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New U–Pb ages of detrital and igneous zircons of the Uppermost Unit of Crete shed light on its provenance and on Eohellenic to Eoalpine imprints in the eastern Mediterranean. The detrital zircons of all nappes show Variscan ages and are characterized by a Minoan-type age spectrum, which is typical for the NE margin of Gondwana. Parts of the metasedimentary rocks are unexpectedly young. Their detrital zircon ages continue via the Permian until the Late Triassic, Middle Jurassic and Early Cretaceous. The high-grade metamorphic rocks of the Asterousia crystalline complex are likely equivalents of the low-grade metamorphic trench and fore-arc deposits of the Vatos nappe pointing to Late Cretaceous slab roll back. The presence of both late Permian detrital zircons and Late Cretaceous arc-type granitoids suggest that the Uppermost Unit of Crete is derived from the late Permian/Late Cretaceous magmatic belt situated north of the Sava–Vardar–Izmir–Ankara Suture in the Strandja–Rhodope area. To achieve their recent position on Crete, the nappes had to travel more than 500 km. The traveling path is well tracked by rocks of the Upper Cycladic Unit, which are similar to those of the Uppermost Unit of Crete. The large displacement of the Cretan nappes was controlled not only by nappe transport, but probably also by dextral strike–slip along the North Anatolian Fault Zone and related counterclockwise rotation of the Anatolian block since the Eocene.
We report on the first search for ¯Λ−Λ oscillations in the decay 𝐽/𝜓→𝑝𝐾−¯Λ+c.c. by analyzing 1.31×109 𝐽/𝜓 events accumulated with the BESIII detector at the BEPCII collider. The 𝐽/𝜓 events are produced using 𝑒+𝑒− collisions at a center of mass energy √𝑠=3.097 GeV. No evidence for hyperon oscillations is observed. The upper limit for the oscillation rate of ¯Λ to Λ hyperons is determined to be 𝒫(Λ)=[ℬ(𝐽/𝜓→𝑝𝐾−Λ+c.c.)/ℬ(𝐽/𝜓→𝑝𝐾−¯Λ+c.c.)]<4.4×10−6 corresponding to an oscillation parameter 𝛿𝑚Λ¯Λ of less than 3.8×10−18 GeV at the 90% confidence level.
We analyze the experimental data on nuclei and hypernuclei yields recently obtained by the STAR collaboration. The hybrid dynamical and statistical approaches which have been developed previously are able to describe the experimental data reasonably. We discuss the intriguing difference between the yields of normal nuclei and hypernuclei which may be related to the properties of hypermatter at subnuclear densities. Most importantly new (hyper-)nuclei could be detected via particle correlations, and such measurements are relevant to pin down the production mechanism.
We analyze the experimental data on nuclei and hypernuclei yields recently obtained by the STAR collaboration. The hybrid dynamical and statistical approaches which have been developed previously are able to describe the experimental data reasonably. We discuss the intriguing difference between the yields of normal nuclei and hypernuclei which may be related to the properties of hypermatter at subnuclear densities. Most importantly new (hyper-)nuclei could be detected via particle correlations, and such measurements are relevant to pin down the production mechanism.
We investigate the early time dynamics of heavy ion collisions studying the time evolution of the energy-momentum tensor as well as energy-momentum correlations within a uniformly thermalizing holographic QGP. From these quantities, we suggest a far-from equilibrium definition of shear viscosity, which is a crucial property of QCD matter as it significantly determines the generation of elliptic flow already at early times. During an exemplary initial heating phase of the holographic QGP the shear viscosity of entropy density ratio decreases down to 60%, followed by an overshoot to 110% of the near-equilibrium value, η/s=1/(4π). Implications for the QCD QGP are discussed. Subsequently, we consider a holographic QGP which is Bjorken-expanding. Its energy-momentum tensor components have a known hydrodynamic attractor to which all time evolutions collapse independent of the initial conditions. Based on this, we propose a definition for a far from equilibrium speed of sound, and analytically compute its hydrodynamic attractor. Subjecting this Bjorken-expanding plasma to an external magnetic field and an axial chemical potential, we study the chiral magnetic effect far from equilibrium.
In natural environments, background noise can degrade the integrity of acoustic signals, posing a problem for animals that rely on their vocalizations for communication and navigation. A simple behavioral strategy to combat acoustic interference would be to restrict call emissions to periods of low-amplitude or no noise. Using audio playback and computational tools for the automated detection of over 2.5 million vocalizations from groups of freely vocalizing bats, we show that bats (Carollia perspicillata) can dynamically adapt the timing of their calls to avoid acoustic jamming in both predictably and unpredictably patterned noise. This study demonstrates that bats spontaneously seek out temporal windows of opportunity for vocalizing in acoustically crowded environments, providing a mechanism for efficient echolocation and communication in cluttered acoustic landscapes.
Long non-coding RNAs are a very versatile class of molecules that can have important roles in regulating a cells function, including regulating other genes on the transcriptional level. One of these mechanisms is that RNA can directly interact with DNA thereby recruiting additional components such as proteins to these sites via an RNA:dsDNA triplex formation. We genetically deleted the triplex forming sequence (FendrrBox) from the lncRNA Fendrr in mice and found that this FendrrBox is partially required for Fendrr function in vivo. We found that the loss of the triplex forming site in developing lungs causes a dysregulation of gene programs associated with lung fibrosis. A set of these genes contain a triplex site directly at their promoter and are expressed in lung fibroblasts. We biophysically confirmed the formation of an RNA:dsDNA triplex with target promoters in vitro. We found that Fendrr with the Wnt signalling pathway regulates these genes, implicating that Fendrr synergizes with Wnt signalling in lung fibrosis.
Preparing auditory task switching in a task with overlapping and non-overlapping response sets
(2023)
We used a variant of cued auditory task switching to investigate task preparation and its relation to response-set overlap. Previous studies found increased interference with overlapping response sets across tasks relative to non-overlapping motor response sets. In the present experiments, participants classified either pitch or loudness of a simple tone as low or high, hence, both tasks were constructed around common underlying integrated semantic categories ranging from low to high. Manual responses overlapped in both category and modality for both tasks in Experiment 1A, whereas each task was related to a specific response category and response modality (manual vs. vocal) in Experiment 1B. Focusing on the manual responses in both experiments, the data showed that non-overlapping response sets (Experiment 1B) resulted in a decreased congruency effect, suggesting reduced response-based crosstalk and thus better task shielding, but at the same time switch costs were increased, suggesting less efficient switching between task sets. Moreover, varying preparation time (cue-stimulus interval, CSI) showed that long CSI led to better performance overall. Our results thus suggest that when non-overlapping response sets share common semantic categories across tasks, there is no general benefit over overlapping response sets.
Polyunsaturated fatty acids (PUFAs) play essential roles in mediating inflammation and its resolution. PUFA metabolites generated by the cytochrome P450 (CYP) - soluble epoxide hydrolase (sEH) axis are known to regulate macrophage activation/polarization but little is known about their role in the resolution of inflammation. Monocytes were isolated from murine bone marrow or human peripheral blood and differentiated to naïve macrophages (M0). Thereafter cells were polarized using LPS and IFNγ (M1), IL-4 (M2a), or TGFβ1 (M2c). Gene expression was analyzed by RNA sequencing, RT-qPCR and Western blotting. Phagocytosis of zymosan and oxo-LDL were also assessed in vitro. Zymosan-induced peritonitis combined with immune cell profiling was used to evaluate the resolution of inflammation in vivo. The expression of sEH was comparable in M0, M1 and M2a macrophages but markedly elevated in M2c polarized cells. The increase in sEH expression elicited by TGFβ relied on the TGFβ receptor ALK5 and the phosphorylation of SMAD2, which was able to bind to the sEH promoter. In macrophages lacking sEH, M2c polarization was incomplete and characterized by lower levels of pro-resolving phagocytosis associated receptors (Tlr2 and Mrc1), as well as higher levels of the pro-inflammatory markers; Nlrp3, IL-1β and TNFα. Fitting with the failure to upregulate phagocytosis associated receptors, the uptake of zymosan and ox-LDL was less efficient in M2c macrophages from sEH-/- mice. The latter animals also demonstrated a retarded resolution of inflammation (zymosan-induced peritonitis) in vivo with fewer resident macrophages and recruited macrophages. PUFA profile analysis indicated decreased sEH substrates e.g., 11, 12-EET, as well as increased sEH products e.g., 11, 12-DHET, indicating an increased sEH activity in M2c macrophages. Taken together, our data indicates that sEH expression is required for the effective M2c polarization of macrophages and thus the resolution of inflammation.
Off-central heavy-ion collisions are known to feature magnetic fields with magnitudes and characteristic gradients corresponding to the scale of the strong interactions. In this work, we employ equilibrium lattice simulations of the underlying theory, QCD, involving similar inhomogeneous magnetic field profiles to achieve a better understanding of this system. We simulate three flavors of dynamical staggered quarks with physical masses at a range of magnetic fields and temperatures, and extrapolate the results to the continuum limit. Analyzing the impact of the field on the quark condensate and the Polyakov loop, we find non-trivial spatial features that render the QCD medium qualitatively different as in the homogeneous setup, especially at temperatures around the transition. In addition, we construct leading-order chiral perturbation theory for the inhomogeneous background and compare its prediction to our lattice results at low temperature. Our findings will be useful to benchmark effective theories and low-energy models of QCD for a better description of peripheral heavy-ion collisions.
Off-central heavy-ion collisions are known to feature magnetic fields with magnitudes and characteristic gradients corresponding to the scale of the strong interactions. In this work, we employ equilibrium lattice simulations of the underlying theory, QCD, involving similar inhomogeneous magnetic field profiles to achieve a better understanding of this system. We simulate three flavors of dynamical staggered quarks with physical masses at a range of magnetic fields and temperatures, and extrapolate the results to the continuum limit. Analyzing the impact of the field on the quark condensate and the Polyakov loop, we find non-trivial spatial features that render the QCD medium qualitatively different as in the homogeneous setup, especially at temperatures around the transition. In addition, we construct leading-order chiral perturbation theory for the inhomogeneous background and compare its prediction to our lattice results at low temperature. Our findings will be useful to benchmark effective theories and low-energy models of QCD for a better description of peripheral heavy-ion collisions.
We present cross sections for the reaction e+e−→K0SK0L at center-of-mass energies ranging from 3.51 GeV to 4.95 GeV using data samples collected in the BESIII experiment, corresponding to a total integrated luminosity of 26.5 fb−1. The ratio of neutral-to-charged kaon form factors at large momentum transfers (12 GeV2<Q2<25 GeV2) is determined to be 0.21±0.01, which indicates a small but significant effect of flavor-SU(3) breaking in the kaon wave function, and consequently excludes the possibility that flavor-SU(3) breaking is the primary reason for the strong experimental violation of the pQCD prediction |F(π±)|/|F(K±)|=f2π/f2K, where F(π±) and F(K±) are the form factors, and fπ and fK are the decay constants of charged pions and kaons, respectively. We also observe a significant signal for the charmless decay ψ(3770)→K0SK0L for the first time. Within a 1σ contour of the likelihood value, the the branching fraction for ψ(3770)→K0SK0L is determined to be B=(2.63+1.40−1.59)×10−5, and the relative phase between the continuum and ψ(3770) amplitudes is ϕ=(−0.39+0.05−0.10)π. The branching fraction is in good agreement with the S- and D-wave charmonia mixing scheme proposed in the interpretation of the "ρπ puzzle" between J/ψ and ψ(3686) decays.
A search has been performed for the semileptonic decays D0→K0SK−e+νe, D+→K0SK0Se+νe and D+→K+K−e+νe, using 7.9 fb−1 of e+e− annihilation data collected at the center-of-mass energy s√=3.773 GeV by the BESIII detector operating at the BEPCII collider. No significant signals are observed, and upper limits are set at the 90\% confidence level of 2.13×10−5, 1.54×10−5 and 2.10×10−5 for the branching fractions of D0→K0SK−e+νe, D+→K0SK0Se+νe and D+→K+K−e+νe, respectively.
This dissertation constitutes a series of successive research papers, starting with the characterization of various optogenetic tools up to the establishment of purely optical electrophysiology in living animals.
Optogenetics has revolutionized neurobiology as it allows stimulation of excitable cells with exceptionally high spatiotemporal resolution. To cope with the increasing complexity of research issues and accompanying demands on experimental design, the broadening of the optogenetic toolbox is indispensable. Therefore, one goal was to establish a wide variety of novel rhodopsin-based actuators and characterize them, among others, with respect to their spectral properties, kinetics, and efficacy using behavioral experiments in Caenorhabditis elegans. During these studies, the applicability of highly potent de- and hyperpolarizers with adapted spectral properties, altered ion specificity, strongly slowed off-kinetics, and inverted functionality was successfully demonstrated. Inhibitory anion channelrhodopsins (ACRs) stood out, filling the gap of long-sought equivalent hyperpolarizing tools, and could be convincingly applied in a tandem configuration combined with the red-shifted depolarizer Chrimson for bidirectional stimulation (Bidirectional Pair of Opsins for Light-induced Excitation and Silencing, BiPOLES). A parallel study aimed to compare various rhodopsin-based genetically encoded voltage indicators (GEVIs) in the worm: In addition to electrochromic FRET-based GEVIs that use lower excitation intensity, QuasAr2 was particularly convincing in terms of voltage sensitivity and photostability in C. elegans. However, classical optogenetic approaches are quite static and only allow perturbation of neural activity. Therefore, QuasAr2 and BiPOLES were combined in a closed-loop feedback control system to implement the first proof-of-concept all-optical voltage clamp to date, termed the optogenetic voltage clamp (OVC). Here, an I-controller generates feedback of light wavelengths to bidirectionally stimulate BiPOLES and keep QuasAr’s fluorescence at a desired level. The OVC was established in body wall muscles and various types of neurons in C. elegans and transferred to rat hippocampal slice culture. In the worm, it allowed to assess altered cellular physiology of mutants and Ca2+-channel characteristics as well as dynamical clamping of distinct action potentials and associated behavior.
Ultimately, the optogenetic actuators and sensors implemented in the course of this cumulative work enabled to synergistically combine the advantages of imaging- and electrode-based techniques, thus providing the basis for noninvasive, optical electrophysiology in behaving animals.
Life and biological resilience rely on the execution of precise gene expression profiles. A key mechanism to ensure cellular homeostasis is the regulation of protein synthesis. Recent studies have unveiled an intrinsic regulatory capacity of ribosomes, previously considered mere executors of mRNA translation. Neurons in particular finely regulate protein synthesis, at both global and local levels. This sustains their complex morphology and allows them to rapidly transmit, integrate, and respond to external stimuli. In this thesis, I investigated the neuronal ribosome and how subcellular environments and physiological perturbations shape it, by profiling its molecular composition, functional interconnections, and cellular distribution.
