---
_id: '12193'
abstract:
- lang: eng
text: DNA methylation regulates eukaryotic gene expression and is extensively reprogrammed
during animal development. However, whether developmental methylation reprogramming
during the sporophytic life cycle of flowering plants regulates genes is presently
unknown. Here we report a distinctive gene-targeted RNA-directed DNA methylation
(RdDM) activity in the Arabidopsis thaliana male sexual lineage that regulates
gene expression in meiocytes. Loss of sexual-lineage-specific RdDM causes mis-splicing
of the MPS1 gene (also known as PRD2), thereby disrupting meiosis. Our results
establish a regulatory paradigm in which de novo methylation creates a cell-lineage-specific
epigenetic signature that controls gene expression and contributes to cellular
function in flowering plants.
acknowledgement: We thank Daniel Zilberman for intellectual contributions to this
work and assistance with manuscript preparation. We also thank Caroline Dean, Kirsten
Bomblies, Vinod Kumar, Siobhan Brady and Sophien Kamoun for comments on the manuscript,
Hugh Dickinson and Josephine Hellberg for developing the meiocyte isolation method,
Giles Oldroyd for the pGWB13-Bar vector, Elisa Fiume for the pMDC107-NTF vector,
Matthew Hartley, Matthew Couchman and Tjelvar Sten Gunnar Olsson for bioinformatics
support, and the John Innes Centre Bioimaging Facility (Elaine Barclay and Grant
Calder) for their assistance with microscopy. This work was funded by a Biotechnology
and Biological Sciences Research Council (BBSRC) David Phillips Fellowship (BBL0250431)
to X.F., a BBSRC grant (BBM01973X1) to J.H., and a Sainsbury PhD Studentship to
J.W.
article_processing_charge: No
article_type: original
author:
- first_name: James
full_name: Walker, James
last_name: Walker
- first_name: Hongbo
full_name: Gao, Hongbo
last_name: Gao
- first_name: Jingyi
full_name: Zhang, Jingyi
last_name: Zhang
- first_name: Billy
full_name: Aldridge, Billy
last_name: Aldridge
- first_name: Martin
full_name: Vickers, Martin
last_name: Vickers
- first_name: James D.
full_name: Higgins, James D.
last_name: Higgins
- first_name: Xiaoqi
full_name: Feng, Xiaoqi
id: e0164712-22ee-11ed-b12a-d80fcdf35958
last_name: Feng
orcid: 0000-0002-4008-1234
citation:
ama: Walker J, Gao H, Zhang J, et al. Sexual-lineage-specific DNA methylation regulates
meiosis in Arabidopsis. Nature Genetics. 2017;50(1):130-137. doi:10.1038/s41588-017-0008-5
apa: Walker, J., Gao, H., Zhang, J., Aldridge, B., Vickers, M., Higgins, J. D.,
& Feng, X. (2017). Sexual-lineage-specific DNA methylation regulates meiosis
in Arabidopsis. Nature Genetics. Nature Research. https://doi.org/10.1038/s41588-017-0008-5
chicago: Walker, James, Hongbo Gao, Jingyi Zhang, Billy Aldridge, Martin Vickers,
James D. Higgins, and Xiaoqi Feng. “Sexual-Lineage-Specific DNA Methylation Regulates
Meiosis in Arabidopsis.” Nature Genetics. Nature Research, 2017. https://doi.org/10.1038/s41588-017-0008-5.
ieee: J. Walker et al., “Sexual-lineage-specific DNA methylation regulates
meiosis in Arabidopsis,” Nature Genetics, vol. 50, no. 1. Nature Research,
pp. 130–137, 2017.
ista: Walker J, Gao H, Zhang J, Aldridge B, Vickers M, Higgins JD, Feng X. 2017.
Sexual-lineage-specific DNA methylation regulates meiosis in Arabidopsis. Nature
Genetics. 50(1), 130–137.
mla: Walker, James, et al. “Sexual-Lineage-Specific DNA Methylation Regulates Meiosis
in Arabidopsis.” Nature Genetics, vol. 50, no. 1, Nature Research, 2017,
pp. 130–37, doi:10.1038/s41588-017-0008-5.
short: J. Walker, H. Gao, J. Zhang, B. Aldridge, M. Vickers, J.D. Higgins, X. Feng,
Nature Genetics 50 (2017) 130–137.
date_created: 2023-01-16T09:18:05Z
date_published: 2017-12-18T00:00:00Z
date_updated: 2023-10-18T07:21:53Z
day: '18'
department:
- _id: XiFe
doi: 10.1038/s41588-017-0008-5
external_id:
pmid:
- '29255257'
intvolume: ' 50'
issue: '1'
keyword:
- Genetics
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7611288/
month: '12'
oa: 1
oa_version: None
page: 130-137
pmid: 1
publication: Nature Genetics
publication_identifier:
eissn:
- 1546-1718
issn:
- 1061-4036
publication_status: published
publisher: Nature Research
quality_controlled: '1'
scopus_import: '1'
status: public
title: Sexual-lineage-specific DNA methylation regulates meiosis in Arabidopsis
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 50
year: '2017'
...
---
_id: '1228'
abstract:
- lang: eng
text: Since 2006, reprogrammed cells have increasingly been used as a biomedical
research technique in addition to neuro-psychiatric methods. These rapidly evolving
techniques allow for the generation of neuronal sub-populations, and have sparked
interest not only in monogenetic neuro-psychiatric diseases, but also in poly-genetic
and poly-aetiological disorders such as schizophrenia (SCZ) and bipolar disorder
(BPD). This review provides a summary of 19 publications on reprogrammed adult
somatic cells derived from patients with SCZ, and five publications using this
technique in patients with BPD. As both disorders are complex and heterogeneous,
there is a plurality of hypotheses to be tested in vitro. In SCZ, data on alterations
of dopaminergic transmission in vitro are sparse, despite the great explanatory
power of the so-called DA hypothesis of SCZ. Some findings correspond to perturbations
of cell energy metabolism, and observations in reprogrammed cells suggest neuro-developmental
alterations. Some studies also report on the efficacy of medicinal compounds to
revert alterations observed in cellular models. However, due to the paucity of
replication studies, no comprehensive conclusions can be drawn from studies using
reprogrammed cells at the present time. In the future, findings from cell culture
methods need to be integrated with clinical, epidemiological, pharmacological
and imaging data in order to generate a more comprehensive picture of SCZ and
BPD.
acknowledgement: This work was supported by grants of the Austrian Science Fund (FWF)
P23585B09 to M.W. and F3506 to H.H.S. and the “Wiener Wissenschafts-, Forschungs-
und Technologiefonds” (Vienna Science and Technology Fund; WWTF) CS15-033 to M.W.
article_processing_charge: No
article_type: review
author:
- first_name: Ulrich
full_name: Sauerzopf, Ulrich
last_name: Sauerzopf
- first_name: Roberto
full_name: Sacco, Roberto
id: 42C9F57E-F248-11E8-B48F-1D18A9856A87
last_name: Sacco
- first_name: Gaia
full_name: Novarino, Gaia
id: 3E57A680-F248-11E8-B48F-1D18A9856A87
last_name: Novarino
orcid: 0000-0002-7673-7178
- first_name: Marco
full_name: Niello, Marco
last_name: Niello
- first_name: Ana
full_name: Weidenauer, Ana
last_name: Weidenauer
- first_name: Nicole
full_name: Praschak Rieder, Nicole
last_name: Praschak Rieder
- first_name: Harald
full_name: Sitte, Harald
last_name: Sitte
- first_name: Matthaeus
full_name: Willeit, Matthaeus
last_name: Willeit
citation:
ama: Sauerzopf U, Sacco R, Novarino G, et al. Are reprogrammed cells a useful tool
for studying dopamine dysfunction in psychotic disorders? A review of the current
evidence. European Journal of Neuroscience. 2017;45(1):45-57. doi:10.1111/ejn.13418
apa: Sauerzopf, U., Sacco, R., Novarino, G., Niello, M., Weidenauer, A., Praschak
Rieder, N., … Willeit, M. (2017). Are reprogrammed cells a useful tool for studying
dopamine dysfunction in psychotic disorders? A review of the current evidence.
European Journal of Neuroscience. Wiley-Blackwell. https://doi.org/10.1111/ejn.13418
chicago: Sauerzopf, Ulrich, Roberto Sacco, Gaia Novarino, Marco Niello, Ana Weidenauer,
Nicole Praschak Rieder, Harald Sitte, and Matthaeus Willeit. “Are Reprogrammed
Cells a Useful Tool for Studying Dopamine Dysfunction in Psychotic Disorders?
A Review of the Current Evidence.” European Journal of Neuroscience. Wiley-Blackwell,
2017. https://doi.org/10.1111/ejn.13418.
ieee: U. Sauerzopf et al., “Are reprogrammed cells a useful tool for studying
dopamine dysfunction in psychotic disorders? A review of the current evidence,”
European Journal of Neuroscience, vol. 45, no. 1. Wiley-Blackwell, pp.
45–57, 2017.
ista: Sauerzopf U, Sacco R, Novarino G, Niello M, Weidenauer A, Praschak Rieder
N, Sitte H, Willeit M. 2017. Are reprogrammed cells a useful tool for studying
dopamine dysfunction in psychotic disorders? A review of the current evidence.
European Journal of Neuroscience. 45(1), 45–57.
mla: Sauerzopf, Ulrich, et al. “Are Reprogrammed Cells a Useful Tool for Studying
Dopamine Dysfunction in Psychotic Disorders? A Review of the Current Evidence.”
European Journal of Neuroscience, vol. 45, no. 1, Wiley-Blackwell, 2017,
pp. 45–57, doi:10.1111/ejn.13418.
short: U. Sauerzopf, R. Sacco, G. Novarino, M. Niello, A. Weidenauer, N. Praschak
Rieder, H. Sitte, M. Willeit, European Journal of Neuroscience 45 (2017) 45–57.
date_created: 2018-12-11T11:50:50Z
date_published: 2017-01-01T00:00:00Z
date_updated: 2023-09-20T11:16:01Z
day: '01'
ddc:
- '616'
department:
- _id: GaNo
doi: 10.1111/ejn.13418
external_id:
isi:
- '000392487100005'
pmid:
- '27690184'
file:
- access_level: open_access
checksum: c572cf02be8fbb7020cfcfb892182e4c
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:10:48Z
date_updated: 2020-07-14T12:44:39Z
file_id: '4838'
file_name: IST-2017-738-v1+1_Sauerzopf_et_al-2017-European_Journal_of_Neuroscience.pdf
file_size: 169145
relation: main_file
file_date_updated: 2020-07-14T12:44:39Z
has_accepted_license: '1'
intvolume: ' 45'
isi: 1
issue: '1'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '01'
oa: 1
oa_version: Published Version
page: 45 - 57
pmid: 1
publication: European Journal of Neuroscience
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6106'
pubrep_id: '738'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Are reprogrammed cells a useful tool for studying dopamine dysfunction in psychotic
disorders? A review of the current evidence
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 45
year: '2017'
...
