---
OA_place: publisher
_id: '961'
abstract:
- lang: eng
text: Cell-cell contact formation constitutes the first step in the emergence of multicellularity in
evolution, thereby allowing the differentiation of specialized cell types. In metazoan
development, cell-cell contact formation is thought to influence cell fate specification,
and cell fate specification has been implicated in cell-cell contact
formation. However, remarkably little is yet known about whether and how the
interaction and feedback between cell-cell contact formation and cell fate specification
affect development. Here we identify a positive feedback loop between cell-cell contact duration, morphogen signaling and
mesendoderm cell fate specification during zebrafish gastrulation. We show that long
lasting cell-cell contacts enhance the competence of prechordal plate (ppl) progenitor
cells to respond to Nodal signaling, required for proper ppl cell fate specification. We further
show that Nodal signalling romotes ppl cell-cell contact duration, thereby generating an
effective positive feedback loop between ppl cell-cell contact duration and cell fate
specification. Finally, by using a combination of theoretical modeling and experimentation,
we show that this feedback loop determines whether anterior axial mesendoderm cells
become ppl progenitors or, instead, turn into endoderm progenitors. Our findings reveal
that the gene regulatory networks leading to cell fate diversification within the developing
embryo are controlled by the interdependent activities of cell-cell signaling and contact
formation.
acknowledgement: "Many people accompanied me during this trip: I would not have reached
my destination nor \r\nenjoyed the travelling without them. First of all, thanks
to CP. Thanks for making me part of \r\nyour team, always full of diverse, interesting
and incredibly competent people and thanks for \r\nall the good science I witnessed
\ and participated in. It has been a \r\nblast, an incredibly \r\nexciting
\ one! Thanks to JLo, for teaching me how to master my pipettes and
\ showing me \r\nthat science is a lot of fun. Many, many thanks to Gabby for teaching
me basically everything \r\nabout zebrafish and being always there to advice,
\ sugge\r\nst, support...and play fussball! \r\nThank you to Julien, for the
critical eye on things, Pedro, for all the invaluable feedback and \r\nthe amazing
kicker matches, and Keisuke, for showing me the light, and to the three of them
\r\ntogether for all the good laughs we\r\nhad. My start in Vienna would
\ have been a lot more \r\ndifficult without you guys. Also it would not
\ have been possible without Elena and Inês: \r\nthanks for helping setting
\ up this lab and for the dinners in Gugging. Thanks to Martin, for
\r\nhelping me understand \r\nthe physics behind biology. Thanks to Philipp,
\ for the interest and \r\nadvice, and to Michael, for the Viennise take on things.
Thanks to Julia, for putting up with \r\nbeing our technician and becoming a friend
in the process. And now to the newest members \r\nof th\r\ne lab. Thanks to Daniel
for the enthusiasm and the neverending energy and for all your \r\nhelp over the
years: thank you! To Jana, for showing me that one doesn’t give up, no matter \r\nwhat.
\ To Shayan, for being such a motivated student. To Matt, for helping
\ out\r\nwith coding \r\nand for finding punk solutions to data analysis problems.
Thanks to all the members of the \r\nlab, Verena, Hitoshi, Silvia, Conny, Karla,
Nicoletta, Zoltan, Peng, Benoit, Roland, Yuuta and \r\nFeyza, for the wonderful
\ atmosphere in the lab. Many than\r\nks to Koni and Deborah: doing \r\nexperiments
would have been much more difficult without your help. Special thanks to Katjia
\r\nfor setting up an amazing imaging facility and for building the best
\ team, Robert, Nasser, \r\nAnna and Doreen: thank you for putting up w\r\nith
all the late sortings and for helping with all \r\nthe technical problems. Thanks
to Eva, Verena and Matthias for keeping the fish happy. Big \r\nthanks to Harald
Janovjak for being a present and helpful committee member over the years \r\nand
\ to Patrick Lemaire f\r\nor the helpful insight and extremely interesting
\ discussion we had \r\nabout the project. Also, this journey would not
\ have been the same without all the friends \r\nthat I met in Dresden and
then in Vienna: Daniele, Claire, Kuba, Steffi, Harold, Dejan, Irene, \r\nFab\r\nienne,
Hande, Tiago, Marianne, Jon, Srdjan, Branca, Uli, Murat, Alex, Conny, Christoph,
\r\nCaro, Simone, Barbara, Felipe, Dama, Jose, Hubert and many others that filled
my days with \r\nfun and support. A special thank to my family, always close even
if they are \r\nkilometers away. \r\nGrazie ai miei fratelli, Nunzio e William,
\ e alla mia mamma, per essermi sempre vicini pur \r\nvivendo a chilometri
di distanza. And, last but not least, thanks to Moritz, for putting up with \r\nthe
crazy life of a scientist, the living apart for\r\nso long, never knowing when things
are going \r\nto happen. Thanks for being a great partner and my number one fan!"
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Vanessa
full_name: Barone, Vanessa
id: 419EECCC-F248-11E8-B48F-1D18A9856A87
last_name: Barone
orcid: 0000-0003-2676-3367
citation:
ama: 'Barone V. Cell adhesion and cell fate: An effective feedback loop during zebrafish
gastrulation. 2017. doi:10.15479/AT:ISTA:th_825'
apa: 'Barone, V. (2017). Cell adhesion and cell fate: An effective feedback loop
during zebrafish gastrulation. Institute of Science and Technology Austria.
https://doi.org/10.15479/AT:ISTA:th_825'
chicago: 'Barone, Vanessa. “Cell Adhesion and Cell Fate: An Effective Feedback Loop
during Zebrafish Gastrulation.” Institute of Science and Technology Austria, 2017.
https://doi.org/10.15479/AT:ISTA:th_825.'
ieee: 'V. Barone, “Cell adhesion and cell fate: An effective feedback loop during
zebrafish gastrulation,” Institute of Science and Technology Austria, 2017.'
ista: 'Barone V. 2017. Cell adhesion and cell fate: An effective feedback loop during
zebrafish gastrulation. Institute of Science and Technology Austria.'
mla: 'Barone, Vanessa. Cell Adhesion and Cell Fate: An Effective Feedback Loop
during Zebrafish Gastrulation. Institute of Science and Technology Austria,
2017, doi:10.15479/AT:ISTA:th_825.'
short: 'V. Barone, Cell Adhesion and Cell Fate: An Effective Feedback Loop during
Zebrafish Gastrulation, Institute of Science and Technology Austria, 2017.'
corr_author: '1'
date_created: 2018-12-11T11:49:25Z
date_published: 2017-03-01T00:00:00Z
date_updated: 2026-04-16T10:07:32Z
day: '01'
ddc:
- '570'
- '590'
degree_awarded: PhD
department:
- _id: CaHe
doi: 10.15479/AT:ISTA:th_825
file:
- access_level: closed
checksum: 242f88c87f2cf267bf05049fa26a687b
content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document
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date_updated: 2020-07-14T12:48:16Z
file_id: '6205'
file_name: 2017_Barone_thesis_final.docx
file_size: 14497822
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checksum: ba5b0613ed8bade73a409acdd880fb8a
content_type: application/pdf
creator: dernst
date_created: 2019-04-05T08:36:52Z
date_updated: 2020-07-14T12:48:16Z
file_id: '6206'
file_name: 2017_Barone_thesis_.pdf
file_size: 14995941
relation: main_file
file_date_updated: 2020-07-14T12:48:16Z
has_accepted_license: '1'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: '109'
publication_identifier:
issn:
- 2663-337X
publication_status: published
publisher: Institute of Science and Technology Austria
publist_id: '6444'
pubrep_id: '825'
related_material:
record:
- id: '735'
relation: part_of_dissertation
status: public
- id: '1100'
relation: part_of_dissertation
status: public
- id: '1537'
relation: part_of_dissertation
status: public
- id: '1912'
relation: part_of_dissertation
status: public
- id: '3246'
relation: part_of_dissertation
status: public
- id: '2926'
relation: part_of_dissertation
status: public
- id: '676'
relation: part_of_dissertation
status: public
status: public
supervisor:
- 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
title: 'Cell adhesion and cell fate: An effective feedback loop during zebrafish gastrulation'
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: '2017'
...
---
_id: '465'
abstract:
- lang: eng
text: 'The edit distance between two words w 1 , w 2 is the minimal number of word
operations (letter insertions, deletions, and substitutions) necessary to transform
w 1 to w 2 . The edit distance generalizes to languages L 1 , L 2 , where the
edit distance from L 1 to L 2 is the minimal number k such that for every word
from L 1 there exists a word in L 2 with edit distance at most k . We study the
edit distance computation problem between pushdown automata and their subclasses.
The problem of computing edit distance to a pushdown automaton is undecidable,
and in practice, the interesting question is to compute the edit distance from
a pushdown automaton (the implementation, a standard model for programs with recursion)
to a regular language (the specification). In this work, we present a complete
picture of decidability and complexity for the following problems: (1) deciding
whether, for a given threshold k , the edit distance from a pushdown automaton
to a finite automaton is at most k , and (2) deciding whether the edit distance
from a pushdown automaton to a finite automaton is finite. '
article_processing_charge: No
author:
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Rasmus
full_name: Ibsen-Jensen, Rasmus
id: 3B699956-F248-11E8-B48F-1D18A9856A87
last_name: Ibsen-Jensen
orcid: 0000-0003-4783-0389
- first_name: Jan
full_name: Otop, Jan
last_name: Otop
citation:
ama: Chatterjee K, Henzinger TA, Ibsen-Jensen R, Otop J. Edit distance for pushdown
automata. Logical Methods in Computer Science. 2017;13(3). doi:10.23638/LMCS-13(3:23)2017
apa: Chatterjee, K., Henzinger, T. A., Ibsen-Jensen, R., & Otop, J. (2017).
Edit distance for pushdown automata. Logical Methods in Computer Science.
International Federation of Computational Logic. https://doi.org/10.23638/LMCS-13(3:23)2017
chicago: Chatterjee, Krishnendu, Thomas A Henzinger, Rasmus Ibsen-Jensen, and Jan
Otop. “Edit Distance for Pushdown Automata.” Logical Methods in Computer Science.
International Federation of Computational Logic, 2017. https://doi.org/10.23638/LMCS-13(3:23)2017.
ieee: K. Chatterjee, T. A. Henzinger, R. Ibsen-Jensen, and J. Otop, “Edit distance
for pushdown automata,” Logical Methods in Computer Science, vol. 13, no.
3. International Federation of Computational Logic, 2017.
ista: Chatterjee K, Henzinger TA, Ibsen-Jensen R, Otop J. 2017. Edit distance for
pushdown automata. Logical Methods in Computer Science. 13(3).
mla: Chatterjee, Krishnendu, et al. “Edit Distance for Pushdown Automata.” Logical
Methods in Computer Science, vol. 13, no. 3, International Federation of Computational
Logic, 2017, doi:10.23638/LMCS-13(3:23)2017.
short: K. Chatterjee, T.A. Henzinger, R. Ibsen-Jensen, J. Otop, Logical Methods
in Computer Science 13 (2017).
corr_author: '1'
date_created: 2018-12-11T11:46:37Z
date_published: 2017-09-13T00:00:00Z
date_updated: 2026-04-29T06:14:48Z
day: '13'
ddc:
- '004'
department:
- _id: KrCh
- _id: ToHe
doi: 10.23638/LMCS-13(3:23)2017
ec_funded: 1
external_id:
isi:
- '000419163000005'
file:
- access_level: open_access
checksum: 08041379ba408d40664f449eb5907a8f
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:37Z
date_updated: 2020-07-14T12:46:33Z
file_id: '5090'
file_name: IST-2015-321-v1+1_main.pdf
file_size: 279071
relation: main_file
- access_level: open_access
checksum: 08041379ba408d40664f449eb5907a8f
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:38Z
date_updated: 2020-07-14T12:46:33Z
file_id: '5091'
file_name: IST-2018-955-v1+1_2017_Chatterjee_Edit_distance.pdf
file_size: 279071
relation: main_file
file_date_updated: 2020-07-14T12:46:33Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
issue: '3'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nd/4.0/
month: '09'
oa: 1
oa_version: Published Version
project:
- _id: 25F5A88A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11402-N23
name: Moderne Concurrency Paradigms
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25F42A32-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: Z211
name: Formal methods for the design and analysis of complex systems
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
publication: Logical Methods in Computer Science
publication_identifier:
issn:
- 1860-5974
publication_status: published
publisher: International Federation of Computational Logic
publist_id: '7356'
pubrep_id: '955'
quality_controlled: '1'
related_material:
record:
- id: '5438'
relation: earlier_version
status: public
- id: '1610'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Edit distance for pushdown automata
tmp:
image: /image/cc_by_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nd/4.0/legalcode
name: Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)
short: CC BY-ND (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 13
year: '2017'
...
