadherin Limits
Cell-Cell Contact Expansion in Zebrafish Germ-Layer Progenitor Cells.” Proceedings
of the National Academy of Sciences of the United States of America, vol.
119, no. 8, e2122030119, Proceedings of the National Academy of Sciences, 2022,
doi:10.1073/pnas.2122030119.
short: J. Slovakova, M.K. Sikora, F.N. Arslan, S. Caballero Mancebo, G. Krens, W.
Kaufmann, J. Merrin, C.-P.J. Heisenberg, Proceedings of the National Academy of
Sciences of the United States of America 119 (2022).
date_created: 2022-02-20T23:01:31Z
date_published: 2022-02-14T00:00:00Z
date_updated: 2023-08-02T14:26:51Z
day: '14'
ddc:
- '570'
department:
- _id: CaHe
- _id: EM-Fac
- _id: Bio
doi: 10.1073/pnas.2122030119
ec_funded: 1
external_id:
isi:
- '000766926900009'
file:
- access_level: open_access
checksum: d49f83c3580613966f71768ddb9a55a5
content_type: application/pdf
creator: dernst
date_created: 2022-02-21T08:45:11Z
date_updated: 2022-02-21T08:45:11Z
file_id: '10780'
file_name: 2022_PNAS_Slovakova.pdf
file_size: 1609678
relation: main_file
success: 1
file_date_updated: 2022-02-21T08:45:11Z
has_accepted_license: '1'
intvolume: ' 119'
isi: 1
issue: '8'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 260F1432-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742573'
name: Interaction and feedback between cell mechanics and fate specification in
vertebrate gastrulation
- _id: 2521E28E-B435-11E9-9278-68D0E5697425
grant_number: 187-2013
name: Modulation of adhesion function in cell-cell contact formation by cortical
tension
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- '10916490'
publication_status: published
publisher: Proceedings of the National Academy of Sciences
quality_controlled: '1'
related_material:
record:
- id: '9750'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion
in zebrafish germ-layer progenitor cells
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: 119
year: '2022'
...
---
_id: '10841'
abstract:
- lang: eng
text: In eukaryotes, clathrin-coated vesicles (CCVs) facilitate the internalization
of material from the cell surface as well as the movement of cargo in post-Golgi
trafficking pathways. This diversity of functions is partially provided by multiple
monomeric and multimeric clathrin adaptor complexes that provide compartment and
cargo selectivity. The adaptor-protein assembly polypeptide-1 (AP-1) complex operates
as part of the secretory pathway at the trans-Golgi network (TGN), while the AP-2
complex and the TPLATE complex jointly operate at the plasma membrane to execute
clathrin-mediated endocytosis. Key to our further understanding of clathrin-mediated
trafficking in plants will be the comprehensive identification and characterization
of the network of evolutionarily conserved and plant-specific core and accessory
machinery involved in the formation and targeting of CCVs. To facilitate these
studies, we have analyzed the proteome of enriched TGN/early endosome-derived
and endocytic CCVs isolated from dividing and expanding suspension-cultured Arabidopsis
(Arabidopsis thaliana) cells. Tandem mass spectrometry analysis results were validated
by differential chemical labeling experiments to identify proteins co-enriching
with CCVs. Proteins enriched in CCVs included previously characterized CCV components
and cargos such as the vacuolar sorting receptors in addition to conserved and
plant-specific components whose function in clathrin-mediated trafficking has
not been previously defined. Notably, in addition to AP-1 and AP-2, all subunits
of the AP-4 complex, but not AP-3 or AP-5, were found to be in high abundance
in the CCV proteome. The association of AP-4 with suspension-cultured Arabidopsis
CCVs is further supported via additional biochemical data.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: 'The authors would like to acknowledge the VIB Proteomics Core Facility
(VIB-UGent Center for Medical Biotechnology in Ghent, Belgium) and the Research
Technology Support Facility Proteomics Core (Michigan State University in East Lansing,
Michigan) for sample analysis, as well as the University of Wisconsin Biotechnology
Center Mass Spectrometry Core Facility (Madison, WI) for help with data processing.
Additionally, we are grateful to Sue Weintraub (UT Health San Antonio) and Sydney
Thomas (UW- Madison) for assistance with data analysis. This research was supported
by grants to S.Y.B. from the National Science Foundation (Nos. 1121998 and 1614915)
and a Vilas Associate Award (University of Wisconsin, Madison, Graduate School);
to J.P. from the National Natural Science Foundation of China (Nos. 91754104, 31820103008,
and 31670283); to I.H. from the National Research Foundation of Korea (No. 2019R1A2B5B03099982).
