---
_id: '505'
abstract:
- lang: eng
text: Alkyd resins are polyesters containing unsaturated fatty acids that are used
as binding agents in paints and coatings. Chemical drying of these polyesters
is based on heavy metal catalyzed cross-linking of the unsaturated fatty acid
moieties. Among the heavy-metal catalysts, cobalt complexes are the most effective,
yet they have been proven to be carcinogenic. Therefore, strategies to replace
the cobalt-based catalyst by environmentally friendlier and less toxic alternatives
are under development. Here, we demonstrate for the first time that a laccase-mediator
system can effectively replace the heavy-metal catalyst and cross-link alkyd resins.
Interestingly, the biocatalytic reaction does not only work in aqueous media,
but also in a solid film, where enzyme diffusion is limited. Within the catalytic
cycle, the mediator oxidizes the alkyd resin and is regenerated by the laccase,
which is uniformly distributed within the drying film as evidenced by confocal
laser scanning microscopy. During gradual build-up of molecular weight, there
is a concomitant decrease of the oxygen content in the film. A new optical sensor
to follow oxygen consumption during the cross-linking reaction was developed and
validated with state of the art techniques. A remarkable feature is the low sample
amount required, which allows faster screening of new catalysts.
acknowledgement: "This study was performed within the Austrian Centre of Indus-\r\ntrial
Biotechnology ACIB and the COST Action 868. This work\r\nhas been supported by the
Federal Ministry of Economy,\r\nFamily and Youth (BMWFJ), the Federal Ministry of
Tra\r\nffi\r\nc,\r\nInnovation and Technology (bmvit), the Styrian Business\r\nPromotion
Agency SFG, the Standortagentur Tirol and ZIT\r\n–\r\nTechnology Agency of the
\ City of Vienna through the\r\nCOMET-Funding Program managed by the Austrian
Research\r\nPromotion Agency FFG. Dr Massimiliano Cardinale (Institute of\r\nEnvironmental
Biotechnology, TU Graz) is gratefully acknowl-\r\nedged for technical support with
the CLSM measurements."
author:
- first_name: Katrin
full_name: Greimel, Katrin
last_name: Greimel
- first_name: Veronika
full_name: Perz, Veronika
last_name: Perz
- first_name: Klaus
full_name: Koren, Klaus
id: 382FBD6A-F248-11E8-B48F-1D18A9856A87
last_name: Koren
- first_name: Roland
full_name: Feola, Roland
last_name: Feola
- first_name: Armin
full_name: Temel, Armin
last_name: Temel
- first_name: Christian
full_name: Sohar, Christian
last_name: Sohar
- first_name: Enrique
full_name: Herrero Acero, Enrique
last_name: Herrero Acero
- first_name: Ingo
full_name: Klimant, Ingo
last_name: Klimant
- first_name: Georg
full_name: Guebitz, Georg
last_name: Guebitz
citation:
ama: 'Greimel K, Perz V, Koren K, et al. Banning toxic heavy-metal catalysts from
paints: Enzymatic cross-linking of alkyd resins. Green Chemistry. 2013;15(2):381-388.
doi:10.1039/c2gc36666e'
apa: 'Greimel, K., Perz, V., Koren, K., Feola, R., Temel, A., Sohar, C., … Guebitz,
G. (2013). Banning toxic heavy-metal catalysts from paints: Enzymatic cross-linking
of alkyd resins. Green Chemistry. Royal Society of Chemistry. https://doi.org/10.1039/c2gc36666e'
chicago: 'Greimel, Katrin, Veronika Perz, Klaus Koren, Roland Feola, Armin Temel,
Christian Sohar, Enrique Herrero Acero, Ingo Klimant, and Georg Guebitz. “Banning
Toxic Heavy-Metal Catalysts from Paints: Enzymatic Cross-Linking of Alkyd Resins.”
Green Chemistry. Royal Society of Chemistry, 2013. https://doi.org/10.1039/c2gc36666e.'
ieee: 'K. Greimel et al., “Banning toxic heavy-metal catalysts from paints:
Enzymatic cross-linking of alkyd resins,” Green Chemistry, vol. 15, no.
2. Royal Society of Chemistry, pp. 381–388, 2013.'
ista: 'Greimel K, Perz V, Koren K, Feola R, Temel A, Sohar C, Herrero Acero E, Klimant
I, Guebitz G. 2013. Banning toxic heavy-metal catalysts from paints: Enzymatic
cross-linking of alkyd resins. Green Chemistry. 15(2), 381–388.'
mla: 'Greimel, Katrin, et al. “Banning Toxic Heavy-Metal Catalysts from Paints:
Enzymatic Cross-Linking of Alkyd Resins.” Green Chemistry, vol. 15, no.
2, Royal Society of Chemistry, 2013, pp. 381–88, doi:10.1039/c2gc36666e.'
short: K. Greimel, V. Perz, K. Koren, R. Feola, A. Temel, C. Sohar, E. Herrero Acero,
I. Klimant, G. Guebitz, Green Chemistry 15 (2013) 381–388.
date_created: 2018-12-11T11:46:51Z
date_published: 2013-02-01T00:00:00Z
date_updated: 2021-01-12T08:01:11Z
day: '01'
department:
- _id: HaJa
doi: 10.1039/c2gc36666e
intvolume: ' 15'
issue: '2'
language:
- iso: eng
month: '02'
oa_version: None
page: 381 - 388
publication: Green Chemistry
publication_status: published
publisher: Royal Society of Chemistry
publist_id: '7313'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Banning toxic heavy-metal catalysts from paints: Enzymatic cross-linking of
alkyd resins'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2013'
...
---
_id: '507'
abstract:
- lang: eng
text: Fertilization in flowering plants requires the temporal and spatial coordination
of many developmental processes, including pollen production, anther dehiscence,
ovule production, and pollen tube elongation. However, it remains elusive as to
how this coordination occurs during reproduction. Here, we present evidence that
endocytosis, involving heterotetrameric adaptor protein complex 2 (AP-2), plays
a crucial role in fertilization. An Arabidopsis thaliana mutant ap2m displays
multiple defects in pollen production and viability, as well as elongation of
staminal filaments and pollen tubes, all of which are pivotal processes needed
for fertilization. Of these abnormalities, the defects in elongation of staminal
filaments and pollen tubes were partially rescued by exogenous auxin. Moreover,
DR5rev:GFP (for green fluorescent protein) expression was greatly reduced in filaments
and anthers in ap2m mutant plants. At the cellular level, ap2m mutants displayed
defects in both endocytosis of N-(3-triethylammonium-propyl)-4- (4-diethylaminophenylhexatrienyl)
pyridinium dibromide, a lypophilic dye used as an endocytosis marker, and polar
localization of auxin-efflux carrier PIN FORMED2 (PIN2) in the stamen filaments.
Moreover, these defects were phenocopied by treatment with Tyrphostin A23, an
inhibitor of endocytosis. Based on these results, we propose that AP-2-dependent
endocytosis plays a crucial role in coordinating the multiple developmental aspects
of male reproductive organs by modulating cellular auxin level through the regulation
of the amount and polarity of PINs.
author:
- first_name: Soo
full_name: Kim, Soo
last_name: Kim
- first_name: Zheng
full_name: Xu, Zheng
last_name: Xu
- first_name: Kyungyoung
full_name: Song, Kyungyoung
last_name: Song
- first_name: Dae
full_name: Kim, Dae
last_name: Kim
- first_name: Hyangju
full_name: Kang, Hyangju
last_name: Kang
- first_name: Ilka
full_name: Reichardt, Ilka
last_name: Reichardt
- first_name: Eun
full_name: Sohn, Eun
last_name: Sohn
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Gerd
full_name: Juergens, Gerd
last_name: Juergens
- first_name: Inhwan
full_name: Hwang, Inhwan
last_name: Hwang
citation:
ama: Kim S, Xu Z, Song K, et al. Adaptor protein complex 2-mediated endocytosis
is crucial for male reproductive organ development in arabidopsis. Plant Cell.
2013;25(8):2970-2985. doi:10.1105/tpc.113.114264
apa: Kim, S., Xu, Z., Song, K., Kim, D., Kang, H., Reichardt, I., … Hwang, I. (2013).
Adaptor protein complex 2-mediated endocytosis is crucial for male reproductive
organ development in arabidopsis. Plant Cell. American Society of Plant
Biologists. https://doi.org/10.1105/tpc.113.114264
chicago: Kim, Soo, Zheng Xu, Kyungyoung Song, Dae Kim, Hyangju Kang, Ilka Reichardt,
Eun Sohn, Jiří Friml, Gerd Juergens, and Inhwan Hwang. “Adaptor Protein Complex
2-Mediated Endocytosis Is Crucial for Male Reproductive Organ Development in Arabidopsis.”
Plant Cell. American Society of Plant Biologists, 2013. https://doi.org/10.1105/tpc.113.114264.
ieee: S. Kim et al., “Adaptor protein complex 2-mediated endocytosis is crucial
for male reproductive organ development in arabidopsis,” Plant Cell, vol.
25, no. 8. American Society of Plant Biologists, pp. 2970–2985, 2013.
ista: Kim S, Xu Z, Song K, Kim D, Kang H, Reichardt I, Sohn E, Friml J, Juergens
G, Hwang I. 2013. Adaptor protein complex 2-mediated endocytosis is crucial for
male reproductive organ development in arabidopsis. Plant Cell. 25(8), 2970–2985.
mla: Kim, Soo, et al. “Adaptor Protein Complex 2-Mediated Endocytosis Is Crucial
for Male Reproductive Organ Development in Arabidopsis.” Plant Cell, vol.
25, no. 8, American Society of Plant Biologists, 2013, pp. 2970–85, doi:10.1105/tpc.113.114264.
short: S. Kim, Z. Xu, K. Song, D. Kim, H. Kang, I. Reichardt, E. Sohn, J. Friml,
G. Juergens, I. Hwang, Plant Cell 25 (2013) 2970–2985.
date_created: 2018-12-11T11:46:52Z
date_published: 2013-08-01T00:00:00Z
date_updated: 2021-01-12T08:01:12Z
day: '01'
department:
- _id: JiFr
doi: 10.1105/tpc.113.114264
external_id:
pmid:
- '23975898'
intvolume: ' 25'
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3784592/
month: '08'
oa: 1
oa_version: Submitted Version
page: 2970 - 2985
pmid: 1
publication: Plant Cell
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '7312'
quality_controlled: '1'
scopus_import: 1
status: public
title: Adaptor protein complex 2-mediated endocytosis is crucial for male reproductive
organ development in arabidopsis
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2013'
...
