---
_id: '1928'
abstract:
- lang: eng
text: In infectious disease epidemiology the basic reproductive ratio, R0, is defined
as the average number of new infections caused by a single infected individual
in a fully susceptible population. Many models describing competition for hosts
between non-interacting pathogen strains in an infinite population lead to the
conclusion that selection favors invasion of new strains if and only if they have
higher R0 values than the resident. Here we demonstrate that this picture fails
in finite populations. Using a simple stochastic SIS model, we show that in general
there is no analogous optimization principle. We find that successive invasions
may in some cases lead to strains that infect a smaller fraction of the host population,
and that mutually invasible pathogen strains exist. In the limit of weak selection
we demonstrate that an optimization principle does exist, although it differs
from R0 maximization. For strains with very large R0, we derive an expression
for this local fitness function and use it to establish a lower bound for the
error caused by neglecting stochastic effects. Furthermore, we apply this weak
selection limit to investigate the selection dynamics in the presence of a trade-off
between the virulence and the transmission rate of a pathogen.
acknowledgement: J.H. received support from the Zdenek Bakala Foundation and the Mobility
Fund of Charles University in Prague.
author:
- first_name: Jan
full_name: Humplik, Jan
id: 2E9627A8-F248-11E8-B48F-1D18A9856A87
last_name: Humplik
- first_name: Alison
full_name: Hill, Alison
last_name: Hill
- first_name: Martin
full_name: Nowak, Martin
last_name: Nowak
citation:
ama: Humplik J, Hill A, Nowak M. Evolutionary dynamics of infectious diseases in
finite populations. Journal of Theoretical Biology. 2014;360:149-162. doi:10.1016/j.jtbi.2014.06.039
apa: Humplik, J., Hill, A., & Nowak, M. (2014). Evolutionary dynamics of infectious
diseases in finite populations. Journal of Theoretical Biology. Elsevier.
https://doi.org/10.1016/j.jtbi.2014.06.039
chicago: Humplik, Jan, Alison Hill, and Martin Nowak. “Evolutionary Dynamics of
Infectious Diseases in Finite Populations.” Journal of Theoretical Biology.
Elsevier, 2014. https://doi.org/10.1016/j.jtbi.2014.06.039.
ieee: J. Humplik, A. Hill, and M. Nowak, “Evolutionary dynamics of infectious diseases
in finite populations,” Journal of Theoretical Biology, vol. 360. Elsevier,
pp. 149–162, 2014.
ista: Humplik J, Hill A, Nowak M. 2014. Evolutionary dynamics of infectious diseases
in finite populations. Journal of Theoretical Biology. 360, 149–162.
mla: Humplik, Jan, et al. “Evolutionary Dynamics of Infectious Diseases in Finite
Populations.” Journal of Theoretical Biology, vol. 360, Elsevier, 2014,
pp. 149–62, doi:10.1016/j.jtbi.2014.06.039.
short: J. Humplik, A. Hill, M. Nowak, Journal of Theoretical Biology 360 (2014)
149–162.
date_created: 2018-12-11T11:54:46Z
date_published: 2014-11-07T00:00:00Z
date_updated: 2021-01-12T06:54:08Z
day: '07'
department:
- _id: GaTk
doi: 10.1016/j.jtbi.2014.06.039
intvolume: ' 360'
language:
- iso: eng
month: '11'
oa_version: None
page: 149 - 162
publication: Journal of Theoretical Biology
publication_status: published
publisher: Elsevier
publist_id: '5166'
scopus_import: 1
status: public
title: Evolutionary dynamics of infectious diseases in finite populations
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 360
year: '2014'
...
---
_id: '1929'
abstract:
- lang: eng
text: We propose an algorithm for the generalization of cartographic objects that
can be used to represent maps on different scales.
acknowledgement: We would like to offer our special thanks to students of the Department
of Mathematics of Demidov Yaroslavl State University A. A. Gorokhov and V. N. Knyazev
for participation in developing the program and assistance in preparation of test
data. This work was supported by grant 11.G34.31.0053 from the government of the
Russian Federation.
article_processing_charge: No
article_type: original
author:
- first_name: V V
full_name: Alexeev, V V
last_name: Alexeev
- first_name: V G
full_name: Bogaevskaya, V G
last_name: Bogaevskaya
- first_name: M M
full_name: Preobrazhenskaya, M M
last_name: Preobrazhenskaya
- first_name: A Y
full_name: Ukhalov, A Y
last_name: Ukhalov
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Olga
full_name: Yakimova, Olga
last_name: Yakimova
citation:
ama: Alexeev VV, Bogaevskaya VG, Preobrazhenskaya MM, Ukhalov AY, Edelsbrunner H,
Yakimova O. An algorithm for cartographic generalization that preserves global
topology. Journal of Mathematical Sciences. 2014;203(6):754-760. doi:10.1007/s10958-014-2165-8
apa: Alexeev, V. V., Bogaevskaya, V. G., Preobrazhenskaya, M. M., Ukhalov, A. Y.,
Edelsbrunner, H., & Yakimova, O. (2014). An algorithm for cartographic generalization
that preserves global topology. Journal of Mathematical Sciences. Springer.
https://doi.org/10.1007/s10958-014-2165-8
chicago: Alexeev, V V, V G Bogaevskaya, M M Preobrazhenskaya, A Y Ukhalov, Herbert
Edelsbrunner, and Olga Yakimova. “An Algorithm for Cartographic Generalization
That Preserves Global Topology.” Journal of Mathematical Sciences. Springer,
2014. https://doi.org/10.1007/s10958-014-2165-8.
ieee: V. V. Alexeev, V. G. Bogaevskaya, M. M. Preobrazhenskaya, A. Y. Ukhalov, H.
Edelsbrunner, and O. Yakimova, “An algorithm for cartographic generalization that
preserves global topology,” Journal of Mathematical Sciences, vol. 203,
no. 6. Springer, pp. 754–760, 2014.
ista: Alexeev VV, Bogaevskaya VG, Preobrazhenskaya MM, Ukhalov AY, Edelsbrunner
H, Yakimova O. 2014. An algorithm for cartographic generalization that preserves
global topology. Journal of Mathematical Sciences. 203(6), 754–760.
mla: Alexeev, V. V., et al. “An Algorithm for Cartographic Generalization That Preserves
Global Topology.” Journal of Mathematical Sciences, vol. 203, no. 6, Springer,
2014, pp. 754–60, doi:10.1007/s10958-014-2165-8.
short: V.V. Alexeev, V.G. Bogaevskaya, M.M. Preobrazhenskaya, A.Y. Ukhalov, H. Edelsbrunner,
O. Yakimova, Journal of Mathematical Sciences 203 (2014) 754–760.
date_created: 2018-12-11T11:54:46Z
date_published: 2014-11-16T00:00:00Z
date_updated: 2022-05-24T10:39:06Z
day: '16'
department:
- _id: HeEd
doi: 10.1007/s10958-014-2165-8
intvolume: ' 203'
issue: '6'
language:
- iso: eng
month: '11'
oa_version: None
page: 754 - 760
publication: Journal of Mathematical Sciences
publication_identifier:
eissn:
- 1573-8795
issn:
- 1072-3374
publication_status: published
publisher: Springer
publist_id: '5165'
quality_controlled: '1'
scopus_import: '1'
status: public
title: An algorithm for cartographic generalization that preserves global topology
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 203
year: '2014'
...
---
_id: '1930'
abstract:
- lang: eng
text: (Figure Presented) Data acquisition, numerical inaccuracies, and sampling
often introduce noise in measurements and simulations. Removing this noise is
often necessary for efficient analysis and visualization of this data, yet many
denoising techniques change the minima and maxima of a scalar field. For example,
the extrema can appear or disappear, spatially move, and change their value. This
can lead to wrong interpretations of the data, e.g., when the maximum temperature
over an area is falsely reported being a few degrees cooler because the denoising
method is unaware of these features. Recently, a topological denoising technique
based on a global energy optimization was proposed, which allows the topology-controlled
denoising of 2D scalar fields. While this method preserves the minima and maxima,
it is constrained by the size of the data. We extend this work to large 2D data
and medium-sized 3D data by introducing a novel domain decomposition approach.
It allows processing small patches of the domain independently while still avoiding
the introduction of new critical points. Furthermore, we propose an iterative
refinement of the solution, which decreases the optimization energy compared to
the previous approach and therefore gives smoother results that are closer to
the input. We illustrate our technique on synthetic and real-world 2D and 3D data
sets that highlight potential applications.
acknowledgement: RTRA Digiteoproject; ERC grant; SNF award; Intel Doctoral Fellowship;
MPC-VCC
author:
- first_name: David
full_name: Günther, David
last_name: Günther
- first_name: Alec
full_name: Jacobson, Alec
last_name: Jacobson
- first_name: Jan
full_name: Reininghaus, Jan
id: 4505473A-F248-11E8-B48F-1D18A9856A87
last_name: Reininghaus
- first_name: Hans
full_name: Seidel, Hans
last_name: Seidel
- first_name: Olga
full_name: Sorkine Hornung, Olga
last_name: Sorkine Hornung
- first_name: Tino
full_name: Weinkauf, Tino
last_name: Weinkauf
citation:
ama: Günther D, Jacobson A, Reininghaus J, Seidel H, Sorkine Hornung O, Weinkauf
T. Fast and memory-efficient topological denoising of 2D and 3D scalar fields.
IEEE Transactions on Visualization and Computer Graphics. 2014;20(12):2585-2594.
doi:10.1109/TVCG.2014.2346432
apa: Günther, D., Jacobson, A., Reininghaus, J., Seidel, H., Sorkine Hornung, O.,
& Weinkauf, T. (2014). Fast and memory-efficient topological denoising of
2D and 3D scalar fields. IEEE Transactions on Visualization and Computer Graphics.