First, I used genetic engineering, biochemical purification, and mass spectrometry, to characterize in an unbiased manner the translation machinery specifically from excitatory and inhibitory neurons of the mouse cortex. I found that neuronal ribosomes commonly interact with RNA-binding proteins, components of the cytoskeleton, and proteins associated with the endoplasmic reticulum and vesicles. In line with the requirement for local protein synthesis in the distal parts of neurons, we observed that neuronal ribosomes preferentially interact with proteins involved in cellular transport. Remarkably, I observed a strong association between ribosomes and pre-synaptic vesicles, which suggests a potential regulatory interaction between local translation and neuronal activity.
Intriguingly, I and others have observed mRNAs encoding for core ribosomal proteins (RPs) among the genes most enriched in neuronal processes. This observation challenges two historical assumptions of ribosome biology: (1) new RPs are incorporated only into newly forming ribosomes, and (2) this incorporation occurs only in the nucleus and perinuclear region. In my PhD, I aimed to directly test these two assumptions and if proven wrong ask whether and why neurons would localize RP mRNAs far from their known assembly site.
Employing a combination of metabolic labeling and highly sensitive mass spectrometry techniques, I discovered that a subset of RPs rapidly and dynamically binds on and off mature ribosomes. Strikingly, this incorporation does not depend on the supply of new ribosomes from the nucleus. Therefore, my data refuted the assumption that ribosomes are built and degraded as a unit and revealed a more dynamic view of these machines, which can actively exchange core components. In particular, I found that the association of certain exchanging RPs is influenced by location (e.g., cell body versus neurites) and cellular state (e.g., post-oxidative stress). Neurons may use this mechanism to repair and/or specialize their protein synthesis machinery in a rapid and context-dependent manner.
Finally, I asked whether some steps of ribosome biogenesis could also take place in distal processes. Although most steps of ribosome assembly occur within the nucleus, the final stages of maturation are known to occur in the cytosol. By combining several imaging and biochemical approaches, I found that cytosolic (but not nuclear) pre-ribosomal particles are present in neuronal processes. Through the incorporation of new RPs into these immature particles, neurons may be able to locally “turn on” previously incompetent ribosomes. This may enable regions near synapses to enhance and customize their translational capacity, independently of the central pool of ribosomes from the cell body. Indeed, I observed that synaptic plasticity induces a maturation of cytosolic pre-ribosomes.
In summary, this thesis shows how neuronal ribosomes can sense cellular states, respond by adjusting their core composition, and in doing so influence the local capacity for protein synthesis. By overturning long-held assumptions in ribosome biology, this work highlights new molecular mechanisms of gene expression and enriches our understanding of the rapid and dynamic strategies cells employ to operate, thrive, and adaptively respond to environmental changes.
Precise regulation of gene expression networks is required to develop and maintain a healthy organism before and after birth and throughout adulthood. Such networks are mostly comprised of regulatory proteins, but meanwhile many long non-coding transcripts (lncRNAs) are shown to participate in these regulatory processes. The functions and mechanisms of these lncRNAs vary greatly, however they are often associated with transcriptional regulation. Three lncRNAs, namely Sweetheart RNA (Swhtr), Fetal-lethal noncoding developmental regulatory RNA / Foxf1 adjacent non-Coding developmental regulatory RNA (Fendrr) and lncFsd2, were studied in this work to demonstrate the variety of cellular and biological processes that require lncRNA-mediated fine-tuning, in regard to the cardiopulmonary system.
Swhtr was found to be expressed exclusively in cardiomyocytes and became critical for regeneration after myocardial injury. Mice lacking Swhtr did not show issues under normal conditions, but failed to undergo compensatory hypertrophic remodeling after injury, leading to increased mortality. This effect was rescued by re-expressing Swhtr, demonstrating importance of the RNA. Genes dependent on Swhtr during cardiac stress were found to likely be regulated by NKX2-5 through physical interaction with Swhtr. Fendrr was found to be expressed in lung and interacted with target promoters through its RNA:dsDNA binding domain, the FendrrBox, which was partially required for Fendrr function. Fendrr, together with activated WNT signaling, regulated fibrosis related target genes via the FendrrBox in fibroblasts. LncFsd2, an ubiquitously expressed lncRNA, showed possible interaction with the striated muscle specific Fsd2, but its exact function and regulatory role remain unclear in muscle physiology. Immunoprecipitation and subcellular fractionation experiments suggest that lncFsd2 might be involved in nuclear retention of Fsd2 mRNA, thus fine-tuning FSD2 protein expression. These investigations have shed light on the roles of these lncRNAs in stress responses, fibrosis-related gene regulation, and localization processes, advancing our understanding of cardiovascular and pulmonary maintenance, reaction to injury, and diseases. The diverse and intricate roles of these three lncRNAs highlight how they influence various cellular processes and disease states, offering avenues for exploring lncRNA functions in different biological contexts.
The introduction informs about Black literary imaginations of Europe that reverse or complicate the (neo-)colonialist European gaze at the "African Other". It reviews the state of research and provides an overview of the aims and sources of the special issue, whose individual contributions take into account both national specificities and transnational contexts. Sandra Folie and Gianna Zocco emphasise the important role of comparative literature for the field of African European studies (and vice-versa).
This article compares Chika Unigwe's novel "On Black Sisters' Street" and Sudabeh Mortezai's film "Joy", both about Nigerian women trafficked for sex work to Belgium and Austria respectively. They share a genre genealogy with slave narratives but are primarily concerned with European (neo-)colonialism. Drawing on postcolonial and intersectional theory as well as imagology, this article analyses the Black female re-imagination and strategic exoticisation of Europe in the two narratives.
A review of Mexican Stamnodes (Lepidoptera: Geometridae) with the description of 16 new species
(2023)
The Mexican Stamnodes Guenée, [1858] fauna is reviewed. Thirty-six species are documented, including sixteen new species: S. aumatlapalli sp. nov., S. calcarea sp. nov., S. carota sp. nov., S. catarina sp. nov., S. ceniza sp. nov., S. churro sp. nov., S. clara sp. nov., S. disrupta sp. nov., S. erupta sp. nov., S. favilla sp. nov., S. ferropulvisa sp. nov., S. fuego sp. nov., S. mariachi sp. nov., S. matrona sp. nov., S. saltillo sp. nov., and S. tenebrosa sp. nov.; and two new synonymies are proposed: S. artemis Rindge, 1958 syn. nov. is synonymized with S. agapetica (Dyar, 1916), and S. similis Wright, 1927 syn. nov. is synonymized with S. ululata Pearsall, 1912. Illustrations and a brief summary of the taxonomic status, biology, and distribution for each species are provided. Full descriptions accompany new species accounts. Genitalic descriptions and illustrations are provided for new species and species described from Mexico without past genitalic study, and COI barcode data are presented for 27 of the 36 species treated herein.
Bioactive small molecules are used in many research areas as important tools to uncover biological pathways, interpret phenotypic changes, deconvolute protein functions and explore new therapeutic strategies in disease relevant cellular model systems. To unlock the full potential of these small molecules and to ensure reliability of results obtained in cellular assays, it is crucial to understand the properties of these small molecules. These properties encompass their activity and potency on their designated target(s), their selectivity towards unintended off-targets and their phenotypic effects in a cellular system. Approved drugs often engage with multiple targets, which can be beneficial for some applications such as treatment of cancer where several pathways need to be inhibited for treatment efficacy. However, targeting multiple key proteins in diverse pathways also increases the possibility for unspecific or unwanted side effects. For many drugs the entire target space that they modulate is not known. This makes it difficult to use these drugs for target deconvolution or functional assays with the aim to understand the underlying biological processes. In contrast to drugs, for mechanistic studies, a good alternative are chemical tool compounds so called chemical probes that are usually exclusively selective as well as chemogenomic compounds, that inhibit several targets but have narrow selectivity profiles. Because they are mechanistic tools, chemical tool compounds must meet stringent quality criteria and they are therefore well characterized in terms of their potency, selectivity and cellular on-target activity. To ensure that an observed phenotypic effect caused by a compound can be attributed to the described target(s), it is essential to study also properties of chemical tools leading to unspecific cellular effects. There are a variety of unspecific effects that can be caused by physiochemical compound properties that can interfere with phenotypic assays as well as functional compound evaluations. One of these effects is low solubility causing toxicity or intrinsic fluorescence potentially interfering with assay readouts. But unanticipated cellular responses can also arise from unspecific binding, accumulation in cellular compartments or damage caused to organelles such as mitochondria or the cytoskeleton that can result in the induction of diverse forms of cell death.
In this study, we investigated the influence of a variety of small molecules on distinct cell states, by establishing and validating high-content imaging assays, which we called Multiplex assay. This assay portfolio enabled us to detect different cellular responses using diverse fluorescent reporters, such as the influence of a compound on cell viability, induction of cell death programs and modulation of the cell cycle. Additionally, general compound properties such as precipitation and intrinsic fluorescence were simultaneously detected. The assay is adaptable to assess other cellular properties of interest, such as mitochondrial health, changes in cytoskeletal morphology or phospholipidosis. A significant advantage of the assay is that we are using live cells, so we can capture dynamic cellular changes and fluctuations that can be crucial for the understanding of cellular responses.
The polarization of Λ and Λ¯ hyperons along the beam direction has been measured relative to the second and third harmonic event planes in isobar Ru+Ru and Zr+Zr collisions at sNN−−−−√ = 200 GeV. The second harmonic results follow the emission angle dependence as expected due to elliptic flow, similar to that observed in Au+Au collisions. The polarization relative to the third harmonic event plane, measured for the first time, deviates from zero with 4.8σ significance in 20-60\% centrality for 1.1<pT<6.0 GeV/c and exhibits a similar dependence on the emission angle. These results indicate the formation of a complex vortical structure in the system that follows higher harmonic anisotropic flow originating from the initial density fluctuations. The amplitudes of the sine modulation for the second and third harmonic results are comparable in magnitude, increase from central to peripheral collisions, and show a mild pT dependence. While the centrality dependence, except in peripheral collisions, is qualitatively consistent with hydrodynamic model calculations including thermal vorticity and shear contributions, the shape of the pT dependence is very different. Comparison to previous measurements at RHIC and the LHC for the second-order harmonic results shows little dependence on the collision system size and collision energy.
Paratelenomus saccharalis (Dodd) (Hymenoptera: Scelionidae) parasitizing Brachyplatys subaeneus (Westwood) eggs is reported for the first time for Panama. Brachyplatys subaeneus is an invasive species from Asia and is regarded as an important agricultural pest in the Americas.
ZooBank registration. urn:lsid:zoobank.org:pub:CD3639E3-2A17-44D8-B73C-CA71C779BCCA
Highlights
• Stomach content analyses, parasitological and fecal examinations were performed on 73 raccoon dogs from Germany.
• 9 ecto- and 11 endoparasitic species could be identified of which 6 endoparasitic species have a human pathogenic potential.
• Stomach content was composed of one-third vegetable and two-thirds animal components.
• Invasive alien species can have negative impact on native animal species and can act as a carrier of various parasites.
Abstract
Originally from Asia, the raccoon dog Nyctereutes procyonoides is an invasive alien species in Europe, listed since 2019 on the List of invasive alien species of Union concern. The raccoon dog is considered to have negative impact on native biodiversity, as well as a crucial role in hosting and transmitting diverse parasites and pathogens of human and veterinary importance. In the present study, stomach content analyses and parasitological examinations were performed on 73 raccoon dogs from Germany. In addition, fecal samples were analyzed. The results of the study confirm the assumption that the examined raccoon dogs were infested with a various ecto- and endoparasite fauna. A total of 9 ecto- and 11 endoparasites were detected, with 6 of the endoparasites having human pathogenic potential. Trichodectes canis (P = 53.42%), Toxocara canis (P = 50.68%) and Uncinaria stenocephala (P = 68.49%) were the most abundant parasite species. The stomach contents consisted of approximately one-third vegetable and two-thirds animal components, composed of various species of amphibians, fish, insects, mammals and birds. Among them were specially protected or endangered species such as the grass frog Rana temporaria. The study shows that the raccoon dog exerts predation pressure on native species due to its omnivorous diet and, as a carrier of various parasites, poses a potential risk of infection to wild, domestic and farm animals and humans.
Highlights
• 234 raccoons were dissected, 23 parasite species could be detected.
• 14 new parasite species have been identified for raccoons in Europe.
• Compared to literature, a very high prevalence (95%) of B. procyonis was detected.
• The human pathogenic trematode P. muris was detected in raccoons for the first time.
Abstract
The invasive raccoon (Procyon lotor) is an abundant carnivore and considered as an important potential vector of infectious diseases and parasites in Europe. Raccoons show a broad, opportunistic, omnivorous food spectrum. Food supply and habitat quality in urban areas are very attractive for the generalist raccoon. This inevitably leads to increased interaction with humans, domestic animals and livestock, making the raccoon a potentially suitable zoonosis vector. In its autochthonous range, especially in the Eastern and Midwestern United States, the raccoon has been studied very intensively since the beginning of the 20th century. Whereas, basic field biology and parasitology studies in Germany and Europe are lacking and have only been conducted sporadically, regionally and on small sample sizes. In the presented study 234 raccoons from central Germany were comprehensively examined for their metazoan parasite fauna. The present study shows for the first time an extremely diverse parasite fauna in raccoons outside their native range and proves their essential role as intermediate hosts and hosts for ecto- and endoparasites. A total of 23 different parasite species were identified, five of which are human pathogens, 14 of which are new for the parasite fauna of raccoons in Europe. The human pathogenic raccoon roundworm Baylisascaris procyonis is the most common parasite species in this study, with a prevalence of up to 95%. The digenetic trematode Plagiorchis muris, another human pathogenic parasite species, was detected for the first time in raccoons. The ongoing spread of invasive carnivores and the associated spread and transmission of their parasites and other pathogens increases the potential health risk of wild and farmed animals as well as humans. An increase in parasitic diseases in humans (e.g. raccoon roundworm) is to be expected, especially in urban areas, where raccoons are becoming more and more abundant.
We studied the slides of Nipaecoccus viridis (Newstead) (Hemiptera: Pseudococcidae) deposited in the Florida State Collection of Arthropods and provided specimen label data, including geographical location, global positioning system coordinates when available, host plant, collector name, adult females/immature stages, sex of specimens on respective slides, number of slides, and collection date. In addition, we discuss its first record from Florida ornamental landscape and two most recent new host records of the species on commercial crops, including blueberries and hemp. These data will help regulatory agencies slow the spread of this pest inside and outside of Florida.
ZooBank registration. urn:lsid:zoobank.org:pub:EEB2767C-9B59-4BA9-A5B5-D5B14FF7B38F
In his speech at the conference „The SNB and its Watchers“, Otmar Issing, member of the ECB Governing Council from its start in 1998 until 2006, takes a look back at more than twenty years of the conference series „The ECB and Its Watchers“. In June 1999, Issing established this format together with Axel Weber, then Director of the Center for Financial Studies, to discuss the monetary policy strategy of the newly founded central bank with a broad circle of participants, that is academics, bank economists and members of the media on a „neutral ground“. At the annual conference, the ECB and its representatives would play an active role and engage in a lively exchange of view with the other participants. Over the years, Volker Wieland took over as organizer of the conference series, which also was adopted by other central banks. In his contribution at the second conference „The SNB and its Watchers“, Issing summarizes the experience gained from over twenty years of the ECB Watchers Conference.