---
_id: '508'
abstract:
- lang: eng
text: The phagocyte NADPH oxidase catalyzes the reduction of O2 to reactive oxygen
species with microbicidal activity. It is composed of two membrane-spanning subunits,
gp91-phox and p22-phox (encoded by CYBB and CYBA, respectively), and three cytoplasmic
subunits, p40-phox, p47-phox, and p67-phox (encoded by NCF4, NCF1, and NCF2, respectively).
Mutations in any of these genes can result in chronic granulomatous disease, a
primary immunodeficiency characterized by recurrent infections. Using evolutionary
mapping, we determined that episodes of adaptive natural selection have shaped
the extracellular portion of gp91-phox during the evolution of mammals, which
suggests that this region may have a function in host-pathogen interactions. On
the basis of a resequencing analysis of approximately 35 kb of CYBB, CYBA, NCF2,
and NCF4 in 102 ethnically diverse individuals (24 of African ancestry, 31 of
European ancestry, 24 of Asian/Oceanians, and 23 US Hispanics), we show that the
pattern of CYBA diversity is compatible with balancing natural selection, perhaps
mediated by catalase-positive pathogens. NCF2 in Asian populations shows a pattern
of diversity characterized by a differentiated haplotype structure. Our study
provides insight into the role of pathogen-driven natural selection in an innate
immune pathway and sheds light on the role of CYBA in endothelial, nonphagocytic
NADPH oxidases, which are relevant in the pathogenesis of cardiovascular and other
complex diseases.
author:
- first_name: Eduardo
full_name: Tarazona Santos, Eduardo
last_name: Tarazona Santos
- first_name: Moara
full_name: Machado, Moara
last_name: Machado
- first_name: Wagner
full_name: Magalhães, Wagner
last_name: Magalhães
- first_name: Renee
full_name: Chen, Renee
last_name: Chen
- first_name: Fernanda
full_name: Lyon, Fernanda
last_name: Lyon
- first_name: Laurie
full_name: Burdett, Laurie
last_name: Burdett
- first_name: Andrew
full_name: Crenshaw, Andrew
last_name: Crenshaw
- first_name: Cristina
full_name: Fabbri, Cristina
last_name: Fabbri
- first_name: Latife
full_name: Pereira, Latife
last_name: Pereira
- first_name: Laelia
full_name: Pinto, Laelia
last_name: Pinto
- first_name: Rodrigo A
full_name: Fernandes Redondo, Rodrigo A
id: 409D5C96-F248-11E8-B48F-1D18A9856A87
last_name: Fernandes Redondo
orcid: 0000-0002-5837-2793
- first_name: Ben
full_name: Sestanovich, Ben
last_name: Sestanovich
- first_name: Meredith
full_name: Yeager, Meredith
last_name: Yeager
- first_name: Stephen
full_name: Chanock, Stephen
last_name: Chanock
citation:
ama: 'Tarazona Santos E, Machado M, Magalhães W, et al. Evolutionary dynamics of
the human NADPH oxidase genes CYBB, CYBA, NCF2, and NCF4: Functional implications.
Molecular Biology and Evolution. 2013;30(9):2157-2167. doi:10.1093/molbev/mst119'
apa: 'Tarazona Santos, E., Machado, M., Magalhães, W., Chen, R., Lyon, F., Burdett,
L., … Chanock, S. (2013). Evolutionary dynamics of the human NADPH oxidase genes
CYBB, CYBA, NCF2, and NCF4: Functional implications. Molecular Biology and
Evolution. Oxford University Press. https://doi.org/10.1093/molbev/mst119'
chicago: 'Tarazona Santos, Eduardo, Moara Machado, Wagner Magalhães, Renee Chen,
Fernanda Lyon, Laurie Burdett, Andrew Crenshaw, et al. “Evolutionary Dynamics
of the Human NADPH Oxidase Genes CYBB, CYBA, NCF2, and NCF4: Functional Implications.”
Molecular Biology and Evolution. Oxford University Press, 2013. https://doi.org/10.1093/molbev/mst119.'
ieee: 'E. Tarazona Santos et al., “Evolutionary dynamics of the human NADPH
oxidase genes CYBB, CYBA, NCF2, and NCF4: Functional implications,” Molecular
Biology and Evolution, vol. 30, no. 9. Oxford University Press, pp. 2157–2167,
2013.'
ista: 'Tarazona Santos E, Machado M, Magalhães W, Chen R, Lyon F, Burdett L, Crenshaw
A, Fabbri C, Pereira L, Pinto L, Fernandes Redondo RA, Sestanovich B, Yeager M,
Chanock S. 2013. Evolutionary dynamics of the human NADPH oxidase genes CYBB,
CYBA, NCF2, and NCF4: Functional implications. Molecular Biology and Evolution.
30(9), 2157–2167.'
mla: 'Tarazona Santos, Eduardo, et al. “Evolutionary Dynamics of the Human NADPH
Oxidase Genes CYBB, CYBA, NCF2, and NCF4: Functional Implications.” Molecular
Biology and Evolution, vol. 30, no. 9, Oxford University Press, 2013, pp.
2157–67, doi:10.1093/molbev/mst119.'
short: E. Tarazona Santos, M. Machado, W. Magalhães, R. Chen, F. Lyon, L. Burdett,
A. Crenshaw, C. Fabbri, L. Pereira, L. Pinto, R.A. Fernandes Redondo, B. Sestanovich,
M. Yeager, S. Chanock, Molecular Biology and Evolution 30 (2013) 2157–2167.
date_created: 2018-12-11T11:46:52Z
date_published: 2013-09-01T00:00:00Z
date_updated: 2021-01-12T08:01:12Z
day: '01'
department:
- _id: JoBo
doi: 10.1093/molbev/mst119
external_id:
pmid:
- '23821607'
intvolume: ' 30'
issue: '9'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3748357/
month: '09'
oa: 1
oa_version: Submitted Version
page: 2157 - 2167
pmid: 1
publication: Molecular Biology and Evolution
publication_status: published
publisher: Oxford University Press
publist_id: '7310'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Evolutionary dynamics of the human NADPH oxidase genes CYBB, CYBA, NCF2, and
NCF4: Functional implications'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2013'
...
---
_id: '509'
abstract:
- lang: eng
text: 'Clathrin-mediated endocytosis (CME) regulates many aspects of plant development,
including hormone signaling and responses to environmental stresses. Despite the
importance of this process, the machinery that regulates CME in plants is largely
unknown. In mammals, the heterotetrameric ADAPTOR PROTEIN COMPLEX-2 (AP-2) is
required for the formation of clathrin-coated vesicles at the plasma membrane
(PM). Although the existence of AP-2 has been predicted in Arabidopsis thaliana,
the biochemistry and functionality of the complex is still uncharacterized. Here,
we identified all the subunits of the Arabidopsis AP-2 by tandem affinity purification
and found that one of the large AP-2 subunits, AP2A1, localized at the PM and
interacted with clathrin. Furthermore, endocytosis of the leucine-rich repeat
receptor kinase, BRASSINOSTEROID INSENSITIVE1 (BRI1), was shown to depend on AP-2.
Knockdown of the two Arabidopsis AP2A genes or overexpression of a dominant-negative
version of the medium AP-2 subunit, AP2M, impaired BRI1 endocytosis and enhanced
the brassinosteroid signaling. Our data reveal that the CME machinery in Arabidopsis
is evolutionarily conserved and that AP-2 functions in receptormediated endocytosis. '
author:
- first_name: Simone
full_name: Di Rubbo, Simone
last_name: Di Rubbo
- first_name: Niloufer
full_name: Irani, Niloufer
last_name: Irani
- first_name: Soo
full_name: Kim, Soo
last_name: Kim
- first_name: Zheng
full_name: Xu, Zheng
last_name: Xu
- first_name: Astrid
full_name: Gadeyne, Astrid
last_name: Gadeyne
- first_name: Wim
full_name: Dejonghe, Wim
last_name: Dejonghe
- first_name: Isabelle
full_name: Vanhoutte, Isabelle
last_name: Vanhoutte
- first_name: Geert
full_name: Persiau, Geert
last_name: Persiau
- first_name: Dominique
full_name: Eeckhout, Dominique
last_name: Eeckhout
- first_name: Sibu
full_name: Simon, Sibu
id: 4542EF9A-F248-11E8-B48F-1D18A9856A87
last_name: Simon
orcid: 0000-0002-1998-6741
- first_name: Kyungyoung
full_name: Song, Kyungyoung
last_name: Song
- first_name: Jürgen
full_name: Kleine Vehn, Jürgen
last_name: Kleine Vehn
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Geert
full_name: De Jaeger, Geert
last_name: De Jaeger
- first_name: Daniël
full_name: Van Damme, Daniël
last_name: Van Damme
- first_name: Inhwan
full_name: Hwang, Inhwan
last_name: Hwang
- first_name: Eugenia
full_name: Russinova, Eugenia
last_name: Russinova
citation:
ama: Di Rubbo S, Irani N, Kim S, et al. The clathrin adaptor complex AP-2 mediates
endocytosis of brassinosteroid INSENSITIVE1 in arabidopsis. Plant Cell.
2013;25(8):2986-2997. doi:10.1105/tpc.113.114058
apa: Di Rubbo, S., Irani, N., Kim, S., Xu, Z., Gadeyne, A., Dejonghe, W., … Russinova,
E. (2013). The clathrin adaptor complex AP-2 mediates endocytosis of brassinosteroid
INSENSITIVE1 in arabidopsis. Plant Cell. American Society of Plant Biologists.
https://doi.org/10.1105/tpc.113.114058
chicago: Di Rubbo, Simone, Niloufer Irani, Soo Kim, Zheng Xu, Astrid Gadeyne, Wim
Dejonghe, Isabelle Vanhoutte, et al. “The Clathrin Adaptor Complex AP-2 Mediates
Endocytosis of Brassinosteroid INSENSITIVE1 in Arabidopsis.” Plant Cell.
American Society of Plant Biologists, 2013. https://doi.org/10.1105/tpc.113.114058.
ieee: S. Di Rubbo et al., “The clathrin adaptor complex AP-2 mediates endocytosis
of brassinosteroid INSENSITIVE1 in arabidopsis,” Plant Cell, vol. 25, no.
