| 1. |
- Labit, B., et al.
(författare)
-
Dependence on plasma shape and plasma fueling for small edge-localized mode regimes in TCV and ASDEX Upgrade
- 2019
-
Ingår i: Nuclear Fusion. - : IOP Publishing. - 1741-4326 .- 0029-5515. ; 59:8
-
Tidskriftsartikel (refereegranskat)abstract
- © 2019 Institute of Physics Publishing. All rights reserved. Within the EUROfusion MST1 work package, a series of experiments has been conducted on AUG and TCV devices to disentangle the role of plasma fueling and plasma shape for the onset of small ELM regimes. On both devices, small ELM regimes with high confinement are achieved if and only if two conditions are fulfilled at the same time. Firstly, the plasma density at the separatrix must be large enough (ne,sep/nG ∼ 0.3), leading to a pressure profile flattening at the separatrix, which stabilizes type-I ELMs. Secondly, the magnetic configuration has to be close to a double null (DN), leading to a reduction of the magnetic shear in the extreme vicinity of the separatrix. As a consequence, its stabilizing effect on ballooning modes is weakened.
|
|
| 2. |
|
|
| 3. |
|
|
| 4. |
- Karnkowska, Anna, et al.
(författare)
-
The Oxymonad Genome Displays Canonical Eukaryotic Complexity in the Absence of a Mitochondrion
- 2019
-
Ingår i: Molecular biology and evolution. - : OXFORD UNIV PRESS. - 0737-4038 .- 1537-1719. ; 36:10, s. 2292-2312
-
Tidskriftsartikel (refereegranskat)abstract
- The discovery that the protist Monocercomonoides exilis completely lacks mitochondria demonstrates that these organelles are not absolutely essential to eukaryotic cells. However, the degree to which the metabolism and cellular systems of this organism have adapted to the loss of mitochondria is unknown. Here, we report an extensive analysis of the M. exilis genome to address this question. Unexpectedly, we find that M. exilis genome structure and content is similar in complexity to other eukaryotes and less "reduced" than genomes of some other protists from the Metamonada group to which it belongs. Furthermore, the predicted cytoskeletal systems, the organization of endomembrane systems, and biosynthetic pathways also display canonical eukaryotic complexity. The only apparent preadaptation that permitted the loss of mitochondria was the acquisition of the SUF system for Fe-S cluster assembly and the loss of glycine cleavage system. Changes in other systems, including in amino acid metabolism and oxidative stress response, were coincident with the loss of mitochondria but are likely adaptations to the microaerophilic and endobiotic niche rather than the mitochondrial loss per se. Apart from the lack of mitochondria and peroxisomes, we show that M. exilis is a fully elaborated eukaryotic cell that is a promising model system in which eukaryotic cell biology can be investigated in the absence of mitochondria.
|
|
| 5. |
|
|
| 6. |
- Kobiela, A, et al.
(författare)
-
Exposure of Keratinocytes to Candida Albicans in the Context of Atopic Milieu Induces Changes in the Surface Glycosylation Pattern of Small Extracellular Vesicles to Enhance Their Propensity to Interact With Inhibitory Siglec Receptors
- 2022
-
Ingår i: Frontiers in immunology. - : Frontiers Media SA. - 1664-3224. ; 13, s. 884530-
-
Tidskriftsartikel (refereegranskat)abstract
- Candida albicans (C. albicans) infection is a potential complication in the individuals with atopic dermatitis (AD) and can affect clinical course of the disease. Here, using primary keratinocytes we determined that atopic milieu promotes changes in the interaction of small extracellular vesicles (sEVs) with dendritic cells and that this is further enhanced by the presence of C. albicans. sEV uptake is largely dependent on the expression of glycans on their surface; modelling of the protein interactions indicated that recognition of this pathogen through C. albicans-relevant pattern recognition receptors (PRRs) is linked to several glycosylation enzymes which may in turn affect the expression of sEV glycans. Here, significant changes in the surface glycosylation pattern, as determined by lectin array, could be observed in sEVs upon a combined exposure of keratinocytes to AD cytokines and C. albicans. This included enhanced expression of multiple types of glycans, for which several dendritic cell receptors could be proposed as binding partners. Blocking experiments showed predominant involvement of the inhibitory Siglec-7 and -9 receptors in the sEV-cell interaction and the engagement of sialic acid-containing carbohydrate moieties on the surface of sEVs. This pointed on ST6 β-Galactoside α-2,6-Sialyltransferase 1 (ST6GAL1) and Core 1 β,3-Galactosyltransferase 1 (C1GALT1) as potential enzymes involved in the process of remodelling of the sEV surface glycans upon C. albicans exposure. Our results suggest that, in combination with atopic dermatitis milieu, C. albicans promotes alterations in the glycosylation pattern of keratinocyte-derived sEVs to interact with inhibitory Siglecs on antigen presenting cells. Hence, a strategy aiming at this pathway to enhance antifungal responses and restrict pathogen spread could offer novel therapeutic options for skin candidiasis in AD.
|
|
| 7. |
- Komm, M., et al.
