---
_id: '1383'
abstract:
- lang: eng
text: In plants, vacuolar H+-ATPase (V-ATPase) activity acidifies both the trans-Golgi
network/early endosome (TGN/EE) and the vacuole. This dual V-ATPase function has
impeded our understanding of how the pH homeostasis within the plant TGN/EE controls
exo- and endocytosis. Here, we show that the weak V-ATPase mutant deetiolated3
(det3) displayed a pH increase in the TGN/EE, but not in the vacuole, strongly
impairing secretion and recycling of the brassinosteroid receptor and the cellulose
synthase complexes to the plasma membrane, in contrast to mutants lacking tonoplast-localized
V-ATPase activity only. The brassinosteroid insensitivity and the cellulose deficiency
defects in det3 were tightly correlated with reduced Golgi and TGN/EE motility.
Thus, our results provide strong evidence that acidification of the TGN/EE, but
not of the vacuole, is indispensable for functional secretion and recycling in
plants.
article_number: '15094'
article_processing_charge: No
article_type: original
author:
- first_name: Luo
full_name: Yu, Luo
last_name: Yu
- first_name: Stefan
full_name: Scholl, Stefan
last_name: Scholl
- first_name: Anett
full_name: Doering, Anett
last_name: Doering
- first_name: Zhang
full_name: Yi, Zhang
last_name: Yi
- first_name: Niloufer
full_name: Irani, Niloufer
last_name: Irani
- first_name: Simone
full_name: Di Rubbo, Simone
last_name: Di Rubbo
- first_name: Lutz
full_name: Neumetzler, Lutz
last_name: Neumetzler
- first_name: Praveen
full_name: Krishnamoorthy, Praveen
last_name: Krishnamoorthy
- first_name: Isabelle
full_name: Van Houtte, Isabelle
last_name: Van Houtte
- first_name: Evelien
full_name: Mylle, Evelien
last_name: Mylle
- first_name: Volker
full_name: Bischoff, Volker
last_name: Bischoff
- first_name: Samantha
full_name: Vernhettes, Samantha
last_name: Vernhettes
- first_name: Johan
full_name: Winne, Johan
last_name: Winne
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: York
full_name: Stierhof, York
last_name: Stierhof
- first_name: Karin
full_name: Schumacher, Karin
last_name: Schumacher
- first_name: Staffan
full_name: Persson, Staffan
last_name: Persson
- first_name: Eugenia
full_name: Russinova, Eugenia
last_name: Russinova
citation:
ama: Yu L, Scholl S, Doering A, et al. V-ATPase activity in the TGN/EE is required
for exocytosis and recycling in Arabidopsis. Nature Plants. 2015;1(7).
doi:10.1038/nplants.2015.94
apa: Yu, L., Scholl, S., Doering, A., Yi, Z., Irani, N., Di Rubbo, S., … Russinova,
E. (2015). V-ATPase activity in the TGN/EE is required for exocytosis and recycling
in Arabidopsis. Nature Plants. Nature Publishing Group. https://doi.org/10.1038/nplants.2015.94
chicago: Yu, Luo, Stefan Scholl, Anett Doering, Zhang Yi, Niloufer Irani, Simone
Di Rubbo, Lutz Neumetzler, et al. “V-ATPase Activity in the TGN/EE Is Required
for Exocytosis and Recycling in Arabidopsis.” Nature Plants. Nature Publishing
Group, 2015. https://doi.org/10.1038/nplants.2015.94.
ieee: L. Yu et al., “V-ATPase activity in the TGN/EE is required for exocytosis
and recycling in Arabidopsis,” Nature Plants, vol. 1, no. 7. Nature Publishing
Group, 2015.
ista: Yu L, Scholl S, Doering A, Yi Z, Irani N, Di Rubbo S, Neumetzler L, Krishnamoorthy
P, Van Houtte I, Mylle E, Bischoff V, Vernhettes S, Winne J, Friml J, Stierhof
Y, Schumacher K, Persson S, Russinova E. 2015. V-ATPase activity in the TGN/EE
is required for exocytosis and recycling in Arabidopsis. Nature Plants. 1(7),
15094.
mla: Yu, Luo, et al. “V-ATPase Activity in the TGN/EE Is Required for Exocytosis
and Recycling in Arabidopsis.” Nature Plants, vol. 1, no. 7, 15094, Nature
Publishing Group, 2015, doi:10.1038/nplants.2015.94.
short: L. Yu, S. Scholl, A. Doering, Z. Yi, N. Irani, S. Di Rubbo, L. Neumetzler,
P. Krishnamoorthy, I. Van Houtte, E. Mylle, V. Bischoff, S. Vernhettes, J. Winne,
J. Friml, Y. Stierhof, K. Schumacher, S. Persson, E. Russinova, Nature Plants
1 (2015).
date_created: 2018-12-11T11:51:42Z
date_published: 2015-07-06T00:00:00Z
date_updated: 2025-09-29T11:04:05Z
day: '06'
department:
- _id: JiFr
doi: 10.1038/nplants.2015.94
external_id:
isi:
- '000364407200001'
pmid:
- '27250258'
intvolume: ' 1'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4905525/
month: '07'
oa: 1
oa_version: Submitted Version
pmid: 1
publication: Nature Plants
publication_status: published
publisher: Nature Publishing Group
publist_id: '5827'
quality_controlled: '1'
scopus_import: '1'
status: public
title: V-ATPase activity in the TGN/EE is required for exocytosis and recycling in
Arabidopsis
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 1
year: '2015'
...
---
_id: '1509'
abstract:
- lang: eng
text: The Auxin Binding Protein1 (ABP1) has been identified based on its ability
to bind auxin with high affinity and studied for a long time as a prime candidate
for the extracellular auxin receptor responsible for mediating in particular the
fast non-transcriptional auxin responses. However, the contradiction between the
embryo-lethal phenotypes of the originally described Arabidopsis T-DNA insertional
knock-out alleles (abp1-1 and abp1-1s) and the wild type-like phenotypes of other
recently described loss-of-function alleles (abp1-c1 and abp1-TD1) questions the
biological importance of ABP1 and relevance of the previous genetic studies. Here
we show that there is no hidden copy of the ABP1 gene in the Arabidopsis genome
but the embryo-lethal phenotypes of abp1-1 and abp1-1s alleles are very similar
to the knock-out phenotypes of the neighboring gene, BELAYA SMERT (BSM). Furthermore,
the allelic complementation test between bsm and abp1 alleles shows that the embryo-lethality
in the abp1-1 and abp1-1s alleles is caused by the off-target disruption of the
BSM locus by the T-DNA insertions. This clarifies the controversy of different
phenotypes among published abp1 knock-out alleles and asks for reflections on
the developmental role of ABP1.
acknowledgement: "This work was supported by ERC Independent Research grant (ERC-2011-StG-20101109-PSDP
to JF). JM internship was supported by the grant “Action Austria – Slovakia”.\r\nData
associated with the article are available under the terms of the Creative Commons
Zero \"No rights reserved\" data waiver (CC0 1.0 Public domain dedication). \r\n\r\nData
availability: \r\nF1000Research: Dataset 1. Dataset 1, 10.5256/f1000research.7143.d104552\r\n\r\nF1000Research:
Dataset 2. Dataset 2, 10.5256/f1000research.7143.d104553\r\n\r\nF1000Research: Dataset
3. Dataset 3, 10.5256/f1000research.7143.d104554"
article_processing_charge: No
author:
- first_name: Jaroslav
full_name: Michalko, Jaroslav
id: 483727CA-F248-11E8-B48F-1D18A9856A87
last_name: Michalko
- first_name: Marta
full_name: Dravecka, Marta
id: 4342E402-F248-11E8-B48F-1D18A9856A87
last_name: Dravecka
orcid: 0000-0002-2519-8004
- first_name: Tobias
full_name: Bollenbach, Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
orcid: 0000-0003-4398-476X
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Michalko J, Lukacisinova M, Bollenbach MT, Friml J. Embryo-lethal phenotypes
in early abp1 mutants are due to disruption of the neighboring BSM gene. F1000
Research . 2015;4. doi:10.12688/f1000research.7143.1
apa: Michalko, J., Lukacisinova, M., Bollenbach, M. T., & Friml, J. (2015).
Embryo-lethal phenotypes in early abp1 mutants are due to disruption of the neighboring
BSM gene. F1000 Research . F1000 Research. https://doi.org/10.12688/f1000research.7143.1
chicago: Michalko, Jaroslav, Marta Lukacisinova, Mark Tobias Bollenbach, and Jiří
Friml. “Embryo-Lethal Phenotypes in Early Abp1 Mutants Are Due to Disruption of
the Neighboring BSM Gene.” F1000 Research . F1000 Research, 2015. https://doi.org/10.12688/f1000research.7143.1.
ieee: J. Michalko, M. Lukacisinova, M. T. Bollenbach, and J. Friml, “Embryo-lethal
phenotypes in early abp1 mutants are due to disruption of the neighboring BSM
gene,” F1000 Research , vol. 4. F1000 Research, 2015.
ista: Michalko J, Lukacisinova M, Bollenbach MT, Friml J. 2015. Embryo-lethal phenotypes
in early abp1 mutants are due to disruption of the neighboring BSM gene. F1000
Research . 4.
mla: Michalko, Jaroslav, et al. “Embryo-Lethal Phenotypes in Early Abp1 Mutants
Are Due to Disruption of the Neighboring BSM Gene.” F1000 Research , vol.
4, F1000 Research, 2015, doi:10.12688/f1000research.7143.1.
short: J. Michalko, M. Lukacisinova, M.T. Bollenbach, J. Friml, F1000 Research 4
(2015).
corr_author: '1'
date_created: 2018-12-11T11:52:26Z
date_published: 2015-10-01T00:00:00Z
date_updated: 2025-04-15T07:48:03Z
day: '01'
ddc:
- '570'
department:
- _id: JiFr
- _id: ToBo
doi: 10.12688/f1000research.7143.1
ec_funded: 1
file:
- access_level: open_access
checksum: 8beae5cbe988e1060265ae7de2ee8306
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:12Z
date_updated: 2020-07-14T12:44:59Z
file_id: '5198'
file_name: IST-2016-497-v1+1_10.12688_f1000research.7143.1_20151102.pdf
file_size: 4414248
relation: main_file
file_date_updated: 2020-07-14T12:44:59Z
has_accepted_license: '1'
intvolume: ' 4'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '10'
oa: 1
oa_version: Published Version
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: 'F1000 Research '
publication_status: published
publisher: F1000 Research
publist_id: '5668'
pubrep_id: '497'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Embryo-lethal phenotypes in early abp1 mutants are due to disruption of the
neighboring BSM gene
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 4
year: '2015'
...
---
_id: '1532'
abstract:
- lang: eng
text: Ammonium is the major nitrogen source in some plant ecosystems but is toxic
at high concentrations, especially when available as the exclusive nitrogen source.
Ammonium stress rapidly leads to various metabolic and hormonal imbalances that
ultimately inhibit root and shoot growth in many plant species, including Arabidopsis
thaliana (L.) Heynh. To identify molecular and genetic factors involved in seedling
survival with prolonged exclusive NH4+ nutrition, a transcriptomic analysis with
microarrays was used. Substantial transcriptional differences were most pronounced
in (NH4)2SO4-grown seedlings, compared with plants grown on KNO3 or NH4NO3. Consistent
with previous physiological analyses, major differences in the expression modules
of photosynthesis-related genes, an altered mitochondrial metabolism, differential
expression of the primary NH4+ assimilation, alteration of transporter gene expression
and crucial changes in cell wall biosynthesis were found. A major difference in
plant hormone responses, particularly of auxin but not cytokinin, was striking.
The activity of the DR5::GUS reporter revealed a dramatically decreased auxin
response in (NH4)2SO4-grown primary roots. The impaired root growth on (NH4)2SO4
was partially rescued by exogenous auxin or in specific mutants in the auxin pathway.
The data suggest that NH4+-induced nutritional and metabolic imbalances can be
partially overcome by elevated auxin levels.
article_processing_charge: No
article_type: original
author:
- first_name: Huaiyu
full_name: Yang, Huaiyu
last_name: Yang
- first_name: Jenny
full_name: Von Der Fecht Bartenbach, Jenny
last_name: Von Der Fecht Bartenbach
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Jan
full_name: Lohmann, Jan
last_name: Lohmann
- first_name: Benjamin
full_name: Neuhäuser, Benjamin
last_name: Neuhäuser
- first_name: Uwe
full_name: Ludewig, Uwe
last_name: Ludewig
citation:
ama: Yang H, Von Der Fecht Bartenbach J, Friml J, Lohmann J, Neuhäuser B, Ludewig
U. Auxin-modulated root growth inhibition in Arabidopsis thaliana seedlings with
ammonium as the sole nitrogen source. Functional Plant Biology. 2015;42(3):239-251.
doi:10.1071/FP14171
apa: Yang, H., Von Der Fecht Bartenbach, J., Friml, J., Lohmann, J., Neuhäuser,
B., & Ludewig, U. (2015). Auxin-modulated root growth inhibition in Arabidopsis
thaliana seedlings with ammonium as the sole nitrogen source. Functional Plant
Biology. CSIRO. https://doi.org/10.1071/FP14171
chicago: Yang, Huaiyu, Jenny Von Der Fecht Bartenbach, Jiří Friml, Jan Lohmann,
Benjamin Neuhäuser, and Uwe Ludewig. “Auxin-Modulated Root Growth Inhibition in
Arabidopsis Thaliana Seedlings with Ammonium as the Sole Nitrogen Source.” Functional
Plant Biology. CSIRO, 2015. https://doi.org/10.1071/FP14171.
ieee: H. Yang, J. Von Der Fecht Bartenbach, J. Friml, J. Lohmann, B. Neuhäuser,
and U. Ludewig, “Auxin-modulated root growth inhibition in Arabidopsis thaliana
seedlings with ammonium as the sole nitrogen source,” Functional Plant Biology,
vol. 42, no. 3. CSIRO, pp. 239–251, 2015.
ista: Yang H, Von Der Fecht Bartenbach J, Friml J, Lohmann J, Neuhäuser B, Ludewig
U. 2015. Auxin-modulated root growth inhibition in Arabidopsis thaliana seedlings
with ammonium as the sole nitrogen source. Functional Plant Biology. 42(3), 239–251.
mla: Yang, Huaiyu, et al. “Auxin-Modulated Root Growth Inhibition in Arabidopsis
Thaliana Seedlings with Ammonium as the Sole Nitrogen Source.” Functional Plant
Biology, vol. 42, no. 3, CSIRO, 2015, pp. 239–51, doi:10.1071/FP14171.
short: H. Yang, J. Von Der Fecht Bartenbach, J. Friml, J. Lohmann, B. Neuhäuser,
U. Ludewig, Functional Plant Biology 42 (2015) 239–251.
date_created: 2018-12-11T11:52:34Z
date_published: 2015-03-01T00:00:00Z
date_updated: 2025-09-23T07:59:44Z
day: '01'
department:
- _id: JiFr
doi: 10.1071/FP14171
external_id:
isi:
- '000349635900003'
pmid:
- '32480670'
intvolume: ' 42'
isi: 1
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
page: 239 - 251
pmid: 1
publication: Functional Plant Biology
publication_identifier:
issn:
- 1445-4408
publication_status: published
publisher: CSIRO
publist_id: '5639'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Auxin-modulated root growth inhibition in Arabidopsis thaliana seedlings with
ammonium as the sole nitrogen source
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 42
year: '2015'
...
---
_id: '1534'
abstract:
- lang: eng
text: PIN proteins are auxin export carriers that direct intercellular auxin flow
and in turn regulate many aspects of plant growth and development including responses
to environmental changes. The Arabidopsis R2R3-MYB transcription factor FOUR LIPS
(FLP) and its paralogue MYB88 regulate terminal divisions during stomatal development,
as well as female reproductive development and stress responses. Here we show
that FLP and MYB88 act redundantly but differentially in regulating the transcription
of PIN3 and PIN7 in gravity-sensing cells of primary and lateral roots. On the
one hand, FLP is involved in responses to gravity stimulation in primary roots,
whereas on the other, FLP and MYB88 function complementarily in establishing the
gravitropic set-point angles of lateral roots. Our results support a model in
which FLP and MYB88 expression specifically determines the temporal-spatial patterns
of PIN3 and PIN7 transcription that are closely associated with their preferential
functions during root responses to gravity.
article_number: '8822'
article_processing_charge: No
author:
- first_name: Hongzhe
full_name: Wang, Hongzhe
last_name: Wang
- first_name: Kezhen
full_name: Yang, Kezhen
last_name: Yang
- first_name: Junjie
full_name: Zou, Junjie
last_name: Zou
- first_name: Lingling
full_name: Zhu, Lingling
last_name: Zhu
- first_name: Zidian
full_name: Xie, Zidian
last_name: Xie
- first_name: Miyoterao
full_name: Morita, Miyoterao
last_name: Morita
- first_name: Masao
full_name: Tasaka, Masao
last_name: Tasaka
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Erich
full_name: Grotewold, Erich
last_name: Grotewold
- first_name: Tom
full_name: Beeckman, Tom
last_name: Beeckman
- first_name: Steffen
full_name: Vanneste, Steffen
last_name: Vanneste
- first_name: Fred
full_name: Sack, Fred
last_name: Sack
- first_name: Jie
full_name: Le, Jie
last_name: Le
citation:
ama: Wang H, Yang K, Zou J, et al. Transcriptional regulation of PIN genes by FOUR
LIPS and MYB88 during Arabidopsis root gravitropism. Nature Communications.
2015;6. doi:10.1038/ncomms9822
apa: Wang, H., Yang, K., Zou, J., Zhu, L., Xie, Z., Morita, M., … Le, J. (2015).
Transcriptional regulation of PIN genes by FOUR LIPS and MYB88 during Arabidopsis
root gravitropism. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms9822
chicago: Wang, Hongzhe, Kezhen Yang, Junjie Zou, Lingling Zhu, Zidian Xie, Miyoterao
Morita, Masao Tasaka, et al. “Transcriptional Regulation of PIN Genes by FOUR
LIPS and MYB88 during Arabidopsis Root Gravitropism.” Nature Communications.
Nature Publishing Group, 2015. https://doi.org/10.1038/ncomms9822.
ieee: H. Wang et al., “Transcriptional regulation of PIN genes by FOUR LIPS
and MYB88 during Arabidopsis root gravitropism,” Nature Communications,
vol. 6. Nature Publishing Group, 2015.
ista: Wang H, Yang K, Zou J, Zhu L, Xie Z, Morita M, Tasaka M, Friml J, Grotewold
E, Beeckman T, Vanneste S, Sack F, Le J. 2015. Transcriptional regulation of PIN
genes by FOUR LIPS and MYB88 during Arabidopsis root gravitropism. Nature Communications.
6, 8822.
mla: Wang, Hongzhe, et al. “Transcriptional Regulation of PIN Genes by FOUR LIPS
and MYB88 during Arabidopsis Root Gravitropism.” Nature Communications,
vol. 6, 8822, Nature Publishing Group, 2015, doi:10.1038/ncomms9822.
short: H. Wang, K. Yang, J. Zou, L. Zhu, Z. Xie, M. Morita, M. Tasaka, J. Friml,
E. Grotewold, T. Beeckman, S. Vanneste, F. Sack, J. Le, Nature Communications
6 (2015).
date_created: 2018-12-11T11:52:34Z
date_published: 2015-11-18T00:00:00Z
date_updated: 2025-09-23T14:55:59Z
day: '18'
ddc:
- '570'
department:
- _id: JiFr
doi: 10.1038/ncomms9822
ec_funded: 1
external_id:
isi:
- '000366295500008'
file:
- access_level: open_access
checksum: 3c06735fc7cd7e482ca830cbd26001bf
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:17:07Z
date_updated: 2020-07-14T12:45:01Z
file_id: '5259'
file_name: IST-2016-485-v1+1_ncomms9822.pdf
file_size: 1852268
relation: main_file
file_date_updated: 2020-07-14T12:45:01Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5637'
pubrep_id: '485'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Transcriptional regulation of PIN genes by FOUR LIPS and MYB88 during Arabidopsis
root gravitropism
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 6
year: '2015'
...
---
_id: '1536'
abstract:
- lang: eng
text: Strigolactones, first discovered as germination stimulants for parasitic weeds
[1], are carotenoid-derived phytohormones that play major roles in inhibiting
lateral bud outgrowth and promoting plant-mycorrhizal symbiosis [2-4]. Furthermore,
strigolactones are involved in the regulation of lateral and adventitious root
development, root cell division [5, 6], secondary growth [7], and leaf senescence
[8]. Recently, we discovered the strigolactone transporter Petunia axillaris PLEIOTROPIC
DRUG RESISTANCE 1 (PaPDR1), which is required for efficient mycorrhizal colonization
and inhibition of lateral bud outgrowth [9]. However, how strigolactones are transported
through the plant remained unknown. Here we show that PaPDR1 exhibits a cell-type-specific
asymmetric localization in different root tissues. In root tips, PaPDR1 is co-expressed
with the strigolactone biosynthetic gene DAD1 (CCD8), and it is localized at the
apical membrane of root hypodermal cells, presumably mediating the shootward transport
of strigolactone. Above the root tip, in the hypodermal passage cells that form
gates for the entry of mycorrhizal fungi, PaPDR1 is present in the outer-lateral
membrane, compatible with its postulated function as strigolactone exporter from
root to soil. Transport studies are in line with our localization studies since
(1) a papdr1 mutant displays impaired transport of strigolactones out of the root
tip to the shoot as well as into the rhizosphere and (2) DAD1 expression and PIN1/PIN2
levels change in plants deregulated for PDR1 expression, suggestive of variations
in endogenous strigolactone contents. In conclusion, our results indicate that
the polar localizations of PaPDR1 mediate directional shootward strigolactone
transport as well as localized exudation into the soil.
acknowledgement: "This work was funded by a grant of the Swiss National Foundation
to E.M.\r\nWe thank Dr. José María Mateos (University of Zurich) for providing us
with the vibratome, Prof. Dolf Weijers (Wageningen University, the Netherlands)
for shipping us his set of ligation-independent cloning vectors, Prof. Bruno Humbel
(University of Lausanne) for suggestions on GFP-PDR1 detection, and Dr. Undine Krügel
(University of Zurich) and Prof. Michal Jasinski (Polish Academy of Science) for
hints on protein quantification."
article_processing_charge: No
author:
- first_name: Joëlle
full_name: Sasse, Joëlle
last_name: Sasse
- first_name: Sibu
full_name: Simon, Sibu
id: 4542EF9A-F248-11E8-B48F-1D18A9856A87
last_name: Simon
orcid: 0000-0002-1998-6741
- first_name: Christian
full_name: Gübeli, Christian
last_name: Gübeli
- first_name: Guowei
full_name: Liu, Guowei
last_name: Liu
- first_name: Xi
full_name: Cheng, Xi
last_name: Cheng
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Harro
full_name: Bouwmeester, Harro
last_name: Bouwmeester
- first_name: Enrico
full_name: Martinoia, Enrico
last_name: Martinoia
- first_name: Lorenzo
full_name: Borghi, Lorenzo
last_name: Borghi
citation:
ama: Sasse J, Simon S, Gübeli C, et al. Asymmetric localizations of the ABC transporter
PaPDR1 trace paths of directional strigolactone transport. Current Biology.
2015;25(5):647-655. doi:10.1016/j.cub.2015.01.015
apa: Sasse, J., Simon, S., Gübeli, C., Liu, G., Cheng, X., Friml, J., … Borghi,
L. (2015). Asymmetric localizations of the ABC transporter PaPDR1 trace paths
of directional strigolactone transport. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2015.01.015
chicago: Sasse, Joëlle, Sibu Simon, Christian Gübeli, Guowei Liu, Xi Cheng, Jiří
Friml, Harro Bouwmeester, Enrico Martinoia, and Lorenzo Borghi. “Asymmetric Localizations
of the ABC Transporter PaPDR1 Trace Paths of Directional Strigolactone Transport.”
Current Biology. Cell Press, 2015. https://doi.org/10.1016/j.cub.2015.01.015.
ieee: J. Sasse et al., “Asymmetric localizations of the ABC transporter PaPDR1
trace paths of directional strigolactone transport,” Current Biology, vol.
25, no. 5. Cell Press, pp. 647–655, 2015.
ista: Sasse J, Simon S, Gübeli C, Liu G, Cheng X, Friml J, Bouwmeester H, Martinoia
E, Borghi L. 2015. Asymmetric localizations of the ABC transporter PaPDR1 trace
paths of directional strigolactone transport. Current Biology. 25(5), 647–655.
mla: Sasse, Joëlle, et al. “Asymmetric Localizations of the ABC Transporter PaPDR1
Trace Paths of Directional Strigolactone Transport.” Current Biology, vol.
25, no. 5, Cell Press, 2015, pp. 647–55, doi:10.1016/j.cub.2015.01.015.
short: J. Sasse, S. Simon, C. Gübeli, G. Liu, X. Cheng, J. Friml, H. Bouwmeester,
E. Martinoia, L. Borghi, Current Biology 25 (2015) 647–655.
date_created: 2018-12-11T11:52:35Z
date_published: 2015-02-12T00:00:00Z
date_updated: 2025-09-23T07:57:02Z
day: '12'
department:
- _id: JiFr
doi: 10.1016/j.cub.2015.01.015
external_id:
isi:
- '000350708800029'
intvolume: ' 25'
isi: 1
issue: '5'
language:
- iso: eng
month: '02'
oa_version: None
page: 647 - 655
publication: Current Biology
publication_status: published
publisher: Cell Press
publist_id: '5635'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Asymmetric localizations of the ABC transporter PaPDR1 trace paths of directional
strigolactone transport
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 25
year: '2015'
...
---
_id: '1543'
abstract:
- lang: eng
text: A plethora of diverse programmed cell death (PCD) processes has been described
in living organisms. In animals and plants, different forms of PCD play crucial
roles in development, immunity, and responses to the environment. While the molecular
control of some animal PCD forms such as apoptosis is known in great detail, we
still know comparatively little about the regulation of the diverse types of plant
PCD. In part, this deficiency in molecular understanding is caused by the lack
of reliable reporters to detect PCD processes. Here, we addressed this issue by
using a combination of bioinformatics approaches to identify commonly regulated
genes during diverse plant PCD processes in Arabidopsis (Arabidopsis thaliana).
Our results indicate that the transcriptional signatures of developmentally controlled
cell death are largely distinct from the ones associated with environmentally
induced cell death. Moreover, different cases of developmental PCD share a set
of cell death-associated genes. Most of these genes are evolutionary conserved
within the green plant lineage, arguing for an evolutionary conserved core machinery
of developmental PCD. Based on this information, we established an array of specific
promoter-reporter lines for developmental PCD in Arabidopsis. These PCD indicators
represent a powerful resource that can be used in addition to established morphological
and biochemical methods to detect and analyze PCD processes in vivo and in planta.
article_processing_charge: No
author:
- first_name: Yadira
full_name: Olvera Carrillo, Yadira
last_name: Olvera Carrillo
- first_name: Michiel
full_name: Van Bel, Michiel
last_name: Van Bel
- first_name: Tom
full_name: Van Hautegem, Tom
last_name: Van Hautegem
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: Marlies
full_name: Huysmans, Marlies
last_name: Huysmans
- first_name: Mária
full_name: Šimášková, Mária
last_name: Šimášková
- first_name: Matthias
full_name: Van Durme, Matthias
last_name: Van Durme
- first_name: Pierre
full_name: Buscaill, Pierre
last_name: Buscaill
- first_name: Susana
full_name: Rivas, Susana
last_name: Rivas
- first_name: Núria
full_name: Coll, Núria
last_name: Coll
- first_name: Frederik
full_name: Coppens, Frederik
last_name: Coppens
- first_name: Steven
full_name: Maere, Steven
last_name: Maere
- first_name: Moritz
full_name: Nowack, Moritz
last_name: Nowack
citation:
ama: Olvera Carrillo Y, Van Bel M, Van Hautegem T, et al. A conserved core of programmed
cell death indicator genes discriminates developmentally and environmentally induced
programmed cell death in plants. Plant Physiology. 2015;169(4):2684-2699.
doi:10.1104/pp.15.00769
apa: Olvera Carrillo, Y., Van Bel, M., Van Hautegem, T., Fendrych, M., Huysmans,
M., Šimášková, M., … Nowack, M. (2015). A conserved core of programmed cell death
indicator genes discriminates developmentally and environmentally induced programmed
cell death in plants. Plant Physiology. American Society of Plant Biologists.
https://doi.org/10.1104/pp.15.00769
chicago: Olvera Carrillo, Yadira, Michiel Van Bel, Tom Van Hautegem, Matyas Fendrych,
Marlies Huysmans, Mária Šimášková, Matthias Van Durme, et al. “A Conserved Core
of Programmed Cell Death Indicator Genes Discriminates Developmentally and Environmentally
Induced Programmed Cell Death in Plants.” Plant Physiology. American Society
of Plant Biologists, 2015. https://doi.org/10.1104/pp.15.00769.
ieee: Y. Olvera Carrillo et al., “A conserved core of programmed cell death
indicator genes discriminates developmentally and environmentally induced programmed
cell death in plants,” Plant Physiology, vol. 169, no. 4. American Society
of Plant Biologists, pp. 2684–2699, 2015.
ista: Olvera Carrillo Y, Van Bel M, Van Hautegem T, Fendrych M, Huysmans M, Šimášková
M, Van Durme M, Buscaill P, Rivas S, Coll N, Coppens F, Maere S, Nowack M. 2015.
A conserved core of programmed cell death indicator genes discriminates developmentally
and environmentally induced programmed cell death in plants. Plant Physiology.
169(4), 2684–2699.
mla: Olvera Carrillo, Yadira, et al. “A Conserved Core of Programmed Cell Death
Indicator Genes Discriminates Developmentally and Environmentally Induced Programmed
Cell Death in Plants.” Plant Physiology, vol. 169, no. 4, American Society
of Plant Biologists, 2015, pp. 2684–99, doi:10.1104/pp.15.00769.
short: Y. Olvera Carrillo, M. Van Bel, T. Van Hautegem, M. Fendrych, M. Huysmans,
M. Šimášková, M. Van Durme, P. Buscaill, S. Rivas, N. Coll, F. Coppens, S. Maere,
M. Nowack, Plant Physiology 169 (2015) 2684–2699.
date_created: 2018-12-11T11:52:38Z
date_published: 2015-12-01T00:00:00Z
date_updated: 2025-09-22T14:28:43Z
day: '01'
department:
- _id: JiFr
doi: 10.1104/pp.15.00769
external_id:
isi:
- '000368472700025'
intvolume: ' 169'
isi: 1
issue: '4'
language:
- iso: eng
month: '12'
oa_version: None
page: 2684 - 2699
publication: Plant Physiology
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '5628'
scopus_import: '1'
status: public
title: A conserved core of programmed cell death indicator genes discriminates developmentally
and environmentally induced programmed cell death in plants
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 169
year: '2015'
...
---
_id: '1554'
abstract:
- lang: eng
text: The visualization of hormonal signaling input and output is key to understanding
how multicellular development is regulated. The plant signaling molecule auxin
triggers many growth and developmental responses, but current tools lack the sensitivity
or precision to visualize these. We developed a set of fluorescent reporters that
allow sensitive and semiquantitative readout of auxin responses at cellular resolution
in Arabidopsis thaliana. These generic tools are suitable for any transformable
plant species.
article_processing_charge: No
author:
- first_name: Cheyang
full_name: Liao, Cheyang
last_name: Liao
- first_name: Wouter
full_name: Smet, Wouter
last_name: Smet
- first_name: Géraldine
full_name: Brunoud, Géraldine
last_name: Brunoud
- first_name: Saiko
full_name: Yoshida, Saiko
id: 2E46069C-F248-11E8-B48F-1D18A9856A87
last_name: Yoshida
- first_name: Teva
full_name: Vernoux, Teva
last_name: Vernoux
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
citation:
ama: Liao C, Smet W, Brunoud G, Yoshida S, Vernoux T, Weijers D. Reporters for sensitive
and quantitative measurement of auxin response. Nature Methods. 2015;12(3):207-210.
doi:10.1038/nmeth.3279
apa: Liao, C., Smet, W., Brunoud, G., Yoshida, S., Vernoux, T., & Weijers, D.
(2015). Reporters for sensitive and quantitative measurement of auxin response.
Nature Methods. Nature Publishing Group. https://doi.org/10.1038/nmeth.3279
chicago: Liao, Cheyang, Wouter Smet, Géraldine Brunoud, Saiko Yoshida, Teva Vernoux,
and Dolf Weijers. “Reporters for Sensitive and Quantitative Measurement of Auxin
Response.” Nature Methods. Nature Publishing Group, 2015. https://doi.org/10.1038/nmeth.3279.
ieee: C. Liao, W. Smet, G. Brunoud, S. Yoshida, T. Vernoux, and D. Weijers, “Reporters
for sensitive and quantitative measurement of auxin response,” Nature Methods,
vol. 12, no. 3. Nature Publishing Group, pp. 207–210, 2015.
ista: Liao C, Smet W, Brunoud G, Yoshida S, Vernoux T, Weijers D. 2015. Reporters
for sensitive and quantitative measurement of auxin response. Nature Methods.
12(3), 207–210.
mla: Liao, Cheyang, et al. “Reporters for Sensitive and Quantitative Measurement
of Auxin Response.” Nature Methods, vol. 12, no. 3, Nature Publishing Group,
2015, pp. 207–10, doi:10.1038/nmeth.3279.
short: C. Liao, W. Smet, G. Brunoud, S. Yoshida, T. Vernoux, D. Weijers, Nature
Methods 12 (2015) 207–210.
date_created: 2018-12-11T11:52:41Z
date_published: 2015-02-26T00:00:00Z
date_updated: 2025-09-23T10:34:32Z
day: '26'
department:
- _id: JiFr
doi: 10.1038/nmeth.3279
external_id:
isi:
- '000350670300017'
pmid:
- '25643149'
intvolume: ' 12'
isi: 1
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4344836/
month: '02'
oa: 1
oa_version: Submitted Version
page: 207 - 210
pmid: 1
publication: Nature Methods
publication_status: published
publisher: Nature Publishing Group
publist_id: '5617'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Reporters for sensitive and quantitative measurement of auxin response
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 12
year: '2015'
...
---
_id: '1556'
abstract:
- lang: eng
text: The elongator complex subunit 2 (ELP2) protein, one subunit of an evolutionarily
conserved histone acetyltransferase complex, has been shown to participate in
leaf patterning, plant immune and abiotic stress responses in Arabidopsis thaliana.
Here, its role in root development was explored. Compared to the wild type, the
elp2 mutant exhibited an accelerated differentiation of its root stem cells and
cell division was more active in its quiescent centre (QC). The key transcription
factors responsible for maintaining root stem cell and QC identity, such as AP2
transcription factors PLT1 (PLETHORA1) and PLT2 (PLETHORA2), GRAS transcription
factors such as SCR (SCARECROW) and SHR (SHORT ROOT) and WUSCHEL-RELATED HOMEOBOX5
transcription factor WOX5, were all strongly down-regulated in the mutant. On
the other hand, expression of the G2/M transition activator CYCB1 was substantially
induced in elp2. The auxin efflux transporters PIN1 and PIN2 showed decreased
protein levels and PIN1 also displayed mild polarity alterations in elp2, which
resulted in a reduced auxin content in the root tip. Either the acetylation or
methylation level of each of these genes differed between the mutant and the wild
type, suggesting that the ELP2 regulation of root development involves the epigenetic
modification of a range of transcription factors and other developmental regulators.
article_processing_charge: No
author:
- first_name: Yuebin
full_name: Jia, Yuebin
last_name: Jia
- first_name: Huiyu
full_name: Tian, Huiyu
last_name: Tian
- first_name: Hongjiang
full_name: Li, Hongjiang
id: 33CA54A6-F248-11E8-B48F-1D18A9856A87
last_name: Li
orcid: 0000-0001-5039-9660
- first_name: Qianqian
full_name: Yu, Qianqian
last_name: Yu
- first_name: Lei
full_name: Wang, Lei
last_name: Wang
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Zhaojun
full_name: Ding, Zhaojun
last_name: Ding
citation:
ama: Jia Y, Tian H, Li H, et al. The Arabidopsis thaliana elongator complex subunit
2 epigenetically affects root development. Journal of Experimental Botany.
2015;66(15):4631-4642. doi:10.1093/jxb/erv230
apa: Jia, Y., Tian, H., Li, H., Yu, Q., Wang, L., Friml, J., & Ding, Z. (2015).
The Arabidopsis thaliana elongator complex subunit 2 epigenetically affects root
development. Journal of Experimental Botany. Oxford University Press. https://doi.org/10.1093/jxb/erv230
chicago: Jia, Yuebin, Huiyu Tian, Hongjiang Li, Qianqian Yu, Lei Wang, Jiří Friml,
and Zhaojun Ding. “The Arabidopsis Thaliana Elongator Complex Subunit 2 Epigenetically
Affects Root Development.” Journal of Experimental Botany. Oxford University
Press, 2015. https://doi.org/10.1093/jxb/erv230.
ieee: Y. Jia et al., “The Arabidopsis thaliana elongator complex subunit
2 epigenetically affects root development,” Journal of Experimental Botany,
vol. 66, no. 15. Oxford University Press, pp. 4631–4642, 2015.
ista: Jia Y, Tian H, Li H, Yu Q, Wang L, Friml J, Ding Z. 2015. The Arabidopsis
thaliana elongator complex subunit 2 epigenetically affects root development.
Journal of Experimental Botany. 66(15), 4631–4642.
mla: Jia, Yuebin, et al. “The Arabidopsis Thaliana Elongator Complex Subunit 2 Epigenetically
Affects Root Development.” Journal of Experimental Botany, vol. 66, no.
15, Oxford University Press, 2015, pp. 4631–42, doi:10.1093/jxb/erv230.
short: Y. Jia, H. Tian, H. Li, Q. Yu, L. Wang, J. Friml, Z. Ding, Journal of Experimental
Botany 66 (2015) 4631–4642.
date_created: 2018-12-11T11:52:42Z
date_published: 2015-08-01T00:00:00Z
date_updated: 2025-09-23T13:42:27Z
day: '01'
ddc:
- '570'
department:
- _id: JiFr
doi: 10.1093/jxb/erv230
external_id:
isi:
- '000359687400017'
file:
- access_level: open_access
checksum: 257919be0ce3d306185d3891ad7acf39
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:02Z
date_updated: 2020-07-14T12:45:02Z
file_id: '5051'
file_name: IST-2016-480-v1+1_J._Exp._Bot.-2015-Jia-4631-42.pdf
file_size: 7753043
relation: main_file
file_date_updated: 2020-07-14T12:45:02Z
has_accepted_license: '1'
intvolume: ' 66'
isi: 1
issue: '15'
language:
- iso: eng
month: '08'
oa: 1
oa_version: Published Version
page: 4631 - 4642
publication: Journal of Experimental Botany
publication_status: published
publisher: Oxford University Press
publist_id: '5615'
pubrep_id: '480'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Arabidopsis thaliana elongator complex subunit 2 epigenetically affects
root development
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 66
year: '2015'
...
---
_id: '1558'
abstract:
- lang: eng
text: CyclophilinAis a conserved peptidyl-prolyl cis-trans isomerase (PPIase) best
known as the cellular receptor of the immunosuppressant cyclosporine A. Despite
significant effort, evidence of developmental functions of cyclophilin A in non-plant
systems has remained obscure. Mutations in a tomato (Solanum lycopersicum) cyclophilin
A ortholog, DIAGEOTROPICA (DGT), have been shown to abolish the organogenesis
of lateral roots; however, a mechanistic explanation of the phenotype is lacking.
Here, we show that the dgt mutant lacks auxin maxima relevant to priming and specification
of lateral root founder cells. DGT is expressed in shoot and root, and localizes
to both the nucleus and cytoplasm during lateral root organogenesis. Mutation
of ENTIRE/ IAA9, a member of the auxin-responsive Aux/IAA protein family of transcriptional
repressors, partially restores the inability of dgt to initiate lateral root primordia
but not the primordia outgrowth. By comparison, grafting of a wild-type scion
restores the process of lateral root formation, consistent with participation
of a mobile signal. Antibodies do not detect movement of the DGT protein into
the dgt rootstock; however, experiments with radiolabeled auxin and an auxin-specific
microelectrode demonstrate abnormal auxin fluxes. Functional studies of DGT in
heterologous yeast and tobacco-leaf auxin-transport systems demonstrate that DGT
negatively regulates PIN-FORMED (PIN) auxin efflux transporters by affecting their
plasma membrane localization. Studies in tomato support complex effects of the
dgt mutation on PIN expression level, expression domain and plasma membrane localization.
Our data demonstrate that DGT regulates auxin transport in lateral root formation.
article_processing_charge: No
author:
- first_name: Maria
full_name: Ivanchenko, Maria
last_name: Ivanchenko
- first_name: Jinsheng
full_name: Zhu, Jinsheng
last_name: Zhu
- first_name: Bangjun
full_name: Wang, Bangjun
last_name: Wang
- first_name: Eva
full_name: Medvecka, Eva
id: 298814E2-F248-11E8-B48F-1D18A9856A87
last_name: Medvecka
- first_name: Yunlong
full_name: Du, Yunlong
last_name: Du
- first_name: Elisa
full_name: Azzarello, Elisa
last_name: Azzarello
- first_name: Stefano
full_name: Mancuso, Stefano
last_name: Mancuso
- first_name: Molly
full_name: Megraw, Molly
last_name: Megraw
- first_name: Sergei
full_name: Filichkin, Sergei
last_name: Filichkin
- first_name: Joseph
full_name: Dubrovsky, Joseph
last_name: Dubrovsky
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Markus
full_name: Geisler, Markus
last_name: Geisler
citation:
ama: Ivanchenko M, Zhu J, Wang B, et al. The cyclophilin a DIAGEOTROPICA gene affects
auxin transport in both root and shoot to control lateral root formation. Development.
2015;142(4):712-721. doi:10.1242/dev.113225
apa: Ivanchenko, M., Zhu, J., Wang, B., Medvecka, E., Du, Y., Azzarello, E., … Geisler,
M. (2015). The cyclophilin a DIAGEOTROPICA gene affects auxin transport in both
root and shoot to control lateral root formation. Development. Company
of Biologists. https://doi.org/10.1242/dev.113225
chicago: Ivanchenko, Maria, Jinsheng Zhu, Bangjun Wang, Eva Medvecka, Yunlong Du,
Elisa Azzarello, Stefano Mancuso, et al. “The Cyclophilin a DIAGEOTROPICA Gene
Affects Auxin Transport in Both Root and Shoot to Control Lateral Root Formation.”
Development. Company of Biologists, 2015. https://doi.org/10.1242/dev.113225.
ieee: M. Ivanchenko et al., “The cyclophilin a DIAGEOTROPICA gene affects
auxin transport in both root and shoot to control lateral root formation,” Development,
vol. 142, no. 4. Company of Biologists, pp. 712–721, 2015.
ista: Ivanchenko M, Zhu J, Wang B, Medvecka E, Du Y, Azzarello E, Mancuso S, Megraw
M, Filichkin S, Dubrovsky J, Friml J, Geisler M. 2015. The cyclophilin a DIAGEOTROPICA
gene affects auxin transport in both root and shoot to control lateral root formation.
Development. 142(4), 712–721.
mla: Ivanchenko, Maria, et al. “The Cyclophilin a DIAGEOTROPICA Gene Affects Auxin
Transport in Both Root and Shoot to Control Lateral Root Formation.” Development,
vol. 142, no. 4, Company of Biologists, 2015, pp. 712–21, doi:10.1242/dev.113225.
short: M. Ivanchenko, J. Zhu, B. Wang, E. Medvecka, Y. Du, E. Azzarello, S. Mancuso,
M. Megraw, S. Filichkin, J. Dubrovsky, J. Friml, M. Geisler, Development 142 (2015)
712–721.
date_created: 2018-12-11T11:52:42Z
date_published: 2015-02-15T00:00:00Z
date_updated: 2025-09-23T13:49:06Z
day: '15'
department:
- _id: JiFr
doi: 10.1242/dev.113225
external_id:
isi:
- '000351697100012'
intvolume: ' 142'
isi: 1
issue: '4'
language:
- iso: eng
month: '02'
oa_version: None
page: 712 - 721
publication: Development
publication_status: published
publisher: Company of Biologists
publist_id: '5613'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The cyclophilin a DIAGEOTROPICA gene affects auxin transport in both root and
shoot to control lateral root formation
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 142
year: '2015'
...
---
_id: '1562'
abstract:
- lang: eng
text: The plant hormone auxin is a key regulator of plant growth and development.
Auxin levels are sensed and interpreted by distinct receptor systems that activate
a broad range of cellular responses. The Auxin-Binding Protein1 (ABP1) that has
been identified based on its ability to bind auxin with high affinity is a prime
candidate for the extracellular receptor responsible for mediating a range of
auxin effects, in particular, the fast non-transcriptional ones. Contradictory
genetic studies suggested prominent or no importance of ABP1 in many developmental
processes. However, how crucial the role of auxin binding to ABP1 is for its functions
has not been addressed. Here, we show that the auxin-binding pocket of ABP1 is
essential for its gain-of-function cellular and developmental roles. In total,
16 different abp1 mutants were prepared that possessed substitutions in the metal
core or in the hydrophobic amino acids of the auxin-binding pocket as well as
neutral mutations. Their analysis revealed that an intact auxin-binding pocket
is a prerequisite for ABP1 to activate downstream components of the ABP1 signalling
pathway, such as Rho of Plants (ROPs) and to mediate the clathrin association
with membranes for endocytosis regulation. In planta analyses demonstrated the
importance of the auxin binding pocket for all known ABP1-mediated postembryonic
developmental processes, including morphology of leaf epidermal cells, root growth
and root meristem activity, and vascular tissue differentiation. Taken together,
these findings suggest that auxin binding to ABP1 is central to its function,
supporting the role of ABP1 as auxin receptor.
acknowledgement: This work was supported by ERC Independent Research grant (ERC-2011-StG-
20101109-PSDP to JF); the European Social Fund and the state budget of the Czech
Republic [the project ‘Employment of Newly Graduated Doctors of Science for Scientific
Excellence’ (CZ.1.07/2.3.00/30.0009) to TN]; the Czech Science Foundation (GACR)
[project 13-40637S to JF].
article_processing_charge: No
article_type: original
author:
- first_name: Peter
full_name: Grones, Peter
id: 399876EC-F248-11E8-B48F-1D18A9856A87
last_name: Grones
- first_name: Xu
full_name: Chen, Xu
id: 4E5ADCAA-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Sibu
full_name: Simon, Sibu
id: 4542EF9A-F248-11E8-B48F-1D18A9856A87
last_name: Simon
orcid: 0000-0002-1998-6741
- first_name: Walter
full_name: Kaufmann, Walter
id: 3F99E422-F248-11E8-B48F-1D18A9856A87
last_name: Kaufmann
orcid: 0000-0001-9735-5315
- first_name: Riet
full_name: De Rycke, Riet
last_name: De Rycke
- first_name: Tomasz
full_name: Nodzyński, Tomasz
last_name: Nodzyński
- first_name: Eva
full_name: Zažímalová, Eva
last_name: Zažímalová
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Grones P, Chen X, Simon S, et al. Auxin-binding pocket of ABP1 is crucial for
its gain-of-function cellular and developmental roles. Journal of Experimental
Botany. 2015;66(16):5055-5065. doi:10.1093/jxb/erv177
apa: Grones, P., Chen, X., Simon, S., Kaufmann, W., De Rycke, R., Nodzyński, T.,
… Friml, J. (2015). Auxin-binding pocket of ABP1 is crucial for its gain-of-function
cellular and developmental roles. Journal of Experimental Botany. Oxford
University Press. https://doi.org/10.1093/jxb/erv177
chicago: Grones, Peter, Xu Chen, Sibu Simon, Walter Kaufmann, Riet De Rycke, Tomasz
Nodzyński, Eva Zažímalová, and Jiří Friml. “Auxin-Binding Pocket of ABP1 Is Crucial
for Its Gain-of-Function Cellular and Developmental Roles.” Journal of Experimental
Botany. Oxford University Press, 2015. https://doi.org/10.1093/jxb/erv177.
ieee: P. Grones et al., “Auxin-binding pocket of ABP1 is crucial for its
gain-of-function cellular and developmental roles,” Journal of Experimental
Botany, vol. 66, no. 16. Oxford University Press, pp. 5055–5065, 2015.
ista: Grones P, Chen X, Simon S, Kaufmann W, De Rycke R, Nodzyński T, Zažímalová
E, Friml J. 2015. Auxin-binding pocket of ABP1 is crucial for its gain-of-function
cellular and developmental roles. Journal of Experimental Botany. 66(16), 5055–5065.
mla: Grones, Peter, et al. “Auxin-Binding Pocket of ABP1 Is Crucial for Its Gain-of-Function
Cellular and Developmental Roles.” Journal of Experimental Botany, vol.
