---
_id: '11089'
abstract:
- lang: eng
text: The Nuclear Envelope (NE) contains over 100 different proteins that associate
with nuclear components such as chromatin, the lamina and the transcription machinery.
Mutations in genes encoding NE proteins have been shown to result in tissue-specific
defects and disease, suggesting cell-type specific differences in NE composition
and function. Consistent with these observations, recent studies have revealed
unexpected functions for numerous NE associated proteins during cell differentiation
and development. Here we review the latest insights into the roles played by the
NE in cell differentiation, development, disease and aging, focusing primarily
on inner nuclear membrane (INM) proteins and nuclear pore components.
article_processing_charge: No
article_type: original
author:
- first_name: J Sebastian
full_name: Gomez-Cavazos, J Sebastian
last_name: Gomez-Cavazos
- first_name: Martin W
full_name: HETZER, Martin W
id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
last_name: HETZER
orcid: 0000-0002-2111-992X
citation:
ama: 'Gomez-Cavazos JS, Hetzer M. Outfits for different occasions: tissue-specific
roles of Nuclear Envelope proteins. Current Opinion in Cell Biology. 2012;24(6):775-783.
doi:10.1016/j.ceb.2012.08.008'
apa: 'Gomez-Cavazos, J. S., & Hetzer, M. (2012). Outfits for different occasions:
tissue-specific roles of Nuclear Envelope proteins. Current Opinion in Cell
Biology. Elsevier. https://doi.org/10.1016/j.ceb.2012.08.008'
chicago: 'Gomez-Cavazos, J Sebastian, and Martin Hetzer. “Outfits for Different
Occasions: Tissue-Specific Roles of Nuclear Envelope Proteins.” Current Opinion
in Cell Biology. Elsevier, 2012. https://doi.org/10.1016/j.ceb.2012.08.008.'
ieee: 'J. S. Gomez-Cavazos and M. Hetzer, “Outfits for different occasions: tissue-specific
roles of Nuclear Envelope proteins,” Current Opinion in Cell Biology, vol.
24, no. 6. Elsevier, pp. 775–783, 2012.'
ista: 'Gomez-Cavazos JS, Hetzer M. 2012. Outfits for different occasions: tissue-specific
roles of Nuclear Envelope proteins. Current Opinion in Cell Biology. 24(6), 775–783.'
mla: 'Gomez-Cavazos, J. Sebastian, and Martin Hetzer. “Outfits for Different Occasions:
Tissue-Specific Roles of Nuclear Envelope Proteins.” Current Opinion in Cell
Biology, vol. 24, no. 6, Elsevier, 2012, pp. 775–83, doi:10.1016/j.ceb.2012.08.008.'
short: J.S. Gomez-Cavazos, M. Hetzer, Current Opinion in Cell Biology 24 (2012)
775–783.
date_created: 2022-04-07T07:51:37Z
date_published: 2012-12-01T00:00:00Z
date_updated: 2022-07-18T08:38:47Z
day: '01'
doi: 10.1016/j.ceb.2012.08.008
extern: '1'
external_id:
pmid:
- '22995343'
intvolume: ' 24'
issue: '6'
keyword:
- Cell Biology
language:
- iso: eng
month: '12'
oa_version: None
page: 775-783
pmid: 1
publication: Current Opinion in Cell Biology
publication_identifier:
issn:
- 0955-0674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Outfits for different occasions: tissue-specific roles of Nuclear Envelope
proteins'
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 24
year: '2012'
...
---
_id: '11090'
abstract:
- lang: eng
text: Nuclear export of mRNAs is thought to occur exclusively through nuclear pore
complexes. In this issue of Cell, Speese et al. identify an alternate pathway
for mRNA export in muscle cells where ribonucleoprotein complexes involved in
forming neuromuscular junctions transit the nuclear envelope by fusing with and
budding through the nuclear membrane.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Emily M.
full_name: Hatch, Emily M.
last_name: Hatch
- first_name: Martin W
full_name: HETZER, Martin W
id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
last_name: HETZER
orcid: 0000-0002-2111-992X
citation:
ama: Hatch EM, Hetzer M. RNP export by nuclear envelope budding. Cell. 2012;149(4):733-735.
doi:10.1016/j.cell.2012.04.018
apa: Hatch, E. M., & Hetzer, M. (2012). RNP export by nuclear envelope budding.
Cell. Elsevier. https://doi.org/10.1016/j.cell.2012.04.018
chicago: Hatch, Emily M., and Martin Hetzer. “RNP Export by Nuclear Envelope Budding.”
Cell. Elsevier, 2012. https://doi.org/10.1016/j.cell.2012.04.018.
ieee: E. M. Hatch and M. Hetzer, “RNP export by nuclear envelope budding,” Cell,
vol. 149, no. 4. Elsevier, pp. 733–735, 2012.
ista: Hatch EM, Hetzer M. 2012. RNP export by nuclear envelope budding. Cell. 149(4),
733–735.
mla: Hatch, Emily M., and Martin Hetzer. “RNP Export by Nuclear Envelope Budding.”
Cell, vol. 149, no. 4, Elsevier, 2012, pp. 733–35, doi:10.1016/j.cell.2012.04.018.
short: E.M. Hatch, M. Hetzer, Cell 149 (2012) 733–735.
date_created: 2022-04-07T07:51:45Z
date_published: 2012-05-11T00:00:00Z
date_updated: 2022-07-18T08:58:48Z
day: '11'
doi: 10.1016/j.cell.2012.04.018
extern: '1'
external_id:
pmid:
- '22579277'
intvolume: ' 149'
issue: '4'
keyword:
- General Biochemistry
- Genetics and Molecular Biology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.cell.2012.04.018
month: '05'
oa: 1
oa_version: Published Version
page: 733-735
pmid: 1
publication: Cell
publication_identifier:
issn:
- 0092-8674
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: RNP export by nuclear envelope budding
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 149
year: '2012'
...
---
_id: '11091'
abstract:
- lang: eng
text: Neoplastic cells are often characterized by specific morphological abnormalities
of the nuclear envelope (NE), which have been used for cancer diagnosis for more
than a century. The NE is a double phospholipid bilayer that encapsulates the
nuclear genome, regulates all nuclear trafficking of RNAs and proteins and prevents
the passive diffusion of macromolecules between the nucleoplasm and the cytoplasm.
Whether there is a consequence to the proper functioning of the cell and loss
of structural integrity of the nucleus remains unclear. Using live cell imaging,
we characterize a phenomenon wherein nuclei of several proliferating human cancer
cell lines become temporarily ruptured during interphase. Strikingly, NE rupturing
was associated with the mislocalization of nucleoplasmic and cytoplasmic proteins
and, in the most extreme cases, the entrapment of cytoplasmic organelles in the
nuclear interior. In addition, we observed the formation of micronuclei-like structures
during interphase and the movement of chromatin out of the nuclear space. The
frequency of these NE rupturing events was higher in cells in which the nuclear
lamina, a network of intermediate filaments providing mechanical support to the
NE, was not properly formed. Our data uncover the existence of a NE instability
that has the potential to change the genomic landscape of cancer cells.
article_processing_charge: No
article_type: original
author:
- first_name: Jesse D.
full_name: Vargas, Jesse D.
last_name: Vargas
- first_name: Emily M.
full_name: Hatch, Emily M.
last_name: Hatch
- first_name: Daniel J.
full_name: Anderson, Daniel J.
last_name: Anderson
- first_name: Martin W
full_name: HETZER, Martin W
id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
last_name: HETZER
orcid: 0000-0002-2111-992X
citation:
ama: Vargas JD, Hatch EM, Anderson DJ, Hetzer M. Transient nuclear envelope rupturing
during interphase in human cancer cells. Nucleus. 2012;3(1):88-100. doi:10.4161/nucl.18954
apa: Vargas, J. D., Hatch, E. M., Anderson, D. J., & Hetzer, M. (2012). Transient
nuclear envelope rupturing during interphase in human cancer cells. Nucleus.
Taylor & Francis. https://doi.org/10.4161/nucl.18954
chicago: Vargas, Jesse D., Emily M. Hatch, Daniel J. Anderson, and Martin Hetzer.
“Transient Nuclear Envelope Rupturing during Interphase in Human Cancer Cells.”
Nucleus. Taylor & Francis, 2012. https://doi.org/10.4161/nucl.18954.
ieee: J. D. Vargas, E. M. Hatch, D. J. Anderson, and M. Hetzer, “Transient nuclear
envelope rupturing during interphase in human cancer cells,” Nucleus, vol.
3, no. 1. Taylor & Francis, pp. 88–100, 2012.
ista: Vargas JD, Hatch EM, Anderson DJ, Hetzer M. 2012. Transient nuclear envelope
rupturing during interphase in human cancer cells. Nucleus. 3(1), 88–100.
mla: Vargas, Jesse D., et al. “Transient Nuclear Envelope Rupturing during Interphase
in Human Cancer Cells.” Nucleus, vol. 3, no. 1, Taylor & Francis, 2012,
pp. 88–100, doi:10.4161/nucl.18954.
short: J.D. Vargas, E.M. Hatch, D.J. Anderson, M. Hetzer, Nucleus 3 (2012) 88–100.
date_created: 2022-04-07T07:51:53Z
date_published: 2012-01-01T00:00:00Z
date_updated: 2022-07-18T08:52:53Z
day: '01'
doi: 10.4161/nucl.18954
extern: '1'
external_id:
pmid:
- '22567193'
intvolume: ' 3'
issue: '1'
keyword:
- Cell Biology
language:
- iso: eng
month: '01'
oa_version: None
page: 88-100
pmid: 1
publication: Nucleus
publication_identifier:
eissn:
- 1949-1042
issn:
- 1949-1034
publication_status: published
publisher: Taylor & Francis
quality_controlled: '1'
scopus_import: '1'
status: public
title: Transient nuclear envelope rupturing during interphase in human cancer cells
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 3
year: '2012'
...