---
OA_place: repository
OA_type: green
_id: '393'
abstract:
- lang: eng
text: 'We use a three-pulse ultrafast optical spectroscopy to study the relaxation
processes in a frustrated Mott insulator Na2IrO3. By being able to independently
produce the out-of-equilibrium bound states (excitons) of doublons and holons
with the first pulse and suppress the underlying antiferromagnetic order with
the second one, we were able to elucidate the relaxation mechanism of quasiparticles
in this system. By observing the difference in the exciton dynamics in the magnetically
ordered and disordered phases we found that the mass of this quasiparticle is
mostly determined by its interaction with the surrounding spins. '
acknowledgement: Z.A. gratefully acknowledges discussions with P. A. Lee and A. Kemper.
A conversation with J. Zaanen was instrumental in clarifying the physical picture
described in this paper. We would also like to thank A. Kogar for thoroughly reading
the manuscript and making valuable comments. This work was supported by Army Research
Office Grant No. W911NF-15-1-0128 and Gordon and Betty Moore Foundation EPiQS Initiative
through Grant No. GBMF4540 (time resolved optical spectroscopy), Skoltech, as part
of the Skoltech NGP program (theory) and National Science Foundation Grant No. DMR-1265162
(material growth).
article_number: '235141 '
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Zhanybek
full_name: Alpichshev, Zhanybek
id: 45E67A2A-F248-11E8-B48F-1D18A9856A87
last_name: Alpichshev
orcid: 0000-0002-7183-5203
- first_name: Edbert
full_name: Sie, Edbert
last_name: Sie
- first_name: Fahad
full_name: Mahmood, Fahad
last_name: Mahmood
- first_name: Gang
full_name: Cao, Gang
last_name: Cao
- first_name: Nuh
full_name: Gedik, Nuh
last_name: Gedik
citation:
ama: Alpichshev Z, Sie E, Mahmood F, Cao G, Gedik N. Origin of the exciton mass
in the frustrated Mott insulator Na2IrO3. Physical Review B. 2017;96(23).
doi:10.1103/PhysRevB.96.235141
apa: Alpichshev, Z., Sie, E., Mahmood, F., Cao, G., & Gedik, N. (2017). Origin
of the exciton mass in the frustrated Mott insulator Na2IrO3. Physical Review
B. American Physical Society. https://doi.org/10.1103/PhysRevB.96.235141
chicago: Alpichshev, Zhanybek, Edbert Sie, Fahad Mahmood, Gang Cao, and Nuh Gedik.
“Origin of the Exciton Mass in the Frustrated Mott Insulator Na2IrO3.” Physical
Review B. American Physical Society, 2017. https://doi.org/10.1103/PhysRevB.96.235141.
ieee: Z. Alpichshev, E. Sie, F. Mahmood, G. Cao, and N. Gedik, “Origin of the exciton
mass in the frustrated Mott insulator Na2IrO3,” Physical Review B, vol.
96, no. 23. American Physical Society, 2017.
ista: Alpichshev Z, Sie E, Mahmood F, Cao G, Gedik N. 2017. Origin of the exciton
mass in the frustrated Mott insulator Na2IrO3. Physical Review B. 96(23), 235141.
mla: Alpichshev, Zhanybek, et al. “Origin of the Exciton Mass in the Frustrated
Mott Insulator Na2IrO3.” Physical Review B, vol. 96, no. 23, 235141, American
Physical Society, 2017, doi:10.1103/PhysRevB.96.235141.
short: Z. Alpichshev, E. Sie, F. Mahmood, G. Cao, N. Gedik, Physical Review B 96
(2017).
date_created: 2018-12-11T11:46:13Z
date_published: 2017-12-26T00:00:00Z
date_updated: 2026-04-29T06:27:39Z
day: '26'
doi: 10.1103/PhysRevB.96.235141
extern: '1'
external_id:
arxiv:
- '1610.09350'
intvolume: ' 96'
issue: '23'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://dspace.mit.edu/handle/1721.1/114259
month: '12'
oa: 1
oa_version: Submitted Version
publication: Physical Review B
publication_status: published
publisher: American Physical Society
publist_id: '7436'
quality_controlled: '1'
status: public
title: Origin of the exciton mass in the frustrated Mott insulator Na2IrO3
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 96
year: '2017'
...
---
OA_place: repository
OA_type: green
_id: '21615'
abstract:
- lang: eng
text: Focused electron beams can induce electromagnetic radiation from periodic
surfaces. We have used low-energy electrons (1.5-6kV) to induce visible light
emission from nanoscale gratings (50nm and 60nm). Our results coincide well with
numerical simulations.
article_number: FM3H.6
article_processing_charge: No
arxiv: 1
author:
- first_name: Aviram
full_name: Massuda, Aviram
last_name: Massuda
- first_name: Charles
full_name: Roques-Carmes, Charles
id: e2e68fc9-6505-11ef-a541-eb4e72cc3e82
last_name: Roques-Carmes
- first_name: Yujia
full_name: Yang, Yujia
last_name: Yang
- first_name: Steven E.
full_name: Kooi, Steven E.
last_name: Kooi
- first_name: Yi
full_name: Yang, Yi
last_name: Yang
- first_name: Chitraang
full_name: Murdia, Chitraang
last_name: Murdia
- first_name: Karl K.
full_name: Berggren, Karl K.
last_name: Berggren
- first_name: Ido
full_name: Kaminer, Ido
last_name: Kaminer
- first_name: Marin
full_name: Soljačić, Marin
last_name: Soljačić
citation:
ama: 'Massuda A, Roques-Carmes C, Yang Y, et al. Smith-Purcell radiation from low-energy
electrons. In: Conference on Lasers and Electro-Optics. Optica Publishing
Group; 2017. doi:10.1364/cleo_qels.2017.fm3h.6'
apa: 'Massuda, A., Roques-Carmes, C., Yang, Y., Kooi, S. E., Yang, Y., Murdia, C.,
… Soljačić, M. (2017). Smith-Purcell radiation from low-energy electrons. In Conference
on Lasers and Electro-Optics. San Jose, CA, United States: Optica Publishing
Group. https://doi.org/10.1364/cleo_qels.2017.fm3h.6'
chicago: Massuda, Aviram, Charles Roques-Carmes, Yujia Yang, Steven E. Kooi, Yi
Yang, Chitraang Murdia, Karl K. Berggren, Ido Kaminer, and Marin Soljačić. “Smith-Purcell
Radiation from Low-Energy Electrons.” In Conference on Lasers and Electro-Optics.
Optica Publishing Group, 2017. https://doi.org/10.1364/cleo_qels.2017.fm3h.6.
ieee: A. Massuda et al., “Smith-Purcell radiation from low-energy electrons,”
in Conference on Lasers and Electro-Optics, San Jose, CA, United States,
2017.
ista: 'Massuda A, Roques-Carmes C, Yang Y, Kooi SE, Yang Y, Murdia C, Berggren KK,
Kaminer I, Soljačić M. 2017. Smith-Purcell radiation from low-energy electrons.
Conference on Lasers and Electro-Optics. CLEO: Fundamental Science, FM3H.6.'
mla: Massuda, Aviram, et al. “Smith-Purcell Radiation from Low-Energy Electrons.”
Conference on Lasers and Electro-Optics, FM3H.6, Optica Publishing Group,
2017, doi:10.1364/cleo_qels.2017.fm3h.6.
short: A. Massuda, C. Roques-Carmes, Y. Yang, S.E. Kooi, Y. Yang, C. Murdia, K.K.
Berggren, I. Kaminer, M. Soljačić, in:, Conference on Lasers and Electro-Optics,
Optica Publishing Group, 2017.
conference:
end_date: 2017-05-19
location: San Jose, CA, United States
name: 'CLEO: Fundamental Science'
start_date: 2017-05-14
date_created: 2026-03-30T12:22:48Z
date_published: 2017-05-01T00:00:00Z
date_updated: 2026-05-05T06:46:39Z
day: '01'
doi: 10.1364/cleo_qels.2017.fm3h.6
extern: '1'
external_id:
arxiv:
- '1710.05358'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.1710.05358
month: '05'
oa: 1
oa_version: Preprint
publication: Conference on Lasers and Electro-Optics
publication_identifier:
eisbn:
- '9781943580279'
publication_status: published
publisher: Optica Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: Smith-Purcell radiation from low-energy electrons
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
OA_type: closed access
_id: '21588'
abstract:
- lang: eng
text: We present experimental results demonstrating multiple order Smith-Purcell
radiation in high aspect ratio Silicon Nanowires structures using low-energy electrons
(2.5-10keV). These produce emission spanning the visible, paving the way to a
fully tunable ultraviolet source.
article_number: JTh5B.8
article_processing_charge: No
author:
- first_name: Aviram
full_name: Massuda, Aviram
last_name: Massuda
- first_name: Charles
full_name: Roques-Carmes, Charles
id: e2e68fc9-6505-11ef-a541-eb4e72cc3e82
last_name: Roques-Carmes
- first_name: Amit
full_name: Solanki, Amit
last_name: Solanki
- first_name: Yi
full_name: Yang, Yi
last_name: Yang
- first_name: Steven E.
full_name: Kooi, Steven E.
last_name: Kooi
- first_name: Fawwaz
full_name: Habbal, Fawwaz
last_name: Habbal
- first_name: Ido
full_name: Kaminer, Ido
last_name: Kaminer
- first_name: Marin
full_name: Soljačić, Marin
last_name: Soljačić
citation:
ama: 'Massuda A, Roques-Carmes C, Solanki A, et al. High-order Smith-Purcell radiation
in silicon nanowires. In: Conference on Lasers and Electro-Optics. Optica
Publishing Group; 2017. doi:10.1364/cleo_at.2017.jth5b.8'
apa: 'Massuda, A., Roques-Carmes, C., Solanki, A., Yang, Y., Kooi, S. E., Habbal,
F., … Soljačić, M. (2017). High-order Smith-Purcell radiation in silicon nanowires.
In Conference on Lasers and Electro-Optics. San Jose, CA, United States:
Optica Publishing Group. https://doi.org/10.1364/cleo_at.2017.jth5b.8'
chicago: Massuda, Aviram, Charles Roques-Carmes, Amit Solanki, Yi Yang, Steven E.
Kooi, Fawwaz Habbal, Ido Kaminer, and Marin Soljačić. “High-Order Smith-Purcell
Radiation in Silicon Nanowires.” In Conference on Lasers and Electro-Optics.
Optica Publishing Group, 2017. https://doi.org/10.1364/cleo_at.2017.jth5b.8.
ieee: A. Massuda et al., “High-order Smith-Purcell radiation in silicon nanowires,”
in Conference on Lasers and Electro-Optics, San Jose, CA, United States,
2017.
ista: 'Massuda A, Roques-Carmes C, Solanki A, Yang Y, Kooi SE, Habbal F, Kaminer
I, Soljačić M. 2017. High-order Smith-Purcell radiation in silicon nanowires.