Bicellonycha amoena (Gorham, 1880) (Coleoptera: Lampyridae) usually flies one meter above ground level over grass, water, or open areas, where males produce a simple single flash every 2–4 seconds, having their most active flashing period from mid to late dusk and early night. In addition, nothing else is known about the behavior of this species. We conducted field observations at the “Mayan Golf Club” in Guatemala Department, and Santiago Sacatepéquez, Sacatepéquez Department, Guatemala; and analyzed B. amoena flashes with a spectroscope. Fireflies displayed a lime-green bioluminescence color. The male flashing activity began ~30 minutes after sunset and lasted approximately 70 minutes. For B. amoena, the spectral composition of the flash is intermediate between those known from twilight-active fireflies and nocturnalactive fireflies.
ZooBank registration. urn:lsid:zoobank.org:pub:512FB867-8E8F-47E6-AD02-B3B13C97C25D
Reactive oxygen species (ROS) are constant by-products of aerobic life. In excess, ROS lead to cytotoxic protein aggregates, which are a hallmark of ageing in animals and linked to age-related pathologies in humans. Acylamino acid-releasing enzymes (AARE) are bifunctional serine proteases, acting on oxidized proteins. AARE are found in all domains of life, albeit under different names, such as acylpeptide hydrolase (APEH/ACPH), acylaminoacyl peptidase (AAP), or oxidized protein hydrolase (OPH). In humans, AARE malfunction is associated with age-related pathologies, while their function in plants is less clear. Here, we provide a detailed analysis of AARE genes in the plant lineage and an in-depth analysis of AARE localization and function in the moss Physcomitrella and the angiosperm Arabidopsis. AARE loss-of-function mutants have not been described for any organism so far. We generated and analysed such mutants and describe a connection between AARE function, aggregation of oxidized proteins and plant ageing, including accelerated developmental progression and reduced life span. Our findings complement similar findings in animals and humans, and suggest a unified concept of ageing may exist in different life forms.
Regulatory impact analysis (RIA) serves to evaluate whether regulatory actions fulfill the desired goals. Although there are different frameworks for conducting RIA, they are only applicable to regulations whose impact can be measured with structured data. Yet, a significant and increasing number of regulations require firms to comply by communicating textual data to consumers and supervisors. Therefore, we develop a methodological framework for RIA in case of unstructured data based on textual analysis and apply it to a recent financial market regulation: MiFID II.
The Egyptian fauna of mealybugs (Hemiptera: Coccoidea: Pseudococcidae) is reviewed and an illustrated key to the 30 genera and 54 species is provided. Phenacoccus madeirensis Green is reported for the first time in Egypt. A new genus, Ezzatacoccus Evans and Abd-Rabou, is described and illustrated with Amonostherium arabicum Ezzat, 1960 designated as its type species. Octococcus salicicola Priesner and Hosny, 1935 is reinstated as a valid taxon and transferred to Misericoccus Ferris, new combination. Ripersia cressae Hall is transferred to Maconellicoccus Ezzat, new combination and Planococcus lindingeri (Bodenheimer) is transferred back to Formicococcus Takahashi, revised status.
ZooBank registration. urn:lsid:zoobank.org:pub:8CA7B000-E8D4-463D-95B0-431BA0A7BA57
Description of three new Acanthocinini (Coleoptera: Cerambycidae: Lamiinae) species from Ecuador
(2023)
Three new species of Acanthocinini (Coleoptera: Cerambycidae: Lamiinae) are described from Napo province, Ecuador: Anisopodus micromaculatus new species; Parabaryssinus katerinae new species; and Paracleodoxus minutus new species. A key to species of Paracleodoxus Monné and Monné (2010) is provided.
ZooBank registration. urn:lsid:zoobank.org:pub:E7C66DA1-6F5F-4F94-922E-43E0B83331DD
Background: Lennox–Gastaut syndrome (LGS) is a severe developmental and epileptic encephalopathy characterized by drug-resistant epilepsy with multiple seizure types starting in childhood, a typical slow spike-wave pattern on electroencephalogram, and cognitive dysfunction.
Methods: We performed a systematic literature review according to the PRISMA guidelines to identify, synthesize and appraise the burden of illness in LGS (including “probable” LGS). Studies were identified by searching MEDLINE, Embase and APA PsychInfo, Cochrane’s database of systematic reviews, and Epistemonikos. The outcomes were epidemiology (incidence, prevalence or mortality), direct and indirect costs, healthcare resource utilization, and patient and caregiver health-related quality of life (HRQoL).
Results: The search identified 22 publications evaluating the epidemiology (n = 10), direct costs and resource (n = 10) and/or HRQoL (n = 5). No studies reporting on indirect costs were identified. With no specific ICD code for LGS in many regions, several studies had to rely upon indirect methods to identify their patient populations (e.g., algorithms to search insurance claims databases to identify “probable” LGS). There was heterogeneity between studies in how LGS was defined, the size of the populations, ages of the patients and length of the follow-up period. The prevalence varied from 4.2 to 60.8 per 100,000 people across studies for probable LGS and 2.9–28 per 100,000 for a confirmed/narrow definition of LGS. LGS was associated with high mortality rates compared to the general population and epilepsy population. Healthcare resource utilization and direct costs were substantial across all studies. Mean annual direct costs per person varied from $24,048 to $80,545 across studies, and home-based care and inpatient care were significant cost drivers. Studies showed that the HRQoL of patients and caregivers was adversely affected, although only a few studies were identified. In addition, studies suggested that seizure events were associated with higher costs and worse HRQoL. The risk of bias was low or moderate in most studies.
Conclusions: LGS is associated with a significant burden of illness featuring resistant seizures associated with higher costs and worse HRQoL. More research is needed, especially in evaluating indirect costs and caregiver burden, where there is a notable lack of studies.
The more difficult it is to access a research field, the more substantial the need to develop creative methodological models. Investigating the psychosocial impact of migration-related carceral spaces constitutes one such research field. To shed light on these spaces and counter the challenges of opacity, harm, and power asymmetries, we propose a psycho-geographical counter-mapping as a mixed methods approach based on grounded theory (MM-GT). Applying it to immigration detention and refugee confinement sites in Mexico and Samos, our analysis proposes a fully integrated and sequential design that can be adapted to a range of carceral spaces and subjectivation in transdisciplinary research.
Measurements of vertical velocity from vertically pointing Doppler lidars are used to derive the profiles of normalized vertical velocity variance. Observations were taken during the FESSTVaL (Field Experiment on Submesoscale Spatio-Temporal Variability in Lindenberg) campaign during the warm seasons of 2020 and 2021. Normalized by the square of the convective velocity scale, the average vertical velocity variance profile follows the universal profile of Lenschow et al. (1980). However, daily profiles still show a high day-to-day variability. We found that moisture transport and the content of moisture in the boundary layer could explain the remaining variability of the normalized vertical velocity variance. The magnitude of the normalized vertical velocity variance is highest on clear-sky days and decreases as the absolute humidity increases and surface latent heat flux decreases on cloud-topped days. This suggests that moisture content and moisture transport are limiting factors for the intensity of turbulence in the convective boundary layer. We also found that the intensity of turbulence decreases with an increase in the boundary layer cloud fraction during FESSTVaL, while the latent heating in the cloud layer was not a relevant source of turbulence in this case. We conclude that a new vertical velocity scale has to be defined that would take into account the moist processes in the convective boundary layer.
Aim: Replicate the analysis conducted by Prof. Dr. Alexander W. Schmidt-Catran (Goethe University Frankfurt), Prof. Dr. Malcolm Fairbrother (Umea University), and Prof. Dr. Hans-Jürgen Andreß (University of Cologne) that was published in a special issue on Cross-National Comparative Research in the German academic journal Kölner Zeitschrift für Soziologie und Sozialpsychologie in 2019. Result: Almost all calculations, tables and graphs from Schmidt-Catran et al. (2019) could be replicated sufficiently well in R.
Observation of three charmonium-like states with JPC = 1⁻⁻ in e⁺e⁻− → D*⁰D*⁻π⁺ + c.c. process
(2023)
The Born cross sections of the process e+e−→D∗0D∗−π++c.c. at center-of-mass energies from 4.189 to 4.951 GeV are measured for the first time. The data samples used correspond to an integrated luminosity of 17.9fb−1 and were collected by the BESIII detector operating at the BEPCII storage ring. Three enhancements around 4.20, 4.47 and 4.67 GeV are visible. The resonances have masses of 4209.6±4.7±5.9MeV/c2, 4469.1±26.2±3.6MeV/c2 and 4675.3±29.5±3.5MeV/c2 and widths of 81.6±17.8±9.0MeV, 246.3±36.7±9.4MeV and 218.3±72.9±9.3MeV, respectively, where the first uncertainties are statistical and the second systematic. The first and third resonances are consistent with the Y(4230) and Y(4660) states, respectively, while the second one is compatible with the Y(4500) observed in the e+e−→K+K−J/ψ process. These three Y states are observed in e+e−→D∗0D∗−π++c.c. process for the first time.
The Cabibbo-allowed weak radiative decay Λ+c→Σ+γ has been searched for in a sample of Λ+cΛ¯−c pairs produced in e+e− annihilations, corresponding to an integrated luminosity of 4.5fb−1 collected with the BESIII detector at center-of-mass energies between 4.60 and 4.70 GeV. No excess of signal above background is observed, and we set an upper limit on the branching fraction of this decay to be B(Λ+c→Σ+γ)<4.4×10−4 at a confidence level of 90\%, which is in agreement with Standard Model expectations.
The family of cubic noncentrosymmetric 3-4-3 compounds has become a fertile ground for the discovery of novel correlated metallic and insulating phases. Here, we report the synthesis of a new heavy fermion compound, Ce3Bi4Ni3. It is an isoelectronic analog of the prototypical Kondo insulator Ce3Bi4Pt3 and of the recently discovered Weyl-Kondo semimetal Ce3Bi4Pd3. In contrast to the volume-preserving Pt-Pd substitution, structural and chemical analyses reveal a positive chemical pressure effect in Ce3Bi4Ni3 relative to its heavier counterparts. Based on the results of electrical resistivity, Hall effect, magnetic susceptibility, and specific heat measurements, we identify an energy gap of 65-70 meV, about 8 times larger than that in Ce3Bi4Pt3 and about 45 times larger than that of the Kondo-insulating background hosting the Weyl nodes in Ce3Bi4Pd3. We show that this gap as well as other physical properties do not evolve monotonically with increasing atomic number, i.e., in the sequence Ce3Bi4Ni3-Ce3Bi4Pd3-Ce3Bi4Pt3, but instead with increasing partial electronic density of states of the d orbitals at the Fermi energy. To understand under which condition topological states form in these materials is a topic for future studies.
The main focus of this thesis is the application of the nonperturbative Functional Renormalization Group (FRG) to the study of low-energies effective models for Quantum Chromodynamics (QCD). The study of effective field theories and models is crucial for our understanding of physics, especially when we deal with fundamental interaction theories like QCD. In particular, the ultimate goal is the understanding of the critical properties of these models in such a way that we can have an insight on the actual critical phenomena of QCD, with a special focus on its chiral phase transition. The choice of the FRG method derives from the fact that it belongs to the class of functional non-perturbative methods and has also the advantage of linking physics at different energy scales. These features make FRG perfectly compatible with the task of studying non-perturbative phenomena and in particular phase transitions, like the ones expected for strongly interacting matter. However, the functional nature of the FRG approach and of the Wetterich equation has a consequence that its exact resolution is hardly possible, and an ansatz for the effective action is generally needed. In this work we choose to adopt the local-potential approximation (LPA), which prescribes to stop at zeroth order in the expansion in derivative operators of the quantum effective action, including only the quantum effective potential. In this work we exploited the key observation that the FRG flow equation can be cast, for specific models and truncation schemes, in the form of an advection-diffusion, possibly with a source term. This type of equation belongs to the class of problems faced in the context of viscous hydrodynamics. Therefore, an innovative approach to the solution of the FRG flow equation consists in the choice of a method developed specifically for the resolution of this class of hydrodynamic equations. In particular, the Kurganov-Tadmor finite-volume scheme is adopted. Throughout this work we apply this scheme to the study of different physical systems, showing the reliability and the flexibility of this approach.
In the first part of the thesis, we discuss the well-known O(N) model, using the hydrodynamic formulation to solve the FRG flow equation in the LPA truncation. We focus on the study of the critical behaviour of the system and calculate the corresponding critical exponents. Particular attention is given to the error estimation in the extraction of critical exponents, which is a needed and not widely explored aspect. The results are well compatible with others in the literature, obtained with different perturbative and nonperturbative methods, which validates the procedure. In the second part of the thesis, we introduce the quark-meson model as a low-energy effective model for QCD, with a specific focus on its chiral symmetry-breaking pattern and the subsequent dynamical quark-mass generation. The LPA flow equation is of the advection-diffusion type, with an extra source contribution which is due to the inclusion of fermionic degrees of freedom. We thus adopt the developed numerical techniques to derive the phase diagram of the model, which is in agreement with the one obtained with other techniques in the literature.
We also follow another possible way for the study of the critical properties of the quark-meson model: the so-called thermodynamic geometry. This approach is based on the interpretation of the parameter space of the system as a differential manifold. One can then obtain relevant information about the phase transitions from the Ricci scalar. We studied the chiral crossover investigating the behavior of the Ricci scalar up to the critical point, featuring a peaking behavior in the presence of the crossover. We then repeated this analysis in the chiral limit, where the phase transition is expected to be of second order. Via this geometric technique it is possible to have a different view on the chiral phase transition of QCD. This is the case since this approach is based on the calculation of quantities which are influenced by higher-order momenta of the thermodynamic potential, thus allowing for a more comprehensive analysis of the phase transition.
Finally, we exploit the numerical advancement to face the issue of the regulator choice in the FRG calculations. This is one of the most delicate issues which arise when using approximations to solve the FRG flow equation and deserves extensive investigation. In particular, we performed a vacuum parameter study and used the RG consistency requirement to determine the impact of the choice of the regulator on the physical observables and on the phase diagram of the model. Via this study we develop a systematic method to comparison the results obtained via different regulators. We show the importance of the choice of an appropriate UV cutoff in the determination of UV-independent IR observables and, consequently, the impact on the latter that the truncation of the effective average action and the choice of the regulator have.