---
_id: '11092'
abstract:
- lang: eng
text: To combat the functional decline of the proteome, cells use the process of
protein turnover to replace potentially impaired polypeptides with new functional
copies. We found that extremely long-lived proteins (ELLPs) did not turn over
in postmitotic cells of the rat central nervous system. These ELLPs were associated
with chromatin and the nuclear pore complex, the central transport channels that
mediate all molecular trafficking in and out of the nucleus. The longevity of
these proteins would be expected to expose them to potentially harmful metabolites,
putting them at risk of accumulating damage over extended periods of time. Thus,
it is possible that failure to maintain proper levels and functional integrity
of ELLPs in nonproliferative cells might contribute to age-related deterioration
in cell and tissue function.
article_processing_charge: No
article_type: letter_note
author:
- first_name: Jeffrey N.
full_name: Savas, Jeffrey N.
last_name: Savas
- first_name: Brandon H.
full_name: Toyama, Brandon H.
last_name: Toyama
- first_name: Tao
full_name: Xu, Tao
last_name: Xu
- first_name: John R.
full_name: Yates, John R.
last_name: Yates
- first_name: Martin W
full_name: HETZER, Martin W
id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
last_name: HETZER
orcid: 0000-0002-2111-992X
citation:
ama: Savas JN, Toyama BH, Xu T, Yates JR, Hetzer M. Extremely long-lived nuclear
pore proteins in the rat brain. Science. 2012;335(6071):942-942. doi:10.1126/science.1217421
apa: Savas, J. N., Toyama, B. H., Xu, T., Yates, J. R., & Hetzer, M. (2012).
Extremely long-lived nuclear pore proteins in the rat brain. Science. American
Association for the Advancement of Science. https://doi.org/10.1126/science.1217421
chicago: Savas, Jeffrey N., Brandon H. Toyama, Tao Xu, John R. Yates, and Martin
Hetzer. “Extremely Long-Lived Nuclear Pore Proteins in the Rat Brain.” Science.
American Association for the Advancement of Science, 2012. https://doi.org/10.1126/science.1217421.
ieee: J. N. Savas, B. H. Toyama, T. Xu, J. R. Yates, and M. Hetzer, “Extremely long-lived
nuclear pore proteins in the rat brain,” Science, vol. 335, no. 6071. American
Association for the Advancement of Science, pp. 942–942, 2012.
ista: Savas JN, Toyama BH, Xu T, Yates JR, Hetzer M. 2012. Extremely long-lived
nuclear pore proteins in the rat brain. Science. 335(6071), 942–942.
mla: Savas, Jeffrey N., et al. “Extremely Long-Lived Nuclear Pore Proteins in the
Rat Brain.” Science, vol. 335, no. 6071, American Association for the Advancement
of Science, 2012, pp. 942–942, doi:10.1126/science.1217421.
short: J.N. Savas, B.H. Toyama, T. Xu, J.R. Yates, M. Hetzer, Science 335 (2012)
942–942.
date_created: 2022-04-07T07:52:01Z
date_published: 2012-02-02T00:00:00Z
date_updated: 2022-07-18T08:53:06Z
day: '02'
doi: 10.1126/science.1217421
extern: '1'
external_id:
pmid:
- '22300851'
intvolume: ' 335'
issue: '6071'
keyword:
- Multidisciplinary
language:
- iso: eng
month: '02'
oa_version: None
page: 942-942
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: Extremely long-lived nuclear pore proteins in the rat brain
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 335
year: '2012'
...
---
_id: '11093'
abstract:
- lang: eng
text: Nuclear pore complexes (NPCs) are built from ∼30 different proteins called
nucleoporins or Nups. Previous studies have shown that several Nups exhibit cell-type-specific
expression and that mutations in NPC components result in tissue-specific diseases.
Here we show that a specific change in NPC composition is required for both myogenic
and neuronal differentiation. The transmembrane nucleoporin Nup210 is absent in
proliferating myoblasts and embryonic stem cells (ESCs) but becomes expressed
and incorporated into NPCs during cell differentiation. Preventing Nup210 production
by RNAi blocks myogenesis and the differentiation of ESCs into neuroprogenitors.
We found that the addition of Nup210 to NPCs does not affect nuclear transport
but is required for the induction of genes that are essential for cell differentiation.
Our results identify a single change in NPC composition as an essential step in
cell differentiation and establish a role for Nup210 in gene expression regulation
and cell fate determination.
article_processing_charge: No
article_type: original
author:
- first_name: Maximiliano A.
full_name: D'Angelo, Maximiliano A.
last_name: D'Angelo
- first_name: J. Sebastian
full_name: Gomez-Cavazos, J. Sebastian
last_name: Gomez-Cavazos
- first_name: Arianna
full_name: Mei, Arianna
last_name: Mei
- first_name: Daniel H.
full_name: Lackner, Daniel H.
last_name: Lackner
- first_name: Martin W
full_name: HETZER, Martin W
id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
last_name: HETZER
orcid: 0000-0002-2111-992X
citation:
ama: D’Angelo MA, Gomez-Cavazos JS, Mei A, Lackner DH, Hetzer M. A change in nuclear
pore complex composition regulates cell differentiation. Developmental Cell.
2012;22(2):446-458. doi:10.1016/j.devcel.2011.11.021
apa: D’Angelo, M. A., Gomez-Cavazos, J. S., Mei, A., Lackner, D. H., & Hetzer,
M. (2012). A change in nuclear pore complex composition regulates cell differentiation.
Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2011.11.021
chicago: D’Angelo, Maximiliano A., J. Sebastian Gomez-Cavazos, Arianna Mei, Daniel H.
Lackner, and Martin Hetzer. “A Change in Nuclear Pore Complex Composition Regulates
Cell Differentiation.” Developmental Cell. Elsevier, 2012. https://doi.org/10.1016/j.devcel.2011.11.021.
ieee: M. A. D’Angelo, J. S. Gomez-Cavazos, A. Mei, D. H. Lackner, and M. Hetzer,
“A change in nuclear pore complex composition regulates cell differentiation,”
Developmental Cell, vol. 22, no. 2. Elsevier, pp. 446–458, 2012.
ista: D’Angelo MA, Gomez-Cavazos JS, Mei A, Lackner DH, Hetzer M. 2012. A change
in nuclear pore complex composition regulates cell differentiation. Developmental
Cell. 22(2), 446–458.
mla: D’Angelo, Maximiliano A., et al. “A Change in Nuclear Pore Complex Composition
Regulates Cell Differentiation.” Developmental Cell, vol. 22, no. 2, Elsevier,
2012, pp. 446–58, doi:10.1016/j.devcel.2011.11.021.
short: M.A. D’Angelo, J.S. Gomez-Cavazos, A. Mei, D.H. Lackner, M. Hetzer, Developmental
Cell 22 (2012) 446–458.
date_created: 2022-04-07T07:52:10Z
date_published: 2012-01-19T00:00:00Z
date_updated: 2022-07-18T08:53:16Z
day: '19'
doi: 10.1016/j.devcel.2011.11.021
extern: '1'
external_id:
pmid:
- '22264802'
intvolume: ' 22'
issue: '2'
keyword:
- Developmental Biology
- Cell Biology
- General Biochemistry
- Genetics and Molecular Biology
- Molecular Biology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.devcel.2011.11.021
month: '01'
oa: 1
oa_version: Published Version
page: 446-458
pmid: 1
publication: Developmental Cell
publication_identifier:
issn:
- 1534-5807
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: A change in nuclear pore complex composition regulates cell differentiation
type: journal_article
user_id: 72615eeb-f1f3-11ec-aa25-d4573ddc34fd
volume: 22
year: '2012'
...
---
_id: '113'
abstract:
- lang: eng
text: 'Although liquids typically flow around intruding objects, a counterintuitive
phenomenon occurs in dense suspensions of micrometre-sized particles: they become
liquid-like when perturbed lightly, but harden when driven strongly. Rheological
experiments have investigated how such thickening arises under shear, and linked
it to hydrodynamic interactions or granular dilation. However, neither of these
mechanisms alone can explain the ability of suspensions to generate very large,
positive normal stresses under impact. To illustrate the phenomenon, such stresses
can be large enough to allow a person to run across a suspension without sinking,
and far exceed the upper limit observed under shear or extension. Here we show
that these stresses originate from an impact-generated solidification front that
transforms an initially compressible particle matrix into a rapidly growing jammed
region, ultimately leading to extraordinary amounts of momentum absorption. Using
high-speed videography, embedded force sensing and X-ray imaging, we capture the
detailed dynamics of this process as it decelerates a metal rod hitting a suspension
of cornflour (cornstarch) in water. We develop a model for the dynamic solidification
and its effect on the surrounding suspension that reproduces the observed behaviour
quantitatively. Our findings suggest that prior interpretations of the impact
resistance as dominated by shear thickening need to be revisited.'
acknowledgement: This work was supported by NSF through its MRSEC programme (DMR-0820054)
and by the US Army Research Office through grant number W911NF-12-1-0182. S.R.W.
acknowledges support from a Millikan fellowship.
author:
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
- first_name: Heinrich
full_name: Jaeger, Heinrich
last_name: Jaeger
citation:
ama: Waitukaitis SR, Jaeger H. Impact-activated solidification of dense suspensions
via dynamic jamming fronts. Nature. 2012;487(7406):205-209. doi:10.1038/nature11187
apa: Waitukaitis, S. R., & Jaeger, H. (2012). Impact-activated solidification
of dense suspensions via dynamic jamming fronts. Nature. Nature Publishing
Group. https://doi.org/10.1038/nature11187
chicago: Waitukaitis, Scott R, and Heinrich Jaeger. “Impact-Activated Solidification
of Dense Suspensions via Dynamic Jamming Fronts.” Nature. Nature Publishing
Group, 2012. https://doi.org/10.1038/nature11187.
ieee: S. R. Waitukaitis and H. Jaeger, “Impact-activated solidification of dense
suspensions via dynamic jamming fronts,” Nature, vol. 487, no. 7406. Nature
Publishing Group, pp. 205–209, 2012.
ista: Waitukaitis SR, Jaeger H. 2012. Impact-activated solidification of dense suspensions
via dynamic jamming fronts. Nature. 487(7406), 205–209.
mla: Waitukaitis, Scott R., and Heinrich Jaeger. “Impact-Activated Solidification
of Dense Suspensions via Dynamic Jamming Fronts.” Nature, vol. 487, no.