66, no. 16, Oxford University Press, 2015, pp. 5055–65, doi:10.1093/jxb/erv177.
short: P. Grones, X. Chen, S. Simon, W. Kaufmann, R. De Rycke, T. Nodzyński, E.
Zažímalová, J. Friml, Journal of Experimental Botany 66 (2015) 5055–5065.
corr_author: '1'
date_created: 2018-12-11T11:52:44Z
date_published: 2015-08-01T00:00:00Z
date_updated: 2025-09-23T07:59:07Z
day: '01'
department:
- _id: JiFr
- _id: EM-Fac
doi: 10.1093/jxb/erv177
ec_funded: 1
external_id:
isi:
- '000359688300017'
intvolume: ' 66'
isi: 1
issue: '16'
language:
- iso: eng
month: '08'
oa_version: None
page: 5055 - 5065
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: Journal of Experimental Botany
publication_status: published
publisher: Oxford University Press
publist_id: '5609'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Auxin-binding pocket of ABP1 is crucial for its gain-of-function cellular and
developmental roles
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 66
year: '2015'
...
---
_id: '1569'
abstract:
- lang: eng
text: Spatial regulation of the plant hormone indole-3-acetic acid (IAA, or auxin)
is essential for plant development. Auxin gradient establishment is mediated by
polarly localized auxin transporters, including PIN-FORMED (PIN) proteins. Their
localization and abundance at the plasma membrane are tightly regulated by endomembrane
machinery, especially the endocytic and recycling pathways mediated by the ADP
ribosylation factor guanine nucleotide exchange factor (ARF-GEF) GNOM. We assessed
the role of the early secretory pathway in establishing PIN1 polarity in Arabidopsis
thaliana by pharmacological and genetic approaches. We identified the compound
endosidin 8 (ES8), which selectively interferes with PIN1 basal polarity without
altering the polarity of apical proteins. ES8 alters the auxin distribution pattern
in the root and induces a strong developmental phenotype, including reduced root
length. The ARF-GEF- defective mutants gnom-like 1 ( gnl1-1) and gnom ( van7)
are significantly resistant to ES8. The compound does not affect recycling or
vacuolar trafficking of PIN1 but leads to its intracellular accumulation, resulting
in loss of PIN1 basal polarity at the plasma membrane. Our data confirm a role
for GNOM in endoplasmic reticulum (ER) - Golgi trafficking and reveal that a GNL1/GNOM-mediated
early secretory pathway selectively regulates PIN1 basal polarity establishment
in a manner essential for normal plant development.
acknowledgement: 'This work was supported by Vetenskapsrådet and Vinnova (Verket för
Innovationssystemet) (S.M.D., T.V., M.Ł., and S.R.), Knut och Alice Wallenbergs
Stiftelse (S.M.D., A.R., and C.V.), Kempestiftelserna (A.H. and Q.M.), Carl Tryggers
Stiftelse för Vetenskaplig Forskning (Q.M.), European Research Council Grant ERC-2011-StG-20101109-PSDP
(to J.F.), US Department of Energy Grant DE-FG02-02ER15295 (to N.V.R.), and National
Science Foundation Grant MCB-0817916 (to N.V.R. and G.R.H.). '
article_processing_charge: No
author:
- first_name: Siamsa
full_name: Doyle, Siamsa
last_name: Doyle
- first_name: Ash
full_name: Haegera, Ash
last_name: Haegera
- first_name: Thomas
full_name: Vain, Thomas
last_name: Vain
- first_name: Adeline
full_name: Rigala, Adeline
last_name: Rigala
- first_name: Corrado
full_name: Viotti, Corrado
last_name: Viotti
- first_name: Małgorzata
full_name: Łangowskaa, Małgorzata
last_name: Łangowskaa
- first_name: Qian
full_name: Maa, Qian
last_name: Maa
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Natasha
full_name: Raikhel, Natasha
last_name: Raikhel
- first_name: Glenn
full_name: Hickse, Glenn
last_name: Hickse
- first_name: Stéphanie
full_name: Robert, Stéphanie
last_name: Robert
citation:
ama: Doyle S, Haegera A, Vain T, et al. An early secretory pathway mediated by gnom-like
1 and gnom is essential for basal polarity establishment in Arabidopsis thaliana.
PNAS. 2015;112(7):E806-E815. doi:10.1073/pnas.1424856112
apa: Doyle, S., Haegera, A., Vain, T., Rigala, A., Viotti, C., Łangowskaa, M., …
Robert, S. (2015). An early secretory pathway mediated by gnom-like 1 and gnom
is essential for basal polarity establishment in Arabidopsis thaliana. PNAS.
National Academy of Sciences. https://doi.org/10.1073/pnas.1424856112
chicago: Doyle, Siamsa, Ash Haegera, Thomas Vain, Adeline Rigala, Corrado Viotti,
Małgorzata Łangowskaa, Qian Maa, et al. “An Early Secretory Pathway Mediated by
Gnom-like 1 and Gnom Is Essential for Basal Polarity Establishment in Arabidopsis
Thaliana.” PNAS. National Academy of Sciences, 2015. https://doi.org/10.1073/pnas.1424856112.
ieee: S. Doyle et al., “An early secretory pathway mediated by gnom-like
1 and gnom is essential for basal polarity establishment in Arabidopsis thaliana,”
PNAS, vol. 112, no. 7. National Academy of Sciences, pp. E806–E815, 2015.
ista: Doyle S, Haegera A, Vain T, Rigala A, Viotti C, Łangowskaa M, Maa Q, Friml
J, Raikhel N, Hickse G, Robert S. 2015. An early secretory pathway mediated by
gnom-like 1 and gnom is essential for basal polarity establishment in Arabidopsis
thaliana. PNAS. 112(7), E806–E815.
mla: Doyle, Siamsa, et al. “An Early Secretory Pathway Mediated by Gnom-like 1 and
Gnom Is Essential for Basal Polarity Establishment in Arabidopsis Thaliana.” PNAS,
vol. 112, no. 7, National Academy of Sciences, 2015, pp. E806–15, doi:10.1073/pnas.1424856112.
short: S. Doyle, A. Haegera, T. Vain, A. Rigala, C. Viotti, M. Łangowskaa, Q. Maa,
J. Friml, N. Raikhel, G. Hickse, S. Robert, PNAS 112 (2015) E806–E815.
date_created: 2018-12-11T11:52:46Z
date_published: 2015-02-17T00:00:00Z
date_updated: 2026-06-18T17:48:36Z
day: '17'
ddc:
- '580'
department:
- _id: JiFr
doi: 10.1073/pnas.1424856112
ec_funded: 1
external_id:
isi:
- '000349446000025'
intvolume: ' 112'
isi: 1
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4343110/
month: '02'
oa: 1
oa_version: Published Version
page: E806 - E815
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '5602'
quality_controlled: '1'
scopus_import: '1'
status: public
title: An early secretory pathway mediated by gnom-like 1 and gnom is essential for
basal polarity establishment in Arabidopsis thaliana
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 112
year: '2015'
...
---
_id: '1574'
abstract:
- lang: eng
text: Multiple plant developmental processes, such as lateral root development,
depend on auxin distribution patterns that are in part generated by the PIN-formed
family of auxin-efflux transporters. Here we propose that AUXIN RESPONSE FACTOR7
(ARF7) and the ARF7-regulated FOUR LIPS/MYB124 (FLP) transcription factors jointly
form a coherent feed-forward motif that mediates the auxin-responsive PIN3 transcription
in planta to steer the early steps of lateral root formation. This regulatory
mechanism might endow the PIN3 circuitry with a temporal 'memory' of auxin stimuli,
potentially maintaining and enhancing the robustness of the auxin flux directionality
during lateral root development. The cooperative action between canonical auxin
signalling and other transcription factors might constitute a general mechanism
by which transcriptional auxin-sensitivity can be regulated at a tissue-specific
level.
acknowledgement: 'of the European Research Council (project ERC-2011-StG-20101109-PSDP)
(to J.F.), a FEBS long-term fellowship (to P.M.) '
article_number: '8821'
article_processing_charge: No
author:
- first_name: Qian
full_name: Chen, Qian
last_name: Chen
- first_name: Yang
full_name: Liu, Yang
last_name: Liu
- first_name: Steven
full_name: Maere, Steven
last_name: Maere
- first_name: Eunkyoung
full_name: Lee, Eunkyoung
last_name: Lee
- first_name: Gert
full_name: Van Isterdael, Gert
last_name: Van Isterdael
- first_name: Zidian
full_name: Xie, Zidian
last_name: Xie
- first_name: Wei
full_name: Xuan, Wei
last_name: Xuan
- first_name: Jessica
full_name: Lucas, Jessica
last_name: Lucas
- first_name: Valya
full_name: Vassileva, Valya
last_name: Vassileva
- first_name: Saeko
full_name: Kitakura, Saeko
last_name: Kitakura
- first_name: Peter
full_name: Marhavy, Peter
id: 3F45B078-F248-11E8-B48F-1D18A9856A87
last_name: Marhavy
orcid: 0000-0001-5227-5741
- 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: Niko
full_name: Geldner, Niko
last_name: Geldner
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
- first_name: Jie
full_name: Le, Jie
last_name: Le
- first_name: Hidehiro
full_name: Fukaki, Hidehiro
last_name: Fukaki
- first_name: Erich
full_name: Grotewold, Erich
last_name: Grotewold
- first_name: Chuanyou
full_name: Li, Chuanyou
last_name: Li
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Fred
full_name: Sack, Fred
last_name: Sack
- first_name: Tom
full_name: Beeckman, Tom
last_name: Beeckman
- first_name: Steffen
full_name: Vanneste, Steffen
last_name: Vanneste
citation:
ama: Chen Q, Liu Y, Maere S, et al. A coherent transcriptional feed-forward motif
model for mediating auxin-sensitive PIN3 expression during lateral root development.
Nature Communications. 2015;6. doi:10.1038/ncomms9821
apa: Chen, Q., Liu, Y., Maere, S., Lee, E., Van Isterdael, G., Xie, Z., … Vanneste,
S. (2015). A coherent transcriptional feed-forward motif model for mediating auxin-sensitive
PIN3 expression during lateral root development. Nature Communications.
Nature Publishing Group. https://doi.org/10.1038/ncomms9821
chicago: Chen, Qian, Yang Liu, Steven Maere, Eunkyoung Lee, Gert Van Isterdael,
Zidian Xie, Wei Xuan, et al. “A Coherent Transcriptional Feed-Forward Motif Model
for Mediating Auxin-Sensitive PIN3 Expression during Lateral Root Development.”
Nature Communications. Nature Publishing Group, 2015. https://doi.org/10.1038/ncomms9821.
ieee: Q. Chen et al., “A coherent transcriptional feed-forward motif model
for mediating auxin-sensitive PIN3 expression during lateral root development,”
Nature Communications, vol. 6. Nature Publishing Group, 2015.
ista: Chen Q, Liu Y, Maere S, Lee E, Van Isterdael G, Xie Z, Xuan W, Lucas J, Vassileva
V, Kitakura S, Marhavý P, Wabnik KT, Geldner N, Benková E, Le J, Fukaki H, Grotewold
E, Li C, Friml J, Sack F, Beeckman T, Vanneste S. 2015. A coherent transcriptional
feed-forward motif model for mediating auxin-sensitive PIN3 expression during
lateral root development. Nature Communications. 6, 8821.
mla: Chen, Qian, et al. “A Coherent Transcriptional Feed-Forward Motif Model for
Mediating Auxin-Sensitive PIN3 Expression during Lateral Root Development.” Nature
Communications, vol. 6, 8821, Nature Publishing Group, 2015, doi:10.1038/ncomms9821.
short: Q. Chen, Y. Liu, S. Maere, E. Lee, G. Van Isterdael, Z. Xie, W. Xuan, J.
Lucas, V. Vassileva, S. Kitakura, P. Marhavý, K.T. Wabnik, N. Geldner, E. Benková,
J. Le, H. Fukaki, E. Grotewold, C. Li, J. Friml, F. Sack, T. Beeckman, S. Vanneste,
Nature Communications 6 (2015).
date_created: 2018-12-11T11:52:48Z
date_published: 2015-11-18T00:00:00Z
date_updated: 2025-09-22T14:28:09Z
day: '18'
ddc:
- '580'
department:
- _id: EvBe
- _id: JiFr
doi: 10.1038/ncomms9821
external_id:
isi:
- '000366295500007'
file:
- access_level: open_access
checksum: 8ff5c108899b548806e1cb7a302fe76d
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:32Z
date_updated: 2020-07-14T12:45:02Z
file_id: '5085'
file_name: IST-2016-477-v1+1_ncomms9821.pdf
file_size: 1701815
relation: main_file
file_date_updated: 2020-07-14T12:45:02Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5597'
pubrep_id: '477'
quality_controlled: '1'
scopus_import: '1'
status: public
title: A coherent transcriptional feed-forward motif model for mediating auxin-sensitive
PIN3 expression during lateral root development
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: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 6
year: '2015'
...
---
_id: '1591'
abstract:
- lang: eng
text: Auxin participates in a multitude of developmental processes, as well as responses
to environmental cues. Compared with other plant hormones, auxin exhibits a unique
property, as it undergoes directional, cell-to-cell transport facilitated by plasma
membrane-localized transport proteins. Among them, a prominent role has been ascribed
to the PIN family of auxin efflux facilitators. PIN proteins direct polar auxin
transport on account of their asymmetric subcellular localizations. In this review,
we provide an overview of the multiple developmental roles of PIN proteins, including
the atypical endoplasmic reticulum-localized members of the family, and look at
the family from an evolutionary perspective. Next, we cover the cell biological
and molecular aspects of PIN function, in particular the establishment of their
polar subcellular localization. Hormonal and environmental inputs into the regulation
of PIN action are summarized as well.
article_processing_charge: No
author:
- first_name: Maciek
full_name: Adamowski, Maciek
id: 45F536D2-F248-11E8-B48F-1D18A9856A87
last_name: Adamowski
orcid: 0000-0001-6463-5257
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: 'Adamowski M, Friml J. PIN-dependent auxin transport: Action, regulation, and
evolution. Plant Cell. 2015;27(1):20-32. doi:10.1105/tpc.114.134874'
apa: 'Adamowski, M., & Friml, J. (2015). PIN-dependent auxin transport: Action,
regulation, and evolution. Plant Cell. American Society of Plant Biologists.
https://doi.org/10.1105/tpc.114.134874'
chicago: 'Adamowski, Maciek, and Jiří Friml. “PIN-Dependent Auxin Transport: Action,
Regulation, and Evolution.” Plant Cell. American Society of Plant Biologists,
2015. https://doi.org/10.1105/tpc.114.134874.'
ieee: 'M. Adamowski and J. Friml, “PIN-dependent auxin transport: Action, regulation,
and evolution,” Plant Cell, vol. 27, no. 1. American Society of Plant Biologists,
pp. 20–32, 2015.'
ista: 'Adamowski M, Friml J. 2015. PIN-dependent auxin transport: Action, regulation,
and evolution. Plant Cell. 27(1), 20–32.'
mla: 'Adamowski, Maciek, and Jiří Friml. “PIN-Dependent Auxin Transport: Action,
Regulation, and Evolution.” Plant Cell, vol. 27, no. 1, American Society
of Plant Biologists, 2015, pp. 20–32, doi:10.1105/tpc.114.134874.'
short: M. Adamowski, J. Friml, Plant Cell 27 (2015) 20–32.
corr_author: '1'
date_created: 2018-12-11T11:52:54Z
date_published: 2015-01-20T00:00:00Z
date_updated: 2026-04-08T14:20:44Z
day: '20'
department:
- _id: JiFr
doi: 10.1105/tpc.114.134874
external_id:
isi:
- '000350764700007'
pmid:
- '25604445'
intvolume: ' 27'
isi: 1
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4330589/
month: '01'
oa: 1
oa_version: Submitted Version
page: 20 - 32
pmid: 1
publication: Plant Cell
publication_status: published
publisher: American Society of Plant Biologists
publist_id: '5580'
quality_controlled: '1'
related_material:
record:
- id: '938'
relation: dissertation_contains
status: public
scopus_import: '1'
status: public
title: 'PIN-dependent auxin transport: Action, regulation, and evolution'
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 27
year: '2015'
...
---
_id: '1640'
abstract:
- lang: eng
text: Auxin and cytokinin are key endogenous regulators of plant development. Although
cytokinin-mediated modulation of auxin distribution is a developmentally crucial
hormonal interaction, its molecular basis is largely unknown. Here we show a direct
regulatory link between cytokinin signalling and the auxin transport machinery
uncovering a mechanistic framework for cytokinin-auxin cross-talk. We show that
the CYTOKININ RESPONSE FACTORS (CRFs), transcription factors downstream of cytokinin
perception, transcriptionally control genes encoding PIN-FORMED (PIN) auxin transporters
at a specific PIN CYTOKININ RESPONSE ELEMENT (PCRE) domain. Removal of this cis-regulatory
element effectively uncouples PIN transcription from the CRF-mediated cytokinin
regulation and attenuates plant cytokinin sensitivity. We propose that CRFs represent
a missing cross-talk component that fine-tunes auxin transport capacity downstream
of cytokinin signalling to control plant development.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
acknowledgement: This work was supported by the European Research Council Starting
Independent Research grant (ERC-2007-Stg-207362-HCPO to E.B., M.S., C.C.), by the
Ghent University Multidisciplinary Research Partnership ‘Biotechnology for a Sustainable
Economy’ no.01MRB510W, by the Research Foundation—Flanders (grant 3G033711 to J.-A.O.),
by the Austrian Science Fund (FWF01_I1774S) to K.Ö.,E.B., and by the Interuniversity
Attraction Poles Programme (IUAP P7/29 ‘MARS’) initiated by the Belgian Science
Policy Office. I.D.C. and S.V. are post-doctoral fellows of the Research Foundation—Flanders
(FWO). This research was supported by the Scientific Service Units (SSU) of IST-Austria
through resources provided by the Bioimaging Facility (BIF), the Life Science Facility
(LSF).
article_number: '8717'
article_processing_charge: No
author:
- first_name: Mária
full_name: Šimášková, Mária
last_name: Šimášková
- first_name: José
full_name: O'Brien, José
last_name: O'Brien
- first_name: Mamoona
full_name: Khan-Djamei, Mamoona
id: 391B5BBC-F248-11E8-B48F-1D18A9856A87
last_name: Khan-Djamei
- first_name: Giel
full_name: Van Noorden, Giel
last_name: Van Noorden
- first_name: Krisztina
full_name: Ötvös, Krisztina
id: 29B901B0-F248-11E8-B48F-1D18A9856A87
last_name: Ötvös
orcid: 0000-0002-5503-4983
- first_name: Anne
full_name: Vieten, Anne
last_name: Vieten
- first_name: Inge
full_name: De Clercq, Inge
last_name: De Clercq
- first_name: Johanna
full_name: Van Haperen, Johanna
last_name: Van Haperen
- first_name: Candela
full_name: Cuesta, Candela
id: 33A3C818-F248-11E8-B48F-1D18A9856A87
last_name: Cuesta
orcid: 0000-0003-1923-2410
- first_name: Klára
full_name: Hoyerová, Klára
last_name: Hoyerová
- first_name: Steffen
full_name: Vanneste, Steffen
last_name: Vanneste
- first_name: Peter
full_name: Marhavy, Peter
id: 3F45B078-F248-11E8-B48F-1D18A9856A87
last_name: Marhavy
orcid: 0000-0001-5227-5741
- 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: Frank
full_name: Van Breusegem, Frank
last_name: Van Breusegem
- first_name: Moritz
full_name: Nowack, Moritz
last_name: Nowack
- first_name: Angus
full_name: Murphy, Angus
last_name: Murphy
- first_name: Jiřĺ
full_name: Friml, Jiřĺ
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Tom
full_name: Beeckman, Tom
last_name: Beeckman
- first_name: Eva
full_name: Benková, Eva
id: 38F4F166-F248-11E8-B48F-1D18A9856A87
last_name: Benková
orcid: 0000-0002-8510-9739
citation:
ama: Šimášková M, O’Brien J, Khan-Djamei M, et al. Cytokinin response factors regulate
PIN-FORMED auxin transporters. Nature Communications. 2015;6. doi:10.1038/ncomms9717
apa: Šimášková, M., O’Brien, J., Khan-Djamei, M., Van Noorden, G., Ötvös, K., Vieten,
A., … Benková, E. (2015). Cytokinin response factors regulate PIN-FORMED auxin
transporters. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms9717
chicago: Šimášková, Mária, José O’Brien, Mamoona Khan-Djamei, Giel Van Noorden,
Krisztina Ötvös, Anne Vieten, Inge De Clercq, et al. “Cytokinin Response Factors
Regulate PIN-FORMED Auxin Transporters.” Nature Communications. Nature
Publishing Group, 2015. https://doi.org/10.1038/ncomms9717.
ieee: M. Šimášková et al., “Cytokinin response factors regulate PIN-FORMED
auxin transporters,” Nature Communications, vol. 6. Nature Publishing Group,
2015.
ista: Šimášková M, O’Brien J, Khan-Djamei M, Van Noorden G, Ötvös K, Vieten A, De
Clercq I, Van Haperen J, Cuesta C, Hoyerová K, Vanneste S, Marhavý P, Wabnik KT,
Van Breusegem F, Nowack M, Murphy A, Friml J, Weijers D, Beeckman T, Benková E.
2015. Cytokinin response factors regulate PIN-FORMED auxin transporters. Nature
Communications. 6, 8717.
mla: Šimášková, Mária, et al. “Cytokinin Response Factors Regulate PIN-FORMED Auxin
Transporters.” Nature Communications, vol. 6, 8717, Nature Publishing Group,
2015, doi:10.1038/ncomms9717.
short: M. Šimášková, J. O’Brien, M. Khan-Djamei, G. Van Noorden, K. Ötvös, A. Vieten,
I. De Clercq, J. Van Haperen, C. Cuesta, K. Hoyerová, S. Vanneste, P. Marhavý,
K.T. Wabnik, F. Van Breusegem, M. Nowack, A. Murphy, J. Friml, D. Weijers, T.
Beeckman, E. Benková, Nature Communications 6 (2015).
corr_author: '1'
date_created: 2018-12-11T11:53:12Z
date_published: 2015-01-01T00:00:00Z
date_updated: 2025-09-23T08:24:11Z
day: '01'
ddc:
- '580'
department:
- _id: EvBe
- _id: JiFr
doi: 10.1038/ncomms9717
ec_funded: 1
external_id:
isi:
- '000366289800001'
file:
- access_level: open_access
checksum: c2c84bca37401435fedf76bad0ba0579
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:18:36Z
date_updated: 2020-07-14T12:45:08Z
file_id: '5358'
file_name: IST-2018-1020-v1+1_Simaskova_et_al_NatCom_2015.pdf
file_size: 1471217
relation: main_file
file_date_updated: 2020-07-14T12:45:08Z
has_accepted_license: '1'
intvolume: ' 6'
isi: 1
language:
- iso: eng
month: '01'
oa: 1
oa_version: Submitted Version
project:
- _id: 253FCA6A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '207362'
name: Hormonal cross-talk in plant organogenesis
- _id: 2542D156-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: I 1774-B16
name: Hormone cross-talk drives nutrient dependent plant development
publication: Nature Communications
publication_status: published
publisher: Nature Publishing Group
publist_id: '5513'
pubrep_id: '1020'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Cytokinin response factors regulate PIN-FORMED auxin transporters
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 6
year: '2015'
...
---
_id: '1847'
acknowledgement: This work was supported by the European Research Council (project
ERC-2011-StG-20101109-PSDP), European Social Fund (CZ.1.07/2.3.00/20.0043), and
the Czech Science Foundation GAČR (GA13-40637S).
article_processing_charge: No
author:
- first_name: Peter
full_name: Grones, Peter
id: 399876EC-F248-11E8-B48F-1D18A9856A87
last_name: Grones
- first_name: Jiřĺ
full_name: Friml, Jiřĺ
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: 'Grones P, Friml J. ABP1: Finally docking. Molecular Plant. 2015;8(3):356-358.
doi:10.1016/j.molp.2014.12.013'
apa: 'Grones, P., & Friml, J. (2015). ABP1: Finally docking. Molecular Plant.