Inflammation is a crucial host defense mechanism activated in response to injury or infection. Its primary goal is to eliminate the source of the disturbance, repair the damaged tissue, and restore homeostasis. Inflammatory processes can be recognized through increased blood flow, higher vascular permeability, and the recruitment of leukocytes and plasma proteins to the tissue. A pathogen-induced inflammation triggers various pro- and anti-inflammatory processes. Local tissue cells and Toll-like receptors call upon innate immune cells like neutrophils, dendritic cells (DCs), and monocytes to respond to the intruder. They move across the endothelium and respond to local signals by releasing mediators or cytotoxic compounds, phagocytosing, or polarizing. To study local pathogen-induced inflammation, a zymosan-induced inflammation model was used in the hind paws of mice, which caused a Toll-like receptor 2 mediated inflammation. Multi-Epitope-Ligand-Cartography (MELC) was used for multiple sequential immunohistochemistry with 40 different antibodies on the same tissue. Bioinformatic analysis and graphical representation revealed a specific inflammatory architecture consisting of three major areas based on macrophage polarization and their cellular neighborhoods: a core region containing the pathogen, a pro-inflammatory region containing M1-like macrophages, and a region containing anti-inflammatory cells. This discovery highlights the coexistence of pro- and antiinflammatory processes during an ongoing inflammation and challenges the concept of a gradual temporal transition from pro- to anti-inflammation. Flow cytometry of the whole paw was performed to support and refine the MELC results. Eosinophils were used as a specific immune cell population to investigate their role in the inflammatory structure. They were found to be present in all three inflammatory regions, adapting their cytokine profile according to their localization. Depleting eosinophils reduced Interleukin 4 (IL-4)- levels, increased edema formation, and mechanical and thermal hypersensitivities during inflammation resolution. In the absence of eosinophils, pro- and anti-inflammatory region could not be determined in the inflammatory architecture, neutrophil numbers increased, and efferocytosis and M2-macrophage polarization were reduced. IL-4 administration restored these regions, normalized neutrophil numbers, efferocytosis, M2-macrophage polarization, and resolution of zymosan-induced hypersensitivity. The results show that eosinophils expressing IL-4 support the resolution of inflammation by enabling the development of an anti-inflammatory framework that encloses pro-inflammatory regions.
Mitochondria perform essential energetic, metabolic and signalling functions within the cell. To fulfil these, the integrity of the mitochondrial proteome has to be preserved. Therefore, each mitochondrial subcompartment harbours its own system for protein quality control. However, if the capacity of mitochondrial chaperones and proteases is overloaded, mitochondrial misfolding stress (MMS) occurs. Upon this stress condition, mitochondria communicate with the nucleus to increase the transcription of nuclear encoded mitochondrial chaperones and proteases. This proteotoxic stress pathway was termed the mitochondrial unfolded protein response (UPRmt) aiming at restoring protein homeostasis. Despite being discovered over 25 years ago, the signalling molecules released by stressed mitochondria as well as the corresponding receptor and transcription factor remain poorly understood. With this study, we aimed at characterising the underlying signalling events and mechanisms of how mitochondria react to misfolded proteins. First, we aimed to establish different methods to induce MMS that triggers the transcriptional induction of mitochondrial chaperones and proteases detected by quantitative polymerase chain reaction. We were able to induce UPRmt signalling by overexpression of an aggregation-prone protein and by knock-down or inhibition of mitochondrial protein quality control components. To study the signalling in a time-resolved manner, we focused on the usage of the mitochondrial HSP90 inhibitor GTPP and the mitochondrial LONP1 protease inhibitor CDDO.
Early time point RNA sequencing analysis of cells stressed with GTPP or CDDO revealed upregulated genes in response to oxidative stress. Indeed, measurements of mitochondrial superoxide with the fluorescent dye MitoSOX showed increased levels of reactive oxygen species (ROS) upon MMS induction. In contrast, there was no induction of mitochondrial chaperones and proteases when combining MMS with antioxidants. Compartment-specific targeting of the hydrogen peroxide sensor HyPer7 revealed increased ROS levels in the intermembrane space and matrix of mitochondria, followed by elevated ROS levels in the cytosol at later time points. The importance of cytosolic ROS for the signalling was supported by preventing UPRmt induction with an inhibitor blocking the outer mitochondrial membrane pore. Thus, ROS were identified as an essential UPRmt signal.
To understand which cytosolic factor is modified by ROS, redox proteomics was performed. Here, reversible changes on cysteine residues of the HSP40 co-chaperone DNAJA1 were observed upon MMS. Consequently, transcriptional induction of UPRmt genes was abolished by DNAJA1 knock-down. To understand the function of DNAJA1 during UPRmt signalling, quantitative interaction proteomics upon MMS revealed an increased binding to mitochondrial proteins and its interaction partner HSP70. Immunoprecipitation confirmed a ROS-dependent interaction between HSP40 and HSP70. Increased binding to mitochondrial proteins represented a cytosolic interaction of DNAJA1 with mitochondrial precursor proteins, whose accumulation was confirmed by western blot. Moreover, a fluorescent protein targeted to mitochondria accumulated in the cytosol during GTPP treatment, confirming a reduced import efficiency upon MMS. Preventing the accumulation of precursors by a translation inhibitor or depletion of a general mitochondrial transcription factor resulted in reduced UPRmt activation. Thus, DNAJA1 is essential for UPRmt signalling, since its oxidation by mitochondrial ROS and its enhanced recruitment to mitochondrial precursors allows the integration of both MMS-induced signals.
To link these findings to an increased transcription of mitochondrial chaperones and proteases, we screened for transcription factors accumulating in the nucleus upon MMS by cellular fractionation mass spectrometry. We demonstrated that specifically HSF1 accumulates in nuclei of cells stressed with GTPP or CDDO. Depletion of HSF1 by knock-down or knock-out resulted in the abrogation of the UPRmt-specific transcriptional response. HSF1 activation was visualised by nuclear accumulation on western blot, a process inhibited by ROS and precursor suppression. Moreover, DNAJA1 depletion prevented HSF1 activation. Ultimately, we proved by immunoprecipitation that the inhibitory interaction between HSF1 and HSP70 is reduced upon MMS.
Thus, we conclude that MMS increases mitochondrial ROS that are released into the cytosol. In addition, the import efficiency is reduced upon MMS, resulting in the accumulation of non-imported mitochondrial precursor proteins in the cytosol. Both signals are recognised via DNAJA1 oxidation and substrate binding. The concurrent recruitment of HSP70 to DNAJA1 results in the loss of the inhibitory HSP70-HSF1 interaction. Thus, active HSF1 can migrate to the nucleus to initiate transcription of mitochondrial chaperones and proteases. These findings are in accordance with observations in yeast, where mistargeted mitochondrial proteins activate cellular stress responses. Our results highlight a surprising interconnection and dependence of the mitochondrial and the cytosolic proteostasis network, in which the UPRmt is activated by a combination of two mitochondria-specific proteotoxic stress signals.
The theoretical and experimental investigation of exotic hadrons like tetraquarks is an important branch of modern elementary particle physics. In this thesis I investigate different four-quark systems using lattice QCD and search for evidence of stable tetraquark states or resonances.
Lattice QCD as a non-perturbative approach to QCD allows an accurate and reliable determination of the masses of strongly bound hadrons.
However, most tetraquarks appear as weakly bound states or resonances, which makes a theoretical investigation using lattice QCD difficult due to the finite spatial volume. A rigorous treatment of such systems is feasible using the so-called Lüscher method. This allows to calculate the scattering amplitude based on the finite-volume energy spectrum determined in a lattice QCD calculation. Similarly to the analysis of experimental data, this scattering amplitude can be used to determine the binding energies of bound states or the masses and decay widths of resonances in the infinite volume.
In my work I calculate the low-energy energy spectra of different four-quark systems and use - if necessary - the Lüscher method to determine the masses of potential tetraquark states.
I focus on systems consisting of two heavy antiquarks and two light quarks, where at least one of the heavy antiquarks is a bottom quark.
Even though such tetraquarks have not yet been experimentally detected, they are considered promising candidates for particles that are stable with respect to the strong interaction.
A decisive step for successfully calculating low-lying energy levels for such four-quark systems is a carefully chosen set of creation operators, which represent the physical states most accurately. In addition to operators that generate a local structure where all four quarks are located at the same space-time point, I also use so-called scattering operators that resemble two spatially separated mesons. These scattering operators turned out to be relevant for successfully determining the lowest energy levels and are therefore essential, especially if a Lüscher analysis is carried out.
In my work, I considered two different lattice setups to study the four-quark systems $\bar{b}\bar{b}ud$ with $I(J^P)=0(1^+) $, $\bar{b}\bar{b}us$ with $J^P=1^+ $ and $\bar{b}\bar{c}ud$ with $I(J^P)=0(0^+) $ and $I(J^P)=0(1^+) $ and to predict potential tetraquark states. In both setups, I considered scattering operators. While in the first setup I used them only as annihilation operators, in the second setup they were included both as creation and annihilation operators. Additionally, in the second lattice setup, I performed a simplified investigation of the $\bar{b}\bar{b}ud$ system with $I(J^P)=0(1^-) $, which is a potential candidate for a tetraquark resonance. The results of the investigation of the mentioned four-quark systems can be summarized as follows:
For the $ \bar{b}\bar{b}ud $ four-quark system with $ I(J^P)=0(1^+) $ I found a deeply bound ground state slightly more than $ 100\,\textrm{MeV} $ below the lowest meson-meson threshold. The existence of a corresponding $\bar{b}\bar{b}ud$ tetraquark in the infinite volume was confirmed using a Lüscher analysis and possible systematic errors due to the use of lattice QCD were taken into account.
Similar results were obtained for the $ \bar{b}\bar{b}us $ four-quark system with $ J^P=1^+ $. Again, I found a ground state well below the lowest meson-meson threshold, but slightly weaker bound than for the $ \bar{b}\bar{b}ud $ system. Effects due to the finite volume turned out to be negligible for this system, as already predicted for the $ \bar{b}\bar{b}ud $ system. \item For the $ \bar{b}\bar{c}ud $ four-quark systems with $ (J^P)=0(0^+) $ and $ (J^P)=0(1^+) $ I was able to rule out the existence of a deeply bound tetraquark states based on the energy spectrum in the finite volume. However, by means of a scattering analysis using the Lüscher method, I found evidence a broad resonance for both channels.
In the case of the $ \bar{b}\bar{b}ud $ four-quark system with $ I(J^P)=0(1^-) $, I could neither confirm the existence of a resonance, nor rule out its existence with certainty.
In particular, my investigations showed that the results of the two different lattice simulations are consistent. The theoretical prediction of the bound tetraquark states $\bar{b}\bar{b}ud$ and $\bar{b}\bar{b}us$ as well as the tetraquark resonances in the $\bar{b}\bar{c}ud$ system in this work represent an important contribution to the future experimental search for exotic hadrons and can support the discovery of previously unobserved particles.
Efficient modeling and mitigation of quadrupole errors in synchrotrons and their beam transfer lines
(2023)
This thesis investigates the problem of estimating quadrupole errors on synchrotrons as well as how to minimize the influence of quadrupole errors for beam transfer lines (beamlines). It emphasizes the importance to treat possible error sources in all parts of an accelerator in order to provide constantly high beam quality to the experimental stations. While the presented methods have been investigated by using the example of the SIS18 synchrotron and the HEST beamlines at GSI Helmholtz Centre for Heavy Ion Research, they are equally relevant for the future synchrotrons and beamlines of the Facility for Antiproton and Ion Research in Europe (FAIR).
Part 1 discusses the problem of estimating quadrupole errors via orbit response measurements at synchrotrons. An emphasis is put on investigating the influence of the availability of steerer magnets and beam position monitors (BPMs) on the solvability of the inverse problem as well as on the propagation of measurement uncertainty for the estimation of quadrupole errors. The problem is approached via analytical considerations as well as via dedicated simulation studies. By developing an analytical expression for the Jacobian matrix, the theoretical boundaries for the solvability of the inverse problem are derived. Moreover, it is shown that the analytical expressions for the Jacobian matrix can be used during the fitting procedure to achieve a significant improvement in the computational efficiency by a factor $N_{steerers} \times N_{quadrupoles}$, where $N$ denotes the number of lattice elements of the respective type. The presented results are tested via dedicated measurements at the SIS18 synchrotron.
Part 2 discusses – complementary to part 1 – the influence of quadrupole errors in beam transfer lines with respect to the beam quality requirements given by the experimental stations. A preventive approach is presented which allows to minimize the influence of possible quadrupole errors on the degradation of beam quality. By identifying and selecting robust quadrupole configurations, a stable operation of the beamline can be enabled and the time needed by operators to readjust the beamline parameters can be reduced. The concept of beamline robustness is developed and is studied with the help of dedicated simulations. The simulation results are used to identify certain properties that distinguish robust from nonrobust quadrupole configurations. Also, various methods for improving the computational process of identifying robust quadrupole configurations are presented. The methods and results are tested via dedicated measurements at two different beamlines at GSI Helmholtz Centre for Heavy Ion Research and at Forschungszentrum Jülich.
We report a new measurement of the production of electrons from open heavy-flavor hadron decays (HFEs) at mid-rapidity (|y|< 0.7) in Au+Au collisions at sNN−−−√=200 GeV. Invariant yields of HFEs are measured for the transverse momentum range of 3.5<pT<9 GeV/c in various configurations of the collision geometry. The HFE yields in head-on Au+Au collisions are suppressed by approximately a factor of 2 compared to that in p+p collisions scaled by the average number of binary collisions, indicating strong interactions between heavy quarks and the hot and dense medium created in heavy-ion collisions. Comparison of these results with models provides additional tests of theoretical calculations of heavy quark energy loss in the quark-gluon plasma.
We derive an expression for the tensor polarization of a system of massive spin-1 particles in a hydrodynamic framework. Starting from quantum kinetic theory based on the Wigner-function formalism, we employ a modified method of moments which also takes into account all spin degrees of freedom. It is shown that the tensor polarization of an uncharged fluid is determined by the shear-stress tensor. In order to quantify this novel polarization effect, we provide a formula which can be used for numerical calculations of vector-meson spin alignment in relativistic heavy-ion collisions.
The sympathetic nervous system (SNS) is a major regulatory mediator connecting the brain and the immune system that influences accordingly inflammatory processes within the entire body. In the periphery, the SNS exerts its effects mainly via its neurotransmitters norepinephrine (NE) and epinephrine (E), which are released by peripheral nerve endings in lymphatic organs and other tissues. Depending on their concentration, NE and E bind to specific α- and β-adrenergic receptor subtypes and can cause both pro- and anti-inflammatory cellular responses. The co-transmitter neuropeptide Y, adenosine triphosphate, or its metabolite adenosine are also mediators of the SNS. Local pro-inflammatory processes due to injury or pathogens lead to an activation of the SNS, which in turn induces several immunoregulatory mechanisms with either pro- or anti-inflammatory effects depending on neurotransmitter concentration or pathological context. In chronic inflammatory diseases, the activity of the SNS is persistently elevated and can trigger detrimental pathological processes. Recently, the sympathetic contribution to mild chronic inflammatory diseases like osteoarthritis (OA) has attracted growing interest. OA is a whole-joint disease and is characterized by mild chronic inflammation in the joint. In this narrative article, we summarize the underlying mechanisms behind the sympathetic influence on inflammation during OA pathogenesis. In addition, OA comorbidities also accompanied by mild chronic inflammation, such as hypertension, obesity, diabetes, and depression, will be reviewed. Finally, the potential of SNS-based therapeutic options for the treatment of OA will be discussed.
