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Early experiences of childhood sexual or physical abuse are often associated with functional impairments, reduced well-being and interpersonal problems in adulthood. Prior studies have addressed whether the traumatic experience itself or adult psychopathology is linked to these limitations. To approach this question, individuals with posttraumatic stress disorder (PTSD) and healthy individuals with and without a history of child abuse were investigated. We used global positioning system (GPS) tracking to study temporal and spatial limitations in the participants’ real-life activity space over the course of one week. The sample consisted of 228 female participants: 150 women with PTSD and emotional instability with a history of child abuse, 35 mentally healthy women with a history of child abuse (healthy trauma controls, HTC) and 43 mentally healthy women without any traumatic experiences in their past (healthy controls, HC). Both traumatized groups—i.e. the PTSD and the HTC group—had smaller movement radii than the HC group on the weekends, but neither spent significantly less time away from home than HC. Some differences between PTSD and HC in movement radius seem to be related to correlates of PTSD psychopathology, like depression and physical health. Yet group differences between HTC and HC in movement radius remained even when contextual and individual health variables were included in the model, indicating specific effects of traumatic experiences on activity space. Experiences of child abuse could limit activity space later in life, regardless of whether PTSD develops.
In heavy-ion collisions, the quark-gluon plasma is produced far from equilibrium. This regime is currently inaccessible by direct quantum chromodynamics (QCD) computations. In a holographic context, we propose a general method to characterize transport properties based on well-defined two-point functions. We calculate shear transport and entropy far from equilibrium, defining a time-dependent ratio of shear viscosity to entropy density, . Large deviations from its near-equilibrium value , up to a factor of 2.5, are found for realistic situations at the Large Hadron Collider. We predict the far-from-equilibrium time-dependence of to substantially affect the evolution of the QCD plasma and to impact the extraction of QCD properties from flow coefficients in heavy-ion collision data.
Vorwort
(2020)
Lange waren Formkonzepte dem Zug der Zeit entzogen, um dann am Ende des 18. Jahrhunderts, und prominent in Goethes Naturforschung, massiv unter ihren Einfluss zu geraten. Wenn Goethes Überlegungen zu Morphologie und Metamorphose Manifestationen der im späten 18. Jahrhundert auf breiter Front beobachtbaren Verzeitlichungsprozesse darstellen, drängt sich die Frage auf, wie das Verhältnis von Zeit und Form in der als Zeitkunst verstandenen Literatur des Autors wirksam wurde.
Understanding the conformational sampling of translation-arrested ribosome nascent chain complexes is key to understand co-translational folding. Up to now, coupling of cysteine oxidation, disulfide bond formation and structure formation in nascent chains has remained elusive. Here, we investigate the eye-lens protein γB-crystallin in the ribosomal exit tunnel. Using mass spectrometry, theoretical simulations, dynamic nuclear polarization-enhanced solid-state nuclear magnetic resonance and cryo-electron microscopy, we show that thiol groups of cysteine residues undergo S-glutathionylation and S-nitrosylation and form non-native disulfide bonds. Thus, covalent modification chemistry occurs already prior to nascent chain release as the ribosome exit tunnel provides sufficient space even for disulfide bond formation which can guide protein folding.
Einer bekannten Redensart zufolge soll man die Feste feiern, wie sie fallen. Zynisch könnte man fragen: Gilt das auch für Epochenwenden? Sind die auch hinzunehmen wiewiederkehrende Feiertage, Grippewellen oder unerwartete Naturkatastrophen? Dass die Covid-19-Pandemie schon jetzt in ganz unterschiedlichen Zusammenhängen als Epochenwende verstanden wird, merkt man nicht nur an der Häufung des vordem eher vermiedenen Epochenbegriffs, sondern auch am Gebrauch der Formel 'vor und nach Corona' - obwohl doch ein Ende der Pandemie derzeit nicht in Sicht ist und deshalb auch und gerade Feste nicht wie üblich begangen werden können (oder sollten).
Our primary objective is to construct a plausible, unified model of inflation, dark energy and dark matter from a fundamental Lagrangian action first principle, wherein all fundamental ingredients are systematically dynamically generated starting from a very simple model of modified gravity interacting with a single scalar field employing the formalism of non-Riemannian spacetime volume-elements. The non-Riemannian volume element in the initial scalar field action leads to a hidden, nonlinear Noether symmetry which produces an energy-momentum tensor identified as the sum of a dynamically generated cosmological constant and dust-like dark matter. The non-Riemannian volume-element in the initial Einstein–Hilbert action upon passage to the physical Einstein-frame creates, dynamically, a second scalar field with a non-trivial inflationary potential and with an additional interaction with the dynamically generated dark matter. The resulting Einstein-frame action describes a fully dynamically generated inflationary model coupled to dark matter. Numerical results for observables such as the scalar power spectral index and the tensor-to-scalar ratio conform to the latest 2018 PLANCK data.
The Culex pipiens complex encompasses five species and subspecies of the genus Culex. Over time, a multitude of morphologically indistinguishable species has been assigned to this complex with several species being classified as important vectors for different diseases. Some species of this complex hibernate in subterranean habitats, and it has been proven that viruses can survive this phase of hibernation. However, studies focusing on the environmental requirements, ecology and spatial and temporal distribution patterns of mosquitos in underground habitats are sparse. Here, we investigate the main environmental factors and dependencies of Culex, considering the number of individuals and survival probabilities in underground habitats during the winter months. Methods. Since the State of Hesse, Germany harbors about 3500 to 4000 subterranean shelters ample availability of subterranean habitats there provides a good opportunity to conduct detailed investigations of the Culex pipiens complex. In this study, we identified a sample of 727 specimens of overwintering females within the Culex pipiens complex from 52 different underground sites collected over a period of 23 years using qPCR. A complete data set of samplings of hibernating mosquitos from 698 subterranean habitats in Central Germany over the same period was available to study the spatial and temporal patterns and the effect of temperature and precipitation conditions on these hibernating populations using a generalized linear model (GLM). Results. Our qPCR-results show, similar to aboveground studies of mosquitos, that Culex pipiens pipiens and Culex torrentium occur sympatrically. On the other hand, Culex pipiens molestus occurred very rarely. The GLM revealed no shifts in species composition over time, but different preferences for subterranean hibernacula, chemical effects on overwintering populations as well as effects of annual and seasonal mean temperature and precipitation during the active phase from March to November. Cx. p. pipiens and Cx. torrentium are the most common species within Hessian caves and other underground habitats during winter. They co-occur with different frequency without any patterns in species composition. Weather conditions influence the number of overwintering mosquitos during the activity phase. Depending on cave parameters, the number of mosquitos decreases during the winter months.
Maintaining biodiversity and ecosystem function is critical on national and global scales. However, while only a fraction of the global biodiversity is known, its current decline is unprecedented, making biodiversity hotspots a conservation priority. The Sierra Gorda Biodiversity Reserve (SGBR) in Central Mexico is known for its rich biodiversity. It is an example of the juxtaposition between species discovery and extinction: aquatic species richness is mostly unknown as no efforts have investigated aquatic communities so far, but are already anthropogenically stressed. We hypothesized that invasive species are already well established in various protected areas and investigated this by assessing the threat of invasive species that are already established within the SGBR on the native biodiversity. By combining field sampling with peer-reviewed literature and local reports, we identify the presence of various non-native species in SGBR. Among these non-native species identified were opportunistic predatory fish and potentially-pathogen transmitting molluscs, but also, a habitat engineer capable of modifying ecosystem functions. Moreover, we highlight that these species were introduced despite legislation and without any knowledge among authorities. As a result, we underline the necessity to describe native species, control invasive and prevent the introduction of further non-native species. If accelerated action is not taken, we risk losing a considerable amount of described and unknown freshwater biota. Keywords: Anthropocene, Biodiversity loss, Freshwater, Invasive species, Mexico, Nature reserve.
In Eurotransplant kidney allocation system (ETKAS), candidates can be considered unlimitedly for repeated re‐transplantation. Data on outcome and benefit are indeterminate. We performed a retrospective 15‐year patient and graft outcome data analysis from 1464 recipients of a third or fourth or higher sequential deceased donor renal transplantation (DDRT) from 42 transplant centers. Repeated re‐DDRT recipients were younger (mean 43.0 vs. 50.2 years) compared to first DDRT recipients. They received grafts with more favorable HLA matches (89.0% vs. 84.5%) but thereby no statistically significant improvement of patient and graft outcome was found as comparatively demonstrated in 1st DDRT. In the multivariate modeling accounting for confounding factors, mortality and graft loss after 3rd and ≥4th DDRT (P < 0.001 each) and death with functioning graft (DwFG) after 3rd DDRT (P = 0.001) were higher as compared to 1st DDRT. The incidence of primary nonfunction (PNF) was also significantly higher in re‐DDRT (12.7%) than in 1st DDRT (7.1%; P < 0.001). Facing organ shortage, increasing waiting time, and considerable mortality on dialysis, we question the current policy of repeated re‐DDRT. The data from this survey propose better HLA matching in first DDRT and second DDRT and careful selection of candidates, especially for ≥4th DDRT.
Chronische pulmonale Infektionen mit Pseudomonas aeruginosa (PA) betreffen die überwiegende Mehrheit der erwachsenen Mukoviszidose (Cystische Fibrose, CF) Patienten.
Diese Infektionen führen gesichert zu einer Abnahme der Lungenfunktion und Zunahme der Mortalität der Patienten. Atemwegsviren stehen im Verdacht pulmonale Exazerbationen bei CF-Patienten auszulösen. Unklar ist jedoch, welchen Einfluss eine chronische Infektion mit PA auf die Anfälligkeit und Reaktion des Atemwegsepithels auf virale Infektionen hat.
Das Ziel dieser Arbeit war es daher, die Interaktionen zwischen PA, humanen Rhinoviren (HRV) und primären bronchialen Epithelzellen zu untersuchen. Hierfür wurden Zellen von jeweils drei Patienten mit CF und mit Lungenemphysem aus Lungenexplantaten isoliert und in einem speziellen Air- Liquid-Interface Zellkulturmodell zu einem mukoziliär differenzierten mehrreihigen Flimmerepithel kultiviert. Chronische Infektionen wurden mit klinischen PA Isolaten für einen Gesamtzeitraum von 16 Tagen durchgeführt. Anschließend wurden die Zellen mit HRV infiziert. Schlüsselzytokine, Interferone und virale RNA wurden mittels Cytometric bead array, ELISA und qPCR bestimmt.
Rein virale Infektionen mit HRV führten zu einem Anstieg von IL-1, -6, -8, TNF- α, IP10 und IFN-b, IFN-l1 sowie ISGs und in ähnlichem Ausmaß konnte dies auch bei Coinfektionen mit einem mukoiden PA-Isolat beobachtet werden. Coinfektionen mit einem nicht-mukoiden PA-Isolat führten im Vergleich zu rein viralen Infektionen zu vermehrter Expression von IL-1β und IL-6 mRNA. Während es unter diesen Bedingungen auch auf Proteinebene zu einem Anstieg der IL-1β Konzentration kam, lag die Konzentration von freiem IL-6 Protein in nahezu allen Proben unter der Nachweisgrenze. Zellkulturmedium aus Coinfektionen mit diesem nicht-mukoiden PA-Isolat führten zudem zu einem Abbau oder einer Bindung von extern zugegebenen rekombinantem IL-6.
IL-8, IP-10, TNF-α Protein und mRNA von IFN-β, -λ1 und ISGs, sowie die Viruslast waren vergleichbar zwischen rein viralen Infektionen und bakteriell- viralen Coinfektionen. Ebenfalls keine Unterschiede wurden zwischen Zellen von Emphysem und CF-Spendern gefunden. Insgesamt zeigen diese Daten, dass eine PA-Infektion die Antwort differenzierter bronchialer Epithelzellen auf eine Virusinfektion verändern kann. Die hierdurch veränderte Immunantwort und möglicherweise eingeschränkten epithelialen Reparaturmechanismen könnten eine Ursache aggravierter viraler Infektionen in P. aeruginosa-infizierten Atemwegen darstellen.
Ein besseres Verständnis der Interaktionen zwischen chronisch-bakteriellen und viralen Atemwegsinfektionen könnte potenziell die Behandlung virus-induzierter Exazerbationen bei PA-infizierten CF-Patienten verbessern.
The auditory midbrain (inferior colliculus, IC) plays an important role in sound processing, acting as hub for acoustic information extraction and for the implementation of fast audio-motor behaviors. IC neurons are topographically organized according to their sound frequency preference: dorsal IC regions encode low frequencies while ventral areas respond best to high frequencies, a type of sensory map defined as tonotopy. Tonotopic maps have been studied extensively using artificial stimuli (pure tones) but our knowledge of how these maps represent information about sequences of natural, spectro-temporally rich sounds is sparse. We studied this question by conducting simultaneous extracellular recordings across IC depths in awake bats (Carollia perspicillata) that listened to sequences of natural communication and echolocation sounds. The hypothesis was that information about these two types of sound streams is represented at different IC depths since they exhibit large differences in spectral composition, i.e., echolocation covers the high-frequency portion of the bat soundscape (> 45 kHz), while communication sounds are broadband and carry most power at low frequencies (20–25 kHz). Our results showed that mutual information between neuronal responses and acoustic stimuli, as well as response redundancy in pairs of neurons recorded simultaneously, increase exponentially with IC depth. The latter occurs regardless of the sound type presented to the bats (echolocation or communication). Taken together, our results indicate the existence of mutual information and redundancy maps at the midbrain level whose response cannot be predicted based on the frequency composition of natural sounds and classic neuronal tuning curves.
Measurement of inclusive charged-particle jet production in Au + Au collisions at √sNN=200 GeV
(2020)
The STAR Collaboration at the Relativistic Heavy Ion Collider reports the first measurement of inclusive jet production in peripheral and central Au+Au collisions at √𝑠𝑁𝑁=200 GeV. Jets are reconstructed with the anti-𝑘𝑇 algorithm using charged tracks with pseudorapidity |𝜂|<1.0 and transverse momentum 0.2<𝑝ch
𝑇,jet<30 GeV/𝑐, with jet resolution parameter 𝑅=0.2, 0.3, and 0.4. The large background yield uncorrelated with the jet signal is observed to be dominated by statistical phase space, consistent with a previous coincidence measurement. This background is suppressed by requiring a high-transverse-momentum (high-𝑝𝑇) leading hadron in accepted jet candidates. The bias imposed by this requirement is assessed, and the 𝑝𝑇 region in which the bias is small is identified. Inclusive charged-particle jet distributions are reported in peripheral and central Au+Au collisions for 5<𝑝ch
𝑇,jet<25 GeV/𝑐 and 5<𝑝ch
𝑇,jet<30 GeV/𝑐, respectively. The charged-particle jet inclusive yield is suppressed for central Au+Au collisions, compared to both the peripheral Au+Au yield from this measurement and to the 𝑝𝑝 yield calculated using the PYTHIA event generator. The magnitude of the suppression is consistent with that of inclusive hadron production at high 𝑝𝑇 and that of semi-inclusive recoil jet yield when expressed in terms of energy loss due to medium-induced energy transport. Comparison of inclusive charged-particle jet yields for different values of 𝑅 exhibits no significant evidence for medium-induced broadening of the transverse jet profile for 𝑅 <0.4 in central Au+Au collisions. The measured distributions are consistent with theoretical model calculations that incorporate jet quenching.
Die Besonderheiten der Gutachtenkultur verdanken sich demselben Umstand: Das geisteswissenschaftliche Gutachten ist in all seinen Varianten, vom Referenzschreiben für eine Person (im Englischen 'letter of recommendation') bis zum anonymen Gutachten eines Verbundprojektes, stets ein Hybrid aus Patronage und Sachverständigen- bzw. Expertenmeinung. Dabei gibt es auf Sender- und Empfängerseite unausgesprochene Erwartungshaltungen, Usancen und Codes, die die Vergleichbarkeit von Gutachten so sichern sollen, dass sie eine Entscheidungshilfe darstellen.
Hölderlin und Hegel heute
(2020)
Die Wege des Dichters und des Philosophen, die sich in revolutionären Zeiten im Tübinger Stift kennengelernt hatten, waren verschieden und doch vielfältig verbunden. Immer wieder und besonders häufig in diesem doppelten Jubiläumsjahr 2020 sind die Dioskuren des deutschen Idealismus Gegenstand der Betrachtung und Bewunderung gewesen. [...] Am 9. Dezember 2020 wollen wir uns unter dem Titel "Hölderlin und Hegel heute" den Werken dieser beiden Schwaben jedoch vor allem unter der Fragestellung nähern, was diese denn mit uns heute noch oder wieder zu tun haben könnten.
Marie Holzman, 1922–1941
(2020)
Marie Holzman, geboren am 22. April 1922 in Jena, war die ältere Tochter des seit 1922/23 in Kaunas (Litauen) ansässigen Gründers und Inhabers der Verlagsbuchhandlung Pribačis Max Holzman (1889–1941) sowie der aus Jena stammenden Malerin und Kunsterzieherin Helene Czapski-Holzman (1891–1961). Nach dem deutschen Überfall auf die Sowjetunion wurde sie am 29. Oktober 1941 in Kaunas ermordet. Ihre Mutter hat zwei von ihrer Tochter aus dem Litauischen übersetzte Erzählungen bewahrt. Unlängst gelangten die beiden Manuskripte ans Exilarchiv der DNB in Frankfurt/M.
First, we propose a scale-invariant modified gravity interacting with a neutral scalar inflaton and a Higgs-like SU(2)×U(1) iso-doublet scalar field based on the formalism of non-Riemannian (metric-independent) spacetime volume-elements. This model describes, in the physical Einstein frame, a quintessential inflationary scenario driven by the “inflaton” together with the gravity-“inflaton” assisted dynamical spontaneous SU(2)×U(1) symmetry breaking in the post-inflationary universe, whereas the SU(2)×U(1) symmetry remains intact in the inflationary epoch. Next, we find the explicit representation of the latter quintessential inflationary model with a dynamical Higgs effect as an Eddington-type purely affine gravity.
Background: More than 170 species of tabanids are known in Europe, with many occurring only in limited areas or having become very rare in the last decades. They continue to spread various diseases in animals and are responsible for livestock losses in developing countries. The current monitoring and recording of horseflies is mainly conducted throughout central Europe, with varying degrees of frequency depending on the country. To the detriment of tabanid research, little cooperation exists between western European and Eurasian countries.
Methods: For these reasons, we have compiled available sources in order to generate as complete a dataset as possible of six horsefly species common in Europe. We chose Haematopota pluvialis, Chrysops relictus, C. caecutiens, Tabanus bromius, T. bovinus and T. sudeticus as ubiquitous and abundant species within Europe. The aim of this study is to estimate the distribution, land cover usage and niches of these species. We used a surface-range envelope (SRE) model in accordance with our hypothesis of an underestimated distribution based on Eurocentric monitoring regimes.
Results: Our results show that all six species have a wide range in Eurasia, have a broad climatic niche and can therefore be considered as widespread generalists. Areas with modelled habitat suitability cover the observed distribution and go far beyond these. This supports our assumption that the current state of tabanid monitoring and the recorded distribution significantly underestimates the actual distribution. Our results show that the species can withstand extreme weather and climatic conditions and can be found in areas with only a few frost-free months per year. Additionally, our results reveal that species prefer certain land-cover environments and avoid other land-cover types.
Conclusions: The SRE model is an effective tool to calculate the distribution of species that are well monitored in some areas but poorly in others. Our results support the hypothesis that the available distribution data underestimate the actual distribution of the surveyed species.
Healthy and degenerating intervertebral discs (IVDs) are innervated by sympathetic nerves, however, adrenoceptor (AR) expression and functionality have never been investigated systematically. Therefore, AR gene expression was analyzed in both tissue and isolated cells from degenerated human IVDs. Furthermore, human IVD samples and spine sections of wildtype mice (WT) and of a mouse line that develops spontaneous IVD degeneration (IVDD, in SM/J mice) were stained for ARs and extracellular matrix (ECM) components. In IVD homogenates and cells α1a-, α1b-, α2a-, α2b-, α2c-, β1-, and β2-AR genes were expressed. In human sections, β2-AR was detectable, and its localization parallels with ECM alterations. Similarly, in IVDs of WT mice, only β2-AR was expressed, and in IVDs of SM/J mice, β2AR expression was stronger accompanied by increased collagen II, collagen XII, decorin as well as decreased cartilage oligomeric matrix protein expression. In addition, norepinephrine stimulation of isolated human IVD cells induced intracellular signaling via ERK1/2 and PKA. For the first time, the existence and functionality of ARs were demonstrated in IVD tissue samples, suggesting that the sympathicus might play a role in IVDD. Further studies will address relevant cellular mechanisms and thereby help to develop novel therapeutic options for IVDD.
Historic amphibian settlements in the northwestern Nile delta - a geoarchaeological perspective
(2020)
No concise picture of the archaeological and palaeoecological evolution can be drawn for the northwestern Nile delta, and archaeological records show significant population dynamics that still need explanation and spur the need for further palaeoenvironmental research. This study delivers a set of new methods especially in the fields of remote sensing and data analytics that can be regarded as important milestones and foundations for further palaeoenvironmental research in the area. Additionally, it shows new insights for individual time slices.
This geoarchaeological project is a cooperation with the archaeological excavations of the German Archaeological Institute (DAI) in Buto and Kom el’Gir. It expands the work of Wunderlich (1989) which laid important foundations in understanding the origin of the initial landscape that was later colonized in different cultural stages showing different dynamics, settlement intensities and even long phases of abandonment or breaks in between. This forms the starting point for relating the population dynamics of the different cultural phases reaching from Predynastic (prior to 3150 before Christ) up to the Greco-Roman era (~anno Domini 650) to the environmental history and events that occurred in the area. It is very likely that environmental changes such as the shifting of major water routes, inundation or paludification of larger areas or other environmental events affected settlements and human life in the area.
In the fields of remote sensing new methods are presented to complete information on the location of ancient settlements, and complex workflows are developed that allow the tracing of subsurface structures via indirect analysis of vegetation growth in larger time series data. It was verified that a relationship exists between vegetation performance, the appearance of archaeologic material in the topsoil, and the location of former Nile river branches.
Together with a new high resolution digital elevation model (DEM) based on TanDEM-X data, new interpretations with a high spatial significance are possible. For individual time slices, namely the Late Dynastic and Greco-Roman era, this work delivers a detailed landscape description suggesting a finely ramified subdelta, with all settlements placed on alluvial levees. This explains the massive increase in settlements in the Ptolemaic, Roman and in particular late Roman periods (4th century before Christ – anno Domini 7th century).
We sampled the Nile delta clays together with the channels and the material of the archaeologic excavations in vibracores and profile walls. This geologic inspection of the subsurface together with geochemical results from a handheld portable X-ray fluorescence device (pXRF) allowed new interpretations of the landscape and environmental history. For example, we used geochemical data to distinguish between artificial and natural channels as a measure for the anthropogenic influence, a proxy for past environmental characteristics and lastly as a basis for a new dating method. Many of the channels, for instance, were dated by our own 14C datings, comparisons with the previous work ofWunderlich (1989) and application of new dating approach based on machine learning with artificial neural networks. Additionally, we run a full methodological approach, and examine the applicability of pXRF methods in general, and test the quality of the data to detect distinct geochemical differences between the main settlement phases with advanced methods in data analytics. The dating is based, for example, on the training of artificial neural networks with pXRF data from archaeological material of well-dated context to date test data of cultural layers within the vibracores. With this method the homogeneous Nile alluvium, cultural layers and channels can be dated roughly and, as a result, fundamental changes in the landscape can be linked with the settlement history of Buto and neighboring tells.
Inappropriate land management leads to soil loss with destruction of the land’s resource and sediment input into the receiving river. Part of the sediment budget of a catchment is the estimation of soil loss. In the Ruzizi catchment in the Eastern Democratic Republic of the Congo (DRC), only limited research has been conducted on soil loss mainly dealing with local observations on geomorphological forms or river load measurements; a regional quantification of soil loss is missing so far. Such quantifications can be calculated using the Universal Soil Loss Equation (USLE). It is composed of four factors: precipitation (R), soil (K), topography (LS), and vegetation cover (C). The factors can be calculated in different ways according to the characteristics of the study area. In this paper, different approaches for calculating the single factors are reviewed and validated with field work in two sub-catchments of Ruzizi River supplying the water for the reservoirs of Ruzizi I and II hydroelectric dams. It became obvious that the (R)USLE model provides the best results with revised R and LS factors. C factor calculations required to conduct a supervised classification using the Maximum Likelihood Procedure. Different C factor values were assigned to the land cover classes. The calculations resulted in a soil loss rate for the predominantly occurring Ferralsols and Leptosols of around 576 kt/yr in both catchments, when 2016 landcover and precipitation are used. This represents an area-normalized value of 40.4 t/ha/yr for Ruzizi I and 50.5 t/ha/yr for Ruzizi II due to different landcover in the two sub-catchments. The mean value for the whole study area is 47.8 t/ha/yr or even 27.1 t/ha/yr when considering land management techniques like terracing on the slopes (P factor). This work has shown that the (R)USLE model can serve as an easy to handle tool for soil loss quantification when comprehensive field work results are sparse. The model can be implemented in Geographic Information Systems (GIS) with free data; hence, a validation is crucial. It becomes apparent that the use of high resolution Sentinel 2a MSI data as the basis for C factor calculations is an appropriate method for considering heterogeneous Land Use Land Cover (LULC) patterns. To transfer the approach to other regions, the calculation of factor R needs to be modified
During the 2016-17 and 2018-19 running periods, the BESIII experiment collected 7.5~fb−1 of e+e− collision data at center-of-mass energies ranging from 4.13 to 4.44~GeV. These data samples are primarily used for the study of excited charmonium and charmoniumlike states. By analyzing the di-muon process e+e−→(γISR/FSR)μ+μ−, we measure the center-of-mass energies of the data samples with a precision of 0.6 MeV. Through a run-by-run study, we find that the center-of-mass energies were stable throughout most of the data-taking period.
There has recently been a dramatic renewal of interest in hadron spectroscopy and charm physics. This renaissance has been driven in part by the discovery of a plethora of charmonium-like XYZ states at BESIII and B factories, and the observation of an intriguing proton-antiproton threshold enhancement and the possibly related X(1835) meson state at BESIII, as well as the threshold measurements of charm mesons and charm baryons.
We present a detailed survey of the important topics in tau-charm physics and hadron physics that can be further explored at BESIII during the remaining operation period of BEPCII. This survey will help in the optimization of the data-taking plan over the coming years, and provides physics motivation for the possible upgrade of BEPCII to higher luminosity.
Using 2.93 fb−1 of 𝑒+𝑒− annihilation data collected at a center-of-mass energy √𝑠=3.773 GeV with the BESIII detector operating at the BEPCII collider, we search for the semileptonic 𝐷0(+) decays into a 𝑏1(1235)−(0) axial-vector meson for the first time. No significant signal is observed for either charge combination. The upper limits on the product branching fractions are ℬ𝐷0→𝑏1(1235)−𝑒+𝜈𝑒·ℬ𝑏1(1235) −→ 𝜔𝜋−<1.12×10−4 and ℬ𝐷+→𝑏1(1235)0𝑒+𝜈𝑒·ℬ𝑏1(1235)0→𝜔𝜋0<1.75×10−4 at the 90% confidence level.
We report an amplitude analysis and branching fraction measurement of D+s→K+K−π+ decay using a data sample of 3.19 fb−1 recorded with BESIII detector at a center-of-mass energy of 4.178 GeV.
We perform a model-independent partial wave analysis in the low K+K− mass region to determine the K+K− S-wave lineshape, followed by an amplitude analysis of our very pure high-statistics sample.
The amplitude analysis provides an accurate determination of the detection efficiency allowing us to measure the branching fraction B(D+s→K+K−π+)=(5.47±0.08stat±0.13sys)%.
Guanosine triphosphate (GTP) cyclohydrolase I (GCH1) catalyzes the conversion of GTP to dihydroneopterin triphosphate (H2NTP), the initiating step in the biosynthesis of tetrahydrobiopterin (BH4). Besides other roles, BH4 functions as cofactor in neurotransmitter biosynthesis. The BH4 biosynthetic pathway and GCH1 have been identified as promising targets to treat pain disorders in patients. The function of mammalian GCH1s is regulated by a metabolic sensing mechanism involving a regulator protein, GCH1 feedback regulatory protein (GFRP). GFRP binds to GCH1 to form inhibited or activated complexes dependent on availability of cofactor ligands, BH4 and phenylalanine, respectively. We determined high-resolution structures of human GCH1−GFRP complexes by cryoelectron microscopy (cryo-EM). Cryo-EM revealed structural flexibility of specific and relevant surface lining loops, which previously was not detected by X-ray crystallography due to crystal packing effects. Further, we studied allosteric regulation of isolated GCH1 by X-ray crystallography. Using the combined structural information, we are able to obtain a comprehensive picture of the mechanism of allosteric regulation. Local rearrangements in the allosteric pocket upon BH4 binding result in drastic changes in the quaternary structure of the enzyme, leading to a more compact, tense form of the inhibited protein, and translocate to the active site, leading to an open, more flexible structure of its surroundings. Inhibition of the enzymatic activity is not a result of hindrance of substrate binding, but rather a consequence of accelerated substrate binding kinetics as shown by saturation transfer difference NMR (STD-NMR) and site-directed mutagenesis. We propose a dissociation rate controlled mechanism of allosteric, noncompetitive inhibition.
Selectivity remains a challenge for ATP-mimetic kinase inhibitors, an issue that may be overcome by targeting unique residues or binding pockets. However, to date only few strategies have been developed. Here we identify that bulky residues located N-terminal to the DFG motif (DFG-1) represent an opportunity for designing highly selective inhibitors with unexpected binding modes. We demonstrate that several diverse inhibitors exerted selective, non-canonical binding modes that exclusively target large hydrophobic DFG-1 residues present in many kinases including PIM, CK1, DAPK and CLK. Using the CLK family as a model, structural and biochemical data revealed that the DFG-1 valine controlled a non-canonical binding mode in CLK1, providing a rational for selectivity over the closely-related CLK3 which harbors a smaller DFG-1 alanine. Our data suggests that targeting the restricted back pocket in the small fraction of kinases that harbor bulky DFG-1 residues offers a versatile selectivity filter for inhibitor design.
We report a study of the processes of e+e−→K+(D−sD∗0+D∗−sD0) based on e+e− annihilation samples collected with the BESIII detector operating at BEPCII at five center-of-mass energies ranging from 4.628 to 4.698 GeV with a total integrated luminosity of 3.7 fb−1. An excess over the known contributions of the conventional charmed mesons is observed near the D−sD∗0 and D∗−sD0 mass thresholds in the K+ recoil-mass spectrum for events collected at s√=4.681 GeV. The structure matches a mass-dependent-width Breit-Wigner line shape, whose pole mass and width are determined as (3982.5+1.8−2.6±2.1) MeV/c2 and (12.8+5.3−4.4±3.0) MeV, respectively. The first uncertainties are statistical and the second are systematic. The significance of the resonance hypothesis is estimated to be 5.3 σ over the pure contributions from the conventional charmed mesons. This is the first candidate of the charged hidden-charm tetraquark with strangeness, decaying into D−sD∗0 and D∗−sD0. However, the genuine properties of the excess need further exploration with more statistics.
In the context of workplace health promotion, physical activity programs have been shown to reduce musculoskeletal diseases and stress, and to improve the quality of life. The aim of this study was to examine the effects of using the “five-Business” stretch training device for office workers on their quality of life. A total of 313 office workers (173m/137f) participated voluntarily in this intervention–control study with an average age of 43.37 ± 11.24 (SD) years, 175.37 ± 9.35 cm in height and 75.76 ± 15.23 kg in weight, with an average BMI of 24.5 ± 3.81 kg/m2. The participants completed the stretch training twice a week for approximately 10 minutes for a duration of 12 weeks. The SF-36 questionnaire was used to evaluate the effectiveness of the intervention at baseline and after 12 weeks. Significantly improved outcomes in mental sum score (p = 0.008), physical functioning (p < 0.001), bodily pain (p = 0.01), vitality (p = 0.025), role limitations due to physical problems (p = 0.018) and mental health (p = 0.012) were shown after the stretching training. The results suggest that a 12-week stretching program for office desk workers is suitable to improve significantly their health-related quality of life.
The occupation of dental assistants (DAs) involves many health risks of the musculoskeletal system due to static and prolonged work, which can lead to musculoskeletal disorders (MSDs). The aim of the study was to investigate the prevalence of MSDs in DAs in Germany. Methods: For this purpose, an online questionnaire analyzed 406 (401 female participants and 5 male participants, 401w/5m) DAs. It was based on the Nordic Questionnaire (lifetime, 12-month, and seven-day MSDs’ prevalence separated into neck, shoulder, elbow, wrist, upper back, lower back, hip, knee, and ankle), and occupational and sociodemographic questions as well as questions about specific medical conditions. Results: 98.5% of the participants reported complaints of at least one body region in their lives, 97.5% reported at least one complaint in the last 12 months and 86.9% affirmed at least one complaint in the last seven days. For lifetime, 12-month and seven-day prevalence, the neck was the region that was most affected followed by the shoulder, the upper back and the lower back. Conclusion: The prevalence of MSDs among German (female) DAs was very high. The most affected area is the neck, followed by the shoulder, the lower back, and the upper back. It, therefore, seems necessary to devote more attention to ergonomics at the working practice of DAs as well in education and in dental work.
Background: Musculoskeletal disorders (MSD) are common among dental professionals. The most common areas affected are the trunk, neck, shoulders and wrists. Current evidence suggests that the causes of MSD can be found in the physical demands of the profession. Posture and movement during treatment is influenced by the arrangement of the treatment concept (patient chair, equipment and cabinets). It has not been investigated whether the ergonomic risk differs between the treatment concepts.
Methods: To evaluate the prevalence of MSD in dental professionals, 1000 responses will be collected from a nationwide (Germany) online questionnaire (mod. Nordic Questionnaire and mod. Meyer questionnaire). In order to assess the ergonomic risk of the treatment techniques used in the four treatment concepts, 3D movement analyses are carried out with inertial sensors. For this purpose, 20 teams of dentists and dental assistants from four dental fields of specializations (generalists, orthodontists, endodontists and oral surgeons) and a student control group will be recruited. Each team will execute field specific standardized treatments at a dummy head. Measurements are carried out in each of the four treatment concepts. The data will be analyzed using the Rapid Upper Limb Assessment (RULA) which will be modified for the evaluation of objective data.
Conclusions: On the basis of these investigations, a substantial gain of knowledge regarding work-related MSD in the field of dentistry and its potential biomechanical causes is possible. For the first time, objective and differentiated comparisons between the four treatment concepts are possible for different fields of dental specialization. Up to now, statically held positions of the trunk and proximal upper extremities, but also the repetitive movements of the hands have been considered a risk for MSD. Since both are included in the RULA, dental activities can be assessed in a detailed but also global manner with regard to ergonomic risks.
Zur ergonomischen Beurteilung von Arbeitsplätzen werden „ergonomic risk assessment tools“ (ERAT) verwendet. Mithilfe dieser kann die körperliche Belastung evaluiert und hinsichtlich eines biomechanischen Überlastungsrisikos bewertet werden. Dazu gehören neben Eigenangaben auch observatorische Methoden, deren Ergebnisse in Punktwerten („Scores“) zusammengefasst werden, wie z. B. die RULAMethode („rapid upper limb assessment“). Durch die technische Weiterentwicklung direkter Messmethoden können inertiale Motion-Capture-Systeme im 21. Jahrhundert präzise und kontinuierliche objektive Daten liefern. In einem neuen Ansatz wurde die observatorische Scoring-Methode RULA modifiziert und auf die digital erhobenen Daten angewendet, was differenzierte ergonomische Betrachtungen ganzer Arbeitsabläufe ermöglicht.
The dodecin of Mycobacterium tuberculosis : biological function and biotechnical applications
(2020)
Biological Function of Bacterial Dodecins
In this thesis, the dodecins of Mycobacterium tuberculosis (MtDod), Streptomyces coelicolor (ScDod) and Streptomyces davaonensis (SdDod) were studied. Kinetic measurements of the flavin binding of MtDod revealed that the dodecin binding pocket is filled in two distinct steps, for which a kinetic model then was established and verified by experimental data. The analysis with the two-step model showed that the unique binding pocket of dodecins allows them to bind excessive amounts of flavins, while at low flavin concentrations, flavin is released and only weakly bound. This function of flavin buffering prevents accumulation of free oxidised flavins and therefore helps to keep the redox balance of the cell and prevents potential cell damage caused by excessive free flavins. To further gain insights into the role of bacterial dodecins, the effect of knocking out the dodecin encoding gene in S. davaonensis was analysed. The knockout strain showed increased concentrations of various stress related metabolites, indicating that without dodecin the cellular balance is disrupted, which supports the role of dodecins as a flavin homeostasis factor.
With a self-designed affinity measurement method based on the temperature dependent dissociation of the dodecin:flavin complex, which allowed parallel screening of multiple conditions, it was shown that MtDod, ScDod and SdDod have much higher affinities towards FMN and FAD under acidic conditions. Under these conditions, the three dodecins might function as a FMN storage. M. tuberculosis encounters multiple acidic environments during its infection cycle of humans and can adopt a state of dormancy. During recovery from the dormant state, a flavin storage might be beneficial. For some Streptomyces species it was reported that the formed spores are slightly acidic and therefore ScDod and SdDod could function as flavin storages for the spores. Further details on the flavin binding mechanism of MtDod were revealed by a mutagenesis study, identifying the importance of a histidine residue at the fourth position of the protein sequence for flavin binding, but contrary to expectations, this residue seems only to be partly involved in the pH related affinity shift.
The data, reported in this thesis, demonstrates that bacterial dodecins likely function as flavin homeostasis factors, which allow overall higher flavin pools in the cell without disrupting the cellular balance. Further, the reported acid-dependent increase in binding affinity suggests that under certain conditions bacterial dodecins can also function as a flavin storage system.
Application of the Dodecin of M. tuberculosis
In this thesis, the stability of MtDod, ScDod SdDod and HsDod was analysed to find a suitable dodecin for the use as a carrier/scaffold. Therefore, a method to easily measure the stability of dodecins was designed, which measures the ability of the dodecamer to rebind flavins after a heating phase with stepwise increasing temperatures. Using this assay and testing the stability against detergents by SDS PAGE, showed that the dodecamer of MtDod possesses an excellent stability against a vast array of conditions, like temperatures above 95 °C, low pH and about 2% SDS. By solving the crystal structure of ScDod and SdDod, the latter forming a less stable dodecamer, combined with a mutagenesis study, the importance of a specific salt bridge for dodecamer stability was revealed and might be helpful to find further highly stable dodecins.
In addition to the intrinsic high stability of the MtDod dodecamer, also the robustness of the fold was tested by creating diverse MtDod fusion constructs and producing them in Escherichia coli. Here it was shown that MtDod easily tolerates the attachment of proteins up to 4-times of its own size and that both termini can be modified without affecting the dodecamer noticeably. Further, it was shown that MtDod and many MtDod fusion constructs could be purified in high yields via a protocol based on the removal of E. coli proteins through heat denaturation and subsequent centrifugation. In a case study, by fusing diverse antigens from mostly human proteins to MtDod and using these constructs to produce antibodies in rabbits, it was demonstrated that MtDod is immunogenic and presents the attached antigens to the immune system.
The here reported properties of MtDod and to a lesser degree of other bacterial dodecins, show that bacterial dodecins are a valuable addition to the pool of scaffold and carrier proteins and have great potential as antigen carriers.
This manuscript-based thesis is divided into four chapters. Chapter one is an introduction to lichens and the Antarctic. It introduces the goal of the thesis and the problems related with lichen systematics and the lack of knowledge about Antarctic lichens. The Antarctic is one of the last wildernesses, isolated from the other continents by the Antarctic Circumpolar Current, the Subantarctic Front, the Antarctic Polar Front, and the Drake Passage. Terrestrial life in Antarctica is restricted to widely separated and small ice-free areas that cover only 0.3% of the continent. Colonization of the Antarctic is a challenge for many taxa and is related to their ability for long-range dispersal and their adaptation to the harsh climate. Antarctic terrestrial ecosystems are significantly threatened by climate change, invasive species, and their interactions. Glacial retreat caused by higher than average temperatures exposes new habitats that can be easily colonized from local biota, but non-native species can also be favored by the new climatic conditions. In addition, propagule movement mediated by humans can introduce new species or change the population structure of many taxa. The terrestrial biota is comprised almost exclusively by “lower organisms” (invertebrates, bryophytes, algae, lichenized fungi, and microorganisms). Lichens are the dominant component, and the most important primary producers. Lichens are symbiotic associations consisting of a fungus (mycobiont) and one or more photosynthetic (photobiont) partners. They can disperse sexually or vegetatively. There are several problems related to the symbiotic nature of lichens that do not facilitate easy identification; although molecular data offers additional evidence, species delimitation in lichens is still not straightforward. The true number of species is underestimated due to the presence of cryptic species and species pairs. Recommended universal fungal barcode sequences (e. g. ITS) sometimes fail to delimit species pairs. Thus, it is necessary to identify fast-evolving markers that allow for the delimitation of closely related species before proceeding with the analysis of lichen populations. The goal of this thesis is to elucidate the so far unknown genetic structure among Antarctic lichen populations because of the immediate consequences for conservation strategies. The thesis focuses not only on patterns of differentiation and gene flow, but also investigates the question of human-mediated propagule transfer into Antarctica and among Antarctic sites. This project provides data on the genetic structure of Antarctic lichens that is urgently needed to develop conservation strategies in the face of global warming and increased human activities in the region. Due to the fact that it is not possible to apply all of the unspecific fingerprinting methods to lichens, microsatellites or simple sequence repeats (SSRs) are one of the best tools to investigate the genetic structure of lichen populations. SSRs offer the possibility to discriminate the lichen partners, but species-specific microsatellites have been developed for only a few species. Regarding the Antarctic, only one species has been studied with SSRs.
The second chapter describes new methods and tools to delimit closely related species of lichens and provides fast evolving markers to characterize their genetic structure. The chapter introduces the lichen species analysed in this thesis and the problems related to their correct identification by morphological methods and molecular data. Chapter two explains the sampling methods for lichen populations and the localities from small areas in which the species pairs occur together. Then the methods used to generate and validate fungal specific microsatellites that cross-amplify species pairs are described. This chapter focuses on the species pair Usnea antarctica and U. aurantiacoatra because they are the most common lichens in the Maritime Antarctic. An internal transcribed spacer (ITS) marker do not discriminate between these species, and some authors have suggested to synonymize them. Unpublished results from another Antarctic species pair, Placopsis antarctica and P. contortuplicata, are included to confirm the capability of SSRs to discriminate closely related lichen species. This thesis is the first study to generate SSRs that cross amplify species pairs, using BLAST to compare one genome against the other to obtain markers with the same length in flanking regions. The de novo developed SSRs are able to discriminate the two closely related species, and can detect variability at the population level. In the end of the chapter, ITS sequences, microsatellites, and SNPs are used to delimit the species of Usnea antarctica and U. aurantiacoatra. The chapter exposes the importance of a correct species delimitation and the ability of SSRs and SNPs to delimit the Antarctic Usnea species pair compared with the recommended universal fungal barcode sequence ITS. ...
The β-carboline alkaloid harmine is a potent DYRK1A inhibitor, but suffers from undesired potent inhibition of MAO-A, which strongly limits its application. We synthesized more than 60 analogues of harmine, either by direct modification of the alkaloid or by de novo synthesis of β-carboline and related scaffolds aimed at learning about structure-activity relationships for inhibition of both DYRK1A and MAO-A, with the ultimate goal of separating desired DYRK1A inhibition from undesired MAO-A inhibition. Based on evidence from published crystal structures of harmine bound to each of these enzymes, we performed systematic structure modifications of harmine yielding DYRK1A-selective inhibitors characterized by small polar substituents at N-9 (which preserve DYRK1A inhibition and eliminate MAO-A inhibition) and beneficial residues at C-1 (methyl or chlorine). The top compound AnnH75 remains a potent DYRK1A inhibitor, and it is devoid of MAO-A inhibition. Its binding mode to DYRK1A was elucidated by crystal structure analysis, and docking experiments provided additional insights for this attractive series of DYRK1A and MAO-A inhibitors.
Characterization of a dual BET/HDAC inhibitor for treatment of pancreatic ductal adenocarcinoma
(2020)
Pancreatic ductal adenocarcinoma (PDAC) is resistant to virtually all chemo‐ and targeted therapeutic approaches. Epigenetic regulators represent a novel class of drug targets. Among them, BET and HDAC proteins are central regulators of chromatin structure and transcription, and preclinical evidence suggests effectiveness of combined BET and HDAC inhibition in PDAC. Here, we describe that TW9, a newly generated adduct of the BET inhibitor (+)‐JQ1 and class I HDAC inhibitor CI994, is a potent dual inhibitor simultaneously targeting BET and HDAC proteins. TW9 has a similar affinity to BRD4 bromodomains as (+)‐JQ1 and shares a conserved binding mode, but is significantly more active in inhibiting HDAC1 compared to the parental HDAC inhibitor CI994. TW9 was more potent in inhibiting tumor cell proliferation compared to (+)‐JQ1, CI994 alone or combined treatment of both inhibitors. Sequential administration of gemcitabine and TW9 showed additional synergistic antitumor effects. Microarray analysis revealed that dysregulation of a FOSL1‐directed transcriptional program contributed to the antitumor effects of TW9. Our results demonstrate the potential of a dual chromatin‐targeting strategy in the treatment of PDAC and provide a rationale for further development of multitarget inhibitors.
Extracellular signal-regulated kinase 3 (ERK3), known also as mitogen-activated protein kinase 6 (MAPK6), is an atypical member of MAPK kinase family, which has been poorly studied. Little is known regarding its function in biological processes, yet this atypical kinase has been suggested to play important roles in the migration and invasiveness of certain cancers. The lack of tools, such as a selective inhibitor, hampers the study of ERK3 biology. Here, we report the crystal structure of the kinase domain of this atypical MAPK kinase, providing molecular insights into its distinct ATP binding pocket compared to the classical MAPK ERK2, explaining differences in their inhibitor binding properties. Medium-scale small molecule screening identified a number of inhibitors, several of which unexpectedly exhibited remarkably high inhibitory potencies. The crystal structure of CLK1 in complex with CAF052, one of the most potent inhibitors identified for ERK3, revealed typical type-I binding mode of the inhibitor, which by structural comparison could likely be maintained in ERK3. Together with the presented structural insights, these diverse chemical scaffolds displaying both reversible and irreversible modes of action, will serve as a starting point for the development of selective inhibitors for ERK3, which will be beneficial for elucidating the important functions of this understudied kinase.
Unc-51-like kinase 4 (ULK4) is a pseudokinase that has been linked to the development of several diseases. Even though sequence motifs required for ATP binding in kinases are lacking, ULK4 still tightly binds ATP and the presence of the co-factor is required for structural stability of ULK4. Here, we present a high-resolution structure of a ULK4-ATPγS complex revealing a highly unusual ATP binding mode in which the lack of the canonical VAIK motif lysine is compensated by K39, located N-terminal to αC. Evolutionary analysis suggests that degradation of active site motifs in metazoan ULK4 has co-occurred with an ULK4-specific activation loop, which stabilizes the C helix. In addition, cellular interaction studies using BioID and biochemical validation data revealed high confidence interactors of the pseudokinase and armadillo repeat domains. Many of the identified ULK4 interaction partners were centrosomal and tubulin-associated proteins and several active kinases suggesting interesting regulatory roles for ULK4.
The p38α mitogen-activated protein kinase (MAPK) is activated through stress stimuli such as heat shock or hypoxia. In the nucleus, p38α modulates the activity of other kinases and transcription factors, a process that regulates the expression of specific target genes, most importantly pro-inflammatory cytokines. Dysregulation of p38α therefore plays a major role in the development of inflammatory diseases such as rheumatoid arthritis. Despite many years of intensive research, no p38 small-molecule inhibitors have been approved yet. Several inhibitor design strategies have been reported, leading to >100-fold selective compounds for α/β over the γ and δ isoforms. Achieving such a selectivity among the two structurally most related α and β isoforms, however, remains a challenging task. Targeting an inactive DFG-out conformation offers another strategy for the development of potent kinase inhibitors (type-II), exemplified by the BCR/ABL-inhibitor Imatinib. Achieving selectivity with type-II binders is challenging, because many kinases can adopt an inactive DFG-out conformation. This is exemplified by the p38 type-II inhibitor BIRB-796, which exhibits picomolar on-target affinity but only a poor kinome-wide selectivity. A potent and selective type-II chemical probe for p38α/β was still lacking at the start of this thesis.
The promising hit VPC-00628, was chosen for a combinatorial synthetic approach to develop a type-II chemical probe. The studies covered the optimization of the hinge-binding head group, the hydrophobic region I and the DFG-out deep pocket of the lead compound VPC-00628. Selectivity for the p38α and p38β isoforms was monitored during the optimization process, which identified several inhibitors with favorable isoform selectivity, providing valuable insights into the potential of isoform-selective inhibitor design for p38. A potent and highly selective p38 MAPK probe (SR-318) was discovered, which showed IC50 values in the low nanomolar range in HEK293T cells. An unusual P-loop conformation induced upon binding of SR-318 to p38α contributed most likely to the impressive selectivity profile within the kinome that surpassed both the parent compound and BIRB-796. A negative control compound, SR-321, was developed, to distinguish between on-target effects and non-specific effects due to cross-reactivity with other cellular proteins. Studies of the metabolic stability in human liver microsomes revealed a high stability of the compounds, with only a small amount of metabolites formed over several hours. Compound SR-318 also exhibited a good in vitro efficacy, quantitatively reducing the LPS-stimulated TNF-α release in whole blood. Taken together, SR-318 is a highly potent and selective type-II p38α/β chemical probe, which will help to gain a better understanding of the catalytic and non-catalytic functions of these key signaling kinases in physiology and pathology.
The next studies focused on the exploration of the highly dynamic allosteric back pocket of p38 MAPK, and allosteric BIRB-796 derived compounds for targeting the αC- and DFG-out pockets were synthesized. Kinase activities of allosteric pyrazole-urea fragments were analyzed against a comprehensive set of 47 diverse kinases by differential scanning fluorimetry (DSF), revealing that BIRB-796 off-targets remain a problem when targeting this back-pocket binding motif. Revisiting the recently published compound MCP-081, which combines the allosteric part of BIRB-796 with the active-site directed part of VPC-00628, showed that it displays a clean selectivity profile in our kinase panel. Because the potency of MCP-081 was slightly reduced compared with VPC-00628 and the allosteric tert-butyl pyrazole moiety seemed suboptimal, a set of VPC-00628 derivatives for targeting the αC-out pocket region was synthesized. Through structure-guided extension of the terminal amide of VPC-00628 toward this allosteric site, the potent and selective compound SR-43 was developed, which showed excellent cellular activity on p38 MAPK in NanoBRETTM assays (IC50 [p38α/β] = 14.0 ± 0.1/ 16.8 ± 0.1 nM). SR-43 showed a dose-dependent inhibition of activating phosphorylation of p38 in HCT-15 cells as well as inhibition of phosphorylation of p38 downstream substrates MK2 and Hsp27. In addition, SR-43 induced an anti-inflammatory response by blocking TNF-α release in whole blood and displayed a high metabolic stability. Selectivity profiling of SR-43 revealed a narrow selectivity for additional targets such as the discoidin domain receptor kinases (DDR1/2). DDR kinases play a central role in fibrotic disorders, such as renal and pulmonale fibrosis, atherosclerosis and different forms of cancer. Since selective and potent inhibitors for these important therapeutic targets are largely lacking and the existing inhibitors are of low scaffold diversity, the next study focused on the optimization of SR-43 toward DDR1/2 kinase inhibition. The synthetic work covered the optimization of the hinge-binding head group and the allosteric part of SR-43 toward DDR1/2 kinase inhibition. These studies provided novel insights into the P-loop folding process of p38 MAPK and how targeting of non-conserved amino acids affects inhibitor selectivity. Importantly, they led to the development of a selective dual DDR/p38 inhibitor probe, SR-302, with picomolar affinity for DDR2. SR-302 was efficient in vitro and showed a destabilizing effect on the surface adhesion protein E-cadherin in epithelial cells. In summary, SR-302 and its negative control SR-301 provide a valuable tool set for studying the phenotypic effects of DDR1/2 signaling, e.g., in cancer cell lines.
We report an amplitude analysis and branching fraction measurement of D+s→K+K−π+ decay using a data sample of 3.19 fb−1 recorded with BESIII detector at a center-of-mass energy of 4.178 GeV.
We perform a model-independent partial wave analysis in the low K+K− mass region to determine the K+K− S-wave lineshape, followed by an amplitude analysis of our very pure high-statistics sample.
The amplitude analysis provides an accurate determination of the detection efficiency allowing us to measure the branching fraction B(D+s→K+K−π+)=(5.47±0.08stat±0.13sys)%.
The Born cross sections for the process e+e−→η′π+π− at different center-of-mass energies between 2.00 and 3.08~GeV are reported with improved precision from an analysis of data samples collected with the BESIII detector operating at the BEPCII storage ring. An obvious structure is observed in the Born cross section line shape. Fit as a Breit-Wigner resonance, it has a statistical significance of 6.3σ and a mass and width of M=(2108±46±25)~MeV/c2 and Γ=(138±36±30)~MeV, where the uncertainties are statistical and systematic, respectively. These measured resonance parameters agree with the measurements of BABAR in e+e−→η′π+π− and BESIII in e+e−→ωπ0 within two standard deviations.
Ten hadronic final states of the ℎ𝑐 decays are investigated via the process 𝜓(3686)→𝜋0ℎ𝑐, using a data sample of (448.1±2.9)×106 𝜓(3686) events collected with the BESIII detector. The decay channel ℎ𝑐→𝐾+𝐾−𝜋+𝜋−𝜋0 is observed for the first time and has a measured significance of 6.0𝜎. The corresponding branching fraction is determined to be ℬ(ℎ𝑐→𝐾+𝐾−𝜋+𝜋−𝜋0)=(3.3±0.6±0.6)×10−3 (where the uncertainties are statistical and systematic, respectively). Evidence for the decays ℎ𝑐→𝜋+𝜋−𝜋0𝜂 and ℎ𝑐→𝐾0𝑆𝐾±𝜋∓𝜋+𝜋− is found with a significance of 3.6𝜎 and 3.8𝜎, respectively. The corresponding branching fractions (and upper limits) are obtained to be ℬ(ℎ𝑐→𝜋+𝜋−𝜋0𝜂)=(7.2±1.8±1.3)×10−3 (<1.8×10−2) and ℬ(ℎ𝑐→𝐾0𝑆𝐾±𝜋∓𝜋+𝜋−)=(2.8±0.9±0.5)×10−3 (<4.7×10−3). Upper limits on the branching fractions for the final states ℎ𝑐→𝐾+𝐾−𝜋0, 𝐾+𝐾−𝜂, 𝐾+𝐾−𝜋+𝜋−𝜂, 2(𝐾+𝐾−)𝜋0, 𝐾+𝐾−𝜋0𝜂, 𝐾0𝑆𝐾±𝜋∓, and 𝑝¯𝑝𝜋0𝜋0 are determined at a confidence level of 90%.
We report an amplitude analysis and branching fraction measurement of D+s→K+K−π+ decay using a data sample of 3.19 fb−1 recorded with BESIII detector at a center-of-mass energy of 4.178 GeV.
We perform a model-independent partial wave analysis in the low K+K− mass region to determine the K+K− S-wave lineshape,
followed by an amplitude analysis of our very pure high-statistics sample.
The amplitude analysis provides an accurate determination of the detection efficiency allowing us to measure the branching fraction B(D+s→K+K−π+)=(5.47±0.08stat±0.13sys)%.
Selectivity remains a challenge for ATP-mimetic kinase inhibitors, an issue that may be overcome by targeting unique residues or binding pockets. However, to date only few strategies have been developed. Here we identify that bulky residues located N-terminal to the DFG motif (DFG-1) represent an opportunity for designing highly selective inhibitors with unexpected binding modes. We demonstrate that several diverse inhibitors exerted selective, noncanonical binding modes that exclusively target large hydrophobic DFG-1 residues present in many kinases including PIM, CK1, DAPK, and CLK. By use of the CLK family as a model, structural and biochemical data revealed that the DFG-1 valine controlled a noncanonical binding mode in CLK1, providing a rationale for selectivity over the closely related CLK3 which harbors a smaller DFG-1 alanine. Our data suggest that targeting the restricted back pocket in the small fraction of kinases that harbor bulky DFG-1 residues offers a versatile selectivity filter for inhibitor design.
The FUBP1-FUSE complex is an essential component of a transcription molecular machinery that is necessary for tight regulation of expression of many key genes including c-Myc and p21. FUBP1 utilizes its four articulated KH modules, which function cooperatively, for FUSE nucleotide binding. To understand molecular mechanisