---
_id: '9014'
abstract:
- lang: eng
text: In this Letter, we explore experimentally the phase behavior of a dense active
suspension of self-propelled colloids. In addition to a solidlike and gaslike
phase observed for high and low densities, a novel cluster phase is reported at
intermediate densities. This takes the form of a stationary assembly of dense
aggregates—resulting from a permanent dynamical merging and separation of active
colloids—whose average size grows with activity as a linear function of the self-propelling
velocity. While different possible scenarios can be considered to account for
these observations—such as a generic velocity weakening instability recently put
forward—we show that the experimental results are reproduced mathematically by
a chemotactic aggregation mechanism, originally introduced to account for bacterial
aggregation and accounting here for diffusiophoretic chemical interaction between
colloidal swimmers.
article_number: '268303'
article_processing_charge: No
article_type: letter_note
author:
- first_name: I.
full_name: Theurkauff, I.
last_name: Theurkauff
- first_name: C.
full_name: Cottin-Bizonne, C.
last_name: Cottin-Bizonne
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
- first_name: C.
full_name: Ybert, C.
last_name: Ybert
- first_name: L.
full_name: Bocquet, L.
last_name: Bocquet
citation:
ama: Theurkauff I, Cottin-Bizonne C, Palacci JA, Ybert C, Bocquet L. Dynamic clustering
in active colloidal suspensions with chemical signaling. Physical Review Letters.
2012;108(26). doi:10.1103/physrevlett.108.268303
apa: Theurkauff, I., Cottin-Bizonne, C., Palacci, J. A., Ybert, C., & Bocquet,
L. (2012). Dynamic clustering in active colloidal suspensions with chemical signaling.
Physical Review Letters. American Physical Society . https://doi.org/10.1103/physrevlett.108.268303
chicago: Theurkauff, I., C. Cottin-Bizonne, Jérémie A Palacci, C. Ybert, and L.
Bocquet. “Dynamic Clustering in Active Colloidal Suspensions with Chemical Signaling.”
Physical Review Letters. American Physical Society , 2012. https://doi.org/10.1103/physrevlett.108.268303.
ieee: I. Theurkauff, C. Cottin-Bizonne, J. A. Palacci, C. Ybert, and L. Bocquet,
“Dynamic clustering in active colloidal suspensions with chemical signaling,”
Physical Review Letters, vol. 108, no. 26. American Physical Society ,
2012.
ista: Theurkauff I, Cottin-Bizonne C, Palacci JA, Ybert C, Bocquet L. 2012. Dynamic
clustering in active colloidal suspensions with chemical signaling. Physical Review
Letters. 108(26), 268303.
mla: Theurkauff, I., et al. “Dynamic Clustering in Active Colloidal Suspensions
with Chemical Signaling.” Physical Review Letters, vol. 108, no. 26, 268303,
American Physical Society , 2012, doi:10.1103/physrevlett.108.268303.
short: I. Theurkauff, C. Cottin-Bizonne, J.A. Palacci, C. Ybert, L. Bocquet, Physical
Review Letters 108 (2012).
date_created: 2021-01-19T10:26:59Z
date_published: 2012-06-29T00:00:00Z
date_updated: 2023-02-23T13:46:45Z
day: '29'
doi: 10.1103/physrevlett.108.268303
extern: '1'
external_id:
arxiv:
- '1202.6264'
pmid:
- '23005020'
intvolume: ' 108'
issue: '26'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1202.6264
month: '06'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review Letters
publication_identifier:
eissn:
- '10797114'
issn:
- '00319007'
publication_status: published
publisher: 'American Physical Society '
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dynamic clustering in active colloidal suspensions with chemical signaling
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 108
year: '2012'
...
---
_id: '91'
abstract:
- lang: eng
text: 'We demonstrate how to appropriately estimate the zero-frequency (static)
hyperpolarizability of an organic molecule from its charge distribution, and we
explore applications of these estimates for identifying and evaluating new organic
nonlinear optical (NLO) materials. First, we calculate hyperpolarizabilities from
Hartree-Fock-derived charge distributions and find order-of-magnitude agreement
with experimental values. We show that these simple arithmetic calculations will
enable systematic searches for new organic NLO molecules. Second, we derive hyperpolarizabilities
from crystallographic data using a multipolar charge-density analysis and find
good agreement with empirical calculations. This demonstrates an experimental
determination of the full static hyperpolarizability tensor in a solid-state sample. '
acknowledgement: This work was supported by The Winston Churchill Foundation of the
United States (A.P.H., M.A.B.F., D.D.H.), The Royal Society via a University Research
Fellowship (J.M.C.), and the University of New Brunswick via The Vice-Chancellor’s
Research Chair (J.M.C.).
article_number: '033512'
author:
- first_name: Andrew P
full_name: Higginbotham, Andrew P
id: 4AD6785A-F248-11E8-B48F-1D18A9856A87
last_name: Higginbotham
orcid: 0000-0003-2607-2363
- first_name: Jacqueline
full_name: Cole, Jacqueline
last_name: Cole
- first_name: Martin
full_name: Blood Forsythe, Martin
last_name: Blood Forsythe
- first_name: Daniel
full_name: Hickstein, Daniel
last_name: Hickstein
citation:
ama: Higginbotham AP, Cole J, Blood Forsythe M, Hickstein D. Identifying and evaluating
organic nonlinear optical materials via molecular moments. Journal of Applied
Physics. 2012;111(3). doi:10.1063/1.3678593
apa: Higginbotham, A. P., Cole, J., Blood Forsythe, M., & Hickstein, D. (2012).
Identifying and evaluating organic nonlinear optical materials via molecular moments.
Journal of Applied Physics. American Institute of Physics. https://doi.org/10.1063/1.3678593
chicago: Higginbotham, Andrew P, Jacqueline Cole, Martin Blood Forsythe, and Daniel
Hickstein. “Identifying and Evaluating Organic Nonlinear Optical Materials via
Molecular Moments.” Journal of Applied Physics. American Institute of Physics,
2012. https://doi.org/10.1063/1.3678593.
ieee: A. P. Higginbotham, J. Cole, M. Blood Forsythe, and D. Hickstein, “Identifying
and evaluating organic nonlinear optical materials via molecular moments,” Journal
of Applied Physics, vol. 111, no. 3. American Institute of Physics, 2012.
ista: Higginbotham AP, Cole J, Blood Forsythe M, Hickstein D. 2012. Identifying
and evaluating organic nonlinear optical materials via molecular moments. Journal
of Applied Physics. 111(3), 033512.
mla: Higginbotham, Andrew P., et al. “Identifying and Evaluating Organic Nonlinear
Optical Materials via Molecular Moments.” Journal of Applied Physics, vol.
111, no. 3, 033512, American Institute of Physics, 2012, doi:10.1063/1.3678593.
short: A.P. Higginbotham, J. Cole, M. Blood Forsythe, D. Hickstein, Journal of Applied
Physics 111 (2012).
date_created: 2018-12-11T11:44:35Z
date_published: 2012-02-07T00:00:00Z
date_updated: 2021-01-12T08:21:50Z
day: '07'
doi: 10.1063/1.3678593
extern: '1'
intvolume: ' 111'
issue: '3'
language:
- iso: eng
month: '02'
oa_version: None
publication: Journal of Applied Physics
publication_status: published
publisher: American Institute of Physics
publist_id: '7963'
quality_controlled: '1'
status: public
title: Identifying and evaluating organic nonlinear optical materials via molecular
moments
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 111
year: '2012'
...
---
_id: '9142'
abstract:
- lang: eng
text: "In models of radiative–convective equilibrium it is known that convection
can spontaneously aggregate into one single localized moist region if the domain
is large enough. The large changes in the mean climate state and radiative fluxes
accompanying this self-aggregation raise questions as to what simulations at lower
resolutions with parameterized convection, in similar homogeneous geometries,
should be expected to produce to be considered successful in mimicking a cloud-resolving
model.\r\nThe authors investigate this self-aggregation in a nonrotating, three-dimensional
cloud-resolving model on a square domain without large-scale forcing. It is found
that self-aggregation is sensitive not only to the domain size, but also to the
horizontal resolution. With horizontally homogeneous initial conditions, convective
aggregation only occurs on domains larger than about 200km and with resolutions
coarser than about 2km in the model examined. The system exhibits hysteresis,
so that with aggregated initial conditions, convection remains aggregated even
at our finest resolution, 500m, as long as the domain is greater than 200–300km.\r\nThe
sensitivity of self-aggregation to resolution and domain size in this model is
due to the sensitivity of the distribution of low clouds to these two parameters.
Indeed, the mechanism responsible for the aggregation of convection is the dynamical
response to the longwave radiative cooling from low clouds. Strong longwave cooling
near cloud top in dry regions forces downward motion, which by continuity generates
inflow near cloud top and near-surface outflow from dry regions. This circulation
results in the net export of moist static energy from regions with low moist static
energy, yielding a positive feedback."
article_processing_charge: No
article_type: original
author:
- first_name: Caroline J
full_name: Muller, Caroline J
id: f978ccb0-3f7f-11eb-b193-b0e2bd13182b
last_name: Muller
orcid: 0000-0001-5836-5350
- first_name: Isaac M.
full_name: Held, Isaac M.
last_name: Held
citation:
ama: Muller CJ, Held IM. Detailed investigation of the self-aggregation of convection
in cloud-resolving simulations. Journal of the Atmospheric Sciences. 2012;69(8):2551-2565.
doi:10.1175/jas-d-11-0257.1
apa: Muller, C. J., & Held, I. M. (2012). Detailed investigation of the self-aggregation
of convection in cloud-resolving simulations. Journal of the Atmospheric Sciences.
American Meteorological Society. https://doi.org/10.1175/jas-d-11-0257.1
chicago: Muller, Caroline J, and Isaac M. Held. “Detailed Investigation of the Self-Aggregation
of Convection in Cloud-Resolving Simulations.” Journal of the Atmospheric Sciences.