This research was also supported by the Scientific Service Units (SSU) of IST Austria
through resources provided by the Electron microscopy Facility (EMF). A.J. is supported
by funding from the Austrian Science Fund (FWF): I3630B25 to J.F. A.H. is supported
by funding from the National Science Foundation (NSF IOS Nos. 1025837 and 1147032).'
article_processing_charge: No
article_type: original
author:
- first_name: DA
full_name: Dahhan, DA
last_name: Dahhan
- first_name: GD
full_name: Reynolds, GD
last_name: Reynolds
- first_name: JJ
full_name: Cárdenas, JJ
last_name: Cárdenas
- first_name: D
full_name: Eeckhout, D
last_name: Eeckhout
- 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: K
full_name: Yperman, K
last_name: Yperman
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: N
full_name: Vang, N
last_name: Vang
- first_name: X
full_name: Yan, X
last_name: Yan
- first_name: I
full_name: Hwang, I
last_name: Hwang
- first_name: A
full_name: Heese, A
last_name: Heese
- first_name: G
full_name: De Jaeger, G
last_name: De Jaeger
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: D
full_name: Van Damme, D
last_name: Van Damme
- first_name: J
full_name: Pan, J
last_name: Pan
- first_name: SY
full_name: Bednarek, SY
last_name: Bednarek
citation:
ama: Dahhan D, Reynolds G, Cárdenas J, et al. Proteomic characterization of isolated
Arabidopsis clathrin-coated vesicles reveals evolutionarily conserved and plant-specific
components. Plant Cell. 2022;34(6):2150-2173. doi:10.1093/plcell/koac071
apa: Dahhan, D., Reynolds, G., Cárdenas, J., Eeckhout, D., Johnson, A. J., Yperman,
K., … Bednarek, S. (2022). Proteomic characterization of isolated Arabidopsis
clathrin-coated vesicles reveals evolutionarily conserved and plant-specific components.
Plant Cell. Oxford Academic. https://doi.org/10.1093/plcell/koac071
chicago: Dahhan, DA, GD Reynolds, JJ Cárdenas, D Eeckhout, Alexander J Johnson,
K Yperman, Walter Kaufmann, et al. “Proteomic Characterization of Isolated Arabidopsis
Clathrin-Coated Vesicles Reveals Evolutionarily Conserved and Plant-Specific Components.”
Plant Cell. Oxford Academic, 2022. https://doi.org/10.1093/plcell/koac071.
ieee: D. Dahhan et al., “Proteomic characterization of isolated Arabidopsis
clathrin-coated vesicles reveals evolutionarily conserved and plant-specific components,”
Plant Cell, vol. 34, no. 6. Oxford Academic, pp. 2150–2173, 2022.
ista: Dahhan D, Reynolds G, Cárdenas J, Eeckhout D, Johnson AJ, Yperman K, Kaufmann
W, Vang N, Yan X, Hwang I, Heese A, De Jaeger G, Friml J, Van Damme D, Pan J,
Bednarek S. 2022. Proteomic characterization of isolated Arabidopsis clathrin-coated
vesicles reveals evolutionarily conserved and plant-specific components. Plant
Cell. 34(6), 2150–2173.
mla: Dahhan, DA, et al. “Proteomic Characterization of Isolated Arabidopsis Clathrin-Coated
Vesicles Reveals Evolutionarily Conserved and Plant-Specific Components.” Plant
Cell, vol. 34, no. 6, Oxford Academic, 2022, pp. 2150–73, doi:10.1093/plcell/koac071.
short: D. Dahhan, G. Reynolds, J. Cárdenas, D. Eeckhout, A.J. Johnson, K. Yperman,
W. Kaufmann, N. Vang, X. Yan, I. Hwang, A. Heese, G. De Jaeger, J. Friml, D. Van
Damme, J. Pan, S. Bednarek, Plant Cell 34 (2022) 2150–2173.
date_created: 2022-03-08T13:47:51Z
date_published: 2022-06-01T00:00:00Z
date_updated: 2023-08-02T14:46:48Z
day: '01'
department:
- _id: JiFr
- _id: EM-Fac
doi: 10.1093/plcell/koac071
external_id:
isi:
- '000767438800001'
pmid:
- '35218346'
intvolume: ' 34'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2021.09.16.460678
month: '06'
oa: 1
oa_version: Preprint
page: 2150-2173
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: Plant Cell
publication_identifier:
eissn:
- 1532-298x
issn:
- 1040-4651
publication_status: published
publisher: Oxford Academic
quality_controlled: '1'
scopus_import: '1'
status: public
title: Proteomic characterization of isolated Arabidopsis clathrin-coated vesicles
reveals evolutionarily conserved and plant-specific components
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 34
year: '2022'
...
---
_id: '11705'
abstract:
- lang: eng
text: 'The broad implementation of thermoelectricity requires high-performance and
low-cost materials. One possibility is employing surfactant-free solution synthesis
to produce nanopowders. We propose the strategy of functionalizing “naked” particles’
surface by inorganic molecules to control the nanostructure and, consequently,
thermoelectric performance. In particular, we use bismuth thiolates to functionalize
surfactant-free SnTe particles’ surfaces. Upon thermal processing, bismuth thiolates
decomposition renders SnTe-Bi2S3 nanocomposites with synergistic functions: 1)
carrier concentration optimization by Bi doping; 2) Seebeck coefficient enhancement
and bipolar effect suppression by energy filtering; and 3) lattice thermal conductivity
reduction by small grain domains, grain boundaries and nanostructuration. Overall,
the SnTe-Bi2S3 nanocomposites exhibit peak z T up to 1.3 at 873 K and an average
z T of ≈0.6 at 300–873 K, which is among the highest reported for solution-processed
SnTe.'
acknowledged_ssus:
- _id: EM-Fac
- _id: NanoFab
acknowledgement: This research was supported by the Scientific Service Units (SSU)
of IST Austria through resources provided by Electron Microscopy Facility (EMF)
and the Nanofabrication Facility (NNF). This work was financially supported by IST
Austria and the Werner Siemens Foundation. C.C. acknowledges funding from the FWF
“Lise Meitner Fellowship” grant agreement M 2889-N. Lise Meitner Project (M2889-N).
