---
_id: '14850'
abstract:
- lang: eng
text: Elaborate sexual signals are thought to have evolved and be maintained to
serve as honest indicators of signaller quality. One measure of quality is health,
which can be affected by parasite infection. Cnemaspis mysoriensis is a diurnal
gecko that is often infested with ectoparasites in the wild, and males of this
species express visual (coloured gular patches) and chemical (femoral gland secretions)
traits that receivers could assess during social interactions. In this paper,
we tested whether ectoparasites affect individual health, and whether signal quality
is an indicator of ectoparasite levels. In wild lizards, we found that ectoparasite
level was negatively correlated with body condition in both sexes. Moreover, some
characteristics of both visual and chemical traits in males were strongly associated
with ectoparasite levels. Specifically, males with higher ectoparasite levels
had yellow gular patches with lower brightness and chroma, and chemical secretions
with a lower proportion of aromatic compounds. We then determined whether ectoparasite
levels in males influence female behaviour. Using sequential choice trials, wherein
females were provided with either the visual or the chemical signals of wild-caught
males that varied in ectoparasite level, we found that only chemical secretions
evoked an elevated female response towards less parasitised males. Simultaneous
choice trials in which females were exposed to the chemical secretions from males
that varied in parasite level further confirmed a preference for males with lower
parasites loads. Overall, we find that although health (body condition) or ectoparasite
load can be honestly advertised through multiple modalities, the parasite-mediated
female response is exclusively driven by chemical signals.
acknowledgement: "We thank Anuradha Batabyal and Shakilur Kabir for scientific discussions,
and help with sampling and colour analyses. We thank Muralidhar and the central
LCMS facility of the IISc for their technical support with the GCMS.\r\nResearch
funding was provided by the Department of Science and Technology Fund for Improvement
of S&T Infrastructure (DST-FIST), the Department of Biotechnology-Indian Institute
of Science (DBT-IISc) partnership program and a Science and Engineering Research
Board (SERB) grant to M.T. (EMR/2017/002228). Open Access funding provided by Indian
Institute of Science. Deposited in PMC for immediate release."
article_number: jeb246217
article_processing_charge: Yes (via OA deal)
article_type: original
author:
- first_name: Arka
full_name: Pal, Arka
id: 6AAB2240-CA9A-11E9-9C1A-D9D1E5697425
last_name: Pal
orcid: 0000-0002-4530-8469
- first_name: Mihir
full_name: Joshi, Mihir
last_name: Joshi
- first_name: Maria
full_name: Thaker, Maria
last_name: Thaker
citation:
ama: Pal A, Joshi M, Thaker M. Too much information? Males convey parasite levels
using more signal modalities than females utilise. Journal of Experimental
Biology. 2024;227(1). doi:10.1242/jeb.246217
apa: Pal, A., Joshi, M., & Thaker, M. (2024). Too much information? Males convey
parasite levels using more signal modalities than females utilise. Journal
of Experimental Biology. The Company of Biologists. https://doi.org/10.1242/jeb.246217
chicago: Pal, Arka, Mihir Joshi, and Maria Thaker. “Too Much Information? Males
Convey Parasite Levels Using More Signal Modalities than Females Utilise.” Journal
of Experimental Biology. The Company of Biologists, 2024. https://doi.org/10.1242/jeb.246217.
ieee: A. Pal, M. Joshi, and M. Thaker, “Too much information? Males convey parasite
levels using more signal modalities than females utilise,” Journal of Experimental
Biology, vol. 227, no. 1. The Company of Biologists, 2024.
ista: Pal A, Joshi M, Thaker M. 2024. Too much information? Males convey parasite
levels using more signal modalities than females utilise. Journal of Experimental
Biology. 227(1), jeb246217.
mla: Pal, Arka, et al. “Too Much Information? Males Convey Parasite Levels Using
More Signal Modalities than Females Utilise.” Journal of Experimental Biology,
vol. 227, no. 1, jeb246217, The Company of Biologists, 2024, doi:10.1242/jeb.246217.
short: A. Pal, M. Joshi, M. Thaker, Journal of Experimental Biology 227 (2024).
corr_author: '1'
date_created: 2024-01-22T08:14:49Z
date_published: 2024-01-10T00:00:00Z
date_updated: 2025-09-04T11:50:21Z
day: '10'
ddc:
- '570'
department:
- _id: NiBa
doi: 10.1242/jeb.246217
external_id:
isi:
- '001214515700016'
pmid:
- '38054353'
file:
- access_level: open_access
checksum: 136325372f6f45abaa62a71e2d23bfb6
content_type: application/pdf
creator: dernst
date_created: 2024-01-23T12:08:24Z
date_updated: 2024-01-23T12:08:24Z
file_id: '14877'
file_name: 2024_JourExperimBiology_Pal.pdf
file_size: 594128
relation: main_file
success: 1
file_date_updated: 2024-01-23T12:08:24Z
has_accepted_license: '1'
intvolume: ' 227'
isi: 1
issue: '1'
keyword:
- Insect Science
- Molecular Biology
- Animal Science and Zoology
- Aquatic Science
- Physiology
- Ecology
- Evolution
- Behavior and Systematics
language:
- iso: eng
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: Journal of Experimental Biology
publication_identifier:
eissn:
- 0022-0949
issn:
- 1477-9145
publication_status: published
publisher: The Company of Biologists
quality_controlled: '1'
related_material:
link:
- relation: software
url: https://github.com/arka-pal/Cnemaspis-SexualSignaling
scopus_import: '1'
status: public
title: Too much information? Males convey parasite levels using more signal modalities
than females utilise
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: 227
year: '2024'
...
---
_id: '12562'
abstract:
- lang: eng
text: Presynaptic inputs determine the pattern of activation of postsynaptic neurons
in a neural circuit. Molecular and genetic pathways that regulate the selective
formation of subsets of presynaptic inputs are largely unknown, despite significant
understanding of the general process of synaptogenesis. In this study, we have
begun to identify such factors using the spinal monosynaptic stretch reflex circuit
as a model system. In this neuronal circuit, Ia proprioceptive afferents establish
monosynaptic connections with spinal motor neurons that project to the same muscle
(termed homonymous connections) or muscles with related or synergistic function.
However, monosynaptic connections are not formed with motor neurons innervating
muscles with antagonistic functions. The ETS transcription factor ER81 (also known
as ETV1) is expressed by all proprioceptive afferents, but only a small set of
motor neuron pools in the lumbar spinal cord of the mouse. Here we use conditional
mouse genetic techniques to eliminate Er81 expression selectively from motor neurons.
We find that ablation of Er81 in motor neurons reduces synaptic inputs from proprioceptive
afferents conveying information from homonymous and synergistic muscles, with
no change observed in the connectivity pattern from antagonistic proprioceptive
afferents. In summary, these findings suggest a role for ER81 in defined motor
neuron pools to control the assembly of specific presynaptic inputs and thereby
influence the profile of activation of these motor neurons.
acknowledgement: The authors gratefully thank Dr. Silvia Arber, University of Basel
and Friedrich Miescher Institute for Biomedical Research, for support and in whose
lab the data were collected. For advice on statistical analysis, we thank Michael
Bottomley from the Statistical Consulting Center, College of Science and Mathematics,
Wright State University.
article_processing_charge: No
article_type: original
author:
- first_name: David R.
full_name: Ladle, David R.
last_name: Ladle
- first_name: Simon
full_name: Hippenmeyer, Simon
id: 37B36620-F248-11E8-B48F-1D18A9856A87
last_name: Hippenmeyer
orcid: 0000-0003-2279-1061
citation:
ama: Ladle DR, Hippenmeyer S. Loss of ETV1/ER81 in motor neurons leads to reduced
monosynaptic inputs from proprioceptive sensory neurons. Journal of Neurophysiology.
2023;129(3):501-512. doi:10.1152/jn.00172.2022
apa: Ladle, D. R., & Hippenmeyer, S. (2023). Loss of ETV1/ER81 in motor neurons
leads to reduced monosynaptic inputs from proprioceptive sensory neurons. Journal
of Neurophysiology. American Physiological Society. https://doi.org/10.1152/jn.00172.2022
chicago: Ladle, David R., and Simon Hippenmeyer. “Loss of ETV1/ER81 in Motor Neurons
Leads to Reduced Monosynaptic Inputs from Proprioceptive Sensory Neurons.” Journal
of Neurophysiology. American Physiological Society, 2023. https://doi.org/10.1152/jn.00172.2022.
ieee: D. R. Ladle and S. Hippenmeyer, “Loss of ETV1/ER81 in motor neurons leads
to reduced monosynaptic inputs from proprioceptive sensory neurons,” Journal
of Neurophysiology, vol. 129, no. 3. American Physiological Society, pp. 501–512,
2023.
ista: Ladle DR, Hippenmeyer S. 2023. Loss of ETV1/ER81 in motor neurons leads to
reduced monosynaptic inputs from proprioceptive sensory neurons. Journal of Neurophysiology.
129(3), 501–512.
mla: Ladle, David R., and Simon Hippenmeyer. “Loss of ETV1/ER81 in Motor Neurons
Leads to Reduced Monosynaptic Inputs from Proprioceptive Sensory Neurons.” Journal
of Neurophysiology, vol. 129, no. 3, American Physiological Society, 2023,
pp. 501–12, doi:10.1152/jn.00172.2022.
short: D.R. Ladle, S. Hippenmeyer, Journal of Neurophysiology 129 (2023) 501–512.
date_created: 2023-02-15T14:46:14Z
date_published: 2023-03-01T00:00:00Z
date_updated: 2024-10-21T06:01:28Z
day: '01'
department:
- _id: SiHi
doi: 10.1152/jn.00172.2022
external_id:
isi:
- '000957721600001'
pmid:
- '36695533'
intvolume: ' 129'
isi: 1
issue: '3'
keyword:
- Physiology
- General Neuroscience
language:
- iso: eng
month: '03'
oa_version: None
page: 501-512
pmid: 1
publication: Journal of Neurophysiology
publication_identifier:
eissn:
- 1522-1598
issn:
- 0022-3077
publication_status: published
publisher: American Physiological Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Loss of ETV1/ER81 in motor neurons leads to reduced monosynaptic inputs from
proprioceptive sensory neurons
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 129
year: '2023'
...
---
_id: '12747'
abstract:
- lang: eng
text: Muscle degeneration is the most prevalent cause for frailty and dependency
in inherited diseases and ageing. Elucidation of pathophysiological mechanisms,
as well as effective treatments for muscle diseases, represents an important goal
in improving human health. Here, we show that the lipid synthesis enzyme phosphatidylethanolamine
cytidyltransferase (PCYT2/ECT) is critical to muscle health. Human deficiency
in PCYT2 causes a severe disease with failure to thrive and progressive weakness.
pcyt2-mutant zebrafish and muscle-specific Pcyt2-knockout mice recapitulate the
participant phenotypes, with failure to thrive, progressive muscle weakness and
accelerated ageing. Mechanistically, muscle Pcyt2 deficiency affects cellular
bioenergetics and membrane lipid bilayer structure and stability. PCYT2 activity
declines in ageing muscles of mice and humans, and adeno-associated virus-based
delivery of PCYT2 ameliorates muscle weakness in Pcyt2-knockout and old mice,
offering a therapy for individuals with a rare disease and muscle ageing. Thus,
PCYT2 plays a fundamental and conserved role in vertebrate muscle health, linking
PCYT2 and PCYT2-synthesized lipids to severe muscle dystrophy and ageing.
acknowledgement: 'The authors thank the participants and their families for participating
in the study. We thank all members of our laboratories for helpful discussions.
We are grateful to Vienna BioCenter Core Facilities: Mouse Phenotyping Unit, Histopathology
Unit, Bioinformatics Unit, BioOptics Unit, Electron Microscopy Unit and Comparative
Medicine Unit. We are grateful to the Lipidomics Facility, and K. Klavins and T.
Hannich at the CeMM Research Center for Molecular Medicine of the Austrian Academy
of Sciences for assistance with lipidomics analysis. We also thank T. Huan and A.
Hui (UBC Vancouver) for mouse tissue and mitochondria lipidomics analysis. We thank
A. Klymchenko (Laboratoire de Bioimagerie et Pathologies Université de Strasbourg,
Strasbourg, France) for providing the NR12S probe. We are thankful to the Sen. Paul
D. Wellstone Muscular Dystrophy Cooperative Specialized Research Center Viral Vector
Core Facility for AAV6 production. We also thank K. P. Campbell and M. E. Anderson
(University of Iowa, Carver College of Medicine) for advice on muscle tissue handling.
We thank A. Al-Qassabi from the Sultan Qaboos University for the clinical assessment
of the participants. D.C. and J.M.P. are supported by the Austrian Federal Ministry
of Education, Science and Research, the Austrian Academy of Sciences, and the City
of Vienna, and grants from the Austrian Science Fund (FWF) Wittgenstein award (Z
271-B19), the T. von Zastrow Foundation, and a Canada 150 Research Chairs Program
(F18-01336). J.S.C. is supported by grants RO1AR44533 and P50AR065139 from the US
National Institutes of Health. C.K. is supported by a grant from the Agence Nationale
de la Recherche (ANR-18-CE14-0007-01). A.V.K. is supported by European Union’s Horizon
2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement
no. 67544, and an Austrian Science Fund (FWF; no P-33799). A.W. is supported by
Austrian Research Promotion Agency (FFG) project no 867674. E.S. is supported by
a SciLifeLab fellowship and Karolinska Institutet Foundation Grants. Work in the
laboratory of G.S.-F. is supported by the Austrian Academy of Sciences, the European
Research Council (ERC AdG 695214 GameofGates) and the Innovative Medicines Initiative
2 Joint Undertaking (grant agreement no. 777372, ReSOLUTE). S.B., M.L. and R.Y.
acknowledge the support of the Spastic Paraplegia Foundation.'
article_processing_charge: No
article_type: original
author:
- first_name: Domagoj
full_name: Cikes, Domagoj
last_name: Cikes
- first_name: Kareem
full_name: Elsayad, Kareem
last_name: Elsayad
- first_name: Erdinc
full_name: Sezgin, Erdinc
last_name: Sezgin
- first_name: Erika
full_name: Koitai, Erika
last_name: Koitai
- first_name: Torma
full_name: Ferenc, Torma
last_name: Ferenc
- first_name: Michael
full_name: Orthofer, Michael
last_name: Orthofer
- first_name: Rebecca
full_name: Yarwood, Rebecca
last_name: Yarwood
- first_name: Leonhard X.
full_name: Heinz, Leonhard X.
last_name: Heinz
- first_name: Vitaly
full_name: Sedlyarov, Vitaly
last_name: Sedlyarov
- first_name: Nasser
full_name: Darwish-Miranda, Nasser
id: 39CD9926-F248-11E8-B48F-1D18A9856A87
last_name: Darwish-Miranda
orcid: 0000-0002-8821-8236
- first_name: Adrian
full_name: Taylor, Adrian
last_name: Taylor
- first_name: Sophie
full_name: Grapentine, Sophie
last_name: Grapentine
- first_name: Fathiya
full_name: al-Murshedi, Fathiya
last_name: al-Murshedi
- first_name: Anne
full_name: Abot, Anne
last_name: Abot
- first_name: Adelheid
full_name: Weidinger, Adelheid
last_name: Weidinger
- first_name: Candice
full_name: Kutchukian, Candice
last_name: Kutchukian
- first_name: Colline
full_name: Sanchez, Colline
last_name: Sanchez
- first_name: Shane J. F.
full_name: Cronin, Shane J. F.
last_name: Cronin
- first_name: Maria
full_name: Novatchkova, Maria
last_name: Novatchkova
- first_name: Anoop
full_name: Kavirayani, Anoop
last_name: Kavirayani
- first_name: Thomas
full_name: Schuetz, Thomas
last_name: Schuetz
- first_name: Bernhard
full_name: Haubner, Bernhard
last_name: Haubner
- first_name: Lisa
full_name: Haas, Lisa
last_name: Haas
- first_name: Astrid
full_name: Hagelkruys, Astrid
last_name: Hagelkruys
- first_name: Suzanne
full_name: Jackowski, Suzanne
last_name: Jackowski
- first_name: Andrey
full_name: Kozlov, Andrey
last_name: Kozlov
- first_name: Vincent
full_name: Jacquemond, Vincent
last_name: Jacquemond
- first_name: Claude
full_name: Knauf, Claude
last_name: Knauf
- first_name: Giulio
full_name: Superti-Furga, Giulio
last_name: Superti-Furga
- first_name: Eric
full_name: Rullman, Eric
last_name: Rullman
- first_name: Thomas
full_name: Gustafsson, Thomas
last_name: Gustafsson
- first_name: John
full_name: McDermot, John
last_name: McDermot
- first_name: Martin
full_name: Lowe, Martin
last_name: Lowe
- first_name: Zsolt
full_name: Radak, Zsolt
last_name: Radak
- first_name: Jeffrey S.
full_name: Chamberlain, Jeffrey S.
last_name: Chamberlain
- first_name: Marica
full_name: Bakovic, Marica
last_name: Bakovic
- first_name: Siddharth
full_name: Banka, Siddharth
last_name: Banka
- first_name: Josef M.
full_name: Penninger, Josef M.
last_name: Penninger
citation:
ama: Cikes D, Elsayad K, Sezgin E, et al. PCYT2-regulated lipid biosynthesis is
critical to muscle health and ageing. Nature Metabolism. 2023;5:495-515.
doi:10.1038/s42255-023-00766-2
apa: Cikes, D., Elsayad, K., Sezgin, E., Koitai, E., Ferenc, T., Orthofer, M., …
Penninger, J. M. (2023). PCYT2-regulated lipid biosynthesis is critical to muscle
health and ageing. Nature Metabolism. Springer Nature. https://doi.org/10.1038/s42255-023-00766-2
chicago: Cikes, Domagoj, Kareem Elsayad, Erdinc Sezgin, Erika Koitai, Torma Ferenc,
Michael Orthofer, Rebecca Yarwood, et al. “PCYT2-Regulated Lipid Biosynthesis
Is Critical to Muscle Health and Ageing.” Nature Metabolism. Springer Nature,
2023. https://doi.org/10.1038/s42255-023-00766-2.
ieee: D. Cikes et al., “PCYT2-regulated lipid biosynthesis is critical to
muscle health and ageing,” Nature Metabolism, vol. 5. Springer Nature,
pp. 495–515, 2023.
ista: Cikes D, Elsayad K, Sezgin E, Koitai E, Ferenc T, Orthofer M, Yarwood R, Heinz
LX, Sedlyarov V, Darwish-Miranda N, Taylor A, Grapentine S, al-Murshedi F, Abot
A, Weidinger A, Kutchukian C, Sanchez C, Cronin SJF, Novatchkova M, Kavirayani
A, Schuetz T, Haubner B, Haas L, Hagelkruys A, Jackowski S, Kozlov A, Jacquemond
V, Knauf C, Superti-Furga G, Rullman E, Gustafsson T, McDermot J, Lowe M, Radak
Z, Chamberlain JS, Bakovic M, Banka S, Penninger JM. 2023. PCYT2-regulated lipid
biosynthesis is critical to muscle health and ageing. Nature Metabolism. 5, 495–515.
mla: Cikes, Domagoj, et al. “PCYT2-Regulated Lipid Biosynthesis Is Critical to Muscle
Health and Ageing.” Nature Metabolism, vol. 5, Springer Nature, 2023, pp.
495–515, doi:10.1038/s42255-023-00766-2.
short: D. Cikes, K. Elsayad, E. Sezgin, E. Koitai, T. Ferenc, M. Orthofer, R. Yarwood,
L.X. Heinz, V. Sedlyarov, N. Darwish-Miranda, A. Taylor, S. Grapentine, F. al-Murshedi,
A. Abot, A. Weidinger, C. Kutchukian, C. Sanchez, S.J.F. Cronin, M. Novatchkova,
A. Kavirayani, T. Schuetz, B. Haubner, L. Haas, A. Hagelkruys, S. Jackowski, A.
Kozlov, V. Jacquemond, C. Knauf, G. Superti-Furga, E. Rullman, T. Gustafsson,
J. McDermot, M. Lowe, Z. Radak, J.S. Chamberlain, M. Bakovic, S. Banka, J.M. Penninger,
Nature Metabolism 5 (2023) 495–515.
date_created: 2023-03-23T12:58:43Z
date_published: 2023-03-20T00:00:00Z
date_updated: 2023-11-28T07:31:33Z
day: '20'
department:
- _id: Bio
doi: 10.1038/s42255-023-00766-2
external_id:
isi:
- '000992064000002'
pmid:
- '36941451'
intvolume: ' 5'
isi: 1
keyword:
- Cell Biology
- Physiology (medical)
- Endocrinology
- Diabetes and Metabolism
- Internal Medicine
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1101/2022.03.02.482658
month: '03'
oa: 1
oa_version: Preprint
page: 495-515
pmid: 1
publication: Nature Metabolism
publication_identifier:
issn:
- 2522-5812
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- relation: erratum
url: https://doi.org/10.1038/s42255-023-00791-1
scopus_import: '1'
status: public
title: PCYT2-regulated lipid biosynthesis is critical to muscle health and ageing
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2023'
...
---
_id: '12186'
abstract:
- lang: eng
text: Activation of cell-surface and intracellular receptor-mediated immunity results
in rapid transcriptional reprogramming that underpins disease resistance. However,
the mechanisms by which co-activation of both immune systems lead to transcriptional
changes are not clear. Here, we combine RNA-seq and ATAC-seq to define changes
in gene expression and chromatin accessibility. Activation of cell-surface or
intracellular receptor-mediated immunity, or both, increases chromatin accessibility
at induced defence genes. Analysis of ATAC-seq and RNA-seq data combined with
publicly available information on transcription factor DNA-binding motifs enabled
comparison of individual gene regulatory networks activated by cell-surface or
intracellular receptor-mediated immunity, or by both. These results and analyses
reveal overlapping and conserved transcriptional regulatory mechanisms between
the two immune systems.
acknowledgement: "We thank the Gatsby Foundation (UK) for funding to the JDGJ laboratory.