IEEE. https://doi.org/10.1109/TVCG.2014.2346432
chicago: Günther, David, Alec Jacobson, Jan Reininghaus, Hans Seidel, Olga Sorkine
Hornung, and Tino Weinkauf. “Fast and Memory-Efficient Topological Denoising of
2D and 3D Scalar Fields.” IEEE Transactions on Visualization and Computer Graphics.
IEEE, 2014. https://doi.org/10.1109/TVCG.2014.2346432.
ieee: D. Günther, A. Jacobson, J. Reininghaus, H. Seidel, O. Sorkine Hornung, and
T. Weinkauf, “Fast and memory-efficient topological denoising of 2D and 3D scalar
fields,” IEEE Transactions on Visualization and Computer Graphics, vol.
20, no. 12. IEEE, pp. 2585–2594, 2014.
ista: Günther D, Jacobson A, Reininghaus J, Seidel H, Sorkine Hornung O, Weinkauf
T. 2014. Fast and memory-efficient topological denoising of 2D and 3D scalar fields.
IEEE Transactions on Visualization and Computer Graphics. 20(12), 2585–2594.
mla: Günther, David, et al. “Fast and Memory-Efficient Topological Denoising of
2D and 3D Scalar Fields.” IEEE Transactions on Visualization and Computer Graphics,
vol. 20, no. 12, IEEE, 2014, pp. 2585–94, doi:10.1109/TVCG.2014.2346432.
short: D. Günther, A. Jacobson, J. Reininghaus, H. Seidel, O. Sorkine Hornung, T.
Weinkauf, IEEE Transactions on Visualization and Computer Graphics 20 (2014) 2585–2594.
date_created: 2018-12-11T11:54:46Z
date_published: 2014-12-31T00:00:00Z
date_updated: 2021-01-12T06:54:09Z
day: '31'
department:
- _id: HeEd
doi: 10.1109/TVCG.2014.2346432
intvolume: ' 20'
issue: '12'
language:
- iso: eng
month: '12'
oa_version: None
page: 2585 - 2594
publication: IEEE Transactions on Visualization and Computer Graphics
publication_status: published
publisher: IEEE
publist_id: '5164'
quality_controlled: '1'
scopus_import: 1
status: public
title: Fast and memory-efficient topological denoising of 2D and 3D scalar fields
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2014'
...
---
_id: '1931'
abstract:
- lang: eng
text: A wealth of experimental evidence suggests that working memory circuits preferentially
represent information that is behaviorally relevant. Still, we are missing a mechanistic
account of how these representations come about. Here we provide a simple explanation
for a range of experimental findings, in light of prefrontal circuits adapting
to task constraints by reward-dependent learning. In particular, we model a neural
network shaped by reward-modulated spike-timing dependent plasticity (r-STDP)
and homeostatic plasticity (intrinsic excitability and synaptic scaling). We show
that the experimentally-observed neural representations naturally emerge in an
initially unstructured circuit as it learns to solve several working memory tasks.
These results point to a critical, and previously unappreciated, role for reward-dependent
learning in shaping prefrontal cortex activity.
acknowledgement: Supported in part by EC MEXT project PLICON and the LOEWE-Program
“Neuronal Coordination Research Focus Frankfurt” (NeFF). Jochen Triesch was supported
by the Quandt foundation.
article_number: '57'
author:
- first_name: Cristina
full_name: Savin, Cristina
id: 3933349E-F248-11E8-B48F-1D18A9856A87
last_name: Savin
- first_name: Jochen
full_name: Triesch, Jochen
last_name: Triesch
citation:
ama: Savin C, Triesch J. Emergence of task-dependent representations in working
memory circuits. Frontiers in Computational Neuroscience. 2014;8(MAY).
doi:10.3389/fncom.2014.00057
apa: Savin, C., & Triesch, J. (2014). Emergence of task-dependent representations
in working memory circuits. Frontiers in Computational Neuroscience. Frontiers
Research Foundation. https://doi.org/10.3389/fncom.2014.00057
chicago: Savin, Cristina, and Jochen Triesch. “Emergence of Task-Dependent Representations
in Working Memory Circuits.” Frontiers in Computational Neuroscience. Frontiers
Research Foundation, 2014. https://doi.org/10.3389/fncom.2014.00057.
ieee: C. Savin and J. Triesch, “Emergence of task-dependent representations in working
memory circuits,” Frontiers in Computational Neuroscience, vol. 8, no.
MAY. Frontiers Research Foundation, 2014.
ista: Savin C, Triesch J. 2014. Emergence of task-dependent representations in working
memory circuits. Frontiers in Computational Neuroscience. 8(MAY), 57.
mla: Savin, Cristina, and Jochen Triesch. “Emergence of Task-Dependent Representations
in Working Memory Circuits.” Frontiers in Computational Neuroscience, vol.
8, no. MAY, 57, Frontiers Research Foundation, 2014, doi:10.3389/fncom.2014.00057.
short: C. Savin, J. Triesch, Frontiers in Computational Neuroscience 8 (2014).
date_created: 2018-12-11T11:54:46Z
date_published: 2014-05-28T00:00:00Z
date_updated: 2021-01-12T06:54:09Z
day: '28'
department:
- _id: GaTk
doi: 10.3389/fncom.2014.00057
intvolume: ' 8'
issue: MAY
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4035833/
month: '05'
oa: 1
oa_version: Submitted Version
publication: Frontiers in Computational Neuroscience
publication_status: published
publisher: Frontiers Research Foundation
publist_id: '5163'
quality_controlled: '1'
scopus_import: 1
status: public
title: Emergence of task-dependent representations in working memory circuits
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2014'
...
---
_id: '1932'
abstract:
- lang: eng
text: The existence of complex (multiple-step) genetic adaptations that are "irreducible"
(i.e., all partial combinations are less fit than the original genotype) is one
of the longest standing problems in evolutionary biology. In standard genetics
parlance, these adaptations require the crossing of a wide adaptive valley of
deleterious intermediate stages. Here, we demonstrate, using a simple model, that
evolution can cross wide valleys to produce "irreducibly complex" adaptations
by making use of previously cryptic mutations. When revealed by an evolutionary
capacitor, previously cryptic mutants have higher initial frequencies than do
new mutations, bringing them closer to a valley-crossing saddle in allele frequency
space. Moreover, simple combinatorics implies an enormous number of candidate
combinations exist within available cryptic genetic variation. We model the dynamics
of crossing of a wide adaptive valley after a capacitance event using both numerical
simulations and analytical approximations. Although individual valley crossing
events become less likely as valleys widen, by taking the combinatorics of genotype
space into account, we see that revealing cryptic variation can cause the frequent
evolution of complex adaptations.
acknowledgement: "Funded by National Institutes of Health. Grant Numbers: R01GM076041,
R01GM104040 \r\n\r\nSimons Foundation\r\n\r\n"
author:
- first_name: Meredith
full_name: Trotter, Meredith
last_name: Trotter
- first_name: Daniel
full_name: Weissman, Daniel
id: 2D0CE020-F248-11E8-B48F-1D18A9856A87
last_name: Weissman
- first_name: Grant
full_name: Peterson, Grant
last_name: Peterson
- first_name: Kayla
full_name: Peck, Kayla
last_name: Peck
- first_name: Joanna
full_name: Masel, Joanna
last_name: Masel
citation:
ama: Trotter M, Weissman D, Peterson G, Peck K, Masel J. Cryptic genetic variation
can make "irreducible complexity" a common mode of adaptation
in sexual populations. Evolution. 2014;68(12):3357-3367. doi:10.1111/evo.12517
apa: Trotter, M., Weissman, D., Peterson, G., Peck, K., & Masel, J. (2014).
Cryptic genetic variation can make "irreducible complexity"
a common mode of adaptation in sexual populations. Evolution. Wiley-Blackwell.
https://doi.org/10.1111/evo.12517
chicago: Trotter, Meredith, Daniel Weissman, Grant Peterson, Kayla Peck, and Joanna
Masel. “Cryptic Genetic Variation Can Make "Irreducible Complexity"
a Common Mode of Adaptation in Sexual Populations.” Evolution. Wiley-Blackwell,
2014. https://doi.org/10.1111/evo.12517.
ieee: M. Trotter, D. Weissman, G. Peterson, K. Peck, and J. Masel, “Cryptic genetic
variation can make "irreducible complexity" a common mode of
adaptation in sexual populations,” Evolution, vol. 68, no. 12. Wiley-Blackwell,
pp. 3357–3367, 2014.
ista: Trotter M, Weissman D, Peterson G, Peck K, Masel J. 2014. Cryptic genetic
variation can make "irreducible complexity" a common mode of
adaptation in sexual populations. Evolution. 68(12), 3357–3367.
mla: Trotter, Meredith, et al. “Cryptic Genetic Variation Can Make "Irreducible
Complexity" a Common Mode of Adaptation in Sexual Populations.” Evolution,
vol. 68, no. 12, Wiley-Blackwell, 2014, pp. 3357–67, doi:10.1111/evo.12517.
short: M. Trotter, D. Weissman, G. Peterson, K. Peck, J. Masel, Evolution 68 (2014)
3357–3367.
date_created: 2018-12-11T11:54:47Z
date_published: 2014-12-01T00:00:00Z
date_updated: 2021-01-12T06:54:10Z
day: '01'
department:
- _id: NiBa
doi: 10.1111/evo.12517
ec_funded: 1
intvolume: ' 68'
issue: '12'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1310.6077
month: '12'
oa: 1
oa_version: Submitted Version
page: 3357 - 3367
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Evolution
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5162'
quality_controlled: '1'
scopus_import: 1
status: public
title: Cryptic genetic variation can make "irreducible complexity" a common
mode of adaptation in sexual populations
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 68
year: '2014'
...
