---
_id: '1981'
abstract:
- lang: eng
text: Variation in mitochondrial DNA is often assumed to be neutral and is used
to construct the genealogical relationships among populations and species. However,
if extant variation is the result of episodes of positive selection, these genealogies
may be incorrect, although this information itself may provide biologically and
evolutionary meaningful information. In fact, positive Darwinian selection has
been detected in the mitochondrial-encoded subunits that comprise complex I from
diverse taxa with seemingly dissimilar bioenergetic life histories, but the functional
implications of the selected sites are unknown. Complex I produces roughly 40%
of the proton flux that is used to synthesize ATP from ADP, and a functional model
based on the high-resolution structure of complex I described a unique biomechanical
apparatus for proton translocation. We reported positive selection at sites in
this apparatus during the evolution of Pacific salmon, and it appeared this was
also the case in published reports from other taxa, but a comparison among studies
was difficult because different statistical tests were used to detect selection
and oftentimes, specific sites were not reported. Here we review the literature
of positive selection in mitochondrial genomes, the statistical tests used to
detect selection, and the structural and functional models that are currently
available to study the physiological implications of selection. We then search
for signatures of positive selection among the coding mitochondrial genomes of
237 species with a common set of tests and verify that the ND5 subunit of complex
I is a repeated target of positive Darwinian selection in diverse taxa. We propose
a novel hypothesis to explain the results based on their bioenergetic life histories
and provide a guide for laboratory and field studies to test this hypothesis.
acknowledgement: Funded by University of Alaska Center for Global Change Student
Research Cooperative Institute for Alaska Research and the Rasmuson Foundation
author:
- first_name: Michael
full_name: Garvin, Michael R
last_name: Garvin
- first_name: Joseph
full_name: Bielawski, Joseph P
last_name: Bielawski
- first_name: Leonid A
full_name: Leonid Sazanov
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Anthony
full_name: Gharrett, Anthony J
last_name: Gharrett
citation:
ama: Garvin M, Bielawski J, Sazanov LA, Gharrett A. Review and meta-analysis of
natural selection in mitochondrial complex I in metazoans. Journal of Zoological
Systematics and Evolutionary Research. 2014;53(1):1-17. doi:10.1111/jzs.12079
apa: Garvin, M., Bielawski, J., Sazanov, L. A., & Gharrett, A. (2014). Review
and meta-analysis of natural selection in mitochondrial complex I in metazoans.
Journal of Zoological Systematics and Evolutionary Research. Wiley-Blackwell.
https://doi.org/10.1111/jzs.12079
chicago: Garvin, Michael, Joseph Bielawski, Leonid A Sazanov, and Anthony Gharrett.
“Review and Meta-Analysis of Natural Selection in Mitochondrial Complex I in Metazoans.”
Journal of Zoological Systematics and Evolutionary Research. Wiley-Blackwell,
2014. https://doi.org/10.1111/jzs.12079.
ieee: M. Garvin, J. Bielawski, L. A. Sazanov, and A. Gharrett, “Review and meta-analysis
of natural selection in mitochondrial complex I in metazoans,” Journal of Zoological
Systematics and Evolutionary Research, vol. 53, no. 1. Wiley-Blackwell, pp.
1–17, 2014.
ista: Garvin M, Bielawski J, Sazanov LA, Gharrett A. 2014. Review and meta-analysis
of natural selection in mitochondrial complex I in metazoans. Journal of Zoological
Systematics and Evolutionary Research. 53(1), 1–17.
mla: Garvin, Michael, et al. “Review and Meta-Analysis of Natural Selection in Mitochondrial
Complex I in Metazoans.” Journal of Zoological Systematics and Evolutionary
Research, vol. 53, no. 1, Wiley-Blackwell, 2014, pp. 1–17, doi:10.1111/jzs.12079.
short: M. Garvin, J. Bielawski, L.A. Sazanov, A. Gharrett, Journal of Zoological
Systematics and Evolutionary Research 53 (2014) 1–17.
date_created: 2018-12-11T11:55:02Z
date_published: 2014-02-01T00:00:00Z
date_updated: 2019-04-26T07:22:06Z
day: '01'
doi: 10.1111/jzs.12079
extern: 1
intvolume: ' 53'
issue: '1'
month: '02'
page: 1 - 17
publication: Journal of Zoological Systematics and Evolutionary Research
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5102'
quality_controlled: 0
status: public
title: Review and meta-analysis of natural selection in mitochondrial complex I in
metazoans
type: review
volume: 53
year: '2014'
...
---
_id: '1980'
abstract:
- lang: eng
text: Non-proton pumping type II NADH dehydrogenase (NDH-2) plays a central role
in the respiratory metabolism of bacteria, and in the mitochondria of fungi, plants
and protists. The lack of NDH-2 in mammalian mitochondria and its essentiality
in important bacterial pathogens suggests these enzymes may represent a potential
new drug target to combat microbial pathogens. Here, we report the first crystal
structure of a bacterial NDH-2 enzyme at 2.5Å resolution from Caldalkalibacillus
thermarum. The NDH-2 structure reveals a homodimeric organization that has a unique
dimer interface. NDH-2 is localized to the cytoplasmic membrane by two separated
C-terminal membrane-anchoring regions that are essential for membrane localization
and FAD binding, but not NDH-2 dimerization. Comparison of bacterial NDH-2 with
the yeast NADH dehydrogenase (Ndi1) structure revealed non-overlapping binding
sites for quinone and NADH in the bacterial enzyme. The bacterial NDH-2 structure
establishes a framework for the structure-based design of small-molecule inhibitors.
acknowledgement: Funded by Health Research Council of New Zealand Royal Society
of New Zealand University of Otago New Zealand Synchrotron Group
author:
- first_name: Adam
full_name: 'Heikal, Adam '
last_name: Heikal
- first_name: Yoshio
full_name: Nakatani, Yoshio
last_name: Nakatani
- first_name: Elyse
full_name: Dunn, Elyse A
last_name: Dunn
- first_name: Marion
full_name: Weimar, Marion R
last_name: Weimar
- first_name: Catherine
full_name: Day, Catherine
last_name: Day
- first_name: Edward
full_name: Baker, Edward N
last_name: Baker
- first_name: Shaun
full_name: Lott, Shaun J
last_name: Lott
- first_name: Leonid A
full_name: Leonid Sazanov
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
- first_name: Gregory
full_name: Cook, Gregory
last_name: Cook
citation:
ama: 'Heikal A, Nakatani Y, Dunn E, et al. Structure of the bacterial type II NADH
dehydrogenase: a monotopic membrane protein with an essential role in energy generation.
Molecular Microbiology. 2014;91(5):950-964. doi:10.1111/mmi.12507'
apa: 'Heikal, A., Nakatani, Y., Dunn, E., Weimar, M., Day, C., Baker, E., … Cook,
G. (2014). Structure of the bacterial type II NADH dehydrogenase: a monotopic
membrane protein with an essential role in energy generation. Molecular Microbiology.
Wiley-Blackwell. https://doi.org/10.1111/mmi.12507'
chicago: 'Heikal, Adam, Yoshio Nakatani, Elyse Dunn, Marion Weimar, Catherine Day,
Edward Baker, Shaun Lott, Leonid A Sazanov, and Gregory Cook. “Structure of the
Bacterial Type II NADH Dehydrogenase: A Monotopic Membrane Protein with an Essential
Role in Energy Generation.” Molecular Microbiology. Wiley-Blackwell, 2014.
https://doi.org/10.1111/mmi.12507.'
ieee: 'A. Heikal et al., “Structure of the bacterial type II NADH dehydrogenase:
a monotopic membrane protein with an essential role in energy generation,” Molecular
Microbiology, vol. 91, no. 5. Wiley-Blackwell, pp. 950–964, 2014.'
ista: 'Heikal A, Nakatani Y, Dunn E, Weimar M, Day C, Baker E, Lott S, Sazanov LA,
Cook G. 2014. Structure of the bacterial type II NADH dehydrogenase: a monotopic
membrane protein with an essential role in energy generation. Molecular Microbiology.
91(5), 950–964.'
mla: 'Heikal, Adam, et al. “Structure of the Bacterial Type II NADH Dehydrogenase:
A Monotopic Membrane Protein with an Essential Role in Energy Generation.” Molecular
Microbiology, vol. 91, no. 5, Wiley-Blackwell, 2014, pp. 950–64, doi:10.1111/mmi.12507.'
short: A. Heikal, Y. Nakatani, E. Dunn, M. Weimar, C. Day, E. Baker, S. Lott, L.A.
Sazanov, G. Cook, Molecular Microbiology 91 (2014) 950–964.
date_created: 2018-12-11T11:55:01Z
date_published: 2014-03-01T00:00:00Z
date_updated: 2021-01-12T06:54:29Z
day: '01'
doi: 10.1111/mmi.12507
extern: 1
intvolume: ' 91'
issue: '5'
month: '03'
page: 950 - 964
publication: Molecular Microbiology
publication_status: published
publisher: Wiley-Blackwell
publist_id: '5103'
quality_controlled: 0
status: public
title: 'Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane
protein with an essential role in energy generation'
type: journal_article
volume: 91
year: '2014'
...