Y.L. acknowledges funding from the European Union's Horizon 2020 research and innovation
program under the Marie Sklodowska-Curie grant agreement No. 754411. R.L.B. thanks
the National Science Foundation for support under DMR-1904719. MCS acknowledge MINECO
Juan de la Cierva Incorporation fellowship (JdlCI 2019) and Severo Ochoa. M.C.S.
and J.A. acknowledge funding from Generalitat de Catalunya 2017 SGR 327. ICN2 is
supported by the Severo Ochoa program from Spanish MINECO (Grant no. SEV-2017-0706)
and is funded by the CERCA Programme/Generalitat de Catalunya. This study was supported
by MCIN with funding from European Union NextGenerationEU (PRTR-C17.I1) and Generalitat
de Catalunya.
article_number: e202207002
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Cheng
full_name: Chang, Cheng
id: 9E331C2E-9F27-11E9-AE48-5033E6697425
last_name: Chang
orcid: 0000-0002-9515-4277
- first_name: Yu
full_name: Liu, Yu
id: 2A70014E-F248-11E8-B48F-1D18A9856A87
last_name: Liu
orcid: 0000-0001-7313-6740
- first_name: Seungho
full_name: Lee, Seungho
id: BB243B88-D767-11E9-B658-BC13E6697425
last_name: Lee
orcid: 0000-0002-6962-8598
- first_name: Maria
full_name: Spadaro, Maria
last_name: Spadaro
- first_name: Kristopher M.
full_name: Koskela, Kristopher M.
last_name: Koskela
- first_name: Tobias
full_name: Kleinhanns, Tobias
id: 8BD9DE16-AB3C-11E9-9C8C-2A03E6697425
last_name: Kleinhanns
- first_name: Tommaso
full_name: Costanzo, Tommaso
id: D93824F4-D9BA-11E9-BB12-F207E6697425
last_name: Costanzo
orcid: 0000-0001-9732-3815
- first_name: Jordi
full_name: Arbiol, Jordi
last_name: Arbiol
- first_name: Richard L.
full_name: Brutchey, Richard L.
last_name: Brutchey
- first_name: Maria
full_name: Ibáñez, Maria
id: 43C61214-F248-11E8-B48F-1D18A9856A87
last_name: Ibáñez
orcid: 0000-0001-5013-2843
citation:
ama: 'Chang C, Liu Y, Lee S, et al. Surface functionalization of surfactant-free
particles: A strategy to tailor the properties of nanocomposites for enhanced
thermoelectric performance. Angewandte Chemie - International Edition.
2022;61(35). doi:10.1002/anie.202207002'
apa: 'Chang, C., Liu, Y., Lee, S., Spadaro, M., Koskela, K. M., Kleinhanns, T.,
… Ibáñez, M. (2022). Surface functionalization of surfactant-free particles: A
strategy to tailor the properties of nanocomposites for enhanced thermoelectric
performance. Angewandte Chemie - International Edition. Wiley. https://doi.org/10.1002/anie.202207002'
chicago: 'Chang, Cheng, Yu Liu, Seungho Lee, Maria Spadaro, Kristopher M. Koskela,
Tobias Kleinhanns, Tommaso Costanzo, Jordi Arbiol, Richard L. Brutchey, and Maria
Ibáñez. “Surface Functionalization of Surfactant-Free Particles: A Strategy to
Tailor the Properties of Nanocomposites for Enhanced Thermoelectric Performance.”
Angewandte Chemie - International Edition. Wiley, 2022. https://doi.org/10.1002/anie.202207002.'
ieee: 'C. Chang et al., “Surface functionalization of surfactant-free particles:
A strategy to tailor the properties of nanocomposites for enhanced thermoelectric
performance,” Angewandte Chemie - International Edition, vol. 61, no. 35.