American Meteorological Society, 2012. https://doi.org/10.1175/jas-d-11-0257.1.
ieee: C. J. Muller and I. M. Held, “Detailed investigation of the self-aggregation
of convection in cloud-resolving simulations,” Journal of the Atmospheric Sciences,
vol. 69, no. 8. American Meteorological Society, pp. 2551–2565, 2012.
ista: Muller CJ, Held IM. 2012. Detailed investigation of the self-aggregation of
convection in cloud-resolving simulations. Journal of the Atmospheric Sciences.
69(8), 2551–2565.
mla: Muller, Caroline J., and Isaac M. Held. “Detailed Investigation of the Self-Aggregation
of Convection in Cloud-Resolving Simulations.” Journal of the Atmospheric Sciences,
vol. 69, no. 8, American Meteorological Society, 2012, pp. 2551–65, doi:10.1175/jas-d-11-0257.1.
short: C.J. Muller, I.M. Held, Journal of the Atmospheric Sciences 69 (2012) 2551–2565.
date_created: 2021-02-15T14:39:03Z
date_published: 2012-08-01T00:00:00Z
date_updated: 2022-01-24T13:49:41Z
day: '01'
doi: 10.1175/jas-d-11-0257.1
extern: '1'
intvolume: ' 69'
issue: '8'
keyword:
- Atmospheric Science
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1175/JAS-D-11-0257.1
month: '08'
oa: 1
oa_version: Published Version
page: 2551-2565
publication: Journal of the Atmospheric Sciences
publication_identifier:
issn:
- 0022-4928
- 1520-0469
publication_status: published
publisher: American Meteorological Society
quality_controlled: '1'
status: public
title: Detailed investigation of the self-aggregation of convection in cloud-resolving
simulations
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 69
year: '2012'
...
---
_id: '9451'
abstract:
- lang: eng
text: The Arabidopsis thaliana central cell, the companion cell of the egg, undergoes
DNA demethylation before fertilization, but the targeting preferences, mechanism,
and biological significance of this process remain unclear. Here, we show that
active DNA demethylation mediated by the DEMETER DNA glycosylase accounts for
all of the demethylation in the central cell and preferentially targets small,
AT-rich, and nucleosome-depleted euchromatic transposable elements. The vegetative
cell, the companion cell of sperm, also undergoes DEMETER-dependent demethylation
of similar sequences, and lack of DEMETER in vegetative cells causes reduced small
RNA–directed DNA methylation of transposons in sperm. Our results demonstrate
that demethylation in companion cells reinforces transposon methylation in plant
gametes and likely contributes to stable silencing of transposable elements across
generations.
article_processing_charge: No
article_type: original
author:
- first_name: Christian A.
full_name: Ibarra, Christian A.
last_name: Ibarra
- first_name: Xiaoqi
full_name: Feng, Xiaoqi
last_name: Feng
- first_name: Vera K.
full_name: Schoft, Vera K.
last_name: Schoft
- first_name: Tzung-Fu
full_name: Hsieh, Tzung-Fu
last_name: Hsieh
- first_name: Rie
full_name: Uzawa, Rie
last_name: Uzawa
- first_name: Jessica A.
full_name: Rodrigues, Jessica A.
last_name: Rodrigues
- first_name: Assaf
full_name: Zemach, Assaf
last_name: Zemach
- first_name: Nina
full_name: Chumak, Nina
last_name: Chumak
- first_name: Adriana
full_name: Machlicova, Adriana
last_name: Machlicova
- first_name: Toshiro
full_name: Nishimura, Toshiro
last_name: Nishimura
- first_name: Denisse
full_name: Rojas, Denisse
last_name: Rojas
- first_name: Robert L.
full_name: Fischer, Robert L.
last_name: Fischer
- first_name: Hisashi
full_name: Tamaru, Hisashi
last_name: Tamaru
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
citation:
ama: Ibarra CA, Feng X, Schoft VK, et al. Active DNA demethylation in plant companion
cells reinforces transposon methylation in gametes. Science. 2012;337(6100):1360-1364.
doi:10.1126/science.1224839
apa: Ibarra, C. A., Feng, X., Schoft, V. K., Hsieh, T.-F., Uzawa, R., Rodrigues,
J. A., … Zilberman, D. (2012). Active DNA demethylation in plant companion cells
reinforces transposon methylation in gametes. Science. American Association
for the Advancement of Science. https://doi.org/10.1126/science.1224839
chicago: Ibarra, Christian A., Xiaoqi Feng, Vera K. Schoft, Tzung-Fu Hsieh, Rie
Uzawa, Jessica A. Rodrigues, Assaf Zemach, et al. “Active DNA Demethylation in
Plant Companion Cells Reinforces Transposon Methylation in Gametes.” Science.
American Association for the Advancement of Science, 2012. https://doi.org/10.1126/science.1224839.
ieee: C. A. Ibarra et al., “Active DNA demethylation in plant companion cells
reinforces transposon methylation in gametes,” Science, vol. 337, no. 6100.
American Association for the Advancement of Science, pp. 1360–1364, 2012.
ista: Ibarra CA, Feng X, Schoft VK, Hsieh T-F, Uzawa R, Rodrigues JA, Zemach A,
Chumak N, Machlicova A, Nishimura T, Rojas D, Fischer RL, Tamaru H, Zilberman
D. 2012. Active DNA demethylation in plant companion cells reinforces transposon
methylation in gametes. Science. 337(6100), 1360–1364.
mla: Ibarra, Christian A., et al. “Active DNA Demethylation in Plant Companion Cells
Reinforces Transposon Methylation in Gametes.” Science, vol. 337, no. 6100,
American Association for the Advancement of Science, 2012, pp. 1360–64, doi:10.1126/science.1224839.
short: C.A. Ibarra, X. Feng, V.K. Schoft, T.-F. Hsieh, R. Uzawa, J.A. Rodrigues,
A. Zemach, N. Chumak, A. Machlicova, T. Nishimura, D. Rojas, R.L. Fischer, H.
Tamaru, D. Zilberman, Science 337 (2012) 1360–1364.
date_created: 2021-06-04T07:51:31Z
date_published: 2012-09-14T00:00:00Z
date_updated: 2021-12-14T08:28:51Z
day: '14'
ddc:
- '580'
department:
- _id: DaZi
doi: 10.1126/science.1224839
extern: '1'
external_id:
pmid:
- '22984074'
has_accepted_license: '1'
intvolume: ' 337'
issue: '6100'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4034762/
month: '09'
oa: 1
oa_version: Published Version
page: 1360-1364
pmid: 1
publication: Science
publication_identifier:
eissn:
- 1095-9203
issn:
- 0036-8075
publication_status: published
publisher: American Association for the Advancement of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Active DNA demethylation in plant companion cells reinforces transposon methylation
in gametes
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 337
year: '2012'
...
---
_id: '9535'
abstract:
- lang: eng
text: The most well-studied function of DNA methylation in eukaryotic cells is the
transcriptional silencing of genes and transposons. More recent results showed
that many eukaryotes methylate the bodies of genes as well and that this methylation
correlates with transcriptional activity rather than repression. The purpose of
gene body methylation remains mysterious, but is potentially related to the histone
variant H2A.Z. Studies in plants and animals have shown that the genome-wide distributions
of H2A.Z and DNA methylation are strikingly anticorrelated. Furthermore, we and
other investigators have shown that this relationship is likely to be the result
of an ancient but unknown mechanism by which DNA methylation prevents the incorporation
of H2A.Z. Recently, we discovered strong correlations between the presence of
H2A.Z within gene bodies, the degree to which a gene's expression varies across
tissue types or environmental conditions, and transcriptional misregulation in
an h2a.z mutant. We propose that one basal function of gene body methylation is
the establishment of constitutive expression patterns within housekeeping genes
by excluding H2A.Z from their bodies.
article_processing_charge: No
article_type: review
author:
- first_name: D.
full_name: Coleman-Derr, D.
last_name: Coleman-Derr
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
citation:
ama: Coleman-Derr D, Zilberman D. DNA methylation, H2A.Z, and the regulation of
constitutive expression. Cold Spring Harbor Symposia on Quantitative Biology.
2012;77:147-154. doi:10.1101/sqb.2012.77.014944
apa: Coleman-Derr, D., & Zilberman, D. (2012). DNA methylation, H2A.Z, and the
regulation of constitutive expression. Cold Spring Harbor Symposia on Quantitative
Biology. Cold Spring Harbor Laboratory Press. https://doi.org/10.1101/sqb.2012.77.014944
chicago: Coleman-Derr, D., and Daniel Zilberman. “DNA Methylation, H2A.Z, and the
Regulation of Constitutive Expression.” Cold Spring Harbor Symposia on Quantitative
Biology. Cold Spring Harbor Laboratory Press, 2012. https://doi.org/10.1101/sqb.2012.77.014944.
ieee: D. Coleman-Derr and D. Zilberman, “DNA methylation, H2A.Z, and the regulation
of constitutive expression,” Cold Spring Harbor Symposia on Quantitative Biology,
vol. 77. Cold Spring Harbor Laboratory Press, pp. 147–154, 2012.
ista: Coleman-Derr D, Zilberman D. 2012. DNA methylation, H2A.Z, and the regulation
of constitutive expression. Cold Spring Harbor Symposia on Quantitative Biology.
77, 147–154.
mla: Coleman-Derr, D., and Daniel Zilberman. “DNA Methylation, H2A.Z, and the Regulation
of Constitutive Expression.” Cold Spring Harbor Symposia on Quantitative Biology,
vol. 77, Cold Spring Harbor Laboratory Press, 2012, pp. 147–54, doi:10.1101/sqb.2012.77.014944.
short: D. Coleman-Derr, D. Zilberman, Cold Spring Harbor Symposia on Quantitative
Biology 77 (2012) 147–154.
date_created: 2021-06-08T13:01:23Z
date_published: 2012-12-18T00:00:00Z
date_updated: 2021-12-14T08:33:09Z
day: '18'
department:
- _id: DaZi
doi: 10.1101/sqb.2012.77.014944
extern: '1'
external_id:
pmid:
- '23250988'
intvolume: ' 77'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/sqb.2012.77.014944
month: '12'
oa: 1
oa_version: Published Version
page: 147-154
pmid: 1
publication: Cold Spring Harbor Symposia on Quantitative Biology
publication_identifier:
eissn:
- 1943-4456
issn:
- 0091-7451
publication_status: published
publisher: Cold Spring Harbor Laboratory Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: DNA methylation, H2A.Z, and the regulation of constitutive expression
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 77
year: '2012'
...
---
_id: '3242'
abstract:
- lang: eng
text: Due to the omnipresent risk of epidemics, insect societies have evolved sophisticated
disease defences at the individual and colony level. An intriguing yet little
understood phenomenon is that social contact to pathogen-exposed individuals reduces
susceptibility of previously naive nestmates to this pathogen. We tested whether
such social immunisation in Lasius ants against the entomopathogenic fungus Metarhizium
anisopliae is based on active upregulation of the immune system of nestmates following
contact to an infectious individual or passive protection via transfer of immune
effectors among group members—that is, active versus passive immunisation. We
found no evidence for involvement of passive immunisation via transfer of antimicrobials
among colony members. Instead, intensive allogrooming behaviour between naive
and pathogen-exposed ants before fungal conidia firmly attached to their cuticle
suggested passage of the pathogen from the exposed individuals to their nestmates.
By tracing fluorescence-labelled conidia we indeed detected frequent pathogen
transfer to the nestmates, where they caused low-level infections as revealed
by growth of small numbers of fungal colony forming units from their dissected
body content. These infections rarely led to death, but instead promoted an enhanced
ability to inhibit fungal growth and an active upregulation of immune genes involved
in antifungal defences (defensin and prophenoloxidase, PPO). Contrarily, there
was no upregulation of the gene cathepsin L, which is associated with antibacterial
and antiviral defences, and we found no increased antibacterial activity of nestmates
of fungus-exposed ants. This indicates that social immunisation after fungal exposure
is specific, similar to recent findings for individual-level immune priming in
invertebrates. Epidemiological modeling further suggests that active social immunisation
is adaptive, as it leads to faster elimination of the disease and lower death
rates than passive immunisation. Interestingly, humans have also utilised the
protective effect of low-level infections to fight smallpox by intentional transfer
of low pathogen doses (“variolation” or “inoculation”).
acknowledgement: Funding for this project was obtained by the German Research Foundation
DFG (http://www.dfg.de/en/index.jsp) as an Individual Research Grant (CR118/2-1
to SC) and the European Research Council (http://erc.europa.eu/) in form of two
ERC Starting Grants (ERC-2009-StG240371-SocialVaccines to SC and ERC-2010-StG259294-LatentCauses
to FJT). In addition, the Junge Akademie (Young Academy of the Berlin-Brandenburg
Academy of Sciences and Humanities and the National Academy of Sciences Leopoldina
(http://www.diejungeakademie.de/english/index.html) funded this joint Antnet project
of SC and FJT. The funders had no role in study design, data collection and analysis,
decision to publish, or preparation of the manuscript.
article_number: e1001300
author:
- first_name: Matthias
full_name: Konrad, Matthias
id: 46528076-F248-11E8-B48F-1D18A9856A87
last_name: Konrad
- first_name: Meghan
full_name: Vyleta, Meghan
id: 418901AA-F248-11E8-B48F-1D18A9856A87
last_name: Vyleta
- first_name: Fabian
full_name: Theis, Fabian
last_name: Theis
- first_name: Miriam
full_name: Stock, Miriam
id: 42462816-F248-11E8-B48F-1D18A9856A87
last_name: Stock
- first_name: Simon
full_name: Tragust, Simon
id: 35A7A418-F248-11E8-B48F-1D18A9856A87
last_name: Tragust
- first_name: Martina
full_name: Klatt, Martina
id: E60F29C6-E9AE-11E9-AF6E-D190C7302F38
last_name: Klatt
- first_name: Verena
full_name: Drescher, Verena
last_name: Drescher
- first_name: Carsten
full_name: Marr, Carsten
last_name: Marr
- first_name: Line V
full_name: Ugelvig, Line V
id: 3DC97C8E-F248-11E8-B48F-1D18A9856A87
last_name: Ugelvig
orcid: 0000-0003-1832-8883
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: Konrad M, Vyleta M, Theis F, et al. Social transfer of pathogenic fungus promotes
active immunisation in ant colonies. PLoS Biology. 2012;10(4). doi:10.1371/journal.pbio.1001300
apa: Konrad, M., Vyleta, M., Theis, F., Stock, M., Tragust, S., Klatt, M., … Cremer,
S. (2012). Social transfer of pathogenic fungus promotes active immunisation in
ant colonies. PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.1001300
chicago: Konrad, Matthias, Meghan Vyleta, Fabian Theis, Miriam Stock, Simon Tragust,
Martina Klatt, Verena Drescher, Carsten Marr, Line V Ugelvig, and Sylvia Cremer.
“Social Transfer of Pathogenic Fungus Promotes Active Immunisation in Ant Colonies.”
PLoS Biology. Public Library of Science, 2012. https://doi.org/10.1371/journal.pbio.1001300.
ieee: M. Konrad et al., “Social transfer of pathogenic fungus promotes active
immunisation in ant colonies,” PLoS Biology, vol. 10, no. 4. Public Library
of Science, 2012.
ista: Konrad M, Vyleta M, Theis F, Stock M, Tragust S, Klatt M, Drescher V, Marr
C, Ugelvig LV, Cremer S. 2012. Social transfer of pathogenic fungus promotes active
immunisation in ant colonies. PLoS Biology. 10(4), e1001300.
mla: Konrad, Matthias, et al. “Social Transfer of Pathogenic Fungus Promotes Active
Immunisation in Ant Colonies.” PLoS Biology, vol. 10, no. 4, e1001300,
Public Library of Science, 2012, doi:10.1371/journal.pbio.1001300.
short: M. Konrad, M. Vyleta, F. Theis, M. Stock, S. Tragust, M. Klatt, V. Drescher,
C. Marr, L.V. Ugelvig, S. Cremer, PLoS Biology 10 (2012).
date_created: 2018-12-11T12:02:13Z
date_published: 2012-04-03T00:00:00Z
date_updated: 2023-02-23T14:07:11Z
day: '03'
ddc:
- '570'
- '579'
department:
- _id: SyCr
doi: 10.1371/journal.pbio.1001300
ec_funded: 1
file:
- access_level: open_access
checksum: 4ebacefd9fbab5c68adf829124115fd1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:28Z
date_updated: 2020-07-14T12:46:04Z
file_id: '4689'
file_name: IST-2012-96-v1+1_journal.pbio.1001300.pdf
file_size: 674228
relation: main_file
file_date_updated: 2020-07-14T12:46:04Z
has_accepted_license: '1'
intvolume: ' 10'
issue: '4'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '04'
oa: 1
oa_version: Published Version
project:
- _id: 25DAF0B2-B435-11E9-9278-68D0E5697425
grant_number: CR-118/3-1
name: Host-Parasite Coevolution
- _id: 25DC711C-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '243071'
name: 'Social Vaccination in Ant Colonies: from Individual Mechanisms to Society
Effects'
- _id: 25E0E184-B435-11E9-9278-68D0E5697425
name: Antnet
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '3434'
pubrep_id: '96'
quality_controlled: '1'
related_material:
record:
- id: '9755'
relation: research_data
status: public
scopus_import: 1
status: public
title: Social transfer of pathogenic fungus promotes active immunisation in ant colonies
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: 10
year: '2012'
...
---
_id: '9755'
abstract:
- lang: eng
text: Due to the omnipresent risk of epidemics, insect societies have evolved sophisticated
disease defences at the individual and colony level. An intriguing yet little
understood phenomenon is that social contact to pathogen-exposed individuals reduces
susceptibility of previously naive nestmates to this pathogen. We tested whether
such social immunisation in Lasius ants against the entomopathogenic fungus Metarhizium
anisopliae is based on active upregulation of the immune system of nestmates following
contact to an infectious individual or passive protection via transfer of immune
effectors among group members—that is, active versus passive immunisation. We
found no evidence for involvement of passive immunisation via transfer of antimicrobials
among colony members. Instead, intensive allogrooming behaviour between naive
and pathogen-exposed ants before fungal conidia firmly attached to their cuticle
suggested passage of the pathogen from the exposed individuals to their nestmates.
By tracing fluorescence-labelled conidia we indeed detected frequent pathogen
transfer to the nestmates, where they caused low-level infections as revealed
by growth of small numbers of fungal colony forming units from their dissected
body content. These infections rarely led to death, but instead promoted an enhanced
ability to inhibit fungal growth and an active upregulation of immune genes involved
in antifungal defences (defensin and prophenoloxidase, PPO). Contrarily, there
was no upregulation of the gene cathepsin L, which is associated with antibacterial
and antiviral defences, and we found no increased antibacterial activity of nestmates
of fungus-exposed ants. This indicates that social immunisation after fungal exposure
is specific, similar to recent findings for individual-level immune priming in
invertebrates. Epidemiological modeling further suggests that active social immunisation
is adaptive, as it leads to faster elimination of the disease and lower death
rates than passive immunisation. Interestingly, humans have also utilised the
protective effect of low-level infections to fight smallpox by intentional transfer
of low pathogen doses (“variolation” or “inoculation”).
article_processing_charge: No
author:
- first_name: Matthias
full_name: Konrad, Matthias
id: 46528076-F248-11E8-B48F-1D18A9856A87
last_name: Konrad
- first_name: Meghan
full_name: Vyleta, Meghan
id: 418901AA-F248-11E8-B48F-1D18A9856A87
last_name: Vyleta
- first_name: Fabian
full_name: Theis, Fabian
last_name: Theis
- first_name: Miriam
full_name: Stock, Miriam
id: 42462816-F248-11E8-B48F-1D18A9856A87
last_name: Stock
- first_name: Martina
full_name: Klatt, Martina
id: E60F29C6-E9AE-11E9-AF6E-D190C7302F38
last_name: Klatt
- first_name: Verena
full_name: Drescher, Verena
last_name: Drescher
- first_name: Carsten
full_name: Marr, Carsten
last_name: Marr
- first_name: Line V
full_name: Ugelvig, Line V
id: 3DC97C8E-F248-11E8-B48F-1D18A9856A87
last_name: Ugelvig
orcid: 0000-0003-1832-8883
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: 'Konrad M, Vyleta M, Theis F, et al. Data from: Social transfer of pathogenic
fungus promotes active immunisation in ant colonies. 2012. doi:10.5061/dryad.sv37s'
apa: 'Konrad, M., Vyleta, M., Theis, F., Stock, M., Klatt, M., Drescher, V., … Cremer,
S. (2012). Data from: Social transfer of pathogenic fungus promotes active immunisation
in ant colonies. Dryad. https://doi.org/10.5061/dryad.sv37s'
chicago: 'Konrad, Matthias, Meghan Vyleta, Fabian Theis, Miriam Stock, Martina Klatt,
Verena Drescher, Carsten Marr, Line V Ugelvig, and Sylvia Cremer. “Data from:
Social Transfer of Pathogenic Fungus Promotes Active Immunisation in Ant Colonies.”
Dryad, 2012. https://doi.org/10.5061/dryad.sv37s.'
ieee: 'M. Konrad et al., “Data from: Social transfer of pathogenic fungus
promotes active immunisation in ant colonies.” Dryad, 2012.'
ista: 'Konrad M, Vyleta M, Theis F, Stock M, Klatt M, Drescher V, Marr C, Ugelvig
LV, Cremer S. 2012. Data from: Social transfer of pathogenic fungus promotes active
immunisation in ant colonies, Dryad, 10.5061/dryad.sv37s.'
mla: 'Konrad, Matthias, et al. Data from: Social Transfer of Pathogenic Fungus
Promotes Active Immunisation in Ant Colonies. Dryad, 2012, doi:10.5061/dryad.sv37s.'
short: M. Konrad, M. Vyleta, F. Theis, M. Stock, M. Klatt, V. Drescher, C. Marr,
L.V. Ugelvig, S. Cremer, (2012).
date_created: 2021-07-30T08:39:13Z
date_published: 2012-09-27T00:00:00Z
date_updated: 2023-02-23T11:18:41Z
day: '27'
department:
- _id: SyCr
doi: 10.5061/dryad.sv37s
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.sv37s
month: '09'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '3242'
relation: used_in_publication
status: public
status: public
title: 'Data from: Social transfer of pathogenic fungus promotes active immunisation
in ant colonies'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2012'
...
---
_id: '9758'
abstract:
- lang: eng
text: 'We propose a two-step procedure for estimating multiple migration rates in
an approximate Bayesian computation (ABC) framework, accounting for global nuisance
parameters. The approach is not limited to migration, but generally of interest
for inference problems with multiple parameters and a modular structure (e.g.
independent sets of demes or loci). We condition on a known, but complex demographic
model of a spatially subdivided population, motivated by the reintroduction of
Alpine ibex (Capra ibex) into Switzerland. In the first step, the global parameters
ancestral mutation rate and male mating skew have been estimated for the whole
population in Aeschbacher et al. (Genetics 2012; 192: 1027). In the second step,
we estimate in this study the migration rates independently for clusters of demes
putatively connected by migration. For large clusters (many migration rates),
ABC faces the problem of too many summary statistics. We therefore assess by simulation
if estimation per pair of demes is a valid alternative. We find that the trade-off
between reduced dimensionality for the pairwise estimation on the one hand and
lower accuracy due to the assumption of pairwise independence on the other depends
on the number of migration rates to be inferred: the accuracy of the pairwise
approach increases with the number of parameters, relative to the joint estimation
approach. To distinguish between low and zero migration, we perform ABC-type model
comparison between a model with migration and one without. Applying the approach
to microsatellite data from Alpine ibex, we find no evidence for substantial gene
flow via migration, except for one pair of demes in one direction.'
article_processing_charge: No
author:
- first_name: Simon
full_name: Aeschbacher, Simon
id: 2D35326E-F248-11E8-B48F-1D18A9856A87
last_name: Aeschbacher
- first_name: Andreas
full_name: Futschik, Andreas
last_name: Futschik
- first_name: Mark
full_name: Beaumont, Mark
last_name: Beaumont
citation:
ama: 'Aeschbacher S, Futschik A, Beaumont M. Data from: Approximate Bayesian computation
for modular inference problems with many parameters: the example of migration
rates. 2012. doi:10.5061/dryad.274b1'
apa: 'Aeschbacher, S., Futschik, A., & Beaumont, M. (2012). Data from: Approximate
Bayesian computation for modular inference problems with many parameters: the
example of migration rates. Dryad. https://doi.org/10.5061/dryad.274b1'
chicago: 'Aeschbacher, Simon, Andreas Futschik, and Mark Beaumont. “Data from: Approximate
Bayesian Computation for Modular Inference Problems with Many Parameters: The
Example of Migration Rates.” Dryad, 2012. https://doi.org/10.5061/dryad.274b1.'
ieee: 'S. Aeschbacher, A. Futschik, and M. Beaumont, “Data from: Approximate Bayesian
computation for modular inference problems with many parameters: the example of
migration rates.” Dryad, 2012.'
ista: 'Aeschbacher S, Futschik A, Beaumont M. 2012. Data from: Approximate Bayesian
computation for modular inference problems with many parameters: the example of
migration rates, Dryad, 10.5061/dryad.274b1.'
mla: 'Aeschbacher, Simon, et al. Data from: Approximate Bayesian Computation
for Modular Inference Problems with Many Parameters: The Example of Migration
Rates. Dryad, 2012, doi:10.5061/dryad.274b1.'
short: S. Aeschbacher, A. Futschik, M. Beaumont, (2012).
date_created: 2021-07-30T12:36:39Z
date_published: 2012-11-14T00:00:00Z
date_updated: 2023-02-23T11:05:19Z
day: '14'
department:
- _id: NiBa
doi: 10.5061/dryad.274b1
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.274b1
month: '11'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '2944'
relation: used_in_publication
status: public
status: public
title: 'Data from: Approximate Bayesian computation for modular inference problems
with many parameters: the example of migration rates'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2012'
...
---
_id: '9757'
abstract:
- lang: eng
text: To fight infectious diseases, host immune defences are employed at multiple
levels. Sanitary behaviour, such as pathogen avoidance and removal, acts as a
first line of defence to prevent infection [1] before activation of the physiological
immune system. Insect societies have evolved a wide range of collective hygiene
measures and intensive health care towards pathogen-exposed group members [2].
One of the most common behaviours is allogrooming, in which nestmates remove infectious
particles from the body surfaces of exposed individuals [3]. Here we show that,
in invasive garden ants, grooming of fungus-exposed brood is effective beyond
the sheer mechanical removal of fungal conidiospores as it also includes chemical
disinfection through the application of poison produced by the ants themselves.
Formic acid is the main active component of the poison. It inhibits fungal growth
of conidiospores remaining on the brood surface after grooming and also those
collected in the mouth of the grooming ant. This dual function is achieved by
uptake of the poison droplet into the mouth through acidopore self-grooming and
subsequent application onto the infectious brood via brood grooming. This extraordinary
behaviour extends current understanding of grooming and the establishment of social
immunity in insect societies.
article_processing_charge: No
author:
- first_name: Simon
full_name: Tragust, Simon
id: 35A7A418-F248-11E8-B48F-1D18A9856A87
last_name: Tragust
- first_name: Barbara
full_name: Mitteregger, Barbara
id: 479DDAAC-E9CD-11E9-9B5F-82450873F7A1
last_name: Mitteregger
- first_name: Vanessa
full_name: Barone, Vanessa
id: 419EECCC-F248-11E8-B48F-1D18A9856A87
last_name: Barone
orcid: 0000-0003-2676-3367
- first_name: Matthias
full_name: Konrad, Matthias
id: 46528076-F248-11E8-B48F-1D18A9856A87
last_name: Konrad
- first_name: Line V
full_name: Ugelvig, Line V
id: 3DC97C8E-F248-11E8-B48F-1D18A9856A87
last_name: Ugelvig
orcid: 0000-0003-1832-8883
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: 'Tragust S, Mitteregger B, Barone V, Konrad M, Ugelvig LV, Cremer S. Data from:
Ants disinfect fungus-exposed brood by oral uptake and spread of their poison.
2012. doi:10.5061/dryad.61649'
apa: 'Tragust, S., Mitteregger, B., Barone, V., Konrad, M., Ugelvig, L. V., &
Cremer, S. (2012). Data from: Ants disinfect fungus-exposed brood by oral uptake
and spread of their poison. Dryad. https://doi.org/10.5061/dryad.61649'
chicago: 'Tragust, Simon, Barbara Mitteregger, Vanessa Barone, Matthias Konrad,
Line V Ugelvig, and Sylvia Cremer. “Data from: Ants Disinfect Fungus-Exposed Brood
by Oral Uptake and Spread of Their Poison.” Dryad, 2012. https://doi.org/10.5061/dryad.61649.'
ieee: 'S. Tragust, B. Mitteregger, V. Barone, M. Konrad, L. V. Ugelvig, and S. Cremer,
“Data from: Ants disinfect fungus-exposed brood by oral uptake and spread of their
poison.” Dryad, 2012.'
ista: 'Tragust S, Mitteregger B, Barone V, Konrad M, Ugelvig LV, Cremer S. 2012.