Elsevier. https://doi.org/10.1016/j.molp.2014.12.013'
chicago: 'Grones, Peter, and Jiří Friml. “ABP1: Finally Docking.” Molecular Plant.
Elsevier, 2015. https://doi.org/10.1016/j.molp.2014.12.013.'
ieee: 'P. Grones and J. Friml, “ABP1: Finally docking,” Molecular Plant,
vol. 8, no. 3. Elsevier, pp. 356–358, 2015.'
ista: 'Grones P, Friml J. 2015. ABP1: Finally docking. Molecular Plant. 8(3), 356–358.'
mla: 'Grones, Peter, and Jiří Friml. “ABP1: Finally Docking.” Molecular Plant,
vol. 8, no. 3, Elsevier, 2015, pp. 356–58, doi:10.1016/j.molp.2014.12.013.'
short: P. Grones, J. Friml, Molecular Plant 8 (2015) 356–358.
corr_author: '1'
date_created: 2018-12-11T11:54:20Z
date_published: 2015-03-02T00:00:00Z
date_updated: 2025-09-23T07:30:08Z
day: '02'
department:
- _id: JiFr
doi: 10.1016/j.molp.2014.12.013
external_id:
isi:
- '000350813400003'
intvolume: ' 8'
isi: 1
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
page: 356 - 358
publication: Molecular Plant
publication_status: published
publisher: Elsevier
publist_id: '5254'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'ABP1: Finally docking'
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 8
year: '2015'
...
---
_id: '1849'
abstract:
- lang: eng
text: 'Cell polarity is a fundamental property of pro- and eukaryotic cells. It
is necessary for coordination of cell division, cell morphogenesis and signaling
processes. How polarity is generated and maintained is a complex issue governed
by interconnected feed-back regulations between small GTPase signaling and membrane
tension-based signaling that controls membrane trafficking, and cytoskeleton organization
and dynamics. Here, we will review the potential role for calcium as a crucial
signal that connects and coordinates the respective processes during polarization
processes in plants. This article is part of a Special Issue entitled: 13th European
Symposium on Calcium.'
acknowledgement: The contributing authors were supported by the Ghent University Special
Research Fund (to E.H.), the Interuniversity Attraction Poles Programme (IAP VI/33
and IUAP P7/29 ‘MARS’), the European Research Council (project ERC-2011-StG-20101109-PSDP,
to J.F.), and the Research Foundation Flanders (to S.V.).
article_processing_charge: No
author:
- first_name: Ellie
full_name: Himschoot, Ellie
last_name: Himschoot
- first_name: Tom
full_name: Beeckman, Tom
last_name: Beeckman
- first_name: Jiřĺ
full_name: Friml, Jiřĺ
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Steffen
full_name: Vanneste, Steffen
last_name: Vanneste
citation:
ama: Himschoot E, Beeckman T, Friml J, Vanneste S. Calcium is an organizer of cell
polarity in plants. Biochimica et Biophysica Acta - Molecular Cell Research.
2015;1853(9):2168-2172. doi:10.1016/j.bbamcr.2015.02.017
apa: Himschoot, E., Beeckman, T., Friml, J., & Vanneste, S. (2015). Calcium
is an organizer of cell polarity in plants. Biochimica et Biophysica Acta -
Molecular Cell Research. Elsevier. https://doi.org/10.1016/j.bbamcr.2015.02.017
chicago: Himschoot, Ellie, Tom Beeckman, Jiří Friml, and Steffen Vanneste. “Calcium
Is an Organizer of Cell Polarity in Plants.” Biochimica et Biophysica Acta
- Molecular Cell Research. Elsevier, 2015. https://doi.org/10.1016/j.bbamcr.2015.02.017.
ieee: E. Himschoot, T. Beeckman, J. Friml, and S. Vanneste, “Calcium is an organizer
of cell polarity in plants,” Biochimica et Biophysica Acta - Molecular Cell
Research, vol. 1853, no. 9. Elsevier, pp. 2168–2172, 2015.
ista: Himschoot E, Beeckman T, Friml J, Vanneste S. 2015. Calcium is an organizer
of cell polarity in plants. Biochimica et Biophysica Acta - Molecular Cell Research.
1853(9), 2168–2172.
mla: Himschoot, Ellie, et al. “Calcium Is an Organizer of Cell Polarity in Plants.”
Biochimica et Biophysica Acta - Molecular Cell Research, vol. 1853, no.
9, Elsevier, 2015, pp. 2168–72, doi:10.1016/j.bbamcr.2015.02.017.
short: E. Himschoot, T. Beeckman, J. Friml, S. Vanneste, Biochimica et Biophysica
Acta - Molecular Cell Research 1853 (2015) 2168–2172.
date_created: 2018-12-11T11:54:21Z
date_published: 2015-09-01T00:00:00Z
date_updated: 2025-09-23T08:04:01Z
day: '01'
department:
- _id: JiFr
doi: 10.1016/j.bbamcr.2015.02.017
external_id:
isi:
- '000359960400028'
intvolume: ' 1853'
isi: 1
issue: '9'
language:
- iso: eng
month: '09'
oa_version: None
page: 2168 - 2172
publication: Biochimica et Biophysica Acta - Molecular Cell Research
publication_status: published
publisher: Elsevier
publist_id: '5252'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Calcium is an organizer of cell polarity in plants
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 1853
year: '2015'
...
---
_id: '1865'
abstract:
- lang: eng
text: The plant hormone auxin and its directional transport are known to play a
crucial role in defining the embryonic axis and subsequent development of the
body plan. Although the role of PIN auxin efflux transporters has been clearly
assigned during embryonic shoot and root specification, the role of the auxin
influx carriers AUX1 and LIKE-AUX1 (LAX) proteins is not well established. Here,
we used chemical and genetic tools on Brassica napus microspore-derived embryos
and Arabidopsis thaliana zygotic embryos, and demonstrate that AUX1, LAX1 and
LAX2 are required for both shoot and root pole formation, in concert with PIN
efflux carriers. Furthermore, we uncovered a positive-feedback loop betweenMONOPTEROS(ARF5)-dependent
auxin signalling and auxin transport. ThisMONOPTEROSdependent transcriptional
regulation of auxin influx (AUX1, LAX1 and LAX2) and auxin efflux (PIN1 and PIN4)
carriers by MONOPTEROS helps to maintain proper auxin transport to the root tip.
These results indicate that auxin-dependent cell specification during embryo development
requires balanced auxin transport involving both influx and efflux mechanisms,
and that this transport is maintained by a positive transcriptional feedback on
auxin signalling.
acknowledgement: W.G. is a post-doctoral fellow of the Research Foundation Flanders.
H.S.R. is supported by Employment of Best Young Scientists for International Cooperation
Empowerment [CZ.1.07/2.3.00/30.0037], co-financed by the European Social Fund and
the state budget of the Czech Republic. Mi.S. was funded by the Ramón y Cajal program.
This work was supported by the European Research Council [project ERC-2011-StG-20101109-PSDP],
project ‘CEITEC – Central European Institute of Technology’ [CZ.1.05/1.1.00/02.0068],
the European Social Fund [CZ.1.07/2.3.00/20.0043] and the Czech Science Foundation
GACR [GA13-40637S] to J.F. We acknowledge funding from the Biological and Biotechnological
Science Research Council (BBSRC) and Engineering Physics Science Research Council
(EPSRC) to R.S. and M.B
article_processing_charge: No
author:
- first_name: Hélène
full_name: Robert, Hélène
last_name: Robert
- first_name: Wim
full_name: Grunewald, Wim
last_name: Grunewald
- first_name: Michael
full_name: Sauer, Michael
last_name: Sauer
- first_name: Bernard
full_name: Cannoot, Bernard
last_name: Cannoot
- first_name: Mercedes
full_name: Soriano, Mercedes
last_name: Soriano
- first_name: Ranjan
full_name: Swarup, Ranjan
last_name: Swarup
- first_name: Dolf
full_name: Weijers, Dolf
last_name: Weijers
- first_name: Malcolm
full_name: Bennett, Malcolm
last_name: Bennett
- first_name: Kim
full_name: Boutilier, Kim
last_name: Boutilier
- 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, Grunewald W, Sauer M, et al. Plant embryogenesis requires AUX/LAX-mediated
auxin influx. Development. 2015;142(4):702-711. doi:10.1242/dev.115832
apa: Robert, H., Grunewald, W., Sauer, M., Cannoot, B., Soriano, M., Swarup, R.,
… Friml, J. (2015). Plant embryogenesis requires AUX/LAX-mediated auxin influx.
Development. Company of Biologists. https://doi.org/10.1242/dev.115832
chicago: Robert, Hélène, Wim Grunewald, Michael Sauer, Bernard Cannoot, Mercedes
Soriano, Ranjan Swarup, Dolf Weijers, Malcolm Bennett, Kim Boutilier, and Jiří
Friml. “Plant Embryogenesis Requires AUX/LAX-Mediated Auxin Influx.” Development.
Company of Biologists, 2015. https://doi.org/10.1242/dev.115832.
ieee: H. Robert et al., “Plant embryogenesis requires AUX/LAX-mediated auxin
influx,” Development, vol. 142, no. 4. Company of Biologists, pp. 702–711,
2015.
ista: Robert H, Grunewald W, Sauer M, Cannoot B, Soriano M, Swarup R, Weijers D,
Bennett M, Boutilier K, Friml J. 2015. Plant embryogenesis requires AUX/LAX-mediated
auxin influx. Development. 142(4), 702–711.
mla: Robert, Hélène, et al. “Plant Embryogenesis Requires AUX/LAX-Mediated Auxin
Influx.” Development, vol. 142, no. 4, Company of Biologists, 2015, pp.
702–11, doi:10.1242/dev.115832.
short: H. Robert, W. Grunewald, M. Sauer, B. Cannoot, M. Soriano, R. Swarup, D.
Weijers, M. Bennett, K. Boutilier, J. Friml, Development 142 (2015) 702–711.
corr_author: '1'
date_created: 2018-12-11T11:54:26Z
date_published: 2015-02-15T00:00:00Z
date_updated: 2025-09-23T09:50:13Z
day: '15'
department:
- _id: JiFr
doi: 10.1242/dev.115832
ec_funded: 1
external_id:
isi:
- '000351697100011'
intvolume: ' 142'
isi: 1
issue: '4'
language:
- iso: eng
month: '02'
oa_version: None
page: 702 - 711
project:
- _id: 25716A02-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '282300'
name: Polarity and subcellular dynamics in plants
publication: Development
publication_status: published
publisher: Company of Biologists
publist_id: '5231'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Plant embryogenesis requires AUX/LAX-mediated auxin influx
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 142
year: '2015'
...
---
_id: '1871'
abstract:
- lang: eng
text: The plant hormone auxin is a key regulator of plant growth and development.
Differences in auxin distribution within tissues are mediated by the polar auxin
transport machinery, and cellular auxin responses occur depending on changes in
cellular auxin levels. Multiple receptor systems at the cell surface and in the
interior operate to sense and interpret fluctuations in auxin distribution that
occur during plant development. Until now, three proteins or protein complexes
that can bind auxin have been identified. SCFTIR1 [a SKP1-cullin-1-F-box complex
that contains transport inhibitor response 1 (TIR1) as the F-box protein] and
S-phase-kinaseassociated protein 2 (SKP2) localize to the nucleus, whereas auxinbinding
protein 1 (ABP1), predominantly associates with the endoplasmic reticulum and
cell surface. In this Cell Science at a Glance article, we summarize recent discoveries
in the field of auxin transport and signaling that have led to the identification
of new components of these pathways, as well as their mutual interaction.
acknowledgement: This work was supported by the European Research Council [project
ERC-2011-StG-20101109-PSDP]; European Social Fund [grant number CZ.1.07/2.3.00/20.0043]
and the Czech Science Foundation GAČR [grant number GA13-40637S]
article_processing_charge: No
author:
- first_name: Peter
full_name: Grones, Peter
id: 399876EC-F248-11E8-B48F-1D18A9856A87
last_name: Grones
- first_name: Jirí
full_name: Friml, Jirí
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
citation:
ama: Grones P, Friml J. Auxin transporters and binding proteins at a glance. Journal
of Cell Science. 2015;128(1):1-7. doi:10.1242/jcs.159418
apa: Grones, P., & Friml, J. (2015). Auxin transporters and binding proteins
at a glance. Journal of Cell Science. Company of Biologists. https://doi.org/10.1242/jcs.159418
chicago: Grones, Peter, and Jiří Friml. “Auxin Transporters and Binding Proteins
at a Glance.” Journal of Cell Science. Company of Biologists, 2015. https://doi.org/10.1242/jcs.159418.
ieee: P. Grones and J. Friml, “Auxin transporters and binding proteins at a glance,”
Journal of Cell Science, vol. 128, no. 1. Company of Biologists, pp. 1–7,
2015.
ista: Grones P, Friml J. 2015. Auxin transporters and binding proteins at a glance.