Wiley, 2022.'
ista: 'Chang C, Liu Y, Lee S, Spadaro M, Koskela KM, Kleinhanns T, Costanzo T, Arbiol
J, Brutchey RL, Ibáñez M. 2022. Surface functionalization of surfactant-free particles:
A strategy to tailor the properties of nanocomposites for enhanced thermoelectric
performance. Angewandte Chemie - International Edition. 61(35), e202207002.'
mla: 'Chang, Cheng, et al. “Surface Functionalization of Surfactant-Free Particles:
A Strategy to Tailor the Properties of Nanocomposites for Enhanced Thermoelectric
Performance.” Angewandte Chemie - International Edition, vol. 61, no. 35,
e202207002, Wiley, 2022, doi:10.1002/anie.202207002.'
short: C. Chang, Y. Liu, S. Lee, M. Spadaro, K.M. Koskela, T. Kleinhanns, T. Costanzo,
J. Arbiol, R.L. Brutchey, M. Ibáñez, Angewandte Chemie - International Edition
61 (2022).
date_created: 2022-07-31T22:01:48Z
date_published: 2022-08-26T00:00:00Z
date_updated: 2023-08-03T12:23:52Z
day: '26'
ddc:
- '540'
department:
- _id: MaIb
- _id: EM-Fac
doi: 10.1002/anie.202207002
ec_funded: 1
external_id:
isi:
- '000828274200001'
file:
- access_level: open_access
checksum: ad601f2b9e26e46ab4785162be58b5ed
content_type: application/pdf
creator: dernst
date_created: 2023-02-02T08:01:00Z
date_updated: 2023-02-02T08:01:00Z
file_id: '12476'
file_name: 2022_AngewandteChemieInternat_Chang.pdf
file_size: 4072650
relation: main_file
success: 1
file_date_updated: 2023-02-02T08:01:00Z
has_accepted_license: '1'
intvolume: ' 61'
isi: 1
issue: '35'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '08'
oa: 1
oa_version: Published Version
project:
- _id: 9B8804FC-BA93-11EA-9121-9846C619BF3A
grant_number: M02889
name: Bottom-up Engineering for Thermoelectric Applications
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
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: 'Surface functionalization of surfactant-free particles: A strategy to tailor
the properties of nanocomposites for enhanced thermoelectric performance'
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: '12065'
abstract:
- lang: eng
text: Capacity, rate performance, and cycle life of aprotic Li–O2 batteries critically
depend on reversible electrodeposition of Li2O2. Current understanding states
surface-adsorbed versus solvated LiO2 controls Li2O2 growth as surface film or
as large particles. Herein, we show that Li2O2 forms across a wide range of electrolytes,
carbons, and current densities as particles via solution-mediated LiO2 disproportionation,
bringing into question the prevalence of any surface growth under practical conditions.
We describe a unified O2 reduction mechanism, which can explain all found capacity
relations and Li2O2 morphologies with exclusive solution discharge. Determining
particle morphology and achievable capacities are species mobilities, true areal
rate, and the degree of LiO2 association in solution. Capacity is conclusively
limited by mass transport through the tortuous Li2O2 rather than electron transport
through a passivating Li2O2 film. Provided that species mobilities and surface
growth are high, high capacities are also achieved with weakly solvating electrolytes,
which were previously considered prototypical for low capacity via surface growth.
acknowledged_ssus:
- _id: EM-Fac
- _id: M-Shop
acknowledgement: S.A.F. and C.P. are indebted to the European Research Council (ERC)
under the European Union’s Horizon 2020 research and innovation program (Grant Agreement
No. 636069). This project has received funding from the European Union’s Horizon
2020 research and innovation program under the Marie Skłodowska-Curie Grant NanoEvolution,
Grant Agreement No. 894042. S.A.F. and S.M. are indebted to Institute of Science
and Technology Austria (ISTA) for support. This research was supported by the Scientific
Service Units of ISTA through resources provided by the Electron Microscopy Facility
and the Miba Machine Shop. C.P. thanks Vanessa Wood (ETH Zürich) for her continuing
support.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Christian
full_name: Prehal, Christian
last_name: Prehal
- first_name: Soumyadip
full_name: Mondal, Soumyadip
id: d25d21ef-dc8d-11ea-abe3-ec4576307f48
last_name: Mondal
- first_name: Ludek
full_name: Lovicar, Ludek
id: 36DB3A20-F248-11E8-B48F-1D18A9856A87
last_name: Lovicar
- first_name: Stefan Alexander
full_name: Freunberger, Stefan Alexander
id: A8CA28E6-CE23-11E9-AD2D-EC27E6697425
last_name: Freunberger
orcid: 0000-0003-2902-5319
citation:
ama: Prehal C, Mondal S, Lovicar L, Freunberger SA. Exclusive solution discharge
in Li-O₂ batteries? ACS Energy Letters. 2022;7(9):3112-3119. doi:10.1021/acsenergylett.2c01711
apa: Prehal, C., Mondal, S., Lovicar, L., & Freunberger, S. A. (2022). Exclusive
solution discharge in Li-O₂ batteries? ACS Energy Letters. American Chemical
Society. https://doi.org/10.1021/acsenergylett.2c01711
chicago: Prehal, Christian, Soumyadip Mondal, Ludek Lovicar, and Stefan Alexander
Freunberger. “Exclusive Solution Discharge in Li-O₂ Batteries?” ACS Energy
Letters. American Chemical Society, 2022. https://doi.org/10.1021/acsenergylett.2c01711.
ieee: C. Prehal, S. Mondal, L. Lovicar, and S. A. Freunberger, “Exclusive solution
discharge in Li-O₂ batteries?,” ACS Energy Letters, vol. 7, no. 9. American
Chemical Society, pp. 3112–3119, 2022.
ista: Prehal C, Mondal S, Lovicar L, Freunberger SA. 2022. Exclusive solution discharge
in Li-O₂ batteries? ACS Energy Letters. 7(9), 3112–3119.
mla: Prehal, Christian, et al. “Exclusive Solution Discharge in Li-O₂ Batteries?”