---
_id: '1933'
abstract:
- lang: eng
text: The development of the vertebrate brain requires an exquisite balance between
proliferation and differentiation of neural progenitors. Notch signaling plays
a pivotal role in regulating this balance, yet the interaction between signaling
and receiving cells remains poorly understood. We have found that numerous nascent
neurons and/or intermediate neurogenic progenitors expressing the ligand of Notch
retain apical endfeet transiently at the ventricular lumen that form adherens
junctions (AJs) with the endfeet of progenitors. Forced detachment of the apical
endfeet of those differentiating cells by disrupting AJs resulted in precocious
neurogenesis that was preceded by the downregulation of Notch signaling. Both
Notch1 and its ligand Dll1 are distributed around AJs in the apical endfeet, and
these proteins physically interact with ZO-1, a constituent of the AJ. Furthermore,
live imaging of a fluorescently tagged Notch1 demonstrated its trafficking from
the apical endfoot to the nucleus upon cleavage. Our results identified the apical
endfoot as the central site of active Notch signaling to securely prohibit inappropriate
differentiation of neural progenitors.
author:
- first_name: Jun
full_name: Hatakeyama, Jun
last_name: Hatakeyama
- first_name: Yoshio
full_name: Wakamatsu, Yoshio
last_name: Wakamatsu
- first_name: Akira
full_name: Nagafuchi, Akira
last_name: Nagafuchi
- first_name: Ryoichiro
full_name: Kageyama, Ryoichiro
last_name: Kageyama
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Kenji
full_name: Shimamura, Kenji
last_name: Shimamura
citation:
ama: Hatakeyama J, Wakamatsu Y, Nagafuchi A, Kageyama R, Shigemoto R, Shimamura
K. Cadherin-based adhesions in the apical endfoot are required for active Notch
signaling to control neurogenesis in vertebrates. Development. 2014;141(8):1671-1682.
doi:10.1242/dev.102988
apa: Hatakeyama, J., Wakamatsu, Y., Nagafuchi, A., Kageyama, R., Shigemoto, R.,
& Shimamura, K. (2014). Cadherin-based adhesions in the apical endfoot are
required for active Notch signaling to control neurogenesis in vertebrates. Development.
Company of Biologists. https://doi.org/10.1242/dev.102988
chicago: Hatakeyama, Jun, Yoshio Wakamatsu, Akira Nagafuchi, Ryoichiro Kageyama,
Ryuichi Shigemoto, and Kenji Shimamura. “Cadherin-Based Adhesions in the Apical
Endfoot Are Required for Active Notch Signaling to Control Neurogenesis in Vertebrates.”
Development. Company of Biologists, 2014. https://doi.org/10.1242/dev.102988.
ieee: J. Hatakeyama, Y. Wakamatsu, A. Nagafuchi, R. Kageyama, R. Shigemoto, and
K. Shimamura, “Cadherin-based adhesions in the apical endfoot are required for
active Notch signaling to control neurogenesis in vertebrates,” Development,
vol. 141, no. 8. Company of Biologists, pp. 1671–1682, 2014.
ista: Hatakeyama J, Wakamatsu Y, Nagafuchi A, Kageyama R, Shigemoto R, Shimamura
K. 2014. Cadherin-based adhesions in the apical endfoot are required for active
Notch signaling to control neurogenesis in vertebrates. Development. 141(8), 1671–1682.
mla: Hatakeyama, Jun, et al. “Cadherin-Based Adhesions in the Apical Endfoot Are
Required for Active Notch Signaling to Control Neurogenesis in Vertebrates.” Development,
vol. 141, no. 8, Company of Biologists, 2014, pp. 1671–82, doi:10.1242/dev.102988.
short: J. Hatakeyama, Y. Wakamatsu, A. Nagafuchi, R. Kageyama, R. Shigemoto, K.
Shimamura, Development 141 (2014) 1671–1682.
date_created: 2018-12-11T11:54:47Z
date_published: 2014-04-01T00:00:00Z
date_updated: 2021-01-12T06:54:10Z
day: '01'
department:
- _id: RySh
doi: 10.1242/dev.102988
intvolume: ' 141'
issue: '8'
language:
- iso: eng
month: '04'
oa_version: None
page: 1671 - 1682
publication: Development
publication_status: published
publisher: Company of Biologists
publist_id: '5161'
quality_controlled: '1'
scopus_import: 1
status: public
title: Cadherin-based adhesions in the apical endfoot are required for active Notch
signaling to control neurogenesis in vertebrates
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 141
year: '2014'
...
---
_id: '1934'
abstract:
- lang: eng
text: The plant hormones auxin and cytokinin mutually coordinate their activities
to control various aspects of development [1-9], and their crosstalk occurs at
multiple levels [10, 11]. Cytokinin-mediated modulation of auxin transport provides
an efficient means to regulate auxin distribution in plant organs. Here, we demonstrate
that cytokinin does not merely control the overall auxin flow capacity, but might
also act as a polarizing cue and control the auxin stream directionality during
plant organogenesis. Cytokinin enhances the PIN-FORMED1 (PIN1) auxin transporter
depletion at specific polar domains, thus rearranging the cellular PIN polarities
and directly regulating the auxin flow direction. This selective cytokinin sensitivity
correlates with the PIN protein phosphorylation degree. PIN1 phosphomimicking
mutations, as well as enhanced phosphorylation in plants with modulated activities
of PIN-specific kinases and phosphatases, desensitize PIN1 to cytokinin. Our results
reveal conceptually novel, cytokinin-driven polarization mechanism that operates
in developmental processes involving rapid auxin stream redirection, such as lateral
root organogenesis, in which a gradual PIN polarity switch defines the growth
axis of the newly formed organ.
author:
- first_name: Peter
full_name: Marhavy, Peter
id: 3F45B078-F248-11E8-B48F-1D18A9856A87
last_name: Marhavy
orcid: 0000-0001-5227-5741
- first_name: Jérôme
full_name: Duclercq, Jérôme
last_name: Duclercq
- first_name: Benjamin
full_name: Weller, Benjamin
last_name: Weller
- first_name: Elena
full_name: Feraru, Elena
last_name: Feraru
- first_name: Agnieszka
full_name: Bielach, Agnieszka
last_name: Bielach
- first_name: Remko
full_name: Offringa, Remko
last_name: Offringa
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Claus
full_name: Schwechheimer, Claus
last_name: Schwechheimer
- first_name: Angus
full_name: Murphy, Angus
last_name: Murphy
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Marhavý P, Duclercq J, Weller B, et al. Cytokinin controls polarity of PIN1-dependent
Auxin transport during lateral root organogenesis. Current Biology. 2014;24(9):1031-1037.
doi:10.1016/j.cub.2014.04.002
apa: Marhavý, P., Duclercq, J., Weller, B., Feraru, E., Bielach, A., Offringa, R.,
… Benková, E. (2014). Cytokinin controls polarity of PIN1-dependent Auxin transport
during lateral root organogenesis. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2014.04.002
chicago: Marhavý, Peter, Jérôme Duclercq, Benjamin Weller, Elena Feraru, Agnieszka
Bielach, Remko Offringa, Jiří Friml, Claus Schwechheimer, Angus Murphy, and Eva
Benková. “Cytokinin Controls Polarity of PIN1-Dependent Auxin Transport during
Lateral Root Organogenesis.” Current Biology. Cell Press, 2014. https://doi.org/10.1016/j.cub.2014.04.002.
ieee: P. Marhavý et al., “Cytokinin controls polarity of PIN1-dependent Auxin
transport during lateral root organogenesis,” Current Biology, vol. 24,
no. 9. Cell Press, pp. 1031–1037, 2014.
ista: Marhavý P, Duclercq J, Weller B, Feraru E, Bielach A, Offringa R, Friml J,
Schwechheimer C, Murphy A, Benková E. 2014. Cytokinin controls polarity of PIN1-dependent
Auxin transport during lateral root organogenesis. Current Biology. 24(9), 1031–1037.
mla: Marhavý, Peter, et al. “Cytokinin Controls Polarity of PIN1-Dependent Auxin
Transport during Lateral Root Organogenesis.” Current Biology, vol. 24,
no. 9, Cell Press, 2014, pp. 1031–37, doi:10.1016/j.cub.2014.04.002.
short: P. Marhavý, J. Duclercq, B. Weller, E. Feraru, A. Bielach, R. Offringa, J.
Friml, C. Schwechheimer, A. Murphy, E. Benková, Current Biology 24 (2014) 1031–1037.
date_created: 2018-12-11T11:54:48Z
date_published: 2014-05-05T00:00:00Z
date_updated: 2021-01-12T06:54:10Z
day: '05'
department:
- _id: EvBe
- _id: JiFr
doi: 10.1016/j.cub.2014.04.002
ec_funded: 1
intvolume: ' 24'
issue: '9'
language:
- iso: eng
month: '05'
oa_version: None
page: 1031 - 1037
project:
- _id: 253FCA6A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '207362'
name: Hormonal cross-talk in plant organogenesis
publication: Current Biology
publication_status: published
publisher: Cell Press
publist_id: '5160'
quality_controlled: '1'
scopus_import: 1
status: public
title: Cytokinin controls polarity of PIN1-dependent Auxin transport during lateral
root organogenesis
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2014'
...
---
_id: '1935'
abstract:
- lang: eng
text: 'We consider Ising models in d = 2 and d = 3 dimensions with nearest neighbor
ferromagnetic and long-range antiferromagnetic interactions, the latter decaying
as (distance)-p, p > 2d, at large distances. If the strength J of the ferromagnetic
interaction is larger than a critical value J c, then the ground state is homogeneous.