Data from: Ants disinfect fungus-exposed brood by oral uptake and spread of their
poison, Dryad, 10.5061/dryad.61649.'
mla: 'Tragust, Simon, et al. Data from: Ants Disinfect Fungus-Exposed Brood by
Oral Uptake and Spread of Their Poison. Dryad, 2012, doi:10.5061/dryad.61649.'
short: S. Tragust, B. Mitteregger, V. Barone, M. Konrad, L.V. Ugelvig, S. Cremer,
(2012).
date_created: 2021-07-30T12:31:31Z
date_published: 2012-12-14T00:00:00Z
date_updated: 2023-02-23T11:04:28Z
day: '14'
department:
- _id: SyCr
doi: 10.5061/dryad.61649
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.61649
month: '12'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '2926'
relation: used_in_publication
status: public
status: public
title: 'Data from: Ants disinfect fungus-exposed brood by oral uptake and spread of
their poison'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2012'
...
---
_id: '8504'
abstract:
- lang: eng
text: In this paper we present a surprising example of a Cr unimodal map of an interval
f:I→I whose number of periodic points Pn(f)=∣{x∈I:fnx=x}∣ grows faster than any
ahead given sequence along a subsequence nk=3k. This example also shows that ‘non-flatness’
of critical points is necessary for the Martens–de Melo–van Strien theorem [M.
Martens, W. de Melo and S. van Strien. Julia–Fatou–Sullivan theory for real one-dimensional
dynamics. Acta Math.168(3–4) (1992), 273–318] to hold.
article_processing_charge: No
article_type: original
author:
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
- first_name: O. S.
full_name: KOZLOVSKI, O. S.
last_name: KOZLOVSKI
citation:
ama: Kaloshin V, KOZLOVSKI OS. A Cr unimodal map with an arbitrary fast growth of
the number of periodic points. Ergodic Theory and Dynamical Systems. 2012;32(1):159-165.
doi:10.1017/s0143385710000817
apa: Kaloshin, V., & KOZLOVSKI, O. S. (2012). A Cr unimodal map with an arbitrary
fast growth of the number of periodic points. Ergodic Theory and Dynamical
Systems. Cambridge University Press. https://doi.org/10.1017/s0143385710000817
chicago: Kaloshin, Vadim, and O. S. KOZLOVSKI. “A Cr Unimodal Map with an Arbitrary
Fast Growth of the Number of Periodic Points.” Ergodic Theory and Dynamical
Systems. Cambridge University Press, 2012. https://doi.org/10.1017/s0143385710000817.
ieee: V. Kaloshin and O. S. KOZLOVSKI, “A Cr unimodal map with an arbitrary fast
growth of the number of periodic points,” Ergodic Theory and Dynamical Systems,
vol. 32, no. 1. Cambridge University Press, pp. 159–165, 2012.
ista: Kaloshin V, KOZLOVSKI OS. 2012. A Cr unimodal map with an arbitrary fast growth
of the number of periodic points. Ergodic Theory and Dynamical Systems. 32(1),
159–165.
mla: Kaloshin, Vadim, and O. S. KOZLOVSKI. “A Cr Unimodal Map with an Arbitrary
Fast Growth of the Number of Periodic Points.” Ergodic Theory and Dynamical
Systems, vol. 32, no. 1, Cambridge University Press, 2012, pp. 159–65, doi:10.1017/s0143385710000817.
short: V. Kaloshin, O.S. KOZLOVSKI, Ergodic Theory and Dynamical Systems 32 (2012)
159–165.
date_created: 2020-09-18T10:47:33Z
date_published: 2012-02-01T00:00:00Z
date_updated: 2021-01-12T08:19:44Z
day: '01'
doi: 10.1017/s0143385710000817
extern: '1'
intvolume: ' 32'
issue: '1'
keyword:
- Applied Mathematics
- General Mathematics
language:
- iso: eng
month: '02'
oa_version: None
page: 159-165
publication: Ergodic Theory and Dynamical Systems
publication_identifier:
issn:
- 0143-3857
- 1469-4417
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
status: public
title: A Cr unimodal map with an arbitrary fast growth of the number of periodic points
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 32
year: '2012'
...
---
_id: '8503'
abstract:
- lang: eng
text: We prove there are finitely many isometry classes of planar central configurations
(also called relative equilibria) in the Newtonian 5-body problem, except perhaps
if the 5-tuple of positive masses belongs to a given codimension 2 subvariety
of the mass space.
article_processing_charge: No
article_type: original
author:
- first_name: Alain
full_name: Albouy, Alain
last_name: Albouy
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
citation:
ama: Albouy A, Kaloshin V. Finiteness of central configurations of five bodies in
the plane. Annals of Mathematics. 2012;176(1):535-588. doi:10.4007/annals.2012.176.1.10
apa: Albouy, A., & Kaloshin, V. (2012). Finiteness of central configurations
of five bodies in the plane. Annals of Mathematics. Princeton University
Press. https://doi.org/10.4007/annals.2012.176.1.10
chicago: Albouy, Alain, and Vadim Kaloshin. “Finiteness of Central Configurations
of Five Bodies in the Plane.” Annals of Mathematics. Princeton University
Press, 2012. https://doi.org/10.4007/annals.2012.176.1.10.
ieee: A. Albouy and V. Kaloshin, “Finiteness of central configurations of five bodies
in the plane,” Annals of Mathematics, vol. 176, no. 1. Princeton University
Press, pp. 535–588, 2012.
ista: Albouy A, Kaloshin V. 2012. Finiteness of central configurations of five bodies
in the plane. Annals of Mathematics. 176(1), 535–588.
mla: Albouy, Alain, and Vadim Kaloshin. “Finiteness of Central Configurations of
Five Bodies in the Plane.” Annals of Mathematics, vol. 176, no. 1, Princeton
University Press, 2012, pp. 535–88, doi:10.4007/annals.2012.176.1.10.
short: A. Albouy, V. Kaloshin, Annals of Mathematics 176 (2012) 535–588.
date_created: 2020-09-18T10:47:24Z
date_published: 2012-07-01T00:00:00Z
date_updated: 2021-01-12T08:19:44Z
day: '01'
doi: 10.4007/annals.2012.176.1.10
extern: '1'
intvolume: ' 176'
issue: '1'
language:
- iso: eng
month: '07'
oa_version: None
page: 535-588
publication: Annals of Mathematics
publication_identifier:
issn:
- 0003-486X
publication_status: published
publisher: Princeton University Press
quality_controlled: '1'
status: public
title: Finiteness of central configurations of five bodies in the plane
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 176
year: '2012'
...
---
_id: '887'
abstract:
- lang: eng
text: A subject of extensive study in evolutionary theory has been the issue of
how neutral, redundant copies can be maintained in the genome for long periods
of time. Concurrently, examples of adaptive gene duplications to various environmental
conditions in different species have been described. At this point, it is too
early to tell whether or not a substantial fraction of gene copies have initially
achieved fixation by positive selection for increased dosage. Nevertheless, enough
examples have accumulated in the literature that such a possibility should be
considered. Here, I review the recent examples of adaptive gene duplications and
make an attempt to draw generalizations on what types of genes may be particularly
prone to be selected for under certain environmental conditions. The identification
of copy-number variation in ecological field studies of species adapting to stressful
or novel environmental conditions may improve our understanding of gene duplications
as a mechanism of adaptation and its relevance to the long-term persistence of
gene duplications.
acknowledgement: The work was supported by a Plan Nacional grant no. BFU2009-09271
from the Spanish Ministry of Science and Innovation. The author is a European Molecular
Biology Organization Young Investigator and Howard Hughes Medical Institute International
Early Career Scientist.
author:
- first_name: Fyodor
full_name: Fyodor Kondrashov
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
citation:
ama: Kondrashov F. Gene duplication as a mechanism of genomic adaptation to a changing
environment. Proceedings of the Royal Society of London Series B Biological
Sciences. 2012;279(1749):5048-5057. doi:10.1098/rspb.2012.1108
apa: Kondrashov, F. (2012). Gene duplication as a mechanism of genomic adaptation
to a changing environment. Proceedings of the Royal Society of London Series
B Biological Sciences. Royal Society, The. https://doi.org/10.1098/rspb.2012.1108
chicago: Kondrashov, Fyodor. “Gene Duplication as a Mechanism of Genomic Adaptation
to a Changing Environment.” Proceedings of the Royal Society of London Series
B Biological Sciences. Royal Society, The, 2012. https://doi.org/10.1098/rspb.2012.1108.
ieee: F. Kondrashov, “Gene duplication as a mechanism of genomic adaptation to a
changing environment,” Proceedings of the Royal Society of London Series B
Biological Sciences, vol. 279, no. 1749. Royal Society, The, pp. 5048–5057,
2012.
ista: Kondrashov F. 2012. Gene duplication as a mechanism of genomic adaptation
to a changing environment. Proceedings of the Royal Society of London Series B
Biological Sciences. 279(1749), 5048–5057.
mla: Kondrashov, Fyodor. “Gene Duplication as a Mechanism of Genomic Adaptation
to a Changing Environment.” Proceedings of the Royal Society of London Series
B Biological Sciences, vol. 279, no. 1749, Royal Society, The, 2012, pp. 5048–57,
doi:10.1098/rspb.2012.1108.
short: F. Kondrashov, Proceedings of the Royal Society of London Series B Biological
Sciences 279 (2012) 5048–5057.
date_created: 2018-12-11T11:49:01Z
date_published: 2012-01-01T00:00:00Z
date_updated: 2021-01-12T08:21:16Z
day: '01'
doi: 10.1098/rspb.2012.1108
extern: 1
intvolume: ' 279'
issue: '1749'
month: '01'
page: 5048 - 5057
publication: Proceedings of the Royal Society of London Series B Biological Sciences
publication_status: published
publisher: Royal Society, The
publist_id: '6765'
quality_controlled: 0
status: public
title: Gene duplication as a mechanism of genomic adaptation to a changing environment
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
volume: 279
year: '2012'
...