8. American Society of Plant Biologists, pp. 2986–2997, 2013.
ista: Di Rubbo S, Irani N, Kim S, Xu Z, Gadeyne A, Dejonghe W, Vanhoutte I, Persiau
G, Eeckhout D, Simon S, Song K, Kleine Vehn J, Friml J, De Jaeger G, Van Damme
D, Hwang I, Russinova E. 2013. The clathrin adaptor complex AP-2 mediates endocytosis
of brassinosteroid INSENSITIVE1 in arabidopsis. Plant Cell. 25(8), 2986–2997.
mla: Di Rubbo, Simone, et al. “The Clathrin Adaptor Complex AP-2 Mediates Endocytosis
of Brassinosteroid INSENSITIVE1 in Arabidopsis.” Plant Cell, vol. 25, no.
8, American Society of Plant Biologists, 2013, pp. 2986–97, doi:10.1105/tpc.113.114058.
short: S. Di Rubbo, N. Irani, S. Kim, Z. Xu, A. Gadeyne, W. Dejonghe, I. Vanhoutte,
G. Persiau, D. Eeckhout, S. Simon, K. Song, J. Kleine Vehn, J. Friml, G. De Jaeger,
D. Van Damme, I. Hwang, E. Russinova, Plant Cell 25 (2013) 2986–2997.
date_created: 2018-12-11T11:46:52Z
date_published: 2013-08-01T00:00:00Z
date_updated: 2021-01-12T08:01:13Z
day: '01'
department:
- _id: JiFr
doi: 10.1105/tpc.113.114058
external_id:
pmid:
- '23975899'
intvolume: ' 25'
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3784593/
month: '08'
oa: 1
oa_version: Submitted Version
page: 2986 - 2997
pmid: 1
publication: Plant Cell
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '7311'
quality_controlled: '1'
scopus_import: 1
status: public
title: The clathrin adaptor complex AP-2 mediates endocytosis of brassinosteroid INSENSITIVE1
in arabidopsis
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2013'
...
---
_id: '511'
abstract:
- lang: eng
text: The native auxin, indole-3-acetic acid (IAA), is a major regulator of plant
growth and development. Its nonuniform distribution between cells and tissues
underlies the spatiotemporal coordination of many developmental events and responses
to environmental stimuli. The regulation of auxin gradients and the formation
of auxin maxima/minima most likely involve the regulation of both metabolic and
transport processes. In this article, we have demonstrated that 2-oxindole-3-acetic
acid (oxIAA) is a major primary IAA catabolite formed in Arabidopsis thaliana
root tissues. OxIAA had little biological activity and was formed rapidly and
irreversibly in response to increases in auxin levels. We further showed that
there is cell type-specific regulation of oxIAA levels in the Arabidopsis root
apex. We propose that oxIAA is an important element in the regulation of output
from auxin gradients and, therefore, in the regulation of auxin homeostasis and
response mechanisms.
author:
- first_name: Aleš
full_name: Pěnčík, Aleš
last_name: Pěnčík
- first_name: Biljana
full_name: Simonovik, Biljana
last_name: Simonovik
- first_name: Sara
full_name: Petersson, Sara
last_name: Petersson
- first_name: Eva
full_name: Henyková, Eva
last_name: Henyková
- first_name: Sibu
full_name: Simon, Sibu
id: 4542EF9A-F248-11E8-B48F-1D18A9856A87
last_name: Simon
orcid: 0000-0002-1998-6741
- first_name: Kathleen
full_name: Greenham, Kathleen
last_name: Greenham
- first_name: Yi
full_name: Zhang, Yi
last_name: Zhang
- first_name: Mariusz
full_name: Kowalczyk, Mariusz
last_name: Kowalczyk
- first_name: Mark
full_name: Estelle, Mark
last_name: Estelle
- first_name: Eva
full_name: Zažímalová, Eva
last_name: Zažímalová
- first_name: Ondřej
full_name: Novák, Ondřej
last_name: Novák
- first_name: Göran
full_name: Sandberg, Göran
last_name: Sandberg
- first_name: Karin
full_name: Ljung, Karin
last_name: Ljung
citation:
ama: Pěnčík A, Simonovik B, Petersson S, et al. Regulation of auxin homeostasis
and gradients in Arabidopsis roots through the formation of the indole-3-acetic
acid catabolite 2-oxindole-3-acetic acid. Plant Cell. 2013;25(10):3858-3870.
doi:10.1105/tpc.113.114421
apa: Pěnčík, A., Simonovik, B., Petersson, S., Henyková, E., Simon, S., Greenham,
K., … Ljung, K. (2013). Regulation of auxin homeostasis and gradients in Arabidopsis
roots through the formation of the indole-3-acetic acid catabolite 2-oxindole-3-acetic
acid. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.113.114421
chicago: Pěnčík, Aleš, Biljana Simonovik, Sara Petersson, Eva Henyková, Sibu Simon,
Kathleen Greenham, Yi Zhang, et al. “Regulation of Auxin Homeostasis and Gradients
in Arabidopsis Roots through the Formation of the Indole-3-Acetic Acid Catabolite
2-Oxindole-3-Acetic Acid.” Plant Cell. American Society of Plant Biologists,
2013. https://doi.org/10.1105/tpc.113.114421.
ieee: A. Pěnčík et al., “Regulation of auxin homeostasis and gradients in
Arabidopsis roots through the formation of the indole-3-acetic acid catabolite
2-oxindole-3-acetic acid,” Plant Cell, vol. 25, no. 10. American Society
of Plant Biologists, pp. 3858–3870, 2013.
ista: Pěnčík A, Simonovik B, Petersson S, Henyková E, Simon S, Greenham K, Zhang
Y, Kowalczyk M, Estelle M, Zažímalová E, Novák O, Sandberg G, Ljung K. 2013. Regulation
of auxin homeostasis and gradients in Arabidopsis roots through the formation
of the indole-3-acetic acid catabolite 2-oxindole-3-acetic acid. Plant Cell. 25(10),
3858–3870.
mla: Pěnčík, Aleš, et al. “Regulation of Auxin Homeostasis and Gradients in Arabidopsis
Roots through the Formation of the Indole-3-Acetic Acid Catabolite 2-Oxindole-3-Acetic
Acid.” Plant Cell, vol. 25, no. 10, American Society of Plant Biologists,
2013, pp. 3858–70, doi:10.1105/tpc.113.114421.
short: A. Pěnčík, B. Simonovik, S. Petersson, E. Henyková, S. Simon, K. Greenham,
Y. Zhang, M. Kowalczyk, M. Estelle, E. Zažímalová, O. Novák, G. Sandberg, K. Ljung,
Plant Cell 25 (2013) 3858–3870.
date_created: 2018-12-11T11:46:53Z
date_published: 2013-10-01T00:00:00Z
date_updated: 2021-01-12T08:01:15Z
day: '01'
department:
- _id: JiFr
doi: 10.1105/tpc.113.114421
external_id:
pmid:
- '24163311'
intvolume: ' 25'
issue: '10'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: www.doi.org/10.1105/tpc.113.114421
month: '10'
oa: 1
oa_version: Published Version
page: 3858 - 3870
pmid: 1
publication: Plant Cell
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '7309'
quality_controlled: '1'
scopus_import: 1
status: public
title: Regulation of auxin homeostasis and gradients in Arabidopsis roots through
the formation of the indole-3-acetic acid catabolite 2-oxindole-3-acetic acid
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 25
year: '2013'
...
---
_id: '516'
abstract:
- lang: eng
text: In plants, changes in local auxin concentrations can trigger a range of developmental
processes as distinct tissues respond differently to the same auxin stimulus.
However, little is known about how auxin is interpreted by individual cell types.
We performed a transcriptomic analysis of responses to auxin within four distinct
tissues of the Arabidopsis thaliana root and demonstrate that different cell types
show competence for discrete responses. The majority of auxin‐responsive genes
displayed a spatial bias in their induction or repression. The novel data set
was used to examine how auxin influences tissue‐specific transcriptional regulation
of cell‐identity markers. Additionally, the data were used in combination with
spatial expression maps of the root to plot a transcriptomic auxin‐response gradient
across the apical and basal meristem. The readout revealed a strong correlation
for thousands of genes between the relative response to auxin and expression along
the longitudinal axis of the root. This data set and comparative analysis provide
a transcriptome‐level spatial breakdown of the response to auxin within an organ
where this hormone mediates many aspects of development.
article_number: '688'
article_processing_charge: No
author:
- first_name: Bastiaan
full_name: Bargmann, Bastiaan
last_name: Bargmann
- first_name: Steffen
full_name: Vanneste, Steffen
last_name: Vanneste
- first_name: Gabriel
full_name: Krouk, Gabriel
last_name: Krouk
- first_name: Tal
full_name: Nawy, Tal
last_name: Nawy
- first_name: Idan
full_name: Efroni, Idan
last_name: Efroni
- first_name: Eilon
full_name: Shani, Eilon
last_name: Shani
- first_name: Goh
full_name: Choe, Goh
last_name: Choe
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Dominique
full_name: Bergmann, Dominique
last_name: Bergmann
- first_name: Mark
full_name: Estelle, Mark
last_name: Estelle
- first_name: Kenneth
full_name: Birnbaum, Kenneth
last_name: Birnbaum
citation:
ama: Bargmann B, Vanneste S, Krouk G, et al. A map of cell type‐specific auxin responses.
