---
_id: '14794'
abstract:
- lang: eng
text: "Mosaic analysis with double markers (MADM) technology enables the sparse
labeling of genetically defined neurons. We present a protocol for time-lapse
imaging of cortical projection neuron migration in mice using MADM. We describe
steps for the isolation, culturing, and 4D imaging of neuronal dynamics in MADM-labeled
brain tissue. While this protocol is compatible with other single-cell labeling
methods, the MADM approach provides a genetic platform for the functional assessment
of cell-autonomous candidate gene function and the relative contribution of non-cell-autonomous
effects.\r\n\r\nFor complete details on the use and execution of this protocol,
please refer to Hansen et al. (2022),1 Contreras et al. (2021),2 and Amberg and
Hippenmeyer (2021).3"
acknowledged_ssus:
- _id: Bio
- _id: PreCl
acknowledgement: We thank Florian Pauler for discussion and his expert technical support.
This research was supported by the Scientific Service Units (SSU) at IST Austria
through resources provided by the Imaging and Optics Facility (IOF) and Preclinical
Facility (PCF). A.H.H. was a recipient of a DOC Fellowship (24812) of the Austrian
Academy of Sciences.
article_number: '102795'
article_processing_charge: Yes
article_type: review
author:
- first_name: Andi H
full_name: Hansen, Andi H
id: 38853E16-F248-11E8-B48F-1D18A9856A87
last_name: Hansen
- 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, Hippenmeyer S. Time-lapse imaging of cortical projection neuron
migration in mice using mosaic analysis with double markers. STAR Protocols.
2024;5(1). doi:10.1016/j.xpro.2023.102795
apa: Hansen, A. H., & Hippenmeyer, S. (2024). Time-lapse imaging of cortical
projection neuron migration in mice using mosaic analysis with double markers.
STAR Protocols. Elsevier. https://doi.org/10.1016/j.xpro.2023.102795
chicago: Hansen, Andi H, and Simon Hippenmeyer. “Time-Lapse Imaging of Cortical
Projection Neuron Migration in Mice Using Mosaic Analysis with Double Markers.”
STAR Protocols. Elsevier, 2024. https://doi.org/10.1016/j.xpro.2023.102795.
ieee: A. H. Hansen and S. Hippenmeyer, “Time-lapse imaging of cortical projection
neuron migration in mice using mosaic analysis with double markers,” STAR Protocols,
vol. 5, no. 1. Elsevier, 2024.
ista: Hansen AH, Hippenmeyer S. 2024. Time-lapse imaging of cortical projection
neuron migration in mice using mosaic analysis with double markers. STAR Protocols.
5(1), 102795.
mla: Hansen, Andi H., and Simon Hippenmeyer. “Time-Lapse Imaging of Cortical Projection
Neuron Migration in Mice Using Mosaic Analysis with Double Markers.” STAR Protocols,
vol. 5, no. 1, 102795, Elsevier, 2024, doi:10.1016/j.xpro.2023.102795.
short: A.H. Hansen, S. Hippenmeyer, STAR Protocols 5 (2024).
date_created: 2024-01-14T23:00:56Z
date_published: 2024-01-01T00:00:00Z
date_updated: 2024-01-17T10:32:31Z
day: '01'
department:
- _id: SiHi
doi: 10.1016/j.xpro.2023.102795
external_id:
pmid:
- '38165800'
intvolume: ' 5'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.xpro.2023.102795
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: 2625A13E-B435-11E9-9278-68D0E5697425
grant_number: '24812'
name: Molecular Mechanisms of Radial Neuronal Migration
publication: STAR Protocols
publication_identifier:
eissn:
- 2666-1667
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
related_material:
link:
- relation: software
url: http://github.com/hippenmeyerlab
scopus_import: '1'
status: public
title: Time-lapse imaging of cortical projection neuron migration in mice using mosaic
analysis with double markers
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2024'
...
---
_id: '14826'
abstract:
- lang: eng
text: The plant-signaling molecule auxin triggers fast and slow cellular responses
across land plants and algae. The nuclear auxin pathway mediates gene expression
and controls growth and development in land plants, but this pathway is absent
from algal sister groups. Several components of rapid responses have been identified
in Arabidopsis, but it is unknown if these are part of a conserved mechanism.
We recently identified a fast, proteome-wide phosphorylation response to auxin.
Here, we show that this response occurs across 5 land plant and algal species
and converges on a core group of shared targets. We found conserved rapid physiological
responses to auxin in the same species and identified rapidly accelerated fibrosarcoma
(RAF)-like protein kinases as central mediators of auxin-triggered phosphorylation
across species. Genetic analysis connects this kinase to both auxin-triggered
protein phosphorylation and rapid cellular response, thus identifying an ancient
mechanism for fast auxin responses in the green lineage.
acknowledgement: 'We are grateful to Asuka Shitaku and Eri Koide for generating and
sharing the Marchantia PRAF-mCitrine line and Peng-Cheng Wang for sharing the Arabidopsis
raf mutant. We are grateful to our team members for discussions and helpful advice.
This work was supported by funding from the Netherlands Organization for Scientific
Research (NWO): VICI grant 865.14.001 and ENW-KLEIN OCENW.KLEIN.027 grants to D.W.;
VENI grant VI.VENI.212.003 to A.K.; the European Research Council AdG DIRNDL (contract
number 833867) to D.W.; CoG CATCH to J.S.; StG CELLONGATE (contract 803048) to M.F.;
and AdG ETAP (contract 742985) to J.F.; MEXT KAKENHI grant number JP19H05675 to
T.K.; JSPS KAKENHI grant number JP20H03275 to R.N.; Takeda Science Foundation to
R.N.; and the Austrian Science Fund (FWF, P29988) to J.F.'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Andre
full_name: Kuhn, Andre
last_name: Kuhn
- first_name: Mark
full_name: Roosjen, Mark
last_name: Roosjen
- first_name: Sumanth
full_name: Mutte, Sumanth
last_name: Mutte
- first_name: Shiv Mani
full_name: Dubey, Shiv Mani
last_name: Dubey
- first_name: Vanessa Polet
full_name: Carrillo Carrasco, Vanessa Polet
last_name: Carrillo Carrasco
- first_name: Sjef
full_name: Boeren, Sjef
last_name: Boeren
- first_name: Aline
full_name: Monzer, Aline
id: 2DB5D88C-D7B3-11E9-B8FD-7907E6697425
last_name: Monzer
- first_name: Jasper
full_name: Koehorst, Jasper
last_name: Koehorst
- first_name: Takayuki
full_name: Kohchi, Takayuki
last_name: Kohchi
- first_name: Ryuichi
full_name: Nishihama, Ryuichi
last_name: Nishihama
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Joris
full_name: Sprakel, Joris
last_name: Sprakel
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
citation:
ama: Kuhn A, Roosjen M, Mutte S, et al. RAF-like protein kinases mediate a deeply
conserved, rapid auxin response. Cell. 2024;187(1):130-148.e17. doi:10.1016/j.cell.2023.11.021
apa: Kuhn, A., Roosjen, M., Mutte, S., Dubey, S. M., Carrillo Carrasco, V. P., Boeren,
S., … Weijers, D. (2024). RAF-like protein kinases mediate a deeply conserved,
rapid auxin response. Cell. Elsevier. https://doi.org/10.1016/j.cell.2023.11.021
chicago: Kuhn, Andre, Mark Roosjen, Sumanth Mutte, Shiv Mani Dubey, Vanessa Polet
Carrillo Carrasco, Sjef Boeren, Aline Monzer, et al. “RAF-like Protein Kinases
Mediate a Deeply Conserved, Rapid Auxin Response.” Cell. Elsevier, 2024.
