---
_id: '6142'
abstract:
- lang: eng
text: Defining the mutational landscape when individuals of a species grow separately
and diverge over many generations can provide insights into trait evolution. A
specific example of this involves studying changes associated with domestication
where different lines of the same wild stock have been cultivated independently
in different standard environments. Whole genome sequence comparison of such lines
permits estimation of mutation rates, inference of genes' ancestral states and
ancestry of existing strains, and correction of sequencing errors in genome databases.
Here we study domestication of the C. elegans Bristol strain as a model, and report
the genome sequence of LSJ1 (Bristol), a sibling of the standard C. elegans reference
wild type N2 (Bristol). The LSJ1 and N2 lines were cultivated separately from
shortly after the Bristol strain was isolated until methods to freeze C. elegans
were developed. We find that during this time the two strains have accumulated
1208 genetic differences. We describe phenotypic variation between N2 and LSJ1
in the rate at which embryos develop, the rate of production of eggs, the maturity
of eggs at laying, and feeding behavior, all the result of post-isolation changes.
We infer the ancestral alleles in the original Bristol isolate and highlight 2038
likely sequencing errors in the original N2 reference genome sequence. Many of
these changes modify genome annotation. Our study provides a starting point to
further investigate genotype-phenotype association and offers insights into the
process of selection as a result of laboratory domestication.
article_number: e13922
author:
- first_name: Katherine P.
full_name: Weber, Katherine P.
last_name: Weber
- first_name: Subhajyoti
full_name: De, Subhajyoti
last_name: De
- first_name: Iwanka
full_name: Kozarewa, Iwanka
last_name: Kozarewa
- first_name: Daniel J.
full_name: Turner, Daniel J.
last_name: Turner
- first_name: M. Madan
full_name: Babu, M. Madan
last_name: Babu
- first_name: Mario
full_name: de Bono, Mario
id: 4E3FF80E-F248-11E8-B48F-1D18A9856A87
last_name: de Bono
orcid: 0000-0001-8347-0443
citation:
ama: Weber KP, De S, Kozarewa I, Turner DJ, Babu MM, de Bono M. Whole genome sequencing
highlights genetic changes associated with laboratory domestication of C. elegans.
PLoS ONE. 2010;5(11). doi:10.1371/journal.pone.0013922
apa: Weber, K. P., De, S., Kozarewa, I., Turner, D. J., Babu, M. M., & de Bono,
M. (2010). Whole genome sequencing highlights genetic changes associated with
laboratory domestication of C. elegans. PLoS ONE. Public Library of Science.
https://doi.org/10.1371/journal.pone.0013922
chicago: Weber, Katherine P., Subhajyoti De, Iwanka Kozarewa, Daniel J. Turner,
M. Madan Babu, and Mario de Bono. “Whole Genome Sequencing Highlights Genetic
Changes Associated with Laboratory Domestication of C. Elegans.” PLoS ONE.
Public Library of Science, 2010. https://doi.org/10.1371/journal.pone.0013922.
ieee: K. P. Weber, S. De, I. Kozarewa, D. J. Turner, M. M. Babu, and M. de Bono,
“Whole genome sequencing highlights genetic changes associated with laboratory
domestication of C. elegans,” PLoS ONE, vol. 5, no. 11. Public Library
of Science, 2010.
ista: Weber KP, De S, Kozarewa I, Turner DJ, Babu MM, de Bono M. 2010. Whole genome
sequencing highlights genetic changes associated with laboratory domestication
of C. elegans. PLoS ONE. 5(11), e13922.
mla: Weber, Katherine P., et al. “Whole Genome Sequencing Highlights Genetic Changes
Associated with Laboratory Domestication of C. Elegans.” PLoS ONE, vol.
5, no. 11, e13922, Public Library of Science, 2010, doi:10.1371/journal.pone.0013922.
short: K.P. Weber, S. De, I. Kozarewa, D.J. Turner, M.M. Babu, M. de Bono, PLoS
ONE 5 (2010).
date_created: 2019-03-20T15:20:30Z
date_published: 2010-11-11T00:00:00Z
date_updated: 2021-01-12T08:06:20Z
day: '11'
ddc:
- '570'
doi: 10.1371/journal.pone.0013922
extern: '1'
external_id:
pmid:
- '21085631'
file:
- access_level: open_access
checksum: a01e6bbe15f044c0c79a26d7d881953e
content_type: application/pdf
creator: kschuh
date_created: 2019-03-20T15:22:48Z
date_updated: 2020-07-14T12:47:20Z
file_id: '6143'
file_name: 2010_PLOS_Weber.PDF
file_size: 578059
relation: main_file
file_date_updated: 2020-07-14T12:47:20Z
fulldoi: https://doi.org/10.1371/journal.pone.0013922
has_accepted_license: '1'
intvolume: ' 5'
issue: '11'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
pmid: 1
publication: PLoS ONE
publication_identifier:
issn:
- 1932-6203
publication_status: published
publisher: Public Library of Science
quality_controlled: '1'
status: public
title: Whole genome sequencing highlights genetic changes associated with laboratory
domestication of C. elegans
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: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2010'
...
---
_id: '619'
abstract:
- lang: eng
text: Sinclair Ross’s novel As for Me and My House has long since been canonized
as Canadian prairie fiction. Accordingly, it has been the subject of many critical
studies and academic papers. Most commentators have concentrated on such literary
issues as the representation of the western landscape or the reliability of the
female narrator. But so far little consideration has been given to the social
and cultural implications of the novel. Few attempts have been made to analyze
the text from a cultural perspective including such social markers as class, gender
and ethnicity. That is all the more surprising because Sinclair Ross has often
been credited for being a realistic author and As for Me and My House has often
been interpreted as a regional novel characteristic of a particular time and place.
author:
- first_name: Waldemar
full_name: Zacharasiewicz, Waldemar
last_name: Zacharasiewicz
- first_name: Fritz
full_name: Kirsch, Fritz Peter
last_name: Kirsch
citation:
ama: 'Zacharasiewicz W, Kirsch F. “This is a fundamentalist town”: The Prairie Town
as a Site of Social and Cultural Conflict in Sinclair Ross’s As for Me and My
House. In: Social and Cultural Interaction and Literary Landscapes in the Canadian
West : Impressions of an Exploratory Field Trip and Academic Interaction in the
Canadian West : Rapports Interculturels et Paysages Littéraires Dans l’Ouest Canadien.
Facultas.WUV; 2010:173-179.'
apa: 'Zacharasiewicz, W., & Kirsch, F. (2010). “This is a fundamentalist town”:
The Prairie Town as a Site of Social and Cultural Conflict in Sinclair Ross’s
As for Me and My House. In Social and cultural interaction and literary landscapes
in the Canadian West : impressions of an exploratory field trip and academic interaction
in the Canadian West : Rapports interculturels et paysages littéraires dans l’Ouest
canadien (pp. 173–179). Facultas.WUV.'
chicago: 'Zacharasiewicz, Waldemar, and Fritz Kirsch. “‘This Is a Fundamentalist
Town’: The Prairie Town as a Site of Social and Cultural Conflict in Sinclair
Ross’s As for Me and My House.” In Social and Cultural Interaction and Literary
Landscapes in the Canadian West : Impressions of an Exploratory Field Trip and
Academic Interaction in the Canadian West : Rapports Interculturels et Paysages
Littéraires Dans l’Ouest Canadien, 173–79. Facultas.WUV, 2010.'
ieee: 'W. Zacharasiewicz and F. Kirsch, “‘This is a fundamentalist town’: The Prairie
Town as a Site of Social and Cultural Conflict in Sinclair Ross’s As for Me and
My House,” in Social and cultural interaction and literary landscapes in the
Canadian West : impressions of an exploratory field trip and academic interaction
in the Canadian West : Rapports interculturels et paysages littéraires dans l’Ouest
canadien, Facultas.WUV, 2010, pp. 173–179.'
ista: 'Zacharasiewicz W, Kirsch F. 2010.“This is a fundamentalist town”: The Prairie
Town as a Site of Social and Cultural Conflict in Sinclair Ross’s As for Me and
My House. In: Social and cultural interaction and literary landscapes in the Canadian
West : impressions of an exploratory field trip and academic interaction in the
Canadian West : Rapports interculturels et paysages littéraires dans l’Ouest canadien.
, 173–179.'
mla: 'Zacharasiewicz, Waldemar, and Fritz Kirsch. “‘This Is a Fundamentalist Town’:
The Prairie Town as a Site of Social and Cultural Conflict in Sinclair Ross’s
As for Me and My House.” Social and Cultural Interaction and Literary Landscapes
in the Canadian West : Impressions of an Exploratory Field Trip and Academic Interaction
in the Canadian West : Rapports Interculturels et Paysages Littéraires Dans l’Ouest
Canadien, Facultas.WUV, 2010, pp. 173–79.'
short: 'W. Zacharasiewicz, F. Kirsch, in:, Social and Cultural Interaction and Literary
Landscapes in the Canadian West : Impressions of an Exploratory Field Trip and
Academic Interaction in the Canadian West : Rapports Interculturels et Paysages
Littéraires Dans l’Ouest Canadien, Facultas.WUV, 2010, pp. 173–179.'
date_created: 2018-12-11T11:47:32Z
date_published: 2010-01-01T00:00:00Z
date_updated: 2021-01-12T08:06:40Z
day: '01'
extern: 1
month: '01'
page: 173 - 179
publication: 'Social and cultural interaction and literary landscapes in the Canadian
West : impressions of an exploratory field trip and academic interaction in the
Canadian West : Rapports interculturels et paysages littéraires dans l''Ouest canadien'
publication_status: published
publisher: Facultas.WUV
publist_id: '7185'
quality_controlled: 0
status: public
title: '“This is a fundamentalist town”: The Prairie Town as a Site of Social and
Cultural Conflict in Sinclair Ross’s As for Me and My House'
type: book_chapter
year: '2010'
...