PD acknowledges support from the European Union’s Horizon 2020 Research and Innovation
Program under Marie Skłodowska Curie Actions (grant agreement: 656243) and a Future
Leader Fellowship from the Biotechnology and Biological Sciences Research Council
(BBSRC) (grant agreement: BB/R012172/1). TS, RKS, DM, and JDGJ were supported by
the Gatsby Foundation funding to the\r\nSainsbury Laboratory. NMP and KV were supported
by a BOF grant from Ghent University (grant agreement: BOF24Y2019001901). WG and
RZ were supported by the Scottish Government Rural and Environment Science and Analytical
Services division (RESAS), and RZ also acknowledges the support from a BBSRC Bioinformatics
and Biological Resources Fund (grant agreement: BB/S020160/1).BPMN was supported
by the Norwich Research Park (NRP) Biosciences Doctoral Training Partnership (DTP)
funded by the BBSRC (grant agreement: BB/M011216/1). SH and XF were supported by
a BBSRC Responsive Mode grant (grant agreement: BB/S009620/1) and a European Research
Council Starting grant ‘SexMeth’ (grant agreement: 804981). CL was supported by
Deutsche Forschungsgemeinschaft (grant agreement: LI 2862/4). "
article_processing_charge: No
article_type: original
author:
- first_name: Pingtao
full_name: Ding, Pingtao
last_name: Ding
- first_name: Toshiyuki
full_name: Sakai, Toshiyuki
last_name: Sakai
- first_name: Ram
full_name: Krishna Shrestha, Ram
last_name: Krishna Shrestha
- first_name: Nicolas
full_name: Manosalva Perez, Nicolas
last_name: Manosalva Perez
- first_name: Wenbin
full_name: Guo, Wenbin
last_name: Guo
- first_name: Bruno Pok Man
full_name: Ngou, Bruno Pok Man
last_name: Ngou
- first_name: Shengbo
full_name: He, Shengbo
last_name: He
- first_name: Chang
full_name: Liu, Chang
last_name: Liu
- first_name: Xiaoqi
full_name: Feng, Xiaoqi
id: e0164712-22ee-11ed-b12a-d80fcdf35958
last_name: Feng
orcid: 0000-0002-4008-1234
- first_name: Runxuan
full_name: Zhang, Runxuan
last_name: Zhang
- first_name: Klaas
full_name: Vandepoele, Klaas
last_name: Vandepoele
- first_name: Dan
full_name: MacLean, Dan
last_name: MacLean
- first_name: Jonathan D G
full_name: Jones, Jonathan D G
last_name: Jones
citation:
ama: Ding P, Sakai T, Krishna Shrestha R, et al. Chromatin accessibility landscapes
activated by cell-surface and intracellular immune receptors. Journal of Experimental
Botany. 2021;72(22):7927-7941. doi:10.1093/jxb/erab373
apa: Ding, P., Sakai, T., Krishna Shrestha, R., Manosalva Perez, N., Guo, W., Ngou,
B. P. M., … Jones, J. D. G. (2021). Chromatin accessibility landscapes activated
by cell-surface and intracellular immune receptors. Journal of Experimental
Botany. Oxford University Press. https://doi.org/10.1093/jxb/erab373
chicago: Ding, Pingtao, Toshiyuki Sakai, Ram Krishna Shrestha, Nicolas Manosalva
Perez, Wenbin Guo, Bruno Pok Man Ngou, Shengbo He, et al. “Chromatin Accessibility
Landscapes Activated by Cell-Surface and Intracellular Immune Receptors.” Journal
of Experimental Botany. Oxford University Press, 2021. https://doi.org/10.1093/jxb/erab373.
ieee: P. Ding et al., “Chromatin accessibility landscapes activated by cell-surface
and intracellular immune receptors,” Journal of Experimental Botany, vol.
72, no. 22. Oxford University Press, pp. 7927–7941, 2021.
ista: Ding P, Sakai T, Krishna Shrestha R, Manosalva Perez N, Guo W, Ngou BPM, He
S, Liu C, Feng X, Zhang R, Vandepoele K, MacLean D, Jones JDG. 2021. Chromatin
accessibility landscapes activated by cell-surface and intracellular immune receptors.
Journal of Experimental Botany. 72(22), 7927–7941.
mla: Ding, Pingtao, et al. “Chromatin Accessibility Landscapes Activated by Cell-Surface
and Intracellular Immune Receptors.” Journal of Experimental Botany, vol.
72, no. 22, Oxford University Press, 2021, pp. 7927–41, doi:10.1093/jxb/erab373.
short: P. Ding, T. Sakai, R. Krishna Shrestha, N. Manosalva Perez, W. Guo, B.P.M.
Ngou, S. He, C. Liu, X. Feng, R. Zhang, K. Vandepoele, D. MacLean, J.D.G. Jones,
Journal of Experimental Botany 72 (2021) 7927–7941.
date_created: 2023-01-16T09:14:35Z
date_published: 2021-08-13T00:00:00Z
date_updated: 2023-05-08T11:01:18Z
day: '13'
department:
- _id: XiFe
doi: 10.1093/jxb/erab373
extern: '1'
external_id:
pmid:
- '34387350'
intvolume: ' 72'
issue: '22'
keyword:
- Plant Science
- Physiology
language:
- iso: eng
month: '08'
oa_version: None
page: 7927-7941
pmid: 1
publication: Journal of Experimental Botany
publication_identifier:
issn:
- 0022-0957
- 1460-2431
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Chromatin accessibility landscapes activated by cell-surface and intracellular
immune receptors
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 72
year: '2021'
...
---
_id: '8097'
abstract:
- lang: eng
text: 'Antibiotics that interfere with translation, when combined, interact in diverse
and difficult-to-predict ways. Here, we explain these interactions by "translation
bottlenecks": points in the translation cycle where antibiotics block ribosomal
progression. To elucidate the underlying mechanisms of drug interactions between
translation inhibitors, we generate translation bottlenecks genetically using
inducible control of translation factors that regulate well-defined translation
cycle steps. These perturbations accurately mimic antibiotic action and drug interactions,
supporting that the interplay of different translation bottlenecks causes these
interactions. We further show that growth laws, combined with drug uptake and
binding kinetics, enable the direct prediction of a large fraction of observed
interactions, yet fail to predict suppression. However, varying two translation
bottlenecks simultaneously supports that dense traffic of ribosomes and competition
for translation factors account for the previously unexplained suppression. These
results highlight the importance of "continuous epistasis" in bacterial physiology.'
acknowledged_ssus:
- _id: LifeSc
article_processing_charge: No
author:
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
citation:
ama: Kavcic B. Analysis scripts and research data for the paper “Mechanisms of drug
interactions between translation-inhibiting antibiotics.” 2020. doi:10.15479/AT:ISTA:8097
apa: Kavcic, B. (2020). Analysis scripts and research data for the paper “Mechanisms
of drug interactions between translation-inhibiting antibiotics.” Institute of
Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8097
chicago: Kavcic, Bor. “Analysis Scripts and Research Data for the Paper ‘Mechanisms
of Drug Interactions between Translation-Inhibiting Antibiotics.’” Institute of
Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8097.
ieee: B. Kavcic, “Analysis scripts and research data for the paper ‘Mechanisms of
drug interactions between translation-inhibiting antibiotics.’” Institute of Science
and Technology Austria, 2020.
ista: Kavcic B. 2020. Analysis scripts and research data for the paper ‘Mechanisms
of drug interactions between translation-inhibiting antibiotics’, Institute of
Science and Technology Austria, 10.15479/AT:ISTA:8097.
mla: Kavcic, Bor. Analysis Scripts and Research Data for the Paper “Mechanisms
of Drug Interactions between Translation-Inhibiting Antibiotics.” Institute
of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8097.
short: B. Kavcic, (2020).
contributor:
- contributor_type: research_group
first_name: Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
- contributor_type: research_group
first_name: Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
date_created: 2020-07-06T20:40:19Z
date_published: 2020-07-15T00:00:00Z
date_updated: 2024-02-21T12:40:51Z
day: '15'
department:
- _id: GaTk
doi: 10.15479/AT:ISTA:8097
file:
- access_level: open_access
checksum: 5c321dbbb6d4b3c85da786fd3ebbdc98
content_type: application/zip
creator: bkavcic
date_created: 2020-07-06T20:38:27Z
date_updated: 2020-07-14T12:48:09Z
file_id: '8098'
file_name: natComm_2020_scripts.zip
file_size: 255770756
relation: main_file
file_date_updated: 2020-07-14T12:48:09Z
has_accepted_license: '1'
keyword:
- Escherichia coli
- antibiotic combinations
- translation
- growth laws
- drug interactions
- bacterial physiology
- translation inhibitors
month: '07'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
status: public
title: Analysis scripts and research data for the paper "Mechanisms of drug interactions
between translation-inhibiting antibiotics"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
_id: '8402'
abstract:
- lang: eng
text: "Background: The mitochondrial pyruvate carrier (MPC) plays a central role
in energy metabolism by transporting pyruvate across the inner mitochondrial membrane.
Its heterodimeric composition and homology to SWEET and semiSWEET transporters
set the MPC apart from the canonical mitochondrial carrier family (named MCF or
SLC25). The import of the canonical carriers is mediated by the carrier translocase
of the inner membrane (TIM22) pathway and is dependent on their structure, which
features an even number of transmembrane segments and both termini in the intermembrane
space. The import pathway of MPC proteins has not been elucidated. The odd number
of transmembrane segments and positioning of the N-terminus in the matrix argues
against an import via the TIM22 carrier pathway but favors an import via the flexible
presequence pathway.\r\nResults: Here, we systematically analyzed the import pathways
of Mpc2 and Mpc3 and report that, contrary to an expected import via the flexible
presequence pathway, yeast MPC proteins with an odd number of transmembrane segments
and matrix-exposed N-terminus are imported by the carrier pathway, using the receptor
Tom70, small TIM chaperones, and the TIM22 complex. The TIM9·10 complex chaperones
MPC proteins through the mitochondrial intermembrane space using conserved hydrophobic
motifs that are also required for the interaction with canonical carrier proteins.\r\nConclusions:
The carrier pathway can import paired and non-paired transmembrane helices and
translocate N-termini to either side of the mitochondrial inner membrane, revealing
an unexpected versatility of the mitochondrial import pathway for non-cleavable
inner membrane proteins."
article_number: '2'
article_processing_charge: No
article_type: original
author:
- first_name: Heike
full_name: Rampelt, Heike
last_name: Rampelt
- first_name: Iva
full_name: Sucec, Iva
last_name: Sucec
- first_name: Beate
full_name: Bersch, Beate
last_name: Bersch
- first_name: Patrick
full_name: Horten, Patrick
last_name: Horten
- first_name: Inge
full_name: Perschil, Inge
last_name: Perschil
- first_name: Jean-Claude
full_name: Martinou, Jean-Claude
last_name: Martinou
- first_name: Martin
full_name: van der Laan, Martin
last_name: van der Laan
- first_name: Nils
full_name: Wiedemann, Nils
last_name: Wiedemann
- first_name: Paul
full_name: Schanda, Paul
id: 7B541462-FAF6-11E9-A490-E8DFE5697425
last_name: Schanda
orcid: 0000-0002-9350-7606
- first_name: Nikolaus
full_name: Pfanner, Nikolaus
last_name: Pfanner
citation:
ama: Rampelt H, Sucec I, Bersch B, et al. The mitochondrial carrier pathway transports
non-canonical substrates with an odd number of transmembrane segments. BMC
Biology. 2020;18. doi:10.1186/s12915-019-0733-6
apa: Rampelt, H., Sucec, I., Bersch, B., Horten, P., Perschil, I., Martinou, J.-C.,
… Pfanner, N. (2020). The mitochondrial carrier pathway transports non-canonical
substrates with an odd number of transmembrane segments. BMC Biology. Springer
Nature. https://doi.org/10.1186/s12915-019-0733-6
chicago: Rampelt, Heike, Iva Sucec, Beate Bersch, Patrick Horten, Inge Perschil,
Jean-Claude Martinou, Martin van der Laan, Nils Wiedemann, Paul Schanda, and Nikolaus
Pfanner. “The Mitochondrial Carrier Pathway Transports Non-Canonical Substrates
with an Odd Number of Transmembrane Segments.” BMC Biology. Springer Nature,
2020. https://doi.org/10.1186/s12915-019-0733-6.
ieee: H. Rampelt et al., “The mitochondrial carrier pathway transports non-canonical
substrates with an odd number of transmembrane segments,” BMC Biology,
vol. 18. Springer Nature, 2020.
ista: Rampelt H, Sucec I, Bersch B, Horten P, Perschil I, Martinou J-C, van der
Laan M, Wiedemann N, Schanda P, Pfanner N. 2020. The mitochondrial carrier pathway
transports non-canonical substrates with an odd number of transmembrane segments.
BMC Biology. 18, 2.
mla: Rampelt, Heike, et al. “The Mitochondrial Carrier Pathway Transports Non-Canonical
Substrates with an Odd Number of Transmembrane Segments.” BMC Biology,
vol. 18, 2, Springer Nature, 2020, doi:10.1186/s12915-019-0733-6.
short: H. Rampelt, I. Sucec, B. Bersch, P. Horten, I. Perschil, J.-C. Martinou,
M. van der Laan, N. Wiedemann, P. Schanda, N. Pfanner, BMC Biology 18 (2020).
date_created: 2020-09-17T10:26:53Z
date_published: 2020-01-06T00:00:00Z
date_updated: 2024-10-15T13:23:11Z
day: '06'
doi: 10.1186/s12915-019-0733-6
extern: '1'
external_id:
pmid:
- '31907035'
intvolume: ' 18'
keyword:
- Biotechnology
- Plant Science
- General Biochemistry
- Genetics and Molecular Biology
- Developmental Biology
- Cell Biology
- Physiology
- Ecology
- Evolution
- Behavior and Systematics
- Structural Biology
- General Agricultural and Biological Sciences
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1186/s12915-019-0733-6
month: '01'
oa: 1
oa_version: Published Version
pmid: 1
publication: BMC Biology
publication_identifier:
issn:
- 1741-7007
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
status: public
title: The mitochondrial carrier pathway transports non-canonical substrates with
an odd number of transmembrane segments
type: journal_article
user_id: 0043cee0-e5fc-11ee-9736-f83bc23afbf0
volume: 18
year: '2020'
...
---
_id: '8930'
abstract:
- lang: eng
text: Phenomenological relations such as Ohm’s or Fourier’s law have a venerable
history in physics but are still scarce in biology. This situation restrains predictive
theory. Here, we build on bacterial “growth laws,” which capture physiological
feedback between translation and cell growth, to construct a minimal biophysical
model for the combined action of ribosome-targeting antibiotics. Our model predicts
drug interactions like antagonism or synergy solely from responses to individual
drugs. We provide analytical results for limiting cases, which agree well with
numerical results. We systematically refine the model by including direct physical
interactions of different antibiotics on the ribosome. In a limiting case, our
model provides a mechanistic underpinning for recent predictions of higher-order
interactions that were derived using entropy maximization. We further refine the
model to include the effects of antibiotics that mimic starvation and the presence
of resistance genes. We describe the impact of a starvation-mimicking antibiotic
on drug interactions analytically and verify it experimentally. Our extended model
suggests a change in the type of drug interaction that depends on the strength
of resistance, which challenges established rescaling paradigms. We experimentally
show that the presence of unregulated resistance genes can lead to altered drug
interaction, which agrees with the prediction of the model. While minimal, the
model is readily adaptable and opens the door to predicting interactions of second
and higher-order in a broad range of biological systems.
article_processing_charge: No
author:
- first_name: Bor
full_name: Kavcic, Bor
id: 350F91D2-F248-11E8-B48F-1D18A9856A87
last_name: Kavcic
orcid: 0000-0001-6041-254X
citation:
ama: Kavcic B. Analysis scripts and research data for the paper “Minimal biophysical
model of combined antibiotic action.” 2020. doi:10.15479/AT:ISTA:8930
apa: Kavcic, B. (2020). Analysis scripts and research data for the paper “Minimal
biophysical model of combined antibiotic action.” Institute of Science and Technology
Austria. https://doi.org/10.15479/AT:ISTA:8930
chicago: Kavcic, Bor. “Analysis Scripts and Research Data for the Paper ‘Minimal
Biophysical Model of Combined Antibiotic Action.’” Institute of Science and Technology
Austria, 2020. https://doi.org/10.15479/AT:ISTA:8930.
ieee: B. Kavcic, “Analysis scripts and research data for the paper ‘Minimal biophysical
model of combined antibiotic action.’” Institute of Science and Technology Austria,
2020.
ista: Kavcic B. 2020. Analysis scripts and research data for the paper ‘Minimal
biophysical model of combined antibiotic action’, Institute of Science and Technology
Austria, 10.15479/AT:ISTA:8930.
mla: Kavcic, Bor. Analysis Scripts and Research Data for the Paper “Minimal Biophysical
Model of Combined Antibiotic Action.” Institute of Science and Technology
Austria, 2020, doi:10.15479/AT:ISTA:8930.
short: B. Kavcic, (2020).
contributor:
- contributor_type: supervisor
first_name: Gašper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkačik
orcid: 0000-0002-6699-1455
- contributor_type: supervisor
first_name: Tobias
id: 3E6DB97A-F248-11E8-B48F-1D18A9856A87
last_name: Bollenbach
corr_author: '1'
date_created: 2020-12-09T15:04:02Z
date_published: 2020-12-10T00:00:00Z
date_updated: 2025-06-12T06:33:18Z
day: '10'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.15479/AT:ISTA:8930
file:
- access_level: open_access
checksum: 60a818edeffaa7da1ebf5f8fbea9ba18
content_type: application/zip
creator: bkavcic
date_created: 2020-12-09T15:00:19Z
date_updated: 2020-12-09T15:00:19Z
file_id: '8932'
file_name: PLoSCompBiol2020_datarep.zip
file_size: 315494370
relation: main_file
success: 1
file_date_updated: 2020-12-09T15:00:19Z
has_accepted_license: '1'
keyword:
- Escherichia coli
- antibiotic combinations
- translation
- growth laws
- drug interactions
- bacterial physiology
- translation inhibitors
month: '12'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
record:
- id: '8997'
relation: used_in_publication
status: public
status: public
title: Analysis scripts and research data for the paper "Minimal biophysical model
of combined antibiotic action"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...
---
_id: '11062'
abstract:
- lang: eng
text: Most neurons are not replaced during an animal’s lifetime. This nondividing
state is characterized by extreme longevity and age-dependent decline of key regulatory
proteins. To study the lifespans of cells and proteins in adult tissues, we combined
isotope labeling of mice with a hybrid imaging method (MIMS-EM). Using 15N mapping,
we show that liver and pancreas are composed of cells with vastly different ages,
many as old as the animal. Strikingly, we also found that a subset of fibroblasts
and endothelial cells, both known for their replicative potential, are characterized
by the absence of cell division during adulthood. In addition, we show that the
primary cilia of beta cells and neurons contains different structural regions
with vastly different lifespans. Based on these results, we propose that age mosaicism
across multiple scales is a fundamental principle of adult tissue, cell, and protein
complex organization.
article_processing_charge: No
article_type: original
author:
- first_name: Rafael
full_name: Arrojo e Drigo, Rafael
last_name: Arrojo e Drigo
- first_name: Varda
full_name: Lev-Ram, Varda
last_name: Lev-Ram
- first_name: Swati
full_name: Tyagi, Swati
last_name: Tyagi
- first_name: Ranjan
full_name: Ramachandra, Ranjan
last_name: Ramachandra
- first_name: Thomas
full_name: Deerinck, Thomas
last_name: Deerinck
- first_name: Eric
full_name: Bushong, Eric
last_name: Bushong
- first_name: Sebastien
full_name: Phan, Sebastien
last_name: Phan
- first_name: Victoria
full_name: Orphan, Victoria
last_name: Orphan
- first_name: Claude
full_name: Lechene, Claude
last_name: Lechene
- first_name: Mark H.
full_name: Ellisman, Mark H.
last_name: Ellisman
- first_name: Martin W
full_name: HETZER, Martin W
id: 86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed
last_name: HETZER
orcid: 0000-0002-2111-992X
citation:
ama: Arrojo e Drigo R, Lev-Ram V, Tyagi S, et al. Age mosaicism across multiple
scales in adult tissues. Cell Metabolism. 2019;30(2):343-351.e3. doi:10.1016/j.cmet.2019.05.010
apa: Arrojo e Drigo, R., Lev-Ram, V., Tyagi, S., Ramachandra, R., Deerinck, T.,
Bushong, E., … Hetzer, M. (2019). Age mosaicism across multiple scales in adult
tissues. Cell Metabolism. Elsevier. https://doi.org/10.1016/j.cmet.2019.05.010
chicago: Arrojo e Drigo, Rafael, Varda Lev-Ram, Swati Tyagi, Ranjan Ramachandra,
Thomas Deerinck, Eric Bushong, Sebastien Phan, et al. “Age Mosaicism across Multiple
Scales in Adult Tissues.” Cell Metabolism. Elsevier, 2019. https://doi.org/10.1016/j.cmet.2019.05.010.
ieee: R. Arrojo e Drigo et al., “Age mosaicism across multiple scales in
adult tissues,” Cell Metabolism, vol. 30, no. 2. Elsevier, p. 343–351.e3,
2019.
ista: Arrojo e Drigo R, Lev-Ram V, Tyagi S, Ramachandra R, Deerinck T, Bushong E,
Phan S, Orphan V, Lechene C, Ellisman MH, Hetzer M. 2019. Age mosaicism across
multiple scales in adult tissues. Cell Metabolism. 30(2), 343–351.e3.
mla: Arrojo e Drigo, Rafael, et al. “Age Mosaicism across Multiple Scales in Adult
Tissues.” Cell Metabolism, vol. 30, no. 2, Elsevier, 2019, p. 343–351.e3,
doi:10.1016/j.cmet.2019.05.010.
short: R. Arrojo e Drigo, V. Lev-Ram, S. Tyagi, R. Ramachandra, T. Deerinck, E.
Bushong, S. Phan, V. Orphan, C. Lechene, M.H. Ellisman, M. Hetzer, Cell Metabolism
30 (2019) 343–351.e3.
date_created: 2022-04-07T07:45:21Z
date_published: 2019-08-06T00:00:00Z
date_updated: 2025-12-15T10:02:11Z
day: '06'
department:
- _id: MaHe
doi: 10.1016/j.cmet.2019.05.010
extern: '1'
external_id:
pmid:
- '31178361'
intvolume: ' 30'
issue: '2'
keyword:
- Cell Biology
- Molecular Biology
- Physiology
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1016/j.cmet.2019.05.010
month: '08'
oa: 1
oa_version: Published Version
page: 343-351.e3
pmid: 1
publication: Cell Metabolism
publication_identifier:
issn:
- 1550-4131
publication_status: published
publisher: Elsevier
quality_controlled: '1'
scopus_import: '1'
status: public
title: Age mosaicism across multiple scales in adult tissues
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 30
year: '2019'
...
---
_id: '10881'
abstract:
- lang: eng
text: Strigolactones (SLs) are a relatively recent addition to the list of plant
hormones that control different aspects of plant development. SL signalling is
perceived by an α/β hydrolase, DWARF 14 (D14). A close homolog of D14, KARRIKIN
INSENSTIVE2 (KAI2), is involved in perception of an uncharacterized molecule called
karrikin (KAR). Recent studies in Arabidopsis identified the SUPPRESSOR OF MAX2
1 (SMAX1) and SMAX1-LIKE 7 (SMXL7) to be potential SCF–MAX2 complex-mediated proteasome
targets of KAI2 and D14, respectively. Genetic studies on SMXL7 and SMAX1 demonstrated
distinct developmental roles for each, but very little is known about these repressors
in terms of their sequence features. In this study, we performed an extensive
comparative analysis of SMXLs and determined their phylogenetic and evolutionary
history in the plant lineage. Our results show that SMXL family members can be
sub-divided into four distinct phylogenetic clades/classes, with an ancient SMAX1.