https://doi.org/10.1016/j.cell.2023.11.021.
ieee: A. Kuhn et al., “RAF-like protein kinases mediate a deeply conserved,
rapid auxin response,” Cell, vol. 187, no. 1. Elsevier, p. 130–148.e17,
2024.
ista: Kuhn A, Roosjen M, Mutte S, Dubey SM, Carrillo Carrasco VP, Boeren S, Monzer
A, Koehorst J, Kohchi T, Nishihama R, Fendrych M, Sprakel J, Friml J, Weijers
D. 2024. RAF-like protein kinases mediate a deeply conserved, rapid auxin response.
Cell. 187(1), 130–148.e17.
mla: Kuhn, Andre, et al. “RAF-like Protein Kinases Mediate a Deeply Conserved, Rapid
Auxin Response.” Cell, vol. 187, no. 1, Elsevier, 2024, p. 130–148.e17,
doi:10.1016/j.cell.2023.11.021.
short: A. Kuhn, M. Roosjen, S. Mutte, S.M. Dubey, V.P. Carrillo Carrasco, S. Boeren,
A. Monzer, J. Koehorst, T. Kohchi, R. Nishihama, M. Fendrych, J. Sprakel, J. Friml,
D. Weijers, Cell 187 (2024) 130–148.e17.
date_created: 2024-01-17T12:45:40Z
date_published: 2024-01-04T00:00:00Z
date_updated: 2024-01-22T13:43:40Z
day: '04'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1016/j.cell.2023.11.021
ec_funded: 1
external_id:
pmid:
- '38128538'
file:
- access_level: open_access
checksum: 06fd236a9ee0b46ccb05f44695bfc34b
content_type: application/pdf
creator: dernst
date_created: 2024-01-22T13:41:41Z
date_updated: 2024-01-22T13:41:41Z
file_id: '14874'
file_name: 2024_Cell_Kuhn.pdf
file_size: 13194060
relation: main_file
success: 1
file_date_updated: 2024-01-22T13:41:41Z
has_accepted_license: '1'
intvolume: ' 187'
issue: '1'
keyword:
- General Biochemistry
- Genetics and Molecular Biology
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
page: 130-148.e17
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
- _id: 262EF96E-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P29988
name: RNA-directed DNA methylation in plant development
publication: Cell
publication_identifier:
eissn:
- 1097-4172
issn:
- 0092-8674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: RAF-like protein kinases mediate a deeply conserved, rapid auxin response
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 187
year: '2024'
...
---
_id: '14834'
abstract:
- lang: eng
text: Bacteria divide by binary fission. The protein machine responsible for this
process is the divisome, a transient assembly of more than 30 proteins in and
on the surface of the cytoplasmic membrane. Together, they constrict the cell
envelope and remodel the peptidoglycan layer to eventually split the cell into
two. For Escherichia coli, most molecular players involved in this process have
probably been identified, but obtaining the quantitative information needed for
a mechanistic understanding can often not be achieved from experiments in vivo
alone. Since the discovery of the Z-ring more than 30 years ago, in vitro reconstitution
experiments have been crucial to shed light on molecular processes normally hidden
in the complex environment of the living cell. In this review, we summarize how
rebuilding the divisome from purified components – or at least parts of it - have
been instrumental to obtain the detailed mechanistic understanding of the bacterial
cell division machinery that we have today.
acknowledgement: We acknowledge members of the Loose laboratory at ISTA for helpful
discussions—in particular M. Kojic for his insightful comments. This work was supported
by the Austrian Science Fund (FWF P34607) to M.L.
article_number: '151380'
article_processing_charge: Yes
article_type: review
author:
- first_name: Philipp
full_name: Radler, Philipp
id: 40136C2A-F248-11E8-B48F-1D18A9856A87
last_name: Radler
orcid: '0000-0001-9198-2182 '
- first_name: Martin
full_name: Loose, Martin
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
citation:
ama: 'Radler P, Loose M. A dynamic duo: Understanding the roles of FtsZ and FtsA
for Escherichia coli cell division through in vitro approaches. European Journal
of Cell Biology. 2024;103(1). doi:10.1016/j.ejcb.2023.151380'
apa: 'Radler, P., & Loose, M. (2024). A dynamic duo: Understanding the roles
of FtsZ and FtsA for Escherichia coli cell division through in vitro approaches.
European Journal of Cell Biology. Elsevier. https://doi.org/10.1016/j.ejcb.2023.151380'
chicago: 'Radler, Philipp, and Martin Loose. “A Dynamic Duo: Understanding the Roles
of FtsZ and FtsA for Escherichia Coli Cell Division through in Vitro Approaches.”
European Journal of Cell Biology. Elsevier, 2024. https://doi.org/10.1016/j.ejcb.2023.151380.'
ieee: 'P. Radler and M. Loose, “A dynamic duo: Understanding the roles of FtsZ and
FtsA for Escherichia coli cell division through in vitro approaches,” European
Journal of Cell Biology, vol. 103, no. 1. Elsevier, 2024.'
ista: 'Radler P, Loose M. 2024. A dynamic duo: Understanding the roles of FtsZ and
FtsA for Escherichia coli cell division through in vitro approaches. European
Journal of Cell Biology. 103(1), 151380.'
mla: 'Radler, Philipp, and Martin Loose. “A Dynamic Duo: Understanding the Roles
of FtsZ and FtsA for Escherichia Coli Cell Division through in Vitro Approaches.”