ACS Energy Letters, vol. 7, no. 9, American Chemical Society, 2022, pp.
3112–19, doi:10.1021/acsenergylett.2c01711.
short: C. Prehal, S. Mondal, L. Lovicar, S.A. Freunberger, ACS Energy Letters 7
(2022) 3112–3119.
date_created: 2022-09-08T09:51:09Z
date_published: 2022-08-29T00:00:00Z
date_updated: 2023-08-03T13:47:56Z
day: '29'
ddc:
- '540'
department:
- _id: StFr
- _id: EM-Fac
doi: 10.1021/acsenergylett.2c01711
external_id:
isi:
- '000860787000001'
file:
- access_level: open_access
checksum: cf0bed3a2535c11d27244cd029dbc1d0
content_type: application/pdf
creator: dernst
date_created: 2023-01-20T08:43:51Z
date_updated: 2023-01-20T08:43:51Z
file_id: '12319'
file_name: 2022_ACSEnergyLetters_Prehal.pdf
file_size: 3827583
relation: main_file
success: 1
file_date_updated: 2023-01-20T08:43:51Z
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
issue: '9'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 3112-3119
publication: ACS Energy Letters
publication_identifier:
eissn:
- 2380-8195
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Exclusive solution discharge in Li-O₂ batteries?
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: 7
year: '2022'
...
---
_id: '12109'
abstract:
- lang: eng
text: Kelvin probe force microscopy (KPFM) is a powerful tool for studying contact
electrification (CE) at the nanoscale, but converting KPFM voltage maps to charge
density maps is nontrivial due to long-range forces and complex system geometry.
Here we present a strategy using finite-element method (FEM) simulations to determine
the Green's function of the KPFM probe/insulator/ground system, which allows us
to quantitatively extract surface charge. Testing our approach with synthetic
data, we find that accounting for the atomic force microscope (AFM) tip, cone,
and cantilever is necessary to recover a known input and that existing methods
lead to gross miscalculation or even the incorrect sign of the underlying charge.
Applying it to experimental data, we demonstrate its capacity to extract realistic
surface charge densities and fine details from contact-charged surfaces. Our method
gives a straightforward recipe to convert qualitative KPFM voltage data into quantitative
charge data over a range of experimental conditions, enabling quantitative CE
at the nanoscale.
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
- _id: ScienComp
acknowledgement: "This project has received funding from the European Research Council
(ERC) under the European Union’s Horizon 2020 research and innovation programme
(Grant Agreement\r\nNo. 949120). This research was supported by the Scientific Service
Units of the Institute of Science and Technology Austria (ISTA) through resources
provided by the Miba Machine\r\nShop, the Nanofabrication Facility, and the Scientific
Computing Facility. We thank F. Stumpf from Park Systems for useful discussions
and support with scanning probe microscopy.\r\nF.P. and J.C.S. contributed equally
to this work."
article_number: '125605'
article_processing_charge: No
article_type: original
author:
- first_name: Felix
full_name: Pertl, Felix
id: 6313aec0-15b2-11ec-abd3-ed67d16139af
last_name: Pertl
- first_name: Juan Carlos A
full_name: Sobarzo Ponce, Juan Carlos A
id: 4B807D68-AE37-11E9-AC72-31CAE5697425
last_name: Sobarzo Ponce
- first_name: Lubuna B
full_name: Shafeek, Lubuna B
id: 3CD37A82-F248-11E8-B48F-1D18A9856A87
last_name: Shafeek
orcid: 0000-0001-7180-6050
- first_name: Tobias
full_name: Cramer, Tobias
last_name: Cramer
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
citation:
ama: Pertl F, Sobarzo Ponce JCA, Shafeek LB, Cramer T, Waitukaitis SR. Quantifying
nanoscale charge density features of contact-charged surfaces with an FEM/KPFM-hybrid
approach. Physical Review Materials. 2022;6(12). doi:10.1103/PhysRevMaterials.6.125605
apa: Pertl, F., Sobarzo Ponce, J. C. A., Shafeek, L. B., Cramer, T., & Waitukaitis,
S. R. (2022). Quantifying nanoscale charge density features of contact-charged
surfaces with an FEM/KPFM-hybrid approach. Physical Review Materials. American
Physical Society. https://doi.org/10.1103/PhysRevMaterials.6.125605
chicago: Pertl, Felix, Juan Carlos A Sobarzo Ponce, Lubuna B Shafeek, Tobias Cramer,
and Scott R Waitukaitis. “Quantifying Nanoscale Charge Density Features of Contact-Charged
Surfaces with an FEM/KPFM-Hybrid Approach.” Physical Review Materials.