Further, we identified the clade-specific motifs that have evolved and that might
act as determinants of SL-KAR signalling specificity. These specificities resulted
from functional diversities among the clades. Our results suggest that a gradual
co-evolution of SMXL members with their upstream receptors D14/KAI2 provided an
increased specificity to both the SL perception and response in land plants.
acknowledgement: "This project received funding from the European Union’s Horizon
2020 research and innovation programme under the Marie Skłodowska-Curie Actions
and it is co-financed by the South Moravian Region under grant agreement No. 665860
(SS). Access to computing and storage facilities owned by parties and projects contributing
to the national grid infrastructure, MetaCentrum, provided under the program ‘Projects
of Large Infrastructure for Research, Development, and Innovations’ (LM2010005)
was greatly appreciated (RSV). The project was funded by The Ministry of Education,
Youth and Sports/MES of the Czech Republic under the project CEITEC 2020 (LQ1601)
(TN, TRM). JF was supported by the European Research Council (project ERC-2011-StG
20101109-PSDP) and the Czech Science Foundation GAČR (GA13-40637S). We thank Dr
Kamel Chibani for active discussions on the evolutionary analysis and Nandan Mysore
Vardarajan for his critical comments on the manuscript. This article reflects\r\nonly
the authors’ views, and the EU is not responsible for any use that may be made of
the information it contains. "
article_processing_charge: No
article_type: original
author:
- first_name: Taraka Ramji
full_name: Moturu, Taraka Ramji
last_name: Moturu
- first_name: Sravankumar
full_name: Thula, Sravankumar
last_name: Thula
- first_name: Ravi Kumar
full_name: Singh, Ravi Kumar
last_name: Singh
- first_name: Tomasz
full_name: Nodzyński, Tomasz
last_name: Nodzyński
- first_name: Radka Svobodová
full_name: Vařeková, Radka Svobodová
last_name: Vařeková
- first_name: Jiří
full_name: Friml, Jiří
id: 4159519E-F248-11E8-B48F-1D18A9856A87
last_name: Friml
orcid: 0000-0002-8302-7596
- first_name: Sibu
full_name: Simon, Sibu
last_name: Simon
citation:
ama: Moturu TR, Thula S, Singh RK, et al. Molecular evolution and diversification
of the SMXL gene family. Journal of Experimental Botany. 2018;69(9):2367-2378.
doi:10.1093/jxb/ery097
apa: Moturu, T. R., Thula, S., Singh, R. K., Nodzyński, T., Vařeková, R. S., Friml,
J., & Simon, S. (2018). Molecular evolution and diversification of the SMXL
gene family. Journal of Experimental Botany. Oxford University Press. https://doi.org/10.1093/jxb/ery097
chicago: Moturu, Taraka Ramji, Sravankumar Thula, Ravi Kumar Singh, Tomasz Nodzyński,
Radka Svobodová Vařeková, Jiří Friml, and Sibu Simon. “Molecular Evolution and
Diversification of the SMXL Gene Family.” Journal of Experimental Botany.
Oxford University Press, 2018. https://doi.org/10.1093/jxb/ery097.
ieee: T. R. Moturu et al., “Molecular evolution and diversification of the
SMXL gene family,” Journal of Experimental Botany, vol. 69, no. 9. Oxford
University Press, pp. 2367–2378, 2018.
ista: Moturu TR, Thula S, Singh RK, Nodzyński T, Vařeková RS, Friml J, Simon S.
2018. Molecular evolution and diversification of the SMXL gene family. Journal
of Experimental Botany. 69(9), 2367–2378.
mla: Moturu, Taraka Ramji, et al. “Molecular Evolution and Diversification of the
SMXL Gene Family.” Journal of Experimental Botany, vol. 69, no. 9, Oxford
University Press, 2018, pp. 2367–78, doi:10.1093/jxb/ery097.
short: T.R. Moturu, S. Thula, R.K. Singh, T. Nodzyński, R.S. Vařeková, J. Friml,
S. Simon, Journal of Experimental Botany 69 (2018) 2367–2378.
date_created: 2022-03-18T12:43:22Z
date_published: 2018-04-13T00:00:00Z
date_updated: 2025-04-15T07:48:01Z
day: '13'
department:
- _id: JiFr
doi: 10.1093/jxb/ery097
ec_funded: 1
external_id:
isi:
- '000430727000016'
pmid:
- '29538714'
intvolume: ' 69'
isi: 1
issue: '9'
keyword:
- Plant Science
- Physiology
language:
- iso: eng
month: '04'
oa_version: None
page: 2367-2378
pmid: 1
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_identifier:
eissn:
- 1460-2431
issn:
- 0022-0957
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: Molecular evolution and diversification of the SMXL gene family
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 69
year: '2018'
...
---
_id: '12196'
abstract:
- lang: eng
text: SNC1 (SUPPRESSOR OF NPR1, CONSTITUTIVE 1) is one of a suite of intracellular
Arabidopsis NOD-like receptor (NLR) proteins which, upon activation, result in
the induction of defense responses. However, the molecular mechanisms underlying
NLR activation and the subsequent provocation of immune responses are only partially
characterized. To identify negative regulators of NLR-mediated immunity, a forward
genetic screen was undertaken to search for enhancers of the dwarf, autoimmune
gain-of-function snc1 mutant. To avoid lethality resulting from severe dwarfism,
the screen was conducted using mos4 (modifier of snc1, 4) snc1 plants, which display
wild-type-like morphology and resistance. M2 progeny were screened for mutant,
snc1-enhancing (muse) mutants displaying a reversion to snc1-like phenotypes.
The muse9 mos4 snc1 triple mutant was found to exhibit dwarf morphology, elevated
expression of the pPR2-GUS defense marker reporter gene and enhanced resistance
to the oomycete pathogen Hyaloperonospora arabidopsidis Noco2. Via map-based cloning
and Illumina sequencing, it was determined that the muse9 mutation is in the gene
encoding the SWI/SNF chromatin remodeler SYD (SPLAYED), and was thus renamed syd-10.
The syd-10 single mutant has no observable alteration from wild-type-like resistance,
although the syd-4 T-DNA insertion allele displays enhanced resistance to the
bacterial pathogen Pseudomonas syringae pv. maculicola ES4326. Transcription of
SNC1 is increased in both syd-4 and syd-10. These data suggest that SYD plays
a subtle, specific role in the regulation of SNC1 expression and SNC1-mediated
immunity. SYD may work with other proteins at the chromatin level to repress SNC1
transcription; such regulation is important for fine-tuning the expression of
NLR-encoding genes to prevent unpropitious autoimmunity.
acknowledgement: "This work was supported by the National Sciences and Engineering
Research Council of Canada [Canada Graduate\r\nScholarship–Doctoral to K.J.; Discovery
Grant to X.L.]; the department of Botany at the University of f British Columbia\r\n[the
Dewar Cooper Memorial Fund to X.L.].The authors would like to thank Dr. Yuelin Zhang
and Ms. Yan Li for their assistance with next-generation sequencing, and Mr. Charles
Copeland for critical reading of the manuscript."
article_processing_charge: No
article_type: original
author:
- first_name: Kaeli C.M.
full_name: Johnson, Kaeli C.M.
last_name: Johnson
- first_name: Shitou
full_name: Xia, Shitou
last_name: Xia
- first_name: Xiaoqi
full_name: Feng, Xiaoqi
id: e0164712-22ee-11ed-b12a-d80fcdf35958
last_name: Feng
orcid: 0000-0002-4008-1234
- first_name: Xin
full_name: Li, Xin
last_name: Li
citation:
ama: Johnson KCM, Xia S, Feng X, Li X. The chromatin remodeler SPLAYED negatively
regulates SNC1-mediated immunity. Plant and Cell Physiology. 2015;56(8):1616-1623.
doi:10.1093/pcp/pcv087
apa: Johnson, K. C. M., Xia, S., Feng, X., & Li, X. (2015). The chromatin remodeler
SPLAYED negatively regulates SNC1-mediated immunity. Plant and Cell Physiology.