7406, Nature Publishing Group, 2012, pp. 205–09, doi:10.1038/nature11187.
short: S.R. Waitukaitis, H. Jaeger, Nature 487 (2012) 205–209.
date_created: 2018-12-11T11:44:42Z
date_published: 2012-07-12T00:00:00Z
date_updated: 2021-01-12T06:48:30Z
day: '12'
doi: 10.1038/nature11187
extern: '1'
intvolume: ' 487'
issue: '7406'
language:
- iso: eng
month: '07'
oa_version: None
page: 205 - 209
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '7941'
status: public
title: Impact-activated solidification of dense suspensions via dynamic jamming fronts
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 487
year: '2012'
...
---
_id: '114'
abstract:
- lang: eng
text: We report on an investigation of the solidification of a cornstarch and water
suspension during normal impact on its surface. We find that a finite time after
impact, the suspension displays characteristics reminiscent of a solid, including
localized stress transmission, the development of a yield stress, and some elastic
energy storage. The time dependence of these characteristics depends on the thickness
of the cornstarch layer, showing that the solidification is a dynamic process
driven by the impacting object. These findings confirm previous speculations that
rapidly applied normal stress transforms the normally fluid-like suspension into
a temporarily jammed solid and draw a clear distinction between the effects of
normal stress and shear stress in dense suspensions.
acknowledgement: This work was supported by the NSF through its MRSEC program (DMR-0820054).
S. R. W. acknowledges support from a Millikan fellowship.
author:
- first_name: Scott R
full_name: Waitukaitis, Scott R
id: 3A1FFC16-F248-11E8-B48F-1D18A9856A87
last_name: Waitukaitis
orcid: 0000-0002-2299-3176
- first_name: Heinrich
full_name: Jaeger, Heinrich
last_name: Jaeger
citation:
ama: Waitukaitis SR, Jaeger H. Solidification of a cornstarch and water suspension.
Revista Cubana de Fisica. 2012;29(1E):1E31-1E33.
apa: Waitukaitis, S. R., & Jaeger, H. (2012). Solidification of a cornstarch
and water suspension. Revista Cubana de Fisica. Universidad de La Habana.
chicago: Waitukaitis, Scott R, and Heinrich Jaeger. “Solidification of a Cornstarch
and Water Suspension.” Revista Cubana de Fisica. Universidad de La Habana,
2012.
ieee: S. R. Waitukaitis and H. Jaeger, “Solidification of a cornstarch and water
suspension,” Revista Cubana de Fisica, vol. 29, no. 1E. Universidad de
La Habana, p. 1E31-1E33, 2012.
ista: Waitukaitis SR, Jaeger H. 2012. Solidification of a cornstarch and water suspension.
Revista Cubana de Fisica. 29(1E), 1E31-1E33.
mla: Waitukaitis, Scott R., and Heinrich Jaeger. “Solidification of a Cornstarch
and Water Suspension.” Revista Cubana de Fisica, vol. 29, no. 1E, Universidad
de La Habana, 2012, p. 1E31-1E33.
short: S.R. Waitukaitis, H. Jaeger, Revista Cubana de Fisica 29 (2012) 1E31-1E33.
date_created: 2018-12-11T11:44:42Z
date_published: 2012-08-14T00:00:00Z
date_updated: 2021-01-12T06:48:34Z
day: '14'
ddc:
- '530'
extern: '1'
file:
- access_level: open_access
content_type: application/pdf
creator: kschuh
date_created: 2019-05-16T11:08:52Z
date_updated: 2019-05-16T11:08:52Z
file_id: '6461'
file_name: 2012_RCF_Waitukaitis.pdf
file_size: 589776
relation: main_file
success: 1
file_date_updated: 2019-05-16T11:08:52Z
has_accepted_license: '1'
intvolume: ' 29'
issue: 1E
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 1E31 - 1E33
publication: Revista Cubana de Fisica
publication_status: published
publisher: Universidad de La Habana
publist_id: '7940'
quality_controlled: '1'
status: public
title: Solidification of a cornstarch and water suspension
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 29
year: '2012'
...
---
_id: '11656'
abstract:
- lang: eng
text: "Suppose your sole interest in recommending a product to me is to maximize
the amount paid to you by the seller for a sequence of recommendations. How should
you recommend optimally if I become more inclined to ignore you with each irrelevant
recommendation you make? Finding an answer to this question is a key challenge
in all forms of marketing that rely on and explore social ties; ranging from personal
recommendations to viral marketing.\r\n\r\nWe prove that even if the recommendee
regains her initial trust on each successful recommendation, the expected revenue
the recommender can make over an infinite period due to payments by the seller
is bounded. This can only be overcome when the recommendee also incrementally
regains trust during periods without any recommendation. Here, we see a connection
to \"banner blindness,\" suggesting that showing fewer ads can lead to a higher
long-term revenue."
article_processing_charge: No
author:
- first_name: Paul
full_name: Dütting, Paul
last_name: Dütting
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: Ingmar
full_name: Weber, Ingmar
last_name: Weber
citation:
ama: 'Dütting P, Henzinger MH, Weber I. Maximizing revenue from strategic recommendations
under decaying trust. In: Proceedings of the 21st ACM International Conference
on Information and Knowledge Management. Association for Computing Machinery;
2012:2268-2286. doi:10.1145/2396761.2398621'
apa: 'Dütting, P., Henzinger, M. H., & Weber, I. (2012). Maximizing revenue
from strategic recommendations under decaying trust. In Proceedings of the
21st ACM international conference on Information and knowledge management
(pp. 2268–2286). Maui, HI, United States: Association for Computing Machinery.
https://doi.org/10.1145/2396761.2398621'
chicago: Dütting, Paul, Monika H Henzinger, and Ingmar Weber. “Maximizing Revenue
from Strategic Recommendations under Decaying Trust.” In Proceedings of the
21st ACM International Conference on Information and Knowledge Management,
2268–86. Association for Computing Machinery, 2012. https://doi.org/10.1145/2396761.2398621.
ieee: P. Dütting, M. H. Henzinger, and I. Weber, “Maximizing revenue from strategic
recommendations under decaying trust,” in Proceedings of the 21st ACM international
conference on Information and knowledge management, Maui, HI, United States,
2012, pp. 2268–2286.
ista: 'Dütting P, Henzinger MH, Weber I. 2012. Maximizing revenue from strategic
recommendations under decaying trust. Proceedings of the 21st ACM international
conference on Information and knowledge management. CIKM: Conference on Information
and Knowledge Management, 2268–2286.'
mla: Dütting, Paul, et al. “Maximizing Revenue from Strategic Recommendations under
Decaying Trust.” Proceedings of the 21st ACM International Conference on Information
and Knowledge Management, Association for Computing Machinery, 2012, pp. 2268–86,
doi:10.1145/2396761.2398621.
short: P. Dütting, M.H. Henzinger, I. Weber, in:, Proceedings of the 21st ACM International
Conference on Information and Knowledge Management, Association for Computing
Machinery, 2012, pp. 2268–2286.
conference:
end_date: 2012-11-02
location: Maui, HI, United States
name: 'CIKM: Conference on Information and Knowledge Management'
start_date: 2012-10-29
date_created: 2022-07-27T06:47:53Z
date_published: 2012-10-29T00:00:00Z
date_updated: 2023-02-09T09:19:49Z
day: '29'
doi: 10.1145/2396761.2398621
extern: '1'
language:
- iso: eng
month: '10'
oa_version: None
page: 2268-2286
publication: Proceedings of the 21st ACM international conference on Information and
knowledge management
publication_identifier:
isbn:
- '9781450311564'
publication_status: published
publisher: Association for Computing Machinery
quality_controlled: '1'
scopus_import: '1'
status: public
title: Maximizing revenue from strategic recommendations under decaying trust
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2012'
...
---
_id: '11751'
abstract:
- lang: eng
text: The Seebeck coefficients, electrical resistivities, total thermal conductivities,
and magnetization are reported for temperatures between 5 and 350 K for n-type
Bi0.88Sb0.12 nano-composite alloys made by Ho-doping at the 0, 1, and 3 % atomic
levels. The alloys were prepared using a dc hot-pressing method, and are shown
to be single phase for both Ho contents with grain sizes on the average of 900
nm. We find the parent compound has a maximum of ZT = 0.28 at 231 K, while doping
1 % Ho increases the maximum ZT to 0.31 at 221 K and the 3 % doped sample suppresses
the maximum ZT = 0.24 at a temperature of 260 K.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: K. C.
full_name: Lukas, K. C.
last_name: Lukas
- first_name: G.
full_name: Joshi, G.
last_name: Joshi
- first_name: Kimberly A
full_name: Modic, Kimberly A
id: 13C26AC0-EB69-11E9-87C6-5F3BE6697425
last_name: Modic
orcid: 0000-0001-9760-3147
- first_name: Z. F.
full_name: Ren, Z. F.
last_name: Ren
- first_name: C. P.
full_name: Opeil, C. P.
last_name: Opeil
citation:
ama: Lukas KC, Joshi G, Modic KA, Ren ZF, Opeil CP. Thermoelectric properties of
Ho-doped Bi0.88Sb0.12. Journal of Materials Science. 2012;47(15):5729-5734.
doi:10.1007/s10853-012-6463-6
apa: Lukas, K. C., Joshi, G., Modic, K. A., Ren, Z. F., & Opeil, C. P. (2012).
Thermoelectric properties of Ho-doped Bi0.88Sb0.12. Journal of Materials Science.
Springer Nature. https://doi.org/10.1007/s10853-012-6463-6
chicago: Lukas, K. C., G. Joshi, Kimberly A Modic, Z. F. Ren, and C. P. Opeil. “Thermoelectric
Properties of Ho-Doped Bi0.88Sb0.12.” Journal of Materials Science. Springer
Nature, 2012. https://doi.org/10.1007/s10853-012-6463-6.
ieee: K. C. Lukas, G. Joshi, K. A. Modic, Z. F. Ren, and C. P. Opeil, “Thermoelectric
properties of Ho-doped Bi0.88Sb0.12,” Journal of Materials Science, vol.
