---
_id: '10179'
abstract:
- lang: eng
text: Inhibitory GABAergic interneurons migrate over long distances from their extracortical
origin into the developing cortex. In humans, this process is uniquely slow and
prolonged, and it is unclear whether guidance cues unique to humans govern the
various phases of this complex developmental process. Here, we use fused cerebral
organoids to identify key roles of neurotransmitter signaling pathways in guiding
the migratory behavior of human cortical interneurons. We use scRNAseq to reveal
expression of GABA, glutamate, glycine, and serotonin receptors along distinct
maturation trajectories across interneuron migration. We develop an image analysis
software package, TrackPal, to simultaneously assess 48 parameters for entire
migration tracks of individual cells. By chemical screening, we show that different
modes of interneuron migration depend on distinct neurotransmitter signaling pathways,
linking transcriptional maturation of interneurons with their migratory behavior.
Altogether, our study provides a comprehensive quantitative analysis of human
interneuron migration and its functional modulation by neurotransmitter signaling.
acknowledgement: We thank all Knoblich laboratory members for continued support and
discussions. We thank the IMP/IMBA BioOptics facility, particularly Pawel Pasierbek,
Alberto Moreno Cencerrado and Gerald Schmauss, the IMP/IMBA Molecular Biology Service,
in particular Robert Heinen, the IMP Bioinformatics facility, in particular Thomas
Burkard, the Vienna Biocenter Core Facilities (VBCF) Histopathology facility, in
particular Tamara Engelmaier, and the VBCF Next Generation Sequencing Facility,
notably Volodymyr Shubchynskyy and Carmen Czepe. We would also like to thank Simon
Haendeler for advice on statistical analyses, Jose Guzman for discussions and assistance
with slice culture setups, Oliver L. Eichmueller for discussions and assistance
with microscopy, and E.H. Gustafson, S. Wolfinger, and D. Reumann for technical
assistance regarding generation of cerebral organoids. This project received funding
from the European Union’s Horizon 2020 research and innovation program under the
Marie Skłodowska-Curie fellowship agreement Nr.707109 awarded to J.A.B. Work in
J.A.K.'s laboratory is supported by the Austrian Federal Ministry of Education,
Science and Research, the Austrian Academy of Sciences, the City of Vienna, a Research
Program of the Austrian Science Fund FWF (SFBF78 Stem Cell, F 7803-B) and a European
Research Council (ERC) Advanced Grant under the European 20 Union’s Horizon 2020
program (grant agreement no. 695642).
article_number: e108714
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Sunanjay
full_name: Bajaj, Sunanjay
last_name: Bajaj
- first_name: Joshua A.
full_name: Bagley, Joshua A.
last_name: Bagley
- 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: Abel
full_name: Vertesy, Abel
last_name: Vertesy
- first_name: Sakurako
full_name: Nagumo Wong, Sakurako
last_name: Nagumo Wong
- first_name: Veronica
full_name: Krenn, Veronica
last_name: Krenn
- first_name: Julie
full_name: Lévi-Strauss, Julie
last_name: Lévi-Strauss
- first_name: Juergen A.
full_name: Knoblich, Juergen A.
last_name: Knoblich
citation:
ama: Bajaj S, Bagley JA, Sommer CM, et al. Neurotransmitter signaling regulates
distinct phases of multimodal human interneuron migration. EMBO Journal.
2021;40(23). doi:10.15252/embj.2021108714
apa: Bajaj, S., Bagley, J. A., Sommer, C. M., Vertesy, A., Nagumo Wong, S., Krenn,
V., … Knoblich, J. A. (2021). Neurotransmitter signaling regulates distinct phases
of multimodal human interneuron migration. EMBO Journal. Embo Press. https://doi.org/10.15252/embj.2021108714
chicago: Bajaj, Sunanjay, Joshua A. Bagley, Christoph M Sommer, Abel Vertesy, Sakurako
Nagumo Wong, Veronica Krenn, Julie Lévi-Strauss, and Juergen A. Knoblich. “Neurotransmitter
Signaling Regulates Distinct Phases of Multimodal Human Interneuron Migration.”
EMBO Journal. Embo Press, 2021. https://doi.org/10.15252/embj.2021108714.
ieee: S. Bajaj et al., “Neurotransmitter signaling regulates distinct phases
of multimodal human interneuron migration,” EMBO Journal, vol. 40, no.
23. Embo Press, 2021.
ista: Bajaj S, Bagley JA, Sommer CM, Vertesy A, Nagumo Wong S, Krenn V, Lévi-Strauss
J, Knoblich JA. 2021. Neurotransmitter signaling regulates distinct phases of
multimodal human interneuron migration. EMBO Journal. 40(23), e108714.
mla: Bajaj, Sunanjay, et al. “Neurotransmitter Signaling Regulates Distinct Phases
of Multimodal Human Interneuron Migration.” EMBO Journal, vol. 40, no.
23, e108714, Embo Press, 2021, doi:10.15252/embj.2021108714.
short: S. Bajaj, J.A. Bagley, C.M. Sommer, A. Vertesy, S. Nagumo Wong, V. Krenn,
J. Lévi-Strauss, J.A. Knoblich, EMBO Journal 40 (2021).
date_created: 2021-10-24T22:01:34Z
date_published: 2021-10-18T00:00:00Z
date_updated: 2023-08-14T08:05:23Z
day: '18'
ddc:
- '610'
department:
- _id: Bio
doi: 10.15252/embj.2021108714
external_id:
isi:
- '000708012800001'
pmid:
- '34661293'
file:
- access_level: open_access
checksum: 78d2d02e775322297e774f72810a41a4
content_type: application/pdf
creator: alisjak
date_created: 2021-12-13T14:54:14Z
date_updated: 2021-12-13T14:54:14Z
file_id: '10541'
file_name: 2021_EMBO_Bajaj.pdf
file_size: 7819881
relation: main_file
success: 1
file_date_updated: 2021-12-13T14:54:14Z
fulldoi: https://doi.org/10.15252/embj.2021108714
has_accepted_license: '1'
intvolume: ' 40'
isi: 1
issue: '23'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: EMBO Journal
publication_identifier:
eissn:
- 1460-2075
issn:
- 0261-4189
publication_status: published
publisher: Embo Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Neurotransmitter signaling regulates distinct phases of multimodal human interneuron
migration
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 40
year: '2021'
...
---
_id: '10223'
abstract:
- lang: eng
text: Growth regulation tailors development in plants to their environment. A prominent
example of this is the response to gravity, in which shoots bend up and roots
bend down1. This paradox is based on opposite effects of the phytohormone auxin,
which promotes cell expansion in shoots while inhibiting it in roots via a yet
unknown cellular mechanism2. Here, by combining microfluidics, live imaging, genetic
engineering and phosphoproteomics in Arabidopsis thaliana, we advance understanding
of how auxin inhibits root growth. We show that auxin activates two distinct,
antagonistically acting signalling pathways that converge on rapid regulation
of apoplastic pH, a causative determinant of growth. Cell surface-based TRANSMEMBRANE
KINASE1 (TMK1) interacts with and mediates phosphorylation and activation of plasma
membrane H+-ATPases for apoplast acidification, while intracellular canonical
auxin signalling promotes net cellular H+ influx, causing apoplast alkalinization.
Simultaneous activation of these two counteracting mechanisms poises roots for
rapid, fine-tuned growth modulation in navigating complex soil environments.
acknowledged_ssus:
- _id: LifeSc
- _id: M-Shop
- _id: Bio
acknowledgement: We thank N. Gnyliukh and L. Hörmayer for technical assistance and
N. Paris for sharing PM-Cyto seeds. We gratefully acknowledge the Life Science,
Machine Shop and Bioimaging Facilities of IST Austria. This project has received
funding from the European Research Council Advanced Grant (ETAP-742985) and the
Austrian Science Fund (FWF) under I 3630-B25 to J.F., the National Institutes of
Health (GM067203) to W.M.G., the Netherlands Organization for Scientific Research
(NWO; VIDI-864.13.001), Research Foundation-Flanders (FWO; Odysseus II G0D0515N)
and a European Research Council Starting Grant (TORPEDO-714055) to W.S. and B.D.R.,
the VICI grant (865.14.001) from the Netherlands Organization for Scientific Research
to M.R. and D.W., the Australian Research Council and China National Distinguished
Expert Project (WQ20174400441) to S.S., the MEXT/JSPS KAKENHI to K.T. (20K06685)
and T.K. (20H05687 and 20H05910), the European Union’s Horizon 2020 research and
innovation programme under Marie Skłodowska-Curie grant agreement no. 665385 and
the DOC Fellowship of the Austrian Academy of Sciences to L.L., and the China Scholarship
Council to J.C.
article_processing_charge: No
article_type: original
author:
- first_name: Lanxin
full_name: Li, Lanxin
id: 367EF8FA-F248-11E8-B48F-1D18A9856A87
last_name: Li
orcid: 0000-0002-5607-272X
- first_name: Inge
full_name: Verstraeten, Inge
id: 362BF7FE-F248-11E8-B48F-1D18A9856A87
last_name: Verstraeten
orcid: 0000-0001-7241-2328
- first_name: Mark
full_name: Roosjen, Mark
last_name: Roosjen
- first_name: Koji
full_name: Takahashi, Koji
last_name: Takahashi
- first_name: Lesia
full_name: Rodriguez Solovey, Lesia
id: 3922B506-F248-11E8-B48F-1D18A9856A87
last_name: Rodriguez Solovey
orcid: 0000-0002-7244-7237
- first_name: Jack
full_name: Merrin, Jack
id: 4515C308-F248-11E8-B48F-1D18A9856A87
last_name: Merrin
orcid: 0000-0001-5145-4609
- first_name: Jian
full_name: Chen, Jian
last_name: Chen
- first_name: Lana
full_name: Shabala, Lana
last_name: Shabala
- first_name: Wouter
full_name: Smet, Wouter
last_name: Smet
- first_name: Hong
full_name: Ren, Hong
last_name: Ren
- first_name: Steffen
full_name: Vanneste, Steffen
last_name: Vanneste
- first_name: Sergey
full_name: Shabala, Sergey
last_name: Shabala
- first_name: Bert
full_name: De Rybel, Bert
last_name: De Rybel
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Toshinori
full_name: Kinoshita, Toshinori
last_name: Kinoshita
- first_name: William M.
full_name: Gray, William M.
last_name: Gray
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Li L, Verstraeten I, Roosjen M, et al. Cell surface and intracellular auxin
signalling for H+ fluxes in root growth. Nature. 2021;599(7884):273-277.
doi:10.1038/s41586-021-04037-6
apa: Li, L., Verstraeten, I., Roosjen, M., Takahashi, K., Rodriguez Solovey, L.,
Merrin, J., … Friml, J. (2021). Cell surface and intracellular auxin signalling
for H+ fluxes in root growth. Nature. Springer Nature. https://doi.org/10.1038/s41586-021-04037-6
chicago: Li, Lanxin, Inge Verstraeten, Mark Roosjen, Koji Takahashi, Lesia Rodriguez
Solovey, Jack Merrin, Jian Chen, et al. “Cell Surface and Intracellular Auxin
Signalling for H+ Fluxes in Root Growth.” Nature. Springer Nature,
2021. https://doi.org/10.1038/s41586-021-04037-6.
ieee: L. Li et al., “Cell surface and intracellular auxin signalling for
H+ fluxes in root growth,” Nature, vol. 599, no. 7884. Springer
Nature, pp. 273–277, 2021.
ista: Li L, Verstraeten I, Roosjen M, Takahashi K, Rodriguez Solovey L, Merrin J,
Chen J, Shabala L, Smet W, Ren H, Vanneste S, Shabala S, De Rybel B, Weijers D,
Kinoshita T, Gray WM, Friml J. 2021. Cell surface and intracellular auxin signalling
for H+ fluxes in root growth. Nature. 599(7884), 273–277.
mla: Li, Lanxin, et al. “Cell Surface and Intracellular Auxin Signalling for H+
Fluxes in Root Growth.” Nature, vol. 599, no. 7884, Springer Nature, 2021,
pp. 273–77, doi:10.1038/s41586-021-04037-6.
short: L. Li, I. Verstraeten, M. Roosjen, K. Takahashi, L. Rodriguez Solovey, J.
Merrin, J. Chen, L. Shabala, W. Smet, H. Ren, S. Vanneste, S. Shabala, B. De Rybel,
D. Weijers, T. Kinoshita, W.M. Gray, J. Friml, Nature 599 (2021) 273–277.
corr_author: '1'
date_created: 2021-11-07T23:01:25Z
date_published: 2021-11-11T00:00:00Z
date_updated: 2025-07-10T11:49:46Z
day: '11'
department:
- _id: JiFr
- _id: NanoFab
doi: 10.1038/s41586-021-04037-6
ec_funded: 1
external_id:
isi:
- '000713338100006'
pmid:
- '34707283'
fulldoi: https://doi.org/10.1038/s41586-021-04037-6
intvolume: ' 599'
isi: 1
issue: '7884'
keyword:
- Multidisciplinary
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.doi.org/10.21203/rs.3.rs-266395/v3
month: '11'
oa: 1
oa_version: Preprint
page: 273-277
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 26538374-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I03630
name: Molecular mechanisms of endocytic cargo recognition in plants
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: 26B4D67E-B435-11E9-9278-68D0E5697425
grant_number: '25351'
name: 'A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated
Rapid Growth Inhibition in Arabidopsis Root'
publication: Nature
publication_identifier:
eissn:
- 1476-4687
issn:
- 0028-0836
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: News on IST Webpage
relation: press_release
url: https://ist.ac.at/en/news/stop-and-grow/
record:
- id: '10095'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Cell surface and intracellular auxin signalling for H+ fluxes in
root growth
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 599
year: '2021'
...
---
_id: '10283'
abstract:
- lang: eng
text: 'During the past decade, the scientific community and outside observers have
noted a concerning lack of rigor and transparency in preclinical research that
led to talk of a “reproducibility crisis” in the life sciences (Baker, 2016; Bespalov
& Steckler, 2018; Heddleston et al, 2021). Various measures have been proposed
to address the problem: from better training of scientists to more oversight to
expanded publishing practices such as preregistration of studies. The recently
published EQIPD (Enhancing Quality in Preclinical Data) System is, to date, the
largest initiative that aims to establish a systematic approach for increasing
the robustness and reliability of biomedical research (Bespalov et al, 2021).