Oxford University Press. https://doi.org/10.1093/pcp/pcv087
chicago: Johnson, Kaeli C.M., Shitou Xia, Xiaoqi Feng, and Xin Li. “The Chromatin
Remodeler SPLAYED Negatively Regulates SNC1-Mediated Immunity.” Plant and Cell
Physiology. Oxford University Press, 2015. https://doi.org/10.1093/pcp/pcv087.
ieee: K. C. M. Johnson, S. Xia, X. Feng, and X. Li, “The chromatin remodeler SPLAYED
negatively regulates SNC1-mediated immunity,” Plant and Cell Physiology,
vol. 56, no. 8. Oxford University Press, pp. 1616–1623, 2015.
ista: Johnson KCM, Xia S, Feng X, Li X. 2015. The chromatin remodeler SPLAYED negatively
regulates SNC1-mediated immunity. Plant and Cell Physiology. 56(8), 1616–1623.
mla: Johnson, Kaeli C. M., et al. “The Chromatin Remodeler SPLAYED Negatively Regulates
SNC1-Mediated Immunity.” Plant and Cell Physiology, vol. 56, no. 8, Oxford
University Press, 2015, pp. 1616–23, doi:10.1093/pcp/pcv087.
short: K.C.M. Johnson, S. Xia, X. Feng, X. Li, Plant and Cell Physiology 56 (2015)
1616–1623.
date_created: 2023-01-16T09:20:22Z
date_published: 2015-08-01T00:00:00Z
date_updated: 2023-05-08T11:03:23Z
department:
- _id: XiFe
doi: 10.1093/pcp/pcv087
extern: '1'
external_id:
pmid:
- '26063389'
intvolume: ' 56'
issue: '8'
keyword:
- Cell Biology
- Plant Science
- Physiology
- General Medicine
language:
- iso: eng
month: '08'
oa_version: None
page: 1616-1623
pmid: 1
publication: Plant and Cell Physiology
publication_identifier:
issn:
- 0032-0781
- 1471-9053
publication_status: published
publisher: Oxford University Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: The chromatin remodeler SPLAYED negatively regulates SNC1-mediated immunity
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 56
year: '2015'
...
---
_id: '12925'
abstract:
- lang: eng
text: Normal function of organs and cells is tightly linked to the cytoarchitecture.
Control of the cell volume is therefore vital for the organism. A widely established
strategy of cells to counteract swelling is the activation of chloride and potassium
channels, which leads to a net efflux of salt followed by water - a process termed
regulatory volume decrease. Since there is evidence for swelling-dependent chloride
channels (IClswell) being activated also during pathological processes, the identification
of the molecular entity underlying IClswell is of utmost importance. Several proteins
are discussed as the channel forming IClswell, i.e. phospholemman, p-glycoprotein,
CLC-3 and ICln. In this review we would like to focus on the properties of ICln,
a protein cloned from a Madin Darby canine kidney (MDCK) cell library whose expression
in Xenopus laevis oocytes resulted in a nucleotide sensitive outwardly rectifying
chloride current closely resembling the biophysical properties of IClswell.
article_processing_charge: No
article_type: original
author:
- first_name: Johannes
full_name: Fürst, Johannes
last_name: Fürst
- first_name: Martin
full_name: Jakab, Martin
last_name: Jakab
- first_name: Matthias
full_name: König, Matthias
last_name: König
- first_name: Markus
full_name: Ritter, Markus
last_name: Ritter
- first_name: Martin
full_name: Gschwentner, Martin
last_name: Gschwentner
- first_name: Jakob
full_name: Rudzki, Jakob
last_name: Rudzki
- first_name: Johann G
full_name: Danzl, Johann G
id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87
last_name: Danzl
orcid: 0000-0001-8559-3973
- first_name: Michael
full_name: Mayer, Michael
last_name: Mayer
- first_name: Carmen M.
full_name: Burtscher, Carmen M.
last_name: Burtscher
- first_name: Julia
full_name: Schirmer, Julia
last_name: Schirmer
- first_name: Brigitte
full_name: Maier, Brigitte
last_name: Maier
- first_name: Manfred
full_name: Nairz, Manfred
last_name: Nairz
- first_name: Sabine
full_name: Chwatal, Sabine
last_name: Chwatal
- first_name: Markus
full_name: Paulmichl, Markus
last_name: Paulmichl
citation:
ama: Fürst J, Jakab M, König M, et al. Structure and Function of the Ion Channel
ICln. Cellular Physiology and Biochemistry. 2000;10(5-6):329-334. doi:10.1159/000016374
apa: Fürst, J., Jakab, M., König, M., Ritter, M., Gschwentner, M., Rudzki, J., …
Paulmichl, M. (2000). Structure and Function of the Ion Channel ICln. Cellular
Physiology and Biochemistry. S. Karger AG. https://doi.org/10.1159/000016374
chicago: Fürst, Johannes, Martin Jakab, Matthias König, Markus Ritter, Martin Gschwentner,
Jakob Rudzki, Johann G Danzl, et al. “Structure and Function of the Ion Channel
ICln.” Cellular Physiology and Biochemistry. S. Karger AG, 2000. https://doi.org/10.1159/000016374.
ieee: J. Fürst et al., “Structure and Function of the Ion Channel ICln,”
Cellular Physiology and Biochemistry, vol. 10, no. 5–6. S. Karger AG, pp.
329–334, 2000.
ista: Fürst J, Jakab M, König M, Ritter M, Gschwentner M, Rudzki J, Danzl JG, Mayer
M, Burtscher CM, Schirmer J, Maier B, Nairz M, Chwatal S, Paulmichl M. 2000. Structure
and Function of the Ion Channel ICln. Cellular Physiology and Biochemistry. 10(5–6),
329–334.
mla: Fürst, Johannes, et al. “Structure and Function of the Ion Channel ICln.” Cellular
Physiology and Biochemistry, vol. 10, no. 5–6, S. Karger AG, 2000, pp. 329–34,
doi:10.1159/000016374.
short: J. Fürst, M. Jakab, M. König, M. Ritter, M. Gschwentner, J. Rudzki, J.G.
Danzl, M. Mayer, C.M. Burtscher, J. Schirmer, B. Maier, M. Nairz, S. Chwatal,
M. Paulmichl, Cellular Physiology and Biochemistry 10 (2000) 329–334.
date_created: 2023-05-08T09:04:58Z
date_published: 2000-01-01T00:00:00Z
date_updated: 2023-05-08T10:07:10Z
doi: 10.1159/000016374
extern: '1'
external_id:
pmid:
- '11125213'
intvolume: ' 10'
issue: 5-6
keyword:
- Physiology
language:
- iso: eng
oa_version: None
page: 329-334
pmid: 1
publication: Cellular Physiology and Biochemistry
publication_identifier:
issn:
- 1015-8987
- 1421-9778
publication_status: published
publisher: S. Karger AG
quality_controlled: '1'
scopus_import: '1'
status: public
title: Structure and Function of the Ion Channel ICln
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 10
year: '2000'
...