Molecular Systems Biology. 2013;9(1). doi:10.1038/msb.2013.40
apa: Bargmann, B., Vanneste, S., Krouk, G., Nawy, T., Efroni, I., Shani, E., … Birnbaum,
K. (2013). A map of cell type‐specific auxin responses. Molecular Systems Biology.
Nature Publishing Group. https://doi.org/10.1038/msb.2013.40
chicago: Bargmann, Bastiaan, Steffen Vanneste, Gabriel Krouk, Tal Nawy, Idan Efroni,
Eilon Shani, Goh Choe, et al. “A Map of Cell Type‐specific Auxin Responses.” Molecular
Systems Biology. Nature Publishing Group, 2013. https://doi.org/10.1038/msb.2013.40.
ieee: B. Bargmann et al., “A map of cell type‐specific auxin responses,”
Molecular Systems Biology, vol. 9, no. 1. Nature Publishing Group, 2013.
ista: Bargmann B, Vanneste S, Krouk G, Nawy T, Efroni I, Shani E, Choe G, Friml
J, Bergmann D, Estelle M, Birnbaum K. 2013. A map of cell type‐specific auxin
responses. Molecular Systems Biology. 9(1), 688.
mla: Bargmann, Bastiaan, et al. “A Map of Cell Type‐specific Auxin Responses.” Molecular
Systems Biology, vol. 9, no. 1, 688, Nature Publishing Group, 2013, doi:10.1038/msb.2013.40.
short: B. Bargmann, S. Vanneste, G. Krouk, T. Nawy, I. Efroni, E. Shani, G. Choe,
J. Friml, D. Bergmann, M. Estelle, K. Birnbaum, Molecular Systems Biology 9 (2013).
date_created: 2018-12-11T11:46:55Z
date_published: 2013-09-10T00:00:00Z
date_updated: 2021-01-12T08:01:17Z
day: '10'
ddc:
- '581'
department:
- _id: JiFr
doi: 10.1038/msb.2013.40
file:
- access_level: open_access
checksum: 9c4fbe793af4bb22b3fe50cc677a39bf
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:07:46Z
date_updated: 2020-07-14T12:46:36Z
file_id: '4644'
file_name: IST-2018-936-v1+1_2008_Barton_A_map.pdf
file_size: 3257692
relation: main_file
file_date_updated: 2020-07-14T12:46:36Z
has_accepted_license: '1'
intvolume: ' 9'
issue: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Published Version
publication: Molecular Systems Biology
publication_status: published
publisher: Nature Publishing Group
publist_id: '7303'
pubrep_id: '936'
quality_controlled: '1'
scopus_import: 1
status: public
title: A map of cell type‐specific auxin responses
tmp:
image: /images/cc_by_nc_sa.png
legal_code_url: https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode
name: Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC
BY-NC-SA 4.0)
short: CC BY-NC-SA (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 9
year: '2013'
...
---
_id: '522'
abstract:
- lang: eng
text: Podoplanin, a mucin-like plasma membrane protein, is expressed by lymphatic
endothelial cells and responsible for separation of blood and lymphatic circulation
through activation of platelets. Here we show that podoplanin is also expressed
by thymic fibroblastic reticular cells (tFRC), a novel thymic medulla stroma cell
type associated with thymic conduits, and involved in development of natural regulatory
T cells (nTreg). Young mice deficient in podoplanin lack nTreg owing to retardation
of CD4+CD25+ thymocytes in the cortex and missing differentiation of Foxp3+ thymocytes
in the medulla. This might be due to CCL21 that delocalizes upon deletion of the
CCL21-binding podoplanin from medullar tFRC to cortex areas. The animals do not
remain devoid of nTreg but generate them delayed within the first month resulting
in Th2-biased hypergammaglobulinemia but not in the death-causing autoimmune phenotype
of Foxp3-deficient Scurfy mice.
author:
- first_name: Elke
full_name: Fuertbauer, Elke
last_name: Fuertbauer
- first_name: Jan
full_name: Zaujec, Jan
last_name: Zaujec
- first_name: Pavel
full_name: Uhrin, Pavel
last_name: Uhrin
- first_name: Ingrid
full_name: Raab, Ingrid
last_name: Raab
- first_name: Michele
full_name: Weber, Michele
id: 3A3FC708-F248-11E8-B48F-1D18A9856A87
last_name: Weber
- first_name: Helga
full_name: Schachner, Helga
last_name: Schachner
- first_name: Miroslav
full_name: Bauer, Miroslav
last_name: Bauer
- first_name: Gerhard
full_name: Schütz, Gerhard
last_name: Schütz
- first_name: Bernd
full_name: Binder, Bernd
last_name: Binder
- first_name: Michael K
full_name: Sixt, Michael K
id: 41E9FBEA-F248-11E8-B48F-1D18A9856A87
last_name: Sixt
orcid: 0000-0002-6620-9179
- first_name: Dontscho
full_name: Kerjaschki, Dontscho
last_name: Kerjaschki
- first_name: Hannes
full_name: Stockinger, Hannes
last_name: Stockinger
citation:
ama: Fuertbauer E, Zaujec J, Uhrin P, et al. Thymic medullar conduits-associated
podoplanin promotes natural regulatory T cells. Immunology Letters. 2013;154(1-2):31-41.
doi:10.1016/j.imlet.2013.07.007
apa: Fuertbauer, E., Zaujec, J., Uhrin, P., Raab, I., Weber, M., Schachner, H.,
… Stockinger, H. (2013). Thymic medullar conduits-associated podoplanin promotes
natural regulatory T cells. Immunology Letters. Elsevier. https://doi.org/10.1016/j.imlet.2013.07.007
chicago: Fuertbauer, Elke, Jan Zaujec, Pavel Uhrin, Ingrid Raab, Michele Weber,
Helga Schachner, Miroslav Bauer, et al. “Thymic Medullar Conduits-Associated Podoplanin
Promotes Natural Regulatory T Cells.” Immunology Letters. Elsevier, 2013.
https://doi.org/10.1016/j.imlet.2013.07.007.
ieee: E. Fuertbauer et al., “Thymic medullar conduits-associated podoplanin
promotes natural regulatory T cells,” Immunology Letters, vol. 154, no.
1–2. Elsevier, pp. 31–41, 2013.
ista: Fuertbauer E, Zaujec J, Uhrin P, Raab I, Weber M, Schachner H, Bauer M, Schütz
G, Binder B, Sixt MK, Kerjaschki D, Stockinger H. 2013. Thymic medullar conduits-associated
podoplanin promotes natural regulatory T cells. Immunology Letters. 154(1–2),
31–41.
mla: Fuertbauer, Elke, et al. “Thymic Medullar Conduits-Associated Podoplanin Promotes
Natural Regulatory T Cells.” Immunology Letters, vol. 154, no. 1–2, Elsevier,
2013, pp. 31–41, doi:10.1016/j.imlet.2013.07.007.
short: E. Fuertbauer, J. Zaujec, P. Uhrin, I. Raab, M. Weber, H. Schachner, M. Bauer,
G. Schütz, B. Binder, M.K. Sixt, D. Kerjaschki, H. Stockinger, Immunology Letters
154 (2013) 31–41.
date_created: 2018-12-11T11:46:57Z
date_published: 2013-07-01T00:00:00Z
date_updated: 2021-01-12T08:01:22Z
day: '01'
department:
- _id: MiSi
doi: 10.1016/j.imlet.2013.07.007
intvolume: ' 154'
issue: 1-2
language:
- iso: eng
month: '07'
oa_version: None
page: 31 - 41
publication: Immunology Letters
publication_status: published
publisher: Elsevier
publist_id: '7300'
quality_controlled: '1'
scopus_import: 1
status: public
title: Thymic medullar conduits-associated podoplanin promotes natural regulatory
T cells
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 154
year: '2013'
...
---
_id: '527'
abstract:
- lang: eng
text: The apical-basal axis of the early plant embryo determines the body plan of
the adult organism. To establish a polarized embryonic axis, plants evolved a
unique mechanism that involves directional, cell-to-cell transport of the growth
regulator auxin. Auxin transport relies on PIN auxin transporters [1], whose polar
subcellular localization determines the flow directionality. PIN-mediated auxin
transport mediates the spatial and temporal activity of the auxin response machinery
[2-7] that contributes to embryo patterning processes, including establishment
of the apical (shoot) and basal (root) embryo poles [8]. However, little is known
of upstream mechanisms guiding the (re)polarization of auxin fluxes during embryogenesis
[9]. Here, we developed a model of plant embryogenesis that correctly generates
emergent cell polarities and auxin-mediated sequential initiation of apical-basal
axis of plant embryo. The model relies on two precisely localized auxin sources
and a feedback between auxin and the polar, subcellular PIN transporter localization.
Simulations reproduced PIN polarity and auxin distribution, as well as previously
unknown polarization events during early embryogenesis. The spectrum of validated
model predictions suggests that our model corresponds to a minimal mechanistic
framework for initiation and orientation of the apical-basal axis to guide both
embryonic and postembryonic plant development.
author:
- first_name: Krzysztof T
full_name: Wabnik, Krzysztof T
id: 4DE369A4-F248-11E8-B48F-1D18A9856A87
last_name: Wabnik
orcid: 0000-0001-7263-0560
- first_name: Hélène
full_name: Robert, Hélène
last_name: Robert
- first_name: Richard
full_name: Smith, Richard
last_name: Smith
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Wabnik KT, Robert H, Smith R, Friml J. Modeling framework for the establishment
of the apical-basal embryonic axis in plants. Current Biology. 2013;23(24):2513-2518.
doi:10.1016/j.cub.2013.10.038
apa: Wabnik, K. T., Robert, H., Smith, R., & Friml, J. (2013). Modeling framework
for the establishment of the apical-basal embryonic axis in plants. Current
Biology. Cell Press. https://doi.org/10.1016/j.cub.2013.10.038
chicago: Wabnik, Krzysztof T, Hélène Robert, Richard Smith, and Jiří Friml. “Modeling
Framework for the Establishment of the Apical-Basal Embryonic Axis in Plants.”
Current Biology. Cell Press, 2013. https://doi.org/10.1016/j.cub.2013.10.038.
ieee: K. T. Wabnik, H. Robert, R. Smith, and J. Friml, “Modeling framework for the
establishment of the apical-basal embryonic axis in plants,” Current Biology,
vol. 23, no. 24. Cell Press, pp. 2513–2518, 2013.
ista: Wabnik KT, Robert H, Smith R, Friml J. 2013. Modeling framework for the establishment
of the apical-basal embryonic axis in plants. Current Biology. 23(24), 2513–2518.
mla: Wabnik, Krzysztof T., et al. “Modeling Framework for the Establishment of the
Apical-Basal Embryonic Axis in Plants.” Current Biology, vol. 23, no. 24,
Cell Press, 2013, pp. 2513–18, doi:10.1016/j.cub.2013.10.038.
short: K.T. Wabnik, H. Robert, R. Smith, J. Friml, Current Biology 23 (2013) 2513–2518.
date_created: 2018-12-11T11:46:58Z
date_published: 2013-12-16T00:00:00Z
date_updated: 2021-01-12T08:01:24Z
day: '16'
department:
- _id: EvBe
- _id: JiFr
doi: 10.1016/j.cub.2013.10.038
ec_funded: 1
intvolume: ' 23'
issue: '24'
language:
- iso: eng
month: '12'
oa_version: None
page: 2513 - 2518
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: '7292'
quality_controlled: '1'
scopus_import: 1
status: public
title: Modeling framework for the establishment of the apical-basal embryonic axis
in plants
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 23
year: '2013'
...
---
_id: '528'
abstract:
- lang: eng
text: Establishment of the embryonic axis foreshadows the main body axis of adults
both in plants and in animals, but underlying mechanisms are considered distinct.