However, promoting a cultural change in research practices warrants a broad adoption
of the Quality System and its underlying philosophy. It is here that academic
Core Facilities (CF), research service providers at universities and research
institutions, can make a difference. It is fair to assume that a significant fraction
of published data originated from experiments that were designed, run, or analyzed
in CFs. These academic services play an important role in the research ecosystem
by offering access to cutting-edge equipment and by developing and testing novel
techniques and methods that impact research in the academic and private sectors
alike (Bikovski et al, 2020). Equipment and infrastructure are not the only value:
CFs employ competent personnel with profound knowledge and practical experience
of the specific field of interest: animal behavior, imaging, crystallography,
genomics, and so on. Thus, CFs are optimally positioned to address concerns about
the quality and robustness of preclinical research.'
acknowledgement: This EQIPD project has received funding from the Innovative Medicines
Initiative 2 Joint Undertaking under grant agreement no. 777364. This Joint Undertaking
receives support from the European Union’s Horizon 2020 research and innovation
program and EFPIA. LR was supported by the Faculty of Biology and Medicine, University
of Lausanne. VV was supported by Biocenter Finland and the Jane and Aatos Erkko
Foundation. CP and IKB received funding from the Federal Ministry of Education and
Research (BMBF, grant 01PW18001). SB from the Vienna BioCenter Core Facilities (VBCF)
Preclinical Phenotyping Facility acknowledges funding from the Austrian Federal
Ministry of Education, Science & Research; and the City of Vienna. MT is an incumbent
of the Carolito Stiftung Research Fellow Chair in Neurodegenerative Diseases. We
thank Dr. Katja Kivinen (Helsinki Institute of Life Science) for discussions and
feedback.
article_number: e53824
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Leonardo
full_name: Restivo, Leonardo
last_name: Restivo
- first_name: Björn
full_name: Gerlach, Björn
last_name: Gerlach
- first_name: Michael
full_name: Tsoory, Michael
last_name: Tsoory
- first_name: Lior
full_name: Bikovski, Lior
last_name: Bikovski
- first_name: Sylvia
full_name: Badurek, Sylvia
last_name: Badurek
- first_name: Claudia
full_name: Pitzer, Claudia
last_name: Pitzer
- first_name: Isabelle C.
full_name: Kos-Braun, Isabelle C.
last_name: Kos-Braun
- first_name: Anne Laure Mj
full_name: Mausset-Bonnefont, Anne Laure Mj
last_name: Mausset-Bonnefont
- first_name: Jonathan
full_name: Ward, Jonathan
last_name: Ward
- first_name: Michael
full_name: Schunn, Michael
id: 4272DB4A-F248-11E8-B48F-1D18A9856A87
last_name: Schunn
orcid: 0000-0003-4326-5300
- first_name: Lucas P.J.J.
full_name: Noldus, Lucas P.J.J.
last_name: Noldus
- first_name: Anton
full_name: Bespalov, Anton
last_name: Bespalov
- first_name: Vootele
full_name: Voikar, Vootele
last_name: Voikar
citation:
ama: 'Restivo L, Gerlach B, Tsoory M, et al. Towards best practices in research:
Role of academic core facilities. EMBO Reports. 2021;22. doi:10.15252/embr.202153824'
apa: 'Restivo, L., Gerlach, B., Tsoory, M., Bikovski, L., Badurek, S., Pitzer, C.,
… Voikar, V. (2021). Towards best practices in research: Role of academic core
facilities. EMBO Reports. EMBO Press. https://doi.org/10.15252/embr.202153824'
chicago: 'Restivo, Leonardo, Björn Gerlach, Michael Tsoory, Lior Bikovski, Sylvia
Badurek, Claudia Pitzer, Isabelle C. Kos-Braun, et al. “Towards Best Practices
in Research: Role of Academic Core Facilities.” EMBO Reports. EMBO Press,
2021. https://doi.org/10.15252/embr.202153824.'
ieee: 'L. Restivo et al., “Towards best practices in research: Role of academic
core facilities,” EMBO Reports, vol. 22. EMBO Press, 2021.'
ista: 'Restivo L, Gerlach B, Tsoory M, Bikovski L, Badurek S, Pitzer C, Kos-Braun
IC, Mausset-Bonnefont ALM, Ward J, Schunn M, Noldus LPJJ, Bespalov A, Voikar V.
2021. Towards best practices in research: Role of academic core facilities. EMBO
Reports. 22, e53824.'
mla: 'Restivo, Leonardo, et al. “Towards Best Practices in Research: Role of Academic
Core Facilities.” EMBO Reports, vol. 22, e53824, EMBO Press, 2021, doi:10.15252/embr.202153824.'
short: L. Restivo, B. Gerlach, M. Tsoory, L. Bikovski, S. Badurek, C. Pitzer, I.C.
Kos-Braun, A.L.M. Mausset-Bonnefont, J. Ward, M. Schunn, L.P.J.J. Noldus, A. Bespalov,
V. Voikar, EMBO Reports 22 (2021).
date_created: 2021-11-14T23:01:24Z
date_published: 2021-11-04T00:00:00Z
date_updated: 2023-08-14T11:47:35Z
day: '04'
ddc:
- '570'
department:
- _id: PreCl
doi: 10.15252/embr.202153824
external_id:
isi:
- '000714350000001'
file:
- access_level: open_access
checksum: 74743baa6ef431ef60c3de3bc4da045a
content_type: application/pdf
creator: dernst
date_created: 2022-05-16T07:07:41Z
date_updated: 2022-05-16T07:07:41Z
file_id: '11381'
file_name: 2021_EmboReports_Restivo.pdf
file_size: 488583
relation: main_file
success: 1
file_date_updated: 2022-05-16T07:07:41Z
fulldoi: https://doi.org/10.15252/embr.202153824
has_accepted_license: '1'
intvolume: ' 22'
isi: 1
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
publication: EMBO Reports
publication_identifier:
eissn:
- 1469-3178
issn:
- 1469-221X
publication_status: published
publisher: EMBO Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Towards best practices in research: Role of academic core facilities'
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: 22
year: '2021'
...
---
_id: '10607'
abstract:
- lang: eng
text: The evidence linking innate immunity mechanisms and neurodegenerative diseases
is growing, but the specific mechanisms are incompletely understood. Experimental
data suggest that microglial TLR4 mediates the uptake and clearance of α-synuclein
also termed synucleinophagy. The accumulation of misfolded α-synuclein throughout
the brain is central to Parkinson's disease (PD). The distribution and progression
of the pathology is often attributed to the propagation of α-synuclein. Here,
we apply a classical α-synuclein propagation model of prodromal PD in wild type
and TLR4 deficient mice to study the role of TLR4 in the progression of the disease.
Our data suggest that TLR4 deficiency facilitates the α-synuclein seed spreading
associated with reduced lysosomal activity of microglia. Three months after seed
inoculation, more pronounced proteinase K-resistant α-synuclein inclusion pathology
is observed in mice with TLR4 deficiency. The facilitated propagation of α-synuclein
is associated with early loss of dopamine transporter (DAT) signal in the striatum
and loss of dopaminergic neurons in substantia nigra pars compacta of TLR4 deficient
mice. These new results support TLR4 signaling as a putative target for disease
modification to slow the progression of PD and related disorders.
acknowledgement: This study was supported by grants of the Austrian Science Fund (FWF)
F4414 and W1206-08. Electron microscopy was performed at the Scientific Service
Units (SSU) of IST-Austria through resources provided by the Electron Microscopy
Facility.
article_processing_charge: No
article_type: original
author:
- first_name: Serena
full_name: Venezia, Serena
last_name: Venezia
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Gregor K.
full_name: Wenning, Gregor K.
last_name: Wenning
- first_name: Nadia
full_name: Stefanova, Nadia
last_name: Stefanova
citation:
ama: Venezia S, Kaufmann W, Wenning GK, Stefanova N. Toll-like receptor 4 deficiency
facilitates α-synuclein propagation and neurodegeneration in a mouse model of
prodromal Parkinson’s disease. Parkinsonism & Related Disorders. 2021;91:59-65.
doi:10.1016/j.parkreldis.2021.09.007
apa: Venezia, S., Kaufmann, W., Wenning, G. K., & Stefanova, N. (2021). Toll-like
receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration
in a mouse model of prodromal Parkinson’s disease. Parkinsonism & Related
Disorders. Elsevier. https://doi.org/10.1016/j.parkreldis.2021.09.007
chicago: Venezia, Serena, Walter Kaufmann, Gregor K. Wenning, and Nadia Stefanova.
“Toll-like Receptor 4 Deficiency Facilitates α-Synuclein Propagation and Neurodegeneration
in a Mouse Model of Prodromal Parkinson’s Disease.” Parkinsonism & Related
Disorders. Elsevier, 2021. https://doi.org/10.1016/j.parkreldis.2021.09.007.
ieee: S. Venezia, W. Kaufmann, G. K. Wenning, and N. Stefanova, “Toll-like receptor
4 deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse
model of prodromal Parkinson’s disease,” Parkinsonism & Related Disorders,
vol. 91. Elsevier, pp. 59–65, 2021.
ista: Venezia S, Kaufmann W, Wenning GK, Stefanova N. 2021. Toll-like receptor 4
deficiency facilitates α-synuclein propagation and neurodegeneration in a mouse
model of prodromal Parkinson’s disease. Parkinsonism & Related Disorders.
91, 59–65.
mla: Venezia, Serena, et al. “Toll-like Receptor 4 Deficiency Facilitates α-Synuclein
Propagation and Neurodegeneration in a Mouse Model of Prodromal Parkinson’s Disease.”
Parkinsonism & Related Disorders, vol. 91, Elsevier, 2021, pp. 59–65,
doi:10.1016/j.parkreldis.2021.09.007.
short: S. Venezia, W. Kaufmann, G.K. Wenning, N. Stefanova, Parkinsonism & Related
Disorders 91 (2021) 59–65.
date_created: 2022-01-09T23:01:26Z
date_published: 2021-10-01T00:00:00Z
date_updated: 2023-08-17T06:36:01Z
day: '01'
ddc:
- '610'
department:
- _id: EM-Fac
doi: 10.1016/j.parkreldis.2021.09.007
external_id:
isi:
- '000701142900012'
pmid:
- '34530328'
file:
- access_level: open_access
checksum: 360681585acb51e80d17c6b213c56b55
content_type: application/pdf
creator: alisjak
date_created: 2022-01-10T13:41:40Z
date_updated: 2022-01-10T13:41:40Z
file_id: '10612'
file_name: 2021_Parkinsonism_Venezia.pdf
file_size: 6848513
relation: main_file
success: 1
file_date_updated: 2022-01-10T13:41:40Z
fulldoi: https://doi.org/10.1016/j.parkreldis.2021.09.007
has_accepted_license: '1'
intvolume: ' 91'
isi: 1
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 59-65
pmid: 1
publication: Parkinsonism & Related Disorders
publication_identifier:
eissn:
- 1873-5126
issn:
- 1353-8020
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Toll-like receptor 4 deficiency facilitates α-synuclein propagation and neurodegeneration
in a mouse model of prodromal Parkinson's disease
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: 91
year: '2021'
...
---
_id: '8582'
abstract:
- lang: eng
text: "Cell and tissue polarization is fundamental for plant growth and morphogenesis.
The polar, cellular localization of Arabidopsis PIN‐FORMED (PIN) proteins is crucial
for their function in directional auxin transport. The clustering of PIN polar
cargoes within the plasma membrane has been proposed to be important for the maintenance
of their polar distribution. However, the more detailed features of PIN clusters
and the cellular requirements of cargo clustering remain unclear.\r\nHere, we
characterized PIN clusters in detail by means of multiple advanced microscopy
and quantification methods, such as 3D quantitative imaging or freeze‐fracture
replica labeling. The size and aggregation types of PIN clusters were determined
by electron microscopy at the nanometer level at different polar domains and at
different developmental stages, revealing a strong preference for clustering at
the polar domains.\r\nPharmacological and genetic studies revealed that PIN clusters
depend on phosphoinositol pathways, cytoskeletal structures and specific cell‐wall
components as well as connections between the cell wall and the plasma membrane.\r\nThis
study identifies the role of different cellular processes and structures in polar
cargo clustering and provides initial mechanistic insight into the maintenance
of polarity in plants and other systems."
acknowledged_ssus:
- _id: Bio
acknowledgement: We thank Dr Ingo Heilmann (Martin‐Luther‐University Halle‐Wittenberg)
for the XVE>>PIP5K1‐YFP line, Dr Brad Day (Michigan State University) for the ndr1‐1
mutant and the complementation lines, and Dr Patricia C. Zambryski (University of
California, Berkeley) for the 35S::P30‐GFP line, the Bioimaging team (IST Austria)
for assistance with imaging, group members for discussions, Martine De Cock for
help in preparing the manuscript and Nataliia Gnyliukh for critical reading and
revision of the manuscript. This project received funding from the European Research
Council (ERC) under the European Union's Horizon 2020 research and innovation program
(grant agreement No. 742985) and Comisión Nacional de Investigación Científica y
Tecnológica (Project CONICYT‐PAI 82130047). DvW received funding from the People
Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme
(FP7/2007‐2013) under REA grant agreement no. 291734.
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Hongjiang
full_name: Li, Hongjiang
id: 33CA54A6-F248-11E8-B48F-1D18A9856A87
last_name: Li
orcid: 0000-0001-5039-9660
- first_name: Daniel
full_name: von Wangenheim, Daniel
id: 49E91952-F248-11E8-B48F-1D18A9856A87
last_name: von Wangenheim
orcid: 0000-0002-6862-1247
- first_name: Xixi
full_name: Zhang, Xixi
id: 61A66458-47E9-11EA-85BA-8AEAAF14E49A
last_name: Zhang
orcid: 0000-0001-7048-4627
- first_name: Shutang
full_name: Tan, Shutang
id: 2DE75584-F248-11E8-B48F-1D18A9856A87
last_name: Tan
orcid: 0000-0002-0471-8285
- first_name: Nasser
full_name: Darwish-Miranda, Nasser
id: 39CD9926-F248-11E8-B48F-1D18A9856A87
last_name: Darwish-Miranda
orcid: 0000-0002-8821-8236
- first_name: Satoshi
full_name: Naramoto, Satoshi
last_name: Naramoto
- first_name: Krzysztof T
full_name: Wabnik, Krzysztof T
id: 4DE369A4-F248-11E8-B48F-1D18A9856A87
last_name: Wabnik
orcid: 0000-0001-7263-0560
- first_name: Riet
full_name: de Rycke, Riet
last_name: de Rycke
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Daniel J
full_name: Gütl, Daniel J
id: 381929CE-F248-11E8-B48F-1D18A9856A87
last_name: Gütl
- first_name: Ricardo
full_name: Tejos, Ricardo
last_name: Tejos
- first_name: Peter
full_name: Grones, Peter
id: 399876EC-F248-11E8-B48F-1D18A9856A87
last_name: Grones
- first_name: Meiyu
full_name: Ke, Meiyu
last_name: Ke
- first_name: Xu
full_name: Chen, Xu
id: 4E5ADCAA-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Jan
full_name: Dettmer, Jan
last_name: Dettmer
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Li H, von Wangenheim D, Zhang X, et al. Cellular requirements for PIN polar
cargo clustering in Arabidopsis thaliana. New Phytologist. 2021;229(1):351-369.
doi:10.1111/nph.16887
apa: Li, H., von Wangenheim, D., Zhang, X., Tan, S., Darwish-Miranda, N., Naramoto,
S., … Friml, J. (2021). Cellular requirements for PIN polar cargo clustering in
Arabidopsis thaliana. New Phytologist. Wiley. https://doi.org/10.1111/nph.16887
chicago: Li, Hongjiang, Daniel von Wangenheim, Xixi Zhang, Shutang Tan, Nasser Darwish-Miranda,
Satoshi Naramoto, Krzysztof T Wabnik, et al. “Cellular Requirements for PIN Polar
Cargo Clustering in Arabidopsis Thaliana.” New Phytologist. Wiley, 2021.
https://doi.org/10.1111/nph.16887.
ieee: H. Li et al., “Cellular requirements for PIN polar cargo clustering
in Arabidopsis thaliana,” New Phytologist, vol. 229, no. 1. Wiley, pp.
351–369, 2021.
ista: Li H, von Wangenheim D, Zhang X, Tan S, Darwish-Miranda N, Naramoto S, Wabnik
KT, de Rycke R, Kaufmann W, Gütl DJ, Tejos R, Grones P, Ke M, Chen X, Dettmer
J, Friml J. 2021. Cellular requirements for PIN polar cargo clustering in Arabidopsis
thaliana. New Phytologist. 229(1), 351–369.
mla: Li, Hongjiang, et al. “Cellular Requirements for PIN Polar Cargo Clustering
in Arabidopsis Thaliana.” New Phytologist, vol. 229, no. 1, Wiley, 2021,
pp. 351–69, doi:10.1111/nph.16887.
short: H. Li, D. von Wangenheim, X. Zhang, S. Tan, N. Darwish-Miranda, S. Naramoto,
K.T. Wabnik, R. de Rycke, W. Kaufmann, D.J. Gütl, R. Tejos, P. Grones, M. Ke,
X. Chen, J. Dettmer, J. Friml, New Phytologist 229 (2021) 351–369.
date_created: 2020-09-28T08:59:28Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2025-06-12T06:32:24Z
day: '01'
ddc:
- '580'
department:
- _id: JiFr
- _id: EM-Fac
- _id: Bio
- _id: EvBe
doi: 10.1111/nph.16887
ec_funded: 1
external_id:
isi:
- '000570187900001'
pmid:
- '32810889'
file:
- access_level: open_access
checksum: b45621607b4cab97eeb1605ab58e896e
content_type: application/pdf
creator: dernst
date_created: 2021-02-04T09:44:17Z
date_updated: 2021-02-04T09:44:17Z
file_id: '9084'
file_name: 2021_NewPhytologist_Li.pdf
file_size: 4061962
relation: main_file
success: 1
file_date_updated: 2021-02-04T09:44:17Z
fulldoi: https://doi.org/10.1111/nph.16887
has_accepted_license: '1'
intvolume: ' 229'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 351-369
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: New Phytologist
publication_identifier:
eissn:
- 1469-8137
issn:
- 0028-646X
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 229
year: '2021'
...