---
_id: '123'
abstract:
- lang: eng
text: The Leidenfrost effect occurs when an object near a hot surface vaporizes
rapidly enough to lift itself up and hover. Although well understood for liquids
and stiff sublimable solids, nothing is known about the effect with materials
whose stiffness lies between these extremes. Here we introduce a new phenomenon
that occurs with vaporizable soft solids - the elastic Leidenfrost effect. By
dropping hydrogel spheres onto hot surfaces we find that, rather than hovering,
they energetically bounce several times their diameter for minutes at a time.
With high-speed video during a single impact, we uncover high-frequency microscopic
gap dynamics at the sphere/substrate interface. We show how these otherwise-hidden
agitations constitute work cycles that harvest mechanical energy from the vapour
and sustain the bouncing. Our findings suggest a new strategy for injecting mechanical
energy into a widely used class of soft materials, with potential relevance to
fields such as active matter, soft robotics and microfluidics.
acknowledgement: A.S. acknowledges funding from the Delta Institute for Theoretical
Physics and the hospitality of the IBS Center for Theoretical Physics of Complex
Systems, Daejeon, South Korea. We acknowledge funding from the Netherlands Organisation
for Scientific Research through grants VICI No. NWO-680-47-609 (M.v.H. and S.R.W.),
VENI No. NWO-680-47-445 (C.C.) and VENI No. NWO-680-47-453 (S.R.W.).
arxiv: 1
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: Antal
full_name: Zuiderwijk, Antal
last_name: Zuiderwijk
- first_name: Anton
full_name: Souslov, Anton
last_name: Souslov
- first_name: Corentin
full_name: Coulais, Corentin
last_name: Coulais
- first_name: Martin
full_name: Van Hecke, Martin
last_name: Van Hecke
citation:
ama: Waitukaitis SR, Zuiderwijk A, Souslov A, Coulais C, Van Hecke M. Coupling the
Leidenfrost effect and elastic deformations to power sustained bouncing. Nature
Physics. 2017;13(11):1095-1099. doi:10.1038/nphys4194
apa: Waitukaitis, S. R., Zuiderwijk, A., Souslov, A., Coulais, C., & Van Hecke,
M. (2017). Coupling the Leidenfrost effect and elastic deformations to power sustained
bouncing. Nature Physics. Nature Publishing Group. https://doi.org/10.1038/nphys4194
chicago: Waitukaitis, Scott R, Antal Zuiderwijk, Anton Souslov, Corentin Coulais,
and Martin Van Hecke. “Coupling the Leidenfrost Effect and Elastic Deformations
to Power Sustained Bouncing.” Nature Physics. Nature Publishing Group,
2017. https://doi.org/10.1038/nphys4194.
ieee: S. R. Waitukaitis, A. Zuiderwijk, A. Souslov, C. Coulais, and M. Van Hecke,
“Coupling the Leidenfrost effect and elastic deformations to power sustained bouncing,”
Nature Physics, vol. 13, no. 11. Nature Publishing Group, pp. 1095–1099,
2017.
ista: Waitukaitis SR, Zuiderwijk A, Souslov A, Coulais C, Van Hecke M. 2017. Coupling
the Leidenfrost effect and elastic deformations to power sustained bouncing. Nature
Physics. 13(11), 1095–1099.
mla: Waitukaitis, Scott R., et al. “Coupling the Leidenfrost Effect and Elastic
Deformations to Power Sustained Bouncing.” Nature Physics, vol. 13, no.
11, Nature Publishing Group, 2017, pp. 1095–99, doi:10.1038/nphys4194.
short: S.R. Waitukaitis, A. Zuiderwijk, A. Souslov, C. Coulais, M. Van Hecke, Nature
Physics 13 (2017) 1095–1099.
date_created: 2018-12-11T11:44:45Z
date_published: 2017-07-24T00:00:00Z
date_updated: 2021-01-12T06:49:14Z
day: '24'
doi: 10.1038/nphys4194
extern: '1'
external_id:
arxiv:
- '1705.03530'
intvolume: ' 13'
issue: '11'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1705.03530
month: '07'
oa: 1
oa_version: Preprint
page: 1095 - 1099
publication: Nature Physics
publication_status: published
publisher: Nature Publishing Group
publist_id: '7931'
quality_controlled: '1'
status: public
title: Coupling the Leidenfrost effect and elastic deformations to power sustained
bouncing
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 13
year: '2017'
...
---
_id: '12571'
abstract:
- lang: eng
text: We consider the problems of maintaining approximate maximum matching and minimum
vertex cover in a dynamic graph. Starting with the seminal work of Onak and Rubinfeld
[STOC 2010], this problem has received significant attention in recent years.
Very recently, extending the framework of Baswana, Gupta and Sen [FOCS 2011],
Solomon [FOCS 2016] gave a randomized 2-approximation dynamic algorithm for this
problem that has amortized update time of O(1) with high probability. We consider
the natural open question of derandomizing this result. We present a new deterministic
fully dynamic algorithm that maintains a O(1)-approximate minimum vertex cover
and maximum fractional matching, with an amortized update time of O(1). Previously,
the best deterministic algorithm for this problem was due to Bhattacharya, Henzinger
and Italiano [SODA 2015]; it had an approximation ratio of (2+ϵ) and an amortized
update time of O(logn/ϵ2). Our result can be generalized to give a fully dynamic
O(f3)-approximation algorithm with O(f2) amortized update time for the hypergraph
vertex cover and fractional matching problems, where every hyperedge has at most
f vertices.
alternative_title:
- LNCS
article_processing_charge: No
arxiv: 1
author:
- first_name: Sayan
full_name: Bhattacharya, Sayan
last_name: Bhattacharya
- first_name: Deeparnab
full_name: Chakrabarty, Deeparnab
last_name: Chakrabarty
- first_name: Monika H
full_name: Henzinger, Monika H
id: 540c9bbd-f2de-11ec-812d-d04a5be85630
last_name: Henzinger
orcid: 0000-0002-5008-6530
citation:
ama: 'Bhattacharya S, Chakrabarty D, Henzinger MH. Deterministic fully dynamic approximate
vertex cover and fractional matching in O(1) amortized update time. In: 19th
International Conference on Integer Programming and Combinatorial Optimization.
Vol 10328. Springer Nature; 2017:86-98. doi:10.1007/978-3-319-59250-3_8'
apa: 'Bhattacharya, S., Chakrabarty, D., & Henzinger, M. H. (2017). Deterministic
fully dynamic approximate vertex cover and fractional matching in O(1) amortized
update time. In 19th International Conference on Integer Programming and Combinatorial
Optimization (Vol. 10328, pp. 86–98). Waterloo, ON, Canada: Springer Nature.
https://doi.org/10.1007/978-3-319-59250-3_8'
chicago: Bhattacharya, Sayan, Deeparnab Chakrabarty, and Monika H Henzinger. “Deterministic
Fully Dynamic Approximate Vertex Cover and Fractional Matching in O(1) Amortized
Update Time.” In 19th International Conference on Integer Programming and Combinatorial
Optimization, 10328:86–98. Springer Nature, 2017. https://doi.org/10.1007/978-3-319-59250-3_8.
ieee: S. Bhattacharya, D. Chakrabarty, and M. H. Henzinger, “Deterministic fully
dynamic approximate vertex cover and fractional matching in O(1) amortized update
time,” in 19th International Conference on Integer Programming and Combinatorial
Optimization, Waterloo, ON, Canada, 2017, vol. 10328, pp. 86–98.
ista: 'Bhattacharya S, Chakrabarty D, Henzinger MH. 2017. Deterministic fully dynamic
approximate vertex cover and fractional matching in O(1) amortized update time.
19th International Conference on Integer Programming and Combinatorial Optimization.
IPCO: Integer Programming and Combinatorial Optimization, LNCS, vol. 10328, 86–98.'
mla: Bhattacharya, Sayan, et al. “Deterministic Fully Dynamic Approximate Vertex
Cover and Fractional Matching in O(1) Amortized Update Time.” 19th International
Conference on Integer Programming and Combinatorial Optimization, vol. 10328,
Springer Nature, 2017, pp. 86–98, doi:10.1007/978-3-319-59250-3_8.
short: S. Bhattacharya, D. Chakrabarty, M.H. Henzinger, in:, 19th International
Conference on Integer Programming and Combinatorial Optimization, Springer Nature,
2017, pp. 86–98.
conference:
end_date: 2017-06-28
location: Waterloo, ON, Canada
name: 'IPCO: Integer Programming and Combinatorial Optimization'
start_date: 2017-06-26
date_created: 2023-02-20T07:52:31Z
date_published: 2017-05-24T00:00:00Z
date_updated: 2023-02-20T07:57:24Z
day: '24'
doi: 10.1007/978-3-319-59250-3_8
extern: '1'
external_id:
arxiv:
- '1611.00198'
intvolume: ' 10328'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1611.00198
month: '05'
oa: 1
oa_version: Preprint
page: 86-98
publication: 19th International Conference on Integer Programming and Combinatorial
Optimization
publication_identifier:
eisbn:
- '9783319592503'
isbn:
- '9783319592497'
issn:
- 0302-9743
- 1611-3349
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Deterministic fully dynamic approximate vertex cover and fractional matching
in O(1) amortized update time
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10328
year: '2017'
...
---
_id: '12608'
abstract:
- lang: eng
text: The spatio-temporal distribution of air temperature over mountain glaciers
can demonstrate complex patterns, yet it is often represented simplistically using
linear vertical temperature gradients (VTGs) extrapolated from off-glacier locations.