Rationale: Attention deficit/hyperactivity disorder (ADHD) is common in alcohol use disorder (AUD). Continuous performance tests (CPTs) allow to measure ADHD related deficits in a laboratory setting. Most studies on this topic focused on CPTs measuring inattention or impulsivity, disregarding hyperactivity as one of the core symptoms of ADHD.
Methods: We examined N = 47 in three groups (ADHD N = 19; AUD N = 16; ADHD + AUD N = 12) with questionnaires on ADHD core symptoms, executive functioning (EF), mind wandering, and quality of life (QoL). N = 46 (ADHD N = 16; AUD N = 16; ADHD + AUD N = 14) were examined with a CPT (QbTest®) that also measures motor activity objectively.
Results: Inattention and impulsivity were significantly increased in AUD vs. ADHD and in AUD vs. ADHD + AUD. Hyperactivity was significantly higher in ADHD + AUD vs. ADHD and ADHD + AUD vs. AUD, but not in ADHD vs. AUD. EF was lower in both ADHD groups vs. AUD. Mind wandering was increased in both ADHD groups vs. AUD. QoL was significantly lower in ADHD + AUD compared to AUD. In contrast, results of the QbTest were not significantly different between groups.
Conclusion: Questionnaires are more useful in assessing ADHD core symptoms than the QbTest®. Hyperactivity appears to be a relevant symptom in ADHD + AUD, suggesting a possible pathway from ADHD to AUD. The lower QoL in ADHD + AUD emphasizes the need for routine screening, diagnostic procedures and treatment strategies for this patient group.
The longitudinal and transverse spin transfers to Λ (Λ¯¯¯¯) hyperons in polarized proton-proton collisions are expected to be sensitive to the helicity and transversity distributions, respectively, of (anti-)strange quarks in the proton, and to the corresponding polarized fragmentation functions. We report improved measurements of the longitudinal spin transfer coefficient, DLL, and the transverse spin transfer coefficient, DTT, to Λ and Λ¯¯¯¯ in polarized proton-proton collisions at √s = 200 GeV by the STAR experiment at RHIC. The data set includes longitudinally polarized proton-proton collisions with an integrated luminosity of 52 pb−1, and transversely polarized proton-proton collisions with a similar integrated luminosity. Both data sets have about twice the statistics of previous results and cover a kinematic range of |ηΛ(Λ¯¯¯¯)| < 1.2 and transverse momentum pT,Λ(Λ¯¯¯¯) up to 8 GeV/c. We also report the first measurements of the hyperon spin transfer coefficients DLL and DTT as a function of the fractional jet momentum z carried by the hyperon, which can provide more direct constraints on the polarized fragmentation functions.
Die Arbeit behandelt die Messung von Photonen mit Teilchendetektoren, die auf digitalen Silizium-Pixelsensoren basieren. Diskutiert werden zwei wesentliche Schritte in den Upgrade-Programmen des ALICE-Experiments am CERN-LHC:
1. FOCAL-Detektor-Upgrade (2027): Untersuchung der Detektorantwort des elektromagnetischen Pixel-Kalorimeters EPICAL-2 und der Form elektromagnetischer Schauer durch Teststrahl-Messungen und Monte Carlo Simulationen.
2. ALICE 3-Upgrade (2035): Simulationsstudien zum Untergrund in der Messung von Photonen mit sehr kleinem Transversalimpuls.
Teil 1: Performance des elektromagnetischen Pixel-Kalorimeters EPICAL-2
Detektordesign und Testmessungen: EPICAL-2, ein SiW-Sandwich-Design-Kalorimeter mit ALPIDE Sensoren, besitzt eine Tiefe von ca. 20 Strahlungslängen und etwa 25 Millionen Pixel. Testmessungen wurden an der Universität Utrecht (kosmische Myonen) sowie am DESY und CERN-SPS (Elektronen) durchgeführt.
Simulation und Validierung: Das EPICAL-2 wird im Simulationspaket Allpix2 implementiert, um die Testmessungen zu validieren und das Detektorverhalten zu untersuchen. Systematische Variationen bestätigen die Stabilität und Reproduzierbarkeit der Simulation.
Datenaufbereitung und Schauerprofile: Im Rahmen der Datenanalyse werden fehlerhafte Pixel ausgeschlossen, Pixel-Treffer zu Clustern gruppiert, Chips kalibriert und der Strahlwinkel korrigiert. Das longitudinale Profil elektromagnetischer Schauer zeigt, dass das Schauermaximum in der Simulation etwas tiefer liegt als in den Testdaten, was auf zusätzliches Material oder eine unvollständige Beschreibung der Schauerentwicklung in der Simulation zurückzuführen sein könnte. Das laterale Profil zeigt, dass eine Schauertrennung im Millimeter-Bereich möglich ist.
Energieantwort und -auflösung: Die nicht-lineare Energieantwort wird sowohl in Testdaten als auch in Simulationen beobachtet. Die Energieauflösung des EPICAL-2 für Cluster ist besser als für Pixeltreffer und vergleichbar mit dem analogen CALICE-Prototypen. Simulationen ohne Strahlenergie-Fluktuationen zeigen eine bessere Energieauflösung als in den Testdaten.
Teil 2: Untergrund in der Messung von Photonen in ALICE 3
Simulationssetup: Die ALICE 3-Detektorgeometrie wird in GEANT4 implementiert, um den Untergrund in der Messung weicher Photonen zu untersuchen. Simulationen mit PYTHIA und GEANT4 zeigen, dass der Untergrund hauptsächlich aus Zerfallsphotonen und Photonen aus externer Bremsstrahlung besteht.
Ergebnisse der Untergrundstudien: Der Untergrund durch Photonen aus externer Bremsstrahlung dominiert und liegt im Akzeptanzbereich des FCT um einen Faktor von 5 bis 10 über dem theoretischen Signal weicher Photonen. In der Simulation wird das Material zu 8%—14% X0 in ALICE 3 bestimmt, wobei bereits bei 5% X0 der Untergrund genauso stark ist wie das erwartete Signal.
Möglichkeiten zur Untergrundreduzierung: Untersuchungen zeigen, dass ein Elektron-Veto das Signal-zu-Untergrund-Verhältnis um den Faktor 30 verbessern und eine Materialreduktion durch ein optimiertes Strahlrohr um den Faktor 7.
Die Ergebnisse des ersten Teils dieser Arbeit demonstrieren insgesamt die gute Performance des EPICAL-2 in Bezug auf die Energiemessung und die Bestimmung der Schauerform. Darüber hinaus unterstützen sie den Einsatz digitaler Kalorimeter im FOCAL-Upgrade des ALICE-Experiments und zeigen das Potenzial der digitalen Kalorimetertechnologie für zukünftige Hochenergiephysik-Experimente.
Die Ergebnisse des zweiten Teils dieser Arbeit liefern einen wesentliche Beitrag zum geplanten ALICE 3-Upgrade. Weiterhin veranschaulichen sie, wie ein Elektron-Veto und die Reduzierung des Materials zusammen eine vielversprechende Messstrategie bilden können.
Mitochondrial RNA granules (MRGs) are membraneless, highly specialized compartments that play an essential role in the post-transcriptional regulation of mitochondrial gene expression. This regulation is crucial for maintaining energy production, controlling metabolic functions and ensuring homeostasis in cells. Dysregulation of mitochondrial genes has been linked to various human diseases, including neurodegenerative and metabolic disorders as well as certain types of cancer.
MRGs are composed of different RNA species, including mitochondrial precursor RNA (pre-RNA), mature tRNAs, rRNAs and mRNAs complexed with multiple proteins involved in RNA processing and mitoribosome assembly. However, despite the significance of MRGs, their protein composition, structural organization, stability and dynamics during stress conditions remain elusive. In the study reported here, I adopted a three-step approach to address the aforementioned fundamental issues.
First and foremost, I identified the protein composition of MRGs and unveiled their architectural complexity. To characterize the MRG proteome, I applied the cutting-edge TurboID-based proximity labeling approach combined with quantitative mass spectrometry. Proximity labeling was conducted on 20 distinct MRG-associated human proteins, resulting in the identification of more than 1,700 protein-protein interactions. This expansive dataset enabled me to create a comprehensive network, providing valuable insights into both the (sub)architecture as well as the core structure of MRGs in-depth.
Secondly, I investigated the spatio-temporal dynamics of MRGs under various mitochondrial stress conditions. To monitor the morphological alterations and compositional changes of MRGs, I utilized time-resolved confocal fluorescence microscopy and proteomics, respectively. In this analysis, I applied IMT1, the first specific inhibitor that selectively targets mitochondrial transcription. Using this methodology, I pinpointed precise conditions that triggered MRGs’ disassembly during stress, followed by their reassembly when nascent RNA production was restored. The results of this examination elucidate that MRGs are highly dynamic and stress adaptive structures, capable of rapid dissolution and reassembly, a process closely connected to mitochondrial transcription.
Thirdly, I aimed to explore the impact of RNA turnover on MRGs’ integrity during stress, employing confocal fluorescence microscopy and quantitative real-time PCR. I observed that depletion of MRG proteins associated with RNA degradation counteracts MRGs’ disassembly under stress conditions, a phenomenon attributed to the accumulation of double-stranded RNA (dsRNA). These results emphasize the critical role of pre-RNA turnover in maintaining MRG integrity and reveal that MRGs can be stabilized by dsRNA.
Taken together, the comprehensive investigation reported in this thesis has substantially broadened and deepened our understanding of MRGs’ complexity. By identifying their molecular structure and dynamics, I have gained significant insights into the fundamental characteristics and biological functions of MRGs in cellular processes. This knowledge contributes to the identification of disease-related pathways linked to mitochondrial gene expression and may inspire future studies to develop novel therapeutic approaches.
Autism Spectrum Disorder (ASD) is a neurodevelopmental condition with an onset in early development. ASD has varying degrees of severity and thus affects people differently throughout their lives. Early diagnosis of ASD is essential to provide children with individually-tailored support.8 Eye-tracking may contribute to an earlier diagnosis: Several studies showed differences in eye movements between people with autism spectrum disorder (ASD) and typically developing controls (TD). Different eye movements may contribute to different visual perception that perpetuates to problems in attention, communication and social interaction.
Eye movements are divided into: (1) Fixations (2) Saccades (fast and short eye movements) and (3) Smooth Pursuit Eye Movements (SPEM). SPEM follow the target in a continuous manner. The latter are the subject of the present thesis. SPEM consist of two phases: the open loop phase (= phase of initiation, first 50- 100ms) and the closed loop phase (= phase of maintenance, after about 100ms). SPEM are usually measured by a gain index. It is defined as the ratio of smooth pursuit velocity and visual target velocity and ideally equals to 1.2
In young children, corneal-reflection (CR) eye-tracking is usually applied to quantify eye movement. It allows precise measurements without the use of potentially intrusive devices.
Studies in ASD reported deficits in open loop and closed loop pursuit in children and adults with a mean age of 19.32 (TD) and 20.04 (ASD) years. However, SPEM in preschoolers with ASD remain understudied, although this developmental phase is crucial to the development of non-social and social attentional abilities.
In the present study 66 toddlers and preschoolers (18 to 72 months; ASD: n = 33, TD: n = 33) with matched cognitive abilities and sex were assessed. The main objective was to compare the gain index (Smooth Pursuit Gain = SPG). SPEM were compared between groups with gain index as a dependent measure. We hypothesized that participants with ASD show lower average gain compared to the control group.
We could show a significant group influence on the gain when considering interactions between target velocity and group (p = 0.041). The TD group showed a greater dependence on the increasing object speed than the ASD group with a trend of -0.30 ± 0.11 in the TD group and a trend of -0.13 ± 0.12 in the ASD group. Across groups, the gain decreased with increasing target velocity and dropped faster in vertical than in horizontal trials. Additionally, participants showed a lower SPG in vertical sequences than in horizontal sequences. This supports the general validity of the measure.
Toddlers and preschoolers represent a group that has been subject of little research to date. In addition, there has been only a limited number of studies analyzing SPEM in ASD. To check for a possible group difference without interactions a study with a larger sample size at fixed target velocity and target direction should follow.
We compute the critical exponents of the O(N) model within the Functional Renormalization Group (FRG) approach. We use recent advances which are based on the observation that the FRG flow equation can be put into the form of an advection-diffusion equation. This allows to employ well-tested hydrodynamical algorithms for its solution. In this study we work in the local potential approximation (LPA) for the effective average action and put special emphasis on estimating the various sources of errors. Our results complement previous results for the critical exponents obtained within the FRG approach in LPA. Despite the limitations imposed by restricting the discussion to the LPA, the results compare favorably with those obtained via other methods.
The Born cross sections of the process e+e−→D∗0D∗−π+ at center-of-mass energies from 4.189 to 4.951 GeV are measured for the first time. The data samples used correspond to an integrated luminosity of 17.9fb−1 and were collected by the BESIII detector operating at the BEPCII storage ring. Three enhancements around 4.20, 4.47 and 4.67 GeV are visible. The resonances have masses of 4209.6±4.7±5.9MeV/c2, 4469.1±26.2±3.6MeV/c2 and 4675.3±29.5±3.5MeV/c2 and widths of 81.6±17.8±9.0MeV, 246.3±36.7±9.4MeV, and 218.3±72.9±9.3MeV, respectively, where the first uncertainties are statistical and the second systematic. The first and third resonances are consistent with the ψ(4230) and ψ(4660) states, respectively, while the second one is compatible with the ψ(4500) observed in the e+e−→K+K−J/ψ process. These three charmoniumlike ψ states are observed in e+e−→D∗0D∗−π+ process for the first time.
A precision measurement of the matrix elements for η→π+π−π0 and η→π0π0π0 decays is performed using a sample of (10087±44)×106 J/ψ decays collected with the BESIII detector. The decay J/ψ→γη is used to select clean samples of 631,686 η→π+π−π0 decays and 272,322 η→π0π0π0 decays. The matrix elements for both channels are in reasonable agreement with previous measurements. The non-zero gX2Y term for the decay mode η→π+π−π0 is confirmed, as reported by the KLOE Collaboration, while the other higher-order terms are found to be insignificant. Dalitz plot asymmetries in the η→π+π−π0 decay are also explored and are found to be consistent with charge conjugation invariance. In addition, a cusp effect is investigated in the η→π0π0π0 decay, and no obvious structure around the π+π− mass threshold is observed.
The equation of state (EoS) of matter at extremely high temperatures and densities is currently not fully understood, and remains a major challenge in the field of nuclear physics. Neutron stars harbor such extreme conditions and therefore serve as celestial laboratories for constraining the dense matter EoS. In this thesis, we present a novel algorithm that utilizes the idea of Bayesian analysis and the computational efficiency of neural networks to reconstruct the dense matter equation of state from mass-radius observations of neutron stars. We show that the results are compatible with those from earlier works based on conventional methods, and are in agreement with the limits on tidal deformabilities obtained from the gravitational wave event, GW170817. We also observe that the resulting squared speed of sound from the reconstructed EoS features a peak, indicating a likely convergence to the conformal limit at asymptotic densities, as expected from quantum chromodynamics. The novel algorithm can also be applied across various fields faced with computational challenges in solving inverse problems. We further examine the efficiency of deep learning methods for analyzing gravitational waves from compact binary coalescences in this thesis. In particular, we develop a deep learning classifier to segregate simulated gravitational wave data into three classes: signals from binary black hole mergers, signals from binary neutron star mergers, or white noise without any signals. A second deep learning algorithm allows for the regression of chirp mass and combined tidal deformability from simulated binary neutron star mergers. An accurate estimation of these parameters is crucial to constrain the underlying EoS. Lastly, we explore the effects of finite temperatures on the binary neutron star merger remnant from GW170817. Isentropic EoSs are used to infer the frequencies of the rigidly rotating remnant and are noted to be significantly lower compared to previous estimates from zero temperature EoSs. Overall, this thesis presents novel deep learning methods to constrain the neutron star EoS, which will prove useful in future, as more observational data is expected in the upcoming years.