---
_id: '8910'
abstract:
- lang: eng
text: A semiconducting nanowire fully wrapped by a superconducting shell has been
proposed as a platform for obtaining Majorana modes at small magnetic fields.
In this study, we demonstrate that the appearance of subgap states in such structures
is actually governed by the junction region in tunneling spectroscopy measurements
and not the full-shell nanowire itself. Short tunneling regions never show subgap
states, whereas longer junctions always do. This can be understood in terms of
quantum dots forming in the junction and hosting Andreev levels in the Yu-Shiba-Rusinov
regime. The intricate magnetic field dependence of the Andreev levels, through
both the Zeeman and Little-Parks effects, may result in robust zero-bias peaks—features
that could be easily misinterpreted as originating from Majorana zero modes but
are unrelated to topological superconductivity.
acknowledged_ssus:
- _id: M-Shop
- _id: NanoFab
acknowledgement: The authors thank A. Higginbotham, E. J. H. Lee and F. R. Martins
for helpful discussions. This research was supported by the Scientific Service Units
of IST Austria through resources provided by the MIBA Machine Shop and the nanofabrication
facility; the NOMIS Foundation and Microsoft; the European Union’s Horizon 2020
research and innovation program under the Marie SklodowskaCurie grant agreement
No 844511; the FETOPEN Grant Agreement No. 828948; the European Research Commission
through the grant agreement HEMs-DAM No 716655; the Spanish Ministry of Science
and Innovation through Grants PGC2018-097018-B-I00, PCI2018-093026, FIS2016-80434-P
(AEI/FEDER, EU), RYC2011-09345 (Ram´on y Cajal Programme), and the Mar´ıa de Maeztu
Programme for Units of Excellence in R&D (CEX2018-000805-M); the CSIC Research Platform
on Quantum Technologies PTI-001.
article_number: 82-88
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Marco
full_name: Valentini, Marco
id: C0BB2FAC-D767-11E9-B658-BC13E6697425
last_name: Valentini
- first_name: Fernando
full_name: Peñaranda, Fernando
last_name: Peñaranda
- first_name: Andrea C
full_name: Hofmann, Andrea C
id: 340F461A-F248-11E8-B48F-1D18A9856A87
last_name: Hofmann
- first_name: Matthias
full_name: Brauns, Matthias
id: 33F94E3C-F248-11E8-B48F-1D18A9856A87
last_name: Brauns
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Peter
full_name: Krogstrup, Peter
last_name: Krogstrup
- first_name: Pablo
full_name: San-Jose, Pablo
last_name: San-Jose
- first_name: Elsa
full_name: Prada, Elsa
last_name: Prada
- first_name: Ramón
full_name: Aguado, Ramón
last_name: Aguado
- first_name: Georgios
full_name: Katsaros, Georgios
id: 38DB5788-F248-11E8-B48F-1D18A9856A87
last_name: Katsaros
orcid: 0000-0001-8342-202X
citation:
ama: Valentini M, Peñaranda F, Hofmann AC, et al. Nontopological zero-bias peaks
in full-shell nanowires induced by flux-tunable Andreev states. Science.
2021;373(6550). doi:10.1126/science.abf1513
apa: Valentini, M., Peñaranda, F., Hofmann, A. C., Brauns, M., Hauschild, R., Krogstrup,
P., … Katsaros, G. (2021). Nontopological zero-bias peaks in full-shell nanowires
induced by flux-tunable Andreev states. Science. American Association for
the Advancement of Science. https://doi.org/10.1126/science.abf1513
chicago: Valentini, Marco, Fernando Peñaranda, Andrea C Hofmann, Matthias Brauns,
Robert Hauschild, Peter Krogstrup, Pablo San-Jose, Elsa Prada, Ramón Aguado, and
Georgios Katsaros. “Nontopological Zero-Bias Peaks in Full-Shell Nanowires Induced
by Flux-Tunable Andreev States.” Science. American Association for the
Advancement of Science, 2021. https://doi.org/10.1126/science.abf1513.
ieee: M. Valentini et al., “Nontopological zero-bias peaks in full-shell
nanowires induced by flux-tunable Andreev states,” Science, vol. 373, no.
6550. American Association for the Advancement of Science, 2021.
ista: Valentini M, Peñaranda F, Hofmann AC, Brauns M, Hauschild R, Krogstrup P,
San-Jose P, Prada E, Aguado R, Katsaros G. 2021. Nontopological zero-bias peaks
in full-shell nanowires induced by flux-tunable Andreev states. Science. 373(6550),
82–88.
mla: Valentini, Marco, et al. “Nontopological Zero-Bias Peaks in Full-Shell Nanowires
Induced by Flux-Tunable Andreev States.” Science, vol. 373, no. 6550, 82–88,
American Association for the Advancement of Science, 2021, doi:10.1126/science.abf1513.
short: M. Valentini, F. Peñaranda, A.C. Hofmann, M. Brauns, R. Hauschild, P. Krogstrup,
P. San-Jose, E. Prada, R. Aguado, G. Katsaros, Science 373 (2021).
date_created: 2020-12-02T10:51:52Z
date_published: 2021-07-02T00:00:00Z
date_updated: 2026-04-07T13:27:22Z
day: '02'
department:
- _id: GeKa
- _id: Bio
doi: 10.1126/science.abf1513
ec_funded: 1
external_id:
arxiv:
- '2008.02348'
isi:
- '000677843100034'
pmid:
- '34210881'
fulldoi: https://doi.org/10.1126/science.abf1513
intvolume: ' 373'
isi: 1
issue: '6550'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/2008.02348
month: '07'
oa: 1
oa_version: Submitted Version
pmid: 1
project:
- _id: 262116AA-B435-11E9-9278-68D0E5697425
name: Hybrid Semiconductor - Superconductor Quantum Devices
- _id: 26A151DA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '844511'
name: Majorana bound states in Ge/SiGe heterostructures
publication: Science
publication_identifier:
eissn:
- 1095-9203
issn:
- 0036-8075
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/unfinding-a-split-electron/
record:
- id: '9389'
relation: research_data
status: public
- id: '13286'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Nontopological zero-bias peaks in full-shell nanowires induced by flux-tunable
Andreev states
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 373
year: '2021'
...
---
_id: '8927'
abstract:
- lang: eng
text: The recent outbreak of coronavirus disease 2019 (COVID‐19), caused by the
Severe Acute Respiratory Syndrome Coronavirus‐2 (SARS‐CoV‐2) has resulted in a
world‐wide pandemic. Disseminated lung injury with the development of acute respiratory
distress syndrome (ARDS) is the main cause of mortality in COVID‐19. Although
liver failure does not seem to occur in the absence of pre‐existing liver disease,
hepatic involvement in COVID‐19 may correlate with overall disease severity and
serve as a prognostic factor for the development of ARDS. The spectrum of liver
injury in COVID‐19 may range from direct infection by SARS‐CoV‐2, indirect involvement
by systemic inflammation, hypoxic changes, iatrogenic causes such as drugs and
ventilation to exacerbation of underlying liver disease. This concise review discusses
the potential pathophysiological mechanisms for SARS‐CoV‐2 hepatic tropism as
well as acute and possibly long‐term liver injury in COVID‐19.
acknowledgement: This work was supported by grant F7310‐B21 from the Austrian Science
Foundation (to MT). We thank Jelena Remetic, Claudia D. Fuchs, Veronika Mlitz and
Daniel Steinacher, for their valuable input and discussion. Figure 1 and Figure
2 have been created with BioRender.com.
article_processing_charge: No
article_type: original
author:
- first_name: Alexander D.
full_name: Nardo, Alexander D.
last_name: Nardo
- first_name: Mathias
full_name: Schneeweiss-Gleixner, Mathias
last_name: Schneeweiss-Gleixner
- first_name: May M
full_name: Bakail, May M
id: FB3C3F8E-522F-11EA-B186-22963DDC885E
last_name: Bakail
orcid: 0000-0002-9592-1587
- first_name: Emmanuel D.
full_name: Dixon, Emmanuel D.
last_name: Dixon
- first_name: Sigurd F.
full_name: Lax, Sigurd F.
last_name: Lax
- first_name: Michael
full_name: Trauner, Michael
last_name: Trauner
citation:
ama: Nardo AD, Schneeweiss-Gleixner M, Bakail MM, Dixon ED, Lax SF, Trauner M. Pathophysiological
mechanisms of liver injury in COVID-19. Liver International. 2021;41(1):20-32.
doi:10.1111/liv.14730
apa: Nardo, A. D., Schneeweiss-Gleixner, M., Bakail, M. M., Dixon, E. D., Lax, S.
F., & Trauner, M. (2021). Pathophysiological mechanisms of liver injury in
COVID-19. Liver International. Wiley. https://doi.org/10.1111/liv.14730
chicago: Nardo, Alexander D., Mathias Schneeweiss-Gleixner, May M Bakail, Emmanuel
D. Dixon, Sigurd F. Lax, and Michael Trauner. “Pathophysiological Mechanisms of
Liver Injury in COVID-19.” Liver International. Wiley, 2021. https://doi.org/10.1111/liv.14730.
ieee: A. D. Nardo, M. Schneeweiss-Gleixner, M. M. Bakail, E. D. Dixon, S. F. Lax,
and M. Trauner, “Pathophysiological mechanisms of liver injury in COVID-19,” Liver
International, vol. 41, no. 1. Wiley, pp. 20–32, 2021.
ista: Nardo AD, Schneeweiss-Gleixner M, Bakail MM, Dixon ED, Lax SF, Trauner M.
2021. Pathophysiological mechanisms of liver injury in COVID-19. Liver International.
41(1), 20–32.
mla: Nardo, Alexander D., et al. “Pathophysiological Mechanisms of Liver Injury
in COVID-19.” Liver International, vol. 41, no. 1, Wiley, 2021, pp. 20–32,
doi:10.1111/liv.14730.
short: A.D. Nardo, M. Schneeweiss-Gleixner, M.M. Bakail, E.D. Dixon, S.F. Lax, M.
Trauner, Liver International 41 (2021) 20–32.
date_created: 2020-12-06T23:01:16Z
date_published: 2021-01-01T00:00:00Z
date_updated: 2025-06-12T06:33:00Z
day: '01'
ddc:
- '570'
department:
- _id: CampIT
doi: 10.1111/liv.14730
external_id:
isi:
- '000594239200001'
pmid:
- '33190346'
file:
- access_level: open_access
checksum: 6e4f21b77ef22c854e016240974fc473
content_type: application/pdf
creator: dernst
date_created: 2021-02-04T12:01:45Z
date_updated: 2021-02-04T12:01:45Z
file_id: '9091'
file_name: 2021_Liver_Nardo.pdf
file_size: 930414
relation: main_file
success: 1
file_date_updated: 2021-02-04T12:01:45Z
fulldoi: https://doi.org/10.1111/liv.14730
has_accepted_license: '1'
intvolume: ' 41'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 20-32
pmid: 1
publication: Liver International
publication_identifier:
eissn:
- 1478-3231
issn:
- 1478-3223
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Pathophysiological mechanisms of liver injury in COVID-19
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 41
year: '2021'
...
---
_id: '9038'
abstract:
- lang: eng
text: 'Layered materials in which individual atomic layers are bonded by weak van
der Waals forces (vdW materials) constitute one of the most prominent platforms
for materials research. Particularly, polar vdW crystals, such as hexagonal boron
nitride (h-BN), alpha-molybdenum trioxide (α-MoO3) or alpha-vanadium pentoxide
(α-V2O5), have received significant attention in nano-optics, since they support
phonon polaritons (PhPs)―light coupled to lattice vibrations― with strong electromagnetic
confinement and low optical losses. Recently, correlative far- and near-field
studies of α-MoO3 have been demonstrated as an effective strategy to accurately
extract the permittivity of this material. Here, we use this accurately characterized
and low-loss polaritonic material to sense its local dielectric environment, namely
silica (SiO2), one of the most widespread substrates in nanotechnology. By studying
the propagation of PhPs on α-MoO3 flakes with different thicknesses laying on
SiO2 substrates via near-field microscopy (s-SNOM), we extract locally the infrared
permittivity of SiO2. Our work reveals PhPs nanoimaging as a versatile method
for the quantitative characterization of the local optical properties of dielectric
substrates, crucial for understanding and predicting the response of nanomaterials
and for the future scalability of integrated nanophotonic devices. '
acknowledgement: "P.A.-M. acknowledges financial support through JAE Intro program
from the Superior\r\nCouncil of Scientific Investigations and the Spanish Ministry
of Science and Innovation (grant number JAEINT_20_00589). G.Á.-P. and J.T.-G. acknowledge
financial support through the Severo Ochoa Program from the Government of the Principality
of Asturias (grant numbers PA-20-PF-BP19-053 and PA-18-PF-BP17-126, respectively).
J.M.-S. acknowledges financial support from the Ramón y Cajal Program of the Government
of Spain (RYC2018-026196-I) and the Spanish Ministry of Science and Innovation (State
Plan for Scientific and Technical Research and Innovation grant number PID2019-110308GA-I00).
P.A.-G. acknowledges support from the European Research Council under starting grant
no. 715496, 2DNANOPTICA and the Spanish Ministry of Science and Innovation (State
Plan for Scientific and Technical Research and Innovation grant number PID2019-111156GB-I00)."
article_number: '120'
article_processing_charge: No
article_type: original
author:
- first_name: Patricia
full_name: Aguilar-Merino, Patricia
last_name: Aguilar-Merino
- first_name: Gonzalo
full_name: Álvarez-Pérez, Gonzalo
last_name: Álvarez-Pérez
- first_name: Javier
full_name: Taboada-Gutiérrez, Javier
last_name: Taboada-Gutiérrez
- first_name: Jiahua
full_name: Duan, Jiahua
last_name: Duan
- first_name: Ivan
full_name: Prieto Gonzalez, Ivan
id: 2A307FE2-F248-11E8-B48F-1D18A9856A87
last_name: Prieto Gonzalez
orcid: 0000-0002-7370-5357
- first_name: Luis Manuel
full_name: Álvarez-Prado, Luis Manuel
last_name: Álvarez-Prado
- first_name: Alexey Y.
full_name: Nikitin, Alexey Y.
last_name: Nikitin
- first_name: Javier
full_name: Martín-Sánchez, Javier
last_name: Martín-Sánchez
- first_name: Pablo
full_name: Alonso-González, Pablo
last_name: Alonso-González
citation:
ama: Aguilar-Merino P, Álvarez-Pérez G, Taboada-Gutiérrez J, et al. Extracting the
infrared permittivity of SiO2 substrates locally by near-field imaging of phonon
polaritons in a van der Waals crystal. Nanomaterials. 2021;11(1). doi:10.3390/nano11010120
apa: Aguilar-Merino, P., Álvarez-Pérez, G., Taboada-Gutiérrez, J., Duan, J., Prieto
Gonzalez, I., Álvarez-Prado, L. M., … Alonso-González, P. (2021). Extracting the
infrared permittivity of SiO2 substrates locally by near-field imaging of phonon
polaritons in a van der Waals crystal. Nanomaterials. MDPI. https://doi.org/10.3390/nano11010120
chicago: Aguilar-Merino, Patricia, Gonzalo Álvarez-Pérez, Javier Taboada-Gutiérrez,
Jiahua Duan, Ivan Prieto Gonzalez, Luis Manuel Álvarez-Prado, Alexey Y. Nikitin,
Javier Martín-Sánchez, and Pablo Alonso-González. “Extracting the Infrared Permittivity
of SiO2 Substrates Locally by Near-Field Imaging of Phonon Polaritons in a van
Der Waals Crystal.” Nanomaterials. MDPI, 2021. https://doi.org/10.3390/nano11010120.
ieee: P. Aguilar-Merino et al., “Extracting the infrared permittivity of
SiO2 substrates locally by near-field imaging of phonon polaritons in a van der
Waals crystal,” Nanomaterials, vol. 11, no. 1. MDPI, 2021.
ista: Aguilar-Merino P, Álvarez-Pérez G, Taboada-Gutiérrez J, Duan J, Prieto Gonzalez
I, Álvarez-Prado LM, Nikitin AY, Martín-Sánchez J, Alonso-González P. 2021. Extracting
the infrared permittivity of SiO2 substrates locally by near-field imaging of
phonon polaritons in a van der Waals crystal. Nanomaterials. 11(1), 120.
mla: Aguilar-Merino, Patricia, et al. “Extracting the Infrared Permittivity of SiO2
Substrates Locally by Near-Field Imaging of Phonon Polaritons in a van Der Waals
Crystal.” Nanomaterials, vol. 11, no. 1, 120, MDPI, 2021, doi:10.3390/nano11010120.
short: P. Aguilar-Merino, G. Álvarez-Pérez, J. Taboada-Gutiérrez, J. Duan, I. Prieto
Gonzalez, L.M. Álvarez-Prado, A.Y. Nikitin, J. Martín-Sánchez, P. Alonso-González,
Nanomaterials 11 (2021).
date_created: 2021-01-24T23:01:09Z
date_published: 2021-01-07T00:00:00Z
date_updated: 2026-04-02T13:57:24Z
day: '07'
ddc:
- '620'
department:
- _id: NanoFab
doi: 10.3390/nano11010120
external_id:
isi:
- '000610636600001'
pmid:
- '33430225'
file:
- access_level: open_access
checksum: 1edc13eeda83df5cd9fff9504727b1f5
content_type: application/pdf
creator: dernst
date_created: 2021-01-25T08:02:32Z
date_updated: 2021-01-25T08:02:32Z
file_id: '9042'
file_name: 2020_Nanomaterials_Aguilar_Merino.pdf
file_size: 2730267
relation: main_file
success: 1
file_date_updated: 2021-01-25T08:02:32Z
fulldoi: https://doi.org/10.3390/nano11010120
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nanomaterials
publication_identifier:
eissn:
- 2079-4991
publication_status: published
publisher: MDPI
quality_controlled: '1'
scopus_import: '1'
status: public
title: Extracting the infrared permittivity of SiO2 substrates locally by near-field
imaging of phonon polaritons in a van der Waals crystal
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: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 11
year: '2021'
...