It has been conjectured that when J is smaller than but close to J c, the ground
state is periodic and striped, with stripes of constant width h = h(J), and h
→ ∞ as J → Jc -. (In d = 3 stripes mean slabs, not columns.) Here we rigorously
prove that, if we normalize the energy in such a way that the energy of the homogeneous
state is zero, then the ratio e 0(J)/e S(J) tends to 1 as J → Jc -, with e S(J)
being the energy per site of the optimal periodic striped/slabbed state and e
0(J) the actual ground state energy per site of the system. Our proof comes with
explicit bounds on the difference e 0(J)-e S(J) at small but positive J c-J, and
also shows that in this parameter range the ground state is striped/slabbed in
a certain sense: namely, if one looks at a randomly chosen window, of suitable
size ℓ (very large compared to the optimal stripe size h(J)), one finds a striped/slabbed
state with high probability.'
acknowledgement: "2014 by the authors. This paper may be reproduced, in its entirety,
for non-commercial purposes.\r\n\r\nThe research leading to these results has received
funding from the European Research\r\nCouncil under the European Union’s Seventh
Framework Programme ERC Starting Grant CoMBoS (Grant Agreement No. 239694; A.G.
and R.S.), the U.S. National Science Foundation (Grant PHY 0965859; E.H.L.), the
Simons Foundation (Grant # 230207; E.H.L) and the NSERC (R.S.). The work is part
of a project started in collaboration with Joel Lebowitz, whom we thank for many
useful discussions and for his constant encouragement."
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Alessandro
full_name: Giuliani, Alessandro
last_name: Giuliani
- first_name: Élliott
full_name: Lieb, Élliott
last_name: Lieb
- first_name: Robert
full_name: Seiringer, Robert
id: 4AFD0470-F248-11E8-B48F-1D18A9856A87
last_name: Seiringer
orcid: 0000-0002-6781-0521
citation:
ama: Giuliani A, Lieb É, Seiringer R. Formation of stripes and slabs near the ferromagnetic
transition. Communications in Mathematical Physics. 2014;331:333-350. doi:10.1007/s00220-014-1923-2
apa: Giuliani, A., Lieb, É., & Seiringer, R. (2014). Formation of stripes and
slabs near the ferromagnetic transition. Communications in Mathematical Physics.
Springer. https://doi.org/10.1007/s00220-014-1923-2
chicago: Giuliani, Alessandro, Élliott Lieb, and Robert Seiringer. “Formation of
Stripes and Slabs near the Ferromagnetic Transition.” Communications in Mathematical
Physics. Springer, 2014. https://doi.org/10.1007/s00220-014-1923-2.
ieee: A. Giuliani, É. Lieb, and R. Seiringer, “Formation of stripes and slabs near
the ferromagnetic transition,” Communications in Mathematical Physics,
vol. 331. Springer, pp. 333–350, 2014.
ista: Giuliani A, Lieb É, Seiringer R. 2014. Formation of stripes and slabs near
the ferromagnetic transition. Communications in Mathematical Physics. 331, 333–350.
mla: Giuliani, Alessandro, et al. “Formation of Stripes and Slabs near the Ferromagnetic
Transition.” Communications in Mathematical Physics, vol. 331, Springer,
2014, pp. 333–50, doi:10.1007/s00220-014-1923-2.
short: A. Giuliani, É. Lieb, R. Seiringer, Communications in Mathematical Physics
331 (2014) 333–350.
date_created: 2018-12-11T11:54:48Z
date_published: 2014-10-01T00:00:00Z
date_updated: 2022-05-24T08:32:50Z
day: '01'
ddc:
- '510'
department:
- _id: RoSe
doi: 10.1007/s00220-014-1923-2
external_id:
arxiv:
- '1304.6344'
file:
- access_level: open_access
checksum: c8423271cd1e1ba9e44c47af75efe7b6
content_type: application/pdf
creator: dernst
date_created: 2022-05-24T08:30:40Z
date_updated: 2022-05-24T08:30:40Z
file_id: '11409'
file_name: 2014_CommMathPhysics_Giuliani.pdf
file_size: 334064
relation: main_file
success: 1
file_date_updated: 2022-05-24T08:30:40Z
has_accepted_license: '1'
intvolume: ' 331'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 333 - 350
publication: Communications in Mathematical Physics
publication_identifier:
eissn:
- 1432-0916
issn:
- 0010-3616
publication_status: published
publisher: Springer
publist_id: '5159'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Formation of stripes and slabs near the ferromagnetic transition
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 331
year: '2014'
...
---
_id: '1936'
abstract:
- lang: eng
text: 'The social intelligence hypothesis states that the need to cope with complexities
of social life has driven the evolution of advanced cognitive abilities. It is
usually invoked in the context of challenges arising from complex intragroup structures,
hierarchies, and alliances. However, a fundamental aspect of group living remains
largely unexplored as a driving force in cognitive evolution: the competition
between individuals searching for resources (producers) and conspecifics that
parasitize their findings (scroungers). In populations of social foragers, abilities
that enable scroungers to steal by outsmarting producers, and those allowing producers
to prevent theft by outsmarting scroungers, are likely to be beneficial and may
fuel a cognitive arms race. Using analytical theory and agent-based simulations,
we present a general model for such a race that is driven by the producer-scrounger
game and show that the race''s plausibility is dramatically affected by the nature
of the evolving abilities. If scrounging and scrounging avoidance rely on separate,
strategy-specific cognitive abilities, arms races are short-lived and have a limited
effect on cognition. However, general cognitive abilities that facilitate both
scrounging and scrounging avoidance undergo stable, long-lasting arms races. Thus,
ubiquitous foraging interactions may lead to the evolution of general cognitive
abilities in social animals, without the requirement of complex intragroup structures.'
author:
- first_name: Michal
full_name: Arbilly, Michal
last_name: Arbilly
- first_name: Daniel
full_name: Weissman, Daniel
id: 2D0CE020-F248-11E8-B48F-1D18A9856A87
last_name: Weissman
- first_name: Marcus
full_name: Feldman, Marcus
last_name: Feldman
- first_name: Uri
full_name: Grodzinski, Uri
last_name: Grodzinski
citation:
ama: Arbilly M, Weissman D, Feldman M, Grodzinski U. An arms race between producers
and scroungers can drive the evolution of social cognition. Behavioral Ecology.
2014;25(3):487-495. doi:10.1093/beheco/aru002
apa: Arbilly, M., Weissman, D., Feldman, M., & Grodzinski, U. (2014). An arms
race between producers and scroungers can drive the evolution of social cognition.
Behavioral Ecology. Oxford University Press. https://doi.org/10.1093/beheco/aru002
chicago: Arbilly, Michal, Daniel Weissman, Marcus Feldman, and Uri Grodzinski. “An
Arms Race between Producers and Scroungers Can Drive the Evolution of Social Cognition.”
Behavioral Ecology. Oxford University Press, 2014. https://doi.org/10.1093/beheco/aru002.
ieee: M. Arbilly, D. Weissman, M. Feldman, and U. Grodzinski, “An arms race between
producers and scroungers can drive the evolution of social cognition,” Behavioral
Ecology, vol. 25, no. 3. Oxford University Press, pp. 487–495, 2014.
ista: Arbilly M, Weissman D, Feldman M, Grodzinski U. 2014. An arms race between
producers and scroungers can drive the evolution of social cognition. Behavioral
Ecology. 25(3), 487–495.
mla: Arbilly, Michal, et al. “An Arms Race between Producers and Scroungers Can
Drive the Evolution of Social Cognition.” Behavioral Ecology, vol. 25,
no. 3, Oxford University Press, 2014, pp. 487–95, doi:10.1093/beheco/aru002.
short: M. Arbilly, D. Weissman, M. Feldman, U. Grodzinski, Behavioral Ecology 25
(2014) 487–495.
date_created: 2018-12-11T11:54:48Z
date_published: 2014-02-13T00:00:00Z
date_updated: 2021-01-12T06:54:11Z
day: '13'
department:
- _id: NiBa
doi: 10.1093/beheco/aru002
ec_funded: 1
intvolume: ' 25'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4014306/
month: '02'
oa: 1
oa_version: Submitted Version
page: 487 - 495
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Behavioral Ecology
publication_status: published
publisher: Oxford University Press
publist_id: '5157'
quality_controlled: '1'
scopus_import: 1
status: public
title: An arms race between producers and scroungers can drive the evolution of social
cognition
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2014'
...
---
_id: '1937'
abstract:
- lang: eng
text: We prove the edge universality of the beta ensembles for any β ≥ 1, provided
that the limiting spectrum is supported on a single interval, and the external
potential is C4 and regular. We also prove that the edge universality holds for
generalized Wigner matrices for all symmetry classes. Moreover, our results allow
us to extend bulk universality for beta ensembles from analytic potentials to
potentials in class C4.
author:
- first_name: Paul
full_name: Bourgade, Paul
last_name: Bourgade
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Horngtzer
full_name: Yau, Horngtzer
last_name: Yau
citation:
ama: Bourgade P, Erdös L, Yau H. Edge universality of beta ensembles. Communications
in Mathematical Physics. 2014;332(1):261-353. doi:10.1007/s00220-014-2120-z
apa: Bourgade, P., Erdös, L., & Yau, H. (2014). Edge universality of beta ensembles.
Communications in Mathematical Physics. Springer. https://doi.org/10.1007/s00220-014-2120-z
chicago: Bourgade, Paul, László Erdös, and Horngtzer Yau. “Edge Universality of
Beta Ensembles.” Communications in Mathematical Physics. Springer, 2014.
https://doi.org/10.1007/s00220-014-2120-z.
ieee: P. Bourgade, L. Erdös, and H. Yau, “Edge universality of beta ensembles,”
Communications in Mathematical Physics, vol. 332, no. 1. Springer, pp.
261–353, 2014.
ista: Bourgade P, Erdös L, Yau H. 2014. Edge universality of beta ensembles. Communications
in Mathematical Physics. 332(1), 261–353.
mla: Bourgade, Paul, et al. “Edge Universality of Beta Ensembles.” Communications
in Mathematical Physics, vol. 332, no. 1, Springer, 2014, pp. 261–353, doi:10.1007/s00220-014-2120-z.
short: P. Bourgade, L. Erdös, H. Yau, Communications in Mathematical Physics 332
(2014) 261–353.
date_created: 2018-12-11T11:54:48Z
date_published: 2014-11-01T00:00:00Z
date_updated: 2021-01-12T06:54:12Z
day: '01'
department:
- _id: LaEr
doi: 10.1007/s00220-014-2120-z
intvolume: ' 332'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1306.5728
month: '11'
oa: 1
oa_version: Submitted Version
page: 261 - 353
project:
- _id: 25BDE9A4-B435-11E9-9278-68D0E5697425
grant_number: SFB-TR3-TP10B
name: Glutamaterge synaptische Übertragung und Plastizität in hippocampalen Mikroschaltkreisen
publication: Communications in Mathematical Physics
publication_status: published
publisher: Springer
publist_id: '5158'
quality_controlled: '1'
scopus_import: 1
status: public
title: Edge universality of beta ensembles
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 332
year: '2014'
...