We analyse a network of centreline and lateral air temperature observations at
Tsanteleina Glacier, Italy, during summer 2015. On average, VTGs are steep (<−0.0065
°C m−1), but they are shallow under warm ambient conditions
when the correlation between air temperature and elevation becomes weaker. Published
along-flowline temperature distribution methods explain centreline observations
well, including warming on the lower glacier tongue, but cannot estimate lateral
temperature variability. Application of temperature distribution methods improves
simulation of melt rates (RMSE) in an energy-balance model by up to 36% compared
to the environmental lapse rate extrapolated from an off-glacier station. However,
results suggest that model parameters are not easily transferable to glaciers
with a small fetch without recalibration. Such methods have potential to improve
estimates of temperature across a glacier, but their parameter transferability
should be further linked to the glacier and atmospheric characteristics. Furthermore,
‘cold spots’, which can be >2°C cooler than expected for their elevation, whose
occurrence is not predicted by the temperature distribution models, are identified
at one-quarter of the measurement sites.
article_processing_charge: No
article_type: original
author:
- first_name: THOMAS E.
full_name: SHAW, THOMAS E.
last_name: SHAW
- first_name: BEN W.
full_name: BROCK, BEN W.
last_name: BROCK
- first_name: ÁLVARO
full_name: AYALA, ÁLVARO
last_name: AYALA
- first_name: NICK
full_name: RUTTER, NICK
last_name: RUTTER
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
citation:
ama: 'SHAW TE, BROCK BW, AYALA Á, RUTTER N, Pellicciotti F. Centreline and cross-glacier
air temperature variability on an Alpine glacier: Assessing temperature distribution
methods and their influence on melt model calculations. Journal of Glaciology.
2017;63(242):973-988. doi:10.1017/jog.2017.65'
apa: 'SHAW, T. E., BROCK, B. W., AYALA, Á., RUTTER, N., & Pellicciotti, F. (2017).
Centreline and cross-glacier air temperature variability on an Alpine glacier:
Assessing temperature distribution methods and their influence on melt model calculations.
Journal of Glaciology. Cambridge University Press. https://doi.org/10.1017/jog.2017.65'
chicago: 'SHAW, THOMAS E., BEN W. BROCK, ÁLVARO AYALA, NICK RUTTER, and Francesca
Pellicciotti. “Centreline and Cross-Glacier Air Temperature Variability on an
Alpine Glacier: Assessing Temperature Distribution Methods and Their Influence
on Melt Model Calculations.” Journal of Glaciology. Cambridge University
Press, 2017. https://doi.org/10.1017/jog.2017.65.'
ieee: 'T. E. SHAW, B. W. BROCK, Á. AYALA, N. RUTTER, and F. Pellicciotti, “Centreline
and cross-glacier air temperature variability on an Alpine glacier: Assessing
temperature distribution methods and their influence on melt model calculations,”
Journal of Glaciology, vol. 63, no. 242. Cambridge University Press, pp.
973–988, 2017.'
ista: 'SHAW TE, BROCK BW, AYALA Á, RUTTER N, Pellicciotti F. 2017. Centreline and
cross-glacier air temperature variability on an Alpine glacier: Assessing temperature
distribution methods and their influence on melt model calculations. Journal of
Glaciology. 63(242), 973–988.'
mla: 'SHAW, THOMAS E., et al. “Centreline and Cross-Glacier Air Temperature Variability
on an Alpine Glacier: Assessing Temperature Distribution Methods and Their Influence
on Melt Model Calculations.” Journal of Glaciology, vol. 63, no. 242, Cambridge
University Press, 2017, pp. 973–88, doi:10.1017/jog.2017.65.'
short: T.E. SHAW, B.W. BROCK, Á. AYALA, N. RUTTER, F. Pellicciotti, Journal of Glaciology
63 (2017) 973–988.
date_created: 2023-02-20T08:13:47Z
date_published: 2017-12-01T00:00:00Z
date_updated: 2023-02-28T11:30:34Z
day: '01'
doi: 10.1017/jog.2017.65
extern: '1'
intvolume: ' 63'
issue: '242'
keyword:
- Earth-Surface Processes
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1017/jog.2017.65
month: '12'
oa: 1
oa_version: Published Version
page: 973-988
publication: Journal of Glaciology
publication_identifier:
eissn:
- 1727-5652
issn:
- 0022-1430
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Centreline and cross-glacier air temperature variability on an Alpine glacier:
Assessing temperature distribution methods and their influence on melt model calculations'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 63
year: '2017'
...
---
_id: '12609'
abstract:
- lang: eng
text: Previous estimates of melt and surface sublimation on glaciers of the subtropical
semiarid Andes (29–34°S) have been obtained at few specific locations, but it
is not clear how ablation components vary across the entire extent of a glacier
in this dry environment. Here, we simulate the distributed energy and mass balance
of Juncal Norte Glacier (33°S) during a 2-month summer period. Forcing fields
of near-surface air temperature and wind speed are generated using two methods
accounting for the main physical processes that shape their spatial variations.
Simulated meteorological variables and ablation agree well with observations on
the glacier tongue and reveal complex patterns of energy and mass fluxes. Ablation
decreases from 70 mm w.e. d−1 at the low-albedo glacier terminus
(~3000 m), where almost 100% of total ablation corresponds to melt, to <5 mm
w.e. d−1 at wind-exposed, strong-radiated sites above 5500
m, where surface sublimation represents >75% of total ablation. Our simulations
provide the first glacier-scale estimates of ablation components on a glacier
in the study region and better reproduce the observed and expected spatial variations
of melt and surface sublimation, in comparison with more simple assumptions, such
as linear gradients and uniform wind speeds.
article_processing_charge: No
article_type: original
author:
- first_name: A.
full_name: AYALA, A.
last_name: AYALA
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
- first_name: N.
full_name: PELEG, N.
last_name: PELEG
- first_name: P.
full_name: BURLANDO, P.
last_name: BURLANDO
citation:
ama: 'AYALA A, Pellicciotti F, PELEG N, BURLANDO P. Melt and surface sublimation
across a glacier in a dry environment: distributed energy-balance modelling of
Juncal Norte Glacier, Chile. Journal of Glaciology. 2017;63(241):803-822.
doi:10.1017/jog.2017.46'
apa: 'AYALA, A., Pellicciotti, F., PELEG, N., & BURLANDO, P. (2017). Melt and
surface sublimation across a glacier in a dry environment: distributed energy-balance
modelling of Juncal Norte Glacier, Chile. Journal of Glaciology. Cambridge
University Press. https://doi.org/10.1017/jog.2017.46'
chicago: 'AYALA, A., Francesca Pellicciotti, N. PELEG, and P. BURLANDO. “Melt and
Surface Sublimation across a Glacier in a Dry Environment: Distributed Energy-Balance
Modelling of Juncal Norte Glacier, Chile.” Journal of Glaciology. Cambridge
University Press, 2017. https://doi.org/10.1017/jog.2017.46.'
ieee: 'A. AYALA, F. Pellicciotti, N. PELEG, and P. BURLANDO, “Melt and surface sublimation
across a glacier in a dry environment: distributed energy-balance modelling of
Juncal Norte Glacier, Chile,” Journal of Glaciology, vol. 63, no. 241.
Cambridge University Press, pp. 803–822, 2017.'
ista: 'AYALA A, Pellicciotti F, PELEG N, BURLANDO P. 2017. Melt and surface sublimation
across a glacier in a dry environment: distributed energy-balance modelling of
Juncal Norte Glacier, Chile. Journal of Glaciology. 63(241), 803–822.'
mla: 'AYALA, A., et al. “Melt and Surface Sublimation across a Glacier in a Dry
Environment: Distributed Energy-Balance Modelling of Juncal Norte Glacier, Chile.”
Journal of Glaciology, vol. 63, no. 241, Cambridge University Press, 2017,
pp. 803–22, doi:10.1017/jog.2017.46.'
short: A. AYALA, F. Pellicciotti, N. PELEG, P. BURLANDO, Journal of Glaciology 63
(2017) 803–822.
date_created: 2023-02-20T08:13:53Z
date_published: 2017-10-01T00:00:00Z
date_updated: 2023-02-28T11:28:19Z
day: '01'
doi: 10.1017/jog.2017.46
extern: '1'
intvolume: ' 63'
issue: '241'
keyword:
- Earth-Surface Processes
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1017/jog.2017.46
month: '10'
oa: 1
oa_version: Published Version
page: 803-822
publication: Journal of Glaciology
publication_identifier:
eissn:
- 1727-5652
issn:
- 0022-1430
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Melt and surface sublimation across a glacier in a dry environment: distributed
energy-balance modelling of Juncal Norte Glacier, Chile'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 63
year: '2017'
...
---
_id: '12610'
abstract:
- lang: eng
text: The hydrological systems of heavily-downwasted debris-covered glaciers differ
from those of clean-ice glaciers due to the hummocky surface and debris mantle
of such glaciers, leading to a relatively limited understanding of drainage pathways.
Supraglacial ponds represent sinks within the discontinuous supraglacial drainage
system, and occasionally drain englacially. To assess pond dynamics, we made pond
water level measurements on Lirung Glacier, Nepal, during May and October of 2013
and 2014. Simultaneously, aerial, satellite, and terrestrial orthoimages and digital
elevation models were obtained, providing snapshots of the ponds and their surroundings.
We performed a DEM-based analysis of the glacier's closed surface catchments to
identify surface drainage pathways and englacial drainage points, and compared
this to field observations of surface and near-surface water flow. The total ponded
area was higher in the pre-monsoon than post-monsoon, with individual ponds filling
and draining seasonally associated with the surface exposure of englacial conduit
segments. We recorded four pond drainage events, all of which occurred gradually
(duration of weeks), observed diurnal fluctuations indicative of varying water
supply and outflow discharge, and we documented instances of interaction between
distant ponds. The DEM drainage analysis identified numerous sinks >3 m in depth
across the glacier surface, few of which exhibited ponds (23%), while the field
survey highlighted instances of surface water only explicable via englacial routes.
Taken together, our observations provide evidence for widespread supraglacial-englacial
connectivity of meltwater drainage paths. Results suggest that successive englacial
conduit collapse events, themselves likely driven by supraglacial pond drainage,
cause the glacier surface drainage system to evolve into a configuration following
relict englacial conduit systems. Within this system, ponds form in depressions
of reduced drainage efficiency and link the supraglacial and englacial drainage
networks.
article_number: '69'
article_processing_charge: No
article_type: original
author:
- first_name: Evan S.
full_name: Miles, Evan S.
last_name: Miles
- first_name: Jakob
full_name: Steiner, Jakob
last_name: Steiner
- first_name: Ian
full_name: Willis, Ian
last_name: Willis
- first_name: Pascal
full_name: Buri, Pascal
last_name: Buri
- first_name: Walter W.
full_name: Immerzeel, Walter W.
last_name: Immerzeel
- first_name: Anna
full_name: Chesnokova, Anna
last_name: Chesnokova
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
citation:
ama: Miles ES, Steiner J, Willis I, et al. Pond dynamics and supraglacial-englacial
connectivity on debris-covered Lirung Glacier, Nepal. Frontiers in Earth Science.