---
_id: '1979'
abstract:
- lang: eng
text: NADH-ubiquinone oxidoreductase (complex I) is the first and largest enzyme
in the respiratory chain of mitochondria and many bacteria. It couples the transfer
of two electrons between NADH and ubiquinone to the translocation of four protons
across the membrane. Complex I is an L-shaped assembly formed by the hydrophilic
(peripheral) arm, containing all the redox centres performing electron transfer
and the membrane arm, containing proton-translocating machinery. Mitochondrial
complex I consists of 44 subunits of about 1 MDa in total, whilst the prokaryotic
enzyme is simpler and generally consists of 14 conserved “core” subunits. Recently
we have determined the first atomic structure of the entire complex I, using the
enzyme from Thermus thermophilus (536 kDa, 16 subunits, 9 Fe-S clusters, 64 TM
helices). Structure suggests a unique coupling mechanism, with redox energy of
electron transfer driving proton translocation via long-range (up to ~200 Å) conformational
changes. It resembles a steam engine, with coupling elements (akin to coupling
rods) linking parts of this molecular machine.
author:
- first_name: Leonid A
full_name: Leonid Sazanov
id: 338D39FE-F248-11E8-B48F-1D18A9856A87
last_name: Sazanov
orcid: 0000-0002-0977-7989
citation:
ama: Sazanov LA. The mechanism of coupling between electron transfer and proton
translocation in respiratory complex I. Journal of Bioenergetics and Biomembranes.
2014;46(4):247-253. doi:10.1007/s10863-014-9554-z
apa: Sazanov, L. A. (2014). The mechanism of coupling between electron transfer
and proton translocation in respiratory complex I. Journal of Bioenergetics
and Biomembranes. Springer. https://doi.org/10.1007/s10863-014-9554-z
chicago: Sazanov, Leonid A. “The Mechanism of Coupling between Electron Transfer
and Proton Translocation in Respiratory Complex I.” Journal of Bioenergetics
and Biomembranes. Springer, 2014. https://doi.org/10.1007/s10863-014-9554-z.
ieee: L. A. Sazanov, “The mechanism of coupling between electron transfer and proton
translocation in respiratory complex I,” Journal of Bioenergetics and Biomembranes,
vol. 46, no. 4. Springer, pp. 247–253, 2014.
ista: Sazanov LA. 2014. The mechanism of coupling between electron transfer and
proton translocation in respiratory complex I. Journal of Bioenergetics and Biomembranes.
46(4), 247–253.
mla: Sazanov, Leonid A. “The Mechanism of Coupling between Electron Transfer and
Proton Translocation in Respiratory Complex I.” Journal of Bioenergetics and
Biomembranes, vol. 46, no. 4, Springer, 2014, pp. 247–53, doi:10.1007/s10863-014-9554-z.
short: L.A. Sazanov, Journal of Bioenergetics and Biomembranes 46 (2014) 247–253.
date_created: 2018-12-11T11:55:01Z
date_published: 2014-08-01T00:00:00Z
date_updated: 2021-01-12T06:54:28Z
day: '01'
doi: 10.1007/s10863-014-9554-z
extern: 1
intvolume: ' 46'
issue: '4'
month: '08'
page: 247 - 253
publication: Journal of Bioenergetics and Biomembranes
publication_status: published
publisher: Springer
publist_id: '5104'
quality_controlled: 0
status: public
title: The mechanism of coupling between electron transfer and proton translocation
in respiratory complex I
type: journal_article
volume: 46
year: '2014'
...
---
_id: '1989'
abstract:
- lang: eng
text: During animal cell division, the cleavage furrow is positioned by microtubules
that signal to the actin cortex at the cell midplane. We developed a cell-free
system to recapitulate cytokinesis signaling using cytoplasmic extract from Xenopus
eggs. Microtubules grew out as asters from artificial centrosomes and met to organize
antiparallel overlap zones. These zones blocked the interpenetration of neighboring
asters and recruited cytokinesis midzone proteins, including the chromosomal passenger
complex (CPC) and centralspindlin. The CPC was transported to overlap zones, which
required two motor proteins, Kif4A and a Kif20A paralog. Using supported lipid
bilayers to mimic the plasma membrane, we observed the recruitment of cleavage
furrow markers, including an active RhoA reporter, at microtubule overlaps. This
system opens further approaches to understanding the biophysics of cytokinesis
signaling.
acknowledgement: 'This work was supported by NIH grant GM39565 (T.J.M.); MBL fellowships
from the Evans Foundation, MBL Associates, and the Colwin Fund (T.J.M. and C.M.F.);
HFSP fellowship LT000466/2012-L (M.L.); and NIH grant GM103785 (M.W.). '
author:
- first_name: Phuong
full_name: Nguyen, Phuong A
last_name: Nguyen
- first_name: Aaron
full_name: Groen, Aaron C
last_name: Groen
- first_name: Martin
full_name: Martin Loose
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Keisuke
full_name: 'Ishihara, Keisuke '
last_name: Ishihara
- first_name: Martin
full_name: 'Wühr, Martin '
last_name: Wühr
- first_name: Christine
full_name: Field, Christine M
last_name: Field
- first_name: Timothy
full_name: Mitchison, Timothy J
last_name: Mitchison
citation:
ama: Nguyen P, Groen A, Loose M, et al. Spatial organization of cytokinesis signaling
reconstituted in a cell-free system. Science. 2014;346(6206):244-247. doi:10.1126/science.1256773
apa: Nguyen, P., Groen, A., Loose, M., Ishihara, K., Wühr, M., Field, C., &
Mitchison, T. (2014). Spatial organization of cytokinesis signaling reconstituted
in a cell-free system. Science. American Association for the Advancement
of Science. https://doi.org/10.1126/science.1256773
chicago: Nguyen, Phuong, Aaron Groen, Martin Loose, Keisuke Ishihara, Martin Wühr,
Christine Field, and Timothy Mitchison. “Spatial Organization of Cytokinesis Signaling
Reconstituted in a Cell-Free System.” Science. American Association for
the Advancement of Science, 2014. https://doi.org/10.1126/science.1256773.
ieee: P. Nguyen et al., “Spatial organization of cytokinesis signaling reconstituted
in a cell-free system,” Science, vol. 346, no. 6206. American Association
for the Advancement of Science, pp. 244–247, 2014.
ista: Nguyen P, Groen A, Loose M, Ishihara K, Wühr M, Field C, Mitchison T. 2014.
Spatial organization of cytokinesis signaling reconstituted in a cell-free system.
Science. 346(6206), 244–247.
mla: Nguyen, Phuong, et al. “Spatial Organization of Cytokinesis Signaling Reconstituted
in a Cell-Free System.” Science, vol. 346, no. 6206, American Association
for the Advancement of Science, 2014, pp. 244–47, doi:10.1126/science.1256773.
short: P. Nguyen, A. Groen, M. Loose, K. Ishihara, M. Wühr, C. Field, T. Mitchison,
Science 346 (2014) 244–247.
date_created: 2018-12-11T11:55:04Z
date_published: 2014-10-10T00:00:00Z
date_updated: 2021-01-12T06:54:32Z
day: '10'
doi: 10.1126/science.1256773
extern: 1
intvolume: ' 346'
issue: '6206'
month: '10'
page: 244 - 247
publication: Science
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '5093'
quality_controlled: 0
status: public
title: Spatial organization of cytokinesis signaling reconstituted in a cell-free
system
type: journal_article
volume: 346
year: '2014'
...
---
_id: '1990'
abstract:
- lang: eng
text: 'Bacterial cytokinesis is commonly initiated by the Z-ring, a cytoskeletal
structure that assembles at the site of division. Its primary component is FtsZ,
a tubulin superfamily GTPase, which is recruited to the membrane by the actin-related
protein FtsA. Both proteins are required for the formation of the Z-ring, but
if and how they influence each other''s assembly dynamics is not known. Here,
we reconstituted FtsA-dependent recruitment of FtsZ polymers to supported membranes,
where both proteins self-organize into complex patterns, such as fast-moving filament
bundles and chirally rotating rings. Using fluorescence microscopy and biochemical
perturbations, we found that these large-scale rearrangements of FtsZ emerge from
its polymerization dynamics and a dual, antagonistic role of FtsA: recruitment
of FtsZ filaments to the membrane and negative regulation of FtsZ organization.
Our findings provide a model for the initial steps of bacterial cell division
and illustrate how dynamic polymers can self-organize into large-scale structures.'
acknowledgement: M.L. is supported by fellowships from EMBO (ALTF 394-2011) and HFSP
(LT000466/2012). Cytoskeleton dynamics research in the T.J.M. group is supported
by NIH-GM39565.
author:
- first_name: Martin
full_name: Martin Loose
id: 462D4284-F248-11E8-B48F-1D18A9856A87
last_name: Loose
orcid: 0000-0001-7309-9724
- first_name: Timothy
full_name: Mitchison, Timothy J
last_name: Mitchison
citation:
ama: Loose M, Mitchison T. The bacterial cell division proteins ftsA and ftsZ self-organize
into dynamic cytoskeletal patterns. Nature Cell Biology. 2014;16(1):38-46.
doi:10.1038/ncb2885
apa: Loose, M., & Mitchison, T. (2014). The bacterial cell division proteins
ftsA and ftsZ self-organize into dynamic cytoskeletal patterns. Nature Cell
Biology. Nature Publishing Group. https://doi.org/10.1038/ncb2885
chicago: Loose, Martin, and Timothy Mitchison. “The Bacterial Cell Division Proteins
FtsA and FtsZ Self-Organize into Dynamic Cytoskeletal Patterns.” Nature Cell
Biology. Nature Publishing Group, 2014. https://doi.org/10.1038/ncb2885.
ieee: M. Loose and T. Mitchison, “The bacterial cell division proteins ftsA and
ftsZ self-organize into dynamic cytoskeletal patterns,” Nature Cell Biology,
vol. 16, no. 1. Nature Publishing Group, pp. 38–46, 2014.
ista: Loose M, Mitchison T. 2014. The bacterial cell division proteins ftsA and
ftsZ self-organize into dynamic cytoskeletal patterns. Nature Cell Biology. 16(1),
38–46.
mla: Loose, Martin, and Timothy Mitchison. “The Bacterial Cell Division Proteins
FtsA and FtsZ Self-Organize into Dynamic Cytoskeletal Patterns.” Nature Cell
Biology, vol. 16, no. 1, Nature Publishing Group, 2014, pp. 38–46, doi:10.1038/ncb2885.
short: M. Loose, T. Mitchison, Nature Cell Biology 16 (2014) 38–46.
date_created: 2018-12-11T11:55:05Z
date_published: 2014-01-01T00:00:00Z
date_updated: 2021-01-12T06:54:33Z
day: '01'
doi: 10.1038/ncb2885
extern: 1
intvolume: ' 16'
issue: '1'
month: '01'
page: 38 - 46
publication: Nature Cell Biology
publication_status: published
publisher: Nature Publishing Group
publist_id: '5094'
quality_controlled: 0
status: public
title: The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic
cytoskeletal patterns
type: journal_article
volume: 16
year: '2014'
...
---
_id: '1996'
abstract:
- lang: eng
text: Auxin polar transport, local maxima, and gradients have become an importantmodel
system for studying self-organization. Auxin distribution is regulated by auxin-dependent
positive feedback loops that are not well-understood at the molecular level. Previously,
we showed the involvement of the RHO of Plants (ROP) effector INTERACTOR of CONSTITUTIVELY
active ROP 1 (ICR1) in regulation of auxin transport and that ICR1 levels are
posttranscriptionally repressed at the site of maximum auxin accumulation at the
root tip. Here, we show that bimodal regulation of ICR1 levels by auxin is essential
for regulating formation of auxin local maxima and gradients. ICR1 levels increase
concomitant with increase in auxin response in lateral root primordia, cotyledon
tips, and provascular tissues. However, in the embryo hypophysis and root meristem,
when auxin exceeds critical levels, ICR1 is rapidly destabilized by an SCF(TIR1/AFB)
[SKP, Cullin, F-box (transport inhibitor response 1/auxin signaling F-box protein)]-dependent
auxin signaling mechanism. Furthermore, ectopic expression of ICR1 in the embryo
hypophysis resulted in reduction of auxin accumulation and concomitant root growth
arrest. ICR1 disappeared during root regeneration and lateral root initiation
concomitantly with the formation of a local auxin maximum in response to external
auxin treatments and transiently after gravitropic stimulation. Destabilization
of ICR1 was impaired after inhibition of auxin transport and signaling, proteasome
function, and protein synthesis. A mathematical model based on these findings
shows that an in vivo-like auxin distribution, rootward auxin flux, and shootward
reflux can be simulated without assuming preexisting tissue polarity. Our experimental
results and mathematical modeling indicate that regulation of auxin distribution
is tightly associated with auxin-dependent ICR1 levels.
author:
- first_name: Ora
full_name: Hazak, Ora
last_name: Hazak
- first_name: Uri
full_name: Obolski, Uri
last_name: Obolski
- first_name: Tomas
full_name: Prat, Tomas
id: 3DA3BFEE-F248-11E8-B48F-1D18A9856A87
last_name: Prat
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Lilach
full_name: Hadany, Lilach
last_name: Hadany
- first_name: Shaul
full_name: Yalovsky, Shaul
last_name: Yalovsky
citation:
ama: Hazak O, Obolski U, Prat T, Friml J, Hadany L, Yalovsky S. Bimodal regulation
of ICR1 levels generates self-organizing auxin distribution. PNAS. 2014;111(50):E5471-E5479.
doi:10.1073/pnas.1413918111
apa: Hazak, O., Obolski, U., Prat, T., Friml, J., Hadany, L., & Yalovsky, S.
(2014). Bimodal regulation of ICR1 levels generates self-organizing auxin distribution.
PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1413918111
chicago: Hazak, Ora, Uri Obolski, Tomas Prat, Jiří Friml, Lilach Hadany, and Shaul
Yalovsky. “Bimodal Regulation of ICR1 Levels Generates Self-Organizing Auxin Distribution.”
PNAS. National Academy of Sciences, 2014. https://doi.org/10.1073/pnas.1413918111.
ieee: O. Hazak, U. Obolski, T. Prat, J. Friml, L. Hadany, and S. Yalovsky, “Bimodal
regulation of ICR1 levels generates self-organizing auxin distribution,” PNAS,
vol. 111, no. 50. National Academy of Sciences, pp. E5471–E5479, 2014.
ista: Hazak O, Obolski U, Prat T, Friml J, Hadany L, Yalovsky S. 2014. Bimodal regulation
of ICR1 levels generates self-organizing auxin distribution. PNAS. 111(50), E5471–E5479.
mla: Hazak, Ora, et al. “Bimodal Regulation of ICR1 Levels Generates Self-Organizing
Auxin Distribution.” PNAS, vol. 111, no. 50, National Academy of Sciences,
2014, pp. E5471–79, doi:10.1073/pnas.1413918111.
short: O. Hazak, U. Obolski, T. Prat, J. Friml, L. Hadany, S. Yalovsky, PNAS 111
(2014) E5471–E5479.
date_created: 2018-12-11T11:55:07Z
date_published: 2014-12-16T00:00:00Z
date_updated: 2021-01-12T06:54:35Z
day: '16'
department:
- _id: JiFr
doi: 10.1073/pnas.1413918111
intvolume: ' 111'
issue: '50'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4273421/
month: '12'
oa: 1
oa_version: Submitted Version
page: E5471 - E5479
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '5083'
quality_controlled: '1'
scopus_import: 1
status: public
title: Bimodal regulation of ICR1 levels generates self-organizing auxin distribution
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 111
year: '2014'
...
---
_id: '1994'
abstract:
- lang: eng
text: The emergence and radiation of multicellular land plants was driven by crucial
innovations to their body plans [1]. The directional transport of the phytohormone
auxin represents a key, plant-specific mechanism for polarization and patterning
in complex seed plants [2-5]. Here, we show that already in the early diverging
land plant lineage, as exemplified by the moss Physcomitrella patens, auxin transport
by PIN transporters is operational and diversified into ER-localized and plasma
membrane-localized PIN proteins. Gain-of-function and loss-of-function analyses
revealed that PIN-dependent intercellular auxin transport in Physcomitrella mediates
crucial developmental transitions in tip-growing filaments and waves of polarization
and differentiation in leaf-like structures. Plasma membrane PIN proteins localize
in a polar manner to the tips of moss filaments, revealing an unexpected relation
between polarization mechanisms in moss tip-growing cells and multicellular tissues
of seed plants. Our results trace the origins of polarization and auxin-mediated
patterning mechanisms and highlight the crucial role of polarized auxin transport
during the evolution of multicellular land plants.
author:
- first_name: Tom
full_name: Viaene, Tom
last_name: Viaene
- first_name: Katarina
full_name: Landberg, Katarina
last_name: Landberg
- first_name: Mattias
full_name: Thelander, Mattias
last_name: Thelander
- first_name: Eva
full_name: Medvecka, Eva
last_name: Medvecka
- first_name: Eric
full_name: Pederson, Eric
last_name: Pederson
- first_name: Elena
full_name: Feraru, Elena
last_name: Feraru
- first_name: Endymion
full_name: Cooper, Endymion
last_name: Cooper
- first_name: Mansour
full_name: Karimi, Mansour
last_name: Karimi
- first_name: Charles
full_name: Delwiche, Charles
last_name: Delwiche
- first_name: Karin
full_name: Ljung, Karin
last_name: Ljung
- first_name: Markus
full_name: Geisler, Markus
last_name: Geisler
- first_name: Eva
full_name: Sundberg, Eva
last_name: Sundberg
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Viaene T, Landberg K, Thelander M, et al. Directional auxin transport mechanisms
in early diverging land plants. Current Biology. 2014;24(23):2786-2791.
doi:10.1016/j.cub.2014.09.056
apa: Viaene, T., Landberg, K., Thelander, M., Medvecka, E., Pederson, E., Feraru,
E., … Friml, J. (2014). Directional auxin transport mechanisms in early diverging
land plants. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2014.09.056
chicago: Viaene, Tom, Katarina Landberg, Mattias Thelander, Eva Medvecka, Eric Pederson,
Elena Feraru, Endymion Cooper, et al. “Directional Auxin Transport Mechanisms
in Early Diverging Land Plants.” Current Biology. Cell Press, 2014. https://doi.org/10.1016/j.cub.2014.09.056.
ieee: T. Viaene et al., “Directional auxin transport mechanisms in early
diverging land plants,” Current Biology, vol. 24, no. 23. Cell Press, pp.
2786–2791, 2014.
ista: Viaene T, Landberg K, Thelander M, Medvecka E, Pederson E, Feraru E, Cooper
E, Karimi M, Delwiche C, Ljung K, Geisler M, Sundberg E, Friml J. 2014. Directional
auxin transport mechanisms in early diverging land plants. Current Biology. 24(23),
2786–2791.
mla: Viaene, Tom, et al. “Directional Auxin Transport Mechanisms in Early Diverging
Land Plants.” Current Biology, vol. 24, no. 23, Cell Press, 2014, pp. 2786–91,
doi:10.1016/j.cub.2014.09.056.
short: T. Viaene, K. Landberg, M. Thelander, E. Medvecka, E. Pederson, E. Feraru,
E. Cooper, M. Karimi, C. Delwiche, K. Ljung, M. Geisler, E. Sundberg, J. Friml,
Current Biology 24 (2014) 2786–2791.
date_created: 2018-12-11T11:55:06Z
date_published: 2014-12-01T00:00:00Z
date_updated: 2021-01-12T06:54:34Z
day: '01'
department:
- _id: JiFr
doi: 10.1016/j.cub.2014.09.056
ec_funded: 1
intvolume: ' 24'
issue: '23'
language:
- iso: eng
month: '12'
oa_version: None
page: 2786 - 2791
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: Current Biology
publication_status: published
publisher: Cell Press
publist_id: '5088'
quality_controlled: '1'
scopus_import: 1
status: public
title: Directional auxin transport mechanisms in early diverging land plants
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2014'
...