Journal of Cell Science. 128(1), 1–7.
mla: Grones, Peter, and Jiří Friml. “Auxin Transporters and Binding Proteins at
a Glance.” Journal of Cell Science, vol. 128, no. 1, Company of Biologists,
2015, pp. 1–7, doi:10.1242/jcs.159418.
short: P. Grones, J. Friml, Journal of Cell Science 128 (2015) 1–7.
corr_author: '1'
date_created: 2018-12-11T11:54:28Z
date_published: 2015-01-01T00:00:00Z
date_updated: 2025-09-23T07:58:34Z
day: '01'
ddc:
- '570'
department:
- _id: JiFr
doi: 10.1242/jcs.159418
external_id:
isi:
- '000347167200001'
file:
- access_level: open_access
checksum: 24c779f4cd9d549ca6833e26f486be27
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:11:00Z
date_updated: 2020-07-14T12:45:19Z
file_id: '4852'
file_name: IST-2016-563-v1+1_1.full.pdf
file_size: 1688844
relation: main_file
file_date_updated: 2020-07-14T12:45:19Z
has_accepted_license: '1'
intvolume: ' 128'
isi: 1
issue: '1'
language:
- iso: eng
month: '01'
oa: 1
oa_version: Submitted Version
page: 1 - 7
publication: Journal of Cell Science
publication_status: published
publisher: Company of Biologists
publist_id: '5225'
pubrep_id: '563'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Auxin transporters and binding proteins at a glance
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 128
year: '2015'
...
---
_id: '1878'
abstract:
- lang: eng
text: Petrocoptis is a small genus of chasmophytic plants endemic to the Iberian
Peninsula, with some localized populations in the French Pyrenees. Within the
genus, a dozen species have been recognized based on morphological diversity,
most of them with limited distribution area, in small populations and frequently
with potential threats to their survival. To date, however, a molecular evaluation
of the current systematic treatments has not been carried out. The aim of the
present study is to infer phylogenetic relationships among its subordinate taxa
by using plastidial rps16 intron and nuclear internal transcribed spacer (ITS)
DNA sequences; and evaluate the phylogenetic placement of the genus Petrocoptis
within the family Caryophyllaceae. The monophyly of Petrocoptis is supported by
both ITS and rps16 intron sequence analyses. Furthermore, time estimates using
BEAST analyses indicate a Middle to Late Miocene diversification (10.59 Myr, 6.44–15.26
Myr highest posterior densities [HPD], for ITS; 14.30 Myr, 8.61–21.00 Myr HPD,
for rps16 intron).
article_processing_charge: No
author:
- first_name: Eduardo
full_name: Cires Rodriguez, Eduardo
id: 2AD56A7A-F248-11E8-B48F-1D18A9856A87
last_name: Cires Rodriguez
- first_name: José
full_name: Prieto, José
last_name: Prieto
citation:
ama: Cires Rodriguez E, Prieto J. Phylogenetic relationships of Petrocoptis A. Braun
ex Endl. (Caryophyllaceae), a discussed genus from the Iberian Peninsula. Journal
of Plant Research. 2015;128(2):223-238. doi:10.1007/s10265-014-0691-6
apa: Cires Rodriguez, E., & Prieto, J. (2015). Phylogenetic relationships of
Petrocoptis A. Braun ex Endl. (Caryophyllaceae), a discussed genus from the Iberian
Peninsula. Journal of Plant Research. Springer. https://doi.org/10.1007/s10265-014-0691-6
chicago: Cires Rodriguez, Eduardo, and José Prieto. “Phylogenetic Relationships
of Petrocoptis A. Braun Ex Endl. (Caryophyllaceae), a Discussed Genus from the
Iberian Peninsula.” Journal of Plant Research. Springer, 2015. https://doi.org/10.1007/s10265-014-0691-6.
ieee: E. Cires Rodriguez and J. Prieto, “Phylogenetic relationships of Petrocoptis
A. Braun ex Endl. (Caryophyllaceae), a discussed genus from the Iberian Peninsula,”
Journal of Plant Research, vol. 128, no. 2. Springer, pp. 223–238, 2015.
ista: Cires Rodriguez E, Prieto J. 2015. Phylogenetic relationships of Petrocoptis
A. Braun ex Endl. (Caryophyllaceae), a discussed genus from the Iberian Peninsula.
Journal of Plant Research. 128(2), 223–238.
mla: Cires Rodriguez, Eduardo, and José Prieto. “Phylogenetic Relationships of Petrocoptis
A. Braun Ex Endl. (Caryophyllaceae), a Discussed Genus from the Iberian Peninsula.”
Journal of Plant Research, vol. 128, no. 2, Springer, 2015, pp. 223–38,
doi:10.1007/s10265-014-0691-6.
short: E. Cires Rodriguez, J. Prieto, Journal of Plant Research 128 (2015) 223–238.
corr_author: '1'
date_created: 2018-12-11T11:54:30Z
date_published: 2015-01-24T00:00:00Z
date_updated: 2025-09-23T09:49:04Z
day: '24'
department:
- _id: JiFr
doi: 10.1007/s10265-014-0691-6
external_id:
isi:
- '000350826000001'
intvolume: ' 128'
isi: 1
issue: '2'
language:
- iso: eng
month: '01'
oa_version: None
page: 223 - 238
publication: Journal of Plant Research
publication_status: published
publisher: Springer
publist_id: '5217'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Phylogenetic relationships of Petrocoptis A. Braun ex Endl. (Caryophyllaceae),
a discussed genus from the Iberian Peninsula
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 128
year: '2015'
...
---
_id: '1879'
abstract:
- lang: eng
text: When electron microscopy (EM) was introduced in the 1930s it gave scientists
their first look into the nanoworld of cells. Over the last 80 years EM has vastly
increased our understanding of the complex cellular structures that underlie the
diverse functions that cells need to maintain life. One drawback that has been
difficult to overcome was the inherent lack of volume information, mainly due
to the limit on the thickness of sections that could be viewed in a transmission
electron microscope (TEM). For many years scientists struggled to achieve three-dimensional
(3D) EM using serial section reconstructions, TEM tomography, and scanning EM
(SEM) techniques such as freeze-fracture. Although each technique yielded some
special information, they required a significant amount of time and specialist
expertise to obtain even a very small 3D EM dataset. Almost 20 years ago scientists
began to exploit SEMs to image blocks of embedded tissues and perform serial sectioning
of these tissues inside the SEM chamber. Using first focused ion beams (FIB) and
subsequently robotic ultramicrotomes (serial block-face, SBF-SEM) microscopists
were able to collect large volumes of 3D EM information at resolutions that could
address many important biological questions, and do so in an efficient manner.
We present here some examples of 3D EM taken from the many diverse specimens that
have been imaged in our core facility. We propose that the next major step forward
will be to efficiently correlate functional information obtained using light microscopy
(LM) with 3D EM datasets to more completely investigate the important links between
cell structures and their functions.
acknowledgement: The Zeiss Merlin with Gatan 3View2XP and Zeiss Auriga were acquired
through a CLEM grant from Minister Ingrid Lieten to the VIB Bio-Imaging-Core. Michiel
Krols and Saskia Lippens are the recipients of a fellowship from the FWO (Fonds
Wetenschappelijk Onderzoek) of Flanders.
article_processing_charge: No
author:
- first_name: A
full_name: Kremer, A
last_name: Kremer
- first_name: Stefaan
full_name: Lippens, Stefaan
last_name: Lippens
- first_name: Sonia
full_name: Bartunkova, Sonia
last_name: Bartunkova
- first_name: Bob
full_name: Asselbergh, Bob
last_name: Asselbergh
- first_name: Cendric
full_name: Blanpain, Cendric
last_name: Blanpain
- first_name: Matyas
full_name: Fendrych, Matyas
id: 43905548-F248-11E8-B48F-1D18A9856A87
last_name: Fendrych
orcid: 0000-0002-9767-8699
- first_name: A
full_name: Goossens, A
last_name: Goossens
- first_name: Matthew
full_name: Holt, Matthew
last_name: Holt
- first_name: Sophie
full_name: Janssens, Sophie
last_name: Janssens
- first_name: Michiel
full_name: Krols, Michiel
last_name: Krols
- first_name: Jean
full_name: Larsimont, Jean
last_name: Larsimont
- first_name: Conor
full_name: Mc Guire, Conor
last_name: Mc Guire
- first_name: Moritz
full_name: Nowack, Moritz
last_name: Nowack
- first_name: Xavier
full_name: Saelens, Xavier
last_name: Saelens
- first_name: Andreas
full_name: Schertel, Andreas
last_name: Schertel
- first_name: B
full_name: Schepens, B
last_name: Schepens
- first_name: M
full_name: Slezak, M
last_name: Slezak
- first_name: Vincent
full_name: Timmerman, Vincent
last_name: Timmerman
- first_name: Clara
full_name: Theunis, Clara
last_name: Theunis
- first_name: Ronald
full_name: Van Brempt, Ronald
last_name: Van Brempt
- first_name: Y
full_name: Visser, Y
last_name: Visser
- first_name: Christophe
full_name: Guérin, Christophe
last_name: Guérin
citation:
ama: Kremer A, Lippens S, Bartunkova S, et al. Developing 3D SEM in a broad biological
context. Journal of Microscopy. 2015;259(2):80-96. doi:10.1111/jmi.12211
apa: Kremer, A., Lippens, S., Bartunkova, S., Asselbergh, B., Blanpain, C., Fendrych,
M., … Guérin, C. (2015). Developing 3D SEM in a broad biological context. Journal
of Microscopy. Wiley-Blackwell. https://doi.org/10.1111/jmi.12211
chicago: Kremer, A, Stefaan Lippens, Sonia Bartunkova, Bob Asselbergh, Cendric Blanpain,
Matyas Fendrych, A Goossens, et al. “Developing 3D SEM in a Broad Biological Context.”
Journal of Microscopy. Wiley-Blackwell, 2015. https://doi.org/10.1111/jmi.12211.
ieee: A. Kremer et al., “Developing 3D SEM in a broad biological context,”
Journal of Microscopy, vol. 259, no. 2. Wiley-Blackwell, pp. 80–96, 2015.
ista: Kremer A, Lippens S, Bartunkova S, Asselbergh B, Blanpain C, Fendrych M, Goossens
A, Holt M, Janssens S, Krols M, Larsimont J, Mc Guire C, Nowack M, Saelens X,
Schertel A, Schepens B, Slezak M, Timmerman V, Theunis C, Van Brempt R, Visser
Y, Guérin C. 2015. Developing 3D SEM in a broad biological context. Journal of
Microscopy. 259(2), 80–96.
mla: Kremer, A., et al. “Developing 3D SEM in a Broad Biological Context.” Journal
of Microscopy, vol. 259, no. 2, Wiley-Blackwell, 2015, pp. 80–96, doi:10.1111/jmi.12211.
short: A. Kremer, S. Lippens, S. Bartunkova, B. Asselbergh, C. Blanpain, M. Fendrych,
A. Goossens, M. Holt, S. Janssens, M. Krols, J. Larsimont, C. Mc Guire, M. Nowack,
X. Saelens, A. Schertel, B. Schepens, M. Slezak, V. Timmerman, C. Theunis, R.
Van Brempt, Y. Visser, C. Guérin, Journal of Microscopy 259 (2015) 80–96.
date_created: 2018-12-11T11:54:30Z
date_published: 2015-08-01T00:00:00Z
date_updated: 2025-09-23T08:26:17Z
day: '01'
ddc:
- '570'
department:
- _id: JiFr
doi: 10.1111/jmi.12211
external_id:
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title: Developing 3D SEM in a broad biological context
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