2017;5. doi:10.3389/feart.2017.00069
apa: Miles, E. S., Steiner, J., Willis, I., Buri, P., Immerzeel, W. W., Chesnokova,
A., & Pellicciotti, F. (2017). Pond dynamics and supraglacial-englacial connectivity
on debris-covered Lirung Glacier, Nepal. Frontiers in Earth Science. Frontiers
Media. https://doi.org/10.3389/feart.2017.00069
chicago: Miles, Evan S., Jakob Steiner, Ian Willis, Pascal Buri, Walter W. Immerzeel,
Anna Chesnokova, and Francesca Pellicciotti. “Pond Dynamics and Supraglacial-Englacial
Connectivity on Debris-Covered Lirung Glacier, Nepal.” Frontiers in Earth Science.
Frontiers Media, 2017. https://doi.org/10.3389/feart.2017.00069.
ieee: E. S. Miles et al., “Pond dynamics and supraglacial-englacial connectivity
on debris-covered Lirung Glacier, Nepal,” Frontiers in Earth Science, vol.
5. Frontiers Media, 2017.
ista: Miles ES, Steiner J, Willis I, Buri P, Immerzeel WW, Chesnokova A, Pellicciotti
F. 2017. Pond dynamics and supraglacial-englacial connectivity on debris-covered
Lirung Glacier, Nepal. Frontiers in Earth Science. 5, 69.
mla: Miles, Evan S., et al. “Pond Dynamics and Supraglacial-Englacial Connectivity
on Debris-Covered Lirung Glacier, Nepal.” Frontiers in Earth Science, vol.
5, 69, Frontiers Media, 2017, doi:10.3389/feart.2017.00069.
short: E.S. Miles, J. Steiner, I. Willis, P. Buri, W.W. Immerzeel, A. Chesnokova,
F. Pellicciotti, Frontiers in Earth Science 5 (2017).
date_created: 2023-02-20T08:14:04Z
date_published: 2017-09-21T00:00:00Z
date_updated: 2023-02-28T11:13:23Z
day: '21'
doi: 10.3389/feart.2017.00069
extern: '1'
intvolume: ' 5'
keyword:
- General Earth and Planetary Sciences
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.3389/feart.2017.00069
month: '09'
oa: 1
oa_version: Published Version
publication: Frontiers in Earth Science
publication_identifier:
issn:
- 2296-6463
publication_status: published
publisher: Frontiers Media
quality_controlled: '1'
scopus_import: '1'
status: public
title: Pond dynamics and supraglacial-englacial connectivity on debris-covered Lirung
Glacier, Nepal
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2017'
...
---
_id: '12612'
abstract:
- lang: eng
text: Supraglacial ponds play a key role in absorbing atmospheric energy and directing
it to the ice of debris-covered glaciers, but the spatial and temporal distribution
of these features is not well documented. We analyse 172 Landsat TM/ETM+ scenes
for the period 1999–2013 to identify thawed supraglacial ponds for the debris-covered
tongues of five glaciers in the Langtang Valley of Nepal. We apply an advanced
atmospheric correction routine (Landcor/6S) and use band ratio and image morphological
techniques to identify ponds and validate our results with 2.5 m Cartosat-1 observations.
We then characterize the spatial, seasonal and interannual patterns of ponds.
We find high variability in pond incidence between glaciers (May–October means
of 0.08–1.69% of debris area), with ponds most frequent in zones of low surface
gradient and velocity. The ponds show pronounced seasonality, appearing in the
pre-monsoon as snow melts, peaking at the monsoon onset at 2% of debris-covered
area, then declining in the post-monsoon as ponds drain or freeze. Ponds are highly
recurrent and persistent, with 40.5% of pond locations occurring for multiple
years. Rather than a trend in pond cover over the study period, we find high interannual
variability for each glacier after controlling for seasonality.
article_processing_charge: No
article_type: original
author:
- first_name: EVAN S.
full_name: MILES, EVAN S.
last_name: MILES
- first_name: IAN C.
full_name: WILLIS, IAN C.
last_name: WILLIS
- first_name: NEIL S.
full_name: ARNOLD, NEIL S.
last_name: ARNOLD
- first_name: JAKOB
full_name: STEINER, JAKOB
last_name: STEINER
- first_name: Francesca
full_name: Pellicciotti, Francesca
id: b28f055a-81ea-11ed-b70c-a9fe7f7b0e70
last_name: Pellicciotti
citation:
ama: MILES ES, WILLIS IC, ARNOLD NS, STEINER J, Pellicciotti F. Spatial, seasonal
and interannual variability of supraglacial ponds in the Langtang Valley of Nepal,
1999–2013. Journal of Glaciology. 2017;63(237):88-105. doi:10.1017/jog.2016.120
apa: MILES, E. S., WILLIS, I. C., ARNOLD, N. S., STEINER, J., & Pellicciotti,
F. (2017). Spatial, seasonal and interannual variability of supraglacial ponds
in the Langtang Valley of Nepal, 1999–2013. Journal of Glaciology. Cambridge
University Press. https://doi.org/10.1017/jog.2016.120
chicago: MILES, EVAN S., IAN C. WILLIS, NEIL S. ARNOLD, JAKOB STEINER, and Francesca
Pellicciotti. “Spatial, Seasonal and Interannual Variability of Supraglacial Ponds
in the Langtang Valley of Nepal, 1999–2013.” Journal of Glaciology. Cambridge
University Press, 2017. https://doi.org/10.1017/jog.2016.120.
ieee: E. S. MILES, I. C. WILLIS, N. S. ARNOLD, J. STEINER, and F. Pellicciotti,
“Spatial, seasonal and interannual variability of supraglacial ponds in the Langtang
Valley of Nepal, 1999–2013,” Journal of Glaciology, vol. 63, no. 237. Cambridge
University Press, pp. 88–105, 2017.
ista: MILES ES, WILLIS IC, ARNOLD NS, STEINER J, Pellicciotti F. 2017. Spatial,
seasonal and interannual variability of supraglacial ponds in the Langtang Valley
of Nepal, 1999–2013. Journal of Glaciology. 63(237), 88–105.
mla: MILES, EVAN S., et al. “Spatial, Seasonal and Interannual Variability of Supraglacial
Ponds in the Langtang Valley of Nepal, 1999–2013.” Journal of Glaciology,
vol. 63, no. 237, Cambridge University Press, 2017, pp. 88–105, doi:10.1017/jog.2016.120.
short: E.S. MILES, I.C. WILLIS, N.S. ARNOLD, J. STEINER, F. Pellicciotti, Journal
of Glaciology 63 (2017) 88–105.
date_created: 2023-02-20T08:14:16Z
date_published: 2017-02-01T00:00:00Z
date_updated: 2023-02-24T11:38:31Z
day: '01'
doi: 10.1017/jog.2016.120
extern: '1'
intvolume: ' 63'
issue: '237'
keyword:
- Earth-Surface Processes
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1017/jog.2016.120
month: '02'
oa: 1
oa_version: Published Version
page: 88-105
publication: Journal of Glaciology
publication_identifier:
eissn:
- 1727-5652
issn:
- 0022-1430
publication_status: published
publisher: Cambridge University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Spatial, seasonal and interannual variability of supraglacial ponds in the
Langtang Valley of Nepal, 1999–2013
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 63
year: '2017'
...
---
_id: '12905'
article_processing_charge: No
author:
- first_name: Alois
full_name: Schlögl, Alois
id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
last_name: Schlögl
orcid: 0000-0002-5621-8100
- first_name: Janos
full_name: Kiss, Janos
id: 3D3A06F8-F248-11E8-B48F-1D18A9856A87
last_name: Kiss
citation:
ama: 'Schlögl A, Kiss J. Scientific Computing at IST Austria. In: AHPC17 – Austrian
HPC Meeting 2017. FSP Scientific Computing; 2017:28.'
apa: 'Schlögl, A., & Kiss, J. (2017). Scientific Computing at IST Austria. In
AHPC17 – Austrian HPC Meeting 2017 (p. 28). Grundlsee, Austria: FSP Scientific
Computing.'
chicago: Schlögl, Alois, and Janos Kiss. “Scientific Computing at IST Austria.”
In AHPC17 – Austrian HPC Meeting 2017, 28. FSP Scientific Computing, 2017.
ieee: A. Schlögl and J. Kiss, “Scientific Computing at IST Austria,” in AHPC17
– Austrian HPC Meeting 2017, Grundlsee, Austria, 2017, p. 28.
ista: 'Schlögl A, Kiss J. 2017. Scientific Computing at IST Austria. AHPC17 – Austrian
HPC Meeting 2017. AHPC: Austrian HPC Meeting, 28.'
mla: Schlögl, Alois, and Janos Kiss. “Scientific Computing at IST Austria.” AHPC17
– Austrian HPC Meeting 2017, FSP Scientific Computing, 2017, p. 28.
short: A. Schlögl, J. Kiss, in:, AHPC17 – Austrian HPC Meeting 2017, FSP Scientific
Computing, 2017, p. 28.
conference:
end_date: 2017-03-03
location: Grundlsee, Austria
name: 'AHPC: Austrian HPC Meeting'
start_date: 2017-03-01
date_created: 2023-05-05T12:58:53Z
date_published: 2017-03-03T00:00:00Z
date_updated: 2023-05-16T07:22:23Z
day: '03'
ddc:
- '000'
department:
- _id: ScienComp
file:
- access_level: open_access
checksum: 7bcc499479d4f4c5ce6c0071c24ca6c6
content_type: application/pdf
creator: dernst
date_created: 2023-05-16T07:20:50Z
date_updated: 2023-05-16T07:20:50Z
file_id: '12969'
file_name: 2017_AHPC_Schloegl.pdf
file_size: 1005486
relation: main_file
success: 1
file_date_updated: 2023-05-16T07:20:50Z
has_accepted_license: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://vsc.ac.at/fileadmin/user_upload/vsc/conferences/ahpc17/BOOKLET_AHPC17.pdf
month: '03'
oa: 1
oa_version: Published Version
page: '28'
publication: AHPC17 – Austrian HPC Meeting 2017
publication_status: published
publisher: FSP Scientific Computing
status: public
title: Scientific Computing at IST Austria
type: conference_abstract
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2017'
...
---
_id: '1294'
abstract:
- lang: eng
text: We study controller synthesis problems for finite-state Markov decision processes,
where the objective is to optimize the expected mean-payoff performance and stability
(also known as variability in the literature). We argue that the basic notion
of expressing the stability using the statistical variance of the mean payoff
is sometimes insufficient, and propose an alternative definition. We show that
a strategy ensuring both the expected mean payoff and the variance below given
bounds requires randomization and memory, under both the above definitions. We
then show that the problem of finding such a strategy can be expressed as a set
of constraints.
article_processing_charge: No
author:
- first_name: Tomáš
full_name: Brázdil, Tomáš
last_name: Brázdil
- first_name: Krishnendu
full_name: Chatterjee, Krishnendu
id: 2E5DCA20-F248-11E8-B48F-1D18A9856A87
last_name: Chatterjee
orcid: 0000-0002-4561-241X
- first_name: Vojtěch
full_name: Forejt, Vojtěch
last_name: Forejt
- first_name: Antonín
full_name: Kučera, Antonín
last_name: Kučera
citation:
ama: Brázdil T, Chatterjee K, Forejt V, Kučera A. Trading performance for stability
in Markov decision processes. Journal of Computer and System Sciences.
2017;84:144-170. doi:10.1016/j.jcss.2016.09.009
apa: Brázdil, T., Chatterjee, K., Forejt, V., & Kučera, A. (2017). Trading performance
for stability in Markov decision processes. Journal of Computer and System
Sciences. Elsevier. https://doi.org/10.1016/j.jcss.2016.09.009
chicago: Brázdil, Tomáš, Krishnendu Chatterjee, Vojtěch Forejt, and Antonín Kučera.
“Trading Performance for Stability in Markov Decision Processes.” Journal of
Computer and System Sciences. Elsevier, 2017. https://doi.org/10.1016/j.jcss.2016.09.009.
ieee: T. Brázdil, K. Chatterjee, V. Forejt, and A. Kučera, “Trading performance
for stability in Markov decision processes,” Journal of Computer and System
Sciences, vol. 84. Elsevier, pp. 144–170, 2017.
ista: Brázdil T, Chatterjee K, Forejt V, Kučera A. 2017. Trading performance for
stability in Markov decision processes. Journal of Computer and System Sciences.
84, 144–170.
mla: Brázdil, Tomáš, et al. “Trading Performance for Stability in Markov Decision
Processes.” Journal of Computer and System Sciences, vol. 84, Elsevier,
2017, pp. 144–70, doi:10.1016/j.jcss.2016.09.009.
short: T. Brázdil, K. Chatterjee, V. Forejt, A. Kučera, Journal of Computer and
System Sciences 84 (2017) 144–170.
date_created: 2018-12-11T11:51:12Z
date_published: 2017-03-01T00:00:00Z
date_updated: 2023-09-20T11:15:31Z
day: '01'
ddc:
- '004'
- '006'
department:
- _id: KrCh
doi: 10.1016/j.jcss.2016.09.009
ec_funded: 1
external_id:
isi:
- '000388430000011'
file:
- access_level: open_access
checksum: 91271b23cf884d7c06d33bef0cd623b1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:30Z
date_updated: 2020-07-14T12:44:42Z
file_id: '4885'
file_name: IST-2016-717-v1+1_1-s2.0-S0022000016300897-main.pdf
file_size: 708657
relation: main_file
file_date_updated: 2020-07-14T12:44:42Z
has_accepted_license: '1'
intvolume: ' 84'
isi: 1
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
page: 144 - 170
project:
- _id: 2584A770-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: P 23499-N23
name: Modern Graph Algorithmic Techniques in Formal Verification
- _id: 25863FF4-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S11407
name: Game Theory
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
- _id: 2587B514-B435-11E9-9278-68D0E5697425
name: Microsoft Research Faculty Fellowship
publication: Journal of Computer and System Sciences
publication_status: published
publisher: Elsevier
publist_id: '6009'
pubrep_id: '717'
quality_controlled: '1'
related_material:
record:
- id: '2305'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: Trading performance for stability in Markov decision processes
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: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 84
year: '2017'
...
---
_id: '9707'
abstract:
- lang: eng
text: Branching morphogenesis of the epithelial ureteric bud forms the renal collecting
duct system and is critical for normal nephron number, while low nephron number
is implicated in hypertension and renal disease. Ureteric bud growth and branching
requires GDNF signaling from the surrounding mesenchyme to cells at the ureteric
bud tips, via the Ret receptor tyrosine kinase and coreceptor Gfrα1; Ret signaling
up-regulates transcription factors Etv4 and Etv5, which are also critical for
branching. Despite extensive knowledge of the genetic control of these events,
it is not understood, at the cellular level, how renal branching morphogenesis
is achieved or how Ret signaling influences epithelial cell behaviors to promote
this process. Analysis of chimeric embryos previously suggested a role for Ret
signaling in promoting cell rearrangements in the nephric duct, but this method
was unsuited to study individual cell behaviors during ureteric bud branching.
Here, we use Mosaic Analysis with Double Markers (MADM), combined with organ culture
and time-lapse imaging, to trace the movements and divisions of individual ureteric
bud tip cells. We first examine wild-type clones and then Ret or Etv4 mutant/wild-type
clones in which the mutant and wild-type sister cells are differentially and heritably
marked by green and red fluorescent proteins. We find that, in normal kidneys,
most individual tip cells behave as self-renewing progenitors, some of whose progeny
remain at the tips while others populate the growing UB trunks. In Ret or Etv4
MADM clones, the wild-type cells generated at a UB tip are much more likely to
remain at, or move to, the new tips during branching and elongation, while their
Ret−/− or Etv4−/− sister cells tend to lag behind and contribute only to the trunks.
By tracking successive mitoses in a cell lineage, we find that Ret signaling has
little effect on proliferation, in contrast to its effects on cell movement. Our
results show that Ret/Etv4 signaling promotes directed cell movements in the ureteric
bud tips, and suggest a model in which these cell movements mediate branching
morphogenesis.
article_processing_charge: No
author:
- first_name: Paul
full_name: Riccio, Paul
last_name: Riccio
- first_name: Christina
full_name: Cebrián, Christina
last_name: Cebrián
- first_name: Hui
full_name: Zong, Hui
last_name: Zong
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
- first_name: Frank
full_name: Costantini, Frank
last_name: Costantini
citation:
ama: 'Riccio P, Cebrián C, Zong H, Hippenmeyer S, Costantini F. Data from: Ret and
Etv4 promote directed movements of progenitor cells during renal branching morphogenesis.
2017. doi:10.5061/dryad.pk16b'
apa: 'Riccio, P., Cebrián, C., Zong, H., Hippenmeyer, S., & Costantini, F. (2017).
Data from: Ret and Etv4 promote directed movements of progenitor cells during
renal branching morphogenesis. Dryad. https://doi.org/10.5061/dryad.pk16b'
chicago: 'Riccio, Paul, Christina Cebrián, Hui Zong, Simon Hippenmeyer, and Frank
Costantini. “Data from: Ret and Etv4 Promote Directed Movements of Progenitor
Cells during Renal Branching Morphogenesis.” Dryad, 2017. https://doi.org/10.5061/dryad.pk16b.'
ieee: 'P. Riccio, C. Cebrián, H. Zong, S. Hippenmeyer, and F. Costantini, “Data
from: Ret and Etv4 promote directed movements of progenitor cells during renal
branching morphogenesis.” Dryad, 2017.'
ista: 'Riccio P, Cebrián C, Zong H, Hippenmeyer S, Costantini F. 2017. Data from:
Ret and Etv4 promote directed movements of progenitor cells during renal branching
morphogenesis, Dryad, 10.5061/dryad.pk16b.'
mla: 'Riccio, Paul, et al. Data from: Ret and Etv4 Promote Directed Movements
of Progenitor Cells during Renal Branching Morphogenesis. Dryad, 2017, doi:10.5061/dryad.pk16b.'
short: P. Riccio, C. Cebrián, H. Zong, S. Hippenmeyer, F. Costantini, (2017).
date_created: 2021-07-23T09:39:34Z
date_published: 2017-01-14T00:00:00Z
date_updated: 2022-08-25T13:34:55Z
day: '14'
department:
- _id: SiHi
doi: 10.5061/dryad.pk16b
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.pk16b
month: '01'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '9702'
relation: used_in_publication
status: deleted
status: public
title: 'Data from: Ret and Etv4 promote directed movements of progenitor cells during
renal branching morphogenesis'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9709'
abstract:
- lang: eng
text: Across the nervous system, certain population spiking patterns are observed
far more frequently than others. A hypothesis about this structure is that these
collective activity patterns function as population codewords–collective modes–carrying
information distinct from that of any single cell. We investigate this phenomenon
in recordings of ∼150 retinal ganglion cells, the retina’s output. We develop
a novel statistical model that decomposes the population response into modes;
it predicts the distribution of spiking activity in the ganglion cell population
with high accuracy. We found that the modes represent localized features of the
visual stimulus that are distinct from the features represented by single neurons.
Modes form clusters of activity states that are readily discriminated from one
another. When we repeated the same visual stimulus, we found that the same mode
was robustly elicited. These results suggest that retinal ganglion cells’ collective
signaling is endowed with a form of error-correcting code–a principle that may
hold in brain areas beyond retina.
article_processing_charge: No
author:
- first_name: Jason
full_name: Prentice, Jason
last_name: Prentice
- first_name: Olivier
full_name: Marre, Olivier
last_name: Marre
- first_name: Mark
full_name: Ioffe, Mark
last_name: Ioffe
- first_name: Adrianna
full_name: Loback, Adrianna
last_name: Loback
- first_name: Gašper
full_name: Tkačik, Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
- first_name: Michael
full_name: Berry, Michael
last_name: Berry
citation:
ama: 'Prentice J, Marre O, Ioffe M, Loback A, Tkačik G, Berry M. Data from: Error-robust
modes of the retinal population code. 2017. doi:10.5061/dryad.1f1rc'
apa: 'Prentice, J., Marre, O., Ioffe, M., Loback, A., Tkačik, G., & Berry, M.