---
_id: '1995'
abstract:
- lang: eng
text: 'Optical transport represents a natural route towards fast communications,
and it is currently used in large scale data transfer. The progressive miniaturization
of devices for information processing calls for the microscopic tailoring of light
transport and confinement at length scales appropriate for upcoming technologies.
With this goal in mind, we present a theoretical analysis of a one-dimensional
Fabry-Perot interferometer built with two highly saturable nonlinear mirrors:
a pair of two-level systems. Our approach captures nonlinear and nonreciprocal
effects of light transport that were not reported previously. Remarkably, we show
that such an elementary device can operate as a microscopic integrated optical
rectifier.'
article_number: '243601'
author:
- first_name: Filippo
full_name: Fratini, Filippo
last_name: Fratini
- first_name: Eduardo
full_name: Mascarenhas, Eduardo
last_name: Mascarenhas
- first_name: Laleh
full_name: Safari, Laleh
id: 3C325E5E-F248-11E8-B48F-1D18A9856A87
last_name: Safari
- first_name: Jean
full_name: Poizat, Jean
last_name: Poizat
- first_name: Daniel
full_name: Valente, Daniel
last_name: Valente
- first_name: Alexia
full_name: Auffèves, Alexia
last_name: Auffèves
- first_name: Dario
full_name: Gerace, Dario
last_name: Gerace
- first_name: Marcelo
full_name: Santos, Marcelo
last_name: Santos
citation:
ama: 'Fratini F, Mascarenhas E, Safari L, et al. Fabry-Perot interferometer with
quantum mirrors: Nonlinear light transport and rectification. Physical Review
Letters. 2014;113(24). doi:10.1103/PhysRevLett.113.243601'
apa: 'Fratini, F., Mascarenhas, E., Safari, L., Poizat, J., Valente, D., Auffèves,
A., … Santos, M. (2014). Fabry-Perot interferometer with quantum mirrors: Nonlinear
light transport and rectification. Physical Review Letters. American Physical
Society. https://doi.org/10.1103/PhysRevLett.113.243601'
chicago: 'Fratini, Filippo, Eduardo Mascarenhas, Laleh Safari, Jean Poizat, Daniel
Valente, Alexia Auffèves, Dario Gerace, and Marcelo Santos. “Fabry-Perot Interferometer
with Quantum Mirrors: Nonlinear Light Transport and Rectification.” Physical
Review Letters. American Physical Society, 2014. https://doi.org/10.1103/PhysRevLett.113.243601.'
ieee: 'F. Fratini et al., “Fabry-Perot interferometer with quantum mirrors:
Nonlinear light transport and rectification,” Physical Review Letters,
vol. 113, no. 24. American Physical Society, 2014.'
ista: 'Fratini F, Mascarenhas E, Safari L, Poizat J, Valente D, Auffèves A, Gerace
D, Santos M. 2014. Fabry-Perot interferometer with quantum mirrors: Nonlinear
light transport and rectification. Physical Review Letters. 113(24), 243601.'
mla: 'Fratini, Filippo, et al. “Fabry-Perot Interferometer with Quantum Mirrors:
Nonlinear Light Transport and Rectification.” Physical Review Letters,
vol. 113, no. 24, 243601, American Physical Society, 2014, doi:10.1103/PhysRevLett.113.243601.'
short: F. Fratini, E. Mascarenhas, L. Safari, J. Poizat, D. Valente, A. Auffèves,
D. Gerace, M. Santos, Physical Review Letters 113 (2014).
date_created: 2018-12-11T11:55:06Z
date_published: 2014-12-08T00:00:00Z
date_updated: 2021-01-12T06:54:34Z
day: '08'
department:
- _id: MiLe
doi: 10.1103/PhysRevLett.113.243601
ec_funded: 1
intvolume: ' 113'
issue: '24'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1410.5972
month: '12'
oa: 1
oa_version: Submitted Version
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '5085'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport
and rectification'
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 113
year: '2014'
...
---
_id: '1998'
abstract:
- lang: eng
text: Immune systems are able to protect the body against secondary infection with
the same parasite. In insect colonies, this protection is not restricted to the
level of the individual organism, but also occurs at the societal level. Here,
we review recent evidence for and insights into the mechanisms underlying individual
and social immunisation in insects. We disentangle general immune-protective effects
from specific immune memory (priming), and examine immunisation in the context
of the lifetime of an individual and that of a colony, and of transgenerational
immunisation that benefits offspring. When appropriate, we discuss parallels with
disease defence strategies in human societies. We propose that recurrent parasitic
threats have shaped the evolution of both the individual immune systems and colony-level
social immunity in insects.
acknowledgement: "This work was funded by an ERC Starting Grant by the European Research
Council (to S.C.) and the ISTFELLOW program (Co-fund Marie Curie Actions of the
European Commission; to L.M.).\r\nWe thank Christopher D. Pull, Sophie A.O. Armitage,
Hinrich Schulenburg, Line V. Ugelvig, Matthias Konrad, Matthias Fürst, Miriam Stock,
Barbara Casillas-Perez and three anonymous referees for comments on the manuscript. "
author:
- first_name: Leila
full_name: El Masri, Leila
id: 349A6E66-F248-11E8-B48F-1D18A9856A87
last_name: El Masri
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
citation:
ama: El Masri L, Cremer S. Individual and social immunisation in insects. Trends
in Immunology. 2014;35(10):471-482. doi:10.1016/j.it.2014.08.005
apa: El Masri, L., & Cremer, S. (2014). Individual and social immunisation in
insects. Trends in Immunology. Elsevier. https://doi.org/10.1016/j.it.2014.08.005
chicago: El Masri, Leila, and Sylvia Cremer. “Individual and Social Immunisation
in Insects.” Trends in Immunology. Elsevier, 2014. https://doi.org/10.1016/j.it.2014.08.005.
ieee: L. El Masri and S. Cremer, “Individual and social immunisation in insects,”
Trends in Immunology, vol. 35, no. 10. Elsevier, pp. 471–482, 2014.
ista: El Masri L, Cremer S. 2014. Individual and social immunisation in insects.
Trends in Immunology. 35(10), 471–482.
mla: El Masri, Leila, and Sylvia Cremer. “Individual and Social Immunisation in
Insects.” Trends in Immunology, vol. 35, no. 10, Elsevier, 2014, pp. 471–82,
doi:10.1016/j.it.2014.08.005.
short: L. El Masri, S. Cremer, Trends in Immunology 35 (2014) 471–482.
date_created: 2018-12-11T11:55:07Z
date_published: 2014-10-01T00:00:00Z
date_updated: 2021-01-12T06:54:35Z
day: '01'
department:
- _id: SyCr
doi: 10.1016/j.it.2014.08.005
intvolume: ' 35'
issue: '10'
language:
- iso: eng
month: '10'
oa_version: None
page: 471 - 482
publication: Trends in Immunology
publication_status: published
publisher: Elsevier
publist_id: '5081'
quality_controlled: '1'
scopus_import: 1
status: public
title: Individual and social immunisation in insects
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 35
year: '2014'
...
---
_id: '2002'
abstract:
- lang: eng
text: Oriens-lacunosum moleculare (O-LM) interneurons in the CA1 region of the hippocampus
play a key role in feedback inhibition and in the control of network activity.
However, how these cells are efficiently activated in the network remains unclear.
To address this question, I performed recordings from CA1 pyramidal neuron axons,
the presynaptic fibers that provide feedback innervation of these interneurons.
Two forms of axonal action potential (AP) modulation were identified. First, repetitive
stimulation resulted in activity-dependent AP broadening. Broadening showed fast
onset, with marked changes in AP shape following a single AP. Second, tonic depolarization
in CA1 pyramidal neuron somata induced AP broadening in the axon, and depolarization-induced
broadening summated with activity-dependent broadening. Outsideout patch recordings
from CA1 pyramidal neuron axons revealed a high density of a-dendrotoxin (α-DTX)-sensitive,
inactivating K+ channels, suggesting that K+ channel inactivation mechanistically
contributes to AP broadening. To examine the functional consequences of axonal
AP modulation for synaptic transmission, I performed paired recordings between
synaptically connected CA1 pyramidal neurons and O-LM interneurons. CA1 pyramidal
neuron-O-LM interneuron excitatory postsynaptic currents (EPSCs) showed facilitation
during both repetitive stimulation and tonic depolarization of the presynaptic
neuron. Both effects were mimicked and occluded by α-DTX, suggesting that they
were mediated by K+ channel inactivation. Therefore, axonal AP modulation can
greatly facilitate the activation of O-LM interneurons. In conclusion, modulation
of AP shape in CA1 pyramidal neuron axons substantially enhances the efficacy
of principal neuron-interneuron synapses, promoting the activation of O-LM interneurons
in recurrent inhibitory microcircuits.
article_number: '0113124'
author:
- first_name: Sooyun
full_name: Kim, Sooyun
id: 394AB1C8-F248-11E8-B48F-1D18A9856A87
last_name: Kim
citation:
ama: Kim S. Action potential modulation in CA1 pyramidal neuron axons facilitates
OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus.
PLoS One. 2014;9(11). doi:10.1371/journal.pone.0113124
apa: Kim, S. (2014). Action potential modulation in CA1 pyramidal neuron axons facilitates
OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus.
PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0113124
chicago: Kim, Sooyun. “Action Potential Modulation in CA1 Pyramidal Neuron Axons
Facilitates OLM Interneuron Activation in Recurrent Inhibitory Microcircuits of
Rat Hippocampus.” PLoS One. Public Library of Science, 2014. https://doi.org/10.1371/journal.pone.0113124.
ieee: S. Kim, “Action potential modulation in CA1 pyramidal neuron axons facilitates
OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus,”
PLoS One, vol. 9, no. 11. Public Library of Science, 2014.
ista: Kim S. 2014. Action potential modulation in CA1 pyramidal neuron axons facilitates
OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus.
PLoS One. 9(11), 0113124.
mla: Kim, Sooyun. “Action Potential Modulation in CA1 Pyramidal Neuron Axons Facilitates
OLM Interneuron Activation in Recurrent Inhibitory Microcircuits of Rat Hippocampus.”
PLoS One, vol. 9, no. 11, 0113124, Public Library of Science, 2014, doi:10.1371/journal.pone.0113124.
short: S. Kim, PLoS One 9 (2014).
date_created: 2018-12-11T11:55:09Z
date_published: 2014-11-19T00:00:00Z
date_updated: 2021-01-12T06:54:39Z
day: '19'
ddc:
- '570'
department:
- _id: PeJo
doi: 10.1371/journal.pone.0113124
ec_funded: 1
file:
- access_level: open_access
checksum: 85e4f4ea144f827272aaf376b2830564
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:52Z
date_updated: 2020-07-14T12:45:24Z
file_id: '5107'
file_name: IST-2016-434-v1+1_journal.pone.0113124.pdf
file_size: 5179993
relation: main_file
file_date_updated: 2020-07-14T12:45:24Z
has_accepted_license: '1'
intvolume: ' 9'
issue: '11'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-sa/4.0/
month: '11'
oa: 1
oa_version: Published Version
project:
- _id: 25C0F108-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '268548'
name: Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons
publication: PLoS One
publication_status: published
publisher: Public Library of Science
publist_id: '5074'
pubrep_id: '434'
quality_controlled: '1'
scopus_import: 1
status: public
title: Action potential modulation in CA1 pyramidal neuron axons facilitates OLM interneuron
activation in recurrent inhibitory microcircuits of rat hippocampus
tmp:
image: /images/cc_by_sa.png
legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode
name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC
BY-SA 4.0)
short: CC BY-SA (4.0)
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2014'
...
---
_id: '2003'
abstract:
- lang: eng
text: Learning can be facilitated by previous knowledge when it is organized into
relational representations forming schemas. In this issue of Neuron, McKenzie
et al. (2014) demonstrate that the hippocampus rapidly forms interrelated, hierarchical
memory representations to support schema-based learning.
author:
- first_name: Joseph
full_name: O'Neill, Joseph
id: 426376DC-F248-11E8-B48F-1D18A9856A87
last_name: O'Neill
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
citation:
ama: O’Neill J, Csicsvari JL. Learning by example in the hippocampus. Neuron.
2014;83(1):8-10. doi:10.1016/j.neuron.2014.06.013
apa: O’Neill, J., & Csicsvari, J. L. (2014). Learning by example in the hippocampus.
Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2014.06.013
chicago: O’Neill, Joseph, and Jozsef L Csicsvari. “Learning by Example in the Hippocampus.”
Neuron. Elsevier, 2014. https://doi.org/10.1016/j.neuron.2014.06.013.
ieee: J. O’Neill and J. L. Csicsvari, “Learning by example in the hippocampus,”
Neuron, vol. 83, no. 1. Elsevier, pp. 8–10, 2014.
ista: O’Neill J, Csicsvari JL. 2014. Learning by example in the hippocampus. Neuron.
83(1), 8–10.
mla: O’Neill, Joseph, and Jozsef L. Csicsvari. “Learning by Example in the Hippocampus.”
Neuron, vol. 83, no. 1, Elsevier, 2014, pp. 8–10, doi:10.1016/j.neuron.2014.06.013.
short: J. O’Neill, J.L. Csicsvari, Neuron 83 (2014) 8–10.
date_created: 2018-12-11T11:55:09Z
date_published: 2014-07-02T00:00:00Z
date_updated: 2021-01-12T06:54:39Z
day: '02'
department:
- _id: JoCs
doi: 10.1016/j.neuron.2014.06.013
intvolume: ' 83'
issue: '1'
language:
- iso: eng
month: '07'
oa_version: None
page: 8 - 10
publication: Neuron
publication_status: published
publisher: Elsevier
publist_id: '5073'
quality_controlled: '1'
scopus_import: 1
status: public
title: Learning by example in the hippocampus
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 83
year: '2014'
...
---
_id: '2011'
abstract:
- lang: eng
text: The protection of privacy of individual-level information in genome-wide association
study (GWAS) databases has been a major concern of researchers following the publication
of “an attack” on GWAS data by Homer et al. (2008). Traditional statistical methods
for confidentiality and privacy protection of statistical databases do not scale
well to deal with GWAS data, especially in terms of guarantees regarding protection
from linkage to external information. The more recent concept of differential
privacy, introduced by the cryptographic community, is an approach that provides
a rigorous definition of privacy with meaningful privacy guarantees in the presence
of arbitrary external information, although the guarantees may come at a serious
price in terms of data utility. Building on such notions, Uhler et al. (2013)
proposed new methods to release aggregate GWAS data without compromising an individual’s
privacy. We extend the methods developed in Uhler et al. (2013) for releasing
differentially-private χ2χ2-statistics by allowing for arbitrary number of cases
and controls, and for releasing differentially-private allelic test statistics.
We also provide a new interpretation by assuming the controls’ data are known,
which is a realistic assumption because some GWAS use publicly available data
as controls. We assess the performance of the proposed methods through a risk-utility
analysis on a real data set consisting of DNA samples collected by the Wellcome
Trust Case Control Consortium and compare the methods with the differentially-private
release mechanism proposed by Johnson and Shmatikov (2013).
acknowledgement: This research was partially supported by NSF Awards EMSW21-RTG and
BCS-0941518 to the Department of Statistics at Carnegie Mellon University, and by
NSF Grant BCS-0941553 to the Department of Statistics at Pennsylvania State University.
This work was also supported in part by the National Center for Research Resources,
Grant UL1 RR033184, and is now at the National Center for Advancing Translational
Sciences, Grant UL1 TR000127 to Pennsylvania State University. The content is solely
the responsibility of the authors and does not necessarily represent the official
views of the NSF and NIH.
author:
- first_name: Fei
full_name: Yu, Fei
last_name: Yu
- first_name: Stephen
full_name: Fienberg, Stephen
last_name: Fienberg
- first_name: Alexandra
full_name: Slaković, Alexandra
last_name: Slaković
- first_name: Caroline
full_name: Uhler, Caroline
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
citation:
ama: Yu F, Fienberg S, Slaković A, Uhler C. Scalable privacy-preserving data sharing
methodology for genome-wide association studies. Journal of Biomedical Informatics.
2014;50:133-141. doi:10.1016/j.jbi.2014.01.008
apa: Yu, F., Fienberg, S., Slaković, A., & Uhler, C. (2014). Scalable privacy-preserving
data sharing methodology for genome-wide association studies. Journal of Biomedical
Informatics. Elsevier. https://doi.org/10.1016/j.jbi.2014.01.008
chicago: Yu, Fei, Stephen Fienberg, Alexandra Slaković, and Caroline Uhler. “Scalable
Privacy-Preserving Data Sharing Methodology for Genome-Wide Association Studies.”
Journal of Biomedical Informatics. Elsevier, 2014. https://doi.org/10.1016/j.jbi.2014.01.008.
ieee: F. Yu, S. Fienberg, A. Slaković, and C. Uhler, “Scalable privacy-preserving
data sharing methodology for genome-wide association studies,” Journal of Biomedical
Informatics, vol. 50. Elsevier, pp. 133–141, 2014.
ista: Yu F, Fienberg S, Slaković A, Uhler C. 2014. Scalable privacy-preserving data
sharing methodology for genome-wide association studies. Journal of Biomedical
Informatics. 50, 133–141.
mla: Yu, Fei, et al. “Scalable Privacy-Preserving Data Sharing Methodology for Genome-Wide
Association Studies.” Journal of Biomedical Informatics, vol. 50, Elsevier,
2014, pp. 133–41, doi:10.1016/j.jbi.2014.01.008.
short: F. Yu, S. Fienberg, A. Slaković, C. Uhler, Journal of Biomedical Informatics
50 (2014) 133–141.
date_created: 2018-12-11T11:55:12Z
date_published: 2014-08-01T00:00:00Z
date_updated: 2021-01-12T06:54:42Z
day: '01'
department:
- _id: CaUh
doi: 10.1016/j.jbi.2014.01.008
intvolume: ' 50'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1401.5193
month: '08'
oa: 1
oa_version: Submitted Version
page: 133 - 141
publication: Journal of Biomedical Informatics
publication_status: published
publisher: Elsevier
publist_id: '5065'
quality_controlled: '1'
scopus_import: 1
status: public
title: Scalable privacy-preserving data sharing methodology for genome-wide association
studies
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 50
year: '2014'
...
---
_id: '2005'
abstract:
- lang: eng
text: By eliciting a natural exploratory behavior in rats, head scanning, a study
reveals that hippocampal place cells form new, stable firing fields in those locations
where the behavior has just occurred.
author:
- first_name: David
full_name: Dupret, David
last_name: Dupret
- first_name: Jozsef L
full_name: Csicsvari, Jozsef L
id: 3FA14672-F248-11E8-B48F-1D18A9856A87
last_name: Csicsvari
orcid: 0000-0002-5193-4036
citation:
ama: Dupret D, Csicsvari JL. Turning heads to remember places. Nature Neuroscience.
2014;17(5):643-644. doi:10.1038/nn.3700
apa: Dupret, D., & Csicsvari, J. L. (2014). Turning heads to remember places.
Nature Neuroscience. Nature Publishing Group. https://doi.org/10.1038/nn.3700
chicago: Dupret, David, and Jozsef L Csicsvari. “Turning Heads to Remember Places.”
Nature Neuroscience. Nature Publishing Group, 2014. https://doi.org/10.1038/nn.3700.
ieee: D. Dupret and J. L. Csicsvari, “Turning heads to remember places,” Nature
Neuroscience, vol. 17, no. 5. Nature Publishing Group, pp. 643–644, 2014.
ista: Dupret D, Csicsvari JL. 2014. Turning heads to remember places. Nature Neuroscience.
17(5), 643–644.
mla: Dupret, David, and Jozsef L. Csicsvari. “Turning Heads to Remember Places.”
Nature Neuroscience, vol. 17, no. 5, Nature Publishing Group, 2014, pp.
643–44, doi:10.1038/nn.3700.
short: D. Dupret, J.L. Csicsvari, Nature Neuroscience 17 (2014) 643–644.
date_created: 2018-12-11T11:55:09Z
date_published: 2014-04-25T00:00:00Z
date_updated: 2021-01-12T06:54:40Z
day: '25'
department:
- _id: JoCs
doi: 10.1038/nn.3700
intvolume: ' 17'
issue: '5'
language:
- iso: eng
month: '04'
oa_version: None
page: 643 - 644
publication: Nature Neuroscience
publication_status: published
publisher: Nature Publishing Group
publist_id: '5071'
quality_controlled: '1'
scopus_import: 1
status: public
title: Turning heads to remember places
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2014'
...
---
_id: '2007'
abstract:
- lang: eng
text: Maximum likelihood estimation under relational models, with or without the
overall effect. For more information see the reference manual
article_processing_charge: No
author:
- first_name: Anna
full_name: Klimova, Anna
id: 31934120-F248-11E8-B48F-1D18A9856A87
last_name: Klimova
- first_name: Tamás
full_name: Rudas, Tamás
last_name: Rudas
citation:
ama: 'Klimova A, Rudas T. gIPFrm: Generalized iterative proportional fitting for
relational models. 2014.'
apa: 'Klimova, A., & Rudas, T. (2014). gIPFrm: Generalized iterative proportional
fitting for relational models. The Comprehensive R Archive Network.'
chicago: 'Klimova, Anna, and Tamás Rudas. “GIPFrm: Generalized Iterative Proportional
Fitting for Relational Models.” The Comprehensive R Archive Network, 2014.'
ieee: 'A. Klimova and T. Rudas, “gIPFrm: Generalized iterative proportional fitting
for relational models.” The Comprehensive R Archive Network, 2014.'
ista: 'Klimova A, Rudas T. 2014. gIPFrm: Generalized iterative proportional fitting
for relational models, The Comprehensive R Archive Network.'
mla: 'Klimova, Anna, and Tamás Rudas. GIPFrm: Generalized Iterative Proportional
Fitting for Relational Models. The Comprehensive R Archive Network, 2014.'
short: A. Klimova, T. Rudas, (2014).
date_created: 2018-12-11T11:55:10Z
date_published: 2014-03-20T00:00:00Z
date_updated: 2022-08-26T08:12:12Z
day: '20'
department:
- _id: CaUh
main_file_link:
- open_access: '1'
url: 'https://CRAN.R-project.org/package=gIPFrm '
month: '03'
oa: 1
oa_version: Published Version
publisher: The Comprehensive R Archive Network
publist_id: '5069'
status: public
title: 'gIPFrm: Generalized iterative proportional fitting for relational models'
type: research_data_reference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2018'
abstract:
- lang: eng
text: Synaptic cell adhesion molecules are increasingly gaining attention for conferring
specific properties to individual synapses. Netrin-G1 and netrin-G2 are trans-synaptic
adhesion molecules that distribute on distinct axons, and their presence restricts
the expression of their cognate receptors, NGL1 and NGL2, respectively, to specific
subdendritic segments of target neurons. However, the neural circuits and functional
roles of netrin-G isoform complexes remain unclear. Here, we use netrin-G-KO and
NGL-KO mice to reveal that netrin-G1/NGL1 and netrin-G2/NGL2 interactions specify
excitatory synapses in independent hippocampal pathways. In the hippocampal CA1
area, netrin-G1/NGL1 and netrin-G2/NGL2 were expressed in the temporoammonic and
Schaffer collateral pathways, respectively. The lack of presynaptic netrin-Gs
led to the dispersion of NGLs from postsynaptic membranes. In accord, netrin-G
mutant synapses displayed opposing phenotypes in long-term and short-term plasticity
through discrete biochemical pathways. The plasticity phenotypes in netrin-G-KOs
were phenocopied in NGL-KOs, with a corresponding loss of netrin-Gs from presynaptic
membranes. Our findings show that netrin-G/NGL interactions differentially control
synaptic plasticity in distinct circuits via retrograde signaling mechanisms and
explain how synaptic inputs are diversified to control neuronal activity.
acknowledgement: This work was supported by “Funding Program for World-Leading Innovative
R&D on Science and Technology (FIRST Program)” initiated by the Council for Science
and Technology Policy.
article_processing_charge: No
article_type: original
author:
- first_name: Hiroshi
full_name: Matsukawa, Hiroshi
last_name: Matsukawa
- first_name: Sachiko
full_name: Akiyoshi Nishimura, Sachiko
last_name: Akiyoshi Nishimura
- first_name: Qi
full_name: Zhang, Qi
last_name: Zhang
- first_name: Rafael
full_name: Luján, Rafael
last_name: Luján
- first_name: Kazuhiko
full_name: Yamaguchi, Kazuhiko
last_name: Yamaguchi
- first_name: Hiromichi
full_name: Goto, Hiromichi
last_name: Goto
- first_name: Kunio
full_name: Yaguchi, Kunio
last_name: Yaguchi
- first_name: Tsutomu
full_name: Hashikawa, Tsutomu
last_name: Hashikawa
- first_name: Chie
full_name: Sano, Chie
last_name: Sano
- first_name: Ryuichi
full_name: Shigemoto, Ryuichi
id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
last_name: Shigemoto
orcid: 0000-0001-8761-9444
- first_name: Toshiaki
full_name: Nakashiba, Toshiaki
last_name: Nakashiba
- first_name: Shigeyoshi
full_name: Itohara, Shigeyoshi
last_name: Itohara
citation:
ama: Matsukawa H, Akiyoshi Nishimura S, Zhang Q, et al. Netrin-G/NGL complexes encode
functional synaptic diversification. Journal of Neuroscience. 2014;34(47):15779-15792.
doi:10.1523/JNEUROSCI.1141-14.2014
apa: Matsukawa, H., Akiyoshi Nishimura, S., Zhang, Q., Luján, R., Yamaguchi, K.,
Goto, H., … Itohara, S. (2014). Netrin-G/NGL complexes encode functional synaptic
diversification. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.1141-14.2014
chicago: Matsukawa, Hiroshi, Sachiko Akiyoshi Nishimura, Qi Zhang, Rafael Luján,
Kazuhiko Yamaguchi, Hiromichi Goto, Kunio Yaguchi, et al. “Netrin-G/NGL Complexes
Encode Functional Synaptic Diversification.” Journal of Neuroscience. Society
for Neuroscience, 2014. https://doi.org/10.1523/JNEUROSCI.1141-14.2014.
ieee: H. Matsukawa et al., “Netrin-G/NGL complexes encode functional synaptic
diversification,” Journal of Neuroscience, vol. 34, no. 47. Society for
Neuroscience, pp. 15779–15792, 2014.
ista: Matsukawa H, Akiyoshi Nishimura S, Zhang Q, Luján R, Yamaguchi K, Goto H,
Yaguchi K, Hashikawa T, Sano C, Shigemoto R, Nakashiba T, Itohara S. 2014. Netrin-G/NGL
complexes encode functional synaptic diversification. Journal of Neuroscience.
34(47), 15779–15792.
mla: Matsukawa, Hiroshi, et al. “Netrin-G/NGL Complexes Encode Functional Synaptic
Diversification.” Journal of Neuroscience, vol. 34, no. 47, Society for
Neuroscience, 2014, pp. 15779–92, doi:10.1523/JNEUROSCI.1141-14.2014.
short: H. Matsukawa, S. Akiyoshi Nishimura, Q. Zhang, R. Luján, K. Yamaguchi, H.
Goto, K. Yaguchi, T. Hashikawa, C. Sano, R. Shigemoto, T. Nakashiba, S. Itohara,
Journal of Neuroscience 34 (2014) 15779–15792.
date_created: 2018-12-11T11:55:14Z
date_published: 2014-11-19T00:00:00Z
date_updated: 2022-05-24T08:54:54Z
day: '19'
ddc:
- '570'
department:
- _id: RySh
doi: 10.1523/JNEUROSCI.1141-14.2014
external_id:
pmid:
- '25411505'
file:
- access_level: open_access
checksum: 6913e9bc26e9fc1c0441a739a4199229
content_type: application/pdf
creator: dernst
date_created: 2022-05-24T08:41:41Z
date_updated: 2022-05-24T08:41:41Z
file_id: '11410'
file_name: 2014_JournNeuroscience_Matsukawa.pdf
file_size: 3963728
relation: main_file
success: 1
file_date_updated: 2022-05-24T08:41:41Z
has_accepted_license: '1'
intvolume: ' 34'
issue: '47'
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
page: 15779 - 15792
pmid: 1
publication: Journal of Neuroscience
publication_identifier:
eissn:
- 1529-2401
issn:
- 0270-6474
publication_status: published
publisher: Society for Neuroscience
publist_id: '5054'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Netrin-G/NGL complexes encode functional synaptic diversification
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 34
year: '2014'
...