European Journal of Cell Biology, vol. 103, no. 1, 151380, Elsevier, 2024,
doi:10.1016/j.ejcb.2023.151380.'
short: P. Radler, M. Loose, European Journal of Cell Biology 103 (2024).
date_created: 2024-01-18T08:16:43Z
date_published: 2024-01-12T00:00:00Z
date_updated: 2024-01-23T08:37:13Z
day: '12'
ddc:
- '570'
department:
- _id: MaLo
doi: 10.1016/j.ejcb.2023.151380
external_id:
pmid:
- '38218128'
has_accepted_license: '1'
intvolume: ' 103'
issue: '1'
keyword:
- Cell Biology
- General Medicine
- Histology
- Pathology and Forensic Medicine
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.ejcb.2023.151380
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
project:
- _id: fc38323b-9c52-11eb-aca3-ff8afb4a011d
grant_number: P34607
name: "Understanding bacterial cell division by in vitro\r\nreconstitution"
publication: European Journal of Cell Biology
publication_identifier:
issn:
- 0171-9335
publication_status: epub_ahead
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'A dynamic duo: Understanding the roles of FtsZ and FtsA for Escherichia coli
cell division through in vitro approaches'
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: 103
year: '2024'
...
---
_id: '14852'
abstract:
- lang: eng
text: The physical conditions giving rise to high escape fractions of ionizing radiation
(LyC fesc) in star-forming galaxies – most likely protagonists of cosmic reionization
– are not yet fully understood. Using the VLT/MUSE observations of ∼1400 Ly α
emitters at 2.9 < z < 6.7, we compare stacked rest-frame UV spectra
of candidates for LyC leakers and non-leakers selected based on their Ly α profiles.
We find that the stacks of potential LyC leakers, i.e. galaxies with narrow, symmetric
Ly α profiles with small peak separation, generally show (i) strong nebular O iii]λ1666,
[Si iii]λ1883, and [C iii]λ1907 +C iii]λ1909 emission, indicating a high-ionization
state of the interstellar medium (ISM); (ii) high equivalent widths of He iiλ1640
(∼1 − 3 Å), suggesting the presence of hard ionizing radiation fields; (iii) Si ii*λ1533
emission, revealing substantial amounts of neutral hydrogen off the line of sight;
(iv) high C ivλλ1548,1550 to [C iii]λ1907 +C iii]λ1909 ratios (C iv/C iii] ≳0.75)
, signalling the presence of low column density channels in the ISM. In contrast,
the stacks with broad, asymmetric Ly α profiles with large peak separation show
weak nebular emission lines, low He iiλ1640 equivalent widths (≲1 Å), and low
C iv/C iii] (≲0.25), implying low-ionization states and high-neutral hydrogen
column densities. Our results suggest that C iv/C iii] might be sensitive to the
physical conditions that govern LyC photon escape, providing a promising tool
for identification of ionizing sources among star-forming galaxies in the epoch
of reionization.
acknowledgement: 'We thank the anonymous referee for the constructive feedback that
helped to improve the manuscript. We thank Michael Maseda, Daniel Schaerer, Charlotte
Simmonds, and Rashmi Gottumukkala for useful comments and productive discussions.
We also thank the organizers and participants of the 24th MUSE Science Busy Week
in Leiden. IGK acknowledges an Excellence Master Fellowship granted by the Faculty
of Science of the University of Geneva. This work has received funding from the
Swiss State Secretariat for Education, Research and Innovation (SERI) under contract
number MB22.00072, as well as from the Swiss National Science Foundation (SNSF)
through project grant number 200020_207349 and SNSF Professorship grant number 190079.
The Cosmic Dawn Center (DAWN) is funded by the Danish National Research Foundation
under grant number 140. This paper is based on observations collected at the European
Organisation for Astronomical Research in the Southern Hemisphere under ESO programmes
094.A-0289(B), 095.A-0010(A), 096.A-0045(A), 096.A-0045(B), 094.A-0205, 095.A-0240,
096.A-0090, 097.A-0160, and 098.A-0017. We made extensive use of several open-source
software packages and we are thankful to the respective authors for sharing their
work: NUMPY (Harris et al. 2020), ASTROPY (Astropy Collaboration 2022), MATPLOTLIB
(Hunter 2007), IPYTHON (Perez & Granger 2007), and TOPCAT (Taylor 2005).'
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Ivan
full_name: Kramarenko, Ivan
id: 9a9394cb-3200-11ee-973b-f5ba2a8b16e4
last_name: Kramarenko
- first_name: J
full_name: Kerutt, J
last_name: Kerutt
- first_name: A
full_name: Verhamme, A
last_name: Verhamme
- first_name: P A
full_name: Oesch, P A
last_name: Oesch
- first_name: L
full_name: Barrufet, L
last_name: Barrufet
- first_name: Jorryt J
full_name: Matthee, Jorryt J
id: 7439a258-f3c0-11ec-9501-9df22fe06720
last_name: Matthee
orcid: 0000-0003-2871-127X
- first_name: H
full_name: Kusakabe, H
last_name: Kusakabe
- first_name: I
full_name: Goovaerts, I
last_name: Goovaerts
- first_name: T T
full_name: Thai, T T
last_name: Thai
citation:
ama: Kramarenko I, Kerutt J, Verhamme A, et al. Linking UV spectral properties of
MUSE Ly α emitters at z ≳ 3 to Lyman continuum escape. Monthly Notices
of the Royal Astronomical Society. 2024;527(4):9853-9871. doi:10.1093/mnras/stad3853
apa: Kramarenko, I., Kerutt, J., Verhamme, A., Oesch, P. A., Barrufet, L., Matthee,
J. J., … Thai, T. T. (2024). Linking UV spectral properties of MUSE Ly α emitters
at z ≳ 3 to Lyman continuum escape. Monthly Notices of the Royal Astronomical
Society. Oxford University Press. https://doi.org/10.1093/mnras/stad3853
chicago: Kramarenko, Ivan, J Kerutt, A Verhamme, P A Oesch, L Barrufet, Jorryt J
Matthee, H Kusakabe, I Goovaerts, and T T Thai. “Linking UV Spectral Properties
of MUSE Ly α Emitters at z ≳ 3 to Lyman Continuum Escape.” Monthly Notices
of the Royal Astronomical Society. Oxford University Press, 2024. https://doi.org/10.1093/mnras/stad3853.
ieee: I. Kramarenko et al., “Linking UV spectral properties of MUSE Ly α
emitters at z ≳ 3 to Lyman continuum escape,” Monthly Notices of the
Royal Astronomical Society, vol. 527, no. 4. Oxford University Press, pp.