(2017). Data from: Error-robust modes of the retinal population code. Dryad. https://doi.org/10.5061/dryad.1f1rc'
chicago: 'Prentice, Jason, Olivier Marre, Mark Ioffe, Adrianna Loback, Gašper Tkačik,
and Michael Berry. “Data from: Error-Robust Modes of the Retinal Population Code.”
Dryad, 2017. https://doi.org/10.5061/dryad.1f1rc.'
ieee: 'J. Prentice, O. Marre, M. Ioffe, A. Loback, G. Tkačik, and M. Berry, “Data
from: Error-robust modes of the retinal population code.” Dryad, 2017.'
ista: 'Prentice J, Marre O, Ioffe M, Loback A, Tkačik G, Berry M. 2017. Data from:
Error-robust modes of the retinal population code, Dryad, 10.5061/dryad.1f1rc.'
mla: 'Prentice, Jason, et al. Data from: Error-Robust Modes of the Retinal Population
Code. Dryad, 2017, doi:10.5061/dryad.1f1rc.'
short: J. Prentice, O. Marre, M. Ioffe, A. Loback, G. Tkačik, M. Berry, (2017).
date_created: 2021-07-23T11:34:34Z
date_published: 2017-10-18T00:00:00Z
date_updated: 2023-02-21T16:34:41Z
day: '18'
department:
- _id: GaTk
doi: 10.5061/dryad.1f1rc
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.1f1rc
month: '10'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '1197'
relation: used_in_publication
status: public
status: public
title: 'Data from: Error-robust modes of the retinal population code'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9842'
abstract:
- lang: eng
text: Mathematica notebooks used to generate figures.
article_processing_charge: No
author:
- first_name: Alison
full_name: Etheridge, Alison
last_name: Etheridge
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: 'Etheridge A, Barton NH. Data for: Establishment in a new habitat by polygenic
adaptation. 2017. doi:10.17632/nw68fxzjpm.1'
apa: 'Etheridge, A., & Barton, N. H. (2017). Data for: Establishment in a new
habitat by polygenic adaptation. Mendeley Data. https://doi.org/10.17632/nw68fxzjpm.1'
chicago: 'Etheridge, Alison, and Nicholas H Barton. “Data for: Establishment in
a New Habitat by Polygenic Adaptation.” Mendeley Data, 2017. https://doi.org/10.17632/nw68fxzjpm.1.'
ieee: 'A. Etheridge and N. H. Barton, “Data for: Establishment in a new habitat
by polygenic adaptation.” Mendeley Data, 2017.'
ista: 'Etheridge A, Barton NH. 2017. Data for: Establishment in a new habitat by
polygenic adaptation, Mendeley Data, 10.17632/nw68fxzjpm.1.'
mla: 'Etheridge, Alison, and Nicholas H. Barton. Data for: Establishment in a
New Habitat by Polygenic Adaptation. Mendeley Data, 2017, doi:10.17632/nw68fxzjpm.1.'
short: A. Etheridge, N.H. Barton, (2017).
date_created: 2021-08-09T13:18:55Z
date_published: 2017-12-29T00:00:00Z
date_updated: 2025-05-28T11:56:59Z
day: '29'
department:
- _id: NiBa
doi: 10.17632/nw68fxzjpm.1
main_file_link:
- open_access: '1'
url: https://doi.org/10.17632/nw68fxzjpm.1
month: '12'
oa: 1
oa_version: Published Version
publisher: Mendeley Data
related_material:
record:
- id: '564'
relation: used_in_publication
status: public
status: public
title: 'Data for: Establishment in a new habitat by polygenic adaptation'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9847'
abstract:
- lang: eng
text: information on culture conditions, phage mutagenesis, verification and lysate
preparation; Raw data
article_processing_charge: No
author:
- first_name: Maros
full_name: Pleska, Maros
id: 4569785E-F248-11E8-B48F-1D18A9856A87
last_name: Pleska
orcid: 0000-0001-7460-7479
- first_name: Calin C
full_name: Guet, Calin C
id: 47F8433E-F248-11E8-B48F-1D18A9856A87
last_name: Guet
orcid: 0000-0001-6220-2052
citation:
ama: Pleska M, Guet CC. Supplementary materials and methods; Full data set from
effects of mutations in phage restriction sites during escape from restriction–modification.
2017. doi:10.6084/m9.figshare.5633917.v1
apa: Pleska, M., & Guet, C. C. (2017). Supplementary materials and methods;
Full data set from effects of mutations in phage restriction sites during escape
from restriction–modification. The Royal Society. https://doi.org/10.6084/m9.figshare.5633917.v1
chicago: Pleska, Maros, and Calin C Guet. “Supplementary Materials and Methods;
Full Data Set from Effects of Mutations in Phage Restriction Sites during Escape
from Restriction–Modification.” The Royal Society, 2017. https://doi.org/10.6084/m9.figshare.5633917.v1.
ieee: M. Pleska and C. C. Guet, “Supplementary materials and methods; Full data
set from effects of mutations in phage restriction sites during escape from restriction–modification.”
The Royal Society, 2017.
ista: Pleska M, Guet CC. 2017. Supplementary materials and methods; Full data set
from effects of mutations in phage restriction sites during escape from restriction–modification,
The Royal Society, 10.6084/m9.figshare.5633917.v1.
mla: Pleska, Maros, and Calin C. Guet. Supplementary Materials and Methods; Full
Data Set from Effects of Mutations in Phage Restriction Sites during Escape from
Restriction–Modification. The Royal Society, 2017, doi:10.6084/m9.figshare.5633917.v1.
short: M. Pleska, C.C. Guet, (2017).
date_created: 2021-08-09T13:54:38Z
date_published: 2017-11-27T00:00:00Z
date_updated: 2023-02-23T12:29:44Z
day: '27'
department:
- _id: CaGu
doi: 10.6084/m9.figshare.5633917.v1
main_file_link:
- open_access: '1'
url: https://doi.org/10.6084/m9.figshare.5633917.v1
month: '11'
oa: 1
oa_version: Published Version
publisher: The Royal Society
related_material:
record:
- id: '561'
relation: used_in_publication
status: public
status: public
title: Supplementary materials and methods; Full data set from effects of mutations
in phage restriction sites during escape from restriction–modification
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9853'
abstract:
- lang: eng
text: Egg laying rates and infection loads of C. obscurior queens
article_processing_charge: No
author:
- first_name: Julia
full_name: Giehr, Julia
last_name: Giehr
- first_name: Anna V
full_name: Grasse, Anna V
id: 406F989C-F248-11E8-B48F-1D18A9856A87
last_name: Grasse
- first_name: Sylvia
full_name: Cremer, Sylvia
id: 2F64EC8C-F248-11E8-B48F-1D18A9856A87
last_name: Cremer
orcid: 0000-0002-2193-3868
- first_name: Jürgen
full_name: Heinze, Jürgen
last_name: Heinze
- first_name: Alexandra
full_name: Schrempf, Alexandra
last_name: Schrempf
citation:
ama: Giehr J, Grasse AV, Cremer S, Heinze J, Schrempf A. Raw data from ant queens
increase their reproductive efforts after pathogen infection. 2017. doi:10.6084/m9.figshare.5117788.v1
apa: Giehr, J., Grasse, A. V., Cremer, S., Heinze, J., & Schrempf, A. (2017).
Raw data from ant queens increase their reproductive efforts after pathogen infection.
The Royal Society. https://doi.org/10.6084/m9.figshare.5117788.v1
chicago: Giehr, Julia, Anna V Grasse, Sylvia Cremer, Jürgen Heinze, and Alexandra
Schrempf. “Raw Data from Ant Queens Increase Their Reproductive Efforts after
Pathogen Infection.” The Royal Society, 2017. https://doi.org/10.6084/m9.figshare.5117788.v1.
ieee: J. Giehr, A. V. Grasse, S. Cremer, J. Heinze, and A. Schrempf, “Raw data from
ant queens increase their reproductive efforts after pathogen infection.” The
Royal Society, 2017.
ista: Giehr J, Grasse AV, Cremer S, Heinze J, Schrempf A. 2017. Raw data from ant
queens increase their reproductive efforts after pathogen infection, The Royal
Society, 10.6084/m9.figshare.5117788.v1.
mla: Giehr, Julia, et al. Raw Data from Ant Queens Increase Their Reproductive
Efforts after Pathogen Infection. The Royal Society, 2017, doi:10.6084/m9.figshare.5117788.v1.
short: J. Giehr, A.V. Grasse, S. Cremer, J. Heinze, A. Schrempf, (2017).
date_created: 2021-08-10T06:57:57Z
date_published: 2017-06-19T00:00:00Z
date_updated: 2023-09-26T15:45:47Z
day: '19'
department:
- _id: SyCr
doi: 10.6084/m9.figshare.5117788.v1
main_file_link:
- open_access: '1'
url: https://doi.org/10.6084/m9.figshare.5117788.v1
month: '06'
oa: 1
oa_version: Published Version
publisher: The Royal Society
related_material:
record:
- id: '914'
relation: used_in_publication
status: public
status: public
title: Raw data from ant queens increase their reproductive efforts after pathogen
infection
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9859'
abstract:
- lang: eng
text: 'Lists of all differentially expressed genes in the different priming-challenge
treatments (compared to the fully naïve control; xlsx file). Relevant columns
include the following: sample_1 and sample_2 – treatment groups being compared;
Normalised FPKM sample_1 and sample_2 – FPKM of samples being compared; log2(fold_change)
– log2(FPKM sample 2/FPKM sample 1), i.e. negative means sample 1 upregulated
compared with sample 2, positive means sample 2 upregulated compared with sample
1; cuffdiff test_statistic – test statistic of differential expression test; p_value
– p-value of differential expression test; q_value (FDR correction) – adjusted
P-value of differential expression test. (XLSX 598 kb)'
article_processing_charge: No
author:
- first_name: Jenny
full_name: Greenwood, Jenny
last_name: Greenwood
- first_name: Barbara
full_name: Milutinovic, Barbara
id: 2CDC32B8-F248-11E8-B48F-1D18A9856A87
last_name: Milutinovic
orcid: 0000-0002-8214-4758
- first_name: Robert
full_name: Peuß, Robert
last_name: Peuß
- first_name: Sarah
full_name: Behrens, Sarah
last_name: Behrens
- first_name: Daniela
full_name: Essar, Daniela
last_name: Essar
- first_name: Philip
full_name: Rosenstiel, Philip
last_name: Rosenstiel
- first_name: Hinrich
full_name: Schulenburg, Hinrich
last_name: Schulenburg
- first_name: Joachim
full_name: Kurtz, Joachim
last_name: Kurtz
citation:
ama: 'Greenwood J, Milutinovic B, Peuß R, et al. Additional file 1: Table S1. of
Oral immune priming with Bacillus thuringiensis induces a shift in the gene expression
of Tribolium castaneum larvae. 2017. doi:10.6084/m9.figshare.c.3756974_d1.v1'
apa: 'Greenwood, J., Milutinovic, B., Peuß, R., Behrens, S., Essar, D., Rosenstiel,
P., … Kurtz, J. (2017). Additional file 1: Table S1. of Oral immune priming with
Bacillus thuringiensis induces a shift in the gene expression of Tribolium castaneum
larvae. Springer Nature. https://doi.org/10.6084/m9.figshare.c.3756974_d1.v1'
chicago: 'Greenwood, Jenny, Barbara Milutinovic, Robert Peuß, Sarah Behrens, Daniela
Essar, Philip Rosenstiel, Hinrich Schulenburg, and Joachim Kurtz. “Additional
File 1: Table S1. of Oral Immune Priming with Bacillus Thuringiensis Induces a
Shift in the Gene Expression of Tribolium Castaneum Larvae.” Springer Nature,
2017. https://doi.org/10.6084/m9.figshare.c.3756974_d1.v1.'