Plants utilize directional, cell-to-cell transport of the growth hormone auxin
[1, 2] to generate an asymmetric auxin response that specifies the embryonic apical-basal
axis [3-6]. The auxin flow directionality depends on the polarized subcellular
localization of PIN-FORMED (PIN) auxin transporters [7, 8]. It remains unknown
which mechanisms and spatial cues guide cell polarization and axis orientation
in early embryos. Herein, we provide conceptually novel insights into the formation
of embryonic axis in Arabidopsis by identifying a crucial role of localized tryptophan-dependent
auxin biosynthesis [9-12]. Local auxin production at the base of young embryos
and the accompanying PIN7-mediated auxin flow toward the proembryo are required
for the apical auxin response maximum and the specification of apical embryonic
structures. Later in embryogenesis, the precisely timed onset of localized apical
auxin biosynthesis mediates PIN1 polarization, basal auxin response maximum, and
specification of the root pole. Thus, the tight spatiotemporal control of distinct
local auxin sources provides a necessary, non-cell-autonomous trigger for the
coordinated cell polarization and subsequent apical-basal axis orientation during
embryogenesis and, presumably, also for other polarization events during postembryonic
plant life [13, 14].
author:
- first_name: Hélène
full_name: Robert, Hélène
last_name: Robert
- first_name: Peter
full_name: Grones, Peter
id: 399876EC-F248-11E8-B48F-1D18A9856A87
last_name: Grones
- first_name: Anna
full_name: Stepanova, Anna
last_name: Stepanova
- first_name: Linda
full_name: Robles, Linda
last_name: Robles
- first_name: Annemarie
full_name: Lokerse, Annemarie
last_name: Lokerse
- first_name: Jose
full_name: Alonso, Jose
last_name: Alonso
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Robert H, Grones P, Stepanova A, et al. Local auxin sources orient the apical
basal axis in arabidopsis embryos. Current Biology. 2013;23(24):2506-2512.
doi:10.1016/j.cub.2013.09.039
apa: Robert, H., Grones, P., Stepanova, A., Robles, L., Lokerse, A., Alonso, J.,
… Friml, J. (2013). Local auxin sources orient the apical basal axis in arabidopsis
embryos. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2013.09.039
chicago: Robert, Hélène, Peter Grones, Anna Stepanova, Linda Robles, Annemarie Lokerse,
Jose Alonso, Dolf Weijers, and Jiří Friml. “Local Auxin Sources Orient the Apical
Basal Axis in Arabidopsis Embryos.” Current Biology. Cell Press, 2013.
https://doi.org/10.1016/j.cub.2013.09.039.
ieee: H. Robert et al., “Local auxin sources orient the apical basal axis
in arabidopsis embryos,” Current Biology, vol. 23, no. 24. Cell Press,
pp. 2506–2512, 2013.
ista: Robert H, Grones P, Stepanova A, Robles L, Lokerse A, Alonso J, Weijers D,
Friml J. 2013. Local auxin sources orient the apical basal axis in arabidopsis
embryos. Current Biology. 23(24), 2506–2512.
mla: Robert, Hélène, et al. “Local Auxin Sources Orient the Apical Basal Axis in
Arabidopsis Embryos.” Current Biology, vol. 23, no. 24, Cell Press, 2013,
pp. 2506–12, doi:10.1016/j.cub.2013.09.039.
short: H. Robert, P. Grones, A. Stepanova, L. Robles, A. Lokerse, J. Alonso, D.
Weijers, J. Friml, Current Biology 23 (2013) 2506–2512.
date_created: 2018-12-11T11:46:59Z
date_published: 2013-12-16T00:00:00Z
date_updated: 2021-01-12T08:01:25Z
day: '16'
department:
- _id: JiFr
doi: 10.1016/j.cub.2013.09.039
ec_funded: 1
intvolume: ' 23'
issue: '24'
language:
- iso: eng
month: '12'
oa_version: None
page: 2506 - 2512
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: '7291'
quality_controlled: '1'
scopus_import: 1
status: public
title: Local auxin sources orient the apical basal axis in arabidopsis embryos
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 23
year: '2013'
...
---
_id: '2074'
abstract:
- lang: eng
text: 'Sex chromosomes originate from autosomes. The accumulation of sexually antagonistic
mutations on protosex chromosomes selects for a loss of recombination and sets
in motion the evolutionary processes generating heteromorphic sex chromosomes.
Recombination suppression and differentiation are generally viewed as the default
path of sex chromosome evolution, and the occurrence of old, homomorphic sex chromosomes,
such as those of ratite birds, has remained a mystery. Here, we analyze the genome
and transcriptome of emu (Dromaius novaehollandiae) and confirm that most genes
on the sex chromosome are shared between the Z and W. Surprisingly, however, levels
of gene expression are generally sex-biased for all sex-linked genes relative
to autosomes, including those in the pseudoautosomal region, and the male-bias
increases after gonad formation. This expression bias suggests that the emu sex
chromosomes have become masculinized, even in the absence of ZW differentiation.
Thus, birds may have taken different evolutionary solutions to minimize the deleterious
effects imposed by sexually antagonistic mutations: some lineages eliminate recombination
along the protosex chromosomes to physically restrict sexually antagonistic alleles
to one sex, whereas ratites evolved sex-biased expression to confine the product
of a sexually antagonistic allele to the sex it benefits. This difference in conflict
resolution may explain the preservation of recombining, homomorphic sex chromosomes
in other lineages and illustrates the importance of sexually antagonistic mutations
driving the evolution of sex chromosomes. '
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Vera
full_name: Kaiser, Vera B
last_name: Kaiser
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: Vicoso B, Kaiser V, Bachtrog D. Sex biased gene expression at homomorphic sex
chromosomes in emus and its implication for sex chromosome evolution. PNAS.
2013;110(16):6453-6458. doi:10.1073/pnas.1217027110
apa: Vicoso, B., Kaiser, V., & Bachtrog, D. (2013). Sex biased gene expression
at homomorphic sex chromosomes in emus and its implication for sex chromosome
evolution. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1217027110
chicago: Vicoso, Beatriz, Vera Kaiser, and Doris Bachtrog. “Sex Biased Gene Expression
at Homomorphic Sex Chromosomes in Emus and Its Implication for Sex Chromosome
Evolution.” PNAS. National Academy of Sciences, 2013. https://doi.org/10.1073/pnas.1217027110.
ieee: B. Vicoso, V. Kaiser, and D. Bachtrog, “Sex biased gene expression at homomorphic
sex chromosomes in emus and its implication for sex chromosome evolution,” PNAS,
vol. 110, no. 16. National Academy of Sciences, pp. 6453–6458, 2013.
ista: Vicoso B, Kaiser V, Bachtrog D. 2013. Sex biased gene expression at homomorphic
sex chromosomes in emus and its implication for sex chromosome evolution. PNAS.
110(16), 6453–6458.
mla: Vicoso, Beatriz, et al. “Sex Biased Gene Expression at Homomorphic Sex Chromosomes
in Emus and Its Implication for Sex Chromosome Evolution.” PNAS, vol. 110,
no. 16, National Academy of Sciences, 2013, pp. 6453–58, doi:10.1073/pnas.1217027110.
short: B. Vicoso, V. Kaiser, D. Bachtrog, PNAS 110 (2013) 6453–6458.
date_created: 2018-12-11T11:55:33Z
date_published: 2013-04-16T00:00:00Z
date_updated: 2021-01-12T06:55:08Z
day: '16'
doi: 10.1073/pnas.1217027110
extern: 1
intvolume: ' 110'
issue: '16'
month: '04'
page: 6453 - 6458
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '4964'
quality_controlled: 0
status: public
title: Sex biased gene expression at homomorphic sex chromosomes in emus and its implication
for sex chromosome evolution
type: journal_article
volume: 110
year: '2013'
...
---
_id: '2076'
abstract:
- lang: eng
text: |
Snakes exhibit genetic sex determination, with female heterogametic sex chromosomes (ZZ males, ZW females). Extensive cytogenetic work has suggested that the level of sex chromosome heteromorphism varies among species, with Boidae having entirely homomorphic sex chromosomes, Viperidae having completely heteromorphic sex chromosomes, and Colubridae showing partial differentiation. Here, we take a genomic approach to compare sex chromosome differentiation in these three snake families. We identify homomorphic sex chromosomes in boas (Boidae), but completely heteromorphic sex chromosomes in both garter snakes (Colubridae) and pygmy rattlesnake (Viperidae). Detection of W-linked gametologs enables us to establish the presence of evolutionary strata on garter and pygmy rattlesnake sex chromosomes where recombination was abolished at different time points. Sequence analysis shows that all strata are shared between pygmy rattlesnake and garter snake, i.e., recombination was abolished between the sex chromosomes before the two lineages diverged. The sex-biased transmission of the Z and its hemizygosity in females can impact patterns of molecular evolution, and we show that rates of evolution for Z-linked genes are increased relative to their pseudoautosomal homologs, both at synonymous and amino acid sites (even after controlling for mutational biases). This demonstrates that mutation rates are male-biased in snakes (male-driven evolution), but also supports faster-Z evolution due to differential selective effects on the Z. Finally, we perform a transcriptome analysis in boa and pygmy rattlesnake to establish baseline levels of sex-biased expression in homomorphic sex chromosomes, and show that heteromorphic ZW chromosomes in rattlesnakes lack chromosome-wide dosage compensation. Our study provides the first full scale overview of the evolution of snake sex chromosomes at the genomic level, thus greatly expanding our knowledge of reptilian and vertebrate sex chromosomes evolution.
acknowledgement: Funded by NIH grants (R01GM076007 and R01GM093182) and a Packard
Fellowship to DB.
author:
- first_name: Beatriz
full_name: Beatriz Vicoso
id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
last_name: Vicoso
orcid: 0000-0002-4579-8306
- first_name: Jr
full_name: Emerson, Jr J.
last_name: Emerson
- first_name: Yulia
full_name: Zektser, Yulia
last_name: Zektser
- first_name: Shivani
full_name: Mahajan, Shivani
last_name: Mahajan
- first_name: Doris
full_name: Bachtrog, Doris
last_name: Bachtrog
citation:
ama: 'Vicoso B, Emerson J, Zektser Y, Mahajan S, Bachtrog D. Comparative sex chromosome
genomics in snakes: Differentiation evolutionary strata and lack of global dosage
compensation. PLoS Biology. 2013;11(8). doi:10.1371/journal.pbio.1001643'
apa: 'Vicoso, B., Emerson, J., Zektser, Y., Mahajan, S., & Bachtrog, D. (2013).