---
_id: '9259'
abstract:
- lang: eng
text: Gradients of chemokines and growth factors guide migrating cells and morphogenetic
processes. Migration of antigen-presenting dendritic cells from the interstitium
into the lymphatic system is dependent on chemokine CCL21, which is secreted by
endothelial cells of the lymphatic capillary, binds heparan sulfates and forms
gradients decaying into the interstitium. Despite the importance of CCL21 gradients,
and chemokine gradients in general, the mechanisms of gradient formation are unclear.
Studies on fibroblast growth factors have shown that limited diffusion is crucial
for gradient formation. Here, we used the mouse dermis as a model tissue to address
the necessity of CCL21 anchoring to lymphatic capillary heparan sulfates in the
formation of interstitial CCL21 gradients. Surprisingly, the absence of lymphatic
endothelial heparan sulfates resulted only in a modest decrease of CCL21 levels
at the lymphatic capillaries and did neither affect interstitial CCL21 gradient
shape nor dendritic cell migration toward lymphatic capillaries. Thus, heparan
sulfates at the level of the lymphatic endothelium are dispensable for the formation
of a functional CCL21 gradient.
acknowledgement: "This work was supported by Sigrid Juselius fellowship (KV), University
of Helsinki 3-year research grant (KV), Academy of Finland Research fellow funding
(315710, to KV), the European Research Council (ERC CoG 724373 to MS), and by the
Austrian Science foundation (FWF) (Y564-B12 START award to MS).\r\nTaija Mäkinen
is acknowledged for providing Prox1CreERT2 transgenic mice and Yu Yamaguchi for
providing the conditional Ext1 mouse strain."
article_number: '630002'
article_processing_charge: No
article_type: original
author:
- first_name: Kari
full_name: Vaahtomeri, Kari
id: 368EE576-F248-11E8-B48F-1D18A9856A87
last_name: Vaahtomeri
orcid: 0000-0001-7829-3518
- first_name: Christine
full_name: Moussion, Christine
id: 3356F664-F248-11E8-B48F-1D18A9856A87
last_name: Moussion
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
citation:
ama: Vaahtomeri K, Moussion C, Hauschild R, Sixt MK. Shape and function of interstitial
chemokine CCL21 gradients are independent of heparan sulfates produced by lymphatic
endothelium. Frontiers in Immunology. 2021;12. doi:10.3389/fimmu.2021.630002
apa: Vaahtomeri, K., Moussion, C., Hauschild, R., & Sixt, M. K. (2021). Shape
and function of interstitial chemokine CCL21 gradients are independent of heparan
sulfates produced by lymphatic endothelium. Frontiers in Immunology. Frontiers.
https://doi.org/10.3389/fimmu.2021.630002
chicago: Vaahtomeri, Kari, Christine Moussion, Robert Hauschild, and Michael K Sixt.
“Shape and Function of Interstitial Chemokine CCL21 Gradients Are Independent
of Heparan Sulfates Produced by Lymphatic Endothelium.” Frontiers in Immunology.
Frontiers, 2021. https://doi.org/10.3389/fimmu.2021.630002.
ieee: K. Vaahtomeri, C. Moussion, R. Hauschild, and M. K. Sixt, “Shape and function
of interstitial chemokine CCL21 gradients are independent of heparan sulfates
produced by lymphatic endothelium,” Frontiers in Immunology, vol. 12. Frontiers,
2021.
ista: Vaahtomeri K, Moussion C, Hauschild R, Sixt MK. 2021. Shape and function of
interstitial chemokine CCL21 gradients are independent of heparan sulfates produced
by lymphatic endothelium. Frontiers in Immunology. 12, 630002.
mla: Vaahtomeri, Kari, et al. “Shape and Function of Interstitial Chemokine CCL21
Gradients Are Independent of Heparan Sulfates Produced by Lymphatic Endothelium.”
Frontiers in Immunology, vol. 12, 630002, Frontiers, 2021, doi:10.3389/fimmu.2021.630002.
short: K. Vaahtomeri, C. Moussion, R. Hauschild, M.K. Sixt, Frontiers in Immunology
12 (2021).
corr_author: '1'
date_created: 2021-03-21T23:01:20Z
date_published: 2021-02-25T00:00:00Z
date_updated: 2025-04-14T07:42:07Z
day: '25'
ddc:
- '570'
department:
- _id: MiSi
- _id: Bio
doi: 10.3389/fimmu.2021.630002
ec_funded: 1
external_id:
isi:
- '000627134400001'
pmid:
- '33717158'
file:
- access_level: open_access
checksum: 663f5a48375e42afa4bfef58d42ec186
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T12:08:26Z
date_updated: 2021-03-22T12:08:26Z
file_id: '9277'
file_name: 2021_FrontiersImmumo_Vaahtomeri.pdf
file_size: 3740146
relation: main_file
success: 1
file_date_updated: 2021-03-22T12:08:26Z
fulldoi: https://doi.org/10.3389/fimmu.2021.630002
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
- _id: 25A8E5EA-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Y 564-B12
name: Cytoskeletal force generation and force transduction of migrating leukocytes
publication: Frontiers in Immunology
publication_identifier:
eissn:
- 1664-3224
publication_status: published
publisher: Frontiers
quality_controlled: '1'
scopus_import: '1'
status: public
title: Shape and function of interstitial chemokine CCL21 gradients are independent
of heparan sulfates produced by lymphatic endothelium
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 12
year: '2021'
...
---
_id: '9262'
abstract:
- lang: eng
text: Sequence-specific oligomers with predictable folding patterns, i.e., foldamers,
provide new opportunities to mimic α-helical peptides and design inhibitors of
protein-protein interactions. One major hurdle of this strategy is to retain the
correct orientation of key side chains involved in protein surface recognition.
Here, we show that the structural plasticity of a foldamer backbone may notably
contribute to the required spatial adjustment for optimal interaction with the
protein surface. By using oligoureas as α helix mimics, we designed a foldamer/peptide
hybrid inhibitor of histone chaperone ASF1, a key regulator of chromatin dynamics.
The crystal structure of its complex with ASF1 reveals a notable plasticity of
the urea backbone, which adapts to the ASF1 surface to maintain the same binding
interface. One additional benefit of generating ASF1 ligands with nonpeptide oligourea
segments is the resistance to proteolysis in human plasma, which was highly improved
compared to the cognate α-helical peptide.
acknowledgement: 'We thank the Synchrotron SOLEIL, the European Synchrotron Radiation
Facility (ESRF), and the French Infrastructure for Integrated Structural Biology
(FRISBI) ANR-10-INBS-05. We are particularly grateful to A. Clavier and A. Campalans
for help in setting up and performing the cell penetration assays. Funding: Research
was funded by the French Centre National de Recherche Scientifique (CNRS), the Commissariat
à l’Energie Atomique (CEA), University of Bordeaux, University Paris-Saclay, and
the Synchrotron Soleil. The project was supported by the ANR 2007 BREAKABOUND (JC-07-216078),
2011 BIPBIP (ANR-10-BINF-0003), 2012 CHAPINHIB (ANR-12-BSV5-0022-01), 2015 CHIPSET
(ANR-15-CE11-008-01), 2015 HIMPP2I (ANR-15-CE07-0010), and the program labeled by
the ARC foundation 2016 PGA1*20160203953). M.B. was supported by Canceropole (Paris,
France) and a grant for young researchers from La Ligue contre le Cancer. J.M. was
supported by La Ligue contre le Cancer.'
article_number: eabd9153
article_processing_charge: No
article_type: original
author:
- first_name: Johanne
full_name: Mbianda, Johanne
last_name: Mbianda
- first_name: May M
full_name: Bakail, May M
id: FB3C3F8E-522F-11EA-B186-22963DDC885E
last_name: Bakail
orcid: 0000-0002-9592-1587
- first_name: Christophe
full_name: André, Christophe
last_name: André
- first_name: Gwenaëlle
full_name: Moal, Gwenaëlle
last_name: Moal
- first_name: Marie E.
full_name: Perrin, Marie E.
last_name: Perrin
- first_name: Guillaume
full_name: Pinna, Guillaume
last_name: Pinna
- first_name: Raphaël
full_name: Guerois, Raphaël
last_name: Guerois
- first_name: Francois
full_name: Becher, Francois
last_name: Becher
- first_name: Pierre
full_name: Legrand, Pierre
last_name: Legrand
- first_name: Seydou
full_name: Traoré, Seydou
last_name: Traoré
- first_name: Céline
full_name: Douat, Céline
last_name: Douat
- first_name: Gilles
full_name: Guichard, Gilles
last_name: Guichard
- first_name: Françoise
full_name: Ochsenbein, Françoise
last_name: Ochsenbein
citation:
ama: Mbianda J, Bakail MM, André C, et al. Optimal anchoring of a foldamer inhibitor
of ASF1 histone chaperone through backbone plasticity. Science Advances.
2021;7(12). doi:10.1126/sciadv.abd9153
apa: Mbianda, J., Bakail, M. M., André, C., Moal, G., Perrin, M. E., Pinna, G.,
… Ochsenbein, F. (2021). Optimal anchoring of a foldamer inhibitor of ASF1 histone
chaperone through backbone plasticity. Science Advances. American Association
for the Advancement of Science. https://doi.org/10.1126/sciadv.abd9153
chicago: Mbianda, Johanne, May M Bakail, Christophe André, Gwenaëlle Moal, Marie
E. Perrin, Guillaume Pinna, Raphaël Guerois, et al. “Optimal Anchoring of a Foldamer
Inhibitor of ASF1 Histone Chaperone through Backbone Plasticity.” Science Advances.
American Association for the Advancement of Science, 2021. https://doi.org/10.1126/sciadv.abd9153.
ieee: J. Mbianda et al., “Optimal anchoring of a foldamer inhibitor of ASF1
histone chaperone through backbone plasticity,” Science Advances, vol.
7, no. 12. American Association for the Advancement of Science, 2021.
ista: Mbianda J, Bakail MM, André C, Moal G, Perrin ME, Pinna G, Guerois R, Becher
F, Legrand P, Traoré S, Douat C, Guichard G, Ochsenbein F. 2021. Optimal anchoring
of a foldamer inhibitor of ASF1 histone chaperone through backbone plasticity.
Science Advances. 7(12), eabd9153.
mla: Mbianda, Johanne, et al. “Optimal Anchoring of a Foldamer Inhibitor of ASF1
Histone Chaperone through Backbone Plasticity.” Science Advances, vol.
7, no. 12, eabd9153, American Association for the Advancement of Science, 2021,
doi:10.1126/sciadv.abd9153.
short: J. Mbianda, M.M. Bakail, C. André, G. Moal, M.E. Perrin, G. Pinna, R. Guerois,
F. Becher, P. Legrand, S. Traoré, C. Douat, G. Guichard, F. Ochsenbein, Science
Advances 7 (2021).
date_created: 2021-03-22T07:14:03Z
date_published: 2021-03-19T00:00:00Z
date_updated: 2023-08-07T14:20:26Z
day: '19'
ddc:
- '570'
department:
- _id: CampIT
doi: 10.1126/sciadv.abd9153
external_id:
isi:
- '000633443000011'
pmid:
- '33741589'
file:
- access_level: open_access
checksum: 737624cd0e630ffa7c52797a690500e3
content_type: application/pdf
creator: dernst
date_created: 2021-03-22T12:49:00Z
date_updated: 2021-03-22T12:49:00Z
file_id: '9280'
file_name: 2021_ScienceAdv_Mbianda.pdf
file_size: 837156
relation: main_file
success: 1
file_date_updated: 2021-03-22T12:49:00Z
fulldoi: https://doi.org/10.1126/sciadv.abd9153
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
issue: '12'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc/4.0/
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: Science Advances
publication_identifier:
issn:
- 2375-2548
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
status: public
title: Optimal anchoring of a foldamer inhibitor of ASF1 histone chaperone through
backbone plasticity
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 7
year: '2021'
...
---
_id: '9301'
abstract:
- lang: eng
text: Electrodepositing insulating lithium peroxide (Li2O2) is the key process during
discharge of aprotic Li–O2 batteries and determines rate, capacity, and reversibility.
Current understanding states that the partition between surface adsorbed and dissolved
lithium superoxide governs whether Li2O2 grows as a conformal surface film or
larger particles, leading to low or high capacities, respectively. However, better
understanding governing factors for Li2O2 packing density and capacity requires
structural sensitive in situ metrologies. Here, we establish in situ small- and
wide-angle X-ray scattering (SAXS/WAXS) as a suitable method to record the Li2O2
phase evolution with atomic to submicrometer resolution during cycling a custom-built
in situ Li–O2 cell. Combined with sophisticated data analysis, SAXS allows retrieving
rich quantitative structural information from complex multiphase systems. Surprisingly,
we find that features are absent that would point at a Li2O2 surface film formed
via two consecutive electron transfers, even in poorly solvating electrolytes
thought to be prototypical for surface growth. All scattering data can be modeled
by stacks of thin Li2O2 platelets potentially forming large toroidal particles.
Li2O2 solution growth is further justified by rotating ring-disk electrode measurements
and electron microscopy. Higher discharge overpotentials lead to smaller Li2O2
particles, but there is no transition to an electronically passivating, conformal
Li2O2 coating. Hence, mass transport of reactive species rather than electronic
transport through a Li2O2 film limits the discharge capacity. Provided that species
mobilities and carbon surface areas are high, this allows for high discharge capacities
even in weakly solvating electrolytes. The currently accepted Li–O2 reaction mechanism
ought to be reconsidered.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: S.A.F. and C.P. are indebted to the European Research Council under
the European Union's Horizon 2020 research and innovation program (Grant Agreement
No. 636069), the Austrian Federal Ministry of Science, Research and Economy, and
the Austrian Research Promotion Agency (Grant No. 845364). We acknowledge A. Zankel
and H. Schroettner for support with SEM measurements. C.P. thanks N. Kostoglou,
C. Koczwara, M. Hartmann, and M. Burian for discussions on gas sorption analysis,
C++ programming, Monte Carlo modeling, and in situ SAXS experiments, respectively.