American Physical Society, 2022. https://doi.org/10.1103/PhysRevMaterials.6.125605.
ieee: F. Pertl, J. C. A. Sobarzo Ponce, L. B. Shafeek, T. Cramer, and S. R. Waitukaitis,
“Quantifying nanoscale charge density features of contact-charged surfaces with
an FEM/KPFM-hybrid approach,” Physical Review Materials, vol. 6, no. 12.
American Physical Society, 2022.
ista: Pertl F, Sobarzo Ponce JCA, Shafeek LB, Cramer T, Waitukaitis SR. 2022. Quantifying
nanoscale charge density features of contact-charged surfaces with an FEM/KPFM-hybrid
approach. Physical Review Materials. 6(12), 125605.
mla: Pertl, Felix, et al. “Quantifying Nanoscale Charge Density Features of Contact-Charged
Surfaces with an FEM/KPFM-Hybrid Approach.” Physical Review Materials,
vol. 6, no. 12, 125605, American Physical Society, 2022, doi:10.1103/PhysRevMaterials.6.125605.
short: F. Pertl, J.C.A. Sobarzo Ponce, L.B. Shafeek, T. Cramer, S.R. Waitukaitis,
Physical Review Materials 6 (2022).
date_created: 2023-01-08T23:00:53Z
date_published: 2022-12-29T00:00:00Z
date_updated: 2023-08-03T14:11:29Z
day: '29'
department:
- _id: ScWa
- _id: NanoFab
doi: 10.1103/PhysRevMaterials.6.125605
ec_funded: 1
external_id:
arxiv:
- '2209.01889'
isi:
- '000908384800001'
intvolume: ' 6'
isi: 1
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: ' https://doi.org/10.48550/arXiv.2209.01889'
month: '12'
oa: 1
oa_version: Preprint
project:
- _id: 0aa60e99-070f-11eb-9043-a6de6bdc3afa
call_identifier: H2020
grant_number: '949120'
name: 'Tribocharge: a multi-scale approach to an enduring problem in physics'
publication: Physical Review Materials
publication_identifier:
eissn:
- 2475-9953
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quantifying nanoscale charge density features of contact-charged surfaces with
an FEM/KPFM-hybrid approach
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 6
year: '2022'
...
---
_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: '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: '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: '12259'
abstract:
- lang: eng
text: 'Theoretical foundations of chaos have been predominantly laid out for finite-dimensional
dynamical systems, such as the three-body problem in classical mechanics and the
Lorenz model in dissipative systems. In contrast, many real-world chaotic phenomena,
e.g., weather, arise in systems with many (formally infinite) degrees of freedom,
which limits direct quantitative analysis of such systems using chaos theory.
In the present work, we demonstrate that the hydrodynamic pilot-wave systems offer
a bridge between low- and high-dimensional chaotic phenomena by allowing for a
systematic study of how the former connects to the latter. Specifically, we present
experimental results, which show the formation of low-dimensional chaotic attractors
upon destabilization of regular dynamics and a final transition to high-dimensional
chaos via the merging of distinct chaotic regions through a crisis bifurcation.
Moreover, we show that the post-crisis dynamics of the system can be rationalized
as consecutive scatterings from the nonattracting chaotic sets with lifetimes
following exponential distributions. '
acknowledgement: 'This work was partially funded by the Institute of Science and Technology
Austria Interdisciplinary Project Committee Grant “Pilot-Wave Hydrodynamics: Chaos
and Quantum Analogies.”'
article_number: '093138'
article_processing_charge: No
article_type: original
author:
- first_name: George H
full_name: Choueiri, George H
id: 448BD5BC-F248-11E8-B48F-1D18A9856A87
last_name: Choueiri
- first_name: Balachandra
full_name: Suri, Balachandra
id: 47A5E706-F248-11E8-B48F-1D18A9856A87
last_name: Suri
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Maksym
full_name: Serbyn, Maksym
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Nazmi B
full_name: Budanur, Nazmi B
id: 3EA1010E-F248-11E8-B48F-1D18A9856A87
last_name: Budanur
orcid: 0000-0003-0423-5010
citation:
ama: 'Choueiri GH, Suri B, Merrin J, Serbyn M, Hof B, Budanur NB. Crises and chaotic
scattering in hydrodynamic pilot-wave experiments. Chaos: An Interdisciplinary
Journal of Nonlinear Science. 2022;32(9). doi:10.1063/5.0102904'
apa: 'Choueiri, G. H., Suri, B., Merrin, J., Serbyn, M., Hof, B., & Budanur,
N. B. (2022). Crises and chaotic scattering in hydrodynamic pilot-wave experiments.
Chaos: An Interdisciplinary Journal of Nonlinear Science. AIP Publishing.
https://doi.org/10.1063/5.0102904'
chicago: 'Choueiri, George H, Balachandra Suri, Jack Merrin, Maksym Serbyn, Björn
Hof, and Nazmi B Budanur. “Crises and Chaotic Scattering in Hydrodynamic Pilot-Wave
Experiments.” Chaos: An Interdisciplinary Journal of Nonlinear Science.