---
_id: '6198'
abstract:
- lang: eng
text: 'Stroke is a major public health problem leading to high rates of death and
disability in adults. Excessive stimulation of N-methyl-D-aspartate receptors
(NMDARs) and the resulting neuronal nitric oxide synthase (nNOS) activation are
crucial for neuronal injury after stroke insult. However, directly inhibiting
NMDARs or nNOS can cause severe side effects because they have key physiological
functions in the CNS. Here we show that cerebral ischemia induces the interaction
of nNOS with postsynaptic density protein-95 (PSD-95). Disrupting nNOS-PSD-95
interaction via overexpressing the N-terminal amino acid residues 1-133 of nNOS
(nNOS-N(1-133)) prevented glutamate-induced excitotoxicity and cerebral ischemic
damage. Given the mechanism of nNOS-PSD-95 interaction, we developed a series
of compounds and discovered a small-molecular inhibitor of the nNOS-PSD-95 interaction,
ZL006. This drug blocked the ischemia-induced nNOS-PSD-95 association selectively,
had potent neuroprotective activity in vitro and ameliorated focal cerebral ischemic
damage in mice and rats subjected to middle cerebral artery occlusion (MCAO) and
reperfusion. Moreover, it readily crossed the blood-brain barrier, did not inhibit
NMDAR function, catalytic activity of nNOS or spatial memory, and had no effect
on aggressive behaviors. Thus, this new drug may serve as a treatment for stroke,
perhaps without major side effects. '
author:
- first_name: L
full_name: Zhou, L
last_name: Zhou
- first_name: F
full_name: Li, F
last_name: Li
- first_name: Haibing
full_name: Xu, Haibing
id: 310349D0-F248-11E8-B48F-1D18A9856A87
last_name: Xu
- first_name: CX
full_name: Luo, CX
last_name: Luo
- first_name: HY
full_name: Wu, HY
last_name: Wu
- first_name: MM
full_name: Zhu, MM
last_name: Zhu
- first_name: W
full_name: Lu, W
last_name: Lu
- first_name: X
full_name: Ji, X
last_name: Ji
- first_name: QG
full_name: Zhou, QG
last_name: Zhou
- first_name: DY
full_name: Zhu, DY
last_name: Zhu
citation:
ama: Zhou L, Li F, Xu H, et al. Treatment of cerebral ischemia by disrupting ischemia-induced
interaction of nNOS with PSD-95. Nature Medicine. 2010;16(12):1439-1443.
doi:10.1038/nm.2245
apa: Zhou, L., Li, F., Xu, H., Luo, C., Wu, H., Zhu, M., … Zhu, D. (2010). Treatment
of cerebral ischemia by disrupting ischemia-induced interaction of nNOS with PSD-95.
Nature Medicine. Nature Publishing Group. https://doi.org/10.1038/nm.2245
chicago: Zhou, L, F Li, Haibing Xu, CX Luo, HY Wu, MM Zhu, W Lu, X Ji, QG Zhou,
and DY Zhu. “Treatment of Cerebral Ischemia by Disrupting Ischemia-Induced Interaction
of NNOS with PSD-95.” Nature Medicine. Nature Publishing Group, 2010. https://doi.org/10.1038/nm.2245.
ieee: L. Zhou et al., “Treatment of cerebral ischemia by disrupting ischemia-induced
interaction of nNOS with PSD-95,” Nature Medicine, vol. 16, no. 12. Nature
Publishing Group, pp. 1439–1443, 2010.
ista: Zhou L, Li F, Xu H, Luo C, Wu H, Zhu M, Lu W, Ji X, Zhou Q, Zhu D. 2010. Treatment
of cerebral ischemia by disrupting ischemia-induced interaction of nNOS with PSD-95.
Nature Medicine. 16(12), 1439–1443.
mla: Zhou, L., et al. “Treatment of Cerebral Ischemia by Disrupting Ischemia-Induced
Interaction of NNOS with PSD-95.” Nature Medicine, vol. 16, no. 12, Nature
Publishing Group, 2010, pp. 1439–43, doi:10.1038/nm.2245.
short: L. Zhou, F. Li, H. Xu, C. Luo, H. Wu, M. Zhu, W. Lu, X. Ji, Q. Zhou, D. Zhu,
Nature Medicine 16 (2010) 1439–1443.
date_created: 2019-04-04T14:55:32Z
date_published: 2010-11-21T00:00:00Z
date_updated: 2021-01-12T08:06:43Z
day: '21'
doi: 10.1038/nm.2245
extern: '1'
external_id:
pmid:
- '21102461'
fulldoi: https://doi.org/10.1038/nm.2245
intvolume: ' 16'
issue: '12'
language:
- iso: eng
month: '11'
oa_version: None
page: 1439-1443
pmid: 1
publication: Nature Medicine
publication_identifier:
issn:
- 1078-8956
- 1546-170x
publication_status: published
publisher: Nature Publishing Group
quality_controlled: '1'
status: public
title: Treatment of cerebral ischemia by disrupting ischemia-induced interaction of
nNOS with PSD-95
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 16
year: '2010'
...
---
_id: '2071'
abstract:
- lang: eng
text: The X or Z chromosome has several characteristics that distinguish it from
the autosomes, namely hemizygosity in the heterogametic sex, and a potentially
different effective population size, both of which may influence the rate and
nature of evolution. In particular, there may be an accelerated rate of adaptive
change for X-linked compared to autosomal coding sequences, often referred to
as the Faster-X effect. Empirical studies have indicated that the strength of
Faster-X evolution varies among different species, and theoretical treatments
have shown that demography and mating system can substantially affect the degree
of Faster-X evolution. Here we integrate genomic data on Faster-X evolution from
a variety of animals with the demographic factors, mating system, and sex chromosome
regulatory characteristics that may influence it. Our results suggest that differences
in effective population size and mechanisms of dosage compensation may influence
the perceived extent of Faster-X evolution, and help to explain several clade-specific
patterns that we observe.
acknowledgement: We gratefully acknowledge funding from the Royal Society (to JEM)
author:
- first_name: Judith
full_name: Mank, Judith E
last_name: Mank
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Sofia
full_name: Berlin, Sofia
last_name: Berlin
- first_name: Brian
full_name: Charlesworth, Brian
last_name: Charlesworth
citation:
ama: 'Mank J, Vicoso B, Berlin S, Charlesworth B. Effective population size and
the Faster-X effect: Empirical results and their interpretation. Evolution.
2010;64(3):663-674. doi:10.1111/j.1558-5646.2009.00853.x'
apa: 'Mank, J., Vicoso, B., Berlin, S., & Charlesworth, B. (2010). Effective
population size and the Faster-X effect: Empirical results and their interpretation.
Evolution. Wiley-Blackwell. https://doi.org/10.1111/j.1558-5646.2009.00853.x'
chicago: 'Mank, Judith, Beatriz Vicoso, Sofia Berlin, and Brian Charlesworth. “Effective
Population Size and the Faster-X Effect: Empirical Results and Their Interpretation.”
Evolution. Wiley-Blackwell, 2010. https://doi.org/10.1111/j.1558-5646.2009.00853.x.'
ieee: 'J. Mank, B. Vicoso, S. Berlin, and B. Charlesworth, “Effective population
size and the Faster-X effect: Empirical results and their interpretation,” Evolution,
vol. 64, no. 3. Wiley-Blackwell, pp. 663–674, 2010.'
ista: 'Mank J, Vicoso B, Berlin S, Charlesworth B. 2010. Effective population size
and the Faster-X effect: Empirical results and their interpretation. Evolution.
64(3), 663–674.'
mla: 'Mank, Judith, et al. “Effective Population Size and the Faster-X Effect: Empirical
Results and Their Interpretation.” Evolution, vol. 64, no. 3, Wiley-Blackwell,
2010, pp. 663–74, doi:10.1111/j.1558-5646.2009.00853.x.'
short: J. Mank, B. Vicoso, S. Berlin, B. Charlesworth, Evolution 64 (2010) 663–674.
date_created: 2018-12-11T11:55:32Z
date_published: 2010-03-01T00:00:00Z
date_updated: 2021-01-12T06:55:07Z
day: '01'
doi: 10.1111/j.1558-5646.2009.00853.x
extern: 1
fulldoi: https://doi.org/10.1111/j.1558-5646.2009.00853.x
intvolume: ' 64'
issue: '3'
month: '03'
page: 663 - 674
publication: Evolution
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4967'
quality_controlled: 0
status: public
title: 'Effective population size and the Faster-X effect: Empirical results and their
interpretation'
type: journal_article
volume: 64
year: '2010'
...
---
_id: '2075'
abstract:
- lang: eng
text: "This thesis investigates the combination of data-driven and physically based
techniques for acquiring, modeling, and animating deformable materials, with a
special focus on human faces. Furthermore, based on these techniques, we introduce
a data-driven process for designing and fabricating materials with desired deformation
behavior. \nRealistic simulation behavior, surface details, and appearance are
still demanding tasks. Neither pure data-driven, pure procedural, nor pure physical
methods are best suited for accurate synthesis of facial motion and details (both
for appearance and geometry), due to the difficulties in model design, parameter
estimation, and desired controllability for animators. Capturing of a small but
representative amount of real data, and then synthesizing diverse on-demand examples
with physically-based models and real data as input benefits from both sides:
Highly realistic model behavior due to real-world data and controllability due
to physically-based models.\nTo model the face and its behavior, hybrid physically-based
and data-driven approaches are elaborated. We investigate surface-based representations
as well as a solid representation based on FEM. To achieve realistic behavior,
we propose to build light-weighted data capture devices to acquire real-world
data to estimate model parameters and to employ concepts from data-driven modeling
techniques and machine learning. The resulting models support simple acquisition
systems, offer techniques to process and extract model parameters from real-world
data, provide a compact representation of the facial geometry and its motion,
and allow intuitive editing. We demonstrate applications such as capture of facial
geometry and motion and real-time animation and transfer of facial details, and
show that our soft tissue model can react to external forces and produce realistic
deformations beyond facial expressions.\nBased on this model, we furthermore introduce
a data-driven process for designing and fabricating materials with desired deformation
behavior. The process starts with measuring deformation properties of base materials.