ieee: 'J. Greenwood et al., “Additional file 1: Table S1. of Oral immune
priming with Bacillus thuringiensis induces a shift in the gene expression of
Tribolium castaneum larvae.” Springer Nature, 2017.'
ista: 'Greenwood J, Milutinovic B, Peuß R, Behrens S, Essar D, Rosenstiel P, Schulenburg
H, Kurtz J. 2017. Additional file 1: Table S1. of Oral immune priming with Bacillus
thuringiensis induces a shift in the gene expression of Tribolium castaneum larvae,
Springer Nature, 10.6084/m9.figshare.c.3756974_d1.v1.'
mla: 'Greenwood, Jenny, et al. Additional File 1: Table S1. of Oral Immune Priming
with Bacillus Thuringiensis Induces a Shift in the Gene Expression of Tribolium
Castaneum Larvae. Springer Nature, 2017, doi:10.6084/m9.figshare.c.3756974_d1.v1.'
short: J. Greenwood, B. Milutinovic, R. Peuß, S. Behrens, D. Essar, P. Rosenstiel,
H. Schulenburg, J. Kurtz, (2017).
date_created: 2021-08-10T07:59:02Z
date_published: 2017-04-26T00:00:00Z
date_updated: 2023-09-22T09:47:44Z
day: '26'
department:
- _id: SyCr
doi: 10.6084/m9.figshare.c.3756974_d1.v1
main_file_link:
- open_access: '1'
url: https://doi.org/10.6084/m9.figshare.c.3756974_d1.v1
month: '04'
oa: 1
oa_version: Published Version
publisher: Springer Nature
related_material:
record:
- id: '1006'
relation: used_in_publication
status: public
status: public
title: 'Additional file 1: Table S1. of Oral immune priming with Bacillus thuringiensis
induces a shift in the gene expression of Tribolium castaneum larvae'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9860'
article_processing_charge: No
author:
- first_name: Jenny
full_name: Greenwood, Jenny
last_name: Greenwood
- first_name: Barbara
full_name: Milutinovic, Barbara
id: 2CDC32B8-F248-11E8-B48F-1D18A9856A87
last_name: Milutinovic
orcid: 0000-0002-8214-4758
- first_name: Robert
full_name: Peuß, Robert
last_name: Peuß
- first_name: Sarah
full_name: Behrens, Sarah
last_name: Behrens
- first_name: Daniela
full_name: Essar, Daniela
last_name: Essar
- first_name: Philip
full_name: Rosenstiel, Philip
last_name: Rosenstiel
- first_name: Hinrich
full_name: Schulenburg, Hinrich
last_name: Schulenburg
- first_name: Joachim
full_name: Kurtz, Joachim
last_name: Kurtz
citation:
ama: 'Greenwood J, Milutinovic B, Peuß R, et al. Additional file 5: Table S3. of
Oral immune priming with Bacillus thuringiensis induces a shift in the gene expression
of Tribolium castaneum larvae. 2017. doi:10.6084/m9.figshare.c.3756974_d5.v1'
apa: 'Greenwood, J., Milutinovic, B., Peuß, R., Behrens, S., Essar, D., Rosenstiel,
P., … Kurtz, J. (2017). Additional file 5: Table S3. of Oral immune priming with
Bacillus thuringiensis induces a shift in the gene expression of Tribolium castaneum
larvae. Springer Nature. https://doi.org/10.6084/m9.figshare.c.3756974_d5.v1'
chicago: 'Greenwood, Jenny, Barbara Milutinovic, Robert Peuß, Sarah Behrens, Daniela
Essar, Philip Rosenstiel, Hinrich Schulenburg, and Joachim Kurtz. “Additional
File 5: Table S3. of Oral Immune Priming with Bacillus Thuringiensis Induces a
Shift in the Gene Expression of Tribolium Castaneum Larvae.” Springer Nature,
2017. https://doi.org/10.6084/m9.figshare.c.3756974_d5.v1.'
ieee: 'J. Greenwood et al., “Additional file 5: Table S3. of Oral immune
priming with Bacillus thuringiensis induces a shift in the gene expression of
Tribolium castaneum larvae.” Springer Nature, 2017.'
ista: 'Greenwood J, Milutinovic B, Peuß R, Behrens S, Essar D, Rosenstiel P, Schulenburg
H, Kurtz J. 2017. Additional file 5: Table S3. of Oral immune priming with Bacillus
thuringiensis induces a shift in the gene expression of Tribolium castaneum larvae,
Springer Nature, 10.6084/m9.figshare.c.3756974_d5.v1.'
mla: 'Greenwood, Jenny, et al. Additional File 5: Table S3. of Oral Immune Priming
with Bacillus Thuringiensis Induces a Shift in the Gene Expression of Tribolium
Castaneum Larvae. Springer Nature, 2017, doi:10.6084/m9.figshare.c.3756974_d5.v1.'
short: J. Greenwood, B. Milutinovic, R. Peuß, S. Behrens, D. Essar, P. Rosenstiel,
H. Schulenburg, J. Kurtz, (2017).
date_created: 2021-08-10T08:07:12Z
date_published: 2017-04-26T00:00:00Z
date_updated: 2023-09-22T09:47:44Z
day: '26'
department:
- _id: SyCr
doi: 10.6084/m9.figshare.c.3756974_d5.v1
main_file_link:
- open_access: '1'
url: https://doi.org/10.6084/m9.figshare.c.3756974_d5.v1
month: '04'
oa: 1
oa_version: Published Version
publisher: Springer Nature
related_material:
record:
- id: '1006'
relation: used_in_publication
status: public
status: public
title: 'Additional file 5: Table S3. of Oral immune priming with Bacillus thuringiensis
induces a shift in the gene expression of Tribolium castaneum larvae'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '9861'
abstract:
- lang: eng
text: As a consequence of its difference in copy number between males and females,
the X chromosome is subject to unique evolutionary forces and gene regulatory
mechanisms. Previous studies of Drosophila melanogaster have shown that the expression
of X-linked, testis-specific reporter genes is suppressed in the male germline.
However, it is not known whether this phenomenon is restricted to testis-expressed
genes or if it is a more general property of genes with tissue-specific expression,
which are also underrepresented on the X chromosome. To test this, we compared
the expression of three tissue-specific reporter genes (ovary, accessory gland
and Malpighian tubule) inserted at various autosomal and X-chromosomal locations.
In contrast to testis-specific reporter genes, we found no reduction of X-linked
expression in any of the other tissues. In accessory gland and Malpighian tubule,
we detected higher expression of the X-linked reporter genes, which suggests that
they are at least partially dosage compensated. We found no difference in the
tissue-specificity of X-linked and autosomal reporter genes. These findings indicate
that, in general, the X chromosome is not a detrimental environment for tissue-specific
gene expression and that the suppression of X-linked expression is limited to
the male germline.
article_processing_charge: No
author:
- first_name: Eliza
full_name: Argyridou, Eliza
last_name: Argyridou
- first_name: Ann K
full_name: Huylmans, Ann K
id: 4C0A3874-F248-11E8-B48F-1D18A9856A87
last_name: Huylmans
orcid: 0000-0001-8871-4961
- first_name: Annabella
full_name: Königer, Annabella
last_name: Königer
- first_name: John
full_name: Parsch, John
last_name: Parsch
citation:
ama: 'Argyridou E, Huylmans AK, Königer A, Parsch J. Data from: X-linkage is not
a general inhibitor of tissue-specific gene expression in Drosophila melanogaster.
2017. doi:10.5061/dryad.02f6r'
apa: 'Argyridou, E., Huylmans, A. K., Königer, A., & Parsch, J. (2017). Data
from: X-linkage is not a general inhibitor of tissue-specific gene expression
in Drosophila melanogaster. Dryad. https://doi.org/10.5061/dryad.02f6r'
chicago: 'Argyridou, Eliza, Ann K Huylmans, Annabella Königer, and John Parsch.
“Data from: X-Linkage Is Not a General Inhibitor of Tissue-Specific Gene Expression
in Drosophila Melanogaster.” Dryad, 2017. https://doi.org/10.5061/dryad.02f6r.'
ieee: 'E. Argyridou, A. K. Huylmans, A. Königer, and J. Parsch, “Data from: X-linkage
is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster.”
Dryad, 2017.'
ista: 'Argyridou E, Huylmans AK, Königer A, Parsch J. 2017. Data from: X-linkage
is not a general inhibitor of tissue-specific gene expression in Drosophila melanogaster,
Dryad, 10.5061/dryad.02f6r.'
mla: 'Argyridou, Eliza, et al. Data from: X-Linkage Is Not a General Inhibitor
of Tissue-Specific Gene Expression in Drosophila Melanogaster. Dryad, 2017,
doi:10.5061/dryad.02f6r.'
short: E. Argyridou, A.K. Huylmans, A. Königer, J. Parsch, (2017).
date_created: 2021-08-10T08:12:52Z
date_published: 2017-02-14T00:00:00Z
date_updated: 2023-09-22T09:41:20Z
day: '14'
department:
- _id: BeVi
doi: 10.5061/dryad.02f6r
main_file_link:
- open_access: '1'
url: https://doi.org/10.5061/dryad.02f6r
month: '02'
oa: 1
oa_version: Published Version
publisher: Dryad
related_material:
record:
- id: '1019'
relation: used_in_publication
status: public
status: public
title: 'Data from: X-linkage is not a general inhibitor of tissue-specific gene expression
in Drosophila melanogaster'
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2017'
...