9853–9871, 2024.
ista: Kramarenko I, Kerutt J, Verhamme A, Oesch PA, Barrufet L, Matthee JJ, Kusakabe
H, Goovaerts I, Thai TT. 2024. Linking UV spectral properties of MUSE Ly α emitters
at z ≳ 3 to Lyman continuum escape. Monthly Notices of the Royal Astronomical
Society. 527(4), 9853–9871.
mla: Kramarenko, Ivan, et al. “Linking UV Spectral Properties of MUSE Ly α Emitters
at z ≳ 3 to Lyman Continuum Escape.” Monthly Notices of the Royal Astronomical
Society, vol. 527, no. 4, Oxford University Press, 2024, pp. 9853–71, doi:10.1093/mnras/stad3853.
short: I. Kramarenko, J. Kerutt, A. Verhamme, P.A. Oesch, L. Barrufet, J.J. Matthee,
H. Kusakabe, I. Goovaerts, T.T. Thai, Monthly Notices of the Royal Astronomical
Society 527 (2024) 9853–9871.
date_created: 2024-01-22T08:22:17Z
date_published: 2024-02-01T00:00:00Z
date_updated: 2024-01-23T12:33:50Z
day: '01'
ddc:
- '520'
department:
- _id: GradSch
- _id: JoMa
doi: 10.1093/mnras/stad3853
external_id:
arxiv:
- '2305.07044'
file:
- access_level: open_access
checksum: 9d02df4035c4951cf63dee0db1e462e9
content_type: application/pdf
creator: dernst
date_created: 2024-01-23T12:30:45Z
date_updated: 2024-01-23T12:30:45Z
file_id: '14879'
file_name: 2024_MNAstronomSoc_Kramarenko.pdf
file_size: 4521738
relation: main_file
success: 1
file_date_updated: 2024-01-23T12:30:45Z
has_accepted_license: '1'
intvolume: ' 527'
issue: '4'
keyword:
- Space and Planetary Science
- Astronomy and Astrophysics
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
page: 9853-9871
publication: Monthly Notices of the Royal Astronomical Society
publication_identifier:
eissn:
- 1365-2966
issn:
- 0035-8711
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: Linking UV spectral properties of MUSE Ly α emitters at z ≳ 3 to Lyman
continuum escape
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: 527
year: '2024'
...
---
_id: '14850'
abstract:
- lang: eng
text: Elaborate sexual signals are thought to have evolved and be maintained to
serve as honest indicators of signaller quality. One measure of quality is health,
which can be affected by parasite infection. Cnemaspis mysoriensis is a diurnal
gecko that is often infested with ectoparasites in the wild, and males of this
species express visual (coloured gular patches) and chemical (femoral gland secretions)
traits that receivers could assess during social interactions. In this paper,
we tested whether ectoparasites affect individual health, and whether signal quality
is an indicator of ectoparasite levels. In wild lizards, we found that ectoparasite
level was negatively correlated with body condition in both sexes. Moreover, some
characteristics of both visual and chemical traits in males were strongly associated
with ectoparasite levels. Specifically, males with higher ectoparasite levels
had yellow gular patches with lower brightness and chroma, and chemical secretions
with a lower proportion of aromatic compounds. We then determined whether ectoparasite
levels in males influence female behaviour. Using sequential choice trials, wherein
females were provided with either the visual or the chemical signals of wild-caught
males that varied in ectoparasite level, we found that only chemical secretions
evoked an elevated female response towards less parasitised males. Simultaneous
choice trials in which females were exposed to the chemical secretions from males
that varied in parasite level further confirmed a preference for males with lower
parasites loads. Overall, we find that although health (body condition) or ectoparasite
load can be honestly advertised through multiple modalities, the parasite-mediated
female response is exclusively driven by chemical signals.
acknowledgement: "We thank Anuradha Batabyal and Shakilur Kabir for scientific discussions,
and help with sampling and colour analyses. We thank Muralidhar and the central
LCMS facility of the IISc for their technical support with the GCMS.\r\nResearch
funding was provided by the Department of Science and Technology Fund for Improvement
of S&T Infrastructure (DST-FIST), the Department of Biotechnology-Indian Institute
of Science (DBT-IISc) partnership program and a Science and Engineering Research
Board (SERB) grant to M.T. (EMR/2017/002228). Open Access funding provided by Indian
Institute of Science. Deposited in PMC for immediate release."
article_number: jeb246217
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Arka
full_name: Pal, Arka
id: 6AAB2240-CA9A-11E9-9C1A-D9D1E5697425
last_name: Pal
orcid: 0000-0002-4530-8469
- first_name: Mihir
full_name: Joshi, Mihir
last_name: Joshi
- first_name: Maria
full_name: Thaker, Maria
last_name: Thaker
citation:
ama: Pal A, Joshi M, Thaker M. Too much information? Males convey parasite levels
using more signal modalities than females utilise. Journal of Experimental
Biology. 2024;227(1). doi:10.1242/jeb.246217
apa: Pal, A., Joshi, M., & Thaker, M. (2024). Too much information? Males convey
parasite levels using more signal modalities than females utilise. Journal
of Experimental Biology. The Company of Biologists. https://doi.org/10.1242/jeb.246217
chicago: Pal, Arka, Mihir Joshi, and Maria Thaker. “Too Much Information? Males
Convey Parasite Levels Using More Signal Modalities than Females Utilise.” Journal
of Experimental Biology. The Company of Biologists, 2024. https://doi.org/10.1242/jeb.246217.
ieee: A. Pal, M. Joshi, and M. Thaker, “Too much information? Males convey parasite
levels using more signal modalities than females utilise,” Journal of Experimental
Biology, vol. 227, no. 1. The Company of Biologists, 2024.
ista: Pal A, Joshi M, Thaker M. 2024. Too much information? Males convey parasite
levels using more signal modalities than females utilise. Journal of Experimental
Biology. 227(1), jeb246217.
mla: Pal, Arka, et al. “Too Much Information? Males Convey Parasite Levels Using
More Signal Modalities than Females Utilise.” Journal of Experimental Biology,
vol. 227, no. 1, jeb246217, The Company of Biologists, 2024, doi:10.1242/jeb.246217.
short: A. Pal, M. Joshi, M. Thaker, Journal of Experimental Biology 227 (2024).
date_created: 2024-01-22T08:14:49Z
date_published: 2024-01-10T00:00:00Z
date_updated: 2024-01-23T12:13:08Z
day: '10'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1242/jeb.246217
external_id:
pmid:
- '38054353'
file:
- access_level: open_access
checksum: 136325372f6f45abaa62a71e2d23bfb6
content_type: application/pdf
creator: dernst
date_created: 2024-01-23T12:08:24Z
date_updated: 2024-01-23T12:08:24Z
file_id: '14877'
file_name: 2024_JourExperimBiology_Pal.pdf
file_size: 594128
relation: main_file
success: 1
file_date_updated: 2024-01-23T12:08:24Z
has_accepted_license: '1'
intvolume: ' 227'
issue: '1'
keyword:
- Insect Science
- Molecular Biology
- Animal Science and Zoology
- Aquatic Science
- Physiology
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Journal of Experimental Biology
publication_identifier:
eissn:
- 0022-0949
issn:
- 1477-9145
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/arka-pal/Cnemaspis-SexualSignaling
status: public
title: Too much information? Males convey parasite levels using more signal modalities
than females utilise
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: 227
year: '2024'
...