---
_id: '2019'
abstract:
- lang: eng
text: We prove that the empirical density of states of quantum spin glasses on arbitrary
graphs converges to a normal distribution as long as the maximal degree is negligible
compared with the total number of edges. This extends the recent results of Keating
et al. (2014) that were proved for graphs with bounded chromatic number and with
symmetric coupling distribution. Furthermore, we generalise the result to arbitrary
hypergraphs. We test the optimality of our condition on the maximal degree for
p-uniform hypergraphs that correspond to p-spin glass Hamiltonians acting on n
distinguishable spin- 1/2 particles. At the critical threshold p = n1/2 we find
a sharp classical-quantum phase transition between the normal distribution and
the Wigner semicircle law. The former is characteristic to classical systems with
commuting variables, while the latter is a signature of noncommutative random
matrix theory.
author:
- first_name: László
full_name: Erdös, László
id: 4DBD5372-F248-11E8-B48F-1D18A9856A87
last_name: Erdös
orcid: 0000-0001-5366-9603
- first_name: Dominik J
full_name: Schröder, Dominik J
last_name: Schröder
citation:
ama: Erdös L, Schröder DJ. Phase transition in the density of states of quantum
spin glasses. Mathematical Physics, Analysis and Geometry. 2014;17(3-4):441-464.
doi:10.1007/s11040-014-9164-3
apa: Erdös, L., & Schröder, D. J. (2014). Phase transition in the density of
states of quantum spin glasses. Mathematical Physics, Analysis and Geometry.
Springer. https://doi.org/10.1007/s11040-014-9164-3
chicago: Erdös, László, and Dominik J Schröder. “Phase Transition in the Density
of States of Quantum Spin Glasses.” Mathematical Physics, Analysis and Geometry.
Springer, 2014. https://doi.org/10.1007/s11040-014-9164-3.
ieee: L. Erdös and D. J. Schröder, “Phase transition in the density of states of
quantum spin glasses,” Mathematical Physics, Analysis and Geometry, vol.
17, no. 3–4. Springer, pp. 441–464, 2014.
ista: Erdös L, Schröder DJ. 2014. Phase transition in the density of states of quantum
spin glasses. Mathematical Physics, Analysis and Geometry. 17(3–4), 441–464.
mla: Erdös, László, and Dominik J. Schröder. “Phase Transition in the Density of
States of Quantum Spin Glasses.” Mathematical Physics, Analysis and Geometry,
vol. 17, no. 3–4, Springer, 2014, pp. 441–64, doi:10.1007/s11040-014-9164-3.
short: L. Erdös, D.J. Schröder, Mathematical Physics, Analysis and Geometry 17 (2014)
441–464.
date_created: 2018-12-11T11:55:15Z
date_published: 2014-12-17T00:00:00Z
date_updated: 2021-01-12T06:54:45Z
day: '17'
department:
- _id: LaEr
doi: 10.1007/s11040-014-9164-3
ec_funded: 1
intvolume: ' 17'
issue: 3-4
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1407.1552
month: '12'
oa: 1
oa_version: Submitted Version
page: 441 - 464
project:
- _id: 258DCDE6-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '338804'
name: Random matrices, universality and disordered quantum systems
publication: Mathematical Physics, Analysis and Geometry
publication_status: published
publisher: Springer
publist_id: '5053'
quality_controlled: '1'
scopus_import: 1
status: public
title: Phase transition in the density of states of quantum spin glasses
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 17
year: '2014'
...
---
_id: '2013'
abstract:
- lang: eng
text: "An asymptotic theory is developed for computing volumes of regions in the
parameter space of a directed Gaussian graphical model that are obtained by bounding
partial correlations. We study these volumes using the method of real log canonical
thresholds from algebraic geometry. Our analysis involves the computation of the
singular loci of correlation hypersurfaces. Statistical applications include the
strong-faithfulness assumption for the PC algorithm and the quantification of
confounder bias in causal inference. A detailed analysis is presented for trees,
bow ties, tripartite graphs, and complete graphs.\r\n"
acknowledgement: This work was supported in part by the US National Science Foundation
(DMS-0968882) and the Defense Advanced Research Projects Agency (DARPA) Deep Learning
program (FA8650-10-C-7020).
author:
- first_name: Shaowei
full_name: Lin, Shaowei
last_name: Lin
- first_name: Caroline
full_name: Uhler, Caroline
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
- first_name: Bernd
full_name: Sturmfels, Bernd
last_name: Sturmfels
- first_name: Peter
full_name: Bühlmann, Peter
last_name: Bühlmann
citation:
ama: Lin S, Uhler C, Sturmfels B, Bühlmann P. Hypersurfaces and their singularities
in partial correlation testing. Foundations of Computational Mathematics.
2014;14(5):1079-1116. doi:10.1007/s10208-014-9205-0
apa: Lin, S., Uhler, C., Sturmfels, B., & Bühlmann, P. (2014). Hypersurfaces
and their singularities in partial correlation testing. Foundations of Computational
Mathematics. Springer. https://doi.org/10.1007/s10208-014-9205-0
chicago: Lin, Shaowei, Caroline Uhler, Bernd Sturmfels, and Peter Bühlmann. “Hypersurfaces
and Their Singularities in Partial Correlation Testing.” Foundations of Computational
Mathematics. Springer, 2014. https://doi.org/10.1007/s10208-014-9205-0.
ieee: S. Lin, C. Uhler, B. Sturmfels, and P. Bühlmann, “Hypersurfaces and their
singularities in partial correlation testing,” Foundations of Computational
Mathematics, vol. 14, no. 5. Springer, pp. 1079–1116, 2014.
ista: Lin S, Uhler C, Sturmfels B, Bühlmann P. 2014. Hypersurfaces and their singularities
in partial correlation testing. Foundations of Computational Mathematics. 14(5),
1079–1116.
mla: Lin, Shaowei, et al. “Hypersurfaces and Their Singularities in Partial Correlation
Testing.” Foundations of Computational Mathematics, vol. 14, no. 5, Springer,
2014, pp. 1079–116, doi:10.1007/s10208-014-9205-0.
short: S. Lin, C. Uhler, B. Sturmfels, P. Bühlmann, Foundations of Computational
Mathematics 14 (2014) 1079–1116.
date_created: 2018-12-11T11:55:12Z
date_published: 2014-10-10T00:00:00Z
date_updated: 2021-01-12T06:54:43Z
day: '10'
department:
- _id: CaUh
doi: 10.1007/s10208-014-9205-0
intvolume: ' 14'
issue: '5'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1209.0285
month: '10'
oa: 1
oa_version: Submitted Version
page: 1079 - 1116
publication: Foundations of Computational Mathematics
publication_status: published
publisher: Springer
publist_id: '5063'
quality_controlled: '1'
scopus_import: 1
status: public
title: Hypersurfaces and their singularities in partial correlation testing
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 14
year: '2014'
...
---
_id: '2017'
abstract:
- lang: eng
text: ' Gaussian graphical models have received considerable attention during
the past four decades from the statistical and machine learning communities. In
Bayesian treatments of this model, the G-Wishart distribution serves as the conjugate
prior for inverse covariance matrices satisfying graphical constraints. While
it is straightforward to posit the unnormalized densities, the normalizing constants
of these distributions have been known only for graphs that are chordal, or decomposable.
Up until now, it was unknown whether the normalizing constant for a general graph
could be represented explicitly, and a considerable body of computational literature
emerged that attempted to avoid this apparent intractability. We close this question
by providing an explicit representation of the G-Wishart normalizing constant
for general graphs.'
acknowledgement: |-
A.L.'s research was supported by Statistics for Innovation sfi2 in Oslo.
D.R.'s research was partially supported by the U.S. National Science Foun-dation grant DMS-1309808; and by a Romberg Guest Professorship at the Heidelberg University Graduate School for Mathematical and Computational Methods in the Sciences, funded by German Universities Excellence Initiative grant GSC 220/2.
author:
- first_name: Caroline
full_name: Caroline Uhler
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
- first_name: Alex
full_name: Lenkoski, Alex
last_name: Lenkoski
- first_name: Donald
full_name: Richards, Donald
last_name: Richards
citation:
ama: Uhler C, Lenkoski A, Richards D. Exact formulas for the normalizing constants
of Wishart distributions for graphical models. ArXiv. 2014.
apa: Uhler, C., Lenkoski, A., & Richards, D. (2014). Exact formulas for the
normalizing constants of Wishart distributions for graphical models. ArXiv.
ArXiv.
chicago: Uhler, Caroline, Alex Lenkoski, and Donald Richards. “ Exact Formulas for
the Normalizing Constants of Wishart Distributions for Graphical Models.” ArXiv.
ArXiv, 2014.
ieee: C. Uhler, A. Lenkoski, and D. Richards, “ Exact formulas for the normalizing
constants of Wishart distributions for graphical models,” ArXiv. ArXiv,
2014.
ista: Uhler C, Lenkoski A, Richards D. 2014. Exact formulas for the normalizing
constants of Wishart distributions for graphical models. ArXiv, .
mla: Uhler, Caroline, et al. “ Exact Formulas for the Normalizing Constants of Wishart
Distributions for Graphical Models.” ArXiv, ArXiv, 2014.
short: C. Uhler, A. Lenkoski, D. Richards, ArXiv (2014).
date_created: 2018-12-11T11:55:14Z
date_published: 2014-06-18T00:00:00Z
date_updated: 2021-01-12T06:54:44Z
day: '18'
extern: 1
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1406.4901
month: '06'
oa: 1
publication: ArXiv
publication_status: published
publisher: ArXiv
publist_id: '5058'
quality_controlled: 0
status: public
title: ' Exact formulas for the normalizing constants of Wishart distributions for
graphical models'
type: preprint
year: '2014'
...