47, no. 15. Springer Nature, pp. 5729–5734, 2012.
ista: Lukas KC, Joshi G, Modic KA, Ren ZF, Opeil CP. 2012. Thermoelectric properties
of Ho-doped Bi0.88Sb0.12. Journal of Materials Science. 47(15), 5729–5734.
mla: Lukas, K. C., et al. “Thermoelectric Properties of Ho-Doped Bi0.88Sb0.12.”
Journal of Materials Science, vol. 47, no. 15, Springer Nature, 2012, pp.
5729–34, doi:10.1007/s10853-012-6463-6.
short: K.C. Lukas, G. Joshi, K.A. Modic, Z.F. Ren, C.P. Opeil, Journal of Materials
Science 47 (2012) 5729–5734.
date_created: 2022-08-08T08:28:20Z
date_published: 2012-08-01T00:00:00Z
date_updated: 2022-08-11T09:34:39Z
day: '01'
doi: 10.1007/s10853-012-6463-6
extern: '1'
external_id:
arxiv:
- '1201.6304'
intvolume: ' 47'
issue: '15'
language:
- iso: eng
month: '08'
oa_version: Preprint
page: 5729-5734
publication: Journal of Materials Science
publication_identifier:
eissn:
- 1573-4803
issn:
- 0022-2461
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Thermoelectric properties of Ho-doped Bi0.88Sb0.12
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 47
year: '2012'
...
---
_id: '11794'
abstract:
- lang: eng
text: We study individual rational, Pareto optimal, and incentive compatible mechanisms
for auctions with heterogeneous items and budget limits. For multi-dimensional
valuations we show that there can be no deterministic mechanism with these properties
for divisible items. We use this to show that there can also be no randomized
mechanism that achieves this for either divisible or indivisible items. For single-dimensional
valuations we show that there can be no deterministic mechanism with these properties
for indivisible items, but that there is a randomized mechanism that achieves
this for either divisible or indivisible items. The impossibility results hold
for public budgets, while the mechanism allows private budgets, which is in both
cases the harder variant to show. While all positive results are polynomial-time
algorithms, all negative results hold independent of complexity considerations.
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Paul
full_name: Dütting, Paul
last_name: Dütting
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: Martin
full_name: Starnberger, Martin
last_name: Starnberger
citation:
ama: 'Dütting P, Henzinger MH, Starnberger M. Auctions with heterogeneous items
and budget limits. In: 8th International Workshop on Internet and Network Economics.
Vol 7695. Springer Nature; 2012:44–57. doi:10.1007/978-3-642-35311-6_4'
apa: 'Dütting, P., Henzinger, M. H., & Starnberger, M. (2012). Auctions with
heterogeneous items and budget limits. In 8th International Workshop on Internet
and Network Economics (Vol. 7695, pp. 44–57). Liverpool, United Kingdom: Springer
Nature. https://doi.org/10.1007/978-3-642-35311-6_4'
chicago: Dütting, Paul, Monika H Henzinger, and Martin Starnberger. “Auctions with
Heterogeneous Items and Budget Limits.” In 8th International Workshop on Internet
and Network Economics, 7695:44–57. Springer Nature, 2012. https://doi.org/10.1007/978-3-642-35311-6_4.
ieee: P. Dütting, M. H. Henzinger, and M. Starnberger, “Auctions with heterogeneous
items and budget limits,” in 8th International Workshop on Internet and Network
Economics, Liverpool, United Kingdom, 2012, vol. 7695, pp. 44–57.
ista: 'Dütting P, Henzinger MH, Starnberger M. 2012. Auctions with heterogeneous
items and budget limits. 8th International Workshop on Internet and Network Economics.
WINE: International Conference on Web and Internet Economics, LNCS, vol. 7695,
44–57.'
mla: Dütting, Paul, et al. “Auctions with Heterogeneous Items and Budget Limits.”
8th International Workshop on Internet and Network Economics, vol. 7695,
Springer Nature, 2012, pp. 44–57, doi:10.1007/978-3-642-35311-6_4.
short: P. Dütting, M.H. Henzinger, M. Starnberger, in:, 8th International Workshop
on Internet and Network Economics, Springer Nature, 2012, pp. 44–57.
conference:
end_date: 2012-12-14
location: Liverpool, United Kingdom
name: 'WINE: International Conference on Web and Internet Economics'
start_date: 2012-12-11
date_created: 2022-08-11T11:32:25Z
date_published: 2012-12-01T00:00:00Z
date_updated: 2023-02-21T16:28:29Z
day: '01'
doi: 10.1007/978-3-642-35311-6_4
extern: '1'
external_id:
arxiv:
- '1209.6448'
intvolume: ' 7695'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1209.6448
month: '12'
oa: 1
oa_version: Preprint
page: 44–57
publication: 8th International Workshop on Internet and Network Economics
publication_identifier:
isbn:
- '9783642353109'
issn:
- 1611-3349
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '11794'
relation: later_version
status: public
scopus_import: '1'
status: public
title: Auctions with heterogeneous items and budget limits
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7695
year: '2012'
...
---
_id: '11795'
abstract:
- lang: eng
text: "We study multiple keyword sponsored search auctions with budgets. Each keyword
has multiple ad slots with a click-through rate. The bidders have additive valuations,
which are linear in the click-through rates, and budgets, which are restricting
their overall payments. Additionally, the number of slots per keyword assigned
to a bidder is bounded.\r\n\r\nWe show the following results: (1) We give the
first mechanism for multiple keywords, where click-through rates differ among
slots. Our mechanism is incentive compatible in expectation, individually rational
in expectation, and Pareto optimal. (2) We study the combinatorial setting, where
each bidder is only interested in a subset of the keywords. We give an incentive
compatible, individually rational, Pareto optimal, and deterministic mechanism
for identical click-through rates. (3) We give an impossibility result for incentive
compatible, individually rational, Pareto optimal, and deterministic mechanisms
for bidders with diminishing marginal valuations."
alternative_title:
- LNCS
article_processing_charge: No
author:
- first_name: Riccardo
full_name: Colini-Baldeschi, Riccardo
last_name: Colini-Baldeschi
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
- first_name: Stefano
full_name: Leonardi, Stefano
last_name: Leonardi
- first_name: Martin
full_name: Starnberger, Martin
last_name: Starnberger
citation:
ama: 'Colini-Baldeschi R, Henzinger MH, Leonardi S, Starnberger M. On multiple keyword
sponsored search auctions with budgets. In: 39th International Colloquium on
Automata, Languages, and Programming. Vol 7392. Springer Nature; 2012:1–12.
doi:10.1007/978-3-642-31585-5_1'
apa: 'Colini-Baldeschi, R., Henzinger, M. H., Leonardi, S., & Starnberger, M.
(2012). On multiple keyword sponsored search auctions with budgets. In 39th
International Colloquium on Automata, Languages, and Programming (Vol. 7392,
pp. 1–12). Warwick, United Kingdom: Springer Nature. https://doi.org/10.1007/978-3-642-31585-5_1'
chicago: Colini-Baldeschi, Riccardo, Monika H Henzinger, Stefano Leonardi, and Martin
Starnberger. “On Multiple Keyword Sponsored Search Auctions with Budgets.” In
39th International Colloquium on Automata, Languages, and Programming,
7392:1–12. Springer Nature, 2012. https://doi.org/10.1007/978-3-642-31585-5_1.
ieee: R. Colini-Baldeschi, M. H. Henzinger, S. Leonardi, and M. Starnberger, “On
multiple keyword sponsored search auctions with budgets,” in 39th International
Colloquium on Automata, Languages, and Programming, Warwick, United Kingdom,
2012, vol. 7392, pp. 1–12.
ista: 'Colini-Baldeschi R, Henzinger MH, Leonardi S, Starnberger M. 2012. On multiple
keyword sponsored search auctions with budgets. 39th International Colloquium
on Automata, Languages, and Programming. ICALP: International Colloquium on Automata,
Languages, and Programming, LNCS, vol. 7392, 1–12.'
mla: Colini-Baldeschi, Riccardo, et al. “On Multiple Keyword Sponsored Search Auctions
with Budgets.” 39th International Colloquium on Automata, Languages, and Programming,
vol. 7392, Springer Nature, 2012, pp. 1–12, doi:10.1007/978-3-642-31585-5_1.
short: R. Colini-Baldeschi, M.H. Henzinger, S. Leonardi, M. Starnberger, in:, 39th
International Colloquium on Automata, Languages, and Programming, Springer Nature,
2012, pp. 1–12.
conference:
end_date: 2012-07-13
location: Warwick, United Kingdom
name: 'ICALP: International Colloquium on Automata, Languages, and Programming'
start_date: 2012-07-09
date_created: 2022-08-11T11:46:51Z
date_published: 2012-07-01T00:00:00Z
date_updated: 2023-02-21T16:28:31Z
day: '01'
doi: 10.1007/978-3-642-31585-5_1
extern: '1'
intvolume: ' 7392'
language:
- iso: eng
month: '07'
oa_version: None
page: 1–12
publication: 39th International Colloquium on Automata, Languages, and Programming
publication_identifier:
isbn:
- '9783642315848'
issn:
- 0302-9743
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
record:
- id: '11795'
relation: later_version
status: public
scopus_import: '1'
status: public
title: On multiple keyword sponsored search auctions with budgets
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7392
year: '2012'
...