We thank S. Stadlbauer for help with Karl Fischer titration, R. Riccò for gas sorption
measurements, and acknowledge Graz University of Technology for support through
the Lead Project LP-03. Likewise, the use of SOMAPP Lab, a core facility supported
by the Austrian Federal Ministry of Education, Science and Research, the Graz University
of Technology, the University of Graz, and Anton Paar GmbH is acknowledged. S.A.F.
is indebted to Institute of Science and Technology Austria (IST Austria) for support.
This research was supported by the Scientific Service Units of IST Austria through
resources provided by the Electron Microscopy Facility.
article_number: e2021893118
article_processing_charge: No
article_type: original
author:
- first_name: Christian
full_name: Prehal, Christian
last_name: Prehal
- first_name: Aleksej
full_name: Samojlov, Aleksej
last_name: Samojlov
- first_name: Manfred
full_name: Nachtnebel, Manfred
last_name: Nachtnebel
- first_name: Ludek
full_name: Lovicar, Ludek
id: 36DB3A20-F248-11E8-B48F-1D18A9856A87
last_name: Lovicar
orcid: 0000-0001-6206-4200
- first_name: Manfred
full_name: Kriechbaum, Manfred
last_name: Kriechbaum
- first_name: Heinz
full_name: Amenitsch, Heinz
last_name: Amenitsch
- 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, Samojlov A, Nachtnebel M, et al. In situ small-angle X-ray scattering
reveals solution phase discharge of Li–O2 batteries with weakly solvating electrolytes.
Proceedings of the National Academy of Sciences of the United States of America.
2021;118(14). doi:10.1073/pnas.2021893118
apa: Prehal, C., Samojlov, A., Nachtnebel, M., Lovicar, L., Kriechbaum, M., Amenitsch,
H., & Freunberger, S. A. (2021). In situ small-angle X-ray scattering reveals
solution phase discharge of Li–O2 batteries with weakly solvating electrolytes.
Proceedings of the National Academy of Sciences of the United States of America.
National Academy of Sciences. https://doi.org/10.1073/pnas.2021893118
chicago: Prehal, Christian, Aleksej Samojlov, Manfred Nachtnebel, Ludek Lovicar,
Manfred Kriechbaum, Heinz Amenitsch, and Stefan Alexander Freunberger. “In Situ
Small-Angle X-Ray Scattering Reveals Solution Phase Discharge of Li–O2 Batteries
with Weakly Solvating Electrolytes.” Proceedings of the National Academy of
Sciences of the United States of America. National Academy of Sciences, 2021.
https://doi.org/10.1073/pnas.2021893118.
ieee: C. Prehal et al., “In situ small-angle X-ray scattering reveals solution
phase discharge of Li–O2 batteries with weakly solvating electrolytes,” Proceedings
of the National Academy of Sciences of the United States of America, vol.
118, no. 14. National Academy of Sciences, 2021.
ista: Prehal C, Samojlov A, Nachtnebel M, Lovicar L, Kriechbaum M, Amenitsch H,
Freunberger SA. 2021. In situ small-angle X-ray scattering reveals solution phase
discharge of Li–O2 batteries with weakly solvating electrolytes. Proceedings of
the National Academy of Sciences of the United States of America. 118(14), e2021893118.
mla: Prehal, Christian, et al. “In Situ Small-Angle X-Ray Scattering Reveals Solution
Phase Discharge of Li–O2 Batteries with Weakly Solvating Electrolytes.” Proceedings
of the National Academy of Sciences of the United States of America, vol.
118, no. 14, e2021893118, National Academy of Sciences, 2021, doi:10.1073/pnas.2021893118.
short: C. Prehal, A. Samojlov, M. Nachtnebel, L. Lovicar, M. Kriechbaum, H. Amenitsch,
S.A. Freunberger, Proceedings of the National Academy of Sciences of the United
States of America 118 (2021).
date_created: 2021-03-31T07:00:01Z
date_published: 2021-04-06T00:00:00Z
date_updated: 2025-06-12T06:56:39Z
day: '06'
department:
- _id: StFr
- _id: EM-Fac
doi: 10.1073/pnas.2021893118
external_id:
isi:
- '000637398300050'
pmid:
- '33785597'
fulldoi: https://doi.org/10.1073/pnas.2021893118
intvolume: ' 118'
isi: 1
issue: '14'
keyword:
- small-angle X-ray scattering
- oxygen reduction
- disproportionation
- Li-air battery
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.26434/chemrxiv.11447775
month: '04'
oa: 1
oa_version: Preprint
pmid: 1
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
issn:
- 0027-8424
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: In situ small-angle X-ray scattering reveals solution phase discharge of Li–O2
batteries with weakly solvating electrolytes
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 118
year: '2021'
...
---
_id: '9329'
abstract:
- lang: eng
text: "Background: To understand information coding in single neurons, it is necessary
to analyze subthreshold synaptic events, action potentials (APs), and their interrelation
in different behavioral states. However, detecting excitatory postsynaptic potentials
(EPSPs) or currents (EPSCs) in behaving animals remains challenging, because of
unfavorable signal-to-noise ratio, high frequency, fluctuating amplitude, and
variable time course of synaptic events.\r\nNew method: We developed a method
for synaptic event detection, termed MOD (Machine-learning Optimal-filtering Detection-procedure),
which combines concepts of supervised machine learning and optimal Wiener filtering.
Experts were asked to manually score short epochs of data. The algorithm was trained
to obtain the optimal filter coefficients of a Wiener filter and the optimal detection
threshold. Scored and unscored data were then processed with the optimal filter,
and events were detected as peaks above threshold.\r\nResults: We challenged MOD
with EPSP traces in vivo in mice during spatial navigation and EPSC traces in
vitro in slices under conditions of enhanced transmitter release. The area under
the curve (AUC) of the receiver operating characteristics (ROC) curve was, on
average, 0.894 for in vivo and 0.969 for in vitro data sets, indicating high detection
accuracy and efficiency.\r\nComparison with existing methods: When benchmarked
using a (1 − AUC)−1 metric, MOD outperformed previous methods (template-fit, deconvolution,
and Bayesian methods) by an average factor of 3.13 for in vivo data sets, but
showed comparable (template-fit, deconvolution) or higher (Bayesian) computational
efficacy.\r\nConclusions: MOD may become an important new tool for large-scale,
real-time analysis of synaptic activity."
acknowledged_ssus:
- _id: SSU
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 number 692692 to P.J.) and the Fond zur Förderung der Wissenschaftlichen
Forschung (Z 312-B27, Wittgenstein award to P.J.). We thank Drs. Jozsef Csicsvari,
Christoph Lampert, and Federico Stella for critically reading previous manuscript
versions. We are also grateful to Drs. Josh Merel and Ben Shababo for their help
with applying the Bayesian detection method to our data. We also thank Florian Marr
for technical assistance, Eleftheria Kralli-Beller for manuscript editing, and the
Scientific Service Units of IST Austria for efficient support.
article_number: '109125'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Xiaomin
full_name: Zhang, Xiaomin
id: 423EC9C2-F248-11E8-B48F-1D18A9856A87
last_name: Zhang
- first_name: Alois
full_name: Schlögl, Alois
id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
last_name: Schlögl
orcid: 0000-0002-5621-8100
- first_name: David H
full_name: Vandael, David H
id: 3AE48E0A-F248-11E8-B48F-1D18A9856A87
last_name: Vandael
orcid: 0000-0001-7577-1676
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: 'Zhang X, Schlögl A, Vandael DH, Jonas PM. MOD: A novel machine-learning optimal-filtering
method for accurate and efficient detection of subthreshold synaptic events in
vivo. Journal of Neuroscience Methods. 2021;357(6). doi:10.1016/j.jneumeth.2021.109125'
apa: 'Zhang, X., Schlögl, A., Vandael, D. H., & Jonas, P. M. (2021). MOD: A
novel machine-learning optimal-filtering method for accurate and efficient detection
of subthreshold synaptic events in vivo. Journal of Neuroscience Methods.
Elsevier. https://doi.org/10.1016/j.jneumeth.2021.109125'
chicago: 'Zhang, Xiaomin, Alois Schlögl, David H Vandael, and Peter M Jonas. “MOD:
A Novel Machine-Learning Optimal-Filtering Method for Accurate and Efficient Detection
of Subthreshold Synaptic Events in Vivo.” Journal of Neuroscience Methods.
Elsevier, 2021. https://doi.org/10.1016/j.jneumeth.2021.109125.'
ieee: 'X. Zhang, A. Schlögl, D. H. Vandael, and P. M. Jonas, “MOD: A novel machine-learning
optimal-filtering method for accurate and efficient detection of subthreshold
synaptic events in vivo,” Journal of Neuroscience Methods, vol. 357, no.
6. Elsevier, 2021.'
ista: 'Zhang X, Schlögl A, Vandael DH, Jonas PM. 2021. MOD: A novel machine-learning
optimal-filtering method for accurate and efficient detection of subthreshold
synaptic events in vivo. Journal of Neuroscience Methods. 357(6), 109125.'
mla: 'Zhang, Xiaomin, et al. “MOD: A Novel Machine-Learning Optimal-Filtering Method
for Accurate and Efficient Detection of Subthreshold Synaptic Events in Vivo.”
Journal of Neuroscience Methods, vol. 357, no. 6, 109125, Elsevier, 2021,
doi:10.1016/j.jneumeth.2021.109125.'
short: X. Zhang, A. Schlögl, D.H. Vandael, P.M. Jonas, Journal of Neuroscience Methods
357 (2021).
date_created: 2021-04-18T22:01:39Z
date_published: 2021-03-09T00:00:00Z
date_updated: 2025-06-12T06:39:15Z
day: '09'
ddc:
- '570'
department:
- _id: PeJo
- _id: ScienComp
doi: 10.1016/j.jneumeth.2021.109125
ec_funded: 1
external_id:
isi:
- '000661088500005'
pmid:
- '33711356'
file:
- access_level: open_access
checksum: 2a5800d91b96d08b525e17319dcd5e44
content_type: application/pdf
creator: dernst
date_created: 2021-04-19T08:30:22Z
date_updated: 2021-04-19T08:30:22Z
file_id: '9339'
file_name: 2021_JourNeuroscienceMeth_Zhang.pdf
file_size: 6924738
relation: main_file
success: 1
file_date_updated: 2021-04-19T08:30:22Z
fulldoi: https://doi.org/10.1016/j.jneumeth.2021.109125
has_accepted_license: '1'
intvolume: ' 357'
isi: 1
issue: '6'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glutamatergic synapse
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: Synaptic communication in neuronal microcircuits
publication: Journal of Neuroscience Methods
publication_identifier:
eissn:
- 1872-678X
issn:
- 0165-0270
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'MOD: A novel machine-learning optimal-filtering method for accurate and efficient
detection of subthreshold synaptic events in vivo'
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 357
year: '2021'
...
---
_id: '9330'
abstract:
- lang: eng
text: In nerve cells the genes encoding for α2δ subunits of voltage-gated calcium
channels have been linked to synaptic functions and neurological disease. Here
we show that α2δ subunits are essential for the formation and organization of
glutamatergic synapses. Using a cellular α2δ subunit triple-knockout/knockdown
model, we demonstrate a failure in presynaptic differentiation evidenced by defective
presynaptic calcium channel clustering and calcium influx, smaller presynaptic
active zones, and a strongly reduced accumulation of presynaptic vesicle-associated
proteins (synapsin and vGLUT). The presynaptic defect is associated with the downscaling
of postsynaptic AMPA receptors and the postsynaptic density. The role of α2δ isoforms
as synaptic organizers is highly redundant, as each individual α2δ isoform can
rescue presynaptic calcium channel trafficking and expression of synaptic proteins.
Moreover, α2δ-2 and α2δ-3 with mutated metal ion-dependent adhesion sites can
fully rescue presynaptic synapsin expression but only partially calcium channel
trafficking, suggesting that the regulatory role of α2δ subunits is independent
from its role as a calcium channel subunit. Our findings influence the current
view on excitatory synapse formation. First, our study suggests that postsynaptic
differentiation is secondary to presynaptic differentiation. Second, the dependence
of presynaptic differentiation on α2δ implicates α2δ subunits as potential nucleation
points for the organization of synapses. Finally, our results suggest that α2δ
subunits act as transsynaptic organizers of glutamatergic synapses, thereby aligning
the synaptic active zone with the postsynaptic density.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: "We thank Arnold Schwartz for providing α2δ-1 knockout mice; Ariane
Benedetti, Sabine Baumgartner, Sandra Demetz, and Irene Mahlknecht for technical
support; Nadine Ortner and Andreas Lieb for electrophysiological experiments; the
team of the Electron Microscopy Facility at the Institute of Science and Technology
Austria for technical support related to ultrastructural analysis; Hermann Dietrich
and Anja Beierfuß and her team for animal care; Jutta Engel and Jörg Striessnig
for critical discussions; and Bruno Benedetti and Bernhard Flucher for critical
discussions and reading the manuscript. This study was supported by Austrian Science
Fund Grants P24079, F44060, F44150, and DOC30-B30 (to G.J.O.) and T855 (to M.C.),
European Research Council Grant AdG 694539 (to R.S.), Deutsche Forschungsgemeinschaft\r\nGrant
SFB1348-TP A03 (to M.M.), and Interdisziplinäre Zentrum für Klinische Forschung
Münster Grant Mi3/004/19 (to M.M.). This work is part of the PhD theses of C.L.S.,
S.M.G., and C.A."
article_processing_charge: No
article_type: original
author:
- first_name: Clemens L.
full_name: Schöpf, Clemens L.
last_name: Schöpf
- first_name: Cornelia
full_name: Ablinger, Cornelia
last_name: Ablinger
- first_name: Stefanie M.
full_name: Geisler, Stefanie M.
last_name: Geisler
- first_name: Ruslan I.
full_name: Stanika, Ruslan I.
last_name: Stanika
- first_name: Marta
full_name: Campiglio, Marta
last_name: Campiglio
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Benedikt
full_name: Nimmervoll, Benedikt
last_name: Nimmervoll
- first_name: Bettina
full_name: Schlick, Bettina
last_name: Schlick
- first_name: Johannes
full_name: Brockhaus, Johannes
last_name: Brockhaus
- first_name: Markus
full_name: Missler, Markus
last_name: Missler
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Gerald J.
full_name: Obermair, Gerald J.
last_name: Obermair
citation:
ama: Schöpf CL, Ablinger C, Geisler SM, et al. Presynaptic α2δ subunits are key
organizers of glutamatergic synapses. Proceedings of the National Academy of
Sciences of the United States of America. 2021;118(14). doi:10.1073/pnas.1920827118
apa: Schöpf, C. L., Ablinger, C., Geisler, S. M., Stanika, R. I., Campiglio, M.,
Kaufmann, W., … Obermair, G. J. (2021). Presynaptic α2δ subunits are key organizers
of glutamatergic synapses. Proceedings of the National Academy of Sciences
of the United States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.1920827118
chicago: Schöpf, Clemens L., Cornelia Ablinger, Stefanie M. Geisler, Ruslan I. Stanika,
Marta Campiglio, Walter Kaufmann, Benedikt Nimmervoll, et al. “Presynaptic Α2δ
Subunits Are Key Organizers of Glutamatergic Synapses.” Proceedings of the
National Academy of Sciences of the United States of America. National Academy
of Sciences, 2021. https://doi.org/10.1073/pnas.1920827118.
ieee: C. L. Schöpf et al., “Presynaptic α2δ subunits are key organizers of
glutamatergic synapses,” Proceedings of the National Academy of Sciences of
the United States of America, vol. 118, no. 14. National Academy of Sciences,
2021.
ista: Schöpf CL, Ablinger C, Geisler SM, Stanika RI, Campiglio M, Kaufmann W, Nimmervoll
B, Schlick B, Brockhaus J, Missler M, Shigemoto R, Obermair GJ. 2021. Presynaptic
α2δ subunits are key organizers of glutamatergic synapses. Proceedings of the
National Academy of Sciences of the United States of America. 118(14).
mla: Schöpf, Clemens L., et al. “Presynaptic Α2δ Subunits Are Key Organizers of
Glutamatergic Synapses.” Proceedings of the National Academy of Sciences of
the United States of America, vol. 118, no. 14, National Academy of Sciences,
2021, doi:10.1073/pnas.1920827118.
short: C.L. Schöpf, C. Ablinger, S.M. Geisler, R.I. Stanika, M. Campiglio, W. Kaufmann,
B. Nimmervoll, B. Schlick, J. Brockhaus, M. Missler, R. Shigemoto, G.J. Obermair,
Proceedings of the National Academy of Sciences of the United States of America
118 (2021).
date_created: 2021-04-18T22:01:40Z
date_published: 2021-04-06T00:00:00Z
date_updated: 2025-06-12T06:56:21Z
day: '06'
ddc:
- '570'
department:
- _id: EM-Fac
- _id: RySh
doi: 10.1073/pnas.1920827118
ec_funded: 1
external_id:
isi:
- '000637398300002'
pmid:
- '33782113'
file:
- access_level: open_access
checksum: dd014f68ae9d7d8d8fc4139a24e04506
content_type: application/pdf
creator: dernst
date_created: 2021-04-19T10:10:56Z
date_updated: 2021-04-19T10:10:56Z
file_id: '9340'
file_name: 2021_PNAS_Schoepf.pdf
file_size: 2603911
relation: main_file
success: 1
file_date_updated: 2021-04-19T10:10:56Z
fulldoi: https://doi.org/10.1073/pnas.1920827118
has_accepted_license: '1'
intvolume: ' 118'
isi: 1
issue: '14'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 25CA28EA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694539'
name: 'In situ analysis of single channel subunit composition in neurons: physiological
implication in synaptic plasticity and behaviour'
publication: Proceedings of the National Academy of Sciences of the United States
of America
publication_identifier:
eissn:
- 1091-6490
publication_status: published
publisher: National Academy of Sciences
quality_controlled: '1'
scopus_import: '1'
status: public
title: Presynaptic α2δ subunits are key organizers of glutamatergic synapses
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 118
year: '2021'
...