---
_id: '2022'
abstract:
- lang: eng
text: Radial glial progenitors (RGPs) are responsible for producing nearly all neocortical
neurons. To gain insight into the patterns of RGP division and neuron production,
we quantitatively analyzed excitatory neuron genesis in the mouse neocortex using
Mosaic Analysis with Double Markers, which provides single-cell resolution of
progenitor division patterns and potential in vivo. We found that RGPs progress
through a coherent program in which their proliferative potential diminishes in
a predictable manner. Upon entry into the neurogenic phase, individual RGPs produce
∼8–9 neurons distributed in both deep and superficial layers, indicating a unitary
output in neuronal production. Removal of OTX1, a transcription factor transiently
expressed in RGPs, results in both deep- and superficial-layer neuron loss and
a reduction in neuronal unit size. Moreover, ∼1/6 of neurogenic RGPs proceed to
produce glia. These results suggest that progenitor behavior and histogenesis
in the mammalian neocortex conform to a remarkably orderly and deterministic program.
author:
- first_name: Peng
full_name: Gao, Peng
last_name: Gao
- first_name: Maria P
full_name: Postiglione, Maria P
id: 2C67902A-F248-11E8-B48F-1D18A9856A87
last_name: Postiglione
- first_name: Teresa
full_name: Krieger, Teresa
last_name: Krieger
- first_name: Luisirene
full_name: Hernandez, Luisirene
last_name: Hernandez
- first_name: Chao
full_name: Wang, Chao
last_name: Wang
- first_name: Zhi
full_name: Han, Zhi
last_name: Han
- first_name: Carmen
full_name: Streicher, Carmen
id: 36BCB99C-F248-11E8-B48F-1D18A9856A87
last_name: Streicher
- first_name: Ekaterina
full_name: Papusheva, Ekaterina
id: 41DB591E-F248-11E8-B48F-1D18A9856A87
last_name: Papusheva
- first_name: Ryan
full_name: Insolera, Ryan
last_name: Insolera
- first_name: Kritika
full_name: Chugh, Kritika
last_name: Chugh
- first_name: Oren
full_name: Kodish, Oren
last_name: Kodish
- first_name: Kun
full_name: Huang, Kun
last_name: Huang
- first_name: Benjamin
full_name: Simons, Benjamin
last_name: Simons
- first_name: Liqun
full_name: Luo, Liqun
last_name: Luo
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Song
full_name: Shi, Song
last_name: Shi
citation:
ama: Gao P, Postiglione MP, Krieger T, et al. Deterministic progenitor behavior
and unitary production of neurons in the neocortex. Cell. 2014;159(4):775-788.
doi:10.1016/j.cell.2014.10.027
apa: Gao, P., Postiglione, M. P., Krieger, T., Hernandez, L., Wang, C., Han, Z.,
… Shi, S. (2014). Deterministic progenitor behavior and unitary production of
neurons in the neocortex. Cell. Cell Press. https://doi.org/10.1016/j.cell.2014.10.027
chicago: Gao, Peng, Maria P Postiglione, Teresa Krieger, Luisirene Hernandez, Chao
Wang, Zhi Han, Carmen Streicher, et al. “Deterministic Progenitor Behavior and
Unitary Production of Neurons in the Neocortex.” Cell. Cell Press, 2014.
https://doi.org/10.1016/j.cell.2014.10.027.
ieee: P. Gao et al., “Deterministic progenitor behavior and unitary production
of neurons in the neocortex,” Cell, vol. 159, no. 4. Cell Press, pp. 775–788,
2014.
ista: Gao P, Postiglione MP, Krieger T, Hernandez L, Wang C, Han Z, Streicher C,
Papusheva E, Insolera R, Chugh K, Kodish O, Huang K, Simons B, Luo L, Hippenmeyer
S, Shi S. 2014. Deterministic progenitor behavior and unitary production of neurons
in the neocortex. Cell. 159(4), 775–788.
mla: Gao, Peng, et al. “Deterministic Progenitor Behavior and Unitary Production
of Neurons in the Neocortex.” Cell, vol. 159, no. 4, Cell Press, 2014,
pp. 775–88, doi:10.1016/j.cell.2014.10.027.
short: P. Gao, M.P. Postiglione, T. Krieger, L. Hernandez, C. Wang, Z. Han, C. Streicher,
E. Papusheva, R. Insolera, K. Chugh, O. Kodish, K. Huang, B. Simons, L. Luo, S.
Hippenmeyer, S. Shi, Cell 159 (2014) 775–788.
date_created: 2018-12-11T11:55:16Z
date_published: 2014-11-06T00:00:00Z
date_updated: 2021-01-12T06:54:47Z
day: '06'
ddc:
- '570'
department:
- _id: SiHi
- _id: Bio
doi: 10.1016/j.cell.2014.10.027
ec_funded: 1
file:
- access_level: open_access
checksum: 6c5de8329bb2ffa71cba9fda750f14ce
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:08:47Z
date_updated: 2020-07-14T12:45:25Z
file_id: '4709'
file_name: IST-2016-423-v1+1_1-s2.0-S0092867414013154-main.pdf
file_size: 4435787
relation: main_file
file_date_updated: 2020-07-14T12:45:25Z
has_accepted_license: '1'
intvolume: ' 159'
issue: '4'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '11'
oa: 1
oa_version: Published Version
page: 775 - 788
project:
- _id: 25D61E48-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '618444'
name: Molecular Mechanisms of Cerebral Cortex Development
- _id: 25D7962E-B435-11E9-9278-68D0E5697425
grant_number: RGP0053/2014
name: Quantitative Structure-Function Analysis of Cerebral Cortex Assembly at Clonal
Level
publication: Cell
publication_status: published
publisher: Cell Press
publist_id: '5050'
pubrep_id: '423'
quality_controlled: '1'
scopus_import: 1
status: public
title: Deterministic progenitor behavior and unitary production of neurons in the
neocortex
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: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 159
year: '2014'
...
---
_id: '2020'
abstract:
- lang: eng
text: The mammalian heart has long been considered a postmitotic organ, implying
that the total number of cardiomyocytes is set at birth. Analysis of cell division
in the mammalian heart is complicated by cardiomyocyte binucleation shortly after
birth, which makes it challenging to interpret traditional assays of cell turnover
[Laflamme MA, Murray CE (2011) Nature 473(7347):326–335; Bergmann O, et al. (2009)
Science 324(5923):98–102]. An elegant multi-isotope imaging-mass spectrometry
technique recently calculated the low, discrete rate of cardiomyocyte generation
in mice [Senyo SE, et al. (2013) Nature 493(7432):433–436], yet our cellular-level
understanding of postnatal cardiomyogenesis remains limited. Herein, we provide
a new line of evidence for the differentiated α-myosin heavy chain-expressing
cardiomyocyte as the cell of origin of postnatal cardiomyogenesis using the “mosaic
analysis with double markers” mouse model. We show limited, life-long, symmetric
division of cardiomyocytes as a rare event that is evident in utero but significantly
diminishes after the first month of life in mice; daughter cardiomyocytes divide
very seldom, which this study is the first to demonstrate, to our knowledge. Furthermore,
ligation of the left anterior descending coronary artery, which causes a myocardial
infarction in the mosaic analysis with double-marker mice, did not increase the
rate of cardiomyocyte division above the basal level for up to 4 wk after the
injury. The clonal analysis described here provides direct evidence of postnatal
mammalian cardiomyogenesis.
author:
- first_name: Shah
full_name: Ali, Shah
last_name: Ali
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Lily
full_name: Saadat, Lily
last_name: Saadat
- first_name: Liqun
full_name: Luo, Liqun
last_name: Luo
- first_name: Irving
full_name: Weissman, Irving
last_name: Weissman
- first_name: Reza
full_name: Ardehali, Reza
last_name: Ardehali
citation:
ama: Ali S, Hippenmeyer S, Saadat L, Luo L, Weissman I, Ardehali R. Existing cardiomyocytes
generate cardiomyocytes at a low rate after birth in mice. PNAS. 2014;111(24):8850-8855.
doi:10.1073/pnas.1408233111
apa: Ali, S., Hippenmeyer, S., Saadat, L., Luo, L., Weissman, I., & Ardehali,
R. (2014). Existing cardiomyocytes generate cardiomyocytes at a low rate after
birth in mice. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1408233111
chicago: Ali, Shah, Simon Hippenmeyer, Lily Saadat, Liqun Luo, Irving Weissman,
and Reza Ardehali. “Existing Cardiomyocytes Generate Cardiomyocytes at a Low Rate
after Birth in Mice.” PNAS. National Academy of Sciences, 2014. https://doi.org/10.1073/pnas.1408233111.
ieee: S. Ali, S. Hippenmeyer, L. Saadat, L. Luo, I. Weissman, and R. Ardehali, “Existing
cardiomyocytes generate cardiomyocytes at a low rate after birth in mice,” PNAS,
vol. 111, no. 24. National Academy of Sciences, pp. 8850–8855, 2014.
ista: Ali S, Hippenmeyer S, Saadat L, Luo L, Weissman I, Ardehali R. 2014. Existing
cardiomyocytes generate cardiomyocytes at a low rate after birth in mice. PNAS.
111(24), 8850–8855.
mla: Ali, Shah, et al. “Existing Cardiomyocytes Generate Cardiomyocytes at a Low
Rate after Birth in Mice.” PNAS, vol. 111, no. 24, National Academy of
Sciences, 2014, pp. 8850–55, doi:10.1073/pnas.1408233111.
short: S. Ali, S. Hippenmeyer, L. Saadat, L. Luo, I. Weissman, R. Ardehali, PNAS
111 (2014) 8850–8855.
date_created: 2018-12-11T11:55:15Z
date_published: 2014-06-17T00:00:00Z
date_updated: 2021-01-12T06:54:46Z
day: '17'
department:
- _id: SiHi
doi: 10.1073/pnas.1408233111
intvolume: ' 111'
issue: '24'
language:
- iso: eng
month: '06'
oa_version: None
page: 8850 - 8855
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '5052'
quality_controlled: '1'
scopus_import: 1
status: public
title: Existing cardiomyocytes generate cardiomyocytes at a low rate after birth in
mice
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 111
year: '2014'
...