Conference on Lasers and Electro-Optics. CLEO: Applications and Technology, JTh5B.8.'
mla: Massuda, Aviram, et al. “High-Order Smith-Purcell Radiation in Silicon Nanowires.”
Conference on Lasers and Electro-Optics, JTh5B.8, Optica Publishing Group,
2017, doi:10.1364/cleo_at.2017.jth5b.8.
short: A. Massuda, C. Roques-Carmes, A. Solanki, Y. Yang, S.E. Kooi, F. Habbal,
I. Kaminer, M. Soljačić, in:, Conference on Lasers and Electro-Optics, Optica
Publishing Group, 2017.
conference:
end_date: 2017-05-19
location: San Jose, CA, United States
name: 'CLEO: Applications and Technology'
start_date: 2017-05-14
date_created: 2026-03-30T12:22:48Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2026-05-05T06:43:57Z
day: '01'
doi: 10.1364/cleo_at.2017.jth5b.8
extern: '1'
language:
- iso: eng
month: '06'
oa_version: None
publication: Conference on Lasers and Electro-Optics
publication_identifier:
eisbn:
- '9781943580279'
issnl:
- 2162-2701
publication_status: published
publisher: Optica Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: High-order Smith-Purcell radiation in silicon nanowires
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
OA_type: closed access
_id: '21573'
abstract:
- lang: eng
text: 'We present a new platform that realizes high performance metasurfaces in
the visible spectrum. This platform is based on atomic layer deposition of titanium
dioxide and allows molding incident light wavefront to desired shapes including
holographic images, optical vortices, and Bessel beams. The focus of this work
will be on the design and demonstration of planar metalenses. We report on our
recent experimental realization of high numerical aperture metalenses with efficiency
as high as 86%. These metalenses can focus light into a diffraction-limited spot
and can be employed for imaging purposes to provide sub-wavelength imaging resolution.
In addition, by the judicious design of metalens building blocks, one can achieve
a multispectral chiral metalens (MCML) within a single metasurface layer. The
MCML can simultaneously resolve chiral and spectral information of an object without
the requirement of additional optical components such as polarizers, wave-plates,
or even gratings. Using this MCML, we map the chiroptical properties of a macroscopic
chiral biological specimen across the visible range. Finally, since many applications
require polarization insensitive planar lenses, we discuss the experimental realization
of such metalenses with numerical apertures as high as NA=0.85. These metalenses
can focus incident light to a spot as small as ~0.6lambda with efficiencies up
to 70%. The straightforward and CMOS-compatible fabrication process of this platform
is promising for a wide range of optics-based applications in multidisciplinary
science and technology. '
article_number: '101130G '
article_processing_charge: No
author:
- first_name: Mohammadreza
full_name: Khorasaninejad, Mohammadreza
last_name: Khorasaninejad
- first_name: Wei Ting
full_name: Chen, Wei Ting
last_name: Chen
- first_name: Alexander Y.
full_name: Zhu, Alexander Y.
last_name: Zhu
- first_name: Jaewon
full_name: Oh, Jaewon
last_name: Oh
- first_name: Robert C.
full_name: Devlin, Robert C.
last_name: Devlin
- first_name: Charles
full_name: Roques-Carmes, Charles
id: e2e68fc9-6505-11ef-a541-eb4e72cc3e82
last_name: Roques-Carmes
- first_name: Ishan
full_name: Mishra, Ishan
last_name: Mishra
- first_name: Federico
full_name: Capasso, Federico
last_name: Capasso
citation:
ama: 'Khorasaninejad M, Chen WT, Zhu AY, et al. Planar optics at visible wavelengths
based on titanium dioxide . In: High Contrast Metastructures VI. Vol 10113.
; 2017. doi:10.1117/12.2255916'
apa: Khorasaninejad, M., Chen, W. T., Zhu, A. Y., Oh, J., Devlin, R. C., Roques-Carmes,
C., … Capasso, F. (2017). Planar optics at visible wavelengths based on titanium
dioxide . In High Contrast Metastructures VI (Vol. 10113). San Francisco,
CA, United States. https://doi.org/10.1117/12.2255916
chicago: Khorasaninejad, Mohammadreza, Wei Ting Chen, Alexander Y. Zhu, Jaewon Oh,
Robert C. Devlin, Charles Roques-Carmes, Ishan Mishra, and Federico Capasso. “Planar
Optics at Visible Wavelengths Based on Titanium Dioxide .” In High Contrast
Metastructures VI, Vol. 10113, 2017. https://doi.org/10.1117/12.2255916.
ieee: M. Khorasaninejad et al., “Planar optics at visible wavelengths based
on titanium dioxide ,” in High Contrast Metastructures VI, San Francisco,
CA, United States, 2017, vol. 10113.
ista: Khorasaninejad M, Chen WT, Zhu AY, Oh J, Devlin RC, Roques-Carmes C, Mishra
I, Capasso F. 2017. Planar optics at visible wavelengths based on titanium dioxide
. High Contrast Metastructures VI. SPIE OPTO vol. 10113, 101130G.
mla: Khorasaninejad, Mohammadreza, et al. “Planar Optics at Visible Wavelengths
Based on Titanium Dioxide .” High Contrast Metastructures VI, vol. 10113,
101130G, 2017, doi:10.1117/12.2255916.
short: M. Khorasaninejad, W.T. Chen, A.Y. Zhu, J. Oh, R.C. Devlin, C. Roques-Carmes,
I. Mishra, F. Capasso, in:, High Contrast Metastructures VI, 2017.
conference:
end_date: 2017-02-02
location: San Francisco, CA, United States
name: SPIE OPTO
start_date: 2017-01-28
date_created: 2026-03-30T12:22:47Z
date_published: 2017-04-28T00:00:00Z
date_updated: 2026-05-05T09:41:50Z
day: '28'
doi: 10.1117/12.2255916
extern: '1'
intvolume: ' 10113'
language:
- iso: eng
month: '04'
oa_version: None
publication: High Contrast Metastructures VI
publication_status: published
quality_controlled: '1'
status: public
title: 'Planar optics at visible wavelengths based on titanium dioxide '
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10113
year: '2017'
...
---
OA_place: repository
OA_type: green
_id: '392'
abstract:
- lang: eng
text: We used femtosecond optical pump-probe spectroscopy to study the photoinduced
change in reflectivity of thin films of the electron-doped cuprate La2-xCexCuO4
(LCCO) with dopings of x=0.08 (underdoped) and x=0.11 (optimally doped). Above
Tc, we observe fluence-dependent relaxation rates that begin at a temperature
similar to the one where transport measurements first show signatures of antiferromagnetic
correlations. Upon suppressing superconductivity with a magnetic field, it is
found that the fluence and temperature dependence of relaxation rates are consistent
with bimolecular recombination of electrons and holes across a gap (2ΔAF) originating
from antiferromagnetic correlations which comprise the pseudogap in electron-doped
cuprates. This can be used to learn about coupling between electrons and high-energy
(ω>2ΔAF) excitations in these compounds and set limits on the time scales on
which antiferromagnetic correlations are static.
acknowledgement: Optical pump-probe work was supported by the Gordon and Betty Moore
Foundation's EPiQS initiative through Grant No. GBMF4540. Materials growth and characterization
was supported by AFOSR FA95501410332 and NSF DMR1410665.
article_number: '115125'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Inna
full_name: Vishik, Inna
last_name: Vishik
- first_name: Fahad
full_name: Mahmood, Fahad
last_name: Mahmood
- first_name: Zhanybek
full_name: Alpichshev, Zhanybek
id: 45E67A2A-F248-11E8-B48F-1D18A9856A87
last_name: Alpichshev
orcid: 0000-0002-7183-5203
- first_name: Nuh
full_name: Gedik, Nuh
last_name: Gedik
- first_name: Joshu
full_name: Higgins, Joshu
last_name: Higgins
- first_name: Richard
full_name: Greene, Richard
last_name: Greene
citation:
ama: Vishik I, Mahmood F, Alpichshev Z, Gedik N, Higgins J, Greene R. Ultrafast
dynamics in the presence of antiferromagnetic correlations in electron doped cuprate
La2 xCexCuO4±δ. Physical Review B. 2017;95(11). doi:10.1103/PhysRevB.95.115125
apa: Vishik, I., Mahmood, F., Alpichshev, Z., Gedik, N., Higgins, J., & Greene,
R. (2017). Ultrafast dynamics in the presence of antiferromagnetic correlations
in electron doped cuprate La2 xCexCuO4±δ. Physical Review B. American Physical
Society. https://doi.org/10.1103/PhysRevB.95.115125
chicago: Vishik, Inna, Fahad Mahmood, Zhanybek Alpichshev, Nuh Gedik, Joshu Higgins,
and Richard Greene. “Ultrafast Dynamics in the Presence of Antiferromagnetic Correlations
in Electron Doped Cuprate La2 XCexCuO4±δ.” Physical Review B. American
Physical Society, 2017. https://doi.org/10.1103/PhysRevB.95.115125.
ieee: I. Vishik, F. Mahmood, Z. Alpichshev, N. Gedik, J. Higgins, and R. Greene,
“Ultrafast dynamics in the presence of antiferromagnetic correlations in electron
doped cuprate La2 xCexCuO4±δ,” Physical Review B, vol. 95, no. 11. American
Physical Society, 2017.
ista: Vishik I, Mahmood F, Alpichshev Z, Gedik N, Higgins J, Greene R. 2017. Ultrafast
dynamics in the presence of antiferromagnetic correlations in electron doped cuprate
La2 xCexCuO4±δ. Physical Review B. 95(11), 115125.
mla: Vishik, Inna, et al. “Ultrafast Dynamics in the Presence of Antiferromagnetic
Correlations in Electron Doped Cuprate La2 XCexCuO4±δ.” Physical Review B,
vol. 95, no. 11, 115125, American Physical Society, 2017, doi:10.1103/PhysRevB.95.115125.
short: I. Vishik, F. Mahmood, Z. Alpichshev, N. Gedik, J. Higgins, R. Greene, Physical
Review B 95 (2017).
date_created: 2018-12-11T11:46:13Z
date_published: 2017-03-13T00:00:00Z
date_updated: 2026-05-06T06:56:15Z
day: '13'
doi: 10.1103/PhysRevB.95.115125
extern: '1'
external_id:
arxiv:
- '1601.06694'
intvolume: ' 95'
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://dspace.mit.edu/handle/1721.1/109835
month: '03'
oa: 1
oa_version: Preprint
publication: Physical Review B
publication_identifier:
eissn:
- 2469-9969
issnl:
- 2469-9950
publication_status: published
publisher: American Physical Society
publist_id: '7437'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Ultrafast dynamics in the presence of antiferromagnetic correlations in electron
doped cuprate La2 xCexCuO4±δ
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 95
year: '2017'
...
---
_id: '1029'
abstract:
- lang: eng
text: RNA Polymerase II pauses and backtracks during transcription, with many consequences
for gene expression and cellular physiology. Here, we show that the energy required
to melt double-stranded nucleic acids in the transcription bubble predicts pausing
in Saccharomyces cerevisiae far more accurately than nucleosome roadblocks do.
In addition, the same energy difference also determines when the RNA polymerase
backtracks instead of continuing to move forward. This data-driven model corroborates—in
a genome wide and quantitative manner—previous evidence that sequence-dependent
thermodynamic features of nucleic acids influence both transcriptional pausing
and backtracking.
article_number: e0174066
article_processing_charge: Yes
author:
- first_name: Martin
full_name: Lukacisin, Martin
id: 298FFE8C-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisin
orcid: 0000-0001-6549-4177
- first_name: Matthieu
full_name: Landon, Matthieu
last_name: Landon
- first_name: Rishi
full_name: Jajoo, Rishi
last_name: Jajoo
citation:
ama: Lukacisin M, Landon M, Jajoo R. Sequence-specific thermodynamic properties
of nucleic acids influence both transcriptional pausing and backtracking in yeast.
PLoS One. 2017;12(3). doi:10.1371/journal.pone.0174066
apa: Lukacisin, M., Landon, M., & Jajoo, R. (2017). Sequence-specific thermodynamic
properties of nucleic acids influence both transcriptional pausing and backtracking
in yeast. PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0174066
chicago: Lukacisin, Martin, Matthieu Landon, and Rishi Jajoo. “Sequence-Specific
Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing
and Backtracking in Yeast.” PLoS One. Public Library of Science, 2017.
https://doi.org/10.1371/journal.pone.0174066.
ieee: M. Lukacisin, M. Landon, and R. Jajoo, “Sequence-specific thermodynamic properties
of nucleic acids influence both transcriptional pausing and backtracking in yeast,”
PLoS One, vol. 12, no. 3. Public Library of Science, 2017.
ista: Lukacisin M, Landon M, Jajoo R. 2017. Sequence-specific thermodynamic properties
of nucleic acids influence both transcriptional pausing and backtracking in yeast.
PLoS One. 12(3), e0174066.
mla: Lukacisin, Martin, et al. “Sequence-Specific Thermodynamic Properties of Nucleic
Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” PLoS
One, vol. 12, no. 3, e0174066, Public Library of Science, 2017, doi:10.1371/journal.pone.0174066.
short: M. Lukacisin, M. Landon, R. Jajoo, PLoS One 12 (2017).
date_created: 2018-12-11T11:49:46Z
date_published: 2017-03-16T00:00:00Z
date_updated: 2026-06-15T22:30:04Z
day: '16'
ddc:
- '570'
department:
- _id: ToBo
doi: 10.1371/journal.pone.0174066
external_id:
isi:
- '000396318300121'
file:
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:47Z
date_updated: 2018-12-12T10:09:47Z
file_id: '4772'
file_name: IST-2017-800-v1+1_journal.pone.0174066.pdf
file_size: 3429381
relation: main_file
file_date_updated: 2018-12-12T10:09:47Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '3'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_identifier:
issn:
- 1932-6203
publication_status: published
publisher: Public Library of Science
publist_id: '6361'
pubrep_id: '800'
quality_controlled: '1'
related_material:
record:
- id: '5556'
relation: popular_science
status: public
- id: '6392'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Sequence-specific thermodynamic properties of nucleic acids influence both
transcriptional pausing and backtracking in yeast
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: 12
year: '2017'
...
---
_id: '735'
abstract:
- lang: eng
text: Cell-cell contact formation constitutes an essential step in evolution, leading
to the differentiation of specialized cell types. However, remarkably little is
known about whether and how the interplay between contact formation and fate specification
affects development. Here, we identify a positive feedback loop between cell-cell
contact duration, morphogen signaling, and mesendoderm cell-fate specification
during zebrafish gastrulation. We show that long-lasting cell-cell contacts enhance
the competence of prechordal plate (ppl) progenitor cells to respond to Nodal
signaling, required for ppl cell-fate specification. We further show that Nodal
signaling promotes ppl cell-cell contact duration, generating a positive feedback
loop between ppl cell-cell contact duration and cell-fate specification. Finally,
by combining mathematical modeling and experimentation, we show that this feedback
determines whether anterior axial mesendoderm cells become ppl or, instead, turn
into endoderm. Thus, the interdependent activities of cell-cell signaling and
contact formation control fate diversification within the developing embryo.
article_processing_charge: No
author:
- first_name: Vanessa
full_name: Barone, Vanessa
id: 419EECCC-F248-11E8-B48F-1D18A9856A87
last_name: Barone
orcid: 0000-0003-2676-3367
- first_name: Moritz
full_name: Lang, Moritz
id: 29E0800A-F248-11E8-B48F-1D18A9856A87
last_name: Lang
- first_name: Gabriel
full_name: Krens, Gabriel
id: 2B819732-F248-11E8-B48F-1D18A9856A87
last_name: Krens
orcid: 0000-0003-4761-5996
- first_name: Saurabh
full_name: Pradhan, Saurabh
last_name: Pradhan
- first_name: Shayan
full_name: Shamipour, Shayan
id: 40B34FE2-F248-11E8-B48F-1D18A9856A87
last_name: Shamipour
- first_name: Keisuke
full_name: Sako, Keisuke
id: 3BED66BE-F248-11E8-B48F-1D18A9856A87
last_name: Sako
orcid: 0000-0002-6453-8075
- first_name: Mateusz K
full_name: Sikora, Mateusz K
id: 2F74BCDE-F248-11E8-B48F-1D18A9856A87
last_name: Sikora
- 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: 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: Barone V, Lang M, Krens G, et al. An effective feedback loop between cell-cell
contact duration and morphogen signaling determines cell fate. Developmental
Cell. 2017;43(2):198-211. doi:10.1016/j.devcel.2017.09.014
apa: Barone, V., Lang, M., Krens, G., Pradhan, S., Shamipour, S., Sako, K., … Heisenberg,
C.-P. J. (2017). An effective feedback loop between cell-cell contact duration
and morphogen signaling determines cell fate. Developmental Cell. Cell
Press. https://doi.org/10.1016/j.devcel.2017.09.014
chicago: Barone, Vanessa, Moritz Lang, Gabriel Krens, Saurabh Pradhan, Shayan Shamipour,
Keisuke Sako, Mateusz K Sikora, Calin C Guet, and Carl-Philipp J Heisenberg. “An
Effective Feedback Loop between Cell-Cell Contact Duration and Morphogen Signaling
Determines Cell Fate.” Developmental Cell. Cell Press, 2017. https://doi.org/10.1016/j.devcel.2017.09.014.
ieee: V. Barone et al., “An effective feedback loop between cell-cell contact
duration and morphogen signaling determines cell fate,” Developmental Cell,
vol. 43, no. 2. Cell Press, pp. 198–211, 2017.
ista: Barone V, Lang M, Krens G, Pradhan S, Shamipour S, Sako K, Sikora MK, Guet
CC, Heisenberg C-PJ. 2017. An effective feedback loop between cell-cell contact
duration and morphogen signaling determines cell fate. Developmental Cell. 43(2),
198–211.
mla: Barone, Vanessa, et al. “An Effective Feedback Loop between Cell-Cell Contact
Duration and Morphogen Signaling Determines Cell Fate.” Developmental Cell,
vol. 43, no. 2, Cell Press, 2017, pp. 198–211, doi:10.1016/j.devcel.2017.09.014.
short: V. Barone, M. Lang, G. Krens, S. Pradhan, S. Shamipour, K. Sako, M.K. Sikora,
C.C. Guet, C.-P.J. Heisenberg, Developmental Cell 43 (2017) 198–211.
corr_author: '1'
date_created: 2018-12-11T11:48:13Z
date_published: 2017-10-23T00:00:00Z
date_updated: 2026-06-15T22:30:13Z
day: '23'
department:
- _id: CaHe
- _id: CaGu
- _id: GaTk
doi: 10.1016/j.devcel.2017.09.014
ec_funded: 1
external_id:
isi:
- '000413443700011'
intvolume: ' 43'
isi: 1
issue: '2'
language:
- iso: eng
month: '10'
oa_version: None
page: 198 - 211
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 252DD2A6-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I2058
name: 'Cell segregation in gastrulation: the role of cell fate specification'
publication: Developmental Cell
publication_identifier:
issn:
- 1534-5807
publication_status: published
publisher: Cell Press
publist_id: '6934'
quality_controlled: '1'
related_material:
record:
- id: '961'
relation: dissertation_contains
status: public
- id: '8350'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: An effective feedback loop between cell-cell contact duration and morphogen
signaling determines cell fate
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 43
year: '2017'
...
---
_id: '1028'
abstract:
- lang: eng
text: Optogenetics and photopharmacology provide spatiotemporally precise control
over protein interactions and protein function in cells and animals. Optogenetic
methods that are sensitive to green light and can be used to break protein complexes
are not broadly available but would enable multichromatic experiments with previously
inaccessible biological targets. Herein, we repurposed cobalamin (vitamin B12)
binding domains of bacterial CarH transcription factors for green-light-induced
receptor dissociation. In cultured cells, we observed oligomerization-induced
cell signaling for the fibroblast growth factor receptor 1 fused to cobalamin-binding
domains in the dark that was rapidly eliminated upon illumination. In zebrafish
embryos expressing fusion receptors, green light endowed control over aberrant
fibroblast growth factor signaling during development. Green-light-induced domain
dissociation and light-inactivated receptors will critically expand the optogenetic
toolbox for control of biological processes.
acknowledgement: "This work was supported by a grant from the European Union\U0010FC1Ds
Seventh Framework Programme (CIG-303564). E.R. was supported by the graduate program
MolecularDrugTargets (Austrian Science Fund (FWF), W1232) and a FemTech fellowship
(Austrian Research Promotion Agency, 3580812)"
article_processing_charge: No
author:
- first_name: Stephanie
full_name: Kainrath, Stephanie
id: 32CFBA64-F248-11E8-B48F-1D18A9856A87
last_name: Kainrath
orcid: 0000-0002-6709-2195
- first_name: Manuela
full_name: Stadler, Manuela
last_name: Stadler
- 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: Martin
full_name: Distel, Martin
last_name: Distel
- 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: Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. Green-light-induced
inactivation of receptor signaling using cobalamin-binding domains. Angewandte
Chemie - International Edition. 2017;56(16):4608-4611. doi:10.1002/anie.201611998
apa: Kainrath, S., Stadler, M., Gschaider-Reichhart, E., Distel, M., & Janovjak,
H. L. (2017). Green-light-induced inactivation of receptor signaling using cobalamin-binding
domains. Angewandte Chemie - International Edition. Wiley-Blackwell. https://doi.org/10.1002/anie.201611998
chicago: Kainrath, Stephanie, Manuela Stadler, Eva Gschaider-Reichhart, Martin Distel,
and Harald L Janovjak. “Green-Light-Induced Inactivation of Receptor Signaling
Using Cobalamin-Binding Domains.” Angewandte Chemie - International Edition.
Wiley-Blackwell, 2017. https://doi.org/10.1002/anie.201611998.
ieee: S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, and H. L. Janovjak,
“Green-light-induced inactivation of receptor signaling using cobalamin-binding
domains,” Angewandte Chemie - International Edition, vol. 56, no. 16. Wiley-Blackwell,
pp. 4608–4611, 2017.
ista: Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. 2017.
Green-light-induced inactivation of receptor signaling using cobalamin-binding
domains. Angewandte Chemie - International Edition. 56(16), 4608–4611.
mla: Kainrath, Stephanie, et al. “Green-Light-Induced Inactivation of Receptor Signaling
Using Cobalamin-Binding Domains.” Angewandte Chemie - International Edition,
vol. 56, no. 16, Wiley-Blackwell, 2017, pp. 4608–11, doi:10.1002/anie.201611998.
short: S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak,
Angewandte Chemie - International Edition 56 (2017) 4608–4611.
corr_author: '1'
date_created: 2018-12-11T11:49:46Z
date_published: 2017-03-20T00:00:00Z
date_updated: 2026-06-15T22:30:15Z
day: '20'
ddc:
- '540'
department:
- _id: CaGu
- _id: HaJa
doi: 10.1002/anie.201611998
ec_funded: 1
external_id:
isi:
- '000398154000038'
file:
- access_level: open_access
content_type: application/pdf
creator: dernst
date_created: 2019-01-18T09:39:55Z
date_updated: 2019-01-18T09:39:55Z
file_id: '5845'
file_name: 2017_communications_Kainrath.pdf
file_size: 2614942
relation: main_file
success: 1
file_date_updated: 2019-01-18T09:39:55Z
has_accepted_license: '1'
intvolume: ' 56'
isi: 1
issue: '16'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 4608-4611
project:
- _id: 25548C20-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '303564'
name: Microbial Ion Channels for Synthetic Neurobiology
- _id: 26AA4EF2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: W1232-B24
name: Molecular Drug Targets
publication: Angewandte Chemie - International Edition
publication_identifier:
issn:
- 1433-7851
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6362'
quality_controlled: '1'
related_material:
record:
- id: '418'
relation: dissertation_contains
status: public
- id: '7680'
relation: part_of_dissertation
status: public
scopus_import: '1'
status: public
title: Green-light-induced inactivation of receptor signaling using cobalamin-binding
domains
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: 56
year: '2017'
...
---
_id: '960'
abstract:
- lang: eng
text: The human cerebral cortex is the seat of our cognitive abilities and composed
of an extraordinary number of neurons, organized in six distinct layers. The establishment
of specific morphological and physiological features in individual neurons needs
to be regulated with high precision. Impairments in the sequential developmental
programs instructing corticogenesis lead to alterations in the cortical cytoarchitecture
which is thought to represent the major underlying cause for several neurological
disorders including neurodevelopmental and psychiatric diseases. In this review
we discuss the role of cell polarity at sequential stages during cortex development.
We first provide an overview of morphological cell polarity features in cortical
neural stem cells and newly-born postmitotic neurons. We then synthesize a conceptual
molecular and biochemical framework how cell polarity is established at the cellular
level through a break in symmetry in nascent cortical projection neurons. Lastly
we provide a perspective how the molecular mechanisms applying to single cells
could be probed and integrated in an in vivo and tissue-wide context.
article_number: '176'
article_processing_charge: Yes
author:
- first_name: Andi H
full_name: Hansen, Andi H
id: 38853E16-F248-11E8-B48F-1D18A9856A87
last_name: Hansen
- first_name: Christian F
full_name: Düllberg, Christian F
id: 459064DC-F248-11E8-B48F-1D18A9856A87
last_name: Düllberg
orcid: 0000-0001-6335-9748
- first_name: Christine
full_name: Mieck, Christine
id: 34CAE85C-F248-11E8-B48F-1D18A9856A87
last_name: Mieck
orcid: 0000-0003-1919-7416
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Hansen AH, Düllberg CF, Mieck C, Loose M, Hippenmeyer S. Cell polarity in cerebral
cortex development - cellular architecture shaped by biochemical networks. Frontiers
in Cellular Neuroscience. 2017;11. doi:10.3389/fncel.2017.00176
apa: Hansen, A. H., Düllberg, C. F., Mieck, C., Loose, M., & Hippenmeyer, S.
(2017). Cell polarity in cerebral cortex development - cellular architecture shaped
by biochemical networks. Frontiers in Cellular Neuroscience. Frontiers
Research Foundation. https://doi.org/10.3389/fncel.2017.00176
chicago: Hansen, Andi H, Christian F Düllberg, Christine Mieck, Martin Loose, and
Simon Hippenmeyer. “Cell Polarity in Cerebral Cortex Development - Cellular Architecture
Shaped by Biochemical Networks.” Frontiers in Cellular Neuroscience. Frontiers
Research Foundation, 2017. https://doi.org/10.3389/fncel.2017.00176.
ieee: A. H. Hansen, C. F. Düllberg, C. Mieck, M. Loose, and S. Hippenmeyer, “Cell
polarity in cerebral cortex development - cellular architecture shaped by biochemical
networks,” Frontiers in Cellular Neuroscience, vol. 11. Frontiers Research
Foundation, 2017.
ista: Hansen AH, Düllberg CF, Mieck C, Loose M, Hippenmeyer S. 2017. Cell polarity
in cerebral cortex development - cellular architecture shaped by biochemical networks.
Frontiers in Cellular Neuroscience. 11, 176.
mla: Hansen, Andi H., et al. “Cell Polarity in Cerebral Cortex Development - Cellular
Architecture Shaped by Biochemical Networks.” Frontiers in Cellular Neuroscience,
vol. 11, 176, Frontiers Research Foundation, 2017, doi:10.3389/fncel.2017.00176.
short: A.H. Hansen, C.F. Düllberg, C. Mieck, M. Loose, S. Hippenmeyer, Frontiers
in Cellular Neuroscience 11 (2017).
date_created: 2018-12-11T11:49:25Z
date_published: 2017-06-28T00:00:00Z
date_updated: 2026-06-15T22:30:48Z
day: '28'
ddc:
- '570'
department:
- _id: SiHi
- _id: MaLo
doi: 10.3389/fncel.2017.00176
ec_funded: 1
external_id:
isi:
- '000404486700001'
file:
- access_level: open_access
checksum: dc1f5a475b918d09a0f9f587400b1626
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:40Z
date_updated: 2020-07-14T12:48:16Z
file_id: '4764'
file_name: IST-2017-830-v1+1_2017_Hansen_CellPolarity.pdf
file_size: 2153858
relation: main_file
file_date_updated: 2020-07-14T12:48:16Z
has_accepted_license: '1'
intvolume: ' 11'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 25D61E48-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618444'
name: Molecular Mechanisms of Cerebral Cortex Development
- _id: 25D7962E-B435-11E9-9278-68D0E5697425
grant_number: RGP0053/2014
name: Quantitative Structure-Function Analysis of Cerebral Cortex Assembly at Clonal
Level
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 25985A36-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: T00817-B21
name: The biochemical basis of PAR polarization
publication: Frontiers in Cellular Neuroscience
publication_identifier:
issn:
- 1662-5102
publication_status: published
publisher: Frontiers Research Foundation
publist_id: '6445'
pubrep_id: '830'
quality_controlled: '1'
related_material:
record:
- id: '9962'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Cell polarity in cerebral cortex development - cellular architecture shaped
by biochemical networks
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: 11
year: '2017'
...
---
_id: '664'
abstract:
- lang: eng
text: Immune cells communicate using cytokine signals, but the quantitative rules
of this communication aren't clear. In this issue of Immunity, Oyler-Yaniv et
al. (2017) suggest that the distribution of a cytokine within a lymphatic organ
is primarily governed by the local density of cells consuming it.
article_processing_charge: No
author:
- first_name: Frank P
full_name: Assen, Frank P
id: 3A8E7F24-F248-11E8-B48F-1D18A9856A87
last_name: Assen
orcid: 0000-0003-3470-6119
- 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: Assen FP, Sixt MK. The dynamic cytokine niche. Immunity. 2017;46(4):519-520.
doi:10.1016/j.immuni.2017.04.006
apa: Assen, F. P., & Sixt, M. K. (2017). The dynamic cytokine niche. Immunity.
Cell Press. https://doi.org/10.1016/j.immuni.2017.04.006
chicago: Assen, Frank P, and Michael K Sixt. “The Dynamic Cytokine Niche.” Immunity.
Cell Press, 2017. https://doi.org/10.1016/j.immuni.2017.04.006.
ieee: F. P. Assen and M. K. Sixt, “The dynamic cytokine niche,” Immunity,
vol. 46, no. 4. Cell Press, pp. 519–520, 2017.
ista: Assen FP, Sixt MK. 2017. The dynamic cytokine niche. Immunity. 46(4), 519–520.
mla: Assen, Frank P., and Michael K. Sixt. “The Dynamic Cytokine Niche.” Immunity,
vol. 46, no. 4, Cell Press, 2017, pp. 519–20, doi:10.1016/j.immuni.2017.04.006.
short: F.P. Assen, M.K. Sixt, Immunity 46 (2017) 519–520.
corr_author: '1'
date_created: 2018-12-11T11:47:47Z
date_published: 2017-04-18T00:00:00Z
date_updated: 2026-06-15T22:30:56Z
day: '18'
department:
- _id: MiSi
doi: 10.1016/j.immuni.2017.04.006
external_id:
isi:
- '000399451100002'
intvolume: ' 46'
isi: 1
issue: '4'
language:
- iso: eng
month: '04'
oa_version: None
page: 519 - 520
publication: Immunity
publication_identifier:
issn:
- 1074-7613
publication_status: published
publisher: Cell Press
publist_id: '7065'
quality_controlled: '1'
related_material:
record:
- id: '6947'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: The dynamic cytokine niche
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 46
year: '2017'
...
---
_id: '696'
abstract:
- lang: eng
text: Mutator strains are expected to evolve when the availability and effect of
beneficial mutations are high enough to counteract the disadvantage from deleterious
mutations that will inevitably accumulate. As the population becomes more adapted
to its environment, both availability and effect of beneficial mutations necessarily
decrease and mutation rates are predicted to decrease. It has been shown that
certain molecular mechanisms can lead to increased mutation rates when the organism
finds itself in a stressful environment. While this may be a correlated response
to other functions, it could also be an adaptive mechanism, raising mutation rates
only when it is most advantageous. Here, we use a mathematical model to investigate
the plausibility of the adaptive hypothesis. We show that such a mechanism can
be mantained if the population is subjected to diverse stresses. By simulating
various antibiotic treatment schemes, we find that combination treatments can
reduce the effectiveness of second-order selection on stress-induced mutagenesis.
We discuss the implications of our results to strategies of antibiotic therapy.
article_number: e1005609
article_processing_charge: No
article_type: original
author:
- first_name: Marta
full_name: Lukacisinova, Marta
id: 4342E402-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisinova
orcid: 0000-0002-2519-8004
- first_name: Sebastian
full_name: Novak, Sebastian
id: 461468AE-F248-11E8-B48F-1D18A9856A87
last_name: Novak
orcid: 0000-0002-2519-824X
- first_name: Tiago
full_name: Paixao, Tiago
id: 2C5658E6-F248-11E8-B48F-1D18A9856A87
last_name: Paixao
orcid: 0000-0003-2361-3953
citation:
ama: 'Lukacisinova M, Novak S, Paixao T. Stress induced mutagenesis: Stress diversity
facilitates the persistence of mutator genes. PLoS Computational Biology.
2017;13(7). doi:10.1371/journal.pcbi.1005609'
apa: 'Lukacisinova, M., Novak, S., & Paixao, T. (2017). Stress induced mutagenesis:
Stress diversity facilitates the persistence of mutator genes. PLoS Computational
Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005609'
chicago: 'Lukacisinova, Marta, Sebastian Novak, and Tiago Paixao. “Stress Induced
Mutagenesis: Stress Diversity Facilitates the Persistence of Mutator Genes.” PLoS
Computational Biology. Public Library of Science, 2017. https://doi.org/10.1371/journal.pcbi.1005609.'
ieee: 'M. Lukacisinova, S. Novak, and T. Paixao, “Stress induced mutagenesis: Stress
diversity facilitates the persistence of mutator genes,” PLoS Computational
Biology, vol. 13, no. 7. Public Library of Science, 2017.'
ista: 'Lukacisinova M, Novak S, Paixao T. 2017. Stress induced mutagenesis: Stress
diversity facilitates the persistence of mutator genes. PLoS Computational Biology.
13(7), e1005609.'
mla: 'Lukacisinova, Marta, et al. “Stress Induced Mutagenesis: Stress Diversity
Facilitates the Persistence of Mutator Genes.” PLoS Computational Biology,
vol. 13, no. 7, e1005609, Public Library of Science, 2017, doi:10.1371/journal.pcbi.1005609.'
short: M. Lukacisinova, S. Novak, T. Paixao, PLoS Computational Biology 13 (2017).
corr_author: '1'
date_created: 2018-12-11T11:47:58Z
date_published: 2017-07-18T00:00:00Z
date_updated: 2026-06-15T22:30:58Z
day: '18'
ddc:
- '576'
department:
- _id: ToBo
- _id: NiBa
- _id: CaGu
doi: 10.1371/journal.pcbi.1005609
ec_funded: 1
external_id:
isi:
- '000406619800014'
file:
- access_level: open_access
checksum: 9143c290fa6458ed2563bff4b295554a
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:01Z
date_updated: 2020-07-14T12:47:46Z
file_id: '5117'
file_name: IST-2017-894-v1+1_journal.pcbi.1005609.pdf
file_size: 3775716
relation: main_file
file_date_updated: 2020-07-14T12:47:46Z
has_accepted_license: '1'
intvolume: ' 13'
isi: 1
issue: '7'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
project:
- _id: 25B1EC9E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618091'
name: Speed of Adaptation in Population Genetics and Evolutionary Computation
publication: PLoS Computational Biology
publication_identifier:
issn:
- 1553-734X
publication_status: published
publisher: Public Library of Science
publist_id: '7004'
pubrep_id: '894'
quality_controlled: '1'
related_material:
record:
- id: '9849'
relation: research_data
status: public
- id: '9850'
relation: research_data
status: public
- id: '9851'
relation: research_data
status: public
- id: '9852'
relation: research_data
status: public
- id: '6263'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 'Stress induced mutagenesis: Stress diversity facilitates the persistence of
mutator genes'
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 13
year: '2017'
...
---
_id: '682'
abstract:
- lang: eng
text: Left-right asymmetry is a fundamental feature of higher-order brain structure;
however, the molecular basis of brain asymmetry remains unclear. We recently identified
structural and functional asymmetries in mouse hippocampal circuitry that result
from the asymmetrical distribution of two distinct populations of pyramidal cell
synapses that differ in the density of the NMDA receptor subunit GluRε2 (also
known as NR2B, GRIN2B or GluN2B). By examining the synaptic distribution of ε2
subunits, we previously found that β2-microglobulin-deficient mice, which lack
cell surface expression of the vast majority of major histocompatibility complex
class I (MHCI) proteins, do not exhibit circuit asymmetry. In the present study,
we conducted electrophysiological and anatomical analyses on the hippocampal circuitry
of mice with a knockout of the paired immunoglobulin-like receptor B (PirB), an
MHCI receptor. As in β2-microglobulin-deficient mice, the PirB-deficient hippocampus
lacked circuit asymmetries. This finding that MHCI loss-of-function mice and PirB
knockout mice have identical phenotypes suggests that MHCI signals that produce
hippocampal asymmetries are transduced through PirB. Our results provide evidence
for a critical role of the MHCI/PirB signaling system in the generation of asymmetries
in hippocampal circuitry.
article_number: e0179377
article_processing_charge: No
article_type: original
author:
- first_name: Hikari
full_name: Ukai, Hikari
last_name: Ukai
- first_name: Aiko
full_name: Kawahara, Aiko
last_name: Kawahara
- first_name: Keiko
full_name: Hirayama, Keiko
last_name: Hirayama
- first_name: Matthew J
full_name: Case, Matthew J
id: 44B7CA5A-F248-11E8-B48F-1D18A9856A87
last_name: Case
- first_name: Shotaro
full_name: Aino, Shotaro
last_name: Aino
- first_name: Masahiro
full_name: Miyabe, Masahiro
last_name: Miyabe
- first_name: Ken
full_name: Wakita, Ken
last_name: Wakita
- first_name: Ryohei
full_name: Oogi, Ryohei
last_name: Oogi
- first_name: Michiyo
full_name: Kasayuki, Michiyo
last_name: Kasayuki
- first_name: Shihomi
full_name: Kawashima, Shihomi
last_name: Kawashima
- first_name: Shunichi
full_name: Sugimoto, Shunichi
last_name: Sugimoto
- first_name: Kanako
full_name: Chikamatsu, Kanako
last_name: Chikamatsu
- first_name: Noritaka
full_name: Nitta, Noritaka
last_name: Nitta
- first_name: Tsuneyuki
full_name: Koga, Tsuneyuki
last_name: Koga
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Toshiyuki
full_name: Takai, Toshiyuki
last_name: Takai
- first_name: Isao
full_name: Ito, Isao
last_name: Ito
citation:
ama: Ukai H, Kawahara A, Hirayama K, et al. PirB regulates asymmetries in hippocampal
circuitry. PLoS One. 2017;12(6). doi:10.1371/journal.pone.0179377
apa: Ukai, H., Kawahara, A., Hirayama, K., Case, M. J., Aino, S., Miyabe, M., …
Ito, I. (2017). PirB regulates asymmetries in hippocampal circuitry. PLoS One.
Public Library of Science. https://doi.org/10.1371/journal.pone.0179377
chicago: Ukai, Hikari, Aiko Kawahara, Keiko Hirayama, Matthew J Case, Shotaro Aino,
Masahiro Miyabe, Ken Wakita, et al. “PirB Regulates Asymmetries in Hippocampal
Circuitry.” PLoS One. Public Library of Science, 2017. https://doi.org/10.1371/journal.pone.0179377.
ieee: H. Ukai et al., “PirB regulates asymmetries in hippocampal circuitry,”
PLoS One, vol. 12, no. 6. Public Library of Science, 2017.
ista: Ukai H, Kawahara A, Hirayama K, Case MJ, Aino S, Miyabe M, Wakita K, Oogi
R, Kasayuki M, Kawashima S, Sugimoto S, Chikamatsu K, Nitta N, Koga T, Shigemoto
R, Takai T, Ito I. 2017. PirB regulates asymmetries in hippocampal circuitry.
PLoS One. 12(6), e0179377.
mla: Ukai, Hikari, et al. “PirB Regulates Asymmetries in Hippocampal Circuitry.”
PLoS One, vol. 12, no. 6, e0179377, Public Library of Science, 2017, doi:10.1371/journal.pone.0179377.
short: H. Ukai, A. Kawahara, K. Hirayama, M.J. Case, S. Aino, M. Miyabe, K. Wakita,
R. Oogi, M. Kasayuki, S. Kawashima, S. Sugimoto, K. Chikamatsu, N. Nitta, T. Koga,
R. Shigemoto, T. Takai, I. Ito, PLoS One 12 (2017).
date_created: 2018-12-11T11:47:54Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2026-06-15T22:30:59Z
day: '01'
ddc:
- '571'
department:
- _id: RySh
doi: 10.1371/journal.pone.0179377
external_id:
isi:
- '000402923200125'
file:
- access_level: open_access
checksum: 24dd19c46fb1c761b0bcbbcd1025a3a8
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:16Z
date_updated: 2020-07-14T12:47:40Z
file_id: '4934'
file_name: IST-2017-897-v1+1_journal.pone.0179377.pdf
file_size: 5798454
relation: main_file
file_date_updated: 2020-07-14T12:47:40Z
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_identifier:
issn:
- 1932-6203
publication_status: published
publisher: Public Library of Science
publist_id: '7034'
pubrep_id: '897'
quality_controlled: '1'
related_material:
record:
- id: '51'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: PirB regulates asymmetries in hippocampal circuitry
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 12
year: '2017'
...
---
_id: '1027'
abstract:
- lang: eng
text: The rising prevalence of antibiotic resistant bacteria is an increasingly
serious public health challenge. To address this problem, recent work ranging
from clinical studies to theoretical modeling has provided valuable insights into
the mechanisms of resistance, its emergence and spread, and ways to counteract
it. A deeper understanding of the underlying dynamics of resistance evolution
will require a combination of experimental and theoretical expertise from different
disciplines and new technology for studying evolution in the laboratory. Here,
we review recent advances in the quantitative understanding of the mechanisms
and evolution of antibiotic resistance. We focus on key theoretical concepts and
new technology that enables well-controlled experiments. We further highlight
key challenges that can be met in the near future to ultimately develop effective
strategies for combating resistance.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Marta
full_name: Lukacisinova, Marta
id: 4342E402-F248-11E8-B48F-1D18A9856A87
last_name: Lukacisinova
orcid: 0000-0002-2519-8004
- first_name: Mark Tobias
full_name: Bollenbach, Mark Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
orcid: 0000-0003-4398-476X
citation:
ama: Lukacisinova M, Bollenbach MT. Toward a quantitative understanding of antibiotic
resistance evolution. Current Opinion in Biotechnology. 2017;46:90-97.
doi:10.1016/j.copbio.2017.02.013
apa: Lukacisinova, M., & Bollenbach, M. T. (2017). Toward a quantitative understanding
of antibiotic resistance evolution. Current Opinion in Biotechnology. Elsevier.
https://doi.org/10.1016/j.copbio.2017.02.013
chicago: Lukacisinova, Marta, and Mark Tobias Bollenbach. “Toward a Quantitative
Understanding of Antibiotic Resistance Evolution.” Current Opinion in Biotechnology.
Elsevier, 2017. https://doi.org/10.1016/j.copbio.2017.02.013.
ieee: M. Lukacisinova and M. T. Bollenbach, “Toward a quantitative understanding
of antibiotic resistance evolution,” Current Opinion in Biotechnology,
vol. 46. Elsevier, pp. 90–97, 2017.
ista: Lukacisinova M, Bollenbach MT. 2017. Toward a quantitative understanding of
antibiotic resistance evolution. Current Opinion in Biotechnology. 46, 90–97.
mla: Lukacisinova, Marta, and Mark Tobias Bollenbach. “Toward a Quantitative Understanding
of Antibiotic Resistance Evolution.” Current Opinion in Biotechnology,
vol. 46, Elsevier, 2017, pp. 90–97, doi:10.1016/j.copbio.2017.02.013.
short: M. Lukacisinova, M.T. Bollenbach, Current Opinion in Biotechnology 46 (2017)
90–97.
corr_author: '1'
date_created: 2018-12-11T11:49:45Z
date_published: 2017-08-01T00:00:00Z
date_updated: 2026-06-15T22:30:58Z
day: '01'
ddc:
- '570'
department:
- _id: ToBo
doi: 10.1016/j.copbio.2017.02.013
ec_funded: 1
external_id:
isi:
- '000408077400015'
file:
- access_level: open_access
content_type: application/pdf
creator: dernst
date_created: 2019-01-18T09:57:57Z
date_updated: 2019-01-18T09:57:57Z
file_id: '5846'
file_name: 2017_CurrentOpinion_Lukaciinova.pdf
file_size: 858338
relation: main_file
success: 1
file_date_updated: 2019-01-18T09:57:57Z
has_accepted_license: '1'
intvolume: ' 46'
isi: 1
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '08'
oa: 1
oa_version: Published Version
page: 90 - 97
project:
- _id: 25E9AF9E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27201-B22
name: Revealing the mechanisms underlying drug interactions
- _id: 25E83C2C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '303507'
name: Optimality principles in responses to antibiotics
- _id: 25EB3A80-B435-11E9-9278-68D0E5697425
grant_number: RGP0042/2013
name: Revealing the fundamental limits of cell growth
publication: Current Opinion in Biotechnology
publication_status: published
publisher: Elsevier
publist_id: '6364'
pubrep_id: '801'
quality_controlled: '1'
related_material:
record:
- id: '6263'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Toward a quantitative understanding of antibiotic resistance evolution
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 46
year: '2017'
...
---
_id: '704'
abstract:
- lang: eng
text: 'How the organization of genes on a chromosome shapes adaptation is essential
for understanding evolutionary paths. Here, we investigate how adaptation to rapidly
increasing levels of antibiotic depends on the chromosomal neighborhood of a drug-resistance
gene inserted at different positions of the Escherichia coli chromosome. Using
a dual-fluorescence reporter that allows us to distinguish gene amplifications
from other up-mutations, we track in real-time adaptive changes in expression
of the drug-resistance gene. We find that the relative contribution of several
mutation types differs systematically between loci due to properties of neighboring
genes: essentiality, expression, orientation, termination, and presence of duplicates.
These properties determine rate and fitness effects of gene amplification, deletions,
and mutations compromising transcriptional termination. Thus, the adaptive potential
of a gene under selection is a system-property with a complex genetic basis that
is specific for each chromosomal locus, and it can be inferred from detailed functional
and genomic data.'
article_number: e25100
article_processing_charge: No
author:
- first_name: Magdalena
full_name: Steinrück, Magdalena
id: 2C023F40-F248-11E8-B48F-1D18A9856A87
last_name: Steinrück
orcid: 0000-0003-1229-9719
- 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: Steinrück M, Guet CC. Complex chromosomal neighborhood effects determine the
adaptive potential of a gene under selection. eLife. 2017;6. doi:10.7554/eLife.25100
apa: Steinrück, M., & Guet, C. C. (2017). Complex chromosomal neighborhood effects
determine the adaptive potential of a gene under selection. ELife. eLife
Sciences Publications. https://doi.org/10.7554/eLife.25100
chicago: Steinrück, Magdalena, and Calin C Guet. “Complex Chromosomal Neighborhood
Effects Determine the Adaptive Potential of a Gene under Selection.” ELife.
eLife Sciences Publications, 2017. https://doi.org/10.7554/eLife.25100.
ieee: M. Steinrück and C. C. Guet, “Complex chromosomal neighborhood effects determine
the adaptive potential of a gene under selection,” eLife, vol. 6. eLife
Sciences Publications, 2017.
ista: Steinrück M, Guet CC. 2017. Complex chromosomal neighborhood effects determine
the adaptive potential of a gene under selection. eLife. 6, e25100.
mla: Steinrück, Magdalena, and Calin C. Guet. “Complex Chromosomal Neighborhood
Effects Determine the Adaptive Potential of a Gene under Selection.” ELife,
vol. 6, e25100, eLife Sciences Publications, 2017, doi:10.7554/eLife.25100.
short: M. Steinrück, C.C. Guet, ELife 6 (2017).
corr_author: '1'
date_created: 2018-12-11T11:48:01Z
date_published: 2017-07-25T00:00:00Z
date_updated: 2026-06-15T22:31:02Z
day: '25'
ddc:
- '576'
department:
- _id: CaGu
doi: 10.7554/eLife.25100
external_id:
isi:
- '000406183700001'
file:
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checksum: 6b908b5db9f61f6820ebd7f8fa815571
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:54Z
date_updated: 2020-07-14T12:47:48Z
file_id: '4975'
file_name: IST-2017-890-v1+1_elife-25100-v1.pdf
file_size: 2092088
relation: main_file
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checksum: ca21530389b720243552678125fdba35
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:55Z
date_updated: 2020-07-14T12:47:48Z
file_id: '4976'
file_name: IST-2017-890-v1+2_elife-25100-figures-v1.pdf
file_size: 3428681
relation: main_file
file_date_updated: 2020-07-14T12:47:48Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
publication: eLife
publication_identifier:
issn:
- 2050-084X
publication_status: published
publisher: eLife Sciences Publications
publist_id: '6990'
pubrep_id: '890'
quality_controlled: '1'
related_material:
record:
- id: '5564'
relation: popular_science
status: public
- id: '26'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Complex chromosomal neighborhood effects determine the adaptive potential of
a gene under selection
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 6
year: '2017'
...
---
_id: '1024'
abstract:
- lang: eng
text: The history of auxin and cytokinin biology including the initial discoveries
by father–son duo Charles Darwin and Francis Darwin (1880), and Gottlieb Haberlandt
(1919) is a beautiful demonstration of unceasing continuity of research. Novel
findings are integrated into existing hypotheses and models and deepen our understanding
of biological principles. At the same time new questions are triggered and hand
to hand with this new methodologies are developed to address these new challenges.
alternative_title:
- Methods in Molecular Biology
article_processing_charge: No
author:
- first_name: Andrej
full_name: Hurny, Andrej
id: 4DC4AF46-F248-11E8-B48F-1D18A9856A87
last_name: Hurny
orcid: 0000-0003-3638-1426
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Hurny A, Benková E. Methodological advances in auxin and cytokinin biology.
Auxins and Cytokinins in Plant Biology. 2017;1569:1-29. doi:10.1007/978-1-4939-6831-2_1
apa: Hurny, A., & Benková, E. (2017). Methodological advances in auxin and cytokinin
biology. Auxins and Cytokinins in Plant Biology. Springer. https://doi.org/10.1007/978-1-4939-6831-2_1
chicago: Hurny, Andrej, and Eva Benková. “Methodological Advances in Auxin and Cytokinin
Biology.” Auxins and Cytokinins in Plant Biology. Springer, 2017. https://doi.org/10.1007/978-1-4939-6831-2_1.
ieee: A. Hurny and E. Benková, “Methodological advances in auxin and cytokinin biology,”
Auxins and Cytokinins in Plant Biology, vol. 1569. Springer, pp. 1–29,
2017.
ista: Hurny A, Benková E. 2017. Methodological advances in auxin and cytokinin biology.
Auxins and Cytokinins in Plant Biology. 1569, 1–29.
mla: Hurny, Andrej, and Eva Benková. “Methodological Advances in Auxin and Cytokinin
Biology.” Auxins and Cytokinins in Plant Biology, vol. 1569, Springer,
2017, pp. 1–29, doi:10.1007/978-1-4939-6831-2_1.
short: A. Hurny, E. Benková, Auxins and Cytokinins in Plant Biology 1569 (2017)
1–29.
corr_author: '1'
date_created: 2018-12-11T11:49:45Z
date_published: 2017-03-17T00:00:00Z
date_updated: 2026-06-15T22:31:01Z
day: '17'
ddc:
- '575'
department:
- _id: EvBe
doi: 10.1007/978-1-4939-6831-2_1
file:
- access_level: open_access
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:18Z
date_updated: 2019-10-15T07:47:05Z
file_id: '5068'
file_name: IST-2018-1019-v1+1_Hurny_MethodsMolBiol_2017.pdf
file_size: 840646
relation: main_file
file_date_updated: 2019-10-15T07:47:05Z
has_accepted_license: '1'
intvolume: ' 1569'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Submitted Version
page: 1 - 29
project:
- _id: 2542D156-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I 1774-B16
name: Hormone cross-talk drives nutrient dependent plant development
publication: Auxins and Cytokinins in Plant Biology
publication_identifier:
issn:
- 1064-3745
publication_status: published
publisher: Springer
publist_id: '6369'
pubrep_id: '1019'
quality_controlled: '1'
related_material:
record:
- id: '539'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Methodological advances in auxin and cytokinin biology
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 1569
year: '2017'
...
---
_id: '679'
abstract:
- lang: eng
text: Protective responses against pathogens require a rapid mobilization of resting
neutrophils and the timely removal of activated ones. Neutrophils are exceptionally
short-lived leukocytes, yet it remains unclear whether the lifespan of pathogen-engaged
neutrophils is regulated differently from that in the circulating steady-state
pool. Here, we have found that under homeostatic conditions, the mRNA-destabilizing
protein tristetraprolin (TTP) regulates apoptosis and the numbers of activated
infiltrating murine neutrophils but not neutrophil cellularity. Activated TTP-deficient
neutrophils exhibited decreased apoptosis and enhanced accumulation at the infection
site. In the context of myeloid-specific deletion of Ttp, the potentiation of
neutrophil deployment protected mice against lethal soft tissue infection with
Streptococcus pyogenes and prevented bacterial dissemination. Neutrophil transcriptome
analysis revealed that decreased apoptosis of TTP-deficient neutrophils was specifically
associated with elevated expression of myeloid cell leukemia 1 (Mcl1) but not
other antiapoptotic B cell leukemia/ lymphoma 2 (Bcl2) family members. Higher
Mcl1 expression resulted from stabilization of Mcl1 mRNA in the absence of TTP.
The low apoptosis rate of infiltrating TTP-deficient neutrophils was comparable
to that of transgenic Mcl1-overexpressing neutrophils. Our study demonstrates
that posttranscriptional gene regulation by TTP schedules the termination of the
antimicrobial engagement of neutrophils. The balancing role of TTP comes at the
cost of an increased risk of bacterial infections.
acknowledgement: This work was supported by grants from the Austrian Science Fund
(FWF) (P27538-B21, I1621-B22, and SFB 43, to PK); by funding from the European Union
Seventh Framework Programme Marie Curie Initial Training Networks (FP7-PEOPLE-2012-ITN)
for the project INBIONET (INfection BIOlogy Training NETwork under grant agreement
PITN-GA-2012-316682; and by a joint research cluster initiative of the University
of Vienna and the Medical University of Vienna.
article_processing_charge: No
author:
- first_name: Florian
full_name: Ebner, Florian
last_name: Ebner
- first_name: Vitaly
full_name: Sedlyarov, Vitaly
last_name: Sedlyarov
- first_name: Saren
full_name: Tasciyan, Saren
id: 4323B49C-F248-11E8-B48F-1D18A9856A87
last_name: Tasciyan
orcid: 0000-0003-1671-393X
- first_name: Masa
full_name: Ivin, Masa
last_name: Ivin
- first_name: Franz
full_name: Kratochvill, Franz
last_name: Kratochvill
- first_name: Nina
full_name: Gratz, Nina
last_name: Gratz
- first_name: Lukas
full_name: Kenner, Lukas
last_name: Kenner
- first_name: Andreas
full_name: Villunger, Andreas
last_name: Villunger
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Pavel
full_name: Kovarik, Pavel
last_name: Kovarik
citation:
ama: Ebner F, Sedlyarov V, Tasciyan S, et al. The RNA-binding protein tristetraprolin
schedules apoptosis of pathogen-engaged neutrophils during bacterial infection.
The Journal of Clinical Investigation. 2017;127(6):2051-2065. doi:10.1172/JCI80631
apa: Ebner, F., Sedlyarov, V., Tasciyan, S., Ivin, M., Kratochvill, F., Gratz, N.,
… Kovarik, P. (2017). The RNA-binding protein tristetraprolin schedules apoptosis
of pathogen-engaged neutrophils during bacterial infection. The Journal of
Clinical Investigation. American Society for Clinical Investigation. https://doi.org/10.1172/JCI80631
chicago: Ebner, Florian, Vitaly Sedlyarov, Saren Tasciyan, Masa Ivin, Franz Kratochvill,
Nina Gratz, Lukas Kenner, Andreas Villunger, Michael K Sixt, and Pavel Kovarik.
“The RNA-Binding Protein Tristetraprolin Schedules Apoptosis of Pathogen-Engaged
Neutrophils during Bacterial Infection.” The Journal of Clinical Investigation.
American Society for Clinical Investigation, 2017. https://doi.org/10.1172/JCI80631.
ieee: F. Ebner et al., “The RNA-binding protein tristetraprolin schedules
apoptosis of pathogen-engaged neutrophils during bacterial infection,” The
Journal of Clinical Investigation, vol. 127, no. 6. American Society for Clinical
Investigation, pp. 2051–2065, 2017.
ista: Ebner F, Sedlyarov V, Tasciyan S, Ivin M, Kratochvill F, Gratz N, Kenner L,
Villunger A, Sixt MK, Kovarik P. 2017. The RNA-binding protein tristetraprolin
schedules apoptosis of pathogen-engaged neutrophils during bacterial infection.
The Journal of Clinical Investigation. 127(6), 2051–2065.
mla: Ebner, Florian, et al. “The RNA-Binding Protein Tristetraprolin Schedules Apoptosis
of Pathogen-Engaged Neutrophils during Bacterial Infection.” The Journal of
Clinical Investigation, vol. 127, no. 6, American Society for Clinical Investigation,
2017, pp. 2051–65, doi:10.1172/JCI80631.
short: F. Ebner, V. Sedlyarov, S. Tasciyan, M. Ivin, F. Kratochvill, N. Gratz, L.
