---
_id: '18296'
abstract:
- lang: eng
text: It is widely believed that information storage in neuronal circuits involves
nanoscopic structural changes at synapses, resulting in the formation of synaptic
engrams. However, direct evidence for this hypothesis is lacking. To test this
conjecture, we combined chemical potentiation, functional analysis by paired pre-postsynaptic
recordings, and structural analysis by electron microscopy (EM) and freeze-fracture
replica labeling (FRL) at the murine hippocampal mossy fiber synapse, a key synapse
in the trisynaptic circuit of the hippocampus. Biophysical analysis of synaptic
transmission revealed that forskolin-induced chemical potentiation increased the
readily releasable vesicle pool size and vesicular release probability by 146%
and 49%, respectively. Structural analysis of mossy fiber synapses by EM and FRL
demonstrated an increase in the number of vesicles close to the plasma membrane
and the number of clusters of the priming protein Munc13-1, indicating an increase
in the number of both docked and primed vesicles. Furthermore, FRL analysis revealed
a significant reduction of the distance between Munc13-1 and CaV2.1 Ca2+ channels,
suggesting reconfiguration of the channel-vesicle coupling nanotopography. Our
results indicate that presynaptic plasticity is associated with structural reorganization
of active zones. We propose that changes in potential nanoscopic organization
at synaptic vesicle release sites may be correlates of learning and memory at
a plastic central synapse.
article_processing_charge: No
author:
- first_name: Olena
full_name: Kim, Olena
id: 3F8ABDDA-F248-11E8-B48F-1D18A9856A87
last_name: Kim
orcid: 0000-0003-2344-1039
citation:
ama: Kim O. Presynaptic cAMP-PKA-mediated potentiation induces reconfiguration of
synaptic vesicle pools and channel-vesicle coupling at hippocampal mossy fiber
boutons. 2024. doi:10.15479/AT:ISTA:18296
apa: Kim, O. (2024). Presynaptic cAMP-PKA-mediated potentiation induces reconfiguration
of synaptic vesicle pools and channel-vesicle coupling at hippocampal mossy fiber
boutons. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:18296
chicago: Kim, Olena. “Presynaptic CAMP-PKA-Mediated Potentiation Induces Reconfiguration
of Synaptic Vesicle Pools and Channel-Vesicle Coupling at Hippocampal Mossy Fiber
Boutons.” Institute of Science and Technology Austria, 2024. https://doi.org/10.15479/AT:ISTA:18296.
ieee: O. Kim, “Presynaptic cAMP-PKA-mediated potentiation induces reconfiguration
of synaptic vesicle pools and channel-vesicle coupling at hippocampal mossy fiber
boutons.” Institute of Science and Technology Austria, 2024.
ista: Kim O. 2024. Presynaptic cAMP-PKA-mediated potentiation induces reconfiguration
of synaptic vesicle pools and channel-vesicle coupling at hippocampal mossy fiber
boutons, Institute of Science and Technology Austria, 10.15479/AT:ISTA:18296.
mla: Kim, Olena. Presynaptic CAMP-PKA-Mediated Potentiation Induces Reconfiguration
of Synaptic Vesicle Pools and Channel-Vesicle Coupling at Hippocampal Mossy Fiber
Boutons. Institute of Science and Technology Austria, 2024, doi:10.15479/AT:ISTA:18296.
short: O. Kim, (2024).
contributor:
- contributor_type: researcher
first_name: Olena
id: 3F8ABDDA-F248-11E8-B48F-1D18A9856A87
last_name: Kim
- contributor_type: researcher
first_name: Yuji
id: 3337E116-F248-11E8-B48F-1D18A9856A87
last_name: Okamoto
orcid: 0000-0003-0408-6094
- contributor_type: researcher
first_name: Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- contributor_type: researcher
first_name: 'Nils '
last_name: Brose
- contributor_type: researcher
first_name: Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- contributor_type: supervisor
first_name: Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
corr_author: '1'
date_created: 2024-10-11T10:12:17Z
date_published: 2024-10-11T00:00:00Z
date_updated: 2026-04-16T12:20:33Z
day: '11'
ddc:
- '570'
department:
- _id: PeJo
- _id: RySh
- _id: EM-Fac
doi: 10.15479/AT:ISTA:18296
ec_funded: 1
file:
- access_level: open_access
checksum: 0a977e7df54c418251b10dfd3f8a015c
content_type: application/zip
creator: okim
date_created: 2024-10-11T10:04:19Z
date_updated: 2024-10-11T10:04:19Z
file_id: '18297'
file_name: Kim_et_al_2024_PlosBio_Source_data.zip
file_size: 164382
relation: main_file
success: 1
- access_level: open_access
checksum: 5b9343d6b2035ac3185e390fad4d3830
content_type: text/plain
creator: okim
date_created: 2024-10-11T10:04:23Z
date_updated: 2024-10-11T10:04:23Z
file_id: '18298'
file_name: info.txt
file_size: 654
relation: main_file
success: 1
file_date_updated: 2024-10-11T10:04:23Z
has_accepted_license: '1'
keyword:
- Hippocampal mossy fiber synapses
- short-term potentiation
- long-term potentiation
- presynaptic plasticity
- electron microscopy
- freeze-fracture replica labeling
- paired recordings
- forskolin
- cyclic adenosine monophosphate (cAMP)
- protein kinase A (PKA)
- neuromodulation
- synaptic vesicle pools
- presynaptic Ca2+ channels
- Munc13
- docking
- priming
- active zone
month: '10'
oa: 1
oa_version: Submitted Version
project:
- _id: 25B7EB9E-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '692692'
name: Biophysics and circuit function of a giant cortical glutamatergic synapse
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '18603'
relation: used_in_publication
status: public
status: public
title: Presynaptic cAMP-PKA-mediated potentiation induces reconfiguration of synaptic
vesicle pools and channel-vesicle coupling at hippocampal mossy fiber boutons
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: research_data
user_id: 68b8ca59-c5b3-11ee-8790-cd641c68093d
year: '2024'
...
---
OA_place: publisher
_id: '14510'
abstract:
- lang: eng
text: "Clathrin-mediated endocytosis (CME) is vital for the regulation of plant
growth and\r\ndevelopment by controlling plasma membrane protein composition and
cargo uptake. CME\r\nrelies on the precise recruitment control of protein regulators
for vesicle maturation and\r\nrelease. During the early stages of endocytosis,
an area of flat membrane is remodelled by\r\nproteins to create a spherical vesicle
against intracellular forces. After the Clathrin-coated\r\nvesicle (CCV) is fully
formed, scission machinery releases it from the plasma membrane,\r\nand cargo
proceeds for recycling or degradation through early endosomes / Trans Golgi\r\nnetwork.