---
_id: '9334'
abstract:
- lang: eng
text: 'Polaritons with directional in-plane propagation and ultralow losses in van
der Waals (vdW) crystals promise unprecedented manipulation of light at the nanoscale.
However, these polaritons present a crucial limitation: their directional propagation
is intrinsically determined by the crystal structure of the host material, imposing
forbidden directions of propagation. Here, we demonstrate that directional polaritons
(in-plane hyperbolic phonon polaritons) in a vdW crystal (α-phase molybdenum trioxide)
can be directed along forbidden directions by inducing an optical topological
transition, which emerges when the slab is placed on a substrate with a given
negative permittivity (4H–silicon carbide). By visualizing the transition in real
space, we observe exotic polaritonic states between mutually orthogonal hyperbolic
regimes, which unveil the topological origin of the transition: a gap opening
in the dispersion. This work provides insights into optical topological transitions
in vdW crystals, which introduce a route to direct light at the nanoscale.'
acknowledgement: 'G.Á.-P. and J.T.-G. acknowledge support through the Severo Ochoa
Program from the government of the Principality of Asturias (grant nos. PA20-PF-BP19-053
and PA-18-PF-BP17-126, respectively). K.V.V. and V.S.V. acknowledge the Ministry
of Science and Higher Education of the Russian Federation (no. 0714-2020-0002).
J. M.-S. acknowledges financial support through the Ramón y Cajal Program from the
government of Spain and FSE (RYC2018-026196-I). A.Y.N. acknowledges the Spanish
Ministry of Science, Innovation and Universities (national project no. MAT201788358-C3-3-R),
and the Basque Department of Education (PIBA-2020-1-0014). P.A.-G. acknowledges
support from the European Research Council under starting grant no. 715496, 2DNANOPTICA. '
article_number: eabf2690
article_processing_charge: No
article_type: original
author:
- first_name: J.
full_name: Duan, J.
last_name: Duan
- first_name: G.
full_name: Álvarez-Pérez, G.
last_name: Álvarez-Pérez
- first_name: K. V.
full_name: Voronin, K. V.
last_name: Voronin
- first_name: Ivan
full_name: Prieto Gonzalez, Ivan
id: 2A307FE2-F248-11E8-B48F-1D18A9856A87
last_name: Prieto Gonzalez
orcid: 0000-0002-7370-5357
- first_name: J.
full_name: Taboada-Gutiérrez, J.
last_name: Taboada-Gutiérrez
- first_name: V. S.
full_name: Volkov, V. S.
last_name: Volkov
- first_name: J.
full_name: Martín-Sánchez, J.
last_name: Martín-Sánchez
- first_name: A. Y.
full_name: Nikitin, A. Y.
last_name: Nikitin
- first_name: P.
full_name: Alonso-González, P.
last_name: Alonso-González
citation:
ama: Duan J, Álvarez-Pérez G, Voronin KV, et al. Enabling propagation of anisotropic
polaritons along forbidden directions via a topological transition. Science
Advances. 2021;7(14). doi:10.1126/sciadv.abf2690
apa: Duan, J., Álvarez-Pérez, G., Voronin, K. V., Prieto Gonzalez, I., Taboada-Gutiérrez,
J., Volkov, V. S., … Alonso-González, P. (2021). Enabling propagation of anisotropic
polaritons along forbidden directions via a topological transition. Science
Advances. AAAS. https://doi.org/10.1126/sciadv.abf2690
chicago: Duan, J., G. Álvarez-Pérez, K. V. Voronin, Ivan Prieto Gonzalez, J. Taboada-Gutiérrez,
V. S. Volkov, J. Martín-Sánchez, A. Y. Nikitin, and P. Alonso-González. “Enabling
Propagation of Anisotropic Polaritons along Forbidden Directions via a Topological
Transition.” Science Advances. AAAS, 2021. https://doi.org/10.1126/sciadv.abf2690.
ieee: J. Duan et al., “Enabling propagation of anisotropic polaritons along
forbidden directions via a topological transition,” Science Advances, vol.
7, no. 14. AAAS, 2021.
ista: Duan J, Álvarez-Pérez G, Voronin KV, Prieto Gonzalez I, Taboada-Gutiérrez
J, Volkov VS, Martín-Sánchez J, Nikitin AY, Alonso-González P. 2021. Enabling
propagation of anisotropic polaritons along forbidden directions via a topological
transition. Science Advances. 7(14), eabf2690.
mla: Duan, J., et al. “Enabling Propagation of Anisotropic Polaritons along Forbidden
Directions via a Topological Transition.” Science Advances, vol. 7, no.
14, eabf2690, AAAS, 2021, doi:10.1126/sciadv.abf2690.
short: J. Duan, G. Álvarez-Pérez, K.V. Voronin, I. Prieto Gonzalez, J. Taboada-Gutiérrez,
V.S. Volkov, J. Martín-Sánchez, A.Y. Nikitin, P. Alonso-González, Science Advances
7 (2021).
date_created: 2021-04-18T22:01:42Z
date_published: 2021-04-02T00:00:00Z
date_updated: 2026-04-02T13:58:21Z
day: '02'
ddc:
- '530'
department:
- _id: NanoFab
doi: 10.1126/sciadv.abf2690
external_id:
isi:
- '000636455600027'
pmid:
- '33811076'
file:
- access_level: open_access
checksum: 4b383d4a1d484a71bbc64ecf401bbdbb
content_type: application/pdf
creator: dernst
date_created: 2021-04-19T11:17:29Z
date_updated: 2021-04-19T11:17:29Z
file_id: '9343'
file_name: 2021_ScienceAdv_Duan.pdf
file_size: 717489
relation: main_file
success: 1
file_date_updated: 2021-04-19T11:17:29Z
fulldoi: https://doi.org/10.1126/sciadv.abf2690
has_accepted_license: '1'
intvolume: ' 7'
isi: 1
issue: '14'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: Science Advances
publication_identifier:
eissn:
- 2375-2548
publication_status: published
publisher: AAAS
quality_controlled: '1'
scopus_import: '1'
status: public
title: Enabling propagation of anisotropic polaritons along forbidden directions via
a topological transition
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 7
year: '2021'
...
---
_id: '9361'
abstract:
- lang: eng
text: The multimeric matrix (M) protein of clinically relevant paramyxoviruses orchestrates
assembly and budding activity of viral particles at the plasma membrane (PM).
We identified within the canine distemper virus (CDV) M protein two microdomains,
potentially assuming α-helix structures, which are essential for membrane budding
activity. Remarkably, while two rationally designed microdomain M mutants (E89R,
microdomain 1 and L239D, microdomain 2) preserved proper folding, dimerization,
interaction with the nucleocapsid protein, localization at and deformation of
the PM, the virus-like particle formation, as well as production of infectious
virions (as monitored using a membrane budding-complementation system), were,
in sharp contrast, strongly impaired. Of major importance, raster image correlation
spectroscopy (RICS) revealed that both microdomains contributed to finely tune
M protein mobility specifically at the PM. Collectively, our data highlighted
the cornerstone membrane budding-priming activity of two spatially discrete M
microdomains, potentially by coordinating the assembly of productive higher oligomers
at the PM.
acknowledgement: This work was supported by the Swiss National Science Foundation
(referencenumber 310030_173185 to P. P.).
article_number: e01024-20
article_processing_charge: No
author:
- first_name: Matthieu
full_name: Gast, Matthieu
last_name: Gast
- first_name: Nicole P.
full_name: Kadzioch, Nicole P.
last_name: Kadzioch
- first_name: Doreen
full_name: Milius, Doreen
id: 384050BC-F248-11E8-B48F-1D18A9856A87
last_name: Milius
- first_name: Francesco
full_name: Origgi, Francesco
last_name: Origgi
- first_name: Philippe
full_name: Plattet, Philippe
last_name: Plattet
citation:
ama: Gast M, Kadzioch NP, Milius D, Origgi F, Plattet P. Oligomerization and cell
egress controlled by two microdomains of canine distemper virus matrix protein.
mSphere. 2021;6(2). doi:10.1128/mSphere.01024-20
apa: Gast, M., Kadzioch, N. P., Milius, D., Origgi, F., & Plattet, P. (2021).
Oligomerization and cell egress controlled by two microdomains of canine distemper
virus matrix protein. MSphere. American Society for Microbiology. https://doi.org/10.1128/mSphere.01024-20
chicago: Gast, Matthieu, Nicole P. Kadzioch, Doreen Milius, Francesco Origgi, and
Philippe Plattet. “Oligomerization and Cell Egress Controlled by Two Microdomains
of Canine Distemper Virus Matrix Protein.” MSphere. American Society for
Microbiology, 2021. https://doi.org/10.1128/mSphere.01024-20.
ieee: M. Gast, N. P. Kadzioch, D. Milius, F. Origgi, and P. Plattet, “Oligomerization
and cell egress controlled by two microdomains of canine distemper virus matrix
protein,” mSphere, vol. 6, no. 2. American Society for Microbiology, 2021.
ista: Gast M, Kadzioch NP, Milius D, Origgi F, Plattet P. 2021. Oligomerization
and cell egress controlled by two microdomains of canine distemper virus matrix
protein. mSphere. 6(2), e01024-20.
mla: Gast, Matthieu, et al. “Oligomerization and Cell Egress Controlled by Two Microdomains
of Canine Distemper Virus Matrix Protein.” MSphere, vol. 6, no. 2, e01024-20,
American Society for Microbiology, 2021, doi:10.1128/mSphere.01024-20.
short: M. Gast, N.P. Kadzioch, D. Milius, F. Origgi, P. Plattet, MSphere 6 (2021).
date_created: 2021-05-02T22:01:28Z
date_published: 2021-04-14T00:00:00Z
date_updated: 2026-04-02T13:58:38Z
day: '14'
ddc:
- '570'
department:
- _id: Bio
doi: 10.1128/mSphere.01024-20
external_id:
isi:
- '000663823400025'
pmid:
- '33853875'
file:
- access_level: open_access
checksum: 310748d140c8838335c1314431095898
content_type: application/pdf
creator: kschuh
date_created: 2021-05-04T12:41:38Z
date_updated: 2021-05-04T12:41:38Z
file_id: '9370'
file_name: 2021_mSphere_Gast.pdf
file_size: 3379349
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success: 1
file_date_updated: 2021-05-04T12:41:38Z
fulldoi: https://doi.org/10.1128/mSphere.01024-20
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
issue: '2'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
pmid: 1
publication: mSphere
publication_identifier:
eissn:
- 2379-5042
publication_status: published
publisher: American Society for Microbiology
quality_controlled: '1'
scopus_import: '1'
status: public
title: Oligomerization and cell egress controlled by two microdomains of canine distemper
virus matrix protein
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: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 6
year: '2021'
...
---
_id: '9363'
abstract:
- lang: eng
text: Optogenetics has been harnessed to shed new mechanistic light on current and
future therapeutic strategies. This has been to date achieved by the regulation
of ion flow and electrical signals in neuronal cells and neural circuits that
are known to be affected by disease. In contrast, the optogenetic delivery of
trophic biochemical signals, which support cell survival and are implicated in
degenerative disorders, has never been demonstrated in an animal model of disease.
Here, we reengineered the human and Drosophila melanogaster REarranged during
Transfection (hRET and dRET) receptors to be activated by light, creating one-component
optogenetic tools termed Opto-hRET and Opto-dRET. Upon blue light stimulation,
these receptors robustly induced the MAPK/ERK proliferative signaling pathway
in cultured cells. In PINK1B9 flies that exhibit loss of PTEN-induced putative
kinase 1 (PINK1), a kinase associated with familial Parkinson’s disease (PD),
light activation of Opto-dRET suppressed mitochondrial defects, tissue degeneration
and behavioral deficits. In human cells with PINK1 loss-of-function, mitochondrial
fragmentation was rescued using Opto-dRET via the PI3K/NF-кB pathway. Our results
demonstrate that a light-activated receptor can ameliorate disease hallmarks in
a genetic model of PD. The optogenetic delivery of trophic signals is cell type-specific
and reversible and thus has the potential to inspire novel strategies towards
a spatio-temporal regulation of tissue repair.
acknowledgement: We thank R. Cagan, A. Whitworth and J. Nagpal for fly lines and advice,
S. Herlitze for provision of a tissue culture illuminator, and Verian Bader for
help with statistical analysis.
article_processing_charge: No
author:
- first_name: Álvaro
full_name: Inglés Prieto, Álvaro
id: 2A9DB292-F248-11E8-B48F-1D18A9856A87
last_name: Inglés Prieto
orcid: 0000-0002-5409-8571
- first_name: Nikolas
full_name: Furthmann, Nikolas
last_name: Furthmann
- first_name: Samuel H.
full_name: Crossman, Samuel H.
last_name: Crossman
- first_name: Alexandra Madelaine
full_name: Tichy, Alexandra Madelaine
last_name: Tichy
- first_name: Nina
full_name: Hoyer, Nina
last_name: Hoyer
- first_name: Meike
full_name: Petersen, Meike
last_name: Petersen
- first_name: Vanessa
full_name: Zheden, Vanessa
id: 39C5A68A-F248-11E8-B48F-1D18A9856A87
last_name: Zheden
orcid: 0000-0002-9438-4783
- first_name: Julia
full_name: Bicher, Julia
id: 3CCBB46E-F248-11E8-B48F-1D18A9856A87
last_name: Bicher
- first_name: Eva
full_name: Gschaider-Reichhart, Eva
id: 3FEE232A-F248-11E8-B48F-1D18A9856A87
last_name: Gschaider-Reichhart
orcid: 0000-0002-7218-7738
- first_name: Attila
full_name: György, Attila
id: 3BCEDBE0-F248-11E8-B48F-1D18A9856A87
last_name: György
orcid: 0000-0002-1819-198X
- first_name: Daria E
full_name: Siekhaus, Daria E
id: 3D224B9E-F248-11E8-B48F-1D18A9856A87
last_name: Siekhaus
orcid: 0000-0001-8323-8353
- first_name: Peter
full_name: Soba, Peter
last_name: Soba
- first_name: Konstanze F.
full_name: Winklhofer, Konstanze F.
last_name: Winklhofer
- first_name: Harald L
full_name: Janovjak, Harald L
id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
last_name: Janovjak
orcid: 0000-0002-8023-9315
citation:
ama: Inglés Prieto Á, Furthmann N, Crossman SH, et al. Optogenetic delivery of trophic
signals in a genetic model of Parkinson’s disease. PLoS genetics. 2021;17(4):e1009479.
doi:10.1371/journal.pgen.1009479
apa: Inglés Prieto, Á., Furthmann, N., Crossman, S. H., Tichy, A. M., Hoyer, N.,
Petersen, M., … Janovjak, H. L. (2021). Optogenetic delivery of trophic signals
in a genetic model of Parkinson’s disease. PLoS Genetics. Public Library
of Science. https://doi.org/10.1371/journal.pgen.1009479
chicago: Inglés Prieto, Álvaro, Nikolas Furthmann, Samuel H. Crossman, Alexandra
Madelaine Tichy, Nina Hoyer, Meike Petersen, Vanessa Zheden, et al. “Optogenetic
Delivery of Trophic Signals in a Genetic Model of Parkinson’s Disease.” PLoS
Genetics. Public Library of Science, 2021. https://doi.org/10.1371/journal.pgen.1009479.
ieee: Á. Inglés Prieto et al., “Optogenetic delivery of trophic signals in
a genetic model of Parkinson’s disease,” PLoS genetics, vol. 17, no. 4.