Cross sections for the process e+e−→K0SK0SJ/ψ at center-of-mass energies from 4.128 to 4.950 GeV are measured using data samples with a total integrated luminosity of 21.2 fb−1 collected by the BESIII detector operating at the BEPCII storage ring. The Y(4230) state is observed in the energy dependence of the e+e−→K0SK0SJ/ψ cross section for the first time with a statistical significance of 26.0σ. In addition, an enhancement around 4.710 GeV, called the Y(4710), is seen with a statistical significance of 4.2σ. There is no clear structure around 4.484 GeV. Using a fit with a coherent sum of three Breit-Wigner functions, we determine the mass and width of the Y(4230) state to be 4226.9±6.6±21.9 MeV/c2 and 71.7±16.2±31.4 MeV, respectively, and the mass and width of the Y(4710) state to be 4704.0±52.3±69.5 MeV/c2 and 183.2±114.0±90.8 MeV, respectively, where the first uncertainties are statistical and the second are systematic. In addition, the average Born cross section ratio of e+e−→K0SK0SJ/ψ to e+e−→K+K−J/ψ is measured to be 0.388+0.035−0.028±0.016, or 0.426+0.038−0.031±0.018 if three-body phase space is considered.
Using a data sample collected with the BESIII detector operating at the BEPCII storage ring, the Born cross section of the process 𝑒+𝑒−→𝜂𝐽/𝜓 at a center-of-mass energy √𝑠=3.773 GeV is measured to be (8.88±0.87±0.42) pb. We fit the cross section line shape before correcting for the initial state radiation from √𝑠=3.773 to 4.600 GeV to obtain the branching fraction ℬ(𝜓(3770)→𝜂𝐽/𝜓). We obtain ℬ(𝜓(3770)→𝜂𝐽/𝜓)=(11.3±5.9±1.1)×10−4 when the 𝜓(3770) decay amplitude is added coherently to the other contributions, and (8.7±1.0±0.8)×10−4 when it is added incoherently. Here the quoted uncertainties are statistical and systematic, respectively. In both cases, the statistical significance of 𝜓(3770) resonance is above 7𝜎. This is the first time the decay 𝜓(3770)→𝜂𝐽/𝜓 is observed with a statistical significance greater than 5𝜎.
Based on 7.33 fb−1 of e+e− collision data taken at center-of-mass energies between 4.128 and 4.226 GeV with the BESIII detector, we measure the branching fraction of D∗+s→D+sπ0 relative to that of D∗+s→D+sγ to be (6.16±0.43±0.19)%. The first uncertainty is statistical and the second one is systematic. By using the world average value of the branching fraction of D∗+s→D+se+e−, we determine the branching fractions of D∗+s→D+sγ and D∗+s→D+sπ0 to be (93.57±0.44±0.19)% and (5.76±0.44±0.19)%, respectively.
The evolution of cell-free protein synthesis (CFPS) over recent decades has made it a widely used system for expressing membrane proteins (MPs). Unlike traditional methods, CFPS allows direct and translocon-independent expression of MPs within lipid membranes, such as liposomes or nanodiscs (NDs), without the need for detergent solubilization. This open nature of CF systems enables customization of the experimental environment, including expression conditions, choice of nanoparticles (NPs), lipid composition, and addition of stabilizing molecules.
Membrane scaffold protein (MSP)-based NDs emerged as a gold standard for cotranslational solubilization of MPs using the CF-system. This approach allowed not only biochemical characterization, but also structural studies of MPs and even GPCRs. However, to solubilize MPs inside nanoparticles via the traditional reconstitution route, apart from MSPs other scaffolds were successfully implemented, e.g. the saposin A (commercially known as Salipro) scaffold system or the synthetic styrene maleic acid lipid particles (SMALPs). In this study the potential of saposin A-based nanoparticles (SapNPs) was explored for cotranslational MP solubilization.
Three strategies for applying SapNPs in CF systems were investigated: preassembly, (i) coassembly (ii), and coexpression (iii). (i) Preassembly involved forming SapNPs before CF expression and adding them to the CF reaction. In coassembly mode SapA and lipids were mixed in the CF reaction for spontaneous assembly with the synthesized MP. In coexpression mode lipids were added to the CF reaction while coexpressing SapA with the MP target. Proteorhodopsin (PR) served as a model protein to evaluate these strategies due to its ability to oligomerize and straightforward quantification using the cofactor retinal. Preassembled SapNPs provided homogeneous, aggregate-free particles yielding up to 200 µM solubilized PR inside in the CF reaction. Coassembly was also successfully applied to produce PR/SapNP complexes at slightly lower yields, however the system was prone to produce soluble aggregates at too high PR template concentrations and overall needed more adjustments. Coexpression resulted in PR yields below 20 µM and was not considered viable for MP production. Finally, the preassembled SapNPs were used to produce functional G-protein coupled receptor probes. Despite lower overall performance compared to MSP-based systems, SapNPs showed potential as an alternative in CF systems for specific MPs.
The second optimization approach was directed at the CF lysate itself. CF synthesis for NMR analysis benefits from selective labeling schemes enabled by truncated amino acid (AA) metabolic pathways in lysates, reducing spectral ambiguity. However, residual enzymatic AA conversions persist, leading to label dilution and ambiguous NMR spectra. This study aimed to eliminate these residual activities in the E. coli A19 strain, generating optimized CF lysates for NMR applications.
The approach involved cumulative gene deletions of the most problematic scrambling enzymes. The new strain, “Stablelabel,” included deletions and modifications in genes asnA, ansA, ansB, glnA, aspC, and ilvE, effectively eliminating background activities of L-Asn, L-Asp, and conversions of L-Glu to L-Asp and L-Gln. However, residual conversion of L-Gln to L-Glu persisted due to glutaminase activity of several glutaminases using the inhibitor 6 diazo-5-oxo-L-norleucine (DON). Stablelabel showed a slightly slower growth than A19, and an overall good performance with 2.7 mg/mL GFP expressed in the reaction mixture (RM) compared to the parental A19 strain with 3.5 mg/mL. Furthermore, the strain was successfully applied to demonstrate methyl group labeling of MPs using preconverted L-val and L-leu from their respective precursors 2-ketoisovalerate and 4-methyl-2-oxovalerate.
In this study, lipid nanoparticle particle-and strain engineering vividly demonstrated the potential of CFPS systems and their versatility. While the SapNP system requires further engineering to potentially reach the efficiency of the well-studied MSP NDs, this study provides an example of nanoparticle characterization allowing new insights into NP behavior in CF systems. Furthermore, it was shown that strain engineering is a straightforward solution to tailor CF lysates to the individual requirements. After this thesis was submitted, Stablelabel in fact was successfully applied for backbone assignment of casein kinase 1, thereby demonstrating its suitability to express complex targets for NMR studies.
A Large Ion Collider Experiment (ALICE) is a high-energy physics experiment, designed to study heavy ion collisions at the European Organization for Nuclear Research (CERN)Large Hadron Collider (LHC). ALICE is built to study the fundamental properties of matter as it existed shortly after the big bang. This requires reading out millions of sensors with high frequency, enabling high statistics for physics analysis, resulting in a considerable computing demand concerning network throughput and processing power. With the ALICE Run 3 upgrade [14], requirements for a High Throughput Computing
(HTC) online processing cluster increased significantly, due to more than an order of magnitude more data than in Run 2, resulting in a processing input rate of up to 900 GB/s. Online (real-time) event reconstruction allows for the compression of the data stream to 130 GB/s, which is stored on disk for physics analysis.
This thesis presents the implementation of the ALICE Event Processing Node (EPN) compute farm, to cope with the Run 3 online computing challenges. Building a Data Centre tailored to ALICE requirements for the Run 3 and Run 4 EPN farm. Providing the operational conditions for a dynamic compute environment of a High Performance Computing (HPC) cluster, with significant load changes in a short time span, when starting or stopping a data-taking run. EPN servers provide the required computing resources for online reconstruction and data compression. The farm includes network connectivity towards First Level Processors (FLPs), requiring reliable throughput of 900 GB/s between FLPs and EPNs and connectivity from the internal InfiniBand network to the CERN Exabyte Object Storage (EOS) Ethernet network, with more than 100 GB/s.
The results of operating the EPN computing infrastructure during the first year of Run 3 LHC collisions are described in the context of the ALICE experiment. The EPN farm was delivering the expected performance for ALICE data-taking. Data Centre environmental conditions remained stable during the last more than two years, in particular during starting and stopping runs, which include significant changes in IT load. Several unforeseen external circumstances lead to increasing demands for the Online Offline System (O2). Higher data rates than anticipated required network performance to exceed the initial design specifications, for the throughput between FLPs and EPNs. In particular, the high throughput from an internal EPN InfiniBand network towards the storage Ethernet network was one of the challenges to overcome.
Nowadays, teachers are facing a more and more digitized world, as digital tools are being used by their students on a daily basis. This requires digital competencies in order to react in a professional manner to individual and societal challenges and to teach the students a purposeful use of those tools. Regarding the subject (e.g., STEM), this purpose includes specific content aspects, like data processing, or modeling and simulations of complex scientific phenomena. Yet, both pre-service and experienced teachers often consider their digital teaching competencies insufficient and wish for guidance in this field. Especially regarding immersive tools like augmented reality (AR), they do not have a lot of experience, although their willingness to use those modern tools in their lessons is high. The digital tool AR can target another problem in science lessons: students and teachers often have difficulties with understanding and creating scientific models. However, these are a main part of the scientific way of acquiring knowledge and are therefore embedded in curricula. With AR, virtual visualizations of model aspects can be superimposed on real experimental backgrounds in real time. It can help link models and experiments, which usually are not part of the same lesson and are perceived differently by students. Within the project diMEx (digital competencies in modeling and experimenting), a continuing professional development (CPD) for physics teachers was planned and conducted. Secondary school physics educators were guided in using AR in their lessons and their digital and modeling competencies for a purposeful use of AR experiments were promoted. To measure those competencies, various instruments with mixed methods were developed and evaluated. Among others, the teachers’ digital competencies have been assessed by four experts with an evaluation matrix based on the TPACK model. Technological, technical and design aspects as well as the didactical use of an AR experiment were assessed. The teachers generally demonstrate a high level of competency, especially in the first-mentioned aspects, and have successfully implemented their learnings from the CPD in the (re)design of their AR experiments.
Highlights
• Early reconstruction of injured cruciate ligaments improves functional outcomes.
• Modern CT imaging can be used to rapidly identify patients with injury to the cruciate ligaments and streamline therapeutic pathways.
• Dual-energy CT demonstrates superior diagnostic accuracy compared to single-energy CT.
Abstract
Background: This study aimed to evaluate the clinical utility of modern single and dual-energy computed tomography (CT) for assessing the integrity of the cruciate ligaments in patients that sustained acute trauma.
Methods: Patients who underwent single- or dual-energy CT followed by 3 Tesla magnetic resonance imaging (MRI) or knee joint arthroscopy between 01/2016 and 12/2022 were included in this retrospective, monocentric study. Three radiologists specialized in musculoskeletal imaging independently evaluated all CT images for the presence of injury to the cruciate ligaments. An MRI consensus reading of two experienced readers and arthroscopy provided the reference standard. Diagnostic accuracy parameters and area under the receiver operator characteristic curve (AUC) were the primary metrics for diagnostic performance.
Results: CT images of 204 patients (median age, 49 years; IQR 36 – 64; 113 males) were evaluated. Dual-energy CT yielded significantly higher diagnostic accuracy and AUC for the detection of injury to the anterior (94% [240/255] vs 75% [266/357] and 0.89 vs 0.66) and posterior cruciate ligaments (95% [243/255] vs 87% [311/357] and 0.90 vs 0.61) compared to single-energy CT (all parameters, p <.005). Diagnostic confidence and image quality were significantly higher in dual-energy CT compared to single-energy CT (all parameters, p <.005).
Conclusions: Modern dual-energy CT is readily available and can serve as a screening tool for detecting or excluding cruciate ligament injuries in patients with acute trauma. Accurate diagnosis of cruciate ligament injuries is crucial to prevent adverse outcomes, including delayed treatment, chronic instability, or long-term functional limitations.
Based on 7.33 fb−1 of e+e− collision data taken at center-of-mass energies between 4.128 and 4.226 GeV with the BESIII detector, we measure the branching fraction of D∗+s→D+sπ0 relative to that of D∗+s→D+sγ to be (6.16±0.43±0.19)%. The first uncertainty is statistical and the second one is systematic. By using the world average value of the branching fraction of D∗+s→D+se+e−, we determine the branching fractions of D∗+s→D+sγ and D∗+s→D+sπ0 to be (93.57±0.44±0.19)% and (5.76±0.44±0.19)%, respectively.
Uniform sampling from the set G(d) of graphs with a given degree-sequence d=(d1,…,dn)∈Nn is a classical problem in the study of random graphs. We consider an analogue for temporal graphs in which the edges are labeled with integer timestamps. The input to this generation problem is a tuple D=(d,T)∈Nn×N>0 and the task is to output a uniform random sample from the set G(D) of temporal graphs with degree-sequence d and timestamps in the interval [1,T]. By allowing repeated edges with distinct timestamps, G(D) can be non-empty even if G(d) is, and as a consequence, existing algorithms are difficult to apply.
We describe an algorithm for this generation problem which runs in expected time O(M) if Δ2+ϵ=O(M) for some constant ϵ>0 and T−Δ=Ω(T) where M=∑idi and Δ=maxidi. Our algorithm applies the switching method of McKay and Wormald [1] to temporal graphs: we first generate a random temporal multigraph and then remove self-loops and duplicated edges with switching operations which rewire the edges in a degree-preserving manner.
Uniform sampling from the set G(d) of graphs with a given degree-sequence d=(d1,…,dn)∈Nn is a classical problem in the study of random graphs. We consider an analogue for temporal graphs in which the edges are labeled with integer timestamps. The input to this generation problem is a tuple D=(d,T)∈Nn×N>0 and the task is to output a uniform random sample from the set G(D) of temporal graphs with degree-sequence d and timestamps in the interval [1,T]. By allowing repeated edges with distinct timestamps, G(D) can be non-empty even if G(d) is, and as a consequence, existing algorithms are difficult to apply.