(författare)
-
Contribution to the multi-machine pedestal scaling from the COMPASS tokamak
- 2017
-
Ingår i: Nuclear Fusion. - : Institute of Physics (IOP). - 0029-5515 .- 1741-4326. ; 57:5
-
Tidskriftsartikel (refereegranskat)abstract
- First systematic measurements of pedestal structure during Ohmic and NBI-assisted Type I ELMy H-modes were performed on the COMPASS tokamak in two dedicated experimental campaigns during 2015 and 2016. By adjusting the NBI heating and a toroidal magnetic field, the electron pedestal temperature was increased from 200 eV up to 300 eV, which allowed reaching pedestal collisionality nu(ped)* < 1 at q(95) similar to 3. COMPASS has approached conditions for the Identity experiment done at JET & DIII-D, complementing the range of scanned rho(ped)*. The pedestal pressure was successfully reproduced by the EPED model. The dependence of pedestal pressure width on nu(ped)* and beta(pol)(ped) is discussed.
|
|
| 8. |
- Komm, M., et al.
(författare)
-
Simulations of thermionic suppression during tungsten transient melting experiments
- 2017
-
Ingår i: Physica Scripta. - : Institute of Physics (IOP). - 0031-8949 .- 1402-4896. ; T170
-
Tidskriftsartikel (refereegranskat)abstract
- Plasma-facing components receive enormous heat fluxes under steady state and especially during transient conditions that can even lead to tungsten (W) melting. Under these conditions, the unimpeded thermionic current density emitted from the W surfaces can exceed the incident plasma current densities by several orders of magnitude triggering a replacement current which drives melt layer motion via the J x B force. However, in tokamaks, the thermionic current is suppressed by space-charge effects and prompt re-deposition due to gyro-rotation. We present comprehensive results of particle-in-cell modelling using the 2D3V code SPICE2 for the thermionic emissive sheath of tungsten. Simulations have been performed for various surface temperatures and selected inclinations of the magnetic field corresponding to the leading edge and sloped exposures. The surface temperature dependence of the escaping thermionic current and its limiting value are determined for various plasma parameters; for the leading edge geometry, the results agree remarkably well with the Takamura analytical model. For the sloped geometry, the limiting value is observed to be proportional to the thermal electron current and a simple analytical expression is proposed that accurately reproduces the numerical results.
|
|
| 9. |
- Panek, Jiri, et al.
(författare)
-
Polymeric Nanoparticles Stabilized by Surfactants Investigated by Light Scattering, Small-Angle Neutron Scattering, and Cryo-TEM Methods
- 2011
-
Ingår i: Journal of Dispersion Science and Technology. - : Informa UK Limited. - 0193-2691 .- 1532-2351. ; 32:6, s. 888-897
-
Tidskriftsartikel (refereegranskat)abstract
- We have investigated self-organization of polymers with surfactants through solvent shifting process resulting in formation of stable and uniform nanoparticles. We studied polymeric nanoparticles made of poly(methylmethacrylate) and of polystyrene dispersed in water. The dispersion was prepared by a fast mixing of a solution of the polymers with a solution of several ionic and nonionic surfactants in pure water. We observed the formation of well defined nanoparticles by light scattering, small-angle neutron scattering (SANS), and cryogenic transmission electron microscopy (Cryo-TEM) methods. The study shows how nanoparticle properties are changed by the chemical composition of surfactants, molar mass of polymers, concentrations of both components and finally, by variations in method of nanoparticles preparation. Dynamic light scattering (DLS) and static light scattering (SLS) provide the hydrodynamic radii and radii of gyration for selected types of nanoparticles. Cryo-TEM experiments prove that the nanoparticles have good spherical shape. Analysis of SANS data and Cryo-TEM micrographs suggest that the prepared particles are composed of polymer and surfactant that are evenly distributed.
|
|
| 10. |
- Tice, Alexander K., et al.
(författare)
-
PhyloFisher : A phylogenomic package for resolving eukaryotic relationships
- 2021
-
Ingår i: PLoS biology. - : Public Library of Science (PLoS). - 1544-9173 .- 1545-7885. ; 19:8
-
Tidskriftsartikel (refereegranskat)abstract
- Phylogenomic analyses of hundreds of protein-coding genes aimed at resolving phylogenetic relationships is now a common practice. However, no software currently exists that includes tools for dataset construction and subsequent analysis with diverse validation strategies to assess robustness. Furthermore, there are no publicly available high-quality curated databases designed to assess deep (>100 million years) relationships in the tree of eukaryotes. To address these issues, we developed an easy-to-use software package, PhyloFisher (https://github.com/TheBrownLab/PhyloFisher), written in Python 3. PhyloFisher includes a manually curated database of 240 protein-coding genes from 304 eukaryotic taxa covering known eukaryotic diversity, a novel tool for ortholog selection, and utilities that will perform diverse analyses required by state-of-the-art phylogenomic investigations. Through phylogenetic reconstructions of the tree of eukaryotes and of the Saccharomycetaceae clade of budding yeasts, we demonstrate the utility of the PhyloFisher workflow and the provided starting database to address phylogenetic questions across a large range of evolutionary time points for diverse groups of organisms. We also demonstrate that undetected paralogy can remain in phylogenomic "single-copy orthogroup" datasets constructed using widely accepted methods such as all vs. all BLAST searches followed by Markov Cluster Algorithm (MCL) clustering and application of automated tree pruning algorithms. Finally, we show how the PhyloFisher workflow helps detect inadvertent paralog inclusions, allowing the user to make more informed decisions regarding orthology assignments, leading to a more accurate final dataset.
|
|