---
_id: '7776'
abstract:
- lang: eng
text: We present an analysis of finite-size effects in jammed packings of N soft,
frictionless spheres at zero temperature. There is a 1/N correction to the discrete
jump in the contact number at the transition so that jammed packings exist only
above isostaticity. As a result, the canonical power-law scalings of the contact
number and elastic moduli break down at low pressure. These quantities exhibit
scaling collapse with a nontrivial scaling function, demonstrating that the jamming
transition can be considered a phase transition. Scaling is achieved as a function
of N in both two and three dimensions, indicating an upper critical dimension
of 2.
article_number: '095704'
article_processing_charge: No
article_type: original
author:
- first_name: Carl Peter
full_name: Goodrich, Carl Peter
id: EB352CD2-F68A-11E9-89C5-A432E6697425
last_name: Goodrich
orcid: 0000-0002-1307-5074
- first_name: Andrea J.
full_name: Liu, Andrea J.
last_name: Liu
- first_name: Sidney R.
full_name: Nagel, Sidney R.
last_name: Nagel
citation:
ama: Goodrich CP, Liu AJ, Nagel SR. Finite-size scaling at the jamming transition.
Physical Review Letters. 2012;109(9). doi:10.1103/physrevlett.109.095704
apa: Goodrich, C. P., Liu, A. J., & Nagel, S. R. (2012). Finite-size scaling
at the jamming transition. Physical Review Letters. American Physical Society.
https://doi.org/10.1103/physrevlett.109.095704
chicago: Goodrich, Carl Peter, Andrea J. Liu, and Sidney R. Nagel. “Finite-Size
Scaling at the Jamming Transition.” Physical Review Letters. American Physical
Society, 2012. https://doi.org/10.1103/physrevlett.109.095704.
ieee: C. P. Goodrich, A. J. Liu, and S. R. Nagel, “Finite-size scaling at the jamming
transition,” Physical Review Letters, vol. 109, no. 9. American Physical
Society, 2012.
ista: Goodrich CP, Liu AJ, Nagel SR. 2012. Finite-size scaling at the jamming transition.
Physical Review Letters. 109(9), 095704.
mla: Goodrich, Carl Peter, et al. “Finite-Size Scaling at the Jamming Transition.”
Physical Review Letters, vol. 109, no. 9, 095704, American Physical Society,
2012, doi:10.1103/physrevlett.109.095704.
short: C.P. Goodrich, A.J. Liu, S.R. Nagel, Physical Review Letters 109 (2012).
date_created: 2020-04-30T11:44:12Z
date_published: 2012-08-27T00:00:00Z
date_updated: 2021-01-12T08:15:27Z
day: '27'
doi: 10.1103/physrevlett.109.095704
extern: '1'
intvolume: ' 109'
issue: '9'
language:
- iso: eng
month: '08'
oa_version: None
publication: Physical Review Letters
publication_identifier:
issn:
- 0031-9007
- 1079-7114
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
status: public
title: Finite-size scaling at the jamming transition
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 109
year: '2012'
...
---
_id: '801'
abstract:
- lang: eng
text: Fungal cell walls frequently contain a polymer of mannose and galactose called
galactomannan. In the pathogenic filamentous fungus Aspergillus fumigatus, this
polysaccharide is made of a linear mannan backbone with side chains of galactofuran
and is anchored to the plasma membrane via a glycosylphosphatidylinositol or is
covalently linked to the cell wall. To date, the biosynthesis and significance
of this polysaccharide are unknown. The present data demonstrate that deletion
of the Golgi UDP-galactofuranose transporter GlfB or the GDP-mannose transporter
GmtA leads to the absence of galactofuran or galactomannan, respectively. This
indicates that the biosynthesis of galactomannan probably occurs in the lumen
of the Golgi apparatus and thus contrasts with the biosynthesis of other fungal
cell wall polysaccharides studied to date that takes place at the plasma membrane.
Transglycosylation of galactomannan from the membrane to the cell wall is hypothesized
because both the cell wall-bound and membrane-bound polysaccharide forms are affected
in the generated mutants. Considering the severe growth defect of the A. fumigatus
GmtA-deficient mutant, proving this paradigm might provide new targets for antifungal
therapy.
acknowledgement: This work was supported by the Deutsche Forschungsgemeinschaft.
article_processing_charge: No
article_type: original
author:
- first_name: Jakob
full_name: Engel, Jakob
last_name: Engel
- first_name: Philipp S
full_name: Schmalhorst, Philipp S
id: 309D50DA-F248-11E8-B48F-1D18A9856A87
last_name: Schmalhorst
orcid: 0000-0002-5795-0133
- first_name: Françoise
full_name: Routier, Françoise
last_name: Routier
citation:
ama: Engel J, Schmalhorst PS, Routier F. Biosynthesis of the fungal cell wall polysaccharide
galactomannan requires intraluminal GDP-mannose. Journal of Biological Chemistry.
2012;287(53):44418-44424. doi:10.1074/jbc.M112.398321
apa: Engel, J., Schmalhorst, P. S., & Routier, F. (2012). Biosynthesis of the
fungal cell wall polysaccharide galactomannan requires intraluminal GDP-mannose.
Journal of Biological Chemistry. American Society for Biochemistry and
Molecular Biology. https://doi.org/10.1074/jbc.M112.398321
chicago: Engel, Jakob, Philipp S Schmalhorst, and Françoise Routier. “Biosynthesis
of the Fungal Cell Wall Polysaccharide Galactomannan Requires Intraluminal GDP-Mannose.”
Journal of Biological Chemistry. American Society for Biochemistry and
Molecular Biology, 2012. https://doi.org/10.1074/jbc.M112.398321.
ieee: J. Engel, P. S. Schmalhorst, and F. Routier, “Biosynthesis of the fungal cell
wall polysaccharide galactomannan requires intraluminal GDP-mannose,” Journal
of Biological Chemistry, vol. 287, no. 53. American Society for Biochemistry
and Molecular Biology, pp. 44418–44424, 2012.
ista: Engel J, Schmalhorst PS, Routier F. 2012. Biosynthesis of the fungal cell
wall polysaccharide galactomannan requires intraluminal GDP-mannose. Journal of
Biological Chemistry. 287(53), 44418–44424.
mla: Engel, Jakob, et al. “Biosynthesis of the Fungal Cell Wall Polysaccharide Galactomannan
Requires Intraluminal GDP-Mannose.” Journal of Biological Chemistry, vol.
287, no. 53, American Society for Biochemistry and Molecular Biology, 2012, pp.
44418–24, doi:10.1074/jbc.M112.398321.
short: J. Engel, P.S. Schmalhorst, F. Routier, Journal of Biological Chemistry 287
(2012) 44418–44424.
date_created: 2018-12-11T11:48:34Z
date_published: 2012-12-28T00:00:00Z
date_updated: 2022-03-21T07:57:14Z
day: '28'
doi: 10.1074/jbc.M112.398321
extern: '1'
external_id:
pmid:
- '23139423'
intvolume: ' 287'
issue: '53'
language:
- iso: eng
month: '12'
oa_version: None
page: 44418 - 44424
pmid: 1
publication: Journal of Biological Chemistry
publication_status: published
publisher: American Society for Biochemistry and Molecular Biology
publist_id: '6852'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Biosynthesis of the fungal cell wall polysaccharide galactomannan requires
intraluminal GDP-mannose
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 287
year: '2012'
...
---
_id: '8024'
abstract:
- lang: eng
text: In dynamical models of cortical networks, the recurrent connectivity can amplify
the input given to the network in two distinct ways. One is induced by the presence
of near-critical eigenvalues in the connectivity matrix W, producing large but
slow activity fluctuations along the corresponding eigenvectors (dynamical slowing).
The other relies on W not being normal, which allows the network activity to make
large but fast excursions along specific directions. Here we investigate the trade-off
between non-normal amplification and dynamical slowing in the spontaneous activity
of large random neuronal networks composed of excitatory and inhibitory neurons.
We use a Schur decomposition of W to separate the two amplification mechanisms.
Assuming linear stochastic dynamics, we derive an exact expression for the expected
amount of purely non-normal amplification. We find that amplification is very
limited if dynamical slowing must be kept weak. We conclude that, to achieve strong
transient amplification with little slowing, the connectivity must be structured.
We show that unidirectional connections between neurons of the same type together
with reciprocal connections between neurons of different types, allow for amplification
already in the fast dynamical regime. Finally, our results also shed light on
the differences between balanced networks in which inhibition exactly cancels
excitation and those where inhibition dominates.
article_number: '011909'
article_processing_charge: No
article_type: original
author:
- first_name: Guillaume
full_name: Hennequin, Guillaume
last_name: Hennequin
- first_name: Tim P
full_name: Vogels, Tim P
id: CB6FF8D2-008F-11EA-8E08-2637E6697425
last_name: Vogels
orcid: 0000-0003-3295-6181
- first_name: Wulfram
full_name: Gerstner, Wulfram
last_name: Gerstner
citation:
ama: Hennequin G, Vogels TP, Gerstner W. Non-normal amplification in random balanced
neuronal networks. Physical Review E. 2012;86(1). doi:10.1103/physreve.86.011909
apa: Hennequin, G., Vogels, T. P., & Gerstner, W. (2012). Non-normal amplification
in random balanced neuronal networks. Physical Review E. American Physical
Society. https://doi.org/10.1103/physreve.86.011909
chicago: Hennequin, Guillaume, Tim P Vogels, and Wulfram Gerstner. “Non-Normal Amplification
in Random Balanced Neuronal Networks.” Physical Review E. American Physical
Society, 2012. https://doi.org/10.1103/physreve.86.011909.
ieee: G. Hennequin, T. P. Vogels, and W. Gerstner, “Non-normal amplification in
random balanced neuronal networks,” Physical Review E, vol. 86, no. 1.
American Physical Society, 2012.
ista: Hennequin G, Vogels TP, Gerstner W. 2012. Non-normal amplification in random
balanced neuronal networks. Physical Review E. 86(1), 011909.
mla: Hennequin, Guillaume, et al. “Non-Normal Amplification in Random Balanced Neuronal
Networks.” Physical Review E, vol. 86, no. 1, 011909, American Physical
Society, 2012, doi:10.1103/physreve.86.011909.
short: G. Hennequin, T.P. Vogels, W. Gerstner, Physical Review E 86 (2012).
date_created: 2020-06-25T13:09:06Z
date_published: 2012-06-11T00:00:00Z
date_updated: 2021-01-12T08:16:35Z
day: '11'
doi: 10.1103/physreve.86.011909
extern: '1'
external_id:
pmid:
- '23005454'
intvolume: ' 86'
issue: '1'
language:
- iso: eng
month: '06'
oa_version: None
pmid: 1
publication: Physical Review E
publication_identifier:
eisbn:
- 1550-2376
issn:
- 1539-3755
publication_status: published
publisher: American Physical Society
quality_controlled: '1'
status: public
title: Non-normal amplification in random balanced neuronal networks
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 86
year: '2012'
...