We describe an algorithm for this generation problem which runs in expected time O(M) if Δ2+ϵ=O(M) for some constant ϵ>0 and T−Δ=Ω(T) where M=∑idi and Δ=maxidi. Our algorithm applies the switching method of McKay and Wormald [1] to temporal graphs: we first generate a random temporal multigraph and then remove self-loops and duplicated edges with switching operations which rewire the edges in a degree-preserving manner.
Tidal deformability of fermion-boson stars: neutron stars admixed with ultralight dark matter
(2023)
In this work we investigate the tidal deformability of a neutron star admixed with dark matter, modeled as a massive, self-interacting, complex scalar field. We derive the equations to compute the tidal deformability of the full Einstein-Hilbert-Klein-Gordon system self-consistently, and probe the influence of the scalar field mass and self-interaction strength on the total mass and tidal properties of the combined system. We find that dark matter core-like configurations lead to more compact objects with smaller tidal deformability, and dark matter cloud-like configurations lead to larger tidal deformability. Electromagnetic observations of certain cloud-like configurations would appear to violate the Buchdahl limit. The self-interaction strength is found to have a significant effect on both mass and tidal deformability. We discuss observational constraints and the connection to anomalous detections. We also investigate how this model compares to those with an effective bosonic equation of state and find the interaction strength where they converge sufficiently.
Based on data samples collected with the BESIII detector at the BEPCII collider, the process e+e−→Σ+Σ¯− is studied at center-of-mass energies s√ = 2.3960, 2.6454, and 2.9000~GeV. Using a fully differential angular description of the final state particles, the complete information of the Σ+ electromagnetic form factors in the time-like region is extracted. The relative phase between the electric and magnetic form factors is determined to be sinΔΦ = -0.67~±~0.29~(stat.)~±~0.18~(syst.) at s√ = 2.3960~GeV, ΔΦ = 55∘~±~19∘~(stat.) ±~14∘~(syst.) at s√ = 2.6454~GeV, and 78∘~±~22∘~(stat.) ±~9∘~(syst.) at s√ = 2.9000~GeV. For the first time, the phase of the hyperon electromagnetic form factors is explored in a wide range of four-momentum transfer. The evolution of the phase along with four-momentum transfer is an important input for understanding its asymptotic behavior and the dynamics of baryons.
Based on 4.4 fb−1 of e+e− annihilation data collected at the center-of-mass energies between 4.60 and 4.70 GeV with the BESIII detector at the BEPCII collider, the pure W-exchange decay Λ+c→Ξ0K+ is studied with a full angular analysis. The corresponding decay asymmetry is measured for the first time to be αΞ0K+=0.01±0.16(stat.)±0.03(syst.). This result reflects the interference between the S- and P-wave amplitudes. The phase shift between S- and P-wave amplitudes is δp−δs=−1.55±0.25(stat.)±0.05(syst.) rad.
Observation of a vector charmoniumlike state at 4.7 GeV/c² and search for Zcₛ in e⁺e⁻ → K⁺K⁻J/ψ
(2023)
Using data samples with an integrated luminosity of 5.85~fb−1 collected at center-of-mass energies from 4.61 to 4.95 GeV with the BESIII detector operating at the BEPCII storage ring, we measure the cross section for the process e+e−→K+K−J/ψ. A new resonance with a mass of M=4708+17−15±21 MeV/c2 and a width of Γ=126+27−23±30 MeV is observed in the energy-dependent line shape of the e+e−→K+K−J/ψ cross section with a significance over 5σ. The K+J/ψ system is also investigated to search for charged charmoniumlike states, but no significant Z+cs states are observed. Upper limits on the Born cross sections for e+e−→K−Zcs(3985)+/K−Zcs(4000)++c.c. with Zcs(3985)±/Zcs(4000)±→K±J/ψ are reported at 90\% confidence levels. The ratio of branching fractions B(Zcs(3985)+→K+J/ψ)B(Zcs(3985) +→ (D¯0D∗+s+D¯∗0D+s)) is measured to be less than 0.03 at 90\% confidence level.
Cross sections for the process e+e−→K0SK0SJ/ψ at center-of-mass energies from 4.128 to 4.950 GeV are measured using data samples with a total integrated luminosity of 21.2 fb−1 collected by the BESIII detector operating at the BEPCII storage ring. The Y(4230) state is observed in the energy dependence of the e+e−→K0SK0SJ/ψ cross section for the first time with a statistical significance of 26.0σ. In addition, an enhancement around 4.710 GeV, called the Y(4710), is seen with a statistical significance of 4.2σ. There is no clear structure around 4.484 GeV. Using a fit with a coherent sum of three Breit-Wigner functions, we determine the mass and width of the Y(4230) state to be 4226.9±6.6±21.9 MeV/c2 and 71.7±16.2±31.4 MeV, respectively, and the mass and width of the Y(4710) state to be 4704.0±52.3±69.5 MeV/c2 and 183.2±114.0±90.8 MeV, respectively, where the first uncertainties are statistical and the second are systematic. In addition, the average Born cross section ratio of e+e−→K0SK0SJ/ψ to e+e−→K+K−J/ψ is measured to be 0.388+0.035−0.028±0.016, or 0.426+0.038−0.031±0.018 if three-body phase space is considered.
Using 𝑒+𝑒− collision data with an integrated luminosity of 7.33 fb−1 collected at center-of-mass energies between 4.128 and 4.226 GeV with the BESIII detector operating at the BEPCII collider, the branching fraction of the leptonic decay 𝐷+ 𝑠→𝜇+𝜈𝜇 is measured to be (0.5294±0.0108stat±0.0085syst)%. Based on this, the product of the 𝐷+ 𝑠 decay constant 𝑓𝐷+ 𝑠 and the magnitude of the 𝑐→𝑠 quark mixing matrix element |𝑉𝑐𝑠| is determined to be 𝑓𝐷+ 𝑠|𝑉𝑐𝑠| = 241.8±2.5stat±2.2syst MeV. Using the value of |𝑉𝑐𝑠| given by the global standard model fit, 𝑓𝐷+ 𝑠 is found to be 248.4±2.5stat±2.2syst MeV. Alternatively, using the value of 𝑓𝐷+ 𝑠 from a recent lattice quantum chromodynamics calculation, |𝑉𝑐𝑠| is determined to be 0.968±0.010stat±0.009syst.
The attention on the protein PURA has increased recently following the discovery of the rare PURA Syndrome. This neurodevelopmental disorder is caused by de novo mutations in the PURA gene. Notably, our collaborators could show that the protein PURA can bind DNA and RNA in vitro. As a result, I was motivated to explore PURA's cellular RNAbinding activity. Furthermore, I inquired on the connection of PURA-RNA binding to the cellular effect of a reduction of functional PURA as present in PURA Syndrome patients.
To investigate the binding of PURA and the impact of PURA de ciency on cellular RNA and protein expression, I performed an integrative computational analysis of multimodal data from complementary high-throughput experiments. An essential component was the examination of UV Crosslinking and immunoprecipitation (CLIP) experiments, which can query the global RNA-binding behaviour of a given protein in a cellular context. As the processing and analysis of CLIP data are rather complex, I introduce an automated command line tool for the processing of CLIP data named racoon_clip as part of this dissertation. Therefore, this dissertation comprises two major segments. Firstly, I describe the implementation and usage of racoon clip for CLIP data analysis. Secondly, I discuss my research on the protein PURA, demonstrating its global RNA-binding properties, the effects of PURA depletion and its association with neuronal functions and P-bodies, among others.
racoon_clip is a command line application that I have developed for processing of individualnucleotide resolution CLIP (iCLIP) and enhanced CLIP (eCLIP) experiments - two of the most commonly used types of CLIP experiments - in a comparable and user-friendly way.
For this, I built racoon_clip as an automated work how that encompasses all CLIP processing steps from raw data to single-nucleotide resolution crosslink events. racoon_clip is available as a command line tool that users can run with a single command. The work how is implemented with Snakemake work how management providing computational advantage tages including parallelisation, scalability and portability of the work how. The main task of racoon_clip is to extract single-nucleotide crosslink events from iCLIP, iCLIP2, eCLIP and similar data types. To strike a balance between being highly customisable and easy to use, racoon_clip supplies pre-set options for the most common types of experiments.
Additionally, it is possible for users to create a custom setup of barcode and adapter architectures, which allows them to use the software for other types of CLIP data. While accounting for the different architectures in the reads, the performed central processing steps remain the same. This leads to a high degree of comparability between the different experiment types, which I demonstrate in the exemplary processing of U2AF2 iCLIP and eCLIP data. Taken together, I am confident that racoon_clip will be beneficial to numerous researchers interested in RNA-Protein interactions as it offers easily accessible processing for CLIP data and enhances the comparability of multiple CLIP datasets across di erent experiment types.
In the second part of this dissertation, I focus on the cellular function of the RNAbinding protein PURA. Through in-depth computational analysis of one iCLIP data set of endogenous PURA and two iCLIP data sets of overexpressed PURA in HeLa cells, I establish that PURA is a global RNA-binding protein. It preferentially binds RNAs in either the coding sequence (CDS) or the 3' untranslated region (3'UTR) of mature protein-coding transcripts by recognising a Purine-rich degenerated sequence motif. Even though overexpression of PURA results in less specific binding behaviour, the same overall binding patterns as from endogenous PURA persist. Overall characteristics of PURA binding remain similar in three distinct PURA iCLIP data sets with and without PURA overexpression.
To learn about the molecular consequences of a depletion of functional PURA in a cellular context, I used a 50% reduction of PURA in HeLa cells as a model for the heterozygous loss of PURA in PURA Syndrome and evaluated its impact on global RNA and protein expression. The results demonstrate that PURA depletion globally a ects RNA and protein expression. Additionally, I integrate PURA RNA binding with the changes in expression of RNAs and proteins in the context of PURA depletion. This reveals 234 targets of PURA that are bound by PURA and are impacted at both RNA and protein levels by the PURA protein. RNAs that are bound by PURA or change in abundance upon PURA depletion are enriched in neuronal development factors, RNA lifecycle regulators, and mitochondrial factors, among others. Consistent with a possible role of PURA in neuronal transport, there is considerable overlap between PURA bound transcripts and transcripts, that are transported to the dendritic end of neurons.
Notably, there is a link between PURA and P-bodies, as documented by the enrichment of PURA-bound RNAs in both the P-body and stress granule transcriptome. Further, PURA was found by our collaborators to be localised within P-bodies and P-body numbers were strongly reduced in cells that are depleted of PURA. This absence might be attributed to the downregulation of the proteins encoded by the PURA targets LSM14A and DDX6 as both of them were previously identified as essential for P-body formation.
Overall, the reduction of P-body numbers in PURA depletion, the neuronal function of PURA, and its association with mitochondria and RNA lifecycle regulation may indicate the cellular foundation of both PURA Syndrome and related neuronal diseases.
In summary, I present a versatile and user-friendly computational tool for the analysis of CLIP data. Subsequently, I conduct a thorough computational analysis of CLIP and other high-throughput data in the context of the RNA-binding protein PURA, which offers valuable insights into the cellular functions of PURA. These insights advance our understanding of the impact of PURA loss in PURA Syndrome and other disease contexts.
Background: Malalignments of the lower extremity are common reasons for orthopedic consultation because it may lead to osteoarthritis in adulthood. An accurate and reliable radiological assessment of lower limb alignment in children and adolescents is essential for clinical decision-making on treatment of limb deformities and for regular control after a surgical intervention.
Objective: First, does the analysis of full-length standing anteroposterior radiographs show a good intra- and interobserver reliability? Second, which parameter is most susceptible to observer-dependent errors? Third, what is the Standard Error of Measurement (SEM95%) of the absolute femoral and tibial length?
Methods: Two observers evaluated digital radiographs of 144 legs from 36 children and adolescents with pathological valgus alignment before a temporary hemiepiphysiodesis and before implant removal. Parameters included Mechanical Femorotibial Angle (MFA), Mechanical Axis Deviation (MAD), mechanical Lateral Distal Femoral Angle (mLDFA), mechanical Medial Proximal Tibial Angle (mMPTA), mechanical Lateral Proximal Femoral Angle (mLPFA), mechanical Lateral Distal Tibial Angle (mLDTA), Joint Line Convergence Angle (JLCA), femur length, tibial length. Intra- and interobserver reliability (ICC2,1), SEM95% and proportional errors were calculated.
Results: The intra- and interobserver reliability for almost all measurements was found to be good to excellent (Intra-ICC2,1: 0.849–0.999; Inter-ICC2,1: 0.864–0.996). The SEM95% of both observers was found to be ± 1.39° (MFA), ± 3.31 mm (MAD), ± 1.06° (mLDFA) and ± 1.29° (mMPTA). The proportional error of MAD and MFA is comparable (47.29% vs. 46.33%). The relevant knee joint surface angles show a lower proportional error for mLDFA (42.40%) than for mMPTA (51.60%). JLCA has a proportional error of 138%. Furthermore, the SEM95% for the absolute values of the femoral and tibial length was 4.53 mm for the femur and 3.12 mm for the tibia.
Conclusions: In conclusion, a precise malalignment measurement and the knowledge about SEM95% of the respective parameters are crucial for correct surgical or nonsurgical treatment. The susceptibility to error must be considered when interpreting malalignment analysis and must be considered when planning a surgical intervention. The results of the present study elucidate that MAD and MFA are equally susceptible to observer-dependent errors. This study shows good to excellent intra- and interobserver ICCs for all leg alignment parameters and joint surface angles, except for JLCA.
Trial registration: This study was registered with DRKS (German Clinical Trials Register) under the number DRKS00015053.
Level of evidence
I, Diagnostic Study.
Based on 4.4 fb−1 of e+e− annihilation data collected at the center-of-mass energies between 4.60 and 4.70 GeV with the BESIII detector at the BEPCII collider, the pure W-exchange decay Λ+c→Ξ0K+ is studied with a full angular analysis. The corresponding decay asymmetry is measured for the first time to be αΞ0K+=0.01±0.16(stat.)±0.03(syst.). This result reflects the interference between the S- and P-wave amplitudes. The phase shift between S- and P-wave amplitudes is δp−δs=−1.55±0.25(stat.)±0.05(syst.) rad.
Focused electron-beam-induced deposition (FEBID) is a highly versatile direct-write approach with particular strengths in the 3D nanofabrication of functional materials. Despite its apparent similarity to other 3D printing approaches, non-local effects related to precursor depletion, electron scattering and sample heating during the 3D growth process complicate the shape-true transfer from a target 3D model to the actual deposit. Here, we describe an efficient and fast numerical approach to simulate the growth process, which allows for a systematic study of the influence of the most important growth parameters on the resulting shape of the 3D structures. The precursor parameter set derived in this work for the precursor Me3PtCpMe enables a detailed replication of the experimentally fabricated nanostructure, taking beam-induced heating into account. The modular character of the simulation approach allows for additional future performance increases using parallelization or drawing on the use of graphics cards. Ultimately, beam-control pattern generation for 3D FEBID will profit from being routinely combined with this fast simulation approach for optimized shape transfer.