Protein machineries that mediate membrane bending and vesicle release in plants\r\nare
unknown. However, studies show, that plant endocytosis is actin independent, thus\r\nindicating
that plants utilize a unique mechanism to mediate membrane bending against highturgor
pressure compared to other model systems. First, by using biochemical and advanced\r\nlive
microscopy approaches we investigate the TPLATE complex, a plant-specific\r\nendocytosis
protein complex. We found that TPLATE is peripherally associated with\r\nclathrin-coated
vesicles and localises at the rim of endocytosis events. Next, our study of\r\nplant
Dynamin-related protein 1C (DRP1C), which was hypothesised previously to play
a\r\nrole in vesicle release, shows the recruitment of the protein already at
the early stages of\r\nendocytosis. Moreover, DRP1C assembles into organised ring-like
structures and is able to\r\ninduce membrane deformation and tubulation, suggesting
its role also in membrane bending\r\nduring early CME. Based on the data from
mammalian and yeast systems, plant DynaminRelated Proteins 2 and SH3P2 protein
are strong candidates to be part of the plant vesicle\r\nscission machinery; however,
their precise role in plant CME has not been yet elucidated.\r\nHere, we characterised
DRP2s and SH3P2 roles in CME by combining high-resolution\r\nimaging of endocytic
events in vivo and protein characterisation. Although DRP2s and\r\nSH3P2 arrive
together during late CME and physically interact, genetic analysis using\r\n∆sh3p1,2,3
mutant and complementation with non-DRP2-interacting SH3P2 variants suggest\r\nthat
SH3P2 does not directly recruit DRP2s to the site of endocytosis. Summarising
our\r\nresearch, these observations provide new important insights into the mechanism
of plant\r\nCME and show that, despite plants posses many homologues of mammalian
and yeast CME\r\ncomponents, they do not necessarily act in the same manner. "
acknowledged_ssus:
- _id: EM-Fac
- _id: Bio
- _id: LifeSc
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Nataliia
full_name: Gnyliukh, Nataliia
id: 390C1120-F248-11E8-B48F-1D18A9856A87
last_name: Gnyliukh
orcid: 0000-0002-2198-0509
citation:
ama: Gnyliukh N. Mechanism of clathrin-coated vesicle formation during endocytosis
in plants. 2023. doi:10.15479/at:ista:14510
apa: Gnyliukh, N. (2023). Mechanism of clathrin-coated vesicle formation during
endocytosis in plants. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:14510
chicago: Gnyliukh, Nataliia. “Mechanism of Clathrin-Coated Vesicle Formation during
Endocytosis in Plants.” Institute of Science and Technology Austria, 2023. https://doi.org/10.15479/at:ista:14510.
ieee: N. Gnyliukh, “Mechanism of clathrin-coated vesicle formation during endocytosis
in plants,” Institute of Science and Technology Austria, 2023.
ista: Gnyliukh N. 2023. Mechanism of clathrin-coated vesicle formation during endocytosis
in plants. Institute of Science and Technology Austria.
mla: Gnyliukh, Nataliia. Mechanism of Clathrin-Coated Vesicle Formation during
Endocytosis in Plants. Institute of Science and Technology Austria, 2023,
doi:10.15479/at:ista:14510.
short: N. Gnyliukh, Mechanism of Clathrin-Coated Vesicle Formation during Endocytosis
in Plants, Institute of Science and Technology Austria, 2023.
corr_author: '1'
date_created: 2023-11-10T09:10:06Z
date_published: 2023-11-10T00:00:00Z
date_updated: 2026-04-22T22:30:33Z
day: '10'
ddc:
- '570'
degree_awarded: PhD
department:
- _id: GradSch
- _id: JiFr
- _id: MaLo
doi: 10.15479/at:ista:14510
ec_funded: 1
file:
- access_level: closed
checksum: 3d5e680bfc61f98e308c434f45cc9bd6
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
creator: ngnyliuk
date_created: 2023-11-20T09:18:51Z
date_updated: 2024-11-23T23:30:38Z
embargo_to: open_access
file_id: '14567'
file_name: Thesis_Gnyliukh_final_08_11_23.docx
file_size: 20824903
relation: source_file
- access_level: open_access
checksum: bfc96d47fc4e7e857dd71656097214a4
content_type: application/pdf
creator: ngnyliuk
date_created: 2023-11-20T09:23:11Z
date_updated: 2024-11-23T23:30:38Z
embargo: 2024-11-23
file_id: '14568'
file_name: Thesis_Gnyliukh_final_20_11_23.pdf
file_size: 24871844
relation: main_file
file_date_updated: 2024-11-23T23:30:38Z
has_accepted_license: '1'
keyword:
- Clathrin-Mediated Endocytosis
- vesicle scission
- Dynamin-Related Protein 2
- SH3P2
- TPLATE complex
- Total internal reflection fluorescence microscopy
- Arabidopsis thaliana
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: '180'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
publication_identifier:
isbn:
- 978-3-99078-037-4
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '14591'
relation: part_of_dissertation
status: public
- id: '9887'
relation: part_of_dissertation
status: public
- id: '8139'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
title: Mechanism of clathrin-coated vesicle formation during endocytosis in plants
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: dissertation
user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd
year: '2023'
...
---
OA_place: publisher
OA_type: free access
_id: '10406'
abstract:
- lang: eng
text: Multicellular organisms develop complex shapes from much simpler, single-celled
zygotes through a process commonly called morphogenesis. Morphogenesis involves
an interplay between several factors, ranging from the gene regulatory networks
determining cell fate and differentiation to the mechanical processes underlying
cell and tissue shape changes. Thus, the study of morphogenesis has historically
been based on multidisciplinary approaches at the interface of biology with physics
and mathematics. Recent technological advances have further improved our ability
to study morphogenesis by bridging the gap between the genetic and biophysical
factors through the development of new tools for visualizing, analyzing, and perturbing
these factors and their biochemical intermediaries. Here, we review how a combination
of genetic, microscopic, biophysical, and biochemical approaches has aided our
attempts to understand morphogenesis and discuss potential approaches that may
be beneficial to such an inquiry in the future.
acknowledgement: The authors would like to thank Feyza Nur Arslan, Suyash Naik, Diana
Pinheiro, Alexandra Schauer, and Shayan Shamipour for their comments on the draft.
N.M. is supported by an ISTplus postdoctoral fellowship (H2020 Marie-Sklodowska-Curie
COFUND Action).
article_processing_charge: No
article_type: original
author:
- first_name: Nikhil
full_name: Mishra, Nikhil
id: C4D70E82-1081-11EA-B3ED-9A4C3DDC885E
last_name: Mishra
orcid: 0000-0002-6425-5788
- first_name: Carl-Philipp J
full_name: Heisenberg, Carl-Philipp J
id: 39427864-F248-11E8-B48F-1D18A9856A87
last_name: Heisenberg
orcid: 0000-0002-0912-4566
citation:
ama: Mishra N, Heisenberg C-PJ. Dissecting organismal morphogenesis by bridging
genetics and biophysics. Annual Review of Genetics. 2021;55:209-233. doi:10.1146/annurev-genet-071819-103748
apa: Mishra, N., & Heisenberg, C.-P. J. (2021). Dissecting organismal morphogenesis
by bridging genetics and biophysics. Annual Review of Genetics. Annual
Reviews. https://doi.org/10.1146/annurev-genet-071819-103748
chicago: Mishra, Nikhil, and Carl-Philipp J Heisenberg. “Dissecting Organismal Morphogenesis
by Bridging Genetics and Biophysics.” Annual Review of Genetics. Annual
Reviews, 2021. https://doi.org/10.1146/annurev-genet-071819-103748.
ieee: N. Mishra and C.-P. J. Heisenberg, “Dissecting organismal morphogenesis by
bridging genetics and biophysics,” Annual Review of Genetics, vol. 55.