---
_id: '808'
abstract:
- lang: eng
text: Using correlated live-cell imaging and electron tomography we found that actin
branch junctions in protruding and treadmilling lamellipodia are not concentrated
at the front as previously supposed, but link actin filament subsets in which
there is a continuum of distances from a junction to the filament plus ends, for
up to at least 1 mm. When branch sites were observed closely spaced on the same
filament their separation was commonly a multiple of the actin helical repeat
of 36 nm. Image averaging of branch junctions in the tomograms yielded a model
for the in vivo branch at 2.9 nm resolution, which was comparable with that derived
for the in vitro actin- Arp2/3 complex. Lamellipodium initiation was monitored
in an intracellular wound-healing model and was found to involve branching from
the sides of actin filaments oriented parallel to the plasmalemma. Many filament
plus ends, presumably capped, terminated behind the lamellipodium tip and localized
on the dorsal and ventral surfaces of the actin network. These findings reveal
how branching events initiate and maintain a network of actin filaments of variable
length, and provide the first structural model of the branch junction in vivo.
A possible role of filament capping in generating the lamellipodium leaflet is
discussed and a mathematical model of protrusion is also presented.
acknowledgement: This work was supported by the Austrian Science Fund [projects FWF
I516-B09 and FWF P21292-B09 to J.V.S.]; the Vienna Science and Technology Fund [WWTF-grant
numbers MA 09-004 to J.V.S. and C.S], ZIT - The Technology Agency of the City of
Vienna [VSOE, CMCN to J.V.S. and G.P.R.]; the Deutsche Forschungsgemeinschaft [grant
number RO 2414/1-2 to K.R.]; the Daiko research foundation [grant number 9134 to
A.N.]; and a Grant-in-Aid for Scientific Research [S, grant number 20227008 to Y.M.]
and a Grant-in-Aid for Young Scientists [B, grant number 22770145 to A.N.] (B) from
The Ministry of Education, Culture, Sports, Science and Technology of the Japanese
Government. Deposited in PMC for immediate release. We thank Tibor Kulcsar for assistance
with graphics.
author:
- first_name: Marlene
full_name: Vinzenz, Marlene
last_name: Vinzenz
- first_name: Maria
full_name: Nemethova, Maria
id: 34E27F1C-F248-11E8-B48F-1D18A9856A87
last_name: Nemethova
- first_name: Florian
full_name: Schur, Florian
id: 48AD8942-F248-11E8-B48F-1D18A9856A87
last_name: Schur
orcid: 0000-0003-4790-8078
- first_name: Jan
full_name: Mueller, Jan
last_name: Mueller
- first_name: Akihiro
full_name: Narita, Akihiro
last_name: Narita
- first_name: Edit
full_name: Urban, Edit
last_name: Urban
- first_name: Christoph
full_name: Winkler, Christoph
last_name: Winkler
- first_name: Christian
full_name: Schmeiser, Christian
last_name: Schmeiser
- first_name: Stefan
full_name: Koestler, Stefan
last_name: Koestler
- first_name: Klemens
full_name: Rottner, Klemens
last_name: Rottner
- first_name: Guenter
full_name: Resch, Guenter
last_name: Resch
- first_name: Yuichiro
full_name: Maéda, Yuichiro
last_name: Maéda
- first_name: John
full_name: Small, John
last_name: Small
citation:
ama: Vinzenz M, Nemethova M, Schur FK, et al. Actin branching in the initiation
and maintenance of lamellipodia. Journal of Cell Science. 2012;125(11):2775-2785.
doi:10.1242/jcs.107623
apa: Vinzenz, M., Nemethova, M., Schur, F. K., Mueller, J., Narita, A., Urban, E.,
… Small, J. (2012). Actin branching in the initiation and maintenance of lamellipodia.
Journal of Cell Science. Company of Biologists. https://doi.org/10.1242/jcs.107623
chicago: Vinzenz, Marlene, Maria Nemethova, Florian KM Schur, Jan Mueller, Akihiro
Narita, Edit Urban, Christoph Winkler, et al. “Actin Branching in the Initiation
and Maintenance of Lamellipodia.” Journal of Cell Science. Company of Biologists,
2012. https://doi.org/10.1242/jcs.107623.
ieee: M. Vinzenz et al., “Actin branching in the initiation and maintenance
of lamellipodia,” Journal of Cell Science, vol. 125, no. 11. Company of
Biologists, pp. 2775–2785, 2012.
ista: Vinzenz M, Nemethova M, Schur FK, Mueller J, Narita A, Urban E, Winkler C,
Schmeiser C, Koestler S, Rottner K, Resch G, Maéda Y, Small J. 2012. Actin branching
in the initiation and maintenance of lamellipodia. Journal of Cell Science. 125(11),
2775–2785.
mla: Vinzenz, Marlene, et al. “Actin Branching in the Initiation and Maintenance
of Lamellipodia.” Journal of Cell Science, vol. 125, no. 11, Company of
Biologists, 2012, pp. 2775–85, doi:10.1242/jcs.107623.
short: M. Vinzenz, M. Nemethova, F.K. Schur, J. Mueller, A. Narita, E. Urban, C.
Winkler, C. Schmeiser, S. Koestler, K. Rottner, G. Resch, Y. Maéda, J. Small,
Journal of Cell Science 125 (2012) 2775–2785.
date_created: 2018-12-11T11:48:37Z
date_published: 2012-06-01T00:00:00Z
date_updated: 2021-01-12T08:16:47Z
day: '01'
ddc:
- '570'
doi: 10.1242/jcs.107623
extern: '1'
file:
- access_level: open_access
checksum: 2f59e15cc3a85bb500a9887cef2aab67
content_type: application/pdf
creator: kschuh
date_created: 2019-02-12T08:54:51Z
date_updated: 2020-07-14T12:48:09Z
file_id: '5956'
file_name: 2012_Biologists_Vinzenz.pdf
file_size: 3326073
relation: main_file
file_date_updated: 2020-07-14T12:48:09Z
has_accepted_license: '1'
intvolume: ' 125'
issue: '11'
language:
- iso: eng
month: '06'
oa: 1
oa_version: None
page: 2775 - 2785
publication: Journal of Cell Science
publication_status: published
publisher: Company of Biologists
publist_id: '6842'
quality_controlled: '1'
status: public
title: Actin branching in the initiation and maintenance of lamellipodia
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 125
year: '2012'
...
---
_id: '8246'
abstract:
- lang: eng
text: The Staphylococcus aureus cell wall stress stimulon (CWSS) is activated by
cell envelope-targeting antibiotics or depletion of essential cell wall biosynthesis
enzymes. The functionally uncharacterized S. aureus LytR-CpsA-Psr (LCP) proteins,
MsrR, SA0908 and SA2103, all belong to the CWSS. Although not essential, deletion
of all three LCP proteins severely impairs cell division. We show here that VraSR-dependent
CWSS expression was up to 250-fold higher in single, double and triple LCP mutants
than in wild type S. aureus in the absence of external stress. The LCP triple
mutant was virtually depleted of wall teichoic acids (WTA), which could be restored
to different degrees by any of the single LCP proteins. Subinhibitory concentrations
of tunicamycin, which inhibits the first WTA synthesis enzyme TarO (TagO), could
partially complement the severe growth defect of the LCP triple mutant. Both of
the latter findings support a role for S. aureus LCP proteins in late WTA synthesis,
as in Bacillus subtilis where LCP proteins were recently proposed to transfer
WTA from lipid carriers to the cell wall peptidoglycan. Intrinsic activation of
the CWSS upon LCP deletion and the fact that LCP proteins were essential for WTA-loading
of the cell wall, highlight their important role(s) in S. aureus cell envelope
biogenesis.
article_processing_charge: No
article_type: original
author:
- first_name: Vanina
full_name: Dengler, Vanina
last_name: Dengler
- first_name: Patricia Stutzmann
full_name: Meier, Patricia Stutzmann
last_name: Meier
- first_name: Ronald
full_name: Heusser, Ronald
last_name: Heusser
- first_name: Peter
full_name: Kupferschmied, Peter
last_name: Kupferschmied
- first_name: Judit
full_name: Fazekas, Judit
id: 36432834-F248-11E8-B48F-1D18A9856A87
last_name: Fazekas
orcid: 0000-0002-8777-3502
- first_name: Sarah
full_name: Friebe, Sarah
last_name: Friebe
- first_name: Sibylle Burger
full_name: Staufer, Sibylle Burger
last_name: Staufer
- first_name: Paul A.
full_name: Majcherczyk, Paul A.
last_name: Majcherczyk
- first_name: Philippe
full_name: Moreillon, Philippe
last_name: Moreillon
- first_name: Brigitte
full_name: Berger-Bächi, Brigitte
last_name: Berger-Bächi
- first_name: Nadine
full_name: McCallum, Nadine
last_name: McCallum
citation:
ama: Dengler V, Meier PS, Heusser R, et al. Deletion of hypothetical wall teichoic
acid ligases in Staphylococcus aureus activates the cell wall stress response.