Comparative sex chromosome genomics in snakes: Differentiation evolutionary strata
and lack of global dosage compensation. PLoS Biology. Public Library of
Science. https://doi.org/10.1371/journal.pbio.1001643'
chicago: 'Vicoso, Beatriz, Jr Emerson, Yulia Zektser, Shivani Mahajan, and Doris
Bachtrog. “Comparative Sex Chromosome Genomics in Snakes: Differentiation Evolutionary
Strata and Lack of Global Dosage Compensation.” PLoS Biology. Public Library
of Science, 2013. https://doi.org/10.1371/journal.pbio.1001643.'
ieee: 'B. Vicoso, J. Emerson, Y. Zektser, S. Mahajan, and D. Bachtrog, “Comparative
sex chromosome genomics in snakes: Differentiation evolutionary strata and lack
of global dosage compensation,” PLoS Biology, vol. 11, no. 8. Public Library
of Science, 2013.'
ista: 'Vicoso B, Emerson J, Zektser Y, Mahajan S, Bachtrog D. 2013. Comparative
sex chromosome genomics in snakes: Differentiation evolutionary strata and lack
of global dosage compensation. PLoS Biology. 11(8).'
mla: 'Vicoso, Beatriz, et al. “Comparative Sex Chromosome Genomics in Snakes: Differentiation
Evolutionary Strata and Lack of Global Dosage Compensation.” PLoS Biology,
vol. 11, no. 8, Public Library of Science, 2013, doi:10.1371/journal.pbio.1001643.'
short: B. Vicoso, J. Emerson, Y. Zektser, S. Mahajan, D. Bachtrog, PLoS Biology
11 (2013).
date_created: 2018-12-11T11:55:34Z
date_published: 2013-08-27T00:00:00Z
date_updated: 2021-01-12T06:55:09Z
day: '27'
doi: 10.1371/journal.pbio.1001643
extern: 1
intvolume: ' 11'
issue: '8'
month: '08'
publication: PLoS Biology
publication_status: published
publisher: Public Library of Science
publist_id: '4962'
quality_controlled: 0
status: public
title: 'Comparative sex chromosome genomics in snakes: Differentiation evolutionary
strata and lack of global dosage compensation'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
volume: 11
year: '2013'
...
---
_id: '2107'
abstract:
- lang: eng
text: We present a method for fabrication-oriented design of actuated deformable
characters that allows a user to automatically create physical replicas of digitally
designed characters using rapid manufacturing technologies. Given a deformable
character and a set of target poses as input, our method computes a small set
of actuators along with their locations on the surface and optimizes the internal
material distribution such that the resulting character exhibits the desired deformation
behavior. We approach this problem with a dedicated algorithm that combines finite-element
analysis, sparse regularization, and constrained optimization. We validate our
pipeline on a set of two- and three-dimensional example characters and present
results in simulation and physically-fabricated prototypes.
acknowledgement: This work was partly funded by the NCCR Co-Me of the Swiss NSF
author:
- first_name: Mélina
full_name: Skouras, Mélina
last_name: Skouras
- first_name: Bernhard
full_name: Thomaszewski, Bernhard
last_name: Thomaszewski
- first_name: Stelian
full_name: Coros, Stelian
last_name: Coros
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Markus
full_name: Groß, Markus S
last_name: Groß
citation:
ama: Skouras M, Thomaszewski B, Coros S, Bickel B, Groß M. Computational design
of actuated deformable characters. ACM Transactions on Graphics. 2013;32(4).
doi:10.1145/2461912.2461979
apa: Skouras, M., Thomaszewski, B., Coros, S., Bickel, B., & Groß, M. (2013).
Computational design of actuated deformable characters. ACM Transactions on
Graphics. ACM. https://doi.org/10.1145/2461912.2461979
chicago: Skouras, Mélina, Bernhard Thomaszewski, Stelian Coros, Bernd Bickel, and
Markus Groß. “Computational Design of Actuated Deformable Characters.” ACM
Transactions on Graphics. ACM, 2013. https://doi.org/10.1145/2461912.2461979.
ieee: M. Skouras, B. Thomaszewski, S. Coros, B. Bickel, and M. Groß, “Computational
design of actuated deformable characters,” ACM Transactions on Graphics,
vol. 32, no. 4. ACM, 2013.
ista: Skouras M, Thomaszewski B, Coros S, Bickel B, Groß M. 2013. Computational
design of actuated deformable characters. ACM Transactions on Graphics. 32(4).
mla: Skouras, Mélina, et al. “Computational Design of Actuated Deformable Characters.”
ACM Transactions on Graphics, vol. 32, no. 4, ACM, 2013, doi:10.1145/2461912.2461979.
short: M. Skouras, B. Thomaszewski, S. Coros, B. Bickel, M. Groß, ACM Transactions
on Graphics 32 (2013).
date_created: 2018-12-11T11:55:45Z
date_published: 2013-07-01T00:00:00Z
date_updated: 2021-01-12T06:55:21Z
day: '01'
doi: 10.1145/2461912.2461979
extern: 1
intvolume: ' 32'
issue: '4'
month: '07'
publication: ACM Transactions on Graphics
publication_status: published
publisher: ACM
publist_id: '4926'
quality_controlled: 0
status: public
title: Computational design of actuated deformable characters
type: journal_article
volume: 32
year: '2013'
...
---
_id: '2108'
abstract:
- lang: eng
text: 'We present an interactive design system that allows non-expert users to create
animated mechanical characters. Given an articulated character as input, the user
iteratively creates an animation by sketching motion curves indicating how different
parts of the character should move. For each motion curve, our framework creates
an optimized mechanism that reproduces it as closely as possible. The resulting
mechanisms are attached to the character and then connected to each other using
gear trains, which are created in a semi-automated fashion. The mechanical assemblies
generated with our system can be driven with a single input driver, such as a
hand-operated crank or an electric motor, and they can be fabricated using rapid
prototyping devices. We demonstrate the versatility of our approach by designing
a wide range of mechanical characters, several of which we manufactured using
3D printing. While our pipeline is designed for characters driven by planar mechanisms,
significant parts of it extend directly to non-planar mechanisms, allowing us
to create characters with compelling 3D motions. '
author:
- first_name: Stelian
full_name: Coros, Stelian
last_name: Coros
- first_name: Bernhard
full_name: Thomaszewski, Bernhard
last_name: Thomaszewski
- first_name: Gioacchino
full_name: Noris, Gioacchino
last_name: Noris
- first_name: Shinjiro
full_name: Sueda, Shinjiro
last_name: Sueda
- first_name: Moira
full_name: Forberg, Moira
last_name: Forberg
- first_name: Robert
full_name: Sumner, Robert W
last_name: Sumner
- first_name: Wojciech
full_name: Matusik, Wojciech
last_name: Matusik
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
citation:
ama: Coros S, Thomaszewski B, Noris G, et al. Computational design of mechanical
characters. ACM Transactions on Graphics. 2013;32(4). doi:10.1145/2461912.2461953
apa: Coros, S., Thomaszewski, B., Noris, G., Sueda, S., Forberg, M., Sumner, R.,
… Bickel, B. (2013). Computational design of mechanical characters. ACM Transactions
on Graphics. ACM. https://doi.org/10.1145/2461912.2461953
chicago: Coros, Stelian, Bernhard Thomaszewski, Gioacchino Noris, Shinjiro Sueda,
Moira Forberg, Robert Sumner, Wojciech Matusik, and Bernd Bickel. “Computational
Design of Mechanical Characters.” ACM Transactions on Graphics. ACM, 2013.
https://doi.org/10.1145/2461912.2461953.
ieee: S. Coros et al., “Computational design of mechanical characters,” ACM
Transactions on Graphics, vol. 32, no. 4. ACM, 2013.
ista: Coros S, Thomaszewski B, Noris G, Sueda S, Forberg M, Sumner R, Matusik W,
Bickel B. 2013. Computational design of mechanical characters. ACM Transactions
on Graphics. 32(4).
mla: Coros, Stelian, et al. “Computational Design of Mechanical Characters.” ACM
Transactions on Graphics, vol. 32, no. 4, ACM, 2013, doi:10.1145/2461912.2461953.
short: S. Coros, B. Thomaszewski, G. Noris, S. Sueda, M. Forberg, R. Sumner, W.
Matusik, B. Bickel, ACM Transactions on Graphics 32 (2013).
date_created: 2018-12-11T11:55:46Z
date_published: 2013-07-01T00:00:00Z
date_updated: 2021-01-12T06:55:21Z
day: '01'
doi: 10.1145/2461912.2461953
extern: 1
intvolume: ' 32'
issue: '4'
month: '07'
publication: ACM Transactions on Graphics
publication_status: published
publisher: ACM
publist_id: '4927'
quality_controlled: 0
status: public
title: Computational design of mechanical characters
type: journal_article
volume: 32
year: '2013'
...
---
_id: '2109'
abstract:
- lang: eng
text: Most additive manufacturing technologies work by layering, i.e. slicing the
shape and then generating each slice independently. This introduces an anisotropy
into the process, often as different accuracies in the tangential and normal directions,
but also in terms of other parameters such as build speed or tensile strength
and strain. We model this as an anisotropic cubic element. Our approach then finds
a compromise between modeling each part of the shape individually in the best
possible direction and using one direction for the whole shape part. In particular,
we compute an orthogonal basis and consider only the three basis vectors as slice
normals (i.e. fabrication directions). Then we optimize a decomposition of the
shape along this basis so that each part can be consistently sliced along one
of the basis vectors. In simulation, we show that this approach is superior to
slicing the whole shape in one direction, only. It also has clear benefits if
the shape is larger than the build volume of the available equipment.
author:
- first_name: Kristian
full_name: Hildebrand, Kristian
last_name: Hildebrand
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Marc
full_name: Alexa, Marc
last_name: Alexa
citation:
ama: Hildebrand K, Bickel B, Alexa M. Orthogonal slicing for additive manufacturing.
Computers and Graphics (Pergamon). 2013;37(6):669-675. doi:10.1016/j.cag.2013.05.011
apa: Hildebrand, K., Bickel, B., & Alexa, M. (2013). Orthogonal slicing for
additive manufacturing. Computers and Graphics (Pergamon). Elsevier. https://doi.org/10.1016/j.cag.2013.05.011
chicago: Hildebrand, Kristian, Bernd Bickel, and Marc Alexa. “Orthogonal Slicing
for Additive Manufacturing.” Computers and Graphics (Pergamon). Elsevier,
2013. https://doi.org/10.1016/j.cag.2013.05.011.
ieee: K. Hildebrand, B. Bickel, and M. Alexa, “Orthogonal slicing for additive manufacturing,”
Computers and Graphics (Pergamon), vol. 37, no. 6. Elsevier, pp. 669–675,
2013.
ista: Hildebrand K, Bickel B, Alexa M. 2013. Orthogonal slicing for additive manufacturing.