Public Library of Science, p. e1009479, 2021.
ista: Inglés Prieto Á, Furthmann N, Crossman SH, Tichy AM, Hoyer N, Petersen M,
Zheden V, Bicher J, Gschaider-Reichhart E, György A, Siekhaus DE, Soba P, Winklhofer
KF, Janovjak HL. 2021. Optogenetic delivery of trophic signals in a genetic model
of Parkinson’s disease. PLoS genetics. 17(4), e1009479.
mla: Inglés Prieto, Álvaro, et al. “Optogenetic Delivery of Trophic Signals in a
Genetic Model of Parkinson’s Disease.” PLoS Genetics, vol. 17, no. 4, Public
Library of Science, 2021, p. e1009479, doi:10.1371/journal.pgen.1009479.
short: Á. Inglés Prieto, N. Furthmann, S.H. Crossman, A.M. Tichy, N. Hoyer, M. Petersen,
V. Zheden, J. Bicher, E. Gschaider-Reichhart, A. György, D.E. Siekhaus, P. Soba,
K.F. Winklhofer, H.L. Janovjak, PLoS Genetics 17 (2021) e1009479.
date_created: 2021-05-02T22:01:29Z
date_published: 2021-04-01T00:00:00Z
date_updated: 2026-04-02T14:07:10Z
day: '01'
ddc:
- '570'
department:
- _id: EM-Fac
- _id: LoSw
- _id: DaSi
doi: 10.1371/journal.pgen.1009479
external_id:
isi:
- '000640606700001'
pmid:
- '33857132'
file:
- access_level: open_access
checksum: 82a74668f863e8dfb22fdd4f845c92ce
content_type: application/pdf
creator: kschuh
date_created: 2021-05-04T09:05:27Z
date_updated: 2021-05-04T09:05:27Z
file_id: '9369'
file_name: 2021_PLOS_Ingles-Prieto.pdf
file_size: 3072764
relation: main_file
success: 1
file_date_updated: 2021-05-04T09:05:27Z
fulldoi: https://doi.org/10.1371/journal.pgen.1009479
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa: 1
oa_version: Published Version
page: e1009479
pmid: 1
publication: PLoS genetics
publication_identifier:
eissn:
- 1553-7404
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Optogenetic delivery of trophic signals in a genetic model of Parkinson's disease
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: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 17
year: '2021'
...
---
_id: '9540'
abstract:
- lang: eng
text: The hexameric AAA-ATPase Drg1 is a key factor in eukaryotic ribosome biogenesis
and initiates cytoplasmic maturation of the large ribosomal subunit by releasing
the shuttling maturation factor Rlp24. Drg1 monomers contain two AAA-domains (D1
and D2) that act in a concerted manner. Rlp24 release is inhibited by the drug
diazaborine which blocks ATP hydrolysis in D2. The mode of inhibition was unknown.
Here we show the first cryo-EM structure of Drg1 revealing the inhibitory mechanism.
Diazaborine forms a covalent bond to the 2′-OH of the nucleotide in D2, explaining
its specificity for this site. As a consequence, the D2 domain is locked in a
rigid, inactive state, stalling the whole Drg1 hexamer. Resistance mechanisms
identified include abolished drug binding and altered positioning of the nucleotide.
Our results suggest nucleotide-modifying compounds as potential novel inhibitors
for AAA-ATPases.
acknowledged_ssus:
- _id: EM-Fac
acknowledgement: We are deeply grateful to the late Gregor Högenauer who built the
foundation for this study with his visionary work on the inhibitor diazaborine and
its bacterial target. We thank Rolf Breinbauer for insightful discussions on boron
chemistry. We thank Anton Meinhart and Tim Clausen for the valuable discussion of
the manuscript. We are indebted to Thomas Köcher for the MS measurement of the diazaborine-ATPγS
adduct. We thank the team of the VBCF for support during early phases of this work
and the IST Austria Electron Microscopy Facility for providing equipment. The lab
of D.H. is supported by Boehringer Ingelheim. The work was funded by FWF projects
P32536 and P32977 (to H.B.).
article_number: '3483'
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
orcid: 0000-0003-3904-947X
- first_name: Ingrid
full_name: Rössler, Ingrid
last_name: Rössler
- first_name: Isabella
full_name: Klein, Isabella
last_name: Klein
- first_name: Christina
full_name: Hetzmannseder, Christina
last_name: Hetzmannseder
- first_name: Gertrude
full_name: Zisser, Gertrude
last_name: Zisser
- first_name: Christian C.
full_name: Gruber, Christian C.
last_name: Gruber
- first_name: Karl
full_name: Gruber, Karl
last_name: Gruber
- 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. Structural basis for inhibition
of the AAA-ATPase Drg1 by diazaborine. Nature Communications. 2021;12(1).
doi:10.1038/s41467-021-23854-x
apa: Prattes, M., Grishkovskaya, I., Hodirnau, V.-V., Rössler, I., Klein, I., Hetzmannseder,
C., … Bergler, H. (2021). Structural basis for inhibition of the AAA-ATPase Drg1
by diazaborine. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-021-23854-x
chicago: Prattes, Michael, Irina Grishkovskaya, Victor-Valentin Hodirnau, Ingrid
Rössler, Isabella Klein, Christina Hetzmannseder, Gertrude Zisser, et al. “Structural
Basis for Inhibition of the AAA-ATPase Drg1 by Diazaborine.” Nature Communications.
Springer Nature, 2021. https://doi.org/10.1038/s41467-021-23854-x.
ieee: M. Prattes et al., “Structural basis for inhibition of the AAA-ATPase
Drg1 by diazaborine,” Nature Communications, vol. 12, no. 1. Springer Nature,
2021.
ista: Prattes M, Grishkovskaya I, Hodirnau V-V, Rössler I, Klein I, Hetzmannseder
C, Zisser G, Gruber CC, Gruber K, Haselbach D, Bergler H. 2021. Structural basis
for inhibition of the AAA-ATPase Drg1 by diazaborine. Nature Communications. 12(1),
3483.
mla: Prattes, Michael, et al. “Structural Basis for Inhibition of the AAA-ATPase
Drg1 by Diazaborine.” Nature Communications, vol. 12, no. 1, 3483, Springer
Nature, 2021, doi:10.1038/s41467-021-23854-x.
short: M. Prattes, I. Grishkovskaya, V.-V. Hodirnau, I. Rössler, I. Klein, C. Hetzmannseder,
G. Zisser, C.C. Gruber, K. Gruber, D. Haselbach, H. Bergler, Nature Communications
12 (2021).
date_created: 2021-06-10T14:57:45Z
date_published: 2021-06-09T00:00:00Z
date_updated: 2024-10-21T06:02:01Z
day: '09'
ddc:
- '570'
department:
- _id: EM-Fac
doi: 10.1038/s41467-021-23854-x
external_id:
isi:
- '000664874700014'
pmid:
- '34108481'
file:
- access_level: open_access
checksum: 40fc24c1310930990b52a8ad1142ee97
content_type: application/pdf
creator: cziletti
date_created: 2021-06-15T18:55:59Z
date_updated: 2021-06-15T18:55:59Z
file_id: '9556'
file_name: 2021_NatureComm_Prattes.pdf
file_size: 3397292
relation: main_file
success: 1
file_date_updated: 2021-06-15T18:55:59Z
fulldoi: https://doi.org/10.1038/s41467-021-23854-x
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '1'
keyword:
- General Biochemistry
- Genetics and Molecular Biology
- General Physics and Astronomy
- General Chemistry
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
publication: Nature Communications
publication_identifier:
eissn:
- 2041-1723
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structural basis for inhibition of the AAA-ATPase Drg1 by diazaborine
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 12
year: '2021'
...
---
_id: '9603'
abstract:
- lang: eng
text: Mosaic analysis with double markers (MADM) offers one approach to visualize
and concomitantly manipulate genetically defined cells in mice with single-cell
resolution. MADM applications include the analysis of lineage, single-cell morphology
and physiology, genomic imprinting phenotypes, and dissection of cell-autonomous
gene functions in vivo in health and disease. Yet, MADM can only be applied to
<25% of all mouse genes on select chromosomes to date. To overcome this limitation,
we generate transgenic mice with knocked-in MADM cassettes near the centromeres
of all 19 autosomes and validate their use across organs. With this resource,
>96% of the entire mouse genome can now be subjected to single-cell genetic mosaic
analysis. Beyond a proof of principle, we apply our MADM library to systematically
trace sister chromatid segregation in distinct mitotic cell lineages. We find
striking chromosome-specific biases in segregation patterns, reflecting a putative
mechanism for the asymmetric segregation of genetic determinants in somatic stem
cell division.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: PreCl
acknowledgement: We thank the Bioimaging, Life Science, and Pre-Clinical Facilities
at IST Austria; M.P. Postiglione, C. Simbriger, K. Valoskova, C. Schwayer, T. Hussain,
M. Pieber, and V. Wimmer for initial experiments, technical support, and/or assistance;
R. Shigemoto for sharing iv (Dnah11 mutant) mice; and M. Sixt and all members of
the Hippenmeyer lab for discussion. This work was supported by National Institutes
of Health grants ( R01-NS050580 to L.L. and F32MH096361 to L.A.S.). L.L. is an investigator
of HHMI. N.A. received support from FWF Firnberg-Programm ( T 1031 ). A.H.H. is
a recipient of a DOC Fellowship (24812) of the Austrian Academy of Sciences . This
work also received support from IST Austria institutional funds , FWF SFB F78 to
S.H., the People Programme (Marie Curie Actions) of the European Union’s Seventh
Framework Programme ( FP7/2007-2013 ) under REA grant agreement no 618444 to S.H.,
and the European Research Council (ERC) under the European Union’s Horizon 2020
Research and Innovation Programme (grant agreement no. 725780 LinPro ) to S.H.
article_number: '109274'
article_processing_charge: No
article_type: original
author:
- first_name: Ximena
full_name: Contreras, Ximena
id: 475990FE-F248-11E8-B48F-1D18A9856A87
last_name: Contreras
- first_name: Nicole
full_name: Amberg, Nicole
id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
last_name: Amberg
orcid: 0000-0002-3183-8207
- first_name: Amarbayasgalan
full_name: Davaatseren, Amarbayasgalan
id: 70ADC922-B424-11E9-99E3-BA18E6697425
last_name: Davaatseren
- first_name: Andi H
full_name: Hansen, Andi H
id: 38853E16-F248-11E8-B48F-1D18A9856A87
last_name: Hansen
- first_name: Johanna
full_name: Sonntag, Johanna
id: 32FE7D7C-F248-11E8-B48F-1D18A9856A87
last_name: Sonntag
- first_name: Lill
full_name: Andersen, Lill
last_name: Andersen
- first_name: Tina
full_name: Bernthaler, Tina
last_name: Bernthaler
- first_name: Carmen
full_name: Streicher, Carmen
id: 36BCB99C-F248-11E8-B48F-1D18A9856A87
last_name: Streicher
- first_name: Anna-Magdalena
full_name: Heger, Anna-Magdalena
id: 4B76FFD2-F248-11E8-B48F-1D18A9856A87
last_name: Heger
- first_name: Randy L.
full_name: Johnson, Randy L.
last_name: Johnson
- first_name: Lindsay A.
full_name: Schwarz, Lindsay A.
last_name: Schwarz
- first_name: Liqun
full_name: Luo, Liqun
last_name: Luo
- first_name: Thomas
full_name: Rülicke, Thomas
last_name: Rülicke
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Contreras X, Amberg N, Davaatseren A, et al. A genome-wide library of MADM
mice for single-cell genetic mosaic analysis. Cell Reports. 2021;35(12).
doi:10.1016/j.celrep.2021.109274
apa: Contreras, X., Amberg, N., Davaatseren, A., Hansen, A. H., Sonntag, J., Andersen,
L., … Hippenmeyer, S. (2021). A genome-wide library of MADM mice for single-cell
genetic mosaic analysis. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2021.109274
chicago: Contreras, Ximena, Nicole Amberg, Amarbayasgalan Davaatseren, Andi H Hansen,
Johanna Sonntag, Lill Andersen, Tina Bernthaler, et al. “A Genome-Wide Library
of MADM Mice for Single-Cell Genetic Mosaic Analysis.” Cell Reports. Cell
Press, 2021. https://doi.org/10.1016/j.celrep.2021.109274.
ieee: X. Contreras et al., “A genome-wide library of MADM mice for single-cell
genetic mosaic analysis,” Cell Reports, vol. 35, no. 12. Cell Press, 2021.
ista: Contreras X, Amberg N, Davaatseren A, Hansen AH, Sonntag J, Andersen L, Bernthaler
T, Streicher C, Heger A-M, Johnson RL, Schwarz LA, Luo L, Rülicke T, Hippenmeyer
S. 2021. A genome-wide library of MADM mice for single-cell genetic mosaic analysis.
Cell Reports. 35(12), 109274.
mla: Contreras, Ximena, et al. “A Genome-Wide Library of MADM Mice for Single-Cell
Genetic Mosaic Analysis.” Cell Reports, vol. 35, no. 12, 109274, Cell Press,
2021, doi:10.1016/j.celrep.2021.109274.
short: X. Contreras, N. Amberg, A. Davaatseren, A.H. Hansen, J. Sonntag, L. Andersen,
T. Bernthaler, C. Streicher, A.-M. Heger, R.L. Johnson, L.A. Schwarz, L. Luo,
T. Rülicke, S. Hippenmeyer, Cell Reports 35 (2021).
date_created: 2021-06-27T22:01:48Z
date_published: 2021-06-22T00:00:00Z
date_updated: 2026-04-02T14:04:28Z
day: '22'
ddc:
- '570'
department:
- _id: SiHi
- _id: LoSw
- _id: PreCl
doi: 10.1016/j.celrep.2021.109274
ec_funded: 1
external_id:
isi:
- '000664463600016'
pmid:
- '34161767'
file:
- access_level: open_access
checksum: d49520fdcbbb5c2f883bddb67cee5d77
content_type: application/pdf
creator: asandaue
date_created: 2021-06-28T14:06:24Z
date_updated: 2021-06-28T14:06:24Z
file_id: '9613'
file_name: 2021_CellReports_Contreras.pdf
file_size: 7653149
relation: main_file
success: 1
file_date_updated: 2021-06-28T14:06:24Z
fulldoi: https://doi.org/10.1016/j.celrep.2021.109274
has_accepted_license: '1'
intvolume: ' 35'
isi: 1
issue: '12'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2625A13E-B435-11E9-9278-68D0E5697425
grant_number: '24812'
name: Molecular mechanisms of radial neuronal migration
- _id: 25D61E48-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618444'
name: Molecular Mechanisms of Cerebral Cortex Development
- _id: 260018B0-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '725780'
name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: Cell Reports
publication_identifier:
eissn:
- 2211-1247
publication_status: published
publisher: Cell Press
quality_controlled: '1'
related_material:
link:
- description: News on IST Homepage
relation: press_release
url: https://ist.ac.at/en/news/boost-for-mouse-genetic-analysis/
scopus_import: '1'
status: public
title: A genome-wide library of MADM mice for single-cell genetic mosaic analysis
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: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 35
year: '2021'
...
---
_id: '9607'
abstract:
- lang: eng
text: While high risk of failure is an inherent part of developing innovative therapies,
it can be reduced by adherence to evidence-based rigorous research practices.