Annual Reviews, pp. 209–233, 2021.
ista: Mishra N, Heisenberg C-PJ. 2021. Dissecting organismal morphogenesis by bridging
genetics and biophysics. Annual Review of Genetics. 55, 209–233.
mla: Mishra, Nikhil, and Carl-Philipp J. Heisenberg. “Dissecting Organismal Morphogenesis
by Bridging Genetics and Biophysics.” Annual Review of Genetics, vol. 55,
Annual Reviews, 2021, pp. 209–33, doi:10.1146/annurev-genet-071819-103748.
short: N. Mishra, C.-P.J. Heisenberg, Annual Review of Genetics 55 (2021) 209–233.
corr_author: '1'
date_created: 2021-12-05T23:01:41Z
date_published: 2021-08-30T00:00:00Z
date_updated: 2025-06-25T09:03:21Z
day: '30'
department:
- _id: CaHe
doi: 10.1146/annurev-genet-071819-103748
ec_funded: 1
external_id:
isi:
- '000747220900010'
pmid:
- '34460295'
intvolume: ' 55'
isi: 1
keyword:
- morphogenesis
- forward genetics
- high-resolution microscopy
- biophysics
- biochemistry
- patterning
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1146/annurev-genet-071819-103748
month: '08'
oa: 1
oa_version: Published Version
page: 209-233
pmid: 1
project:
- _id: 260C2330-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '754411'
name: ISTplus - Postdoctoral Fellowships
publication: Annual Review of Genetics
publication_identifier:
eissn:
- 1545-2948
issn:
- 0066-4197
publication_status: published
publisher: Annual Reviews
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dissecting organismal morphogenesis by bridging genetics and biophysics
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 55
year: '2021'
...
---
_id: '9756'
abstract:
- lang: eng
text: High-resolution visualization and quantification of membrane proteins contribute
to the understanding of their functions and the roles they play in physiological
and pathological conditions. Sodium dodecyl sulfate-digested freeze-fracture replica
labeling (SDS-FRL) is a powerful electron microscopy method to study quantitatively
the two-dimensional distribution of transmembrane proteins and their tightly associated
proteins. During treatment with SDS, intracellular organelles and proteins not
anchored to the replica are dissolved, whereas integral membrane proteins captured
and stabilized by carbon/platinum deposition remain on the replica. Their intra-
and extracellular domains become exposed on the surface of the replica, facilitating
the accessibility of antibodies and, therefore, providing higher labeling efficiency
than those obtained with other immunoelectron microscopy techniques. In this chapter,
we describe the protocols of SDS-FRL adapted for mammalian brain samples, and
optimization of the SDS treatment to increase the labeling efficiency for quantification
of Cav2.1, the alpha subunit of P/Q-type voltage-dependent calcium channels utilizing
deep learning algorithms.
acknowledgement: This work was supported by the European Union (European Research
Council Advanced grant no. 694539 and Human Brain Project Ref. 720270 to R. S.)
and the Austrian Academy of Sciences (DOC fellowship to D.K.).
alternative_title:
- Neuromethods
article_processing_charge: No
author:
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: David
full_name: Kleindienst, David
id: 42E121A4-F248-11E8-B48F-1D18A9856A87
last_name: Kleindienst
- first_name: Harumi
full_name: Harada, Harumi
id: 2E55CDF2-F248-11E8-B48F-1D18A9856A87
last_name: Harada
orcid: 0000-0001-7429-7896
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
citation:
ama: 'Kaufmann W, Kleindienst D, Harada H, Shigemoto R. High-Resolution localization
and quantitation of membrane proteins by SDS-digested freeze-fracture replica
labeling (SDS-FRL). In: Receptor and Ion Channel Detection in the Brain.
Vol 169. Neuromethods. New York: Humana; 2021:267-283. doi:10.1007/978-1-0716-1522-5_19'
apa: 'Kaufmann, W., Kleindienst, D., Harada, H., & Shigemoto, R. (2021). High-Resolution
localization and quantitation of membrane proteins by SDS-digested freeze-fracture
replica labeling (SDS-FRL). In Receptor and Ion Channel Detection in the Brain
(Vol. 169, pp. 267–283). New York: Humana. https://doi.org/10.1007/978-1-0716-1522-5_19'
chicago: 'Kaufmann, Walter, David Kleindienst, Harumi Harada, and Ryuichi Shigemoto.
“High-Resolution Localization and Quantitation of Membrane Proteins by SDS-Digested
Freeze-Fracture Replica Labeling (SDS-FRL).” In Receptor and Ion Channel Detection
in the Brain, 169:267–83. Neuromethods. New York: Humana, 2021. https://doi.org/10.1007/978-1-0716-1522-5_19.'
ieee: 'W. Kaufmann, D. Kleindienst, H. Harada, and R. Shigemoto, “High-Resolution
localization and quantitation of membrane proteins by SDS-digested freeze-fracture
replica labeling (SDS-FRL),” in Receptor and Ion Channel Detection in the
Brain, vol. 169, New York: Humana, 2021, pp. 267–283.'
ista: 'Kaufmann W, Kleindienst D, Harada H, Shigemoto R. 2021.High-Resolution localization
and quantitation of membrane proteins by SDS-digested freeze-fracture replica
labeling (SDS-FRL). In: Receptor and Ion Channel Detection in the Brain. Neuromethods,
vol. 169, 267–283.'
mla: Kaufmann, Walter, et al. “High-Resolution Localization and Quantitation of
Membrane Proteins by SDS-Digested Freeze-Fracture Replica Labeling (SDS-FRL).”
Receptor and Ion Channel Detection in the Brain, vol. 169, Humana, 2021,
pp. 267–83, doi:10.1007/978-1-0716-1522-5_19.
short: W. Kaufmann, D. Kleindienst, H. Harada, R. Shigemoto, in:, Receptor and
Ion Channel Detection in the Brain, Humana, New York, 2021, pp. 267–283.
corr_author: '1'
date_created: 2021-07-30T09:34:56Z
date_published: 2021-07-27T00:00:00Z
date_updated: 2026-04-22T22:30:41Z
day: '27'
ddc:
- '573'
department:
- _id: RySh
- _id: EM-Fac
doi: 10.1007/978-1-0716-1522-5_19
ec_funded: 1
has_accepted_license: '1'
intvolume: ' 169'
keyword:
- 'Freeze-fracture replica: Deep learning'
- Immunogold labeling
- Integral membrane protein
- Electron microscopy
language:
- iso: eng
month: '07'
oa_version: None
page: 267-283
place: New York
project:
- _id: 25CA28EA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '694539'
name: 'In situ analysis of single channel subunit composition in neurons: physiological
implication in synaptic plasticity and behaviour'
- _id: 25CBA828-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '720270'
name: Human Brain Project Specific Grant Agreement 1
publication: ' Receptor and Ion Channel Detection in the Brain'
publication_identifier:
eisbn:
- '9781071615225'
isbn:
- '9781071615218'
publication_status: published
publisher: Humana
quality_controlled: '1'
related_material:
record:
- id: '9562'
relation: dissertation_contains
status: public
scopus_import: '1'
series_title: Neuromethods
status: public
title: High-Resolution localization and quantitation of membrane proteins by SDS-digested
freeze-fracture replica labeling (SDS-FRL)
type: book_chapter
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 169
year: '2021'
...