Computers and Graphics (Pergamon). 37(6), 669–675.
mla: Hildebrand, Kristian, et al. “Orthogonal Slicing for Additive Manufacturing.”
Computers and Graphics (Pergamon), vol. 37, no. 6, Elsevier, 2013, pp.
669–75, doi:10.1016/j.cag.2013.05.011.
short: K. Hildebrand, B. Bickel, M. Alexa, Computers and Graphics (Pergamon) 37
(2013) 669–675.
date_created: 2018-12-11T11:55:46Z
date_published: 2013-10-01T00:00:00Z
date_updated: 2021-01-12T06:55:22Z
day: '01'
doi: 10.1016/j.cag.2013.05.011
extern: 1
intvolume: ' 37'
issue: '6'
month: '10'
page: 669 - 675
publication: Computers and Graphics (Pergamon)
publication_status: published
publisher: Elsevier
publist_id: '4924'
quality_controlled: 0
status: public
title: Orthogonal slicing for additive manufacturing
type: journal_article
volume: 37
year: '2013'
...
---
_id: '2110'
abstract:
- lang: eng
text: 'We present a method for practical physical reproduction and design of homogeneous
materials with desired subsurface scattering. Our process uses a collection of
different pigments that can be suspended in a clear base material. Our goal is
to determine pigment concentrations that best reproduce the appearance and subsurface
scattering of a given target material. In order to achieve this task we first
fabricate a collection of material samples composed of known mixtures of the available
pigments with the base material. We then acquire their reflectance profiles using
a custom-built measurement device. We use the same device to measure the reflectance
profile of a target material. Based on the database of mappings from pigment concentrations
to reflectance profiles, we use an optimization process to compute the concentration
of pigments to best replicate the target material appearance. We demonstrate the
practicality of our method by reproducing a variety of different translucent materials.
We also present a tool that allows the user to explore the range of achievable
appearances for a given set of pigments. '
author:
- first_name: Marios
full_name: Papas, Marios
last_name: Papas
- first_name: Christian
full_name: Regg, Christian
last_name: Regg
- first_name: Wojciech
full_name: Jarosz, Wojciech
last_name: Jarosz
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Philip
full_name: Jackson, Philip V
last_name: Jackson
- first_name: Wojciech
full_name: Matusik, Wojciech
last_name: Matusik
- first_name: Steve
full_name: Marschner, Steve
last_name: Marschner
- first_name: Markus
full_name: Groß, Markus S
last_name: Groß
citation:
ama: Papas M, Regg C, Jarosz W, et al. Fabricating translucent materials using continuous
pigment mixtures. ACM Transactions on Graphics. 2013;32(4). doi:10.1145/2461912.2461974
apa: Papas, M., Regg, C., Jarosz, W., Bickel, B., Jackson, P., Matusik, W., … Groß,
M. (2013). Fabricating translucent materials using continuous pigment mixtures.
ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2461912.2461974
chicago: Papas, Marios, Christian Regg, Wojciech Jarosz, Bernd Bickel, Philip Jackson,
Wojciech Matusik, Steve Marschner, and Markus Groß. “Fabricating Translucent Materials
Using Continuous Pigment Mixtures.” ACM Transactions on Graphics. ACM,
2013. https://doi.org/10.1145/2461912.2461974.
ieee: M. Papas et al., “Fabricating translucent materials using continuous
pigment mixtures,” ACM Transactions on Graphics, vol. 32, no. 4. ACM, 2013.
ista: Papas M, Regg C, Jarosz W, Bickel B, Jackson P, Matusik W, Marschner S, Groß
M. 2013. Fabricating translucent materials using continuous pigment mixtures.
ACM Transactions on Graphics. 32(4).
mla: Papas, Marios, et al. “Fabricating Translucent Materials Using Continuous Pigment
Mixtures.” ACM Transactions on Graphics, vol. 32, no. 4, ACM, 2013, doi:10.1145/2461912.2461974.
short: M. Papas, C. Regg, W. Jarosz, B. Bickel, P. Jackson, W. Matusik, S. Marschner,
M. Groß, ACM Transactions on Graphics 32 (2013).
date_created: 2018-12-11T11:55:46Z
date_published: 2013-07-01T00:00:00Z
date_updated: 2021-01-12T06:55:22Z
day: '01'
doi: 10.1145/2461912.2461974
extern: 1
intvolume: ' 32'
issue: '4'
month: '07'
publication: ACM Transactions on Graphics
publication_status: published
publisher: ACM
publist_id: '4925'
quality_controlled: 0
status: public
title: Fabricating translucent materials using continuous pigment mixtures
type: journal_article
volume: 32
year: '2013'
...
---
_id: '2111'
abstract:
- lang: eng
text: Animated animatronic figures are a unique way to give physical presence to
a character. However, their movement and expressions are often limited due to
mechanical constraints. In this paper, we propose a complete process for augmenting
physical avatars using projector-based illumination, significantly increasing
their expressiveness. Given an input animation, the system decomposes the motion
into low-frequency motion that can be physically reproduced by the animatronic
head and high-frequency details that are added using projected shading. At the
core is a spatio-temporal optimization process that compresses the motion in gradient
space, ensuring faithful motion replay while respecting the physical limitations
of the system. We also propose a complete multi-camera and projection system,
including a novel defocused projection and subsurface scattering compensation
scheme. The result of our system is a highly expressive physical avatar that features
facial details and motion otherwise unattainable due to physical constraints.
author:
- first_name: Amit
full_name: Bermano, Amit H
last_name: Bermano
- first_name: Philipp
full_name: Bruschweiler, Philipp
last_name: Bruschweiler
- first_name: Anselm
full_name: Grundhöfer, Anselm
last_name: Grundhöfer
- first_name: Daisuke
full_name: Iwai, Daisuke
last_name: Iwai
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Markus
full_name: Groß, Markus S
last_name: Groß
citation:
ama: Bermano A, Bruschweiler P, Grundhöfer A, Iwai D, Bickel B, Groß M. Augmenting
physical avatars using projector-based illumination. ACM Transactions on Graphics.
2013;32(6). doi:10.1145/2508363.2508416
apa: Bermano, A., Bruschweiler, P., Grundhöfer, A., Iwai, D., Bickel, B., &
Groß, M. (2013). Augmenting physical avatars using projector-based illumination.
ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2508363.2508416
chicago: Bermano, Amit, Philipp Bruschweiler, Anselm Grundhöfer, Daisuke Iwai, Bernd
Bickel, and Markus Groß. “Augmenting Physical Avatars Using Projector-Based Illumination.”
ACM Transactions on Graphics. ACM, 2013. https://doi.org/10.1145/2508363.2508416.
ieee: A. Bermano, P. Bruschweiler, A. Grundhöfer, D. Iwai, B. Bickel, and M. Groß,
“Augmenting physical avatars using projector-based illumination,” ACM Transactions
on Graphics, vol. 32, no. 6. ACM, 2013.
ista: Bermano A, Bruschweiler P, Grundhöfer A, Iwai D, Bickel B, Groß M. 2013. Augmenting
physical avatars using projector-based illumination. ACM Transactions on Graphics.
32(6).
mla: Bermano, Amit, et al. “Augmenting Physical Avatars Using Projector-Based Illumination.”
ACM Transactions on Graphics, vol. 32, no. 6, ACM, 2013, doi:10.1145/2508363.2508416.
short: A. Bermano, P. Bruschweiler, A. Grundhöfer, D. Iwai, B. Bickel, M. Groß,
ACM Transactions on Graphics 32 (2013).
date_created: 2018-12-11T11:55:47Z
date_published: 2013-11-01T00:00:00Z
date_updated: 2021-01-12T06:55:23Z
day: '01'
doi: 10.1145/2508363.2508416
extern: 1
intvolume: ' 32'
issue: '6'
month: '11'
publication: ACM Transactions on Graphics
publication_status: published
publisher: ACM
publist_id: '4922'
quality_controlled: 0
status: public
title: Augmenting physical avatars using projector-based illumination
type: journal_article
volume: 32
year: '2013'
...
---
_id: '2112'
abstract:
- lang: eng
text: Force-deformation measurements of cloth exhibit significant hysteresis, and
many researchers have identified internal friction as the source of this effect.
However, it has not been incorporated into computer animation models of cloth.
In this paper, we propose a model of internal friction based on an augmented reparameterization
of Dahl's model, and we show that this model provides a good match to several
important features of cloth hysteresis even with a minimal set of parameters.
We also propose novel parameter estimation procedures that are based on simple
and inexpensive setups and need only sparse data, as opposed to the complex hardware
and dense data acquisition of previous methods. Finally, we provide an algorithm
for the efficient simulation of internal friction, and we demonstrate it on simulation
examples that show disparate behavior with and without internal friction.
acknowledgement: This work was supported in part by the European Research Council
(ERC-2011-StG-280135 Animetrics) and the Spanish Ministry of Economy (TIN2012-35840).
author:
- first_name: Eder
full_name: Miguel, Eder
last_name: Miguel
- first_name: Rasmus
full_name: Tamstorf, Rasmus
last_name: Tamstorf
- first_name: Derek
full_name: Bradley, Derek J
last_name: Bradley
- first_name: Sara
full_name: Schvartzman, Sara C
last_name: Schvartzman
- first_name: Bernhard
full_name: Thomaszewski, Bernhard
last_name: Thomaszewski
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Wojciech
full_name: Matusik, Wojciech
last_name: Matusik
- first_name: Steve
full_name: Marschner, Steve
last_name: Marschner
- first_name: Miguel
full_name: Otaduy, Miguel A
last_name: Otaduy
citation:
ama: Miguel E, Tamstorf R, Bradley D, et al. Modeling and estimation of internal
friction in cloth. ACM Transactions on Graphics. 2013;32(6). doi:10.1145/2508363.2508389
apa: Miguel, E., Tamstorf, R., Bradley, D., Schvartzman, S., Thomaszewski, B., Bickel,
B., … Otaduy, M. (2013). Modeling and estimation of internal friction in cloth.