Numerous analyses conducted to date have clearly identified measures that need
to be taken to improve research rigor. Supported through the European Union's
Innovative Medicines Initiative, the EQIPD consortium has developed a novel preclinical
research quality system that can be applied in both public and private sectors
and is free for anyone to use. The EQIPD Quality System was designed to be suited
to boost innovation by ensuring the generation of robust and reliable preclinical
data while being lean, effective and not becoming a burden that could negatively
impact the freedom to explore scientific questions. EQIPD defines research quality
as the extent to which research data are fit for their intended use. Fitness,
in this context, is defined by the stakeholders, who are the scientists directly
involved in the research, but also their funders, sponsors, publishers, research
tool manufacturers and collaboration partners such as peers in a multi-site research
project. The essence of the EQIPD Quality System is the set of 18 core requirements
that can be addressed flexibly, according to user-specific needs and following
a user-defined trajectory. The EQIPD Quality System proposes guidance on expectations
for quality-related measures, defines criteria for adequate processes (i.e., performance
standards) and provides examples of how such measures can be developed and implemented.
However, it does not prescribe any pre-determined solutions. EQIPD has also developed
tools (for optional use) to support users in implementing the system and assessment
services for those research units that successfully implement the quality system
and seek formal accreditation. Building upon the feedback from users and continuous
improvement, a sustainable EQIPD Quality System will ultimately serve the entire
community of scientists conducting non-regulated preclinical research, by helping
them generate reliable data that are fit for their intended use.
acknowledgement: This project has received funding from the Innovative Medicines Initiative
2 Joint Undertaking under grant agreement No 777364. This Joint Undertaking receives
support from the European Union’s Horizon 2020 research and innovation programme
and EFPIA. The authors are very grateful to Martin Heinrich (Abbvie, Ludwigshafen,
Germany) for the exceptional IT support and programming the EQIPD Planning Tool
and the Creator Tool and to Dr Shai Silberberg (NINDS, USA), Dr. Renza Roncarati
(PAASP Italy) and Dr Judith Homberg (Radboud University, Nijmegen) for highly stimulating
contributions to the discussions and comments on earlier versions of this manuscript.
We also wish to express our thanks to Dr. Sara Stöber (concentris research management
GmbH, Fürstenfeldbruck, Germany) for excellent and continuous support of this project.
Creation of the EQIPD Stakeholder group was supported by Noldus Information Technology
bv (Wageningen, the Netherlands).
article_processing_charge: No
article_type: original
author:
- first_name: Anton
full_name: Bespalov, Anton
last_name: Bespalov
- first_name: René
full_name: Bernard, René
last_name: Bernard
- first_name: Anja
full_name: Gilis, Anja
last_name: Gilis
- first_name: Björn
full_name: Gerlach, Björn
last_name: Gerlach
- first_name: Javier
full_name: Guillén, Javier
last_name: Guillén
- first_name: Vincent
full_name: Castagné, Vincent
last_name: Castagné
- first_name: Isabel A.
full_name: Lefevre, Isabel A.
last_name: Lefevre
- first_name: Fiona
full_name: Ducrey, Fiona
last_name: Ducrey
- first_name: Lee
full_name: Monk, Lee
last_name: Monk
- first_name: Sandrine
full_name: Bongiovanni, Sandrine
last_name: Bongiovanni
- first_name: Bruce
full_name: Altevogt, Bruce
last_name: Altevogt
- first_name: María
full_name: Arroyo-Araujo, María
last_name: Arroyo-Araujo
- first_name: Lior
full_name: Bikovski, Lior
last_name: Bikovski
- first_name: Natasja
full_name: De Bruin, Natasja
last_name: De Bruin
- first_name: Esmeralda
full_name: Castaños-Vélez, Esmeralda
last_name: Castaños-Vélez
- first_name: Alexander
full_name: Dityatev, Alexander
last_name: Dityatev
- first_name: Christoph H.
full_name: Emmerich, Christoph H.
last_name: Emmerich
- first_name: Raafat
full_name: Fares, Raafat
last_name: Fares
- first_name: Chantelle
full_name: Ferland-Beckham, Chantelle
last_name: Ferland-Beckham
- first_name: Christelle
full_name: Froger-Colléaux, Christelle
last_name: Froger-Colléaux
- first_name: Valerie
full_name: Gailus-Durner, Valerie
last_name: Gailus-Durner
- first_name: Sabine M.
full_name: Hölter, Sabine M.
last_name: Hölter
- first_name: Martine Cj
full_name: Hofmann, Martine Cj
last_name: Hofmann
- first_name: Patricia
full_name: Kabitzke, Patricia
last_name: Kabitzke
- first_name: Martien Jh
full_name: Kas, Martien Jh
last_name: Kas
- first_name: Claudia
full_name: Kurreck, Claudia
last_name: Kurreck
- first_name: Paul
full_name: Moser, Paul
last_name: Moser
- first_name: Malgorzata
full_name: Pietraszek, Malgorzata
last_name: Pietraszek
- first_name: Piotr
full_name: Popik, Piotr
last_name: Popik
- first_name: Heidrun
full_name: Potschka, Heidrun
last_name: Potschka
- first_name: Ernesto
full_name: Prado Montes De Oca, Ernesto
last_name: Prado Montes De Oca
- first_name: Leonardo
full_name: Restivo, Leonardo
last_name: Restivo
- first_name: Gernot
full_name: Riedel, Gernot
last_name: Riedel
- first_name: Merel
full_name: Ritskes-Hoitinga, Merel
last_name: Ritskes-Hoitinga
- first_name: Janko
full_name: Samardzic, Janko
last_name: Samardzic
- first_name: Michael
full_name: Schunn, Michael
id: 4272DB4A-F248-11E8-B48F-1D18A9856A87
last_name: Schunn
orcid: 0000-0003-4326-5300
- first_name: Claudia
full_name: Stöger, Claudia
last_name: Stöger
- first_name: Vootele
full_name: Voikar, Vootele
last_name: Voikar
- first_name: Jan
full_name: Vollert, Jan
last_name: Vollert
- first_name: Kimberley E.
full_name: Wever, Kimberley E.
last_name: Wever
- first_name: Kathleen
full_name: Wuyts, Kathleen
last_name: Wuyts
- first_name: Malcolm R.
full_name: Macleod, Malcolm R.
last_name: Macleod
- first_name: Ulrich
full_name: Dirnagl, Ulrich
last_name: Dirnagl
- first_name: Thomas
full_name: Steckler, Thomas
last_name: Steckler
citation:
ama: Bespalov A, Bernard R, Gilis A, et al. Introduction to the EQIPD quality system.
eLife. 2021;10. doi:10.7554/eLife.63294
apa: Bespalov, A., Bernard, R., Gilis, A., Gerlach, B., Guillén, J., Castagné, V.,
… Steckler, T. (2021). Introduction to the EQIPD quality system. ELife.
eLife Sciences Publications. https://doi.org/10.7554/eLife.63294
chicago: Bespalov, Anton, René Bernard, Anja Gilis, Björn Gerlach, Javier Guillén,
Vincent Castagné, Isabel A. Lefevre, et al. “Introduction to the EQIPD Quality
System.” ELife. eLife Sciences Publications, 2021. https://doi.org/10.7554/eLife.63294.
ieee: A. Bespalov et al., “Introduction to the EQIPD quality system,” eLife,
vol. 10. eLife Sciences Publications, 2021.
ista: Bespalov A, Bernard R, Gilis A, Gerlach B, Guillén J, Castagné V, Lefevre
IA, Ducrey F, Monk L, Bongiovanni S, Altevogt B, Arroyo-Araujo M, Bikovski L,
De Bruin N, Castaños-Vélez E, Dityatev A, Emmerich CH, Fares R, Ferland-Beckham
C, Froger-Colléaux C, Gailus-Durner V, Hölter SM, Hofmann MC, Kabitzke P, Kas
MJ, Kurreck C, Moser P, Pietraszek M, Popik P, Potschka H, Prado Montes De Oca
E, Restivo L, Riedel G, Ritskes-Hoitinga M, Samardzic J, Schunn M, Stöger C, Voikar
V, Vollert J, Wever KE, Wuyts K, Macleod MR, Dirnagl U, Steckler T. 2021. Introduction
to the EQIPD quality system. eLife. 10.
mla: Bespalov, Anton, et al. “Introduction to the EQIPD Quality System.” ELife,
vol. 10, eLife Sciences Publications, 2021, doi:10.7554/eLife.63294.
short: A. Bespalov, R. Bernard, A. Gilis, B. Gerlach, J. Guillén, V. Castagné, I.A.
Lefevre, F. Ducrey, L. Monk, S. Bongiovanni, B. Altevogt, M. Arroyo-Araujo, L.
Bikovski, N. De Bruin, E. Castaños-Vélez, A. Dityatev, C.H. Emmerich, R. Fares,
C. Ferland-Beckham, C. Froger-Colléaux, V. Gailus-Durner, S.M. Hölter, M.C. Hofmann,
P. Kabitzke, M.J. Kas, C. Kurreck, P. Moser, M. Pietraszek, P. Popik, H. Potschka,
E. Prado Montes De Oca, L. Restivo, G. Riedel, M. Ritskes-Hoitinga, J. Samardzic,
M. Schunn, C. Stöger, V. Voikar, J. Vollert, K.E. Wever, K. Wuyts, M.R. Macleod,
U. Dirnagl, T. Steckler, ELife 10 (2021).
date_created: 2021-06-27T22:01:49Z
date_published: 2021-05-24T00:00:00Z
date_updated: 2026-04-02T13:55:57Z
day: '24'
ddc:
- '570'
department:
- _id: PreCl
doi: 10.7554/eLife.63294
external_id:
isi:
- '000661272000001'
pmid:
- '34028353'
file:
- access_level: open_access
checksum: 885b746051a7a6b6e24e3d2781a48fde
content_type: application/pdf
creator: asandaue
date_created: 2021-06-28T11:35:30Z
date_updated: 2021-06-28T11:35:30Z
file_id: '9609'
file_name: 2021_ELife_Bespalov.pdf
file_size: 2500720
relation: main_file
success: 1
file_date_updated: 2021-06-28T11:35:30Z
fulldoi: https://doi.org/10.7554/eLife.63294
has_accepted_license: '1'
intvolume: ' 10'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
eissn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Introduction to the EQIPD quality system
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: ba8df636-2132-11f1-aed0-ed93e2281fdd
volume: 10
year: '2021'
...
---
_id: '9822'
abstract:
- lang: eng
text: Attachment of adhesive molecules on cell culture surfaces to restrict cell
adhesion to defined areas and shapes has been vital for the progress of in vitro
research. In currently existing patterning methods, a combination of pattern properties
such as stability, precision, specificity, high-throughput outcome, and spatiotemporal
control is highly desirable but challenging to achieve. Here, we introduce a versatile
and high-throughput covalent photoimmobilization technique, comprising a light-dose-dependent
patterning step and a subsequent functionalization of the pattern via click chemistry.
This two-step process is feasible on arbitrary surfaces and allows for generation
of sustainable patterns and gradients. The method is validated in different biological
systems by patterning adhesive ligands on cell-repellent surfaces, thereby constraining
the growth and migration of cells to the designated areas. We then implement a
sequential photopatterning approach by adding a second switchable patterning step,
allowing for spatiotemporal control over two distinct surface patterns. As a proof
of concept, we reconstruct the dynamics of the tip/stalk cell switch during angiogenesis.
Our results show that the spatiotemporal control provided by our “sequential photopatterning”
system is essential for mimicking dynamic biological processes and that our innovative
approach has great potential for further applications in cell science.
acknowledgement: We would like to thank Charlott Leu for the production of our chromium
wafers, Louise Ritter for her contribution of the IF stainings in Figure 4, Shokoufeh
Teymouri for her help with the Bioinert coated slides, and finally Prof. Dr. Joachim
Rädler for his valuable scientific guidance.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Themistoklis
full_name: Zisis, Themistoklis
last_name: Zisis
- first_name: Jan
full_name: Schwarz, Jan
id: 346C1EC6-F248-11E8-B48F-1D18A9856A87
last_name: Schwarz
- first_name: Miriam
full_name: Balles, Miriam
last_name: Balles
- first_name: Maibritt
full_name: Kretschmer, Maibritt
last_name: Kretschmer
- first_name: Maria
full_name: Nemethova, Maria
id: 34E27F1C-F248-11E8-B48F-1D18A9856A87
last_name: Nemethova
- first_name: Remy P
full_name: Chait, Remy P
id: 3464AE84-F248-11E8-B48F-1D18A9856A87
last_name: Chait
orcid: 0000-0003-0876-3187
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Janina
full_name: Lange, Janina
last_name: Lange
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-4561-241X
- first_name: Stefan
full_name: Zahler, Stefan
last_name: Zahler
citation:
ama: Zisis T, Schwarz J, Balles M, et al. Sequential and switchable patterning for
studying cellular processes under spatiotemporal control. ACS Applied Materials
and Interfaces. 2021;13(30):35545–35560. doi:10.1021/acsami.1c09850
apa: Zisis, T., Schwarz, J., Balles, M., Kretschmer, M., Nemethova, M., Chait, R.
P., … Zahler, S. (2021). Sequential and switchable patterning for studying cellular
processes under spatiotemporal control. ACS Applied Materials and Interfaces.
American Chemical Society. https://doi.org/10.1021/acsami.1c09850
chicago: Zisis, Themistoklis, Jan Schwarz, Miriam Balles, Maibritt Kretschmer, Maria
Nemethova, Remy P Chait, Robert Hauschild, et al. “Sequential and Switchable Patterning
for Studying Cellular Processes under Spatiotemporal Control.” ACS Applied
Materials and Interfaces. American Chemical Society, 2021. https://doi.org/10.1021/acsami.1c09850.
ieee: T. Zisis et al., “Sequential and switchable patterning for studying
cellular processes under spatiotemporal control,” ACS Applied Materials and
Interfaces, vol. 13, no. 30. American Chemical Society, pp. 35545–35560, 2021.
ista: Zisis T, Schwarz J, Balles M, Kretschmer M, Nemethova M, Chait RP, Hauschild
R, Lange J, Guet CC, Sixt MK, Zahler S. 2021. Sequential and switchable patterning
for studying cellular processes under spatiotemporal control. ACS Applied Materials
and Interfaces. 13(30), 35545–35560.
mla: Zisis, Themistoklis, et al. “Sequential and Switchable Patterning for Studying
Cellular Processes under Spatiotemporal Control.” ACS Applied Materials and
Interfaces, vol. 13, no. 30, American Chemical Society, 2021, pp. 35545–35560,
doi:10.1021/acsami.1c09850.
short: T. Zisis, J. Schwarz, M. Balles, M. Kretschmer, M. Nemethova, R.P. Chait,
R. Hauschild, J. Lange, C.C. Guet, M.K. Sixt, S. Zahler, ACS Applied Materials
and Interfaces 13 (2021) 35545–35560.
corr_author: '1'
date_created: 2021-08-08T22:01:28Z
date_published: 2021-08-04T00:00:00Z
date_updated: 2025-07-10T12:02:02Z
day: '04'
ddc:
- '620'
- '570'
department:
- _id: MiSi
- _id: GaTk
- _id: Bio
- _id: CaGu
doi: 10.1021/acsami.1c09850
ec_funded: 1
external_id:
isi:
- '000683741400026'
pmid:
- '34283577'
file:
- access_level: open_access
checksum: b043a91d9f9200e467b970b692687ed3
content_type: application/pdf
creator: asandaue
date_created: 2021-08-09T09:44:03Z
date_updated: 2021-08-09T09:44:03Z
file_id: '9833'
file_name: 2021_ACSAppliedMaterialsAndInterfaces_Zisis.pdf
file_size: 7123293
relation: main_file
success: 1
file_date_updated: 2021-08-09T09:44:03Z
fulldoi: https://doi.org/10.1021/acsami.1c09850
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
issue: '30'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 35545–35560
pmid: 1
project:
- _id: 25FE9508-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '724373'
name: Cellular Navigation Along Spatial Gradients
publication: ACS Applied Materials and 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: Sequential and switchable patterning for studying cellular processes under
spatiotemporal control
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2021'
...