---
_id: '988'
abstract:
- lang: eng
text: The current-phase relation (CPR) of a Josephson junction (JJ) determines how
the supercurrent evolves with the superconducting phase difference across the
junction. Knowledge of the CPR is essential in order to understand the response
of a JJ to various external parameters. Despite the rising interest in ultraclean
encapsulated graphene JJs, the CPR of such junctions remains unknown. Here, we
use a fully gate-tunable graphene superconducting quantum intereference device
(SQUID) to determine the CPR of ballistic graphene JJs. Each of the two JJs in
the SQUID is made with graphene encapsulated in hexagonal boron nitride. By independently
controlling the critical current of the JJs, we can operate the SQUID either in
a symmetric or asymmetric configuration. The highly asymmetric SQUID allows us
to phase-bias one of the JJs and thereby directly obtain its CPR. The CPR is found
to be skewed, deviating significantly from a sinusoidal form. The skewness can
be tuned with the gate voltage and oscillates in antiphase with Fabry-Pérot resistance
oscillations of the ballistic graphene cavity. We compare our experiments with
tight-binding calculations that include realistic graphene-superconductor interfaces
and find a good qualitative agreement.
article_processing_charge: No
author:
- first_name: Gaurav
full_name: Nanda, Gaurav
last_name: Nanda
- first_name: Juan L
full_name: Aguilera Servin, Juan L
id: 2A67C376-F248-11E8-B48F-1D18A9856A87
last_name: Aguilera Servin
orcid: 0000-0002-2862-8372
- first_name: Péter
full_name: Rakyta, Péter
last_name: Rakyta
- first_name: Andor
full_name: Kormányos, Andor
last_name: Kormányos
- first_name: Reinhold
full_name: Kleiner, Reinhold
last_name: Kleiner
- first_name: Dieter
full_name: Koelle, Dieter
last_name: Koelle
- first_name: Kazuo
full_name: Watanabe, Kazuo
last_name: Watanabe
- first_name: Takashi
full_name: Taniguchi, Takashi
last_name: Taniguchi
- first_name: Lieven
full_name: Vandersypen, Lieven
last_name: Vandersypen
- first_name: Srijit
full_name: Goswami, Srijit
last_name: Goswami
citation:
ama: Nanda G, Aguilera Servin JL, Rakyta P, et al. Current-phase relation of ballistic
graphene Josephson junctions. Nano Letters. 2017;17(6):3396-3401. doi:10.1021/acs.nanolett.7b00097
apa: Nanda, G., Aguilera Servin, J. L., Rakyta, P., Kormányos, A., Kleiner, R.,
Koelle, D., … Goswami, S. (2017). Current-phase relation of ballistic graphene
Josephson junctions. Nano Letters. American Chemical Society. https://doi.org/10.1021/acs.nanolett.7b00097
chicago: Nanda, Gaurav, Juan L Aguilera Servin, Péter Rakyta, Andor Kormányos, Reinhold
Kleiner, Dieter Koelle, Kazuo Watanabe, Takashi Taniguchi, Lieven Vandersypen,
and Srijit Goswami. “Current-Phase Relation of Ballistic Graphene Josephson Junctions.”
Nano Letters. American Chemical Society, 2017. https://doi.org/10.1021/acs.nanolett.7b00097.
ieee: G. Nanda et al., “Current-phase relation of ballistic graphene Josephson
junctions,” Nano Letters, vol. 17, no. 6. American Chemical Society, pp.
3396–3401, 2017.
ista: Nanda G, Aguilera Servin JL, Rakyta P, Kormányos A, Kleiner R, Koelle D, Watanabe
K, Taniguchi T, Vandersypen L, Goswami S. 2017. Current-phase relation of ballistic
graphene Josephson junctions. Nano Letters. 17(6), 3396–3401.
mla: Nanda, Gaurav, et al. “Current-Phase Relation of Ballistic Graphene Josephson
Junctions.” Nano Letters, vol. 17, no. 6, American Chemical Society, 2017,
pp. 3396–401, doi:10.1021/acs.nanolett.7b00097.
short: G. Nanda, J.L. Aguilera Servin, P. Rakyta, A. Kormányos, R. Kleiner, D. Koelle,
K. Watanabe, T. Taniguchi, L. Vandersypen, S. Goswami, Nano Letters 17 (2017)
3396–3401.
date_created: 2018-12-11T11:49:33Z
date_published: 2017-05-05T00:00:00Z
date_updated: 2023-09-22T09:56:21Z
day: '05'
ddc:
- '621'
department:
- _id: NanoFab
doi: 10.1021/acs.nanolett.7b00097
external_id:
isi:
- '000403631600011'
file:
- access_level: open_access
checksum: 22021daa90cf13b01becd776838acb7b
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:13:50Z
date_updated: 2020-07-14T12:48:18Z
file_id: '5037'
file_name: IST-2017-826-v1+1_2017_Aguilera-Servin_Current.pdf
file_size: 508638
relation: main_file
file_date_updated: 2020-07-14T12:48:18Z
has_accepted_license: '1'
intvolume: ' 17'
isi: 1
issue: '6'
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
month: '05'
oa: 1
oa_version: Published Version
page: 3396 - 3401
publication: Nano Letters
publication_identifier:
issn:
- '15306984'
publication_status: published
publisher: American Chemical Society
publist_id: '6412'
pubrep_id: '826'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Current-phase relation of ballistic graphene Josephson junctions
tmp:
image: /images/cc_by_nc_nd.png
legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
(CC BY-NC-ND 4.0)
short: CC BY-NC-ND (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 17
year: '2017'
...
---
_id: '990'
abstract:
- lang: eng
text: Assortative mating is an important driver of speciation in populations with
gene flow and is predicted to evolve under certain conditions in few-locus models.
However, the evolution of assortment is less understood for mating based on quantitative
traits, which are often characterized by high genetic variability and extensive
linkage disequilibrium between trait loci. We explore this scenario for a two-deme
model with migration, by considering a single polygenic trait subject to divergent
viability selection across demes, as well as assortative mating and sexual selection
within demes, and investigate how trait divergence is shaped by various evolutionary
forces. Our analysis reveals the existence of sharp thresholds of assortment strength,
at which divergence increases dramatically. We also study the evolution of assortment
via invasion of modifiers of mate discrimination and show that the ES assortment
strength has an intermediate value under a range of migration-selection parameters,
even in diverged populations, due to subtle effects which depend sensitively on
the extent of phenotypic variation within these populations. The evolutionary
dynamics of the polygenic trait is studied using the hypergeometric and infinitesimal
models. We further investigate the sensitivity of our results to the assumptions
of the hypergeometric model, using individual-based simulations.
article_processing_charge: No
author:
- first_name: Himani
full_name: Sachdeva, Himani
id: 42377A0A-F248-11E8-B48F-1D18A9856A87
last_name: Sachdeva
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: Sachdeva H, Barton NH. Divergence and evolution of assortative mating in a
polygenic trait model of speciation with gene flow. Evolution; International
Journal of Organic Evolution. 2017;71(6):1478-1493. doi:10.1111/evo.13252
apa: Sachdeva, H., & Barton, N. H. (2017). Divergence and evolution of assortative
mating in a polygenic trait model of speciation with gene flow. Evolution;
International Journal of Organic Evolution. Wiley-Blackwell. https://doi.org/10.1111/evo.13252
chicago: Sachdeva, Himani, and Nicholas H Barton. “Divergence and Evolution of Assortative
Mating in a Polygenic Trait Model of Speciation with Gene Flow.” Evolution;
International Journal of Organic Evolution. Wiley-Blackwell, 2017. https://doi.org/10.1111/evo.13252.
ieee: H. Sachdeva and N. H. Barton, “Divergence and evolution of assortative mating
in a polygenic trait model of speciation with gene flow,” Evolution; International
Journal of Organic Evolution, vol. 71, no. 6. Wiley-Blackwell, pp. 1478–1493,
2017.
ista: Sachdeva H, Barton NH. 2017. Divergence and evolution of assortative mating
in a polygenic trait model of speciation with gene flow. Evolution; International
Journal of Organic Evolution. 71(6), 1478–1493.
mla: Sachdeva, Himani, and Nicholas H. Barton. “Divergence and Evolution of Assortative
Mating in a Polygenic Trait Model of Speciation with Gene Flow.” Evolution;
International Journal of Organic Evolution, vol. 71, no. 6, Wiley-Blackwell,
2017, pp. 1478–93, doi:10.1111/evo.13252.
short: H. Sachdeva, N.H. Barton, Evolution; International Journal of Organic Evolution
71 (2017) 1478–1493.
date_created: 2018-12-11T11:49:34Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2025-05-28T11:42:51Z
day: '01'
ddc:
- '576'
department:
- _id: NiBa
doi: 10.1111/evo.13252
ec_funded: 1
external_id:
isi:
- '000403014800005'
pmid:
- '28419447'
file:
- access_level: open_access
checksum: 6d4c38cb1347fd43620d1736c6df5c79
content_type: application/pdf
creator: dernst
date_created: 2019-04-17T07:37:04Z
date_updated: 2020-07-14T12:48:18Z
file_id: '6329'
file_name: 2017_Evolution_Sachdeva_supplement.pdf
file_size: 625260
relation: main_file
- access_level: open_access
checksum: f1d90dd8831b44baf49b4dd176f263af
content_type: application/pdf
creator: dernst
date_created: 2019-04-17T07:37:04Z
date_updated: 2020-07-14T12:48:18Z
file_id: '6330'
file_name: 2017_Evolution_Sachdeva_article.pdf
file_size: 520110
relation: main_file
file_date_updated: 2020-07-14T12:48:18Z
has_accepted_license: '1'
intvolume: ' 71'
isi: 1
issue: '6'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: '1478 - 1493 '
pmid: 1
project:
- _id: 25681D80-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '291734'
name: International IST Postdoc Fellowship Programme
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Evolution; International Journal of Organic Evolution
publication_identifier:
issn:
- '00143820'
publication_status: published
publisher: Wiley-Blackwell
publist_id: '6409'
pubrep_id: '977'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Divergence and evolution of assortative mating in a polygenic trait model of
speciation with gene flow
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 71
year: '2017'
...