The correction of valgus leg malalignment in children using implant-mediated growth guidance is widely used and effective. Despite the minimal invasive character of the procedure, a relevant number of patients sustain prolonged pain and limited mobility after temporary hemiepiphysiodesis. Our aim was to investigate implant-associated risk factors (such as implant position and screw angulation), surgical- or anesthesia-related risk factors (such as type of anesthesia, use, and duration), and pressure of tourniquet or duration of surgery for these complications. Thirty-four skeletally immature patients with idiopathic valgus deformities undergoing hemiepiphysiodesis plating from October 2018–July 2022 were enrolled in this retrospective study. Participants were divided into groups with and without prolonged complications (persistent pain, limited mobility of the operated knee between five weeks and six months) after surgery. Twenty-two patients (65%) had no notable complications, while twelve patients (35%) had prolonged complications. Both groups differed significantly in plate position relative to physis (p = 0.049). In addition, both groups showed significant differences in the distribution of implant location (p = 0.016). Group 1 had a shorter duration of surgery than group 2 (32 min vs. 38 min, p = 0.032) and a lower tourniquet pressure (250 mmHg vs. 270 mmHg, p = 0.019). In conclusion, simultaneous plate implantation at the femur and tibia and metaphyseal plate positioning resulted in prolonged pain and a delay of function. In addition, the amplitude of tourniquet pressure or duration of surgery could play a factor.
Cell-free (CF) synthesis with highly productive E. coli lysates is a convenient method to produce labeled proteins for NMR studies. Despite reduced metabolic activity in CF lysates, a certain scrambling of supplied isotope labels is still notable. Most problematic are conversions of 15N labels of the amino acids L-Asp, L-Asn, L-Gln, L-Glu and L-Ala, resulting in ambiguous NMR signals as well as in label dilution. Specific inhibitor cocktails suppress most undesired conversion reactions, while limited availability and potential side effects on CF system productivity need to be considered. As alternative route to address NMR label conversion in CF systems, we describe the generation of optimized E. coli lysates with reduced amino acid scrambling activity. Our strategy is based on the proteome blueprint of standardized CF S30 lysates of the E. coli strain A19. Identified lysate enzymes with suspected amino acid scrambling activity were eliminated by engineering corresponding single and cumulative chromosomal mutations in A19. CF lysates prepared from the mutants were analyzed for their CF protein synthesis efficiency and for residual scrambling activity. The A19 derivative “Stablelabel” containing the cumulative mutations asnA, ansA/B, glnA, aspC and ilvE yielded the most useful CF S30 lysates. We demonstrate the optimized NMR spectral complexity of selectively labeled proteins CF synthesized in “Stablelabel” lysates. By taking advantage of ilvE deletion in "Stablelabel", we further exemplify a new strategy for methyl group specific labeling of membrane proteins with the proton pump proteorhodopsin.
We search for an axion-like particle (ALP) a through the process ψ(3686)→π+π−J/ψ, J/ψ→γa, a→γγ in a data sample of (2.71±0.01)×109 ψ(3686) events collected by the BESIII detector. No significant ALP signal is observed over the expected background, and the upper limits on the branching fraction of the decay J/ψ→γa and the ALP-photon coupling constant gaγγ are set at 95% confidence level in the mass range of 0.165≤ma≤2.84GeV/c2. The limits on B(J/ψ→γa) range from 8.3×10−8 to 1.8×10−6 over the search region, and the constraints on the ALP-photon coupling are the most stringent to date for 0.165≤ma≤1.468GeV/c2.
Precision measurements of the semileptonic decays 𝐷+𝑠→𝜂𝑒+𝜈𝑒 and 𝐷+𝑠→𝜂′𝑒+𝜈𝑒 are performed with 7.33 fb−1 of 𝑒+𝑒− collision data collected at center-of-mass energies between 4.128 and 4.226 GeV with the BESIII detector. The branching fractions obtained are ℬ(𝐷+𝑠→𝜂𝑒+𝜈𝑒) = (2.255±0.039stat±0.051syst)% and ℬ(𝐷+𝑠→𝜂′𝑒+𝜈𝑒)=(0.810±0.038stat±0.024syst)%. Combining these results with the ℬ(𝐷+→𝜂𝑒+𝜈𝑒) and ℬ(𝐷+→𝜂′𝑒+𝜈𝑒) obtained from previous BESIII measurements, the 𝜂−𝜂′ mixing angle in the quark flavor basis is determined to be 𝜙P=(40.0±2.0stat±0.6syst)°. Moreover, from the fits to the partial decay rates of 𝐷+𝑠→𝜂𝑒+𝜈𝑒 and 𝐷+𝑠→𝜂′𝑒+𝜈𝑒, the products of the hadronic transition form factors 𝑓𝜂(′)+(0) and the modulus of the 𝑐→𝑠 Cabibbo-Kobayashi-Maskawa matrix element |𝑉𝑐𝑠| are determined by using different hadronic transition form factor parametrizations. Based on the two-parameter series expansion, the products 𝑓𝜂+(0)|𝑉𝑐𝑠| = 0.4519±0.0071stat±0.0065syst and 𝑓𝜂′+(0)|𝑉𝑐𝑠| = 0.525±0.024stat±0.009syst are extracted. All results determined in this work supersede those measured in the previous BESIII analyses based on the 3.19 fb−1 subsample of data at 4.178 GeV.
The quantum entangled J/ψ→Σ+Σ¯− pairs from (1.0087±0.0044)×1010 J/ψ events taken by the BESIII detector are used to study the non-leptonic two-body weak decays Σ+→nπ+ and Σ¯−→n¯π−. The CP-odd weak decay parameters of the decays Σ+→nπ+ (α+) and Σ¯−→n¯π− (α¯−) are determined to be −0.0565±0.0047stat±0.0022syst and 0.0481±0.0031stat±0.0019syst, respectively. The decay parameter α¯− is measured for the first time, and the accuracy of α+ is improved by a factor of four compared to the previous results. The simultaneously determined decay parameters allow the first precision CP symmetry test for any hyperon decay with a neutron in the final state with the measurement of ACP=(α++α¯−)/(α+−α¯−) = −0.080±0.052stat±0.028syst. Assuming CP conservation, the average decay parameter is determined as ⟨α+⟩=(α+−α¯−)/2 = −0.0506±0.0026stat±0.0019syst, while the ratios α+/α0 and α¯−/α¯0 are −0.0490±0.0032stat±0.0021syst and −0.0571±0.0053stat±0.0032syst, where α0 and α¯0 are the decay parameters of the decays Σ+→pπ0 and Σ¯−→p¯π0, respectively.
The quantum entangled J=ψ → ΣþΣ¯ − pairs from ð1.0087 0.0044Þ × 1010 J=ψ events taken by the BESIII detector are used to study the nonleptonic two-body weak decays Σþ → nπþ and Σ¯ − → n¯π−. The CP-odd weak decay parameters of the decays Σþ → nπþ (αþ) and Σ¯ − → n¯π− (α¯−) are determined to be 0.0481 0.0031stat 0.0019syst and −0.0565 0.0047stat 0.0022syst, respectively. The decay parameter α¯− is measured for the first time, and the accuracy of αþ is improved by a factor of 4 compared to the previous results. The simultaneously determined decay parameters allow the first precision CP symmetry test for any hyperon decay with a neutron in the final state with the measurement of ACP ¼ ðαþ þ α¯−Þ=ðαþ − α¯−Þ ¼ −0.080 0.052stat 0.028syst. Assuming CP conservation, the average decay parameter is determined as hαþi¼ðαþ − α¯−Þ=2 ¼ −0.0506 0.0026stat 0.0019syst, while the ratios αþ=α0 and α¯−=α¯ 0 are −0.0490 0.0032stat 0.0021syst and −0.0571 0.0053stat 0.0032syst, where α0 and α¯ 0 are the decay parameters of the decays Σþ → pπ0 and Σ¯ − → p¯ π0, respectively.
First study of reaction Ξ⁰n → Ξ⁻ p using Ξ⁰-nucleus scattering at an electron-positron collider
(2023)
Using ð1.0087 0.0044Þ × 1010 J=ψ events collected with the BESIII detector at the BEPCII storage ring, the process Ξ0n → Ξ−p is studied, where the Ξ0 baryon is produced in the process J=ψ → Ξ0Ξ¯ 0 and the neutron is a component of the 9 Be, 12C, and 197Au nuclei in the beam pipe. A clear signal is observed with a statistical significance of 7.1σ. The cross section of the reaction Ξ0 þ 9 Be → Ξ− þ p þ 8 Be is determined to be σðΞ0 þ 9 Be → Ξ− þ p þ 8 BeÞ¼ð22.1 5.3stat 4.5sysÞ mb at the Ξ0 momentum of 0.818 GeV=c, where the first uncertainty is statistical and the second is systematic. No significant H-dibaryon signal is observed in the Ξ−p final state. This is the first study of hyperon-nucleon interactions in electron-positron collisions and opens up a new direction for such research.
Improved measurement of the branching fractions of the inclusive decays D⁺ → Kₛ⁰X and D⁰ → Kₛ⁰X
(2023)
By analyzing 2.93 fb−1 of e+e− collision data taken at the center-of-mass energy of 3.773 GeV with the BESIII detector, the branching fractions of the inclusive decays D+→K0SX and D0→K0SX are measured to be (32.78±0.13±0.27)% and (20.54±0.12±0.18)%, respectively, where the first uncertainties are statistical and the second are systematic. These results are consistent with the world averages of previous measurements, but with improved precision.
Using (10087±44)×106 J/ψ events collected with the BESIII detector, the radiative hyperon decay Σ→pγ is studied at an electron-positron collider experiment for the first time. The absolute branching fraction is measured to be (0.996±0.021stat.±0.018syst.)×10−3, which is lower than its world average value by 4.2 standard deviations. Its decay asymmetry parameter is determined to be −0.652±0.056stat.±0.020syst.. The branching fraction and decay asymmetry parameter are the most precise to date, and the accuracies are improved by 78% and 34%, respectively.
Tidal deformability of fermion-boson stars: neutron stars admixed with ultralight dark matter
(2023)
In this work we investigate the tidal deformability of a neutron star admixed with dark matter, modeled as a massive, self-interacting, complex scalar field. We derive the equations to compute the tidal deformability of the full Einstein-Hilbert-Klein-Gordon system self-consistently, and probe the influence of the scalar field mass and self-interaction strength on the total mass and tidal properties of the combined system. We find that dark matter core-like configurations lead to more compact objects with smaller tidal deformability, and dark matter cloud-like configurations lead to larger tidal deformability. Electromagnetic observations of certain cloud-like configurations would appear to violate the Buchdahl limit. The self-interaction strength is found to have a significant effect on both mass and tidal deformability. We discuss observational constraints and the connection to anomalous detections. We also investigate how this model compares to those with an effective bosonic equation of state and find the interaction strength where they converge sufficiently.
Using (10087±44)×106 J/ψ events collected with the BESIII detector, the radiative hyperon decay Σ→pγ is studied at an electron-positron collider experiment for the first time. The absolute branching fraction is measured to be (0.996±0.021stat.±0.018syst.)×10−3, which is lower than its world average value by 4.2 standard deviations. Its decay asymmetry parameter is determined to be −0.652±0.056stat.±0.020syst.. The branching fraction and decay asymmetry parameter are the most precise to date, and the accuracies are improved by 78% and 34%, respectively.
Using (10087±44)×106 J/ψ events collected with the BESIII detector, the radiative hyperon decay Σ→pγ is studied at an electron-positron collider experiment for the first time. The absolute branching fraction is measured to be (0.996±0.021stat.±0.018syst.)×10−3, which is lower than its world average value by 4.2 standard deviations. Its decay asymmetry parameter is determined to be −0.652±0.056stat.±0.020syst.. The branching fraction and decay asymmetry parameter are the most precise to date, and the accuracies are improved by 78% and 34%, respectively.
Using an 𝑒+𝑒− collision data sample of (27.08±0.14)×108 𝜓(3686) events collected by the BESIII detector, we report the first observation of 𝜒𝑐𝐽→Ω−¯Ω+ (𝐽=0, 1, 2) decays with significances of 5.6𝜎, 6.4𝜎, and 18𝜎, respectively, where the 𝜒𝑐𝐽 mesons are produced in the radiative 𝜓(3686) decays. The branching fractions are determined to be ℬ(𝜒𝑐0→Ω−¯Ω+) = (3.51±0.54±0.29)×10−5, ℬ(𝜒𝑐1→Ω−¯Ω+)=(1.49±0.23±0.10)×10−5, and ℬ(𝜒𝑐2→Ω−¯Ω+)=(4.52±0.24±0.18)×10−5, where the first and second uncertainties are statistical and systematic, respectively.
Using a sample of (10.09 ± 0.04) × 109 J/ψ decays collected with the BESIII detector, partial wave analyses of the decay J/ψ → γK0SK0Sπ0 are performed within the K0SK0Sπ0 invariant mass region below 1.6 GeV/c2. The covariant tensor amplitude method is used in both mass independent and mass dependent approaches. Both analysis approaches exhibit dominant pseudoscalar and axial vector components, and show good consistency for the other individual components. Furthermore, the mass dependent analysis reveals that the K0SK0 Sπ0 invariant mass spectrum for the pseudoscalar component can be well described with two isoscalar resonant states using relativistic Breit-Wigner model, i.e., the η(1405) with a mass of 1391.7±0.7+11.3 −0.3 MeV/c 2 and a width of 60.8±1.2+5.5 −12.0 MeV, and the η(1475) with a mass of 1507.6±1.6+15.5−32.2 MeV/c2 and a width of 115.8±2.4 +14.8 −10.9 MeV. The first and second uncertainties are statistical and systematic, respectively. Alternate models for the pseudoscalar component are also tested, but the description of the K0SK0Sπ0invariant mass spectrum deteriorates significantly.
We report a measurement of exclusive J/ψ photoproduction in Au+Au ultra-peripheral collisions at sNN−−−√=200 GeV using the STAR detector. For the first time, i) the rapidity correlation between J/ψ photoproduction and neutron emission from nuclear breakups has been experimentally measured; ii) nuclear suppression factors are measured for both the coherent and incoherent J/ψ production. At photon-nucleon center-of-mass energy of 25.0 GeV, the coherent and incoherent J/ψ cross sections of Au nuclei are found to be 71±10% and 36±7%, respectively, of that of free protons. The stronger suppression observed in the incoherent production provides a new experimental handle to study the initial-state parton density in heavy nuclei. Data are compared with theoretical models quantitatively.
We report a new measurement of the production of electrons from open heavy-flavor hadron decays (HFEs) at mid-rapidity (|y|< 0.7) in Au+Au collisions at sNN−−−√=200 GeV. Invariant yields of HFEs are measured for the transverse momentum range of 3.5<pT<9 GeV/c in various configurations of the collision geometry. The HFE yields in head-on Au+Au collisions are suppressed by approximately a factor of 2 compared to that in p+p collisions scaled by the average number of binary collisions, indicating strong interactions between heavy quarks and the hot and dense medium created in heavy-ion collisions. Comparison of these results with models provides additional tests of theoretical calculations of heavy quark energy loss in the quark-gluon plasma.