---
_id: '8586'
abstract:
- lang: eng
text: Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights
into biological processes and structures within a native context. However, a major
challenge still lies in the efficient and reproducible preparation of adherent
cells for subsequent cryo-EM analysis. This is due to the sensitivity of many
cellular specimens to the varying seeding and culturing conditions required for
EM experiments, the often limited amount of cellular material and also the fragility
of EM grids and their substrate. Here, we present low-cost and reusable 3D printed
grid holders, designed to improve specimen preparation when culturing challenging
cellular samples directly on grids. The described grid holders increase cell culture
reproducibility and throughput, and reduce the resources required for cell culturing.
We show that grid holders can be integrated into various cryo-EM workflows, including
micro-patterning approaches to control cell seeding on grids, and for generating
samples for cryo-focused ion beam milling and cryo-electron tomography experiments.
Their adaptable design allows for the generation of specialized grid holders customized
to a large variety of applications.
acknowledged_ssus:
- _id: ScienComp
- _id: LifeSc
- _id: Bio
- _id: EM-Fac
acknowledgement: This work was supported by the Austrian Science Fund (FWF, P33367)
to FKMS. BZ acknowledges support by the Niederösterreich Fond. This research was
also supported by the Scientific Service Units (SSU) of IST Austria through resources
provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the
BioImaging Facility (BIF) and the Electron Microscopy Facility (EMF). We thank Georgi
Dimchev (IST Austria) and Sonja Jacob (Vienna Biocenter Core Facilities) for testing
our grid holders in different experimental setups and Daniel Gütl and the Kondrashov
group (IST Austria) for granting us repeated access to their 3D printers. We also
thank Jonna Alanko and the Sixt lab (IST Austria) for providing us HeLa cells, primary
BL6 mouse tail fibroblasts, NIH 3T3 fibroblasts and human telomerase immortalised
foreskin fibroblasts for our experiments. We are thankful to Ori Avinoam and William
Wan for helpful comments on the manuscript and also thank Dorotea Fracchiolla (Art&Science)
for illustrating the graphical abstract.
article_number: '107633'
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Florian
full_name: Fäßler, Florian
id: 404F5528-F248-11E8-B48F-1D18A9856A87
last_name: Fäßler
orcid: 0000-0001-7149-769X
- first_name: Bettina
full_name: Zens, Bettina
id: 45FD126C-F248-11E8-B48F-1D18A9856A87
last_name: Zens
orcid: 0000-0002-9561-1239
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Florian KM
full_name: Schur, Florian KM
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
citation:
ama: Fäßler F, Zens B, Hauschild R, Schur FK. 3D printed cell culture grid holders
for improved cellular specimen preparation in cryo-electron microscopy. Journal
of Structural Biology. 2020;212(3). doi:10.1016/j.jsb.2020.107633
apa: Fäßler, F., Zens, B., Hauschild, R., & Schur, F. K. (2020). 3D printed
cell culture grid holders for improved cellular specimen preparation in cryo-electron
microscopy. Journal of Structural Biology. Elsevier. https://doi.org/10.1016/j.jsb.2020.107633
chicago: Fäßler, Florian, Bettina Zens, Robert Hauschild, and Florian KM Schur.
“3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation
in Cryo-Electron Microscopy.” Journal of Structural Biology. Elsevier,
2020. https://doi.org/10.1016/j.jsb.2020.107633.
ieee: F. Fäßler, B. Zens, R. Hauschild, and F. K. Schur, “3D printed cell culture
grid holders for improved cellular specimen preparation in cryo-electron microscopy,”
Journal of Structural Biology, vol. 212, no. 3. Elsevier, 2020.
ista: Fäßler F, Zens B, Hauschild R, Schur FK. 2020. 3D printed cell culture grid
holders for improved cellular specimen preparation in cryo-electron microscopy.
Journal of Structural Biology. 212(3), 107633.
mla: Fäßler, Florian, et al. “3D Printed Cell Culture Grid Holders for Improved
Cellular Specimen Preparation in Cryo-Electron Microscopy.” Journal of Structural
Biology, vol. 212, no. 3, 107633, Elsevier, 2020, doi:10.1016/j.jsb.2020.107633.
short: F. Fäßler, B. Zens, R. Hauschild, F.K. Schur, Journal of Structural Biology
212 (2020).
corr_author: '1'
date_created: 2020-09-29T13:24:06Z
date_published: 2020-12-01T00:00:00Z
date_updated: 2026-04-22T22:30:20Z
day: '01'
ddc:
- '570'
department:
- _id: FlSc
doi: 10.1016/j.jsb.2020.107633
external_id:
isi:
- '000600997800008'
pmid:
- '32987119'
file:
- access_level: open_access
checksum: c48cbf594e84fc2f91966ffaafc0918c
content_type: application/pdf
creator: dernst
date_created: 2020-12-10T14:01:10Z
date_updated: 2020-12-10T14:01:10Z
file_id: '8937'
file_name: 2020_JourStrucBiology_Faessler.pdf
file_size: 7076870
relation: main_file
success: 1
file_date_updated: 2020-12-10T14:01:10Z
has_accepted_license: '1'
intvolume: ' 212'
isi: 1
issue: '3'
keyword:
- electron microscopy
- cryo-EM
- EM sample preparation
- 3D printing
- cell culture
language:
- iso: eng
month: '12'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 9B954C5C-BA93-11EA-9121-9846C619BF3A
grant_number: P33367
name: Structure and isoform diversity of the Arp2/3 complex
- _id: 059B463C-7A3F-11EA-A408-12923DDC885E
name: NÖ-Fonds Preis für die Jungforscherin des Jahres am IST Austria
publication: Journal of Structural Biology
publication_identifier:
issn:
- 1047-8477
publication_status: published
publisher: Elsevier
quality_controlled: '1'
related_material:
record:
- id: '14592'
relation: used_in_publication
status: public
- id: '12491'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 3D printed cell culture grid holders for improved cellular specimen preparation
in cryo-electron microscopy
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: 212
year: '2020'
...
---
_id: '11222'
acknowledgement: This work was supported by the ERC and EU Horizon 2020 (ERC 692692;
MSC-IF 708497) and FWF Z 312-B27 Wittgenstein award; W 1205-B09).
article_number: A3.27
article_processing_charge: No
author:
- first_name: Olena
full_name: Kim, Olena
id: 3F8ABDDA-F248-11E8-B48F-1D18A9856A87
last_name: Kim
orcid: 0000-0003-2344-1039
- first_name: Carolina
full_name: Borges Merjane, Carolina
id: 4305C450-F248-11E8-B48F-1D18A9856A87
last_name: Borges Merjane
orcid: 0000-0003-0005-401X
- first_name: Peter M
full_name: Jonas, Peter M
id: 353C1B58-F248-11E8-B48F-1D18A9856A87
last_name: Jonas
orcid: 0000-0001-5001-4804
citation:
ama: 'Kim O, Borges Merjane C, Jonas PM. Functional analysis of the docked vesicle
pool in hippocampal mossy fiber terminals by electron microscopy. In: Intrinsic
Activity. Vol 7. Austrian Pharmacological Society; 2019. doi:10.25006/ia.7.s1-a3.27'
apa: 'Kim, O., Borges Merjane, C., & Jonas, P. M. (2019). Functional analysis
of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy.