FEMS Microbiology Letters. 2012;333(2):109-120. doi:10.1111/j.1574-6968.2012.02603.x
apa: Dengler, V., Meier, P. S., Heusser, R., Kupferschmied, P., Singer, J., Friebe,
S., … McCallum, N. (2012). Deletion of hypothetical wall teichoic acid ligases
in Staphylococcus aureus activates the cell wall stress response. FEMS Microbiology
Letters. Oxford University Press. https://doi.org/10.1111/j.1574-6968.2012.02603.x
chicago: Dengler, Vanina, Patricia Stutzmann Meier, Ronald Heusser, Peter Kupferschmied,
Judit Singer, Sarah Friebe, Sibylle Burger Staufer, et al. “Deletion of Hypothetical
Wall Teichoic Acid Ligases in Staphylococcus Aureus Activates the Cell Wall Stress
Response.” FEMS Microbiology Letters. Oxford University Press, 2012. https://doi.org/10.1111/j.1574-6968.2012.02603.x.
ieee: V. Dengler et al., “Deletion of hypothetical wall teichoic acid ligases
in Staphylococcus aureus activates the cell wall stress response,” FEMS Microbiology
Letters, vol. 333, no. 2. Oxford University Press, pp. 109–120, 2012.
ista: Dengler V, Meier PS, Heusser R, Kupferschmied P, Singer J, Friebe S, Staufer
SB, Majcherczyk PA, Moreillon P, Berger-Bächi B, McCallum N. 2012. Deletion of
hypothetical wall teichoic acid ligases in Staphylococcus aureus activates the
cell wall stress response. FEMS Microbiology Letters. 333(2), 109–120.
mla: Dengler, Vanina, et al. “Deletion of Hypothetical Wall Teichoic Acid Ligases
in Staphylococcus Aureus Activates the Cell Wall Stress Response.” FEMS Microbiology
Letters, vol. 333, no. 2, Oxford University Press, 2012, pp. 109–20, doi:10.1111/j.1574-6968.2012.02603.x.
short: V. Dengler, P.S. Meier, R. Heusser, P. Kupferschmied, J. Singer, S. Friebe,
S.B. Staufer, P.A. Majcherczyk, P. Moreillon, B. Berger-Bächi, N. McCallum, FEMS
Microbiology Letters 333 (2012) 109–120.
date_created: 2020-08-10T11:54:47Z
date_published: 2012-08-01T00:00:00Z
date_updated: 2021-01-12T08:17:43Z
day: '01'
doi: 10.1111/j.1574-6968.2012.02603.x
extern: '1'
external_id:
pmid:
- '22640011'
intvolume: ' 333'
issue: '2'
language:
- iso: eng
month: '08'
oa_version: None
page: 109-120
pmid: 1
publication: FEMS Microbiology Letters
publication_identifier:
issn:
- 0378-1097
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
status: public
title: Deletion of hypothetical wall teichoic acid ligases in Staphylococcus aureus
activates the cell wall stress response
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 333
year: '2012'
...
---
_id: '826'
abstract:
- lang: eng
text: Plants exhibit a unique developmental flexibility to ever-changing environmental
conditions. To achieve their profound adaptability, plants are able to maintain
permanent stem cell populations and form new organs during the entire plant life
cycle. Signaling substances, called plant hormones, such as auxin, cytokinin,
abscisic acid, brassinosteroid, ethylene, gibberellin, jasmonic acid, and strigolactone,
govern and coordinate these developmental processes. Physiological and genetic
studies have dissected the molecular components of signal perception and transduction
of the individual hormonal pathways. However, over recent years it has become
evident that hormones do not act only in a linear pathway. Hormonal pathways are
interconnected by a complex network of interactions and feedback circuits that
determines the final outcome of the individual hormone actions. This raises questions
about the molecular mechanisms underlying hormonal cross talk and about how these
hormonal networks are established, maintained, and modulated throughout plant
development.
acknowledgement: We would like to thank Annick Bleys for help in preparing the manuscript.
This work was supported by the European Research Council with a Starting Independent
Research grant (ERC-2007-Stg-207362-HCPO) and the project CZ.1.07/2.3.00/20.0043
(to the Central European Institute of Technology, CEITEC) to E.B. M.V. is a postdoctoral
fellow of the Research Foundation Flanders. We apologize that, because of space
restrictions, the scientific contributions of only a limited number of original
articles could be cited and discussed.
author:
- first_name: Marleen
full_name: Vanstraelen, Marleen
last_name: Vanstraelen
- first_name: Eva
full_name: Eva Benková
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Vanstraelen M, Benková E. Hormonal interactions in the regulation of plant
development. Annual Review of Cell and Developmental Biology. 2012;28:463-487.
doi:10.1146/annurev-cellbio-101011-155741
apa: Vanstraelen, M., & Benková, E. (2012). Hormonal interactions in the regulation
of plant development. Annual Review of Cell and Developmental Biology.
Annual Reviews. https://doi.org/10.1146/annurev-cellbio-101011-155741
chicago: Vanstraelen, Marleen, and Eva Benková. “Hormonal Interactions in the Regulation
of Plant Development.” Annual Review of Cell and Developmental Biology.
Annual Reviews, 2012. https://doi.org/10.1146/annurev-cellbio-101011-155741.
ieee: M. Vanstraelen and E. Benková, “Hormonal interactions in the regulation of
plant development,” Annual Review of Cell and Developmental Biology, vol.
28. Annual Reviews, pp. 463–487, 2012.
ista: Vanstraelen M, Benková E. 2012. Hormonal interactions in the regulation of
plant development. Annual Review of Cell and Developmental Biology. 28, 463–487.
mla: Vanstraelen, Marleen, and Eva Benková. “Hormonal Interactions in the Regulation
of Plant Development.” Annual Review of Cell and Developmental Biology,
vol. 28, Annual Reviews, 2012, pp. 463–87, doi:10.1146/annurev-cellbio-101011-155741.
short: M. Vanstraelen, E. Benková, Annual Review of Cell and Developmental Biology
28 (2012) 463–487.
date_created: 2018-12-11T11:48:43Z
date_published: 2012-11-01T00:00:00Z
date_updated: 2021-01-12T08:17:46Z
day: '01'
doi: 10.1146/annurev-cellbio-101011-155741
extern: 1
intvolume: ' 28'
month: '11'
page: 463 - 487
publication: Annual Review of Cell and Developmental Biology
publication_status: published
publisher: Annual Reviews
publist_id: '6822'
quality_controlled: 0
status: public
title: Hormonal interactions in the regulation of plant development
type: journal_article
volume: 28
year: '2012'
...
---
_id: '829'
abstract:
- lang: eng
text: The architecture of a plant's root system, established postembryonically,
results from both coordinated root growth and lateral root branching. The plant
hormones auxin and cytokinin are central endogenous signaling molecules that regulate
lateral root organogenesis positively and negatively, respectively. Tight control
and mutual balance of their antagonistic activities are particularly important
during the early phases of lateral root organogenesis to ensure continuous lateral
root initiation (LRI) and proper development of lateral root primordia (LRP).
Here, we show that the early phases of lateral root organogenesis, including priming
and initiation, take place in root zones with a repressed cytokinin response.
Accordingly, ectopic overproduction of cytokinin in the root basal meristem most
efficiently inhibits LRI. Enhanced cytokinin responses in pericycle cells between
existing LRP might restrict LRI near existing LRP and, when compromised, ectopic
LRI occurs. Furthermore, our results demonstrate that young LRP are more sensitive
to perturbations in the cytokinin activity than are developmentally more advanced
primordia. We hypothesize that the effect of cytokinin on the development of primordia
possibly depends on the robustness and stability of the auxin gradient.
acknowledgement: We thank Jen Sheen, Dolf Weijers, Tatsuo Kakimoto, Stephen Depuydt,
and Laurent Laplaze for sharing published material, Jiri Friml for discussions,
and Martine De Cock and Annick Bleys for help in preparing the manuscript. This
work was supported by a Starting Independent Research grant from the European Research
Council (ERC-2007-Stg-207362-HCPO) and the project CZ.1.07/2.3.00/20.0043 to the
Central European Institute of Technology to E.B. and grants from the Ministry of
Education, Youth, and Sports of the Czech Republic (MSM 6198959216) and the Centre
of the Region Haná for Biotechnological and Agricultural Research (ED0007/01/01)
to P.T.
author:
- first_name: Agnieszka
full_name: Bielach, Agnieszka
last_name: Bielach
- first_name: Katerina
full_name: Podlesakova, Katerina
last_name: Podlesakova
- first_name: Peter
full_name: Peter Marhavy
id: 3F45B078-F248-11E8-B48F-1D18A9856A87
last_name: Marhavy
orcid: 0000-0001-5227-5741
- first_name: Jérôme
full_name: Duclercq, Jérôme
last_name: Duclercq
- first_name: Candela
full_name: Candela Cuesta
id: 33A3C818-F248-11E8-B48F-1D18A9856A87
last_name: Cuesta
orcid: 0000-0003-1923-2410
- first_name: Bruno
full_name: Muller, Bruno
last_name: Muller
- first_name: Wim
full_name: Grunewald, Wim
last_name: Grunewald
- first_name: Petr
full_name: Tarkowski, Petr
last_name: Tarkowski
- first_name: Eva
full_name: Eva Benková
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Bielach A, Podlesakova K, Marhavý P, et al. Spatiotemporal regulation of lateral
root organogenesis in Arabidopsis by cytokinin. The Plant Cell. 2012;24(10):3967-3981.
doi:10.1105/tpc.112.103044
apa: Bielach, A., Podlesakova, K., Marhavý, P., Duclercq, J., Cuesta, C., Muller,
B., … Benková, E. (2012). Spatiotemporal regulation of lateral root organogenesis
in Arabidopsis by cytokinin. The Plant Cell. American Society of Plant
Biologists. https://doi.org/10.1105/tpc.112.103044
chicago: Bielach, Agnieszka, Katerina Podlesakova, Peter Marhavý, Jérôme Duclercq,
Candela Cuesta, Bruno Muller, Wim Grunewald, Petr Tarkowski, and Eva Benková.
“Spatiotemporal Regulation of Lateral Root Organogenesis in Arabidopsis by Cytokinin.”