---
_id: '9049'
abstract:
- lang: eng
text: 'Diffusiophoretic motion of colloids and macromolecules under salt gradients
exhibits a logarithmic-sensing, i.e. the particle velocity is proportional to
the spatial gradient of the logarithm of the salt concentration, as VDP = DDP∇logc.
Here we explore experimentally the implications of this log-sensing behavior,
on the basis of a hydrogel microfluidic device allowing to build spatially and
temporally controlled gradients. We first demonstrate that the non-linearity of
the salt-taxis leads to a trapping of particles under concentration gradient oscillations
via a rectification of the motion. As an alternative, we make use of the high
sensitivity of diffusiophoretic migration to vanishing salt concentration due
to the log-sensing: in a counter-intuitive way, a vanishing gradient can lead
to measurable velocity provided that the solute concentration is low enough, thus
keeping ∇c/c finite. We show that this leads to a strong segregation of particles
in osmotic shock configuration, resulting from a step change of the salt concentration
at the boundaries. These various phenomena are rationalized on the basis of a
theoretical description for the time-dependent Smoluchowski equation for the colloidal
density.'
article_processing_charge: No
article_type: original
author:
- first_name: Jérémie A
full_name: Palacci, Jérémie A
id: 8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d
last_name: Palacci
orcid: 0000-0002-7253-9465
- first_name: Cécile
full_name: Cottin-Bizonne, Cécile
last_name: Cottin-Bizonne
- first_name: Christophe
full_name: Ybert, Christophe
last_name: Ybert
- first_name: Lydéric
full_name: Bocquet, Lydéric
last_name: Bocquet
citation:
ama: Palacci JA, Cottin-Bizonne C, Ybert C, Bocquet L. Osmotic traps for colloids
and macromolecules based on logarithmic sensing in salt taxis. Soft Matter.
2012;8(4):980-994. doi:10.1039/c1sm06395b
apa: Palacci, J. A., Cottin-Bizonne, C., Ybert, C., & Bocquet, L. (2012). Osmotic
traps for colloids and macromolecules based on logarithmic sensing in salt taxis.
Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c1sm06395b
chicago: Palacci, Jérémie A, Cécile Cottin-Bizonne, Christophe Ybert, and Lydéric
Bocquet. “Osmotic Traps for Colloids and Macromolecules Based on Logarithmic Sensing
in Salt Taxis.” Soft Matter. Royal Society of Chemistry, 2012. https://doi.org/10.1039/c1sm06395b.
ieee: J. A. Palacci, C. Cottin-Bizonne, C. Ybert, and L. Bocquet, “Osmotic traps
for colloids and macromolecules based on logarithmic sensing in salt taxis,” Soft
Matter, vol. 8, no. 4. Royal Society of Chemistry, pp. 980–994, 2012.
ista: Palacci JA, Cottin-Bizonne C, Ybert C, Bocquet L. 2012. Osmotic traps for
colloids and macromolecules based on logarithmic sensing in salt taxis. Soft Matter.
8(4), 980–994.
mla: Palacci, Jérémie A., et al. “Osmotic Traps for Colloids and Macromolecules
Based on Logarithmic Sensing in Salt Taxis.” Soft Matter, vol. 8, no. 4,
Royal Society of Chemistry, 2012, pp. 980–94, doi:10.1039/c1sm06395b.
short: J.A. Palacci, C. Cottin-Bizonne, C. Ybert, L. Bocquet, Soft Matter 8 (2012)
980–994.
date_created: 2021-02-01T13:43:10Z
date_published: 2012-01-28T00:00:00Z
date_updated: 2023-02-23T13:47:31Z
day: '28'
doi: 10.1039/c1sm06395b
extern: '1'
intvolume: ' 8'
issue: '4'
language:
- iso: eng
month: '01'
oa_version: None
page: 980-994
publication: Soft Matter
publication_identifier:
eissn:
- 1744-6848
issn:
- 1744-683X
publication_status: published
publisher: Royal Society of Chemistry
quality_controlled: '1'
scopus_import: '1'
status: public
title: Osmotic traps for colloids and macromolecules based on logarithmic sensing
in salt taxis
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 8
year: '2012'
...
---
_id: '922'
abstract:
- lang: eng
text: 'We study theoretically the morphologies of biological tubes affected by various
pathologies. When epithelial cells grow, the negative tension produced by their
division provokes a buckling instability. Several shapes are investigated: varicose,
dilated, sinuous, or sausagelike. They are all found in pathologies of tracheal,
renal tubes, or arteries. The final shape depends crucially on the mechanical
parameters of the tissues: Young''s modulus, wall-to-lumen ratio, homeostatic
pressure. We argue that since tissues must be in quasistatic mechanical equilibrium,
abnormal shapes convey information as to what causes the pathology. We calculate
a phase diagram of tubular instabilities which could be a helpful guide for investigating
the underlying genetic regulation.'
article_processing_charge: No
author:
- first_name: Edouard B
full_name: Hannezo, Edouard B
id: 3A9DB764-F248-11E8-B48F-1D18A9856A87
last_name: Hannezo
orcid: 0000-0001-6005-1561
- first_name: Jacques
full_name: Prost, Jacques
last_name: Prost
- first_name: Jean
full_name: Joanny, Jean
last_name: Joanny
citation:
ama: Hannezo EB, Prost J, Joanny J. Mechanical instabilities of biological tubes.
Physical Review Letters. 2012;109(1). doi:10.1103/PhysRevLett.109.018101
apa: Hannezo, E. B., Prost, J., & Joanny, J. (2012). Mechanical instabilities
of biological tubes. Physical Review Letters. American Physical Society.
https://doi.org/10.1103/PhysRevLett.109.018101
chicago: Hannezo, Edouard B, Jacques Prost, and Jean Joanny. “Mechanical Instabilities
of Biological Tubes.” Physical Review Letters. American Physical Society,
2012. https://doi.org/10.1103/PhysRevLett.109.018101.
ieee: E. B. Hannezo, J. Prost, and J. Joanny, “Mechanical instabilities of biological
tubes,” Physical Review Letters, vol. 109, no. 1. American Physical Society,
2012.
ista: Hannezo EB, Prost J, Joanny J. 2012. Mechanical instabilities of biological
tubes. Physical Review Letters. 109(1).
mla: Hannezo, Edouard B., et al. “Mechanical Instabilities of Biological Tubes.”
Physical Review Letters, vol. 109, no. 1, American Physical Society, 2012,
doi:10.1103/PhysRevLett.109.018101.
short: E.B. Hannezo, J. Prost, J. Joanny, Physical Review Letters 109 (2012).
date_created: 2018-12-11T11:49:13Z
date_published: 2012-07-03T00:00:00Z
date_updated: 2021-01-12T08:21:56Z
day: '03'
doi: 10.1103/PhysRevLett.109.018101
extern: '1'
external_id:
arxiv:
- '1207.1516'
intvolume: ' 109'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1207.1516
month: '07'
oa: 1
oa_version: Preprint
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '6519'
status: public
title: Mechanical instabilities of biological tubes
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2012'
...
---
_id: '9499'
abstract:
- lang: eng
text: EMBRYONIC FLOWER1 (EMF1) is a plant-specific gene crucial to Arabidopsis vegetative
development. Loss of function mutants in the EMF1 gene mimic the phenotype caused
by mutations in Polycomb Group protein (PcG) genes, which encode epigenetic repressors
that regulate many aspects of eukaryotic development. In Arabidopsis, Polycomb
Repressor Complex 2 (PRC2), made of PcG proteins, catalyzes trimethylation of
lysine 27 on histone H3 (H3K27me3) and PRC1-like proteins catalyze H2AK119 ubiquitination.
Despite functional similarity to PcG proteins, EMF1 lacks sequence homology with
known PcG proteins; thus, its role in the PcG mechanism is unclear. To study the
EMF1 functions and its mechanism of action, we performed genome-wide mapping of
EMF1 binding and H3K27me3 modification sites in Arabidopsis seedlings. The EMF1
binding pattern is similar to that of H3K27me3 modification on the chromosomal
and genic level. ChIPOTLe peak finding and clustering analyses both show that
the highly trimethylated genes also have high enrichment levels of EMF1 binding,
termed EMF1_K27 genes. EMF1 interacts with regulatory genes, which are silenced
to allow vegetative growth, and with genes specifying cell fates during growth
and differentiation. H3K27me3 marks not only these genes but also some genes that
are involved in endosperm development and maternal effects. Transcriptome analysis,
coupled with the H3K27me3 pattern, of EMF1_K27 genes in emf1 and PRC2 mutants
showed that EMF1 represses gene activities via diverse mechanisms and plays a
novel role in the PcG mechanism.
article_number: e1002512
article_processing_charge: No
article_type: original
author:
- first_name: Sang Yeol
full_name: Kim, Sang Yeol
last_name: Kim
- first_name: Jungeun
full_name: Lee, Jungeun
last_name: Lee
- first_name: Leor
full_name: Eshed-Williams, Leor
last_name: Eshed-Williams
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
- first_name: Z. Renee
full_name: Sung, Z. Renee
last_name: Sung
citation:
ama: Kim SY, Lee J, Eshed-Williams L, Zilberman D, Sung ZR. EMF1 and PRC2 cooperate
to repress key regulators of Arabidopsis development. PLoS Genetics. 2012;8(3).
doi:10.1371/journal.pgen.1002512
apa: Kim, S. Y., Lee, J., Eshed-Williams, L., Zilberman, D., & Sung, Z. R. (2012).
EMF1 and PRC2 cooperate to repress key regulators of Arabidopsis development.
PLoS Genetics. Public Library of Science. https://doi.org/10.1371/journal.pgen.1002512
chicago: Kim, Sang Yeol, Jungeun Lee, Leor Eshed-Williams, Daniel Zilberman, and
Z. Renee Sung. “EMF1 and PRC2 Cooperate to Repress Key Regulators of Arabidopsis
Development.” PLoS Genetics. Public Library of Science, 2012. https://doi.org/10.1371/journal.pgen.1002512.
ieee: S. Y. Kim, J. Lee, L. Eshed-Williams, D. Zilberman, and Z. R. Sung, “EMF1
and PRC2 cooperate to repress key regulators of Arabidopsis development,” PLoS
Genetics, vol. 8, no. 3. Public Library of Science, 2012.
ista: Kim SY, Lee J, Eshed-Williams L, Zilberman D, Sung ZR. 2012. EMF1 and PRC2
cooperate to repress key regulators of Arabidopsis development. PLoS Genetics.
8(3), e1002512.
mla: Kim, Sang Yeol, et al. “EMF1 and PRC2 Cooperate to Repress Key Regulators of
Arabidopsis Development.” PLoS Genetics, vol. 8, no. 3, e1002512, Public
Library of Science, 2012, doi:10.1371/journal.pgen.1002512.
short: S.Y. Kim, J. Lee, L. Eshed-Williams, D. Zilberman, Z.R. Sung, PLoS Genetics
8 (2012).
date_created: 2021-06-07T11:07:56Z
date_published: 2012-03-22T00:00:00Z
date_updated: 2021-12-14T08:31:14Z
day: '22'
department:
- _id: DaZi
doi: 10.1371/journal.pgen.1002512
extern: '1'
external_id:
pmid:
- '22457632'
intvolume: ' 8'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1371/journal.pgen.1002512
month: '03'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS Genetics
publication_identifier:
eissn:
- 1553-7404
issn:
- 1553-7390
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: EMF1 and PRC2 cooperate to repress key regulators of Arabidopsis development
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 8
year: '2012'
...
---
_id: '9497'
abstract:
- lang: eng
text: The regulation of eukaryotic chromatin relies on interactions between many
epigenetic factors, including histone modifications, DNA methylation, and the
incorporation of histone variants. H2A.Z, one of the most conserved but enigmatic
histone variants that is enriched at the transcriptional start sites of genes,
has been implicated in a variety of chromosomal processes. Recently, we reported
a genome-wide anticorrelation between H2A.Z and DNA methylation, an epigenetic
hallmark of heterochromatin that has also been found in the bodies of active genes
in plants and animals. Here, we investigate the basis of this anticorrelation
using a novel h2a.z loss-of-function line in Arabidopsis thaliana. Through genome-wide
bisulfite sequencing, we demonstrate that loss of H2A.Z in Arabidopsis has only
a minor effect on the level or profile of DNA methylation in genes, and we propose
that the global anticorrelation between DNA methylation and H2A.Z is primarily
caused by the exclusion of H2A.Z from methylated DNA. RNA sequencing and genomic
mapping of H2A.Z show that H2A.Z enrichment across gene bodies, rather than at
the TSS, is correlated with lower transcription levels and higher measures of
gene responsiveness. Loss of H2A.Z causes misregulation of many genes that are
disproportionately associated with response to environmental and developmental
stimuli. We propose that H2A.Z deposition in gene bodies promotes variability
in levels and patterns of gene expression, and that a major function of genic
DNA methylation is to exclude H2A.Z from constitutively expressed genes.
article_number: e1002988
article_processing_charge: No
article_type: original
author:
- first_name: Devin
full_name: Coleman-Derr, Devin
last_name: Coleman-Derr
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
citation:
ama: Coleman-Derr D, Zilberman D. Deposition of histone variant H2A.Z within gene
bodies regulates responsive genes. PLoS Genetics. 2012;8(10). doi:10.1371/journal.pgen.1002988
apa: Coleman-Derr, D., & Zilberman, D. (2012). Deposition of histone variant
H2A.Z within gene bodies regulates responsive genes. PLoS Genetics. Public
Library of Science. https://doi.org/10.1371/journal.pgen.1002988
chicago: Coleman-Derr, Devin, and Daniel Zilberman. “Deposition of Histone Variant
H2A.Z within Gene Bodies Regulates Responsive Genes.” PLoS Genetics. Public
Library of Science, 2012. https://doi.org/10.1371/journal.pgen.1002988.
ieee: D. Coleman-Derr and D. Zilberman, “Deposition of histone variant H2A.Z within
gene bodies regulates responsive genes,” PLoS Genetics, vol. 8, no. 10.
Public Library of Science, 2012.
ista: Coleman-Derr D, Zilberman D. 2012. Deposition of histone variant H2A.Z within
gene bodies regulates responsive genes. PLoS Genetics. 8(10), e1002988.
mla: Coleman-Derr, Devin, and Daniel Zilberman. “Deposition of Histone Variant H2A.Z
within Gene Bodies Regulates Responsive Genes.” PLoS Genetics, vol. 8,
no. 10, e1002988, Public Library of Science, 2012, doi:10.1371/journal.pgen.1002988.
short: D. Coleman-Derr, D. Zilberman, PLoS Genetics 8 (2012).
date_created: 2021-06-07T10:55:27Z
date_published: 2012-10-11T00:00:00Z
date_updated: 2021-12-14T08:29:57Z
day: '11'
department:
- _id: DaZi
doi: 10.1371/journal.pgen.1002988
extern: '1'
external_id:
pmid:
- '23071449'
intvolume: ' 8'
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1371/journal.pgen.1002988
month: '10'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS Genetics
publication_identifier:
eissn:
- 1553-7404
issn:
- 1553-7390
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
scopus_import: '1'
status: public
title: Deposition of histone variant H2A.Z within gene bodies regulates responsive
genes
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 8
year: '2012'
...
---
_id: '9528'
abstract:
- lang: eng
text: Accumulating evidence points toward diverse functions for plant chromatin.
Remarkable progress has been made over the last few years in elucidating the mechanisms
for a number of these functions. Activity of the histone demethylase IBM1 accurately
targets DNA methylation to silent repeats and transposable elements, not to genes.
A genetic screen uncovered the surprising role of H2A.Z-containing nucleosomes
in sensing precise differences in ambient temperature and consequent gene regulation.
Precise maintenance of chromosome number is assured by a histone modification
that suppresses inappropriate DNA replication and by centromeric histone H3 regulation
of chromosome segregation. Histones and noncoding RNAs regulate FLOWERING LOCUS
C, the expression of which quantitatively measures the duration of cold exposure,
functioning as memory of winter. These findings are a testament to the power of
using plants to research chromatin organization, and demonstrate examples of how
chromatin functions to achieve biological accuracy, precision, and memory.
article_processing_charge: No
article_type: review
author:
- first_name: Jason T.
full_name: Huff, Jason T.
last_name: Huff
- first_name: Daniel
full_name: Zilberman, Daniel
id: 6973db13-dd5f-11ea-814e-b3e5455e9ed1
last_name: Zilberman
orcid: 0000-0002-0123-8649
citation:
ama: Huff JT, Zilberman D. Regulation of biological accuracy, precision, and memory
by plant chromatin organization. Current Opinion in Genetics and Development.
2012;22(2):132-138. doi:10.1016/j.gde.2012.01.007
apa: Huff, J. T., & Zilberman, D. (2012). Regulation of biological accuracy,
precision, and memory by plant chromatin organization. Current Opinion in Genetics
and Development. Elsevier. https://doi.org/10.1016/j.gde.2012.01.007
chicago: Huff, Jason T., and Daniel Zilberman. “Regulation of Biological Accuracy,
Precision, and Memory by Plant Chromatin Organization.” Current Opinion in
Genetics and Development. Elsevier, 2012. https://doi.org/10.1016/j.gde.2012.01.007.
ieee: J. T. Huff and D. Zilberman, “Regulation of biological accuracy, precision,
and memory by plant chromatin organization,” Current Opinion in Genetics and
Development, vol. 22, no. 2. Elsevier, pp. 132–138, 2012.
ista: Huff JT, Zilberman D. 2012. Regulation of biological accuracy, precision,
and memory by plant chromatin organization. Current Opinion in Genetics and Development.
22(2), 132–138.
mla: Huff, Jason T., and Daniel Zilberman. “Regulation of Biological Accuracy, Precision,
and Memory by Plant Chromatin Organization.” Current Opinion in Genetics and
Development, vol. 22, no. 2, Elsevier, 2012, pp. 132–38, doi:10.1016/j.gde.2012.01.007.
short: J.T. Huff, D. Zilberman, Current Opinion in Genetics and Development 22 (2012)
132–138.
date_created: 2021-06-08T08:58:52Z
date_published: 2012-04-01T00:00:00Z
date_updated: 2021-12-14T08:32:38Z
department:
- _id: DaZi
doi: 10.1016/j.gde.2012.01.007
extern: '1'
external_id:
pmid:
- '22336527'
intvolume: ' 22'
issue: '2'
language:
- iso: eng
month: '04'
oa_version: None
page: 132-138
pmid: 1
publication: Current Opinion in Genetics and Development
publication_identifier:
issn:
- 0959-437X
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Regulation of biological accuracy, precision, and memory by plant chromatin
organization
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 22
year: '2012'
...
---
_id: '966'
abstract:
- lang: eng
text: Motivated by recent experiments on Ba3NiSb2O 9, we investigate possible quantum
spin liquid ground states for spin S=1 Heisenberg models on the triangular lattice.