ACM Transactions on Graphics. ACM. https://doi.org/10.1145/2508363.2508389
chicago: Miguel, Eder, Rasmus Tamstorf, Derek Bradley, Sara Schvartzman, Bernhard
Thomaszewski, Bernd Bickel, Wojciech Matusik, Steve Marschner, and Miguel Otaduy.
“Modeling and Estimation of Internal Friction in Cloth.” ACM Transactions on
Graphics. ACM, 2013. https://doi.org/10.1145/2508363.2508389
.
ieee: E. Miguel et al., “Modeling and estimation of internal friction in
cloth,” ACM Transactions on Graphics, vol. 32, no. 6. ACM, 2013.
ista: Miguel E, Tamstorf R, Bradley D, Schvartzman S, Thomaszewski B, Bickel B,
Matusik W, Marschner S, Otaduy M. 2013. Modeling and estimation of internal friction
in cloth. ACM Transactions on Graphics. 32(6).
mla: Miguel, Eder, et al. “Modeling and Estimation of Internal Friction in Cloth.”
ACM Transactions on Graphics, vol. 32, no. 6, ACM, 2013, doi:10.1145/2508363.2508389 .
short: E. Miguel, R. Tamstorf, D. Bradley, S. Schvartzman, B. Thomaszewski, B. Bickel,
W. Matusik, S. Marschner, M. Otaduy, ACM Transactions on Graphics 32 (2013).
date_created: 2018-12-11T11:55:47Z
date_published: 2013-11-01T00:00:00Z
date_updated: 2021-01-12T06:55:23Z
day: '01'
doi: '10.1145/2508363.2508389 '
extern: 1
intvolume: ' 32'
issue: '6'
month: '11'
publication: ACM Transactions on Graphics
publication_status: published
publisher: ACM
publist_id: '4923'
quality_controlled: 0
status: public
title: Modeling and estimation of internal friction in cloth
type: journal_article
volume: 32
year: '2013'
...
---
_id: '2113'
abstract:
- lang: eng
text: A new method fabricates custom surface reflectance and spatially varying bidirectional
reflectance distribution functions (svBRDFs). Researchers optimize a microgeometry
for a range of normal distribution functions and simulate the resulting surface's
effective reflectance. Using the simulation's results, they reproduce an input
svBRDF's appearance by distributing the microgeometry on the printed material's
surface. This method lets people print svBRDFs on planar samples with current
3D printing technology, even with a limited set of printing materials. It extends
naturally to printing svBRDFs on arbitrary shapes.
author:
- first_name: Olivier
full_name: Rouiller, Olivier
last_name: Rouiller
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Jan
full_name: Kautz, Jan
last_name: Kautz
- first_name: Wojciech
full_name: Matusik, Wojciech
last_name: Matusik
- first_name: Marc
full_name: Alexa, Marc
last_name: Alexa
citation:
ama: Rouiller O, Bickel B, Kautz J, Matusik W, Alexa M. 3D printing spatially varying
BRDFs. IEEE Computer Graphics and Applications. 2013;33(6):48-57. doi:10.1109/MCG.2013.82
apa: Rouiller, O., Bickel, B., Kautz, J., Matusik, W., & Alexa, M. (2013). 3D
printing spatially varying BRDFs. IEEE Computer Graphics and Applications.
IEEE. https://doi.org/10.1109/MCG.2013.82
chicago: Rouiller, Olivier, Bernd Bickel, Jan Kautz, Wojciech Matusik, and Marc
Alexa. “3D Printing Spatially Varying BRDFs.” IEEE Computer Graphics and Applications.
IEEE, 2013. https://doi.org/10.1109/MCG.2013.82
.
ieee: O. Rouiller, B. Bickel, J. Kautz, W. Matusik, and M. Alexa, “3D printing spatially
varying BRDFs,” IEEE Computer Graphics and Applications, vol. 33, no. 6.
IEEE, pp. 48–57, 2013.
ista: Rouiller O, Bickel B, Kautz J, Matusik W, Alexa M. 2013. 3D printing spatially
varying BRDFs. IEEE Computer Graphics and Applications. 33(6), 48–57.
mla: Rouiller, Olivier, et al. “3D Printing Spatially Varying BRDFs.” IEEE Computer
Graphics and Applications, vol. 33, no. 6, IEEE, 2013, pp. 48–57, doi:10.1109/MCG.2013.82 .
short: O. Rouiller, B. Bickel, J. Kautz, W. Matusik, M. Alexa, IEEE Computer Graphics
and Applications 33 (2013) 48–57.
date_created: 2018-12-11T11:55:47Z
date_published: 2013-09-23T00:00:00Z
date_updated: 2021-01-12T06:55:23Z
day: '23'
doi: '10.1109/MCG.2013.82 '
extern: 1
intvolume: ' 33'
issue: '6'
month: '09'
page: 48 - 57
publication: IEEE Computer Graphics and Applications
publication_status: published
publisher: IEEE
publist_id: '4920'
quality_controlled: 0
status: public
title: 3D printing spatially varying BRDFs
type: journal_article
volume: 33
year: '2013'
...
---
_id: '2114'
abstract:
- lang: eng
text: 3D printing is considered a disruptive technology with a potentially tremendous
socioeconomic impact. The three articles in this special issue illustrate how
novel computer graphics approaches are advancing such digital fabrication.
author:
- first_name: Bernd
full_name: Bernd Bickel
id: 49876194-F248-11E8-B48F-1D18A9856A87
last_name: Bickel
orcid: 0000-0001-6511-9385
- first_name: Marc
full_name: Alexa, Marc
last_name: Alexa
citation:
ama: 'Bickel B, Alexa M. Computational aspects of fabrication: Modeling, design
and 3d printing. IEEE Computer Graphics and Applications. 2013;33(6):24-25.
doi:10.1109/MCG.2013.89'
apa: 'Bickel, B., & Alexa, M. (2013). Computational aspects of fabrication:
Modeling, design and 3d printing. IEEE Computer Graphics and Applications.
IEEE. https://doi.org/10.1109/MCG.2013.89'
chicago: 'Bickel, Bernd, and Marc Alexa. “Computational Aspects of Fabrication:
Modeling, Design and 3d Printing.” IEEE Computer Graphics and Applications.
IEEE, 2013. https://doi.org/10.1109/MCG.2013.89.'
ieee: 'B. Bickel and M. Alexa, “Computational aspects of fabrication: Modeling,
design and 3d printing,” IEEE Computer Graphics and Applications, vol.
33, no. 6. IEEE, pp. 24–25, 2013.'
ista: 'Bickel B, Alexa M. 2013. Computational aspects of fabrication: Modeling,
design and 3d printing. IEEE Computer Graphics and Applications. 33(6), 24–25.'
mla: 'Bickel, Bernd, and Marc Alexa. “Computational Aspects of Fabrication: Modeling,
Design and 3d Printing.” IEEE Computer Graphics and Applications, vol.
33, no. 6, IEEE, 2013, pp. 24–25, doi:10.1109/MCG.2013.89.'
short: B. Bickel, M. Alexa, IEEE Computer Graphics and Applications 33 (2013) 24–25.
date_created: 2018-12-11T11:55:48Z
date_published: 2013-12-01T00:00:00Z
date_updated: 2021-01-12T06:55:24Z
day: '01'
doi: 10.1109/MCG.2013.89
extern: 1
intvolume: ' 33'
issue: '6'
month: '12'
page: 24 - 25
publication: IEEE Computer Graphics and Applications
publication_status: published
publisher: IEEE
publist_id: '4921'
quality_controlled: 0
status: public
title: 'Computational aspects of fabrication: Modeling, design and 3d printing'
type: journal_article
volume: 33
year: '2013'
...
---
_id: '2117'
abstract:
- lang: eng
text: We prove new upper and lower bounds for Banach space-valued stochastic integrals
with respect to a compensated Poisson random measure. Our estimates apply to Banach
spaces with non-trivial martingale (co)type and extend various results in the
literature. We also develop a Malliavin framework to interpret Poisson stochastic
integrals as vector-valued Skorohod integrals, and prove a Clark-Ocone representation
formula.
acknowledgement: The first and third named authors were supported by VICI subsidy
639.033.604 of the Netherlands Organisation for Scientific Research (NWO). The first
and second named authors were supported by the German Research Foundation in the
Collaborative Research C
author:
- first_name: Sjoerd
full_name: Dirksen, Sjoerd
last_name: Dirksen
- first_name: Jan
full_name: Jan Maas
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
- first_name: Jan
full_name: van Neerven, Jan M
last_name: Van Neerven
citation:
ama: Dirksen S, Maas J, Van Neerven J. Poisson stochastic integration in Banach
spaces. Electronic Journal of Probability. 2013;18. doi:10.1214/EJP.v18-2945
apa: Dirksen, S., Maas, J., & Van Neerven, J. (2013). Poisson stochastic integration
in Banach spaces. Electronic Journal of Probability. Institute of Mathematical
Statistics. https://doi.org/10.1214/EJP.v18-2945
chicago: Dirksen, Sjoerd, Jan Maas, and Jan Van Neerven. “Poisson Stochastic Integration
in Banach Spaces.” Electronic Journal of Probability. Institute of Mathematical
Statistics, 2013. https://doi.org/10.1214/EJP.v18-2945
.
ieee: S. Dirksen, J. Maas, and J. Van Neerven, “Poisson stochastic integration in
Banach spaces,” Electronic Journal of Probability, vol. 18. Institute of
Mathematical Statistics, 2013.
ista: Dirksen S, Maas J, Van Neerven J. 2013. Poisson stochastic integration in
Banach spaces. Electronic Journal of Probability. 18.
mla: Dirksen, Sjoerd, et al. “Poisson Stochastic Integration in Banach Spaces.”
Electronic Journal of Probability, vol. 18, Institute of Mathematical Statistics,
2013, doi:10.1214/EJP.v18-2945
.
short: S. Dirksen, J. Maas, J. Van Neerven, Electronic Journal of Probability 18
(2013).
date_created: 2018-12-11T11:55:49Z
date_published: 2013-11-18T00:00:00Z
date_updated: 2021-01-12T06:55:24Z
day: '18'
doi: '10.1214/EJP.v18-2945 '
extern: 1
intvolume: ' 18'
main_file_link:
- open_access: '1'
url: 'http://arxiv.org/abs/1307.7901 '
month: '11'
oa: 1
publication: Electronic Journal of Probability
publication_status: published
publisher: Institute of Mathematical Statistics
publist_id: '4917'
quality_controlled: 0
status: public
title: Poisson stochastic integration in Banach spaces
type: journal_article
volume: 18
year: '2013'
...