In Intrinsic Activity (Vol. 7). Innsbruck, Austria: Austrian Pharmacological
Society. https://doi.org/10.25006/ia.7.s1-a3.27'
chicago: Kim, Olena, Carolina Borges Merjane, and Peter M Jonas. “Functional Analysis
of the Docked Vesicle Pool in Hippocampal Mossy Fiber Terminals by Electron Microscopy.”
In Intrinsic Activity, Vol. 7. Austrian Pharmacological Society, 2019.
https://doi.org/10.25006/ia.7.s1-a3.27.
ieee: O. Kim, C. Borges Merjane, and P. M. Jonas, “Functional analysis of the docked
vesicle pool in hippocampal mossy fiber terminals by electron microscopy,” in
Intrinsic Activity, Innsbruck, Austria, 2019, vol. 7, no. Suppl. 1.
ista: 'Kim O, Borges Merjane C, Jonas PM. 2019. Functional analysis of the docked
vesicle pool in hippocampal mossy fiber terminals by electron microscopy. Intrinsic
Activity. ANA: Austrian Neuroscience Association ; APHAR: Austrian Pharmacological
Society vol. 7, A3.27.'
mla: Kim, Olena, et al. “Functional Analysis of the Docked Vesicle Pool in Hippocampal
Mossy Fiber Terminals by Electron Microscopy.” Intrinsic Activity, vol.
7, no. Suppl. 1, A3.27, Austrian Pharmacological Society, 2019, doi:10.25006/ia.7.s1-a3.27.
short: O. Kim, C. Borges Merjane, P.M. Jonas, in:, Intrinsic Activity, Austrian
Pharmacological Society, 2019.
conference:
end_date: 2019-09-27
location: Innsbruck, Austria
name: 'ANA: Austrian Neuroscience Association ; APHAR: Austrian Pharmacological
Society'
start_date: 2019-09-25
corr_author: '1'
date_created: 2022-04-20T15:06:05Z
date_published: 2019-09-11T00:00:00Z
date_updated: 2026-04-22T22:30:30Z
day: '11'
department:
- _id: PeJo
doi: 10.25006/ia.7.s1-a3.27
ec_funded: 1
intvolume: ' 7'
issue: Suppl. 1
keyword:
- hippocampus
- mossy fibers
- readily releasable pool
- electron microscopy
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.intrinsicactivity.org/2019/7/S1/A3.27/
month: '09'
oa: 1
oa_version: Published Version
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: 25BAF7B2-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '708497'
name: Presynaptic calcium channels distribution and impact on coupling at the hippocampal
mossy fiber synapse
- _id: 25C3DBB6-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W01205
name: Zellkommunikation in Gesundheit und Krankheit
- _id: 25C5A090-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z00312
name: Synaptic communication in neuronal microcircuits
publication: Intrinsic Activity
publication_identifier:
issn:
- 2309-8503
publication_status: published
publisher: Austrian Pharmacological Society
quality_controlled: '1'
related_material:
record:
- id: '11196'
relation: dissertation_contains
status: public
status: public
title: Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals
by electron microscopy
type: conference_abstract
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 7
year: '2019'
...
---
_id: '5569'
abstract:
- lang: eng
text: "Nela Nikolic, Tobias Bergmiller, Alexandra Vandervelde, Tanino G. Albanese,
Lendert Gelens, and Isabella Moll (2018)\r\n“Autoregulation of mazEF expression
underlies growth heterogeneity in bacterial populations” Nucleic Acids Research,
doi: 10.15479/AT:ISTA:74;\r\nmicroscopy experiments by Tobias Bergmiller; image
and data analysis by Nela Nikolic."
article_processing_charge: No
author:
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Nela
full_name: Nikolic, Nela
id: 42D9CABC-F248-11E8-B48F-1D18A9856A87
last_name: Nikolic
orcid: 0000-0001-9068-6090
citation:
ama: Bergmiller T, Nikolic N. Time-lapse microscopy data. 2018. doi:10.15479/AT:ISTA:74
apa: Bergmiller, T., & Nikolic, N. (2018). Time-lapse microscopy data. Institute
of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:74
chicago: Bergmiller, Tobias, and Nela Nikolic. “Time-Lapse Microscopy Data.” Institute
of Science and Technology Austria, 2018. https://doi.org/10.15479/AT:ISTA:74.
ieee: T. Bergmiller and N. Nikolic, “Time-lapse microscopy data.” Institute of Science
and Technology Austria, 2018.
ista: Bergmiller T, Nikolic N. 2018. Time-lapse microscopy data, Institute of Science
and Technology Austria, 10.15479/AT:ISTA:74.
mla: Bergmiller, Tobias, and Nela Nikolic. Time-Lapse Microscopy Data. Institute
of Science and Technology Austria, 2018, doi:10.15479/AT:ISTA:74.
short: T. Bergmiller, N. Nikolic, (2018).
datarep_id: '74'
date_created: 2018-12-12T12:31:35Z
date_published: 2018-02-07T00:00:00Z
date_updated: 2026-04-16T12:20:36Z
day: '07'
ddc:
- '579'
department:
- _id: CaGu
doi: 10.15479/AT:ISTA:74
file:
- access_level: open_access
checksum: 61ebb92213cfffeba3ddbaff984b81af
content_type: application/zip
creator: system
date_created: 2018-12-12T13:04:39Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5637'
file_name: IST-2018-74-v1+2_15-11-05.zip
file_size: 3558703796
relation: main_file
- access_level: open_access
checksum: bf26649af310ef6892d68576515cde6d
content_type: application/zip
creator: system
date_created: 2018-12-12T13:04:55Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5638'
file_name: IST-2018-74-v1+3_15-07-31.zip
file_size: 1830422606
relation: main_file
- access_level: open_access
checksum: 8e46eedce06f22acb2be1a9b9d3f56bd
content_type: application/zip
creator: system
date_created: 2018-12-12T13:05:11Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5639'
file_name: IST-2018-74-v1+4_Images_for_analysis.zip
file_size: 2140849248
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
keyword:
- microscopy
- microfluidics
license: https://creativecommons.org/publicdomain/zero/1.0/
month: '02'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
publist_id: '7385'
related_material:
record:
- id: '438'
relation: research_paper
status: public
status: public
title: Time-lapse microscopy data
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2018'
...
---
_id: '10663'
abstract:
- lang: eng
text: 'The superconducting state of matter enables one to observe quantum effects
on the macroscopic scale and hosts many fascinating phenomena. Topological defects
of the superconducting order parameter, such as vortices and fluxoid states in
multiply connected structures, are often the key ingredients of these phenomena.
This dissertation describes a new mode of magnetic force microscopy (Φ0-MFM) for
investigating vortex and fluxoid sates in mesoscopic superconducting (SC) structures.