---
_id: '1979'
abstract:
- lang: eng
text: NADH-ubiquinone oxidoreductase (complex I) is the first and largest enzyme
in the respiratory chain of mitochondria and many bacteria. It couples the transfer
of two electrons between NADH and ubiquinone to the translocation of four protons
across the membrane. Complex I is an L-shaped assembly formed by the hydrophilic
(peripheral) arm, containing all the redox centres performing electron transfer
and the membrane arm, containing proton-translocating machinery. Mitochondrial
complex I consists of 44 subunits of about 1 MDa in total, whilst the prokaryotic
enzyme is simpler and generally consists of 14 conserved “core” subunits. Recently
we have determined the first atomic structure of the entire complex I, using the
enzyme from Thermus thermophilus (536 kDa, 16 subunits, 9 Fe-S clusters, 64 TM
helices). Structure suggests a unique coupling mechanism, with redox energy of
electron transfer driving proton translocation via long-range (up to ~200 Å) conformational
changes. It resembles a steam engine, with coupling elements (akin to coupling
rods) linking parts of this molecular machine.
author:
- first_name: Leonid A
full_name: Leonid Sazanov
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: Sazanov LA. The mechanism of coupling between electron transfer and proton
translocation in respiratory complex I. Journal of Bioenergetics and Biomembranes.
2014;46(4):247-253. doi:10.1007/s10863-014-9554-z
apa: Sazanov, L. A. (2014). The mechanism of coupling between electron transfer
and proton translocation in respiratory complex I. Journal of Bioenergetics
and Biomembranes. Springer. https://doi.org/10.1007/s10863-014-9554-z
chicago: Sazanov, Leonid A. “The Mechanism of Coupling between Electron Transfer
and Proton Translocation in Respiratory Complex I.” Journal of Bioenergetics
and Biomembranes. Springer, 2014. https://doi.org/10.1007/s10863-014-9554-z.
ieee: L. A. Sazanov, “The mechanism of coupling between electron transfer and proton
translocation in respiratory complex I,” Journal of Bioenergetics and Biomembranes,
vol. 46, no. 4. Springer, pp. 247–253, 2014.
ista: Sazanov LA. 2014. The mechanism of coupling between electron transfer and
proton translocation in respiratory complex I. Journal of Bioenergetics and Biomembranes.
46(4), 247–253.
mla: Sazanov, Leonid A. “The Mechanism of Coupling between Electron Transfer and
Proton Translocation in Respiratory Complex I.” Journal of Bioenergetics and
Biomembranes, vol. 46, no. 4, Springer, 2014, pp. 247–53, doi:10.1007/s10863-014-9554-z.
short: L.A. Sazanov, Journal of Bioenergetics and Biomembranes 46 (2014) 247–253.
date_created: 2018-12-11T11:55:01Z
date_published: 2014-08-01T00:00:00Z
date_updated: 2021-01-12T06:54:28Z
day: '01'
doi: 10.1007/s10863-014-9554-z
extern: 1
intvolume: ' 46'
issue: '4'
month: '08'
page: 247 - 253
publication: Journal of Bioenergetics and Biomembranes
publication_status: published
publisher: Springer
publist_id: '5104'
quality_controlled: 0
status: public
title: The mechanism of coupling between electron transfer and proton translocation
in respiratory complex I
type: journal_article
volume: 46
year: '2014'
...
---
_id: '1980'
abstract:
- lang: eng
text: Non-proton pumping type II NADH dehydrogenase (NDH-2) plays a central role
in the respiratory metabolism of bacteria, and in the mitochondria of fungi, plants
and protists. The lack of NDH-2 in mammalian mitochondria and its essentiality
in important bacterial pathogens suggests these enzymes may represent a potential
new drug target to combat microbial pathogens. Here, we report the first crystal
structure of a bacterial NDH-2 enzyme at 2.5Å resolution from Caldalkalibacillus
thermarum. The NDH-2 structure reveals a homodimeric organization that has a unique
dimer interface. NDH-2 is localized to the cytoplasmic membrane by two separated
C-terminal membrane-anchoring regions that are essential for membrane localization
and FAD binding, but not NDH-2 dimerization. Comparison of bacterial NDH-2 with
the yeast NADH dehydrogenase (Ndi1) structure revealed non-overlapping binding
sites for quinone and NADH in the bacterial enzyme. The bacterial NDH-2 structure
establishes a framework for the structure-based design of small-molecule inhibitors.
acknowledgement: Funded by Health Research Council of New Zealand Royal Society
of New Zealand University of Otago New Zealand Synchrotron Group
author:
- first_name: Adam
full_name: 'Heikal, Adam '
last_name: Heikal
- first_name: Yoshio
full_name: Nakatani, Yoshio
last_name: Nakatani
- first_name: Elyse
full_name: Dunn, Elyse A
last_name: Dunn
- first_name: Marion
full_name: Weimar, Marion R
last_name: Weimar
- first_name: Catherine
full_name: Day, Catherine
last_name: Day
- first_name: Edward
full_name: Baker, Edward N
last_name: Baker
- first_name: Shaun
full_name: Lott, Shaun J
last_name: Lott
- first_name: Leonid A
full_name: Leonid Sazanov
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Gregory
full_name: Cook, Gregory
last_name: Cook
citation:
ama: 'Heikal A, Nakatani Y, Dunn E, et al. Structure of the bacterial type II NADH
dehydrogenase: a monotopic membrane protein with an essential role in energy generation.
Molecular Microbiology. 2014;91(5):950-964. doi:10.1111/mmi.12507'
apa: 'Heikal, A., Nakatani, Y., Dunn, E., Weimar, M., Day, C., Baker, E., … Cook,
G. (2014). Structure of the bacterial type II NADH dehydrogenase: a monotopic
membrane protein with an essential role in energy generation. Molecular Microbiology.
Wiley-Blackwell. https://doi.org/10.1111/mmi.12507'
chicago: 'Heikal, Adam, Yoshio Nakatani, Elyse Dunn, Marion Weimar, Catherine Day,
Edward Baker, Shaun Lott, Leonid A Sazanov, and Gregory Cook. “Structure of the
Bacterial Type II NADH Dehydrogenase: A Monotopic Membrane Protein with an Essential
Role in Energy Generation.” Molecular Microbiology. Wiley-Blackwell, 2014.
https://doi.org/10.1111/mmi.12507.'
ieee: 'A. Heikal et al., “Structure of the bacterial type II NADH dehydrogenase:
a monotopic membrane protein with an essential role in energy generation,” Molecular
Microbiology, vol. 91, no. 5. Wiley-Blackwell, pp. 950–964, 2014.'
ista: 'Heikal A, Nakatani Y, Dunn E, Weimar M, Day C, Baker E, Lott S, Sazanov LA,
Cook G. 2014. Structure of the bacterial type II NADH dehydrogenase: a monotopic
membrane protein with an essential role in energy generation. Molecular Microbiology.
91(5), 950–964.'
mla: 'Heikal, Adam, et al. “Structure of the Bacterial Type II NADH Dehydrogenase:
A Monotopic Membrane Protein with an Essential Role in Energy Generation.” Molecular
Microbiology, vol. 91, no. 5, Wiley-Blackwell, 2014, pp. 950–64, doi:10.1111/mmi.12507.'
short: A. Heikal, Y. Nakatani, E. Dunn, M. Weimar, C. Day, E. Baker, S. Lott, L.A.
Sazanov, G. Cook, Molecular Microbiology 91 (2014) 950–964.
date_created: 2018-12-11T11:55:01Z
date_published: 2014-03-01T00:00:00Z
date_updated: 2021-01-12T06:54:29Z
day: '01'
doi: 10.1111/mmi.12507
extern: 1
intvolume: ' 91'
issue: '5'
month: '03'
page: 950 - 964
publication: Molecular Microbiology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5103'
quality_controlled: 0
status: public
title: 'Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane
protein with an essential role in energy generation'
type: journal_article
volume: 91
year: '2014'
...
---
_id: '1981'
abstract:
- lang: eng
text: Variation in mitochondrial DNA is often assumed to be neutral and is used
to construct the genealogical relationships among populations and species. However,
if extant variation is the result of episodes of positive selection, these genealogies
may be incorrect, although this information itself may provide biologically and
evolutionary meaningful information. In fact, positive Darwinian selection has
been detected in the mitochondrial-encoded subunits that comprise complex I from
diverse taxa with seemingly dissimilar bioenergetic life histories, but the functional
implications of the selected sites are unknown. Complex I produces roughly 40%
of the proton flux that is used to synthesize ATP from ADP, and a functional model
based on the high-resolution structure of complex I described a unique biomechanical
apparatus for proton translocation. We reported positive selection at sites in
this apparatus during the evolution of Pacific salmon, and it appeared this was
also the case in published reports from other taxa, but a comparison among studies
was difficult because different statistical tests were used to detect selection
and oftentimes, specific sites were not reported. Here we review the literature
of positive selection in mitochondrial genomes, the statistical tests used to
detect selection, and the structural and functional models that are currently
available to study the physiological implications of selection. We then search
for signatures of positive selection among the coding mitochondrial genomes of
237 species with a common set of tests and verify that the ND5 subunit of complex
I is a repeated target of positive Darwinian selection in diverse taxa. We propose
a novel hypothesis to explain the results based on their bioenergetic life histories
and provide a guide for laboratory and field studies to test this hypothesis.
acknowledgement: Funded by University of Alaska Center for Global Change Student
Research Cooperative Institute for Alaska Research and the Rasmuson Foundation
author:
- first_name: Michael
full_name: Garvin, Michael R
last_name: Garvin
- first_name: Joseph
full_name: Bielawski, Joseph P
last_name: Bielawski
- first_name: Leonid A
full_name: Leonid Sazanov
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Anthony
full_name: Gharrett, Anthony J
last_name: Gharrett
citation:
ama: Garvin M, Bielawski J, Sazanov LA, Gharrett A. Review and meta-analysis of
natural selection in mitochondrial complex I in metazoans. Journal of Zoological
Systematics and Evolutionary Research. 2014;53(1):1-17. doi:10.1111/jzs.12079
apa: Garvin, M., Bielawski, J., Sazanov, L. A., & Gharrett, A. (2014). Review
and meta-analysis of natural selection in mitochondrial complex I in metazoans.