AIP Publishing, 2022. https://doi.org/10.1063/5.0102904.'
ieee: 'G. H. Choueiri, B. Suri, J. Merrin, M. Serbyn, B. Hof, and N. B. Budanur,
“Crises and chaotic scattering in hydrodynamic pilot-wave experiments,” Chaos:
An Interdisciplinary Journal of Nonlinear Science, vol. 32, no. 9. AIP Publishing,
2022.'
ista: 'Choueiri GH, Suri B, Merrin J, Serbyn M, Hof B, Budanur NB. 2022. Crises
and chaotic scattering in hydrodynamic pilot-wave experiments. Chaos: An Interdisciplinary
Journal of Nonlinear Science. 32(9), 093138.'
mla: 'Choueiri, George H., et al. “Crises and Chaotic Scattering in Hydrodynamic
Pilot-Wave Experiments.” Chaos: An Interdisciplinary Journal of Nonlinear Science,
vol. 32, no. 9, 093138, AIP Publishing, 2022, doi:10.1063/5.0102904.'
short: 'G.H. Choueiri, B. Suri, J. Merrin, M. Serbyn, B. Hof, N.B. Budanur, Chaos:
An Interdisciplinary Journal of Nonlinear Science 32 (2022).'
date_created: 2023-01-16T09:58:16Z
date_published: 2022-09-26T00:00:00Z
date_updated: 2023-08-04T09:51:17Z
day: '26'
ddc:
- '530'
department:
- _id: MaSe
- _id: BjHo
- _id: NanoFab
doi: 10.1063/5.0102904
external_id:
arxiv:
- '2206.01531'
isi:
- '000861009600005'
file:
- access_level: open_access
checksum: 17881eff8b21969359a2dd64620120ba
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T09:41:12Z
date_updated: 2023-01-30T09:41:12Z
file_id: '12445'
file_name: 2022_Chaos_Choueiri.pdf
file_size: 3209644
relation: main_file
success: 1
file_date_updated: 2023-01-30T09:41:12Z
has_accepted_license: '1'
intvolume: ' 32'
isi: 1
issue: '9'
keyword:
- Applied Mathematics
- General Physics and Astronomy
- Mathematical Physics
- Statistical and Nonlinear Physics
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
publication: 'Chaos: An Interdisciplinary Journal of Nonlinear Science'
publication_identifier:
eissn:
- 1089-7682
issn:
- 1054-1500
publication_status: published
publisher: AIP Publishing
quality_controlled: '1'
scopus_import: '1'
status: public
title: Crises and chaotic scattering in hydrodynamic pilot-wave experiments
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: 32
year: '2022'
...
---
_id: '12262'
abstract:
- lang: eng
text: The AAA-ATPase Drg1 is a key factor in eukaryotic ribosome biogenesis that
initiates cytoplasmic maturation of the large ribosomal subunit. Drg1 releases
the shuttling maturation factor Rlp24 from pre-60S particles shortly after nuclear
export, a strict requirement for downstream maturation. The molecular mechanism
of release remained elusive. Here, we report a series of cryo-EM structures that
captured the extraction of Rlp24 from pre-60S particles by Saccharomyces cerevisiae
Drg1. These structures reveal that Arx1 and the eukaryote-specific rRNA expansion
segment ES27 form a joint docking platform that positions Drg1 for efficient extraction
of Rlp24 from the pre-ribosome. The tips of the Drg1 N domains thereby guide the
Rlp24 C terminus into the central pore of the Drg1 hexamer, enabling extraction
by a hand-over-hand translocation mechanism. Our results uncover substrate recognition
and processing by Drg1 step by step and provide a comprehensive mechanistic picture
of the conserved modus operandi of AAA-ATPases.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: "We thank M. Fromont-Racine, A. Johnson, J. Woolford, S. Rospert,
J. P. G. Ballesta and\r\nE. Hurt for supplying antibodies. The work was supported
by Boehringer Ingelheim (to\r\nD. H.), the Austrian Science Foundation FWF (grants
32536 and 32977 to H. B.), the\r\nUK Medical Research Council (MR/T012412/1 to A.
J. W.) and the German Research\r\nFoundation (Emmy Noether Programme STE 2517/1-1
and STE 2517/5-1 to F.S.). We\r\nthank Norberto Escudero-Urquijo, Pablo Castro-Hartmann
and K. Dent, Cambridge\r\nInstitute for Medical Research, for their help in cryo-EM
during early phases of this\r\nproject. This research was supported by the Scientific
Service Units of IST Austria through\r\nresources provided by the Electron Microscopy
Facility. We thank S. Keller, Institute of\r\nMolecular Biosciences (Biophysics),
University Graz for support with the quantification of\r\nthe SPR particle release
assay. We thank I. Schaffner, University of Natural Resources and\r\nLife Sciences,
Vienna for her help in early stages of the SPR experiments."