We use variational Monte Carlo techniques to calculate the energies of microscopic
spin liquid wave functions where spin is represented by three flavors of fermionic
spinon operators. These energies are compared with the energies of various competing
three-sublattice ordered states. Our approach shows that the antiferromagnetic
Heisenberg model with biquadratic term and single-ion anisotropy does not have
a low-temperature spin liquid phase. However, for an SU(3)-invariant model with
sufficiently strong ring-exchange terms, we find a paired chiral quantum spin
liquid with a Fermi surface of deconfined spinons that is stable against all types
of ordering patterns we considered. We discuss the physics of this exotic spin
liquid state in relation to the recent experiment and suggest new ways to test
this scenario.
acknowledgement: We thank Kuang-Ting Chen, Rebecca Flint, Dmitri Ivanov, Z.-X. Liu,
Tai-Kai Ng, Lara Thompson, Tamás Tóth, and Fa Wang for helpful discussions. T.S.
is supported by NSF DMR 1005434. P.A.L. is supported by NSF DMR 1104498. S.B. acknowledges
support from the Swiss National Science Foundation (SNSF).
author:
- first_name: Samuel
full_name: Bieri, Samuel
last_name: Bieri
- first_name: Maksym
full_name: Maksym Serbyn
id: 47809E7E-F248-11E8-B48F-1D18A9856A87
last_name: Serbyn
orcid: 0000-0002-2399-5827
- first_name: Todadri
full_name: Senthil, Todadri S
last_name: Senthil
- first_name: Patrick
full_name: Lee, Patrick
last_name: Lee
citation:
ama: Bieri S, Serbyn M, Senthil T, Lee P. Paired chiral spin liquid with a Fermi
surface in S=1 model on the triangular lattice. Physical Review B - Condensed
Matter and Materials Physics. 2012;86(22). doi:10.1103/PhysRevB.86.224409
apa: Bieri, S., Serbyn, M., Senthil, T., & Lee, P. (2012). Paired chiral spin
liquid with a Fermi surface in S=1 model on the triangular lattice. Physical
Review B - Condensed Matter and Materials Physics. American Physical Society.
https://doi.org/10.1103/PhysRevB.86.224409
chicago: Bieri, Samuel, Maksym Serbyn, Todadri Senthil, and Patrick Lee. “Paired
Chiral Spin Liquid with a Fermi Surface in S=1 Model on the Triangular Lattice.”
Physical Review B - Condensed Matter and Materials Physics. American Physical
Society, 2012. https://doi.org/10.1103/PhysRevB.86.224409.
ieee: S. Bieri, M. Serbyn, T. Senthil, and P. Lee, “Paired chiral spin liquid with
a Fermi surface in S=1 model on the triangular lattice,” Physical Review B
- Condensed Matter and Materials Physics, vol. 86, no. 22. American Physical
Society, 2012.
ista: Bieri S, Serbyn M, Senthil T, Lee P. 2012. Paired chiral spin liquid with
a Fermi surface in S=1 model on the triangular lattice. Physical Review B - Condensed
Matter and Materials Physics. 86(22).
mla: Bieri, Samuel, et al. “Paired Chiral Spin Liquid with a Fermi Surface in S=1
Model on the Triangular Lattice.” Physical Review B - Condensed Matter and
Materials Physics, vol. 86, no. 22, American Physical Society, 2012, doi:10.1103/PhysRevB.86.224409.
short: S. Bieri, M. Serbyn, T. Senthil, P. Lee, Physical Review B - Condensed Matter
and Materials Physics 86 (2012).
date_created: 2018-12-11T11:49:27Z
date_published: 2012-12-13T00:00:00Z
date_updated: 2021-01-12T08:22:18Z
day: '13'
doi: 10.1103/PhysRevB.86.224409
extern: 1
intvolume: ' 86'
issue: '22'
main_file_link:
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publication: Physical Review B - Condensed Matter and Materials Physics
publication_status: published
publisher: American Physical Society
publist_id: '6431'
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title: Paired chiral spin liquid with a Fermi surface in S=1 model on the triangular
lattice
type: journal_article
volume: 86
year: '2012'
...
---
_id: '2968'
abstract:
- lang: eng
text: Little is known about the stability of trophic relationships in complex natural
communities over evolutionary timescales. Here, we use sequence data from 18 nuclear
loci to reconstruct and compare the intraspecific histories of major Pleistocene
refugial populations in the Middle East, the Balkans and Iberia in a guild of
four Chalcid parasitoids (Cecidostiba fungosa, Cecidostiba semifascia, Hobbya
stenonota and Mesopolobus amaenus) all attacking Cynipid oak galls. We develop
a likelihood method to numerically estimate models of divergence between three
populations from multilocus data. We investigate the power of this framework on
simulated data, and-using triplet alignments of intronic loci-quantify the support
for all possible divergence relationships between refugial populations in the
four parasitoids. Although an East to West order of population divergence has
highest support in all but one species, we cannot rule out alternative population
tree topologies. Comparing the estimated times of population splits between species,
we find that one species, M. amaenus, has a significantly older history than the
rest of the guild and must have arrived in central Europe at least one glacial
cycle prior to other guild members. This suggests that although all four species
may share a common origin in the East, they expanded westwards into Europe at
different times. © 2012 Blackwell Publishing Ltd.
acknowledgement: "This work was supported by funding from the UK Natural Environment
Research Council to KL (NE/I020288/1) and GS (NE/H000038/1, NE/E014453/1, NER/B/504406/1,
NER/B/S2003/00856) and a grant from the European Research Council (250152) to NB.\r\nWe
thank Majide Tavakoli, Juli Pujade-Villar and Pablo-Fuentes Utrilla for contributing
specimens. Mike Hickerson and three anonymous reviewers gave helpful comments on
earlier versions of the manuscript. "
author:
- first_name: Konrad
full_name: Lohse, Konrad
last_name: Lohse
- 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: George
full_name: Melika, George
last_name: Melika
- first_name: Graham
full_name: Stone, Graham
last_name: Stone
citation:
ama: Lohse K, Barton NH, Melika G, Stone G. A likelihood based comparison of population
histories in a parasitoid guild. Molecular Ecology. 2012;21(18):4605-4617.
doi:10.1111/j.1365-294X.2012.05700.x
apa: Lohse, K., Barton, N. H., Melika, G., & Stone, G. (2012). A likelihood
based comparison of population histories in a parasitoid guild. Molecular Ecology.
Wiley-Blackwell. https://doi.org/10.1111/j.1365-294X.2012.05700.x
chicago: Lohse, Konrad, Nicholas H Barton, George Melika, and Graham Stone. “A Likelihood
Based Comparison of Population Histories in a Parasitoid Guild.” Molecular
Ecology. Wiley-Blackwell, 2012. https://doi.org/10.1111/j.1365-294X.2012.05700.x.
ieee: K. Lohse, N. H. Barton, G. Melika, and G. Stone, “A likelihood based comparison
of population histories in a parasitoid guild,” Molecular Ecology, vol.
21, no. 18. Wiley-Blackwell, pp. 4605–4617, 2012.
ista: Lohse K, Barton NH, Melika G, Stone G. 2012. A likelihood based comparison
of population histories in a parasitoid guild. Molecular Ecology. 21(18), 4605–4617.
mla: Lohse, Konrad, et al. “A Likelihood Based Comparison of Population Histories
in a Parasitoid Guild.” Molecular Ecology, vol. 21, no. 18, Wiley-Blackwell,
2012, pp. 4605–17, doi:10.1111/j.1365-294X.2012.05700.x.
short: K. Lohse, N.H. Barton, G. Melika, G. Stone, Molecular Ecology 21 (2012) 4605–4617.
date_created: 2018-12-11T12:00:36Z
date_published: 2012-09-01T00:00:00Z
date_updated: 2023-05-30T13:07:47Z
day: '01'
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abstract:
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text: Little is known about the stability of trophic relationships in complex natural
communities over evolutionary timescales. Here, we use sequence data from 18 nuclear
loci to reconstruct and compare the intraspecific histories of major Pleistocene
refugial populations in the Middle East, the Balkans and Iberia in a guild of
four Chalcid parasitoids (Cecidostiba fungosa, C. semifascia, Hobbya stenonota
and Mesopolobus amaenus) all attacking Cynipid oak galls. We develop a likelihood
method to numerically estimate models of divergence between three populations
from multilocus data. We investigate the power of this framework on simulated
data, and - using triplet alignments of intronic loci - quantify the support for
all possible divergence relationships between refugial populations in the four
parasitoids. Although an East to West order of population divergence has highest
support in all but one species, we cannot rule out alternative population tree
topologies. Comparing the estimated times of population splits between species,
we find that one species, M. amaenus, has a significantly older history than the
rest of the guild and must have arrived in central Europe at least one glacial
cycle prior to other guild members. This suggests that although all four species
may share a common origin in the East, they expanded westwards into Europe at
different times.
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id: 4880FE40-F248-11E8-B48F-1D18A9856A87
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likelihood-based comparison of population histories in a parasitoid guild. Dryad.
https://doi.org/10.5061/DRYAD.0G0FS'
chicago: 'Lohse, Konrad, Nicholas H Barton, Graham Stone, and George Melika. “Data
from: A Likelihood-Based Comparison of Population Histories in a Parasitoid Guild.”
Dryad, 2012. https://doi.org/10.5061/DRYAD.0G0FS.'
ieee: 'K. Lohse, N. H. Barton, G. Stone, and G. Melika, “Data from: A likelihood-based
comparison of population histories in a parasitoid guild.” Dryad, 2012.'
ista: 'Lohse K, Barton NH, Stone G, Melika G. 2012. Data from: A likelihood-based
comparison of population histories in a parasitoid guild, Dryad, 10.5061/DRYAD.0G0FS.'
mla: 'Lohse, Konrad, et al. Data from: A Likelihood-Based Comparison of Population
Histories in a Parasitoid Guild. Dryad, 2012, doi:10.5061/DRYAD.0G0FS.'
short: K. Lohse, N.H. Barton, G. Stone, G. Melika, (2012).
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