---
_id: '14711'
abstract:
- lang: eng
text: "In nature, different species find their niche in a range of environments,
each with its unique characteristics. While some thrive in uniform (homogeneous)
landscapes where environmental conditions stay relatively consistent across space,
others traverse the complexities of spatially heterogeneous terrains. Comprehending
how species are distributed and how they interact within these landscapes holds
the key to gaining insights into their evolutionary dynamics while also informing
conservation and management strategies.\r\n\r\nFor species inhabiting heterogeneous
landscapes, when the rate of dispersal is low compared to spatial fluctuations
in selection pressure, localized adaptations may emerge. Such adaptation in response
to varying selection strengths plays an important role in the persistence of populations
in our rapidly changing world. Hence, species in nature are continuously in a
struggle to adapt to local environmental conditions, to ensure their continued
survival. Natural populations can often adapt in time scales short enough for
evolutionary changes to influence ecological dynamics and vice versa, thereby
creating a feedback between evolution and demography. The analysis of this feedback
and the relative contributions of gene flow, demography, drift, and natural selection
to genetic variation and differentiation has remained a recurring theme in evolutionary
biology. Nevertheless, the effective role of these forces in maintaining variation
and shaping patterns of diversity is not fully understood. Even in homogeneous
environments devoid of local adaptations, such understanding remains elusive.
Understanding this feedback is crucial, for example in determining the conditions
under which extinction risk can be mitigated in peripheral populations subject
to deleterious mutation accumulation at the edges of species’ ranges\r\nas well
as in highly fragmented populations.\r\n\r\nIn this thesis we explore both uniform
and spatially heterogeneous metapopulations, investigating and providing theoretical
insights into the dynamics of local adaptation in the latter and examining the
dynamics of load and extinction as well as the impact of joint ecological and
evolutionary (eco-evolutionary) dynamics in the former. The thesis is divided
into 5 chapters.\r\n\r\nChapter 1 provides a general introduction into the subject
matter, clarifying concepts and ideas used throughout the thesis. In chapter 2,
we explore how fast a species distributed across a heterogeneous landscape adapts
to changing conditions marked by alterations in carrying capacity, selection pressure,
and migration rate.\r\n\r\nIn chapter 3, we investigate how migration selection
and drift influences adaptation and the maintenance of variation in a metapopulation
with three habitats, an extension of previous models of adaptation in two habitats.
We further develop analytical approximations for the critical threshold required
for polymorphism to persist.\r\n\r\nThe focus of chapter 4 of the thesis is on
understanding the interplay between ecology and evolution as coupled processes.
We investigate how eco-evolutionary feedback between migration, selection, drift,
and demography influences eco-evolutionary outcomes in marginal populations subject
to deleterious mutation accumulation. Using simulations as well as theoretical
approximations of the coupled dynamics of population size and allele frequency,
we analyze how gene flow from a large mainland source influences genetic load
and population size on an island (i.e., in a marginal population) under genetically
realistic assumptions. Analyses of this sort are important because small isolated
populations, are repeatedly affected by complex interactions between ecological
and evolutionary processes, which can lead to their death. Understanding these
interactions can therefore provide an insight into the conditions under which
extinction risk can be mitigated in peripheral populations thus, contributing
to conservation and restoration efforts.\r\n\r\nChapter 5 extends the analysis
in chapter 4 to consider the dynamics of load (due to deleterious mutation accumulation)
and extinction risk in a metapopulation. We explore the role of gene flow, selection,
and dominance on load and extinction risk and further pinpoint critical thresholds
required for metapopulation persistence.\r\n\r\nOverall this research contributes
to our understanding of ecological and evolutionary mechanisms that shape species’
persistence in fragmented landscapes, a crucial foundation for successful conservation
efforts and biodiversity management."
acknowledged_ssus:
- _id: SSU
alternative_title:
- ISTA Thesis
article_processing_charge: No
author:
- first_name: Oluwafunmilola O
full_name: Olusanya, Oluwafunmilola O
id: 41AD96DC-F248-11E8-B48F-1D18A9856A87
last_name: Olusanya
orcid: 0000-0003-1971-8314
citation:
ama: Olusanya OO. Local adaptation, genetic load and extinction in metapopulations.
2024. doi:10.15479/at:ista:14711
apa: Olusanya, O. O. (2024). Local adaptation, genetic load and extinction in
metapopulations. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:14711
chicago: Olusanya, Oluwafunmilola O. “Local Adaptation, Genetic Load and Extinction
in Metapopulations.” Institute of Science and Technology Austria, 2024. https://doi.org/10.15479/at:ista:14711.
ieee: O. O. Olusanya, “Local adaptation, genetic load and extinction in metapopulations,”
Institute of Science and Technology Austria, 2024.
ista: Olusanya OO. 2024. Local adaptation, genetic load and extinction in metapopulations.
Institute of Science and Technology Austria.
mla: Olusanya, Oluwafunmilola O. Local Adaptation, Genetic Load and Extinction
in Metapopulations. Institute of Science and Technology Austria, 2024, doi:10.15479/at:ista:14711.
short: O.O. Olusanya, Local Adaptation, Genetic Load and Extinction in Metapopulations,
Institute of Science and Technology Austria, 2024.
date_created: 2023-12-26T22:49:53Z
date_published: 2024-01-19T00:00:00Z
date_updated: 2024-01-26T12:00:54Z
day: '19'
ddc:
- '576'
degree_awarded: PhD
department:
- _id: NiBa
- _id: GradSch
doi: 10.15479/at:ista:14711
ec_funded: 1
file:
- access_level: closed
checksum: de179b1c6758f182ff0c70d8b38c1501
content_type: application/zip
creator: oolusany
date_created: 2024-01-03T18:30:13Z
date_updated: 2024-01-03T18:30:13Z
file_id: '14730'
file_name: FinalSubmission_Thesis_OLUSANYA.zip
file_size: 16986244
relation: source_file
- access_level: open_access
checksum: 0e331585e3cd4823320aab4e69e64ccf
content_type: application/pdf
creator: oolusany
date_created: 2024-01-03T18:31:34Z
date_updated: 2024-01-03T18:31:34Z
file_id: '14731'
file_name: FinalSubmission2_Thesis_OLUSANYA.pdf
file_size: 6460403
relation: main_file
success: 1
file_date_updated: 2024-01-03T18:31:34Z
has_accepted_license: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-sa/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: '183'
project:
- _id: 2564DBCA-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '665385'
name: International IST Doctoral Program
- _id: c08d3278-5a5b-11eb-8a69-fdb09b55f4b8
grant_number: P32896
name: Causes and consequences of population fragmentation
- _id: 34c872fe-11ca-11ed-8bc3-8534b82131e6
grant_number: '26380'
name: Polygenic Adaptation in a Metapopulation
publication_identifier:
issn:
- 2663 - 337X
publication_status: published
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '10658'
relation: part_of_dissertation
status: public
- id: '10787'
relation: part_of_dissertation
status: public
- id: '14732'
relation: part_of_dissertation
status: public
status: public
supervisor:
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
- first_name: Jitka
full_name: Polechova, Jitka
last_name: Polechova
- first_name: Himani
full_name: Sachdeva, Himani
last_name: Sachdeva
title: Local adaptation, genetic load and extinction in metapopulations
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: dissertation
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2024'
...