article_processing_charge: No
article_type: original
author:
- first_name: Michael
full_name: Prattes, Michael
last_name: Prattes
- first_name: Irina
full_name: Grishkovskaya, Irina
last_name: Grishkovskaya
- first_name: Victor-Valentin
full_name: Hodirnau, Victor-Valentin
id: 3661B498-F248-11E8-B48F-1D18A9856A87
last_name: Hodirnau
- first_name: Christina
full_name: Hetzmannseder, Christina
last_name: Hetzmannseder
- first_name: Gertrude
full_name: Zisser, Gertrude
last_name: Zisser
- first_name: Carolin
full_name: Sailer, Carolin
last_name: Sailer
- first_name: Vasileios
full_name: Kargas, Vasileios
last_name: Kargas
- first_name: Mathias
full_name: Loibl, Mathias
last_name: Loibl
- first_name: Magdalena
full_name: Gerhalter, Magdalena
last_name: Gerhalter
- first_name: Lisa
full_name: Kofler, Lisa
last_name: Kofler
- first_name: Alan J.
full_name: Warren, Alan J.
last_name: Warren
- first_name: Florian
full_name: Stengel, Florian
last_name: Stengel
- first_name: David
full_name: Haselbach, David
last_name: Haselbach
- first_name: Helmut
full_name: Bergler, Helmut
last_name: Bergler
citation:
ama: Prattes M, Grishkovskaya I, Hodirnau V-V, et al. Visualizing maturation factor
extraction from the nascent ribosome by the AAA-ATPase Drg1. Nature Structural
& Molecular Biology. 2022;29(9):942-953. doi:10.1038/s41594-022-00832-5
apa: Prattes, M., Grishkovskaya, I., Hodirnau, V.-V., Hetzmannseder, C., Zisser,
G., Sailer, C., … Bergler, H. (2022). Visualizing maturation factor extraction
from the nascent ribosome by the AAA-ATPase Drg1. Nature Structural & Molecular
Biology. Springer Nature. https://doi.org/10.1038/s41594-022-00832-5
chicago: Prattes, Michael, Irina Grishkovskaya, Victor-Valentin Hodirnau, Christina
Hetzmannseder, Gertrude Zisser, Carolin Sailer, Vasileios Kargas, et al. “Visualizing
Maturation Factor Extraction from the Nascent Ribosome by the AAA-ATPase Drg1.”
Nature Structural & Molecular Biology. Springer Nature, 2022. https://doi.org/10.1038/s41594-022-00832-5.
ieee: M. Prattes et al., “Visualizing maturation factor extraction from the
nascent ribosome by the AAA-ATPase Drg1,” Nature Structural & Molecular
Biology, vol. 29, no. 9. Springer Nature, pp. 942–953, 2022.
ista: Prattes M, Grishkovskaya I, Hodirnau V-V, Hetzmannseder C, Zisser G, Sailer
C, Kargas V, Loibl M, Gerhalter M, Kofler L, Warren AJ, Stengel F, Haselbach D,
Bergler H. 2022. Visualizing maturation factor extraction from the nascent ribosome
by the AAA-ATPase Drg1. Nature Structural & Molecular Biology. 29(9), 942–953.
mla: Prattes, Michael, et al. “Visualizing Maturation Factor Extraction from the
Nascent Ribosome by the AAA-ATPase Drg1.” Nature Structural & Molecular
Biology, vol. 29, no. 9, Springer Nature, 2022, pp. 942–53, doi:10.1038/s41594-022-00832-5.
short: M. Prattes, I. Grishkovskaya, V.-V. Hodirnau, C. Hetzmannseder, G. Zisser,
C. Sailer, V. Kargas, M. Loibl, M. Gerhalter, L. Kofler, A.J. Warren, F. Stengel,
D. Haselbach, H. Bergler, Nature Structural & Molecular Biology 29 (2022)
942–953.
date_created: 2023-01-16T09:59:06Z
date_published: 2022-09-12T00:00:00Z
date_updated: 2023-08-04T09:52:20Z
day: '12'
ddc:
- '570'
department:
- _id: EM-Fac
doi: 10.1038/s41594-022-00832-5
external_id:
isi:
- '000852942100004'
pmid:
- '36097293'
file:
- access_level: open_access
checksum: 2d5c3ec01718fefd7553052b0b8a0793
content_type: application/pdf
creator: dernst
date_created: 2023-01-30T10:00:04Z
date_updated: 2023-01-30T10:00:04Z
file_id: '12447'
file_name: 2022_NatureStrucMolecBio_Prattes.pdf
file_size: 9935057
relation: main_file
success: 1
file_date_updated: 2023-01-30T10:00:04Z
has_accepted_license: '1'
intvolume: ' 29'
isi: 1
issue: '9'
keyword:
- Molecular Biology
- Structural Biology
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
page: 942-953
pmid: 1
publication: Nature Structural & Molecular Biology
publication_identifier:
eissn:
- 1545-9985
issn:
- 1545-9993
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Visualizing maturation factor extraction from the nascent ribosome by the AAA-ATPase
Drg1
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: 29
year: '2022'
...