The technique relies on the magneto-mechanical coupling of a MFM cantilever to
the motion of fluxons. The novelty of the technique is that a magnetic particle
attached to the cantilever is used not only to sense the state of a SC structure,
but also as a primary source of the inhomogeneous magnetic field which induces
that state. Φ0-MFM enables us to map the transitions between tip-induced states
during a scan: at the positions of the tip, where the two lowest energy states
become degenerate, small oscillations of the tip drive the transitions between
these states, which causes a significant shift in the resonant frequency and dissipation
of the cantilever. For narrow-wall aluminum rings, the mapped fluxoid transitions
form concentric contours on a scan. We show that the changes in the cantilever
resonant frequency and dissipation are well-described by a stochastic resonance
(SR) of cantilever-driven thermally activated phase slips (TAPS). The SR model
allows us to experimentally determine the rate of TAPS and compare it to the Langer-Ambegaokar-McCumber-Halperin
(LAMH) theory for TAPS in 1D superconducting structures. Further, we use the SR
model to qualitatively study the effects of a locally applied magnetic field on
the phase slip rate in rings containing constrictions. The states with multiple
vortices or winding numbers could be useful for the development of novel superconducting
devices, or the study of vortex interactions and interference effects. Using Φ0-MFM
allows us to induce, probe and control fluxoid states in thin wall structures
comprised of multiple loops. We show that Φ0-MFM images of the fluxoid transitions
allow us to identify the underlying states and to investigate their energetics
and dynamics even in complicated structures.'
alternative_title:
- Graduate Dissertations and Theses at Illinois
article_processing_charge: No
author:
- first_name: Hryhoriy
full_name: Polshyn, Hryhoriy
id: edfc7cb1-526e-11ec-b05a-e6ecc27e4e48
last_name: Polshyn
orcid: 0000-0001-8223-8896
citation:
ama: Polshyn H. Magnetic force microscopy studies of mesoscopic superconducting
structures. 2017.
apa: Polshyn, H. (2017). Magnetic force microscopy studies of mesoscopic superconducting
structures. University of Illinois at Urbana-Champaign.
chicago: Polshyn, Hryhoriy. “Magnetic Force Microscopy Studies of Mesoscopic Superconducting
Structures.” University of Illinois at Urbana-Champaign, 2017.
ieee: H. Polshyn, “Magnetic force microscopy studies of mesoscopic superconducting
structures,” University of Illinois at Urbana-Champaign, 2017.
ista: Polshyn H. 2017. Magnetic force microscopy studies of mesoscopic superconducting
structures. University of Illinois at Urbana-Champaign.
mla: Polshyn, Hryhoriy. Magnetic Force Microscopy Studies of Mesoscopic Superconducting
Structures. University of Illinois at Urbana-Champaign, 2017.
short: H. Polshyn, Magnetic Force Microscopy Studies of Mesoscopic Superconducting
Structures, University of Illinois at Urbana-Champaign, 2017.
date_created: 2022-01-25T14:54:14Z
date_published: 2017-09-18T00:00:00Z
date_updated: 2024-10-14T11:13:43Z
day: '18'
degree_awarded: PhD
extern: '1'
keyword:
- physics
- superconductivity
- magnetic force microscopy
- phase slips
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://hdl.handle.net/2142/99178
month: '09'
oa: 1
oa_version: Published Version
page: '103'
publication_status: published
publisher: University of Illinois at Urbana-Champaign
status: public
supervisor:
- first_name: Raffi
full_name: Budakian, Raffi
last_name: Budakian
title: Magnetic force microscopy studies of mesoscopic superconducting structures
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5560'
abstract:
- lang: eng
text: "This repository contains the data collected for the manuscript \"Biased partitioning
of the multi-drug efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity\".\r\nThe
data is compressed into a single archive. Within the archive, different folders
correspond to figures of the main text and the SI of the related publication.\r\nData
is saved as plain text, with each folder containing a separate readme file describing
the format. Typically, the data is from fluorescence microscopy measurements of
single cells growing in a microfluidic \"mother machine\" device, and consists
of relevant values (primarily arbitrary unit or normalized fluorescence measurements,
and division times / growth rates) after raw microscopy images have been processed,
segmented, and their features extracted, as described in the methods section of
the related publication."
article_processing_charge: No
author:
- first_name: Tobias
full_name: Bergmiller, Tobias
id: 2C471CFA-F248-11E8-B48F-1D18A9856A87
last_name: Bergmiller
orcid: 0000-0001-5396-4346
- first_name: Anna M
full_name: Andersson, Anna M
id: 2B8A40DA-F248-11E8-B48F-1D18A9856A87
last_name: Andersson
orcid: 0000-0003-2912-6769
- first_name: Kathrin
full_name: Tomasek, Kathrin
id: 3AEC8556-F248-11E8-B48F-1D18A9856A87
last_name: Tomasek
orcid: 0000-0003-3768-877X
- first_name: Enrique
full_name: Balleza, Enrique
last_name: Balleza
- first_name: Daniel
full_name: Kiviet, Daniel
last_name: Kiviet
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
citation:
ama: Bergmiller T, Andersson AM, Tomasek K, et al. Biased partitioning of the multi-drug
efflux pump AcrAB-TolC underlies long-lived phenotypic heterogeneity. 2017. doi:10.15479/AT:ISTA:53
apa: Bergmiller, T., Andersson, A. M., Tomasek, K., Balleza, E., Kiviet, D., Hauschild,
R., … Guet, C. C. (2017). Biased partitioning of the multi-drug efflux pump AcrAB-TolC
underlies long-lived phenotypic heterogeneity. Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:53
chicago: Bergmiller, Tobias, Anna M Andersson, Kathrin Tomasek, Enrique Balleza,
Daniel Kiviet, Robert Hauschild, Gašper Tkačik, and Calin C Guet. “Biased Partitioning
of the Multi-Drug Efflux Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity.”
Institute of Science and Technology Austria, 2017. https://doi.org/10.15479/AT:ISTA:53.
ieee: T. Bergmiller et al., “Biased partitioning of the multi-drug efflux
pump AcrAB-TolC underlies long-lived phenotypic heterogeneity.” Institute of Science
and Technology Austria, 2017.
ista: Bergmiller T, Andersson AM, Tomasek K, Balleza E, Kiviet D, Hauschild R, Tkačik
G, Guet CC. 2017. Biased partitioning of the multi-drug efflux pump AcrAB-TolC
underlies long-lived phenotypic heterogeneity, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:53.
mla: Bergmiller, Tobias, et al. Biased Partitioning of the Multi-Drug Efflux
Pump AcrAB-TolC Underlies Long-Lived Phenotypic Heterogeneity. Institute of
Science and Technology Austria, 2017, doi:10.15479/AT:ISTA:53.
short: T. Bergmiller, A.M. Andersson, K. Tomasek, E. Balleza, D. Kiviet, R. Hauschild,
G. Tkačik, C.C. Guet, (2017).
datarep_id: '53'
date_created: 2018-12-12T12:31:32Z
date_published: 2017-03-10T00:00:00Z
date_updated: 2025-09-11T07:05:03Z
day: '10'
ddc:
- '571'
department:
- _id: CaGu
- _id: GaTk
- _id: Bio
doi: 10.15479/AT:ISTA:53
file:
- access_level: open_access
checksum: d77859af757ac8025c50c7b12b52eaf3
content_type: application/zip
creator: system
date_created: 2018-12-12T13:02:38Z
date_updated: 2020-07-14T12:47:03Z
file_id: '5603'
file_name: IST-2017-53-v1+1_Data_MDE.zip
file_size: 6773204
relation: main_file
file_date_updated: 2020-07-14T12:47:03Z
has_accepted_license: '1'
keyword:
- single cell microscopy
- mother machine microfluidic device
- AcrAB-TolC pump
- multi-drug efflux
- Escherichia coli
month: '03'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '665'
relation: research_paper
status: public
status: public
title: Biased partitioning of the multi-drug efflux pump AcrAB-TolC underlies long-lived
phenotypic heterogeneity
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5566'
abstract:
- lang: eng
text: Current minimal version of TipTracker
article_processing_charge: No
author:
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
citation:
ama: Hauschild R. Live tracking of moving samples in confocal microscopy for vertically
grown roots. 2017. doi:10.15479/AT:ISTA:69
apa: Hauschild, R. (2017). Live tracking of moving samples in confocal microscopy
for vertically grown roots. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:69
chicago: Hauschild, Robert. “Live Tracking of Moving Samples in Confocal Microscopy
for Vertically Grown Roots.” Institute of Science and Technology Austria, 2017.
https://doi.org/10.15479/AT:ISTA:69.
ieee: R. Hauschild, “Live tracking of moving samples in confocal microscopy for
vertically grown roots.” Institute of Science and Technology Austria, 2017.
ista: Hauschild R. 2017. Live tracking of moving samples in confocal microscopy
for vertically grown roots, Institute of Science and Technology Austria, 10.15479/AT:ISTA:69.
mla: Hauschild, Robert. Live Tracking of Moving Samples in Confocal Microscopy
for Vertically Grown Roots. Institute of Science and Technology Austria, 2017,
doi:10.15479/AT:ISTA:69.
short: R. Hauschild, (2017).
datarep_id: '69'
date_created: 2018-12-12T12:31:34Z
date_published: 2017-07-21T00:00:00Z
date_updated: 2025-04-15T07:48:05Z
day: '21'
ddc:
- '570'
department:
- _id: Bio
doi: 10.15479/AT:ISTA:69
file:
- access_level: open_access
checksum: a976000e6715106724a271cc9422be4a
content_type: application/zip
creator: system
date_created: 2018-12-12T13:04:12Z
date_updated: 2020-07-14T12:47:04Z
file_id: '5636'
file_name: IST-2017-69-v1+2_TipTrackerZeissLSM700.zip
file_size: 1587986
relation: main_file
file_date_updated: 2020-07-14T12:47:04Z
has_accepted_license: '1'
keyword:
- tool
- tracking
- confocal microscopy
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '946'
relation: research_paper
status: public
status: public
title: Live tracking of moving samples in confocal microscopy for vertically grown
roots
tmp:
image: /images/cc_by_sa.png
legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC
BY-SA 4.0)
short: CC BY-SA (4.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '5555'
abstract:
- lang: eng
text: This FIJI script calculates the population average of the migration speed
as a function of time of all cells from wide field microscopy movies.
article_processing_charge: No
author:
- first_name: Robert
full_name: Hauschild, Robert
id: 4E01D6B4-F248-11E8-B48F-1D18A9856A87
last_name: Hauschild
orcid: 0000-0001-9843-3522
citation:
ama: Hauschild R. Fiji script to determine average speed and direction of migration
of cells. 2016. doi:10.15479/AT:ISTA:44
apa: Hauschild, R. (2016). Fiji script to determine average speed and direction
of migration of cells. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:44
chicago: Hauschild, Robert. “Fiji Script to Determine Average Speed and Direction
of Migration of Cells.” Institute of Science and Technology Austria, 2016. https://doi.org/10.15479/AT:ISTA:44.
ieee: R. Hauschild, “Fiji script to determine average speed and direction of migration
of cells.” Institute of Science and Technology Austria, 2016.
ista: Hauschild R. 2016. Fiji script to determine average speed and direction of
migration of cells, Institute of Science and Technology Austria, 10.15479/AT:ISTA:44.
mla: Hauschild, Robert. Fiji Script to Determine Average Speed and Direction
of Migration of Cells. Institute of Science and Technology Austria, 2016,
doi:10.15479/AT:ISTA:44.
short: R. Hauschild, (2016).
datarep_id: '44'
date_created: 2018-12-12T12:31:31Z
date_published: 2016-07-08T00:00:00Z
date_updated: 2024-02-21T13:50:06Z
day: '08'
ddc:
- '570'
department:
- _id: Bio
doi: 10.15479/AT:ISTA:44
file:
- access_level: open_access
checksum: 9f96cddbcd4ed689f48712ffe234d5e5
content_type: application/zip
creator: system
date_created: 2018-12-12T13:03:03Z
date_updated: 2020-07-14T12:47:02Z
file_id: '5621'
file_name: IST-2016-44-v1+1_migrationAnalyzer.zip
file_size: 20692
relation: main_file
file_date_updated: 2020-07-14T12:47:02Z
has_accepted_license: '1'
keyword:
- cell migration
- wide field microscopy
- FIJI
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Fiji script to determine average speed and direction of migration of cells
tmp:
image: /images/cc_0.png
legal_code_url: https://creativecommons.org/publicdomain/zero/1.0/legalcode
name: Creative Commons Public Domain Dedication (CC0 1.0)
short: CC0 (1.0)
type: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2016'
...
---
OA_type: closed access
_id: '21514'
abstract:
- lang: eng
text: "This paper describes observations and metrological analyses made to compare
the replication quality of polymeric replicas obtained by filling micro-cavities
using both hot embossing and micro-injection moulding processes. The experiments
are performed with polypropylene (PP) at a constant melt temperature and a constant
mould temperature, whereas hot embossing tests are carried out with the same polymer
at temperatures close to the softening one.\r\nThe results concerning the micro-cavities
filling provide information on the reliability about the possibilities of replication
topographical surface geometries. The data obtained by scanning mechanical microscopy
(SMM) are used to determine the comparative filling ratio values."
article_processing_charge: No
article_type: original
author:
- first_name: M.
full_name: Sahli, M.
last_name: Sahli
- first_name: C.
full_name: Millot, C.
last_name: Millot
- first_name: Charles
full_name: Roques-Carmes, Charles
id: e2e68fc9-6505-11ef-a541-eb4e72cc3e82
last_name: Roques-Carmes
- first_name: C.
full_name: Khan Malek, C.
last_name: Khan Malek
- first_name: T.
full_name: Barriere, T.
last_name: Barriere
- first_name: J.C.
full_name: Gelin, J.C.
last_name: Gelin
citation:
ama: Sahli M, Millot C, Roques-Carmes C, Khan Malek C, Barriere T, Gelin JC. Quality
assessment of polymer replication by hot embossing and micro-injection moulding
processes using scanning mechanical microscopy. Journal of Materials Processing
Technology. 2009;209(18-19):5851-5861. doi:10.1016/j.jmatprotec.2009.06.011
apa: Sahli, M., Millot, C., Roques-Carmes, C., Khan Malek, C., Barriere, T., &
Gelin, J. C. (2009). Quality assessment of polymer replication by hot embossing
and micro-injection moulding processes using scanning mechanical microscopy. Journal
of Materials Processing Technology. Elsevier. https://doi.org/10.1016/j.jmatprotec.2009.06.011
chicago: Sahli, M., C. Millot, Charles Roques-Carmes, C. Khan Malek, T. Barriere,
and J.C. Gelin. “Quality Assessment of Polymer Replication by Hot Embossing and
Micro-Injection Moulding Processes Using Scanning Mechanical Microscopy.” Journal
of Materials Processing Technology. Elsevier, 2009. https://doi.org/10.1016/j.jmatprotec.2009.06.011.
ieee: M. Sahli, C. Millot, C. Roques-Carmes, C. Khan Malek, T. Barriere, and J.
C. Gelin, “Quality assessment of polymer replication by hot embossing and micro-injection
moulding processes using scanning mechanical microscopy,” Journal of Materials
Processing Technology, vol. 209, no. 18–19. Elsevier, pp. 5851–5861, 2009.
ista: Sahli M, Millot C, Roques-Carmes C, Khan Malek C, Barriere T, Gelin JC. 2009.
Quality assessment of polymer replication by hot embossing and micro-injection
moulding processes using scanning mechanical microscopy. Journal of Materials
Processing Technology. 209(18–19), 5851–5861.
mla: Sahli, M., et al. “Quality Assessment of Polymer Replication by Hot Embossing
and Micro-Injection Moulding Processes Using Scanning Mechanical Microscopy.”
Journal of Materials Processing Technology, vol. 209, no. 18–19, Elsevier,
2009, pp. 5851–61, doi:10.1016/j.jmatprotec.2009.06.011.
short: M. Sahli, C. Millot, C. Roques-Carmes, C. Khan Malek, T. Barriere, J.C. Gelin,
Journal of Materials Processing Technology 209 (2009) 5851–5861.
date_created: 2026-03-30T12:22:47Z
date_published: 2009-09-19T00:00:00Z
date_updated: 2026-04-15T12:52:03Z
day: '19'
ddc:
- '530'
doi: 10.1016/j.jmatprotec.2009.06.011
extern: '1'
intvolume: ' 209'
issue: 18-19
keyword:
- Hot embossing
- Micro-injection moulding
- Micro-cavities replication
- Polypropylene polymer
- Scanning mechanical microscopy
- Roughness parameters
language:
- iso: eng
month: '09'
oa_version: None
page: 5851-5861
publication: Journal of Materials Processing Technology
publication_identifier:
eissn:
- 1873-4774
issn:
- 0924-0136
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Quality assessment of polymer replication by hot embossing and micro-injection
moulding processes using scanning mechanical microscopy
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 209
year: '2009'
...
---
OA_type: closed access
_id: '21518'
abstract:
- lang: eng
text: The present investigation confirms that initially implemented procedure to
produce poly(methylidene malonate 2.1.2) (PMM 2.1.2) nanoparticles (Lescure et
al. Pharm Res 1994;11:1270–77) lead to products mostly containing plasticizing
oligomers which strongly lowered glass-transition temperature (Tg), dramatically
reduced nanoparticle consistency and rendered them too sensitive to solubilization
when diluted in an aqueous medium. From MALDI-TOF spectroscopy analysis, performed
on intact colloids, emerged some structural information about these oligomeric
species which could result from an intramolecular cyclization mechanism occurring
soon in the course of the polymerization process. Thus, with the objective of
overcoming these drawbacks, this contribution deals with the variations of manufacturing
specifications such as pH and magnetic stirring speed to try and modulate molecular
weight (Mw) of nanoparticle constituents and reduce oligomer concentration. Although
the analyses performed on these new nanoparticles were rather encouraging, the
colloid formation yield became so low that it required the developement of other
methodologies, excluding a previous emulsion step, and allowing a controlled production
of PMM 2.1.2-made nanoparticles having better physico-chemical characteristics
while keeping good pharmaceutical capabilities.
article_processing_charge: No
article_type: original
author:
- first_name: P
full_name: Breton, P
last_name: Breton
- first_name: X
full_name: Guillon, X
last_name: Guillon
- first_name: D
full_name: Roy, D
last_name: Roy
- first_name: F
full_name: Lescure, F
last_name: Lescure
- first_name: G
full_name: Riess, G
last_name: Riess
- first_name: N
full_name: Bru, N
last_name: Bru
- first_name: Charles
full_name: Roques-Carmes, Charles
id: e2e68fc9-6505-11ef-a541-eb4e72cc3e82
last_name: Roques-Carmes
citation:
ama: Breton P, Guillon X, Roy D, et al. Physico-chemical characterization, preparation
and performance of poly (methylidene malonate 2.1.2) nanoparticles. Biomaterials.
1998;19(1-3):271-281. doi:10.1016/s0142-9612(97)00243-3
apa: Breton, P., Guillon, X., Roy, D., Lescure, F., Riess, G., Bru, N., & Roques-Carmes,
C. (1998). Physico-chemical characterization, preparation and performance of poly
(methylidene malonate 2.1.2) nanoparticles. Biomaterials. Elsevier. https://doi.org/10.1016/s0142-9612(97)00243-3
chicago: Breton, P, X Guillon, D Roy, F Lescure, G Riess, N Bru, and Charles Roques-Carmes.
“Physico-Chemical Characterization, Preparation and Performance of Poly (Methylidene
Malonate 2.1.2) Nanoparticles.” Biomaterials. Elsevier, 1998. https://doi.org/10.1016/s0142-9612(97)00243-3.
ieee: P. Breton et al., “Physico-chemical characterization, preparation and
performance of poly (methylidene malonate 2.1.2) nanoparticles,” Biomaterials,
vol. 19, no. 1–3. Elsevier, pp. 271–281, 1998.
ista: Breton P, Guillon X, Roy D, Lescure F, Riess G, Bru N, Roques-Carmes C. 1998.
Physico-chemical characterization, preparation and performance of poly (methylidene
malonate 2.1.2) nanoparticles. Biomaterials. 19(1–3), 271–281.
mla: Breton, P., et al. “Physico-Chemical Characterization, Preparation and Performance
of Poly (Methylidene Malonate 2.1.2) Nanoparticles.” Biomaterials, vol.
19, no. 1–3, Elsevier, 1998, pp. 271–81, doi:10.1016/s0142-9612(97)00243-3.
short: P. Breton, X. Guillon, D. Roy, F. Lescure, G. Riess, N. Bru, C. Roques-Carmes,
Biomaterials 19 (1998) 271–281.
date_created: 2026-03-30T12:22:47Z
date_published: 1998-01-01T00:00:00Z
date_updated: 2026-04-15T12:48:31Z
day: '01'
ddc:
- '530'
doi: 10.1016/s0142-9612(97)00243-3
extern: '1'
external_id:
pmid:
- ' 9678876'
intvolume: ' 19'
issue: 1-3
keyword:
- Colloid physico-chemical analysis
- Colloidal drug carriers
- MALDI-TOF spectroscopy
- Nanoparticles
- Poly(methylidene malonate)
- Scanning electron microscopy
language:
- iso: eng
month: '01'
oa_version: None
page: 271-281
pmid: 1
publication: Biomaterials
publication_identifier:
issn:
- 0142-9612
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Physico-chemical characterization, preparation and performance of poly (methylidene
malonate 2.1.2) nanoparticles
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 19
year: '1998'
...