---
_id: '14888'
abstract:
- lang: eng
text: 'A face in a curve arrangement is called popular if it is bounded by the same
curve multiple times. Motivated by the automatic generation of curved nonogram
puzzles, we investigate possibilities to eliminate the popular faces in an arrangement
by inserting a single additional curve. This turns out to be NP-hard; however,
it becomes tractable when the number of popular faces is small: We present a probabilistic
FPT-approach in the number of popular faces.'
acknowledgement: 'This work was initiated at the 16th European Research Week on Geometric
Graphs in Strobl in 2019. A.W. is supported by the Austrian Science Fund (FWF):
W1230. S.T. has been funded by the Vienna Science and Technology Fund (WWTF) [10.47379/ICT19035].
A preliminary version of this work has been presented at the 38th European Workshop
on Computational Geometry (EuroCG 2022) in Perugia [9]. A full version of this paper,
which includes appendices but is otherwise identical, is available as a technical
report [10].'
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Phoebe
full_name: De Nooijer, Phoebe
last_name: De Nooijer
- first_name: Soeren
full_name: Terziadis, Soeren
last_name: Terziadis
- first_name: Alexandra
full_name: Weinberger, Alexandra
last_name: Weinberger
- first_name: Zuzana
full_name: Masárová, Zuzana
id: 45CFE238-F248-11E8-B48F-1D18A9856A87
last_name: Masárová
orcid: 0000-0002-6660-1322
- first_name: Tamara
full_name: Mchedlidze, Tamara
last_name: Mchedlidze
- first_name: Maarten
full_name: Löffler, Maarten
last_name: Löffler
- first_name: Günter
full_name: Rote, Günter
last_name: Rote
citation:
ama: 'De Nooijer P, Terziadis S, Weinberger A, et al. Removing popular faces in curve
arrangements. In: 31st International Symposium on Graph Drawing and Network
Visualization. Vol 14466. Springer Nature; 2024:18-33. doi:10.1007/978-3-031-49275-4_2'
apa: 'De Nooijer, P., Terziadis, S., Weinberger, A., Masárová, Z., Mchedlidze, T.,
Löffler, M., & Rote, G. (2024). Removing popular faces in curve arrangements.
In 31st International Symposium on Graph Drawing and Network Visualization
(Vol. 14466, pp. 18–33). Isola delle Femmine, Palermo, Italy: Springer Nature.
https://doi.org/10.1007/978-3-031-49275-4_2'
chicago: De Nooijer, Phoebe, Soeren Terziadis, Alexandra Weinberger, Zuzana Masárová,
Tamara Mchedlidze, Maarten Löffler, and Günter Rote. “Removing Popular Faces in Curve
Arrangements.” In 31st International Symposium on Graph Drawing and Network
Visualization, 14466:18–33. Springer Nature, 2024. https://doi.org/10.1007/978-3-031-49275-4_2.
ieee: P. De Nooijer et al., “Removing popular faces in curve arrangements,”
in 31st International Symposium on Graph Drawing and Network Visualization,
Isola delle Femmine, Palermo, Italy, 2024, vol. 14466, pp. 18–33.
ista: 'De Nooijer P, Terziadis S, Weinberger A, Masárová Z, Mchedlidze T, Löffler
M, Rote G. 2024. Removing popular faces in curve arrangements. 31st International
Symposium on Graph Drawing and Network Visualization. GD: Graph Drawing and Network
Visualization, LNCS, vol. 14466, 18–33.'
mla: De Nooijer, Phoebe, et al. “Removing Popular Faces in Curve Arrangements.”
31st International Symposium on Graph Drawing and Network Visualization,
vol. 14466, Springer Nature, 2024, pp. 18–33, doi:10.1007/978-3-031-49275-4_2.
short: P. De Nooijer, S. Terziadis, A. Weinberger, Z. Masárová, T. Mchedlidze, M.
Löffler, G. Rote, in:, 31st International Symposium on Graph Drawing and Network
Visualization, Springer Nature, 2024, pp. 18–33.
conference:
end_date: 2023-09-22
location: Isola delle Femmine, Palermo, Italy
name: 'GD: Graph Drawing and Network Visualization'
start_date: 2023-09-20
date_created: 2024-01-28T23:01:43Z
date_published: 2024-01-06T00:00:00Z
date_updated: 2024-01-29T09:45:06Z
day: '06'
department:
- _id: UlWa
- _id: HeEd
doi: 10.1007/978-3-031-49275-4_2
external_id:
arxiv:
- '2202.12175'
intvolume: ' 14466'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.48550/arXiv.2202.12175
month: '01'
oa: 1
oa_version: Preprint
page: 18-33
publication: 31st International Symposium on Graph Drawing and Network Visualization
publication_identifier:
eissn:
- 1611-3349
isbn:
- '9783031492747'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Removing popular faces in curve arrangements
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 14466
year: '2024'
...
---
_id: '14887'
abstract:
- lang: eng
text: 'Episodic memories are encoded by experience-activated neuronal ensembles
that remain necessary and sufficient for recall. However, the temporal evolution
of memory engrams after initial encoding is unclear. In this study, we employed
computational and experimental approaches to examine how the neural composition
and selectivity of engrams change with memory consolidation. Our spiking neural
network model yielded testable predictions: memories transition from unselective
to selective as neurons drop out of and drop into engrams; inhibitory activity
during recall is essential for memory selectivity; and inhibitory synaptic plasticity
during memory consolidation is critical for engrams to become selective. Using
activity-dependent labeling, longitudinal calcium imaging and a combination of
optogenetic and chemogenetic manipulations in mouse dentate gyrus, we conducted
contextual fear conditioning experiments that supported our model’s predictions.
Our results reveal that memory engrams are dynamic and that changes in engram
composition mediated by inhibitory plasticity are crucial for the emergence of
memory selectivity.'
acknowledgement: We thank S. Erisken from Inscopix for helping us establish in vivo
one-photon calcium imaging for this work. We thank K. Su at Tsinghua University
for assistance with this work. This work was funded by the President’s PhD Scholarship
from Imperial College London (D.F.T.), the Wellcome Trust (225412/Z/22/Z) (S.S.),
the Biotechnology and Biological Sciences Research Council (BB/N013956/1 and BB/N019008/1)
(C.C.), the Wellcome Trust (200790/Z/16/Z) (C.C.), the Simons Foundation (564408)
(C.C.) and the Engineering and Physical Sciences Research Council (EP/R035806/1)
(CC). The School of Life Sciences and the IDG/McGovern Institute for Brain Research
supported Y.Z. The Warren Alpert Distinguished Scholar Award and National Institutes
of Health 1K99NS125131-01 supported D.S.R.
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Douglas
full_name: Feitosa Tomé, Douglas
id: 0eed2d40-3d48-11ec-8d38-f789cc2e40b2
last_name: Feitosa Tomé
- first_name: Ying
full_name: Zhang, Ying
last_name: Zhang
- first_name: Tomomi
full_name: Aida, Tomomi
last_name: Aida
- first_name: Olivia
full_name: Mosto, Olivia
last_name: Mosto
- first_name: Yifeng
full_name: Lu, Yifeng
last_name: Lu
- first_name: Mandy
full_name: Chen, Mandy
last_name: Chen
- first_name: Sadra
full_name: Sadeh, Sadra
last_name: Sadeh
- first_name: Dheeraj S.
full_name: Roy, Dheeraj S.
last_name: Roy
- first_name: Claudia
full_name: Clopath, Claudia
last_name: Clopath
citation:
ama: Feitosa Tomé D, Zhang Y, Aida T, et al. Dynamic and selective engrams emerge
with memory consolidation. Nature Neuroscience. 2024. doi:10.1038/s41593-023-01551-w
apa: Feitosa Tomé, D., Zhang, Y., Aida, T., Mosto, O., Lu, Y., Chen, M., … Clopath,
C. (2024). Dynamic and selective engrams emerge with memory consolidation. Nature
Neuroscience. Springer Nature. https://doi.org/10.1038/s41593-023-01551-w
chicago: Feitosa Tomé, Douglas, Ying Zhang, Tomomi Aida, Olivia Mosto, Yifeng Lu,
Mandy Chen, Sadra Sadeh, Dheeraj S. Roy, and Claudia Clopath. “Dynamic and Selective
Engrams Emerge with Memory Consolidation.” Nature Neuroscience. Springer
Nature, 2024. https://doi.org/10.1038/s41593-023-01551-w.
ieee: D. Feitosa Tomé et al., “Dynamic and selective engrams emerge with
memory consolidation,” Nature Neuroscience. Springer Nature, 2024.
ista: Feitosa Tomé D, Zhang Y, Aida T, Mosto O, Lu Y, Chen M, Sadeh S, Roy DS, Clopath
C. 2024. Dynamic and selective engrams emerge with memory consolidation. Nature
Neuroscience.
mla: Feitosa Tomé, Douglas, et al. “Dynamic and Selective Engrams Emerge with Memory
Consolidation.” Nature Neuroscience, Springer Nature, 2024, doi:10.1038/s41593-023-01551-w.
short: D. Feitosa Tomé, Y. Zhang, T. Aida, O. Mosto, Y. Lu, M. Chen, S. Sadeh, D.S.
Roy, C. Clopath, Nature Neuroscience (2024).
date_created: 2024-01-28T23:01:43Z
date_published: 2024-01-19T00:00:00Z
date_updated: 2024-01-29T09:22:00Z
day: '19'
department:
- _id: TiVo
doi: 10.1038/s41593-023-01551-w
external_id:
isi:
- '001145442300001'
isi: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1038/s41593-023-01551-w
month: '01'
oa: 1
oa_version: Published Version
publication: Nature Neuroscience
publication_identifier:
eissn:
- 1546-1726
issn:
- 1097-6256
publication_status: epub_ahead
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '14892'
relation: research_data
status: public
scopus_import: '1'
status: public
title: Dynamic and selective engrams emerge with memory consolidation
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2024'
...
---
_id: '14251'
abstract:
- lang: eng
text: The phytohormone auxin and its directional transport through tissues play
a fundamental role in development of higher plants. This polar auxin transport
predominantly relies on PIN-FORMED (PIN) auxin exporters. Hence, PIN polarization
is crucial for development, but its evolution during the rise of morphological
complexity in land plants remains unclear. Here, we performed a cross-species
investigation by observing the trafficking and localization of endogenous and
exogenous PINs in two bryophytes, Physcomitrium patens and Marchantia polymorpha,
and in the flowering plant Arabidopsis thaliana. We confirmed that the GFP fusion
did not compromise the auxin export function of all examined PINs by using radioactive
auxin export assay and by observing the phenotypic changes in transgenic bryophytes.
Endogenous PINs polarize to filamentous apices, while exogenous Arabidopsis PINs
distribute symmetrically on the membrane in both bryophytes. In Arabidopsis root
epidermis, bryophytic PINs show no defined polarity. Pharmacological interference
revealed a strong cytoskeleton dependence of bryophytic but not Arabidopsis PIN
polarization. The divergence of PIN polarization and trafficking is also observed
within the bryophyte clade and between tissues of individual species. These results
collectively reveal a divergence of PIN trafficking and polarity mechanisms throughout
land plant evolution and a co-evolution of PIN sequence-based and cell-based polarity
mechanisms.
acknowledgement: This work was supported by the ERC grant (PR1023ERC02) to H. T. and
J. F., and by the ministry of science and technology (grant number 110-2636-B-005-001)
to K. J. L.
article_number: '100669'
article_processing_charge: Yes
article_type: original
author:
- first_name: Han
full_name: Tang, Han
id: 19BDF720-25A0-11EA-AC6E-928F3DDC885E
last_name: Tang
orcid: 0000-0001-6152-6637
- first_name: KJ
full_name: Lu, KJ
last_name: Lu
- first_name: Y
full_name: Zhang, Y
last_name: Zhang
- first_name: YL
full_name: Cheng, YL
last_name: Cheng
- first_name: SL
full_name: Tu, SL
last_name: Tu
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Tang H, Lu K, Zhang Y, Cheng Y, Tu S, Friml J. Divergence of trafficking and
polarization mechanisms for PIN auxin transporters during land plant evolution.
Plant Communications. 2024;5(1). doi:10.1016/j.xplc.2023.100669
apa: Tang, H., Lu, K., Zhang, Y., Cheng, Y., Tu, S., & Friml, J. (2024). Divergence
of trafficking and polarization mechanisms for PIN auxin transporters during land
plant evolution. Plant Communications. Elsevier. https://doi.org/10.1016/j.xplc.2023.100669
chicago: Tang, Han, KJ Lu, Y Zhang, YL Cheng, SL Tu, and Jiří Friml. “Divergence
of Trafficking and Polarization Mechanisms for PIN Auxin Transporters during Land
Plant Evolution.” Plant Communications. Elsevier, 2024. https://doi.org/10.1016/j.xplc.2023.100669.
ieee: H. Tang, K. Lu, Y. Zhang, Y. Cheng, S. Tu, and J. Friml, “Divergence of trafficking
and polarization mechanisms for PIN auxin transporters during land plant evolution,”
Plant Communications, vol. 5, no. 1. Elsevier, 2024.
ista: Tang H, Lu K, Zhang Y, Cheng Y, Tu S, Friml J. 2024. Divergence of trafficking
and polarization mechanisms for PIN auxin transporters during land plant evolution.
Plant Communications. 5(1), 100669.
mla: Tang, Han, et al. “Divergence of Trafficking and Polarization Mechanisms for
PIN Auxin Transporters during Land Plant Evolution.” Plant Communications,
vol. 5, no. 1, 100669, Elsevier, 2024, doi:10.1016/j.xplc.2023.100669.
short: H. Tang, K. Lu, Y. Zhang, Y. Cheng, S. Tu, J. Friml, Plant Communications
5 (2024).
date_created: 2023-09-01T11:32:02Z
date_published: 2024-01-08T00:00:00Z
date_updated: 2024-01-30T13:00:47Z
day: '08'
ddc:
- '580'
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doi: 10.1016/j.xplc.2023.100669
ec_funded: 1
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- '37528584'
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intvolume: ' 5'
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oa_version: Published Version
pmid: 1
project:
- _id: 261099A6-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '742985'
name: Tracing Evolution of Auxin Transport and Polarity in Plants
publication: Plant Communications
publication_identifier:
issn:
- 2590-3462
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Divergence of trafficking and polarization mechanisms for PIN auxin transporters
during land plant evolution
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2024'
...
---
_id: '14886'
abstract:
- lang: eng
text: It is a basic principle that an effect cannot come before the cause. Dispersive
relations that follow from this fundamental fact have proven to be an indispensable
tool in physics and engineering. They are most powerful in the domain of linear
response where they are known as Kramers-Kronig relations. However, when it comes
to nonlinear phenomena the implications of causality are much less explored, apart
from several notable exceptions. Here in this paper we demonstrate how to apply
the dispersive formalism to analyze the ultrafast nonlinear response in the context
of the paradigmatic nonlinear Kerr effect. We find that the requirement of causality
introduces a noticeable effect even under assumption that Kerr effect is mediated
by quasi-instantaneous off-resonant electronic hyperpolarizability. We confirm
this by experimentally measuring the time-resolved Kerr dynamics in GaAs by means
of a hybrid pump-probe Mach-Zehnder interferometer and demonstrate the presence
of an intrinsic lagging between amplitude and phase responses as predicted by
dispersive analysis. Our results describe a general property of the time-resolved
nonlinear processes thereby highlighting the importance of accounting for dispersive
effects in the nonlinear optical processes involving ultrashort pulses.
acknowledgement: The work was supported by the Institute of Science and Technology
Austria (ISTA). We thank Prof. John M. Dudley, Dr. Ugur Sezer, and Dr. Artem Volosniev
for valuable discussions.
article_number: '013042'
article_processing_charge: Yes
article_type: original
author:
- first_name: Dusan
full_name: Lorenc, Dusan
id: 40D8A3E6-F248-11E8-B48F-1D18A9856A87
last_name: Lorenc
- first_name: Zhanybek
full_name: Alpichshev, Zhanybek
id: 45E67A2A-F248-11E8-B48F-1D18A9856A87
last_name: Alpichshev
orcid: 0000-0002-7183-5203
citation:
ama: 'Lorenc D, Alpichshev Z. Dispersive effects in ultrafast nonlinear phenomena:
The case of optical Kerr effect. Physical Review Research. 2024;6(1). doi:10.1103/PhysRevResearch.6.013042'
apa: 'Lorenc, D., & Alpichshev, Z. (2024). Dispersive effects in ultrafast nonlinear
phenomena: The case of optical Kerr effect. Physical Review Research. American
Physical Society. https://doi.org/10.1103/PhysRevResearch.6.013042'
chicago: 'Lorenc, Dusan, and Zhanybek Alpichshev. “Dispersive Effects in Ultrafast
Nonlinear Phenomena: The Case of Optical Kerr Effect.” Physical Review Research.
American Physical Society, 2024. https://doi.org/10.1103/PhysRevResearch.6.013042.'
ieee: 'D. Lorenc and Z. Alpichshev, “Dispersive effects in ultrafast nonlinear phenomena:
The case of optical Kerr effect,” Physical Review Research, vol. 6, no.
1. American Physical Society, 2024.'
ista: 'Lorenc D, Alpichshev Z. 2024. Dispersive effects in ultrafast nonlinear phenomena:
The case of optical Kerr effect. Physical Review Research. 6(1), 013042.'
mla: 'Lorenc, Dusan, and Zhanybek Alpichshev. “Dispersive Effects in Ultrafast Nonlinear
Phenomena: The Case of Optical Kerr Effect.” Physical Review Research,
vol. 6, no. 1, 013042, American Physical Society, 2024, doi:10.1103/PhysRevResearch.6.013042.'
short: D. Lorenc, Z. Alpichshev, Physical Review Research 6 (2024).
date_created: 2024-01-28T23:01:42Z
date_published: 2024-01-11T00:00:00Z
date_updated: 2024-01-31T12:01:16Z
day: '11'
ddc:
- '530'
department:
- _id: ZhAl
doi: 10.1103/PhysRevResearch.6.013042
file:
- access_level: open_access
checksum: 42d58f93ae74e7f2c4de058ef75ff8b2
content_type: application/pdf
creator: dernst
date_created: 2024-01-31T11:59:30Z
date_updated: 2024-01-31T11:59:30Z
file_id: '14918'
file_name: 2024_PhysicalReviewResearch_Lorenc.pdf
file_size: 2863627
relation: main_file
success: 1
file_date_updated: 2024-01-31T11:59:30Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
publication: Physical Review Research
publication_identifier:
eissn:
- 2643-1564
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Dispersive effects in ultrafast nonlinear phenomena: The case of optical Kerr
effect'
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: 6
year: '2024'
...