Each material is represented as a non-linear stress-strain relationship in a finite-element
model. For material design and fabrication, we introduce an optimization process
that finds the best combination of base materials that meets a user’s criteria
specified by example deformations. Our algorithm employs a number of strategies
to prune poor solutions from the combinatorial search space. We finally demonstrate
the complete process by designing and fabricating objects with complex heterogeneous
materials using modern multi-material 3D printers.\n"
author:
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
citation:
ama: Bickel B. Measurement-based modeling and fabrication of deformable materials
for human faces. Unknown. 2010;499(7458). doi:dx.doi.org/10.3929/ethz-a-006354908
apa: Bickel, B. (2010). Measurement-based modeling and fabrication of deformable
materials for human faces. Unknown. Unknown. https://doi.org/dx.doi.org/10.3929/ethz-a-006354908
chicago: Bickel, Bernd. “Measurement-Based Modeling and Fabrication of Deformable
Materials for Human Faces.” Unknown. Unknown, 2010. https://doi.org/dx.doi.org/10.3929/ethz-a-006354908.
ieee: B. Bickel, “Measurement-based modeling and fabrication of deformable materials
for human faces,” Unknown, 2010.
ista: Bickel B. 2010. Measurement-based modeling and fabrication of deformable materials
for human faces. Unknown.
mla: Bickel, Bernd. “Measurement-Based Modeling and Fabrication of Deformable Materials
for Human Faces.” Unknown, vol. 499, no. 7458, Unknown, 2010, doi:dx.doi.org/10.3929/ethz-a-006354908.
short: B. Bickel, Measurement-Based Modeling and Fabrication of Deformable Materials
for Human Faces, Unknown, 2010.
date_created: 2018-12-11T11:55:34Z
date_published: 2010-01-01T00:00:00Z
date_updated: 2021-01-12T06:55:09Z
day: '01'
doi: dx.doi.org/10.3929/ethz-a-006354908
extern: 1
fulldoi: https://doi.org/dx.doi.org/10.3929/ethz-a-006354908
intvolume: ' 499'
issue: '7458'
month: '01'
publication: Unknown
publication_status: published
publisher: Unknown
publist_id: '4963'
quality_controlled: 0
status: public
title: Measurement-based modeling and fabrication of deformable materials for human
faces
type: dissertation
volume: 499
year: '2010'
...
---
_id: '10127'
abstract:
- lang: eng
text: We use numerical simulations to show how noninteracting hard particles binding
to a deformable elastic shell may self-assemble into a variety of linear patterns.
This is a result of the nontrivial elastic response to deformations of shells.
The morphology of the patterns can be controlled by the mechanical properties
of the surface, and can be fine-tuned by varying the binding energy of the particles.
We also repeat our calculations for a fully flexible chain and find that the chain
conformations follow patterns similar to those formed by the nanoparticles under
analogous conditions. We propose a simple way of understanding and sorting the
different structures and relate it to the underlying shape transition of the shell.
Finally, we discuss the implications of our results.
acknowledgement: This work was supported by the National Science Foundation under
Career Grant No. DMR-0846426. We thank Josep C. Pàmies for helpful discussions.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Angelo
full_name: Cacciuto, Angelo
last_name: Cacciuto
citation:
ama: Šarić A, Cacciuto A. Particle self-assembly on soft elastic shells. Soft
Matter. 2010;7(5):1874-1878. doi:10.1039/c0sm01143f
apa: Šarić, A., & Cacciuto, A. (2010). Particle self-assembly on soft elastic
shells. Soft Matter. Royal Society of Chemistry (RSC). https://doi.org/10.1039/c0sm01143f
chicago: Šarić, Anđela, and Angelo Cacciuto. “Particle Self-Assembly on Soft Elastic
Shells.” Soft Matter. Royal Society of Chemistry (RSC), 2010. https://doi.org/10.1039/c0sm01143f.
ieee: A. Šarić and A. Cacciuto, “Particle self-assembly on soft elastic shells,”
Soft Matter, vol. 7, no. 5. Royal Society of Chemistry (RSC), pp. 1874–1878,
2010.
ista: Šarić A, Cacciuto A. 2010. Particle self-assembly on soft elastic shells.
Soft Matter. 7(5), 1874–1878.
mla: Šarić, Anđela, and Angelo Cacciuto. “Particle Self-Assembly on Soft Elastic
Shells.” Soft Matter, vol. 7, no. 5, Royal Society of Chemistry (RSC),
2010, pp. 1874–78, doi:10.1039/c0sm01143f.
short: A. Šarić, A. Cacciuto, Soft Matter 7 (2010) 1874–1878.
date_created: 2021-10-12T08:34:23Z
date_published: 2010-12-23T00:00:00Z
date_updated: 2021-10-12T09:49:27Z
day: '23'
doi: 10.1039/c0sm01143f
extern: '1'
external_id:
arxiv:
- '1010.2453'
fulldoi: https://doi.org/10.1039/c0sm01143f
intvolume: ' 7'
issue: '5'
keyword:
- condensed matter physics
- general chemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1010.2453
month: '12'
oa: 1
oa_version: Preprint
page: 1874-1878
publication: Soft Matter
publication_identifier:
issn:
- 1744-683X
- 1744-6848
publication_status: published
publisher: Royal Society of Chemistry (RSC)
quality_controlled: '1'
status: public
title: Particle self-assembly on soft elastic shells
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 7
year: '2010'
...
---
_id: '10128'
abstract:
- lang: eng
text: 'An extensive computational study of the conformational preferences of three
capped dipeptides: Ac-Xxx-Phe-NH2, Xxx = Gly, Ala, Val is reported. On the basis
of local second-order Møller–Plesset perturbation theory (LMP2) and DFT computations
we were able to identify the experimentally observed conformers as γL–γL(g−) and
β-turn I(g+) in Ac-Gly-Phe-NH2, and Ac-Ala-Phe-NH2, and as the closely related
γL(g+)–γL(g−) and β-turn I(a,g+) in Ac-Val-Phe-NH2. In contrast to the experimental
observation that peptides with bulky side chain have a propensity for β-turns,
we show that in Ac-Val-Phe-NH2 the minimum energy structure corresponds to the
experimentally non detected β-strand.'
acknowledgement: This work has been supported by the MZOŠ projects 098-0352851-2921
and 119-1191342-2959.
article_processing_charge: No
article_type: original
author:
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: T.
full_name: Hrenar, T.
last_name: Hrenar
- first_name: M.
full_name: Mališ, M.
last_name: Mališ
- first_name: N.
full_name: Došlić, N.
last_name: Došlić
citation:
ama: Šarić A, Hrenar T, Mališ M, Došlić N. Quantum mechanical study of secondary
structure formation in protected dipeptides. Physical Chemistry Chemical Physics.
2010;12(18):4678-4685. doi:10.1039/b923041f
apa: Šarić, A., Hrenar, T., Mališ, M., & Došlić, N. (2010). Quantum mechanical
study of secondary structure formation in protected dipeptides. Physical Chemistry
Chemical Physics. Royal Society of Chemistry . https://doi.org/10.1039/b923041f
chicago: Šarić, Anđela, T. Hrenar, M. Mališ, and N. Došlić. “Quantum Mechanical
Study of Secondary Structure Formation in Protected Dipeptides.” Physical Chemistry
Chemical Physics. Royal Society of Chemistry , 2010. https://doi.org/10.1039/b923041f.
ieee: A. Šarić, T. Hrenar, M. Mališ, and N. Došlić, “Quantum mechanical study of
secondary structure formation in protected dipeptides,” Physical Chemistry
Chemical Physics, vol. 12, no. 18. Royal Society of Chemistry , pp. 4678–4685,
2010.
ista: Šarić A, Hrenar T, Mališ M, Došlić N. 2010. Quantum mechanical study of secondary
structure formation in protected dipeptides. Physical Chemistry Chemical Physics.
12(18), 4678–4685.
mla: Šarić, Anđela, et al. “Quantum Mechanical Study of Secondary Structure Formation
in Protected Dipeptides.” Physical Chemistry Chemical Physics, vol. 12,
no. 18, Royal Society of Chemistry , 2010, pp. 4678–85, doi:10.1039/b923041f.
short: A. Šarić, T. Hrenar, M. Mališ, N. Došlić, Physical Chemistry Chemical Physics
12 (2010) 4678–4685.
date_created: 2021-10-12T08:44:34Z
date_published: 2010-03-16T00:00:00Z
date_updated: 2021-10-12T09:49:22Z
day: '16'
doi: 10.1039/b923041f
extern: '1'
external_id:
pmid:
- '20428547'
fulldoi: https://doi.org/10.1039/b923041f
intvolume: ' 12'
issue: '18'
keyword:
- Physical and Theoretical Chemistry
- General Physics and Astronomy
language:
- iso: eng
main_file_link:
- url: https://europepmc.org/article/med/20428547
month: '03'
oa_version: None
page: 4678-4685
pmid: 1
publication: Physical Chemistry Chemical Physics
publication_identifier:
issn:
- 1463-9076
- 1463-9084
publication_status: published
publisher: 'Royal Society of Chemistry '
quality_controlled: '1'
status: public
title: Quantum mechanical study of secondary structure formation in protected dipeptides
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 12
year: '2010'
...
---
_id: '10390'
abstract:
- lang: eng
text: 'We use numerical simulations to study the phase behavior of a system of purely
repulsive soft dumbbells as a function of size ratio of the two components and
their relative degree of deformability. We find a plethora of different phases,
which includes most of the mesophases observed in self-assembly of block copolymers
but also crystalline structures formed by asymmetric, hard binary mixtures. Our
results detail the phenomenological behavior of these systems when softness is
introduced in terms of two different classes of interparticle interactions: (a)
the elastic Hertz potential, which has a finite energy cost for complete overlap
of any two components, and (b) a generic power-law repulsion with tunable exponent.
We discuss how simple geometric arguments can be used to account for the large
structural variety observed in these systems and detail the similarities and differences
in the phase behavior for the two classes of potentials under consideration.'
acknowledgement: This work was supported by the National Science Foundation under
CAREER Grant No. DMR-0846426 and partly by Columbia University.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Behnaz
full_name: Bozorgui, Behnaz
last_name: Bozorgui
- first_name: Angelo
full_name: Cacciuto, Angelo
last_name: Cacciuto
citation:
ama: Šarić A, Bozorgui B, Cacciuto A. Packing of soft asymmetric dumbbells. The
Journal of Physical Chemistry B. 2010;115(22):7182-7189. doi:10.1021/jp107545w
apa: Šarić, A., Bozorgui, B., & Cacciuto, A. (2010). Packing of soft asymmetric
dumbbells. The Journal of Physical Chemistry B. American Chemical Society.
https://doi.org/10.1021/jp107545w
chicago: Šarić, Anđela, Behnaz Bozorgui, and Angelo Cacciuto. “Packing of Soft Asymmetric
Dumbbells.” The Journal of Physical Chemistry B. American Chemical Society,
2010. https://doi.org/10.1021/jp107545w.
ieee: A. Šarić, B. Bozorgui, and A. Cacciuto, “Packing of soft asymmetric dumbbells,”
The Journal of Physical Chemistry B, vol. 115, no. 22. American Chemical
Society, pp. 7182–7189, 2010.
ista: Šarić A, Bozorgui B, Cacciuto A. 2010. Packing of soft asymmetric dumbbells.
The Journal of Physical Chemistry B. 115(22), 7182–7189.
mla: Šarić, Anđela, et al. “Packing of Soft Asymmetric Dumbbells.” The Journal
of Physical Chemistry B, vol. 115, no. 22, American Chemical Society, 2010,
pp. 7182–89, doi:10.1021/jp107545w.
short: A. Šarić, B. Bozorgui, A. Cacciuto, The Journal of Physical Chemistry B 115
(2010) 7182–7189.
date_created: 2021-11-29T15:13:17Z
date_published: 2010-10-15T00:00:00Z
date_updated: 2021-11-29T16:20:29Z
day: '15'
doi: 10.1021/jp107545w
extern: '1'
external_id:
arxiv:
- '1010.2458'
pmid:
- '20949934'
fulldoi: https://doi.org/10.1021/jp107545w
intvolume: ' 115'
issue: '22'
keyword:
- materials chemistry
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1010.2458
month: '10'
oa: 1
oa_version: Preprint
page: 7182-7189
pmid: 1
publication: The Journal of Physical Chemistry B
publication_identifier:
eissn:
- 1520-5207
issn:
- 1520-6106
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Packing of soft asymmetric dumbbells
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 115
year: '2010'
...
---
_id: '10391'
abstract:
- lang: eng
text: We use numerical simulations to show how a fully flexible filament binding
to a deformable cylindrical surface may acquire a macroscopic persistence length
and a helical conformation. This is a result of the nontrivial elastic response
to deformations of elastic sheets. We find that the filament’s helical pitch is
completely determined by the mechanical properties of the surface, and can be
easily tuned by varying the surface stretching rigidity. We propose simple scaling
arguments to understand the physical mechanism behind this phenomenon and present
a phase diagram indicating under what conditions one should expect a fully flexible
chain to behave as a helical semiflexible filament. Finally, we discuss the implications
of our results.
acknowledgement: This work was supported by the National Science Foundation under
Career Grant No. DMR-0846426.
article_number: '226101'
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Anđela
full_name: Šarić, Anđela
id: bf63d406-f056-11eb-b41d-f263a6566d8b
last_name: Šarić
orcid: 0000-0002-7854-2139
- first_name: Josep C.
full_name: Pàmies, Josep C.
last_name: Pàmies
- first_name: Angelo
full_name: Cacciuto, Angelo
last_name: Cacciuto
citation:
ama: Šarić A, Pàmies JC, Cacciuto A. Effective elasticity of a flexible filament
bound to a deformable cylindrical surface. Physical Review Letters. 2010;104(22).
doi:10.1103/physrevlett.104.226101
apa: Šarić, A., Pàmies, J. C., & Cacciuto, A. (2010). Effective elasticity of
a flexible filament bound to a deformable cylindrical surface. Physical Review
Letters. American Physical Society. https://doi.org/10.1103/physrevlett.104.226101
chicago: Šarić, Anđela, Josep C. Pàmies, and Angelo Cacciuto. “Effective Elasticity
of a Flexible Filament Bound to a Deformable Cylindrical Surface.” Physical
Review Letters. American Physical Society, 2010. https://doi.org/10.1103/physrevlett.104.226101.
ieee: A. Šarić, J. C. Pàmies, and A. Cacciuto, “Effective elasticity of a flexible
filament bound to a deformable cylindrical surface,” Physical Review Letters,
vol. 104, no. 22. American Physical Society, 2010.
ista: Šarić A, Pàmies JC, Cacciuto A. 2010. Effective elasticity of a flexible filament
bound to a deformable cylindrical surface. Physical Review Letters. 104(22), 226101.
mla: Šarić, Anđela, et al. “Effective Elasticity of a Flexible Filament Bound to
a Deformable Cylindrical Surface.” Physical Review Letters, vol. 104, no.
22, 226101, American Physical Society, 2010, doi:10.1103/physrevlett.104.226101.
short: A. Šarić, J.C. Pàmies, A. Cacciuto, Physical Review Letters 104 (2010).
date_created: 2021-11-29T15:14:33Z
date_published: 2010-06-03T00:00:00Z
date_updated: 2021-11-30T08:11:19Z
day: '03'
doi: 10.1103/physrevlett.104.226101
extern: '1'
external_id:
arxiv:
- '1005.2429'
pmid:
- '20867183'
fulldoi: https://doi.org/10.1103/physrevlett.104.226101
intvolume: ' 104'
issue: '22'
keyword:
- general physics and astronomy
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1005.2429
month: '06'
oa: 1
oa_version: Preprint
pmid: 1
publication: Physical Review Letters
publication_identifier:
eissn:
- 1079-7114
issn:
- 0031-9007
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Effective elasticity of a flexible filament bound to a deformable cylindrical
surface
type: journal_article
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
volume: 104
year: '2010'
...
---
_id: '1042'
abstract:
- lang: eng
text: Recent years have seen tremendous progress in the field of cold and ultracold
molecules. A central goal in the field is currently the realization of stable
rovibronic ground-state molecular samples in the regime of quantum degeneracy,
e.g. in the form of molecular Bose-Einstein condensates, molecular degenerate
Fermi gases, or, when an optical lattice is present, molecular Mott-insulator
phases. However, molecular samples are not readily cooled to the extremely low
temperatures at which quantum degeneracy occurs. In particular, laser cooling,
the \'workhorse\' for the field of atomic quantum gases, is generally not applicable
to molecular samples. Here we take an important step beyond previous work1 and
provide details on the realization of an ultracold quantum gas of ground-state
dimer molecules trapped in an optical lattice as recently reported in Ref. 2.
We demonstrate full control over all internal and external quantum degrees of
freedom for the ground-state molecules by deterministically preparing the molecules
in a single quantum state, i.e. in a specific hyperfine sublevel of the rovibronic
ground state, while the molecules are trapped in the motional ground state of
the individual lattice wells. We circumvent the problem of cooling by associating
weakly-bound molecules out of a zero-temperature atomic Mott-insulator state and
by transferring these to the absolute ground state in a four-photon STIRAP process.
Our preparation procedure directly leads to a long-lived, lattice-trapped molecular
many-body state, which we expect to form the platform for many of the envisioned
future experiments with molecular quantum gases, e.g. on precision molecular spectroscopy,
quantum information science, and dipolar quantum systems.
article_processing_charge: No
author:
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Manfred
full_name: Mark, Manfred
last_name: Mark
- first_name: Elmar
full_name: Haller, Elmar
last_name: Haller
- first_name: Mattias
full_name: Gustavsson, Mattias
last_name: Gustavsson
- first_name: Russell
full_name: Hart, Russell
last_name: Hart
- first_name: Hanns
full_name: Nägerl, Hanns
last_name: Nägerl
citation:
ama: 'Danzl JG, Mark M, Haller E, Gustavsson M, Hart R, Nägerl H. Production of
a quantum gas of rovibronic ground-state molecules in an optical lattice. In:
World Scientific Publishing; 2010:256-269. doi:10.1142/9789814282345_0024'
apa: 'Danzl, J. G., Mark, M., Haller, E., Gustavsson, M., Hart, R., & Nägerl,
H. (2010). Production of a quantum gas of rovibronic ground-state molecules in
an optical lattice (pp. 256–269). Presented at the ICOLS: International Conference
on Laser Spectroscopy, World Scientific Publishing. https://doi.org/10.1142/9789814282345_0024'
chicago: Danzl, Johann G, Manfred Mark, Elmar Haller, Mattias Gustavsson, Russell
Hart, and Hanns Nägerl. “Production of a Quantum Gas of Rovibronic Ground-State
Molecules in an Optical Lattice,” 256–69. World Scientific Publishing, 2010. https://doi.org/10.1142/9789814282345_0024.
ieee: 'J. G. Danzl, M. Mark, E. Haller, M. Gustavsson, R. Hart, and H. Nägerl, “Production
of a quantum gas of rovibronic ground-state molecules in an optical lattice,”
presented at the ICOLS: International Conference on Laser Spectroscopy, 2010,
pp. 256–269.'
ista: 'Danzl JG, Mark M, Haller E, Gustavsson M, Hart R, Nägerl H. 2010. Production
of a quantum gas of rovibronic ground-state molecules in an optical lattice. ICOLS:
International Conference on Laser Spectroscopy, 256–269.'
mla: Danzl, Johann G., et al. Production of a Quantum Gas of Rovibronic Ground-State
Molecules in an Optical Lattice. World Scientific Publishing, 2010, pp. 256–69,
doi:10.1142/9789814282345_0024.
short: J.G. Danzl, M. Mark, E. Haller, M. Gustavsson, R. Hart, H. Nägerl, in:, World
Scientific Publishing, 2010, pp. 256–269.
conference:
name: 'ICOLS: International Conference on Laser Spectroscopy'
date_created: 2018-12-11T11:49:50Z
date_published: 2010-01-01T00:00:00Z
date_updated: 2021-01-12T06:47:52Z
day: '01'
doi: 10.1142/9789814282345_0024
extern: '1'
fulldoi: https://doi.org/10.1142/9789814282345_0024
language:
- iso: eng
month: '01'
oa_version: None
page: 256 - 269
publication_status: published
publisher: World Scientific Publishing
publist_id: '6346'
status: public
title: Production of a quantum gas of rovibronic ground-state molecules in an optical
lattice
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2010'
...
---
_id: '1044'
abstract:
- lang: eng
text: Control over all internal and external degrees of freedom of molecules at
the level of single quantum states will enable a series of fundamental studies
in physics and chemistry1,2. In particular, samples of ground-state molecules
at ultralow temperatures and high number densities will facilitate new quantum-gas
studies3 and future applications in quantum information science4. However, high
phase-space densities for molecular samples are not readily attainable because
efficient cooling techniques such as laser cooling are lacking. Here we produce
an ultracold and dense sample of molecules in a single hyperfine level of the
rovibronic ground state with each molecule individually trapped in the motional
ground state of an optical lattice well. Starting from a zero-temperature atomic
Mott-insulator state with optimized double-site occupancy6, weakly bound dimer
molecules are efficiently associated on a Feshbach resonance7 and subsequently
transferred to the rovibronic ground state by a stimulated four-photon process
with >50% efficiency. The molecules are trapped in the lattice and have a lifetime
of 8 s. Our results present a crucial step towards Bose-Einstein condensation
of ground-state molecules and, when suitably generalized to polar heteronuclear
molecules, the realization of dipolar quantum-gas phases in optical lattices8-10.
acknowledgement: We thank H. Ritsch, S. Dürr, N. Bouloufa and O. Dulieu for valuable
discussions. We are indebted to R. Grimm for generous support and to H. Häffner
for the loan of a charge-coupled camera. We gratefully acknowledge financial support
by the Austrian Ministry of Science and Research (Bundesministerium für Wissenschaft
und Forschung) and the Austrian Science Fund (Fonds zur Förderung der wissenschaftlichen
Forschung) in the form of a START prize grant and by the European Science Foundation
within the framework of the EuroQUASAR collective research project QuDeGPM and within
the framework of the EuroQUAM collective research project QuDipMol. R.H. is supported
by a Marie Curie International Incoming Fellowship within the 7th European Community
Framework Programme.
article_processing_charge: No
arxiv: 1
author:
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Manfred
full_name: Mark, Manfred
last_name: Mark
- first_name: Elmar
full_name: Haller, Elmar
last_name: Haller
- first_name: Mattias
full_name: Gustavsson, Mattias
last_name: Gustavsson
- first_name: Russell
full_name: Hart, Russell
last_name: Hart
- first_name: Jesus
full_name: Aldegunde, Jesus
last_name: Aldegunde
- first_name: Jeremy
full_name: Hutson, Jeremy
last_name: Hutson
- first_name: Hanns
full_name: Nägerl, Hanns
last_name: Nägerl
citation:
ama: Danzl JG, Mark M, Haller E, et al. An ultracold high-density sample of rovibronic
ground-state molecules in an optical lattice. Nature Physics. 2010;6(4):265-270.
doi:10.1038/nphys1533
apa: Danzl, J. G., Mark, M., Haller, E., Gustavsson, M., Hart, R., Aldegunde, J.,
… Nägerl, H. (2010). An ultracold high-density sample of rovibronic ground-state
molecules in an optical lattice. Nature Physics. Nature Publishing Group.
https://doi.org/10.1038/nphys1533
chicago: Danzl, Johann G, Manfred Mark, Elmar Haller, Mattias Gustavsson, Russell
Hart, Jesus Aldegunde, Jeremy Hutson, and Hanns Nägerl. “An Ultracold High-Density
Sample of Rovibronic Ground-State Molecules in an Optical Lattice.” Nature
Physics. Nature Publishing Group, 2010. https://doi.org/10.1038/nphys1533.
ieee: J. G. Danzl et al., “An ultracold high-density sample of rovibronic
ground-state molecules in an optical lattice,” Nature Physics, vol. 6,
no. 4. Nature Publishing Group, pp. 265–270, 2010.
ista: Danzl JG, Mark M, Haller E, Gustavsson M, Hart R, Aldegunde J, Hutson J, Nägerl
H. 2010. An ultracold high-density sample of rovibronic ground-state molecules
in an optical lattice. Nature Physics. 6(4), 265–270.
mla: Danzl, Johann G., et al. “An Ultracold High-Density Sample of Rovibronic Ground-State
Molecules in an Optical Lattice.” Nature Physics, vol. 6, no. 4, Nature
Publishing Group, 2010, pp. 265–70, doi:10.1038/nphys1533.
short: J.G. Danzl, M. Mark, E. Haller, M. Gustavsson, R. Hart, J. Aldegunde, J.
Hutson, H. Nägerl, Nature Physics 6 (2010) 265–270.
date_created: 2018-12-11T11:49:51Z
date_published: 2010-04-04T00:00:00Z
date_updated: 2021-01-12T06:47:53Z
day: '04'
doi: 10.1038/nphys1533
extern: '1'
external_id:
arxiv:
- '0909.4700'
fulldoi: https://doi.org/10.1038/nphys1533
intvolume: ' 6'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/0909.4700
month: '04'
oa: 1
oa_version: Preprint
page: 265 - 270
publication: Nature Physics
publication_status: published
publisher: Nature Publishing Group
publist_id: '6345'
status: public
title: An ultracold high-density sample of rovibronic ground-state molecules in an
optical lattice
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2010'
...
---
_id: '1045'
abstract:
- lang: eng
text: We report on the observation of confinement-induced resonances in strongly
interacting quantum-gas systems with tunable interactions for one- and two-dimensional
geometry. Atom-atom scattering is substantially modified when the s-wave scattering
length approaches the length scale associated with the tight transversal confinement,
leading to characteristic loss and heating signatures. Upon introducing an anisotropy
for the transversal confinement we observe a splitting of the confinement-induced
resonance. With increasing anisotropy additional resonances appear. In the limit
of a two-dimensional system we find that one resonance persists.
acknowledgement: We thank W. Zwerger for discussions and R. Grimm for generous support.
We acknowledge funding by the Austrian Science Fund and by the European Union within
the framework of the EuroQUASAR collective research project QuDeGPM. R. H. is supported
by a Marie Curie Fellowship within FP7. P. S. acknowledges financial support by
the DFG. Financial support by the Heisenberg-Landau Program is appreciated by P. S.
and V. M.
article_processing_charge: No
arxiv: 1
author:
- first_name: Elmar
full_name: Haller, Elmar
last_name: Haller
- first_name: Manfred
full_name: Mark, Manfred
last_name: Mark
- first_name: Russell
full_name: Hart, Russell
last_name: Hart
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Lukas
full_name: Reichsöllner, Lukas
last_name: Reichsöllner
- first_name: Vladimir
full_name: Melezhik, Vladimir
last_name: Melezhik
- first_name: Peter
full_name: Schmelcher, Peter
last_name: Schmelcher
- first_name: Hanns
full_name: Nägerl, Hanns
last_name: Nägerl
citation:
ama: Haller E, Mark M, Hart R, et al. Confinement-induced resonances in low-dimensional
quantum systems. Physical Review Letters. 2010;104(15). doi:10.1103/PhysRevLett.104.153203
apa: Haller, E., Mark, M., Hart, R., Danzl, J. G., Reichsöllner, L., Melezhik, V.,
… Nägerl, H. (2010). Confinement-induced resonances in low-dimensional quantum
systems. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.104.153203
chicago: Haller, Elmar, Manfred Mark, Russell Hart, Johann G Danzl, Lukas Reichsöllner,
Vladimir Melezhik, Peter Schmelcher, and Hanns Nägerl. “Confinement-Induced Resonances
in Low-Dimensional Quantum Systems.” Physical Review Letters. American
Physical Society, 2010. https://doi.org/10.1103/PhysRevLett.104.153203.
ieee: E. Haller et al., “Confinement-induced resonances in low-dimensional
quantum systems,” Physical Review Letters, vol. 104, no. 15. American Physical
Society, 2010.
ista: Haller E, Mark M, Hart R, Danzl JG, Reichsöllner L, Melezhik V, Schmelcher
P, Nägerl H. 2010. Confinement-induced resonances in low-dimensional quantum systems.
Physical Review Letters. 104(15).
mla: Haller, Elmar, et al. “Confinement-Induced Resonances in Low-Dimensional Quantum
Systems.” Physical Review Letters, vol. 104, no. 15, American Physical
Society, 2010, doi:10.1103/PhysRevLett.104.153203.
short: E. Haller, M. Mark, R. Hart, J.G. Danzl, L. Reichsöllner, V. Melezhik, P.
Schmelcher, H. Nägerl, Physical Review Letters 104 (2010).
date_created: 2018-12-11T11:49:51Z
date_published: 2010-04-14T00:00:00Z
date_updated: 2021-01-12T06:47:53Z
day: '14'
doi: 10.1103/PhysRevLett.104.153203
extern: '1'
external_id:
arxiv:
- '1002.3795'
fulldoi: https://doi.org/10.1103/PhysRevLett.104.153203
intvolume: ' 104'
issue: '15'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1002.3795
month: '04'
oa: 1
oa_version: Preprint
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '6344'
status: public
title: Confinement-induced resonances in low-dimensional quantum systems
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 104
year: '2010'
...
---
_id: '1046'
abstract:
- lang: eng
text: The phenomenon of matter-wave interference lies at the heart of quantum physics.
It has been observed in various contexts in the limit of non-interacting particles
as a single-particle effect. Here we observe and control matter-wave interference
whose evolution is driven by interparticle interactions. In a multi-path matter-wave
interferometer, the macroscopic manybody wave function of an interacting atomic
Bose-Einstein condensate develops a regular interference pattern, allowing us
to detect and directly visualize the effect of interaction-induced phase shifts.
We demonstrate control over the phase evolution by inhibiting interaction-induced
dephasing and by refocusing a dephased macroscopic matter wave in a spin-echo-type
experiment. Our results show that interactions in a many-body system lead to a
surprisingly coherent evolution, possibly enabling narrow-band and high-brightness
matterwave interferometers based on atom lasers.
acknowledgement: We thank E Arimondo, O Morsch, W Schleich, A Smerzi, D Witthaut and
A Buchleitner and his group for helpful discussions. We also thank R Grimm for generous
support. We gratefully acknowledge funding from the Austrian Ministry of Science
and Research (Bundesministerium für Wissenschaft und Forschung) and the Austrian
Science Fund (Fonds zur Förderung der wissenschaftlichen Forschung) in the form
of a START prize grant and through SFB 15. RH is supported by a Marie Curie International
Incoming Fellowship within the 7th European Community Framework Programme.
article_processing_charge: No
author:
- first_name: Mattias
full_name: Gustavsson, Mattias
last_name: Gustavsson
- first_name: Elmar
full_name: Haller, Elmar
last_name: Haller
- first_name: Manfred
full_name: Mark, Manfred
last_name: Mark
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Russell
full_name: Hart, Russell
last_name: Hart
- first_name: Andrew
full_name: Daley, Andrew
last_name: Daley
- first_name: Hanns
full_name: Nägerl, Hanns
last_name: Nägerl
citation:
ama: Gustavsson M, Haller E, Mark M, et al. Interference of interacting matter waves.
New Journal of Physics. 2010;12. doi:10.1088/1367-2630/12/6/065029
apa: Gustavsson, M., Haller, E., Mark, M., Danzl, J. G., Hart, R., Daley, A., &
Nägerl, H. (2010). Interference of interacting matter waves. New Journal of
Physics. IOP Publishing Ltd. https://doi.org/10.1088/1367-2630/12/6/065029
chicago: Gustavsson, Mattias, Elmar Haller, Manfred Mark, Johann G Danzl, Russell
Hart, Andrew Daley, and Hanns Nägerl. “Interference of Interacting Matter Waves.”
New Journal of Physics. IOP Publishing Ltd., 2010. https://doi.org/10.1088/1367-2630/12/6/065029.
ieee: M. Gustavsson et al., “Interference of interacting matter waves,” New
Journal of Physics, vol. 12. IOP Publishing Ltd., 2010.
ista: Gustavsson M, Haller E, Mark M, Danzl JG, Hart R, Daley A, Nägerl H. 2010.
Interference of interacting matter waves. New Journal of Physics. 12.
mla: Gustavsson, Mattias, et al. “Interference of Interacting Matter Waves.” New
Journal of Physics, vol. 12, IOP Publishing Ltd., 2010, doi:10.1088/1367-2630/12/6/065029.
short: M. Gustavsson, E. Haller, M. Mark, J.G. Danzl, R. Hart, A. Daley, H. Nägerl,
New Journal of Physics 12 (2010).
date_created: 2018-12-11T11:49:51Z
date_published: 2010-06-28T00:00:00Z
date_updated: 2021-01-12T06:47:53Z
day: '28'
doi: 10.1088/1367-2630/12/6/065029
extern: '1'
fulldoi: https://doi.org/10.1088/1367-2630/12/6/065029
intvolume: ' 12'
language:
- iso: eng
month: '06'
oa_version: None
publication: New Journal of Physics
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '6342'
status: public
title: Interference of interacting matter waves
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2010'
...
---
_id: '1047'
abstract:
- lang: eng
text: Particles in a perfect lattice potential perform Bloch oscillations when subject
to a constant force, leading to localization and preventing conductivity. For
a weakly interacting Bose-Einstein condensate of Cs atoms, we observe giant center-of-mass
oscillations in position space with a displacement across hundreds of lattice
sites when we add a periodic modulation to the force near the Bloch frequency.
We study the dependence of these "super" Bloch oscillations on lattice
depth, modulation amplitude, and modulation frequency and show that they provide
a means to induce linear transport in a dissipation-free lattice.
acknowledgement: We thank A. R. Kolovsky, A. Zenesini, and A. Wacker for discussions
and R. Grimm for generous support. We acknowledge funding by the Austrian Ministry
of Science and Research and the Austrian Science Fund and by the European Union
within the framework of the EuroQUASAR collective research project QuDeGPM. R. H.
is supported by a Marie Curie Action within FP7.
article_processing_charge: No
arxiv: 1
author:
- first_name: Elmar
full_name: Haller, Elmar
last_name: Haller
- first_name: Russell
full_name: Hart, Russell
last_name: Hart
- first_name: Manfred
full_name: Mark, Manfred
last_name: Mark
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Lukas
full_name: Reichsöllner, Lukas
last_name: Reichsöllner
- first_name: Hanns
full_name: Nägerl, Hanns
last_name: Nägerl
citation:
ama: Haller E, Hart R, Mark M, Danzl JG, Reichsöllner L, Nägerl H. Inducing transport
in a dissipation-free lattice with super bloch oscillations. Physical Review
Letters. 2010;104(20). doi:10.1103/PhysRevLett.104.200403
apa: Haller, E., Hart, R., Mark, M., Danzl, J. G., Reichsöllner, L., & Nägerl,
H. (2010). Inducing transport in a dissipation-free lattice with super bloch oscillations.
Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.104.200403
chicago: Haller, Elmar, Russell Hart, Manfred Mark, Johann G Danzl, Lukas Reichsöllner,
and Hanns Nägerl. “Inducing Transport in a Dissipation-Free Lattice with Super
Bloch Oscillations.” Physical Review Letters. American Physical Society,
2010. https://doi.org/10.1103/PhysRevLett.104.200403.
ieee: E. Haller, R. Hart, M. Mark, J. G. Danzl, L. Reichsöllner, and H. Nägerl,
“Inducing transport in a dissipation-free lattice with super bloch oscillations,”
Physical Review Letters, vol. 104, no. 20. American Physical Society, 2010.
ista: Haller E, Hart R, Mark M, Danzl JG, Reichsöllner L, Nägerl H. 2010. Inducing
transport in a dissipation-free lattice with super bloch oscillations. Physical
Review Letters. 104(20).
mla: Haller, Elmar, et al. “Inducing Transport in a Dissipation-Free Lattice with
Super Bloch Oscillations.” Physical Review Letters, vol. 104, no. 20, American
Physical Society, 2010, doi:10.1103/PhysRevLett.104.200403.
short: E. Haller, R. Hart, M. Mark, J.G. Danzl, L. Reichsöllner, H. Nägerl, Physical
Review Letters 104 (2010).
date_created: 2018-12-11T11:49:52Z
date_published: 2010-05-21T00:00:00Z
date_updated: 2021-01-12T06:47:54Z
day: '21'
doi: 10.1103/PhysRevLett.104.200403
extern: '1'
external_id:
arxiv:
- '1001.1206'
fulldoi: https://doi.org/10.1103/PhysRevLett.104.200403
intvolume: ' 104'
issue: '20'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1001.1206
month: '05'
oa: 1
oa_version: Preprint
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '6343'
status: public
title: Inducing transport in a dissipation-free lattice with super bloch oscillations
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 104
year: '2010'
...
---
_id: '1049'
abstract:
- lang: eng
text: Quantum many-body systems can have phase transitions even at zero temperature;
fluctuations arising from Heisenbergĝ€™s uncertainty principle, as opposed to
thermal effects, drive the system from one phase to another. Typically, during
the transition the relative strength of two competing terms in the systemĝ€™s
Hamiltonian changes across a finite critical value. A well-known example is the
Mottĝ€" Hubbard quantum phase transition from a superfluid to an insulating
phase, which has been observed for weakly interacting bosonic atomic gases. However,
for strongly interacting quantum systems confined to lower-dimensional geometry,
a novel type of quantum phase transition may be induced and driven by an arbitrarily
weak perturbation to the Hamiltonian. Here we observe such an effectĝ€"the
sineĝ€"Gordon quantum phase transition from a superfluid Luttinger liquid
to a Mott insulatorĝ€ "in a one-dimensional quantum gas of bosonic caesium
atoms with tunable interactions. For sufficiently strong interactions, the transition
is induced by adding an arbitrarily weak optical lattice commensurate with the
atomic granularity, which leads to immediate pinning of the atoms. We map out
the phase diagram and find that our measurements in the strongly interacting regime
agree well with a quantum field description based on the exactly solvable sineĝ€"Gordon
model. We trace the phase boundary all the way to the weakly interacting regime,
where we find good agreement with the predictions of the one-dimensional Boseĝ€"Hubbard
model. Our results open up the experimental study of quantum phase transitions,
criticality and transport phenomena beyond Hubbard-type models in the context
of ultracold gases.
acknowledgement: We thank W. Zwerger for discussions. We are indebted to R. Grimm
for generous support. We gratefully acknowledge funding by the Austrian Ministry
of Science and Research (Bundesministerium für Wissenschaft und Forschung) and the
Austrian Science Fund (Fonds zur Förderung der wissenschaftlichen Forschung) in
the form of a START prize grant, and by the European Union through the STREP FP7-ICT-2007-C
project NAME-QUAM (Nanodesigning of Atomic and Molecular Quantum Matter) and within
the framework of the EuroQUASAR collective research project QuDeGPM. R.H. is supported
by a Marie Curie International Incoming Fellowship within the 7th European Community
Framework Programme.
article_processing_charge: No
arxiv: 1
author:
- first_name: Elmar
full_name: Haller, Elmar
last_name: Haller
- first_name: Russell
full_name: Hart, Russell
last_name: Hart
- first_name: Manfred
full_name: Mark, Manfred
last_name: Mark
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Lukas
full_name: Reichsöllner, Lukas
last_name: Reichsöllner
- first_name: Mattias
full_name: Gustavsson, Mattias
last_name: Gustavsson
- first_name: Marcello
full_name: Dalmonte, Marcello
last_name: Dalmonte
- first_name: Guido
full_name: Pupillo, Guido
last_name: Pupillo
- first_name: Hanns
full_name: Nägerl, Hanns
last_name: Nägerl
citation:
ama: Haller E, Hart R, Mark M, et al. Pinning quantum phase transition for a Luttinger
liquid of strongly interacting bosons. Nature. 2010;466(7306):597-600.
doi:10.1038/nature09259
apa: Haller, E., Hart, R., Mark, M., Danzl, J. G., Reichsöllner, L., Gustavsson,
M., … Nägerl, H. (2010). Pinning quantum phase transition for a Luttinger liquid
of strongly interacting bosons. Nature. Nature Publishing Group. https://doi.org/10.1038/nature09259
chicago: Haller, Elmar, Russell Hart, Manfred Mark, Johann G Danzl, Lukas Reichsöllner,
Mattias Gustavsson, Marcello Dalmonte, Guido Pupillo, and Hanns Nägerl. “Pinning
Quantum Phase Transition for a Luttinger Liquid of Strongly Interacting Bosons.”
Nature. Nature Publishing Group, 2010. https://doi.org/10.1038/nature09259.
ieee: E. Haller et al., “Pinning quantum phase transition for a Luttinger
liquid of strongly interacting bosons,” Nature, vol. 466, no. 7306. Nature
Publishing Group, pp. 597–600, 2010.
ista: Haller E, Hart R, Mark M, Danzl JG, Reichsöllner L, Gustavsson M, Dalmonte
M, Pupillo G, Nägerl H. 2010. Pinning quantum phase transition for a Luttinger
liquid of strongly interacting bosons. Nature. 466(7306), 597–600.
mla: Haller, Elmar, et al. “Pinning Quantum Phase Transition for a Luttinger Liquid
of Strongly Interacting Bosons.” Nature, vol. 466, no. 7306, Nature Publishing
Group, 2010, pp. 597–600, doi:10.1038/nature09259.
short: E. Haller, R. Hart, M. Mark, J.G. Danzl, L. Reichsöllner, M. Gustavsson,
M. Dalmonte, G. Pupillo, H. Nägerl, Nature 466 (2010) 597–600.
date_created: 2018-12-11T11:49:52Z
date_published: 2010-07-29T00:00:00Z
date_updated: 2021-01-12T06:47:54Z
day: '29'
doi: 10.1038/nature09259
extern: '1'
external_id:
arxiv:
- '1004.3168'
fulldoi: https://doi.org/10.1038/nature09259
intvolume: ' 466'
issue: '7306'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1004.3168
month: '07'
oa: 1
oa_version: Preprint
page: 597 - 600
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '6341'
status: public
title: Pinning quantum phase transition for a Luttinger liquid of strongly interacting
bosons
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 466
year: '2010'
...
---
_id: '758'
abstract:
- lang: eng
text: Set agreement [4] is a fundamental problem in distributed computing, in which
processes collectively choose a small subset of values from a larger set of proposals.
Set agreement has been extensively studied in both synchronous and asynchronous
systems [10,11,3,5,8,9]. Real world distributed systems, however, are neither
purely synchronous nor purely asynchronous. To describe such a system, Dwork et
al. [6] introduced the idea of partial synchrony. They assume for every execution
some (unknown) time GST (global stabilization time), after which the system is
synchronous. In a recent paper [1,2], we study the complexity of set agreement
in the context of partially synchronous systems, determining the minimum-sized
window of synchrony in which set agreement can be solved. We show that at least
⌊t/k⌋ + 2 synchronous rounds are required for k-set agreement, where t < n
is the number of crashes, and k is the agreement parameter of the set agreement
task. We then introduce an algorithm that terminates in any window of synchrony
of size at least ⌊t/k⌋ + 4 rounds. Together, these results tightly bound the inherent
price of tolerating some asynchrony.
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Dan-Adrian
full_name: Alistarh, Dan-Adrian
id: 4A899BFC-F248-11E8-B48F-1D18A9856A87
last_name: Alistarh
orcid: 0000-0003-3650-940X
- first_name: Seth
full_name: Gilbert, Seth
last_name: Gilbert
- first_name: Rachid
full_name: Guerraoui, Rachid
last_name: Guerraoui
- first_name: Corentin
full_name: Travers, Corentin
last_name: Travers
citation:
ama: 'Alistarh D-A, Gilbert S, Guerraoui R, Travers C. Brief announcement: New bounds
for partially synchronous set agreement. In: Vol 6343 LNCS. Springer; 2010:404-405.
doi:10.1007/978-3-642-15763-9_40'
apa: 'Alistarh, D.-A., Gilbert, S., Guerraoui, R., & Travers, C. (2010). Brief
announcement: New bounds for partially synchronous set agreement (Vol. 6343 LNCS,
pp. 404–405). Presented at the DISC: Distributed Computing, Springer. https://doi.org/10.1007/978-3-642-15763-9_40'
chicago: 'Alistarh, Dan-Adrian, Seth Gilbert, Rachid Guerraoui, and Corentin Travers.
“Brief Announcement: New Bounds for Partially Synchronous Set Agreement,” 6343
LNCS:404–5. Springer, 2010. https://doi.org/10.1007/978-3-642-15763-9_40.'
ieee: 'D.-A. Alistarh, S. Gilbert, R. Guerraoui, and C. Travers, “Brief announcement:
New bounds for partially synchronous set agreement,” presented at the DISC: Distributed
Computing, 2010, vol. 6343 LNCS, pp. 404–405.'
ista: 'Alistarh D-A, Gilbert S, Guerraoui R, Travers C. 2010. Brief announcement:
New bounds for partially synchronous set agreement. DISC: Distributed Computing,
LNCS, vol. 6343 LNCS, 404–405.'
mla: 'Alistarh, Dan-Adrian, et al. Brief Announcement: New Bounds for Partially
Synchronous Set Agreement. Vol. 6343 LNCS, Springer, 2010, pp. 404–05, doi:10.1007/978-3-642-15763-9_40.'
short: D.-A. Alistarh, S. Gilbert, R. Guerraoui, C. Travers, in:, Springer, 2010,
pp. 404–405.
conference:
name: 'DISC: Distributed Computing'
date_created: 2018-12-11T11:48:21Z
date_published: 2010-01-01T00:00:00Z
date_updated: 2023-02-23T13:11:26Z
day: '01'
doi: 10.1007/978-3-642-15763-9_40
extern: '1'
fulldoi: https://doi.org/10.1007/978-3-642-15763-9_40
language:
- iso: eng
month: '01'
oa_version: None
page: 404 - 405
publication_status: published
publisher: Springer
publist_id: '6899'
status: public
title: 'Brief announcement: New bounds for partially synchronous set agreement'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 6343 LNCS
year: '2010'
...
---
_id: '7703'
abstract:
- lang: eng
text: By combining gene expression profiling with image registration, Tomer et al.
(2010) find that the mushroom body of the segmented worm Platynereis dumerilii
shares many features with the mammalian cerebral cortex. The authors propose that
the mushroom body and cortex evolved from the same structure in the common ancestor
of vertebrates and invertebrates.
article_processing_charge: No
article_type: original
author:
- first_name: Lora Beatrice Jaeger
full_name: Sweeney, Lora Beatrice Jaeger
id: 56BE8254-C4F0-11E9-8E45-0B23E6697425
last_name: Sweeney
orcid: 0000-0001-9242-5601
- first_name: Liqun
full_name: Luo, Liqun
last_name: Luo
citation:
ama: 'Sweeney LB, Luo L. ‘Fore brain: A hint of the ancestral cortex. Cell.
2010;142(5):679-681. doi:10.1016/j.cell.2010.08.024'
apa: 'Sweeney, L. B., & Luo, L. (2010). ‘Fore brain: A hint of the ancestral
cortex. Cell. Elsevier. https://doi.org/10.1016/j.cell.2010.08.024'
chicago: 'Sweeney, Lora B., and Liqun Luo. “‘Fore Brain: A Hint of the Ancestral
Cortex.” Cell. Elsevier, 2010. https://doi.org/10.1016/j.cell.2010.08.024.'
ieee: 'L. B. Sweeney and L. Luo, “‘Fore brain: A hint of the ancestral cortex,”
Cell, vol. 142, no. 5. Elsevier, pp. 679–681, 2010.'
ista: 'Sweeney LB, Luo L. 2010. ‘Fore brain: A hint of the ancestral cortex. Cell.
142(5), 679–681.'
mla: 'Sweeney, Lora B., and Liqun Luo. “‘Fore Brain: A Hint of the Ancestral Cortex.”
Cell, vol. 142, no. 5, Elsevier, 2010, pp. 679–81, doi:10.1016/j.cell.2010.08.024.'
short: L.B. Sweeney, L. Luo, Cell 142 (2010) 679–681.
date_created: 2020-04-30T10:36:52Z
date_published: 2010-09-03T00:00:00Z
date_updated: 2024-01-31T10:14:59Z
day: '03'
doi: 10.1016/j.cell.2010.08.024
extern: '1'
fulldoi: https://doi.org/10.1016/j.cell.2010.08.024
intvolume: ' 142'
issue: '5'
language:
- iso: eng
month: '09'
oa_version: None
page: 679-681
publication: Cell
publication_identifier:
issn:
- 0092-8674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: '‘Fore brain: A hint of the ancestral cortex'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 142
year: '2010'
...
---
_id: '8472'
abstract:
- lang: eng
text: Characterization of protein dynamics by solid-state NMR spectroscopy requires
robust and accurate measurement protocols, which are not yet fully developed.
In this study, we investigate the backbone dynamics of microcrystalline ubiquitin
using different approaches. A rotational-echo double-resonance type (REDOR-type)
methodology allows one to accurately measure 1H−15N order parameters in highly
deuterated samples. We show that the systematic errors in the REDOR experiment
are as low as 1% or even less, giving access to accurate data for the amplitudes
of backbone mobility. Combining such dipolar-coupling-derived order parameters
with autocorrelated and cross-correlated 15N relaxation rates, we are able to
quantitate amplitudes and correlation times of backbone dynamics on picosecond
and nanosecond time scales in a residue-resolved manner. While the mobility on
picosecond time scales appears to have rather uniform amplitude throughout the
protein, we unambiguously identify and quantitate nanosecond mobility with order
parameters S2 as low as 0.8 in some regions of the protein, where nanosecond dynamics
has also been revealed in solution state. The methodology used here, a combination
of accurate dipolar-coupling measurements and different relaxation parameters,
yields details about dynamics on different time scales and can be applied to solid
protein samples such as amyloid fibrils or membrane proteins.
article_processing_charge: No
article_type: original
author:
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Beat H.
full_name: Meier, Beat H.
last_name: Meier
- first_name: Matthias
full_name: Ernst, Matthias
last_name: Ernst
citation:
ama: Schanda P, Meier BH, Ernst M. Quantitative analysis of protein backbone dynamics
in microcrystalline ubiquitin by solid-state NMR spectroscopy. Journal of the
American Chemical Society. 2010;132(45):15957-15967. doi:10.1021/ja100726a
apa: Schanda, P., Meier, B. H., & Ernst, M. (2010). Quantitative analysis of
protein backbone dynamics in microcrystalline ubiquitin by solid-state NMR spectroscopy.
Journal of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/ja100726a
chicago: Schanda, Paul, Beat H. Meier, and Matthias Ernst. “Quantitative Analysis
of Protein Backbone Dynamics in Microcrystalline Ubiquitin by Solid-State NMR
Spectroscopy.” Journal of the American Chemical Society. American Chemical
Society, 2010. https://doi.org/10.1021/ja100726a.
ieee: P. Schanda, B. H. Meier, and M. Ernst, “Quantitative analysis of protein backbone
dynamics in microcrystalline ubiquitin by solid-state NMR spectroscopy,” Journal
of the American Chemical Society, vol. 132, no. 45. American Chemical Society,
pp. 15957–15967, 2010.
ista: Schanda P, Meier BH, Ernst M. 2010. Quantitative analysis of protein backbone
dynamics in microcrystalline ubiquitin by solid-state NMR spectroscopy. Journal
of the American Chemical Society. 132(45), 15957–15967.
mla: Schanda, Paul, et al. “Quantitative Analysis of Protein Backbone Dynamics in
Microcrystalline Ubiquitin by Solid-State NMR Spectroscopy.” Journal of the
American Chemical Society, vol. 132, no. 45, American Chemical Society, 2010,
pp. 15957–67, doi:10.1021/ja100726a.
short: P. Schanda, B.H. Meier, M. Ernst, Journal of the American Chemical Society
132 (2010) 15957–15967.
date_created: 2020-09-18T10:11:13Z
date_published: 2010-10-26T00:00:00Z
date_updated: 2021-01-12T08:19:30Z
day: '26'
doi: 10.1021/ja100726a
extern: '1'
fulldoi: https://doi.org/10.1021/ja100726a
intvolume: ' 132'
issue: '45'
language:
- iso: eng
month: '10'
oa_version: None
page: 15957-15967
publication: Journal of the American Chemical Society
publication_identifier:
issn:
- 0002-7863
- 1520-5126
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
status: public
title: Quantitative analysis of protein backbone dynamics in microcrystalline ubiquitin
by solid-state NMR spectroscopy
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 132
year: '2010'
...
---
_id: '8473'
abstract:
- lang: eng
text: β2-microglobulin (β2m), the light chain of class I major histocompatibility
complex, is responsible for the dialysis-related amyloidosis and, in patients
undergoing long term dialysis, the full-length and chemically unmodified β2m converts
into amyloid fibrils. The protein, belonging to the immunoglobulin superfamily,
in common to other members of this family, experiences during its folding a long-lived
intermediate associated to the trans-to-cis isomerization of Pro-32 that has been
addressed as the precursor of the amyloid fibril formation. In this respect, previous
studies on the W60G β2m mutant, showing that the lack of Trp-60 prevents fibril
formation in mild aggregating condition, prompted us to reinvestigate the refolding
kinetics of wild type and W60G β2m at atomic resolution by real-time NMR. The
analysis, conducted at ambient temperature by the band selective flip angle short
transient real-time two-dimensional NMR techniques and probing the β2m states
every 15 s, revealed a more complex folding energy landscape than previously reported
for wild type β2m, involving more than a single intermediate species, and shedding
new light into the fibrillogenic pathway. Moreover, a significant difference in
the kinetic scheme previously characterized by optical spectroscopic methods was
discovered for the W60G β2m mutant.
article_processing_charge: No
article_type: original
author:
- first_name: Alessandra
full_name: Corazza, Alessandra
last_name: Corazza
- first_name: Enrico
full_name: Rennella, Enrico
last_name: Rennella
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Maria Chiara
full_name: Mimmi, Maria Chiara
last_name: Mimmi
- first_name: Thomas
full_name: Cutuil, Thomas
last_name: Cutuil
- first_name: Sara
full_name: Raimondi, Sara
last_name: Raimondi
- first_name: Sofia
full_name: Giorgetti, Sofia
last_name: Giorgetti
- first_name: Federico
full_name: Fogolari, Federico
last_name: Fogolari
- first_name: Paolo
full_name: Viglino, Paolo
last_name: Viglino
- first_name: Lucio
full_name: Frydman, Lucio
last_name: Frydman
- first_name: Maayan
full_name: Gal, Maayan
last_name: Gal
- first_name: Vittorio
full_name: Bellotti, Vittorio
last_name: Bellotti
- first_name: Bernhard
full_name: Brutscher, Bernhard
last_name: Brutscher
- first_name: Gennaro
full_name: Esposito, Gennaro
last_name: Esposito
citation:
ama: Corazza A, Rennella E, Schanda P, et al. Native-unlike long-lived intermediates
along the folding pathway of the amyloidogenic protein β2-Microglobulin revealed
by real-time two-dimensional NMR. Journal of Biological Chemistry. 2010;285(8):5827-5835.
doi:10.1074/jbc.m109.061168
apa: Corazza, A., Rennella, E., Schanda, P., Mimmi, M. C., Cutuil, T., Raimondi,
S., … Esposito, G. (2010). Native-unlike long-lived intermediates along the folding
pathway of the amyloidogenic protein β2-Microglobulin revealed by real-time two-dimensional
NMR. Journal of Biological Chemistry. American Society for Biochemistry
& Molecular Biology. https://doi.org/10.1074/jbc.m109.061168
chicago: Corazza, Alessandra, Enrico Rennella, Paul Schanda, Maria Chiara Mimmi,
Thomas Cutuil, Sara Raimondi, Sofia Giorgetti, et al. “Native-Unlike Long-Lived
Intermediates along the Folding Pathway of the Amyloidogenic Protein Β2-Microglobulin
Revealed by Real-Time Two-Dimensional NMR.” Journal of Biological Chemistry.
American Society for Biochemistry & Molecular Biology, 2010. https://doi.org/10.1074/jbc.m109.061168.
ieee: A. Corazza et al., “Native-unlike long-lived intermediates along the
folding pathway of the amyloidogenic protein β2-Microglobulin revealed by real-time
two-dimensional NMR,” Journal of Biological Chemistry, vol. 285, no. 8.
American Society for Biochemistry & Molecular Biology, pp. 5827–5835, 2010.
ista: Corazza A, Rennella E, Schanda P, Mimmi MC, Cutuil T, Raimondi S, Giorgetti
S, Fogolari F, Viglino P, Frydman L, Gal M, Bellotti V, Brutscher B, Esposito
G. 2010. Native-unlike long-lived intermediates along the folding pathway of the
amyloidogenic protein β2-Microglobulin revealed by real-time two-dimensional NMR.
Journal of Biological Chemistry. 285(8), 5827–5835.
mla: Corazza, Alessandra, et al. “Native-Unlike Long-Lived Intermediates along the
Folding Pathway of the Amyloidogenic Protein Β2-Microglobulin Revealed by Real-Time
Two-Dimensional NMR.” Journal of Biological Chemistry, vol. 285, no. 8,
American Society for Biochemistry & Molecular Biology, 2010, pp. 5827–35,
doi:10.1074/jbc.m109.061168.
short: A. Corazza, E. Rennella, P. Schanda, M.C. Mimmi, T. Cutuil, S. Raimondi,
S. Giorgetti, F. Fogolari, P. Viglino, L. Frydman, M. Gal, V. Bellotti, B. Brutscher,
G. Esposito, Journal of Biological Chemistry 285 (2010) 5827–5835.
date_created: 2020-09-18T10:11:23Z
date_published: 2010-02-19T00:00:00Z
date_updated: 2021-01-12T08:19:31Z
day: '19'
doi: 10.1074/jbc.m109.061168
extern: '1'
fulldoi: https://doi.org/10.1074/jbc.m109.061168
intvolume: ' 285'
issue: '8'
keyword:
- Cell Biology
- Biochemistry
- Molecular Biology
language:
- iso: eng
month: '02'
oa_version: None
page: 5827-5835
publication: Journal of Biological Chemistry
publication_identifier:
issn:
- 0021-9258
- 1083-351X
publication_status: published
publisher: American Society for Biochemistry & Molecular Biology
quality_controlled: '1'
status: public
title: Native-unlike long-lived intermediates along the folding pathway of the amyloidogenic
protein β2-Microglobulin revealed by real-time two-dimensional NMR
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 285
year: '2010'
...
---
_id: '8506'
article_processing_charge: No
author:
- first_name: Brian R.
full_name: Hunt, Brian R.
last_name: Hunt
- first_name: Vadim
full_name: Kaloshin, Vadim
id: FE553552-CDE8-11E9-B324-C0EBE5697425
last_name: Kaloshin
orcid: 0000-0002-6051-2628
citation:
ama: 'Hunt BR, Kaloshin V. Prevalence. In: Handbook of Dynamical Systems.
Vol 3. Elsevier; 2010:43-87. doi:10.1016/s1874-575x(10)00310-3'
apa: Hunt, B. R., & Kaloshin, V. (2010). Prevalence. In Handbook of Dynamical
Systems (Vol. 3, pp. 43–87). Elsevier. https://doi.org/10.1016/s1874-575x(10)00310-3
chicago: Hunt, Brian R., and Vadim Kaloshin. “Prevalence.” In Handbook of Dynamical
Systems, 3:43–87. Elsevier, 2010. https://doi.org/10.1016/s1874-575x(10)00310-3.
ieee: B. R. Hunt and V. Kaloshin, “Prevalence,” in Handbook of Dynamical Systems,
vol. 3, Elsevier, 2010, pp. 43–87.
ista: 'Hunt BR, Kaloshin V. 2010.Prevalence. In: Handbook of Dynamical Systems.
vol. 3, 43–87.'
mla: Hunt, Brian R., and Vadim Kaloshin. “Prevalence.” Handbook of Dynamical
Systems, vol. 3, Elsevier, 2010, pp. 43–87, doi:10.1016/s1874-575x(10)00310-3.
short: B.R. Hunt, V. Kaloshin, in:, Handbook of Dynamical Systems, Elsevier, 2010,
pp. 43–87.
date_created: 2020-09-18T10:47:48Z
date_published: 2010-01-01T00:00:00Z
date_updated: 2021-01-12T08:19:45Z
day: '01'
doi: 10.1016/s1874-575x(10)00310-3
extern: '1'
fulldoi: https://doi.org/10.1016/s1874-575x(10)00310-3
intvolume: ' 3'
language:
- iso: eng
month: '01'
oa_version: None
page: 43-87
publication: Handbook of Dynamical Systems
publication_identifier:
isbn:
- '9780444531414'
issn:
- 1874-575X
publication_status: published
publisher: Elsevier
quality_controlled: '1'
status: public
title: Prevalence
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 3
year: '2010'
...