Kenner, A. Villunger, M.K. Sixt, P. Kovarik, The Journal of Clinical Investigation
127 (2017) 2051–2065.
date_created: 2018-12-11T11:47:53Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2026-06-15T22:31:04Z
day: '01'
department:
- _id: MiSi
doi: 10.1172/JCI80631
external_id:
isi:
- '000402620800008'
pmid:
- '28504646'
intvolume: ' 127'
isi: 1
issue: '6'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5451238/
month: '06'
oa: 1
oa_version: Submitted Version
page: 2051 - 2065
pmid: 1
project:
- _id: 25985A36-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: T00817-B21
name: The biochemical basis of PAR polarization
- _id: 25E9AF9E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P27201-B22
name: Revealing the mechanisms underlying drug interactions
publication: The Journal of Clinical Investigation
publication_identifier:
issn:
- 0021-9738
publication_status: published
publisher: American Society for Clinical Investigation
publist_id: '7038'
quality_controlled: '1'
related_material:
record:
- id: '12401'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: The RNA-binding protein tristetraprolin schedules apoptosis of pathogen-engaged
neutrophils during bacterial infection
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 127
year: '2017'
...
---
_id: '676'
abstract:
- lang: eng
text: The segregation of different cell types into distinct tissues is a fundamental
process in metazoan development. Differences in cell adhesion and cortex tension
are commonly thought to drive cell sorting by regulating tissue surface tension
(TST). However, the role that differential TST plays in cell segregation within
the developing embryo is as yet unclear. Here, we have analyzed the role of differential
TST for germ layer progenitor cell segregation during zebrafish gastrulation.
Contrary to previous observations that differential TST drives germ layer progenitor
cell segregation in vitro, we show that germ layers display indistinguishable
TST within the gastrulating embryo, arguing against differential TST driving germ
layer progenitor cell segregation in vivo. We further show that the osmolarity
of the interstitial fluid (IF) is an important factor that influences germ layer
TST in vivo, and that lower osmolarity of the IF compared with standard cell culture
medium can explain why germ layers display differential TST in culture but not
in vivo. Finally, we show that directed migration of mesendoderm progenitors is
required for germ layer progenitor cell segregation and germ layer formation.
article_processing_charge: No
article_type: original
author:
- first_name: Gabriel
full_name: Krens, Gabriel
id: 2B819732-F248-11E8-B48F-1D18A9856A87
last_name: Krens
orcid: 0000-0003-4761-5996
- first_name: Jim
full_name: Veldhuis, Jim
last_name: Veldhuis
- first_name: Vanessa
full_name: Barone, Vanessa
id: 419EECCC-F248-11E8-B48F-1D18A9856A87
last_name: Barone
orcid: 0000-0003-2676-3367
- first_name: Daniel
full_name: Capek, Daniel
id: 31C42484-F248-11E8-B48F-1D18A9856A87
last_name: Capek
orcid: 0000-0001-5199-9940
- first_name: Jean-Léon
full_name: Maître, Jean-Léon
id: 48F1E0D8-F248-11E8-B48F-1D18A9856A87
last_name: Maître
orcid: 0000-0002-3688-1474
- first_name: Wayne
full_name: Brodland, Wayne
last_name: Brodland
- 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: Krens G, Veldhuis J, Barone V, et al. Interstitial fluid osmolarity modulates
the action of differential tissue surface tension in progenitor cell segregation
during gastrulation. Development. 2017;144(10):1798-1806. doi:10.1242/dev.144964
apa: Krens, G., Veldhuis, J., Barone, V., Capek, D., Maître, J.-L., Brodland, W.,
& Heisenberg, C.-P. J. (2017). Interstitial fluid osmolarity modulates the
action of differential tissue surface tension in progenitor cell segregation during
gastrulation. Development. Company of Biologists. https://doi.org/10.1242/dev.144964
chicago: Krens, Gabriel, Jim Veldhuis, Vanessa Barone, Daniel Capek, Jean-Léon Maître,
Wayne Brodland, and Carl-Philipp J Heisenberg. “Interstitial Fluid Osmolarity
Modulates the Action of Differential Tissue Surface Tension in Progenitor Cell
Segregation during Gastrulation.” Development. Company of Biologists, 2017.
https://doi.org/10.1242/dev.144964.
ieee: G. Krens et al., “Interstitial fluid osmolarity modulates the action
of differential tissue surface tension in progenitor cell segregation during gastrulation,”
Development, vol. 144, no. 10. Company of Biologists, pp. 1798–1806, 2017.
ista: Krens G, Veldhuis J, Barone V, Capek D, Maître J-L, Brodland W, Heisenberg
C-PJ. 2017. Interstitial fluid osmolarity modulates the action of differential
tissue surface tension in progenitor cell segregation during gastrulation. Development.
144(10), 1798–1806.
mla: Krens, Gabriel, et al. “Interstitial Fluid Osmolarity Modulates the Action
of Differential Tissue Surface Tension in Progenitor Cell Segregation during Gastrulation.”
Development, vol. 144, no. 10, Company of Biologists, 2017, pp. 1798–806,
doi:10.1242/dev.144964.
short: G. Krens, J. Veldhuis, V. Barone, D. Capek, J.-L. Maître, W. Brodland, C.-P.J.
Heisenberg, Development 144 (2017) 1798–1806.
corr_author: '1'
date_created: 2018-12-11T11:47:52Z
date_published: 2017-05-15T00:00:00Z
date_updated: 2026-06-15T22:31:08Z
day: '15'
ddc:
- '570'
department:
- _id: Bio
- _id: CaHe
doi: 10.1242/dev.144964
external_id:
isi:
- '000402275900007'
pmid:
- '28512197'
file:
- access_level: open_access
checksum: bc25125fb664706cdf180e061429f91d
content_type: application/pdf
creator: dernst
date_created: 2019-09-24T06:56:22Z
date_updated: 2020-07-14T12:47:39Z
file_id: '6905'
file_name: 2017_Development_Krens.pdf
file_size: 8194516
relation: main_file
file_date_updated: 2020-07-14T12:47:39Z
has_accepted_license: '1'
intvolume: ' 144'
isi: 1
issue: '10'
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
page: 1798 - 1806
pmid: 1
publication: Development
publication_identifier:
issn:
- 0950-1991
publication_status: published
publisher: Company of Biologists
publist_id: '7047'
quality_controlled: '1'
related_material:
record:
- id: '961'
relation: dissertation_contains
status: public
- id: '50'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Interstitial fluid osmolarity modulates the action of differential tissue surface
tension in progenitor cell segregation during gastrulation
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: 144
year: '2017'
...
---
_id: '661'
abstract:
- lang: eng
text: During embryonic development, mechanical forces are essential for cellular
rearrangements driving tissue morphogenesis. Here, we show that in the early zebrafish
embryo, friction forces are generated at the interface between anterior axial
mesoderm (prechordal plate, ppl) progenitors migrating towards the animal pole
and neurectoderm progenitors moving in the opposite direction towards the vegetal
pole of the embryo. These friction forces lead to global rearrangement of cells
within the neurectoderm and determine the position of the neural anlage. Using
a combination of experiments and simulations, we show that this process depends
on hydrodynamic coupling between neurectoderm and ppl as a result of E-cadherin-mediated
adhesion between those tissues. Our data thus establish the emergence of friction
forces at the interface between moving tissues as a critical force-generating
process shaping the embryo.
acknowledged_ssus:
- _id: SSU
article_processing_charge: No
author:
- first_name: Michael
full_name: Smutny, Michael
id: 3FE6E4E8-F248-11E8-B48F-1D18A9856A87
last_name: Smutny
orcid: 0000-0002-5920-9090
- first_name: Zsuzsa
full_name: Ákos, Zsuzsa
last_name: Ákos
- first_name: Silvia
full_name: Grigolon, Silvia
last_name: Grigolon
- first_name: Shayan
full_name: Shamipour, Shayan
id: 40B34FE2-F248-11E8-B48F-1D18A9856A87
last_name: Shamipour
- first_name: Verena
full_name: Ruprecht, Verena
last_name: Ruprecht
- first_name: Daniel
full_name: Capek, Daniel
id: 31C42484-F248-11E8-B48F-1D18A9856A87
last_name: Capek
orcid: 0000-0001-5199-9940
- first_name: Martin
full_name: Behrndt, Martin
id: 3ECECA3A-F248-11E8-B48F-1D18A9856A87
last_name: Behrndt
- first_name: Ekaterina
full_name: Papusheva, Ekaterina
id: 41DB591E-F248-11E8-B48F-1D18A9856A87
last_name: Papusheva
- first_name: Masazumi
full_name: Tada, Masazumi
last_name: Tada
- first_name: Björn
full_name: Hof, Björn
id: 3A374330-F248-11E8-B48F-1D18A9856A87
last_name: Hof
orcid: 0000-0003-2057-2754
- first_name: Tamás
full_name: Vicsek, Tamás
last_name: Vicsek
- first_name: Guillaume
full_name: Salbreux, Guillaume
last_name: Salbreux
- 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: Smutny M, Ákos Z, Grigolon S, et al. Friction forces position the neural anlage.
Nature Cell Biology. 2017;19:306-317. doi:10.1038/ncb3492
apa: Smutny, M., Ákos, Z., Grigolon, S., Shamipour, S., Ruprecht, V., Capek, D.,
… Heisenberg, C.-P. J. (2017). Friction forces position the neural anlage. Nature
Cell Biology. Nature Publishing Group. https://doi.org/10.1038/ncb3492
chicago: Smutny, Michael, Zsuzsa Ákos, Silvia Grigolon, Shayan Shamipour, Verena
Ruprecht, Daniel Capek, Martin Behrndt, et al. “Friction Forces Position the Neural
Anlage.” Nature Cell Biology. Nature Publishing Group, 2017. https://doi.org/10.1038/ncb3492.
ieee: M. Smutny et al., “Friction forces position the neural anlage,” Nature
Cell Biology, vol. 19. Nature Publishing Group, pp. 306–317, 2017.
ista: Smutny M, Ákos Z, Grigolon S, Shamipour S, Ruprecht V, Capek D, Behrndt M,
Papusheva E, Tada M, Hof B, Vicsek T, Salbreux G, Heisenberg C-PJ. 2017. Friction
forces position the neural anlage. Nature Cell Biology. 19, 306–317.
mla: Smutny, Michael, et al. “Friction Forces Position the Neural Anlage.” Nature
Cell Biology, vol. 19, Nature Publishing Group, 2017, pp. 306–17, doi:10.1038/ncb3492.
short: M. Smutny, Z. Ákos, S. Grigolon, S. Shamipour, V. Ruprecht, D. Capek, M.
Behrndt, E. Papusheva, M. Tada, B. Hof, T. Vicsek, G. Salbreux, C.-P.J. Heisenberg,
Nature Cell Biology 19 (2017) 306–317.
corr_author: '1'
date_created: 2018-12-11T11:47:46Z
date_published: 2017-03-27T00:00:00Z
date_updated: 2026-06-15T22:31:08Z
day: '27'
department:
- _id: CaHe
- _id: BjHo
- _id: Bio
doi: 10.1038/ncb3492
ec_funded: 1
external_id:
isi:
- '000397917000009'
pmid:
- '28346437'
intvolume: ' 19'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://europepmc.org/articles/pmc5635970
month: '03'
oa: 1
oa_version: Submitted Version
page: 306 - 317
pmid: 1
project:
- _id: 25152F3A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '306589'
name: Decoding the complexity of turbulence at its origin
- _id: 252ABD0A-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I930-B20
name: Control of Epithelial Cell Layer Spreading in Zebrafish
publication: Nature Cell Biology
publication_identifier:
issn:
- 1465-7392
publication_status: published
publisher: Nature Publishing Group
publist_id: '7074'
quality_controlled: '1'
related_material:
record:
- id: '8350'
relation: dissertation_contains
status: public
- id: '50'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: Friction forces position the neural anlage
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 19
year: '2017'
...