The Plant Cell. American Society of Plant Biologists, 2012. https://doi.org/10.1105/tpc.112.103044.
ieee: A. Bielach et al., “Spatiotemporal regulation of lateral root organogenesis
in Arabidopsis by cytokinin,” The Plant Cell, vol. 24, no. 10. American
Society of Plant Biologists, pp. 3967–3981, 2012.
ista: Bielach A, Podlesakova K, Marhavý P, Duclercq J, Cuesta C, Muller B, Grunewald
W, Tarkowski P, Benková E. 2012. Spatiotemporal regulation of lateral root organogenesis
in Arabidopsis by cytokinin. The Plant Cell. 24(10), 3967–3981.
mla: Bielach, Agnieszka, et al. “Spatiotemporal Regulation of Lateral Root Organogenesis
in Arabidopsis by Cytokinin.” The Plant Cell, vol. 24, no. 10, American
Society of Plant Biologists, 2012, pp. 3967–81, doi:10.1105/tpc.112.103044.
short: A. Bielach, K. Podlesakova, P. Marhavý, J. Duclercq, C. Cuesta, B. Muller,
W. Grunewald, P. Tarkowski, E. Benková, The Plant Cell 24 (2012) 3967–3981.
date_created: 2018-12-11T11:48:43Z
date_published: 2012-10-01T00:00:00Z
date_updated: 2021-01-12T08:17:55Z
day: '01'
doi: 10.1105/tpc.112.103044
extern: 1
intvolume: ' 24'
issue: '10'
month: '10'
page: 3967 - 3981
publication: The Plant Cell
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '6819'
quality_controlled: 0
status: public
title: Spatiotemporal regulation of lateral root organogenesis in Arabidopsis by cytokinin
type: journal_article
volume: 24
year: '2012'
...
---
_id: '846'
abstract:
- lang: eng
text: Whether or not evolutionary change is inherently irreversible remains a controversial
topic. Some examples of evolutionary irreversibility are known; however, this
question has not been comprehensively addressed at the molecular level. Here,
we use data from 221 human genes with known pathogenic mutations to estimate the
rate of irreversibility in protein evolution. For these genes, we reconstruct
ancestral amino acid sequences along the mammalian phylogeny and identify ancestral
amino acid states that match known pathogenic mutations. Such cases represent
inherent evolutionary irreversibility because, at the present moment, reversals
to these ancestral amino acid states are impossible for the human lineage. We
estimate that approximately 10% of all amino acid substitutions along the mammalian
phylogeny are irreversible, such that a return to the ancestral amino acid state
would lead to a pathogenic phenotype. For a subset of 51 genes with high rates
of irreversibility, as much as 40% of all amino acid evolution was estimated to
be irreversible. Because pathogenic phenotypes do not resemble ancestral phenotypes,
the molecular nature of the high rate of irreversibility in proteins is best explained
by evolution with a high prevalence of compensatory, epistatic interactions between
amino acid sites. Under such mode of protein evolution, once an amino acid substitution
is fixed, the probability of its reversal declines as the protein sequence accumulates
changes that affect the phenotypic manifestation of the ancestral state. The prevalence
of epistasis in evolution indicates that the observed high rate of irreversibility
in protein evolution is an inherent property of protein structure and function.
acknowledgement: This work was supported by Plan Nacional grant BFU2009-09271 from
the Spanish Ministry of Science and Innovation and by FPU (Formación del Profesorado
Universitario) program grant AP2008-01888 from the Spanish Ministry of Education
to O.S. F.A.K. is a European Molecular Biology Organization Young Investigator and
Howard Hughes Medical Institute International Early Career Scientist.
author:
- first_name: Onuralp
full_name: Soylemez, Onuralp
last_name: Soylemez
- first_name: Fyodor
full_name: Fyodor Kondrashov
id: 44FDEF62-F248-11E8-B48F-1D18A9856A87
last_name: Kondrashov
orcid: 0000-0001-8243-4694
citation:
ama: Soylemez O, Kondrashov F. Estimating the rate of irreversibility in protein
evolution. Genome Biology and Evolution. 2012;4(12):1213-1222. doi:10.1093/gbe/evs096
apa: Soylemez, O., & Kondrashov, F. (2012). Estimating the rate of irreversibility
in protein evolution. Genome Biology and Evolution. Oxford University Press.
https://doi.org/10.1093/gbe/evs096
chicago: Soylemez, Onuralp, and Fyodor Kondrashov. “Estimating the Rate of Irreversibility
in Protein Evolution.” Genome Biology and Evolution. Oxford University
Press, 2012. https://doi.org/10.1093/gbe/evs096.
ieee: O. Soylemez and F. Kondrashov, “Estimating the rate of irreversibility in
protein evolution,” Genome Biology and Evolution, vol. 4, no. 12. Oxford
University Press, pp. 1213–1222, 2012.
ista: Soylemez O, Kondrashov F. 2012. Estimating the rate of irreversibility in
protein evolution. Genome Biology and Evolution. 4(12), 1213–1222.
mla: Soylemez, Onuralp, and Fyodor Kondrashov. “Estimating the Rate of Irreversibility
in Protein Evolution.” Genome Biology and Evolution, vol. 4, no. 12, Oxford
University Press, 2012, pp. 1213–22, doi:10.1093/gbe/evs096.
short: O. Soylemez, F. Kondrashov, Genome Biology and Evolution 4 (2012) 1213–1222.
date_created: 2018-12-11T11:48:49Z
date_published: 2012-01-01T00:00:00Z
date_updated: 2021-01-12T08:19:25Z
day: '01'
doi: 10.1093/gbe/evs096
extern: 1
intvolume: ' 4'
issue: '12'
month: '01'
page: 1213 - 1222
publication: Genome Biology and Evolution
publication_status: published
publisher: Oxford University Press
publist_id: '6802'
quality_controlled: 0
status: public
title: Estimating the rate of irreversibility in protein evolution
tmp:
image: /images/cc_by_nc.png
legal_code_url: https://creativecommons.org/licenses/by-nc/4.0/legalcode
name: Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)
short: CC BY-NC (4.0)
type: journal_article
volume: 4
year: '2012'
...
---
_id: '8463'
abstract:
- lang: eng
text: The 1H dipolar network, which is the major obstacle for applying proton detection
in the solid-state, can be reduced by deuteration, employing the RAP (Reduced
Adjoining Protonation) labeling scheme, which yields random protonation at non-exchangeable
sites. We present here a systematic study on the optimal degree of random sidechain
protonation in RAP samples as a function of the MAS (magic angle spinning) frequency.
In particular, we compare 1H sensitivity and linewidth of a microcrystalline protein,
the SH3 domain of chicken α-spectrin, for samples, prepared with 5–25 % H2O in
the E. coli growth medium, in the MAS frequency range of 20–60 kHz. At an external
field of 19.96 T (850 MHz), we find that using a proton concentration between
15 and 25 % in the M9 medium yields the best compromise in terms of sensitivity
and resolution, with an achievable average 1H linewidth on the order of 40–50
Hz. Comparing sensitivities at a MAS frequency of 60 versus 20 kHz, a gain in
sensitivity by a factor of 4–4.5 is observed in INEPT-based 1H detected 1D 1H,13C
correlation experiments. In total, we find that spectra recorded with a 1.3 mm
rotor at 60 kHz have almost the same sensitivity as spectra recorded with a fully
packed 3.2 mm rotor at 20 kHz, even though ~20× less material is employed. The
improved sensitivity is attributed to 1H line narrowing due to fast MAS and to
the increased efficiency of the 1.3 mm coil.
article_processing_charge: No
article_type: original
author:
- first_name: Sam
full_name: Asami, Sam
last_name: Asami
- first_name: Kathrin
full_name: Szekely, Kathrin
last_name: Szekely
- 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: Bernd
full_name: Reif, Bernd
last_name: Reif
citation:
ama: Asami S, Szekely K, Schanda P, Meier BH, Reif B. Optimal degree of protonation
for 1H detection of aliphatic sites in randomly deuterated proteins as a function
of the MAS frequency. Journal of Biomolecular NMR. 2012;54(2):155-168.
doi:10.1007/s10858-012-9659-9
apa: Asami, S., Szekely, K., Schanda, P., Meier, B. H., & Reif, B. (2012). Optimal
degree of protonation for 1H detection of aliphatic sites in randomly deuterated
proteins as a function of the MAS frequency. Journal of Biomolecular NMR.
Springer Nature. https://doi.org/10.1007/s10858-012-9659-9
chicago: Asami, Sam, Kathrin Szekely, Paul Schanda, Beat H. Meier, and Bernd Reif.
“Optimal Degree of Protonation for 1H Detection of Aliphatic Sites in Randomly
Deuterated Proteins as a Function of the MAS Frequency.” Journal of Biomolecular
NMR. Springer Nature, 2012. https://doi.org/10.1007/s10858-012-9659-9.
ieee: S. Asami, K. Szekely, P. Schanda, B. H. Meier, and B. Reif, “Optimal degree
of protonation for 1H detection of aliphatic sites in randomly deuterated proteins
as a function of the MAS frequency,” Journal of Biomolecular NMR, vol.
54, no. 2. Springer Nature, pp. 155–168, 2012.
ista: Asami S, Szekely K, Schanda P, Meier BH, Reif B. 2012. Optimal degree of protonation
for 1H detection of aliphatic sites in randomly deuterated proteins as a function
of the MAS frequency. Journal of Biomolecular NMR. 54(2), 155–168.
mla: Asami, Sam, et al. “Optimal Degree of Protonation for 1H Detection of Aliphatic
Sites in Randomly Deuterated Proteins as a Function of the MAS Frequency.” Journal
of Biomolecular NMR, vol. 54, no. 2, Springer Nature, 2012, pp. 155–68, doi:10.1007/s10858-012-9659-9.
short: S. Asami, K. Szekely, P. Schanda, B.H. Meier, B. Reif, Journal of Biomolecular
NMR 54 (2012) 155–168.
date_created: 2020-09-18T10:09:18Z
date_published: 2012-08-23T00:00:00Z
date_updated: 2021-01-12T08:19:27Z
day: '23'
doi: 10.1007/s10858-012-9659-9
extern: '1'
intvolume: ' 54'
issue: '2'
language:
- iso: eng
month: '08'
oa_version: None
page: 155-168
publication: Journal of Biomolecular NMR
publication_identifier:
issn:
- 0925-2738
- 1573-5001
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: Optimal degree of protonation for 1H detection of aliphatic sites in randomly
deuterated proteins as a function of the MAS frequency
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 54
year: '2012'
...