Journal of Zoological Systematics and Evolutionary Research. Wiley-Blackwell.
https://doi.org/10.1111/jzs.12079
chicago: Garvin, Michael, Joseph Bielawski, Leonid A Sazanov, and Anthony Gharrett.
“Review and Meta-Analysis of Natural Selection in Mitochondrial Complex I in Metazoans.”
Journal of Zoological Systematics and Evolutionary Research. Wiley-Blackwell,
2014. https://doi.org/10.1111/jzs.12079.
ieee: M. Garvin, J. Bielawski, L. A. Sazanov, and A. Gharrett, “Review and meta-analysis
of natural selection in mitochondrial complex I in metazoans,” Journal of Zoological
Systematics and Evolutionary Research, vol. 53, no. 1. Wiley-Blackwell, pp.
1–17, 2014.
ista: Garvin M, Bielawski J, Sazanov LA, Gharrett A. 2014. Review and meta-analysis
of natural selection in mitochondrial complex I in metazoans. Journal of Zoological
Systematics and Evolutionary Research. 53(1), 1–17.
mla: Garvin, Michael, et al. “Review and Meta-Analysis of Natural Selection in Mitochondrial
Complex I in Metazoans.” Journal of Zoological Systematics and Evolutionary
Research, vol. 53, no. 1, Wiley-Blackwell, 2014, pp. 1–17, doi:10.1111/jzs.12079.
short: M. Garvin, J. Bielawski, L.A. Sazanov, A. Gharrett, Journal of Zoological
Systematics and Evolutionary Research 53 (2014) 1–17.
date_created: 2018-12-11T11:55:02Z
date_published: 2014-02-01T00:00:00Z
date_updated: 2019-04-26T07:22:06Z
day: '01'
doi: 10.1111/jzs.12079
extern: 1
intvolume: ' 53'
issue: '1'
month: '02'
page: 1 - 17
publication: Journal of Zoological Systematics and Evolutionary Research
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5102'
quality_controlled: 0
status: public
title: Review and meta-analysis of natural selection in mitochondrial complex I in
metazoans
type: review
volume: 53
year: '2014'
...
---
_id: '1989'
abstract:
- lang: eng
text: During animal cell division, the cleavage furrow is positioned by microtubules
that signal to the actin cortex at the cell midplane. We developed a cell-free
system to recapitulate cytokinesis signaling using cytoplasmic extract from Xenopus
eggs. Microtubules grew out as asters from artificial centrosomes and met to organize
antiparallel overlap zones. These zones blocked the interpenetration of neighboring
asters and recruited cytokinesis midzone proteins, including the chromosomal passenger
complex (CPC) and centralspindlin. The CPC was transported to overlap zones, which
required two motor proteins, Kif4A and a Kif20A paralog. Using supported lipid
bilayers to mimic the plasma membrane, we observed the recruitment of cleavage
furrow markers, including an active RhoA reporter, at microtubule overlaps. This
system opens further approaches to understanding the biophysics of cytokinesis
signaling.
acknowledgement: 'This work was supported by NIH grant GM39565 (T.J.M.); MBL fellowships
from the Evans Foundation, MBL Associates, and the Colwin Fund (T.J.M. and C.M.F.);
HFSP fellowship LT000466/2012-L (M.L.); and NIH grant GM103785 (M.W.). '
author:
- first_name: Phuong
full_name: Nguyen, Phuong A
last_name: Nguyen
- first_name: Aaron
full_name: Groen, Aaron C
last_name: Groen
- first_name: Martin
full_name: Martin Loose
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Keisuke
full_name: 'Ishihara, Keisuke '
last_name: Ishihara
- first_name: Martin
full_name: 'Wühr, Martin '
last_name: Wühr
- first_name: Christine
full_name: Field, Christine M
last_name: Field
- first_name: Timothy
full_name: Mitchison, Timothy J
last_name: Mitchison
citation:
ama: Nguyen P, Groen A, Loose M, et al. Spatial organization of cytokinesis signaling
reconstituted in a cell-free system. Science. 2014;346(6206):244-247. doi:10.1126/science.1256773
apa: Nguyen, P., Groen, A., Loose, M., Ishihara, K., Wühr, M., Field, C., &
Mitchison, T. (2014). Spatial organization of cytokinesis signaling reconstituted
in a cell-free system. Science. American Association for the Advancement
of Science. https://doi.org/10.1126/science.1256773
chicago: Nguyen, Phuong, Aaron Groen, Martin Loose, Keisuke Ishihara, Martin Wühr,
Christine Field, and Timothy Mitchison. “Spatial Organization of Cytokinesis Signaling
Reconstituted in a Cell-Free System.” Science. American Association for
the Advancement of Science, 2014. https://doi.org/10.1126/science.1256773.
ieee: P. Nguyen et al., “Spatial organization of cytokinesis signaling reconstituted
in a cell-free system,” Science, vol. 346, no. 6206. American Association
for the Advancement of Science, pp. 244–247, 2014.
ista: Nguyen P, Groen A, Loose M, Ishihara K, Wühr M, Field C, Mitchison T. 2014.
Spatial organization of cytokinesis signaling reconstituted in a cell-free system.
Science. 346(6206), 244–247.
mla: Nguyen, Phuong, et al. “Spatial Organization of Cytokinesis Signaling Reconstituted
in a Cell-Free System.” Science, vol. 346, no. 6206, American Association
for the Advancement of Science, 2014, pp. 244–47, doi:10.1126/science.1256773.
short: P. Nguyen, A. Groen, M. Loose, K. Ishihara, M. Wühr, C. Field, T. Mitchison,
Science 346 (2014) 244–247.
date_created: 2018-12-11T11:55:04Z
date_published: 2014-10-10T00:00:00Z
date_updated: 2021-01-12T06:54:32Z
day: '10'
doi: 10.1126/science.1256773
extern: 1
intvolume: ' 346'
issue: '6206'
month: '10'
page: 244 - 247
publication: Science
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '5093'
quality_controlled: 0
status: public
title: Spatial organization of cytokinesis signaling reconstituted in a cell-free
system
type: journal_article
volume: 346
year: '2014'
...
---
_id: '1990'
abstract:
- lang: eng
text: 'Bacterial cytokinesis is commonly initiated by the Z-ring, a cytoskeletal
structure that assembles at the site of division. Its primary component is FtsZ,
a tubulin superfamily GTPase, which is recruited to the membrane by the actin-related
protein FtsA. Both proteins are required for the formation of the Z-ring, but
if and how they influence each other''s assembly dynamics is not known. Here,
we reconstituted FtsA-dependent recruitment of FtsZ polymers to supported membranes,
where both proteins self-organize into complex patterns, such as fast-moving filament
bundles and chirally rotating rings. Using fluorescence microscopy and biochemical
perturbations, we found that these large-scale rearrangements of FtsZ emerge from
its polymerization dynamics and a dual, antagonistic role of FtsA: recruitment
of FtsZ filaments to the membrane and negative regulation of FtsZ organization.
Our findings provide a model for the initial steps of bacterial cell division
and illustrate how dynamic polymers can self-organize into large-scale structures.'
acknowledgement: M.L. is supported by fellowships from EMBO (ALTF 394-2011) and HFSP
(LT000466/2012). Cytoskeleton dynamics research in the T.J.M. group is supported
by NIH-GM39565.
author:
- first_name: Martin
full_name: Martin Loose
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Timothy
full_name: Mitchison, Timothy J
last_name: Mitchison
citation:
ama: Loose M, Mitchison T. The bacterial cell division proteins ftsA and ftsZ self-organize
into dynamic cytoskeletal patterns. Nature Cell Biology. 2014;16(1):38-46.
doi:10.1038/ncb2885
apa: Loose, M., & Mitchison, T. (2014). The bacterial cell division proteins
ftsA and ftsZ self-organize into dynamic cytoskeletal patterns. Nature Cell
Biology. Nature Publishing Group. https://doi.org/10.1038/ncb2885
chicago: Loose, Martin, and Timothy Mitchison. “The Bacterial Cell Division Proteins
FtsA and FtsZ Self-Organize into Dynamic Cytoskeletal Patterns.” Nature Cell
Biology. Nature Publishing Group, 2014. https://doi.org/10.1038/ncb2885.
ieee: M. Loose and T. Mitchison, “The bacterial cell division proteins ftsA and
ftsZ self-organize into dynamic cytoskeletal patterns,” Nature Cell Biology,
vol. 16, no. 1. Nature Publishing Group, pp. 38–46, 2014.
ista: Loose M, Mitchison T. 2014. The bacterial cell division proteins ftsA and
ftsZ self-organize into dynamic cytoskeletal patterns. Nature Cell Biology. 16(1),
38–46.
mla: Loose, Martin, and Timothy Mitchison. “The Bacterial Cell Division Proteins
FtsA and FtsZ Self-Organize into Dynamic Cytoskeletal Patterns.” Nature Cell
Biology, vol. 16, no. 1, Nature Publishing Group, 2014, pp. 38–46, doi:10.1038/ncb2885.
short: M. Loose, T. Mitchison, Nature Cell Biology 16 (2014) 38–46.
date_created: 2018-12-11T11:55:05Z
date_published: 2014-01-01T00:00:00Z
date_updated: 2021-01-12T06:54:33Z
day: '01'
doi: 10.1038/ncb2885
extern: 1
intvolume: ' 16'
issue: '1'
month: '01'
page: 38 - 46
publication: Nature Cell Biology
publication_status: published
publisher: Nature Publishing Group
publist_id: '5094'
quality_controlled: 0
status: public
title: The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic
cytoskeletal patterns
type: journal_article
volume: 16
year: '2014'
...
---
_id: '1994'
abstract:
- lang: eng
text: The emergence and radiation of multicellular land plants was driven by crucial
innovations to their body plans [1]. The directional transport of the phytohormone
auxin represents a key, plant-specific mechanism for polarization and patterning
in complex seed plants [2-5]. Here, we show that already in the early diverging
land plant lineage, as exemplified by the moss Physcomitrella patens, auxin transport
by PIN transporters is operational and diversified into ER-localized and plasma
membrane-localized PIN proteins. Gain-of-function and loss-of-function analyses
revealed that PIN-dependent intercellular auxin transport in Physcomitrella mediates
crucial developmental transitions in tip-growing filaments and waves of polarization
and differentiation in leaf-like structures. Plasma membrane PIN proteins localize
in a polar manner to the tips of moss filaments, revealing an unexpected relation
between polarization mechanisms in moss tip-growing cells and multicellular tissues
of seed plants. Our results trace the origins of polarization and auxin-mediated
patterning mechanisms and highlight the crucial role of polarized auxin transport
during the evolution of multicellular land plants.
author:
- first_name: Tom
full_name: Viaene, Tom
last_name: Viaene
- first_name: Katarina
full_name: Landberg, Katarina
last_name: Landberg
- first_name: Mattias
full_name: Thelander, Mattias
last_name: Thelander
- first_name: Eva
full_name: Medvecka, Eva
last_name: Medvecka
- first_name: Eric
full_name: Pederson, Eric
last_name: Pederson
- first_name: Elena
full_name: Feraru, Elena
last_name: Feraru
- first_name: Endymion
full_name: Cooper, Endymion
last_name: Cooper
- first_name: Mansour
full_name: Karimi, Mansour
last_name: Karimi
- first_name: Charles
full_name: Delwiche, Charles
last_name: Delwiche
- first_name: Karin
full_name: Ljung, Karin
last_name: Ljung
- first_name: Markus
full_name: Geisler, Markus
last_name: Geisler
- first_name: Eva
full_name: Sundberg, Eva
last_name: Sundberg
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Viaene T, Landberg K, Thelander M, et al. Directional auxin transport mechanisms
in early diverging land plants. Current Biology. 2014;24(23):2786-2791.
doi:10.1016/j.cub.2014.09.056
apa: Viaene, T., Landberg, K., Thelander, M., Medvecka, E., Pederson, E., Feraru,
E., … Friml, J. (2014). Directional auxin transport mechanisms in early diverging
land plants. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2014.09.056
chicago: Viaene, Tom, Katarina Landberg, Mattias Thelander, Eva Medvecka, Eric Pederson,
Elena Feraru, Endymion Cooper, et al. “Directional Auxin Transport Mechanisms
in Early Diverging Land Plants.” Current Biology. Cell Press, 2014. https://doi.org/10.1016/j.cub.2014.09.056.
ieee: T. Viaene et al., “Directional auxin transport mechanisms in early
diverging land plants,” Current Biology, vol. 24, no. 23. Cell Press, pp.
2786–2791, 2014.
ista: Viaene T, Landberg K, Thelander M, Medvecka E, Pederson E, Feraru E, Cooper
E, Karimi M, Delwiche C, Ljung K, Geisler M, Sundberg E, Friml J. 2014. Directional
auxin transport mechanisms in early diverging land plants. Current Biology. 24(23),
2786–2791.
mla: Viaene, Tom, et al. “Directional Auxin Transport Mechanisms in Early Diverging
Land Plants.” Current Biology, vol. 24, no. 23, Cell Press, 2014, pp. 2786–91,
doi:10.1016/j.cub.2014.09.056.
short: T. Viaene, K. Landberg, M. Thelander, E. Medvecka, E. Pederson, E. Feraru,
E. Cooper, M. Karimi, C. Delwiche, K. Ljung, M. Geisler, E. Sundberg, J. Friml,
Current Biology 24 (2014) 2786–2791.
date_created: 2018-12-11T11:55:06Z
date_published: 2014-12-01T00:00:00Z
date_updated: 2021-01-12T06:54:34Z
day: '01'
department:
- _id: JiFr
doi: 10.1016/j.cub.2014.09.056
ec_funded: 1
intvolume: ' 24'
issue: '23'
language:
- iso: eng
month: '12'
oa_version: None
page: 2786 - 2791
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: Current Biology
publication_status: published
publisher: Cell Press
publist_id: '5088'
quality_controlled: '1'
scopus_import: 1
status: public
title: Directional auxin transport mechanisms in early diverging land plants
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2014'
...
---
_id: '1995'
abstract:
- lang: eng
text: 'Optical transport represents a natural route towards fast communications,
and it is currently used in large scale data transfer. The progressive miniaturization
of devices for information processing calls for the microscopic tailoring of light
transport and confinement at length scales appropriate for upcoming technologies.
With this goal in mind, we present a theoretical analysis of a one-dimensional
Fabry-Perot interferometer built with two highly saturable nonlinear mirrors:
a pair of two-level systems. Our approach captures nonlinear and nonreciprocal
effects of light transport that were not reported previously. Remarkably, we show
that such an elementary device can operate as a microscopic integrated optical
rectifier.'
article_number: '243601'
author:
- first_name: Filippo
full_name: Fratini, Filippo
last_name: Fratini
- first_name: Eduardo
full_name: Mascarenhas, Eduardo
last_name: Mascarenhas
- first_name: Laleh
full_name: Safari, Laleh
id: 3C325E5E-F248-11E8-B48F-1D18A9856A87
last_name: Safari
- first_name: Jean
full_name: Poizat, Jean
last_name: Poizat
- first_name: Daniel
full_name: Valente, Daniel
last_name: Valente
- first_name: Alexia
full_name: Auffèves, Alexia
last_name: Auffèves
- first_name: Dario
full_name: Gerace, Dario
last_name: Gerace
- first_name: Marcelo
full_name: Santos, Marcelo
last_name: Santos
citation:
ama: 'Fratini F, Mascarenhas E, Safari L, et al. Fabry-Perot interferometer with
quantum mirrors: Nonlinear light transport and rectification. Physical Review
Letters. 2014;113(24). doi:10.1103/PhysRevLett.113.243601'
apa: 'Fratini, F., Mascarenhas, E., Safari, L., Poizat, J., Valente, D., Auffèves,
A., … Santos, M. (2014). Fabry-Perot interferometer with quantum mirrors: Nonlinear
light transport and rectification. Physical Review Letters. American Physical
Society. https://doi.org/10.1103/PhysRevLett.113.243601'
chicago: 'Fratini, Filippo, Eduardo Mascarenhas, Laleh Safari, Jean Poizat, Daniel
Valente, Alexia Auffèves, Dario Gerace, and Marcelo Santos. “Fabry-Perot Interferometer
with Quantum Mirrors: Nonlinear Light Transport and Rectification.” Physical
Review Letters. American Physical Society, 2014. https://doi.org/10.1103/PhysRevLett.113.243601.'
ieee: 'F. Fratini et al., “Fabry-Perot interferometer with quantum mirrors:
Nonlinear light transport and rectification,” Physical Review Letters,
vol. 113, no. 24. American Physical Society, 2014.'
ista: 'Fratini F, Mascarenhas E, Safari L, Poizat J, Valente D, Auffèves A, Gerace
D, Santos M. 2014. Fabry-Perot interferometer with quantum mirrors: Nonlinear
light transport and rectification. Physical Review Letters. 113(24), 243601.'
mla: 'Fratini, Filippo, et al. “Fabry-Perot Interferometer with Quantum Mirrors:
Nonlinear Light Transport and Rectification.” Physical Review Letters,
vol. 113, no. 24, 243601, American Physical Society, 2014, doi:10.1103/PhysRevLett.113.243601.'
short: F. Fratini, E. Mascarenhas, L. Safari, J. Poizat, D. Valente, A. Auffèves,
D. Gerace, M. Santos, Physical Review Letters 113 (2014).
date_created: 2018-12-11T11:55:06Z
date_published: 2014-12-08T00:00:00Z
date_updated: 2021-01-12T06:54:34Z
day: '08'
department:
- _id: MiLe
doi: 10.1103/PhysRevLett.113.243601
ec_funded: 1
intvolume: ' 113'
issue: '24'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1410.5972
month: '12'
oa: 1
oa_version: Submitted Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '5085'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport
and rectification'
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 113
year: '2014'
...
---
_id: '1996'
abstract:
- lang: eng
text: Auxin polar transport, local maxima, and gradients have become an importantmodel
system for studying self-organization. Auxin distribution is regulated by auxin-dependent
positive feedback loops that are not well-understood at the molecular level. Previously,
we showed the involvement of the RHO of Plants (ROP) effector INTERACTOR of CONSTITUTIVELY
active ROP 1 (ICR1) in regulation of auxin transport and that ICR1 levels are
posttranscriptionally repressed at the site of maximum auxin accumulation at the
root tip. Here, we show that bimodal regulation of ICR1 levels by auxin is essential
for regulating formation of auxin local maxima and gradients. ICR1 levels increase
concomitant with increase in auxin response in lateral root primordia, cotyledon
tips, and provascular tissues. However, in the embryo hypophysis and root meristem,
when auxin exceeds critical levels, ICR1 is rapidly destabilized by an SCF(TIR1/AFB)
[SKP, Cullin, F-box (transport inhibitor response 1/auxin signaling F-box protein)]-dependent
auxin signaling mechanism. Furthermore, ectopic expression of ICR1 in the embryo
hypophysis resulted in reduction of auxin accumulation and concomitant root growth
arrest. ICR1 disappeared during root regeneration and lateral root initiation
concomitantly with the formation of a local auxin maximum in response to external
auxin treatments and transiently after gravitropic stimulation. Destabilization
of ICR1 was impaired after inhibition of auxin transport and signaling, proteasome
function, and protein synthesis. A mathematical model based on these findings
shows that an in vivo-like auxin distribution, rootward auxin flux, and shootward
reflux can be simulated without assuming preexisting tissue polarity. Our experimental
results and mathematical modeling indicate that regulation of auxin distribution
is tightly associated with auxin-dependent ICR1 levels.
author:
- first_name: Ora
full_name: Hazak, Ora
last_name: Hazak
- first_name: Uri
full_name: Obolski, Uri
last_name: Obolski
- first_name: Tomas
full_name: Prat, Tomas
id: 3DA3BFEE-F248-11E8-B48F-1D18A9856A87
last_name: Prat
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Lilach
full_name: Hadany, Lilach
last_name: Hadany
- first_name: Shaul
full_name: Yalovsky, Shaul
last_name: Yalovsky
citation:
ama: Hazak O, Obolski U, Prat T, Friml J, Hadany L, Yalovsky S. Bimodal regulation
of ICR1 levels generates self-organizing auxin distribution. PNAS. 2014;111(50):E5471-E5479.
doi:10.1073/pnas.1413918111
apa: Hazak, O., Obolski, U., Prat, T., Friml, J., Hadany, L., & Yalovsky, S.
(2014). Bimodal regulation of ICR1 levels generates self-organizing auxin distribution.
PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1413918111
chicago: Hazak, Ora, Uri Obolski, Tomas Prat, Jiří Friml, Lilach Hadany, and Shaul
Yalovsky. “Bimodal Regulation of ICR1 Levels Generates Self-Organizing Auxin Distribution.”
PNAS. National Academy of Sciences, 2014. https://doi.org/10.1073/pnas.1413918111.
ieee: O. Hazak, U. Obolski, T. Prat, J. Friml, L. Hadany, and S. Yalovsky, “Bimodal
regulation of ICR1 levels generates self-organizing auxin distribution,” PNAS,
vol. 111, no. 50. National Academy of Sciences, pp. E5471–E5479, 2014.
ista: Hazak O, Obolski U, Prat T, Friml J, Hadany L, Yalovsky S. 2014. Bimodal regulation
of ICR1 levels generates self-organizing auxin distribution. PNAS. 111(50), E5471–E5479.
mla: Hazak, Ora, et al. “Bimodal Regulation of ICR1 Levels Generates Self-Organizing
Auxin Distribution.” PNAS, vol. 111, no. 50, National Academy of Sciences,
2014, pp. E5471–79, doi:10.1073/pnas.1413918111.
short: O. Hazak, U. Obolski, T. Prat, J. Friml, L. Hadany, S. Yalovsky, PNAS 111
(2014) E5471–E5479.
date_created: 2018-12-11T11:55:07Z
date_published: 2014-12-16T00:00:00Z
date_updated: 2021-01-12T06:54:35Z
day: '16'
department:
- _id: JiFr
doi: 10.1073/pnas.1413918111
intvolume: ' 111'
issue: '50'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4273421/
month: '12'
oa: 1
oa_version: Submitted Version
page: E5471 - E5479
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '5083'
quality_controlled: '1'
scopus_import: 1
status: public
title: Bimodal regulation of ICR1 levels generates self-organizing auxin distribution
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 111
year: '2014'
...
---
_id: '1998'
abstract:
- lang: eng
text: Immune systems are able to protect the body against secondary infection with
the same parasite. In insect colonies, this protection is not restricted to the
level of the individual organism, but also occurs at the societal level. Here,
we review recent evidence for and insights into the mechanisms underlying individual
and social immunisation in insects. We disentangle general immune-protective effects
from specific immune memory (priming), and examine immunisation in the context
of the lifetime of an individual and that of a colony, and of transgenerational
immunisation that benefits offspring. When appropriate, we discuss parallels with
disease defence strategies in human societies. We propose that recurrent parasitic
threats have shaped the evolution of both the individual immune systems and colony-level
social immunity in insects.
acknowledgement: "This work was funded by an ERC Starting Grant by the European Research
Council (to S.C.) and the ISTFELLOW program (Co-fund Marie Curie Actions of the
European Commission; to L.M.).\r\nWe thank Christopher D. Pull, Sophie A.O. Armitage,
Hinrich Schulenburg, Line V. Ugelvig, Matthias Konrad, Matthias Fürst, Miriam Stock,
Barbara Casillas-Perez and three anonymous referees for comments on the manuscript. "
author:
- first_name: Leila
full_name: El Masri, Leila
id: 349A6E66-F248-11E8-B48F-1D18A9856A87
last_name: El Masri
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: El Masri L, Cremer S. Individual and social immunisation in insects. Trends
in Immunology. 2014;35(10):471-482. doi:10.1016/j.it.2014.08.005
apa: El Masri, L., & Cremer, S. (2014). Individual and social immunisation in
insects. Trends in Immunology. Elsevier. https://doi.org/10.1016/j.it.2014.08.005
chicago: El Masri, Leila, and Sylvia Cremer. “Individual and Social Immunisation
in Insects.” Trends in Immunology. Elsevier, 2014. https://doi.org/10.1016/j.it.2014.08.005.
ieee: L. El Masri and S. Cremer, “Individual and social immunisation in insects,”
Trends in Immunology, vol. 35, no. 10. Elsevier, pp. 471–482, 2014.
ista: El Masri L, Cremer S. 2014. Individual and social immunisation in insects.
Trends in Immunology. 35(10), 471–482.
mla: El Masri, Leila, and Sylvia Cremer. “Individual and Social Immunisation in
Insects.” Trends in Immunology, vol. 35, no. 10, Elsevier, 2014, pp. 471–82,
doi:10.1016/j.it.2014.08.005.
short: L. El Masri, S. Cremer, Trends in Immunology 35 (2014) 471–482.
date_created: 2018-12-11T11:55:07Z
date_published: 2014-10-01T00:00:00Z
date_updated: 2021-01-12T06:54:35Z
day: '01'
department:
- _id: SyCr
doi: 10.1016/j.it.2014.08.005
intvolume: ' 35'
issue: '10'
language:
- iso: eng
month: '10'
oa_version: None
page: 471 - 482
publication: Trends in Immunology
publication_status: published
publisher: Elsevier
publist_id: '5081'
quality_controlled: '1'
scopus_import: 1
status: public
title: Individual and social immunisation in insects
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2014'
...
---
_id: '1999'
abstract:
- lang: eng
text: Selection for disease control is believed to have contributed to shape the
organisation of insect societies — leading to interaction patterns that mitigate
disease transmission risk within colonies, conferring them ‘organisational immunity’.
Recent studies combining epidemiological models with social network analysis have
identified general properties of interaction networks that may hinder propagation
of infection within groups. These can be prophylactic and/or induced upon pathogen
exposure. Here we review empirical evidence for these two types of organisational
immunity in social insects and describe the individual-level behaviours that underlie
it. We highlight areas requiring further investigation, and emphasise the need
for tighter links between theory and empirical research and between individual-level
and collective-level analyses.
author:
- first_name: Nathalie
full_name: Stroeymeyt, Nathalie
last_name: Stroeymeyt
- first_name: Barbara E
full_name: Casillas Perez, Barbara E
id: 351ED2AA-F248-11E8-B48F-1D18A9856A87
last_name: Casillas Perez
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: Stroeymeyt N, Casillas Perez BE, Cremer S. Organisational immunity in social
insects. Current Opinion in Insect Science. 2014;5(1):1-15. doi:10.1016/j.cois.2014.09.001
apa: Stroeymeyt, N., Casillas Perez, B. E., & Cremer, S. (2014). Organisational
immunity in social insects. Current Opinion in Insect Science. Elsevier.
https://doi.org/10.1016/j.cois.2014.09.001
chicago: Stroeymeyt, Nathalie, Barbara E Casillas Perez, and Sylvia Cremer. “Organisational
Immunity in Social Insects.” Current Opinion in Insect Science. Elsevier,
2014. https://doi.org/10.1016/j.cois.2014.09.001.
ieee: N. Stroeymeyt, B. E. Casillas Perez, and S. Cremer, “Organisational immunity
in social insects,” Current Opinion in Insect Science, vol. 5, no. 1. Elsevier,
pp. 1–15, 2014.
ista: Stroeymeyt N, Casillas Perez BE, Cremer S. 2014. Organisational immunity in
social insects. Current Opinion in Insect Science. 5(1), 1–15.
mla: Stroeymeyt, Nathalie, et al. “Organisational Immunity in Social Insects.” Current
Opinion in Insect Science, vol. 5, no. 1, Elsevier, 2014, pp. 1–15, doi:10.1016/j.cois.2014.09.001.
short: N. Stroeymeyt, B.E. Casillas Perez, S. Cremer, Current Opinion in Insect
Science 5 (2014) 1–15.
date_created: 2018-12-11T11:55:08Z
date_published: 2014-11-01T00:00:00Z
date_updated: 2024-03-25T23:30:04Z
day: '01'
department:
- _id: SyCr
doi: 10.1016/j.cois.2014.09.001
ec_funded: 1
intvolume: ' 5'
issue: '1'
language:
- iso: eng
month: '11'
oa_version: None
page: 1 - 15
project:
- _id: 25DC711C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '243071'
name: 'Social Vaccination in Ant Colonies: from Individual Mechanisms to Society
Effects'
publication: Current Opinion in Insect Science
publication_status: published
publisher: Elsevier
publist_id: '5080'
quality_controlled: '1'
related_material:
record:
- id: '6383'
relation: dissertation_contains
- id: '6435'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Organisational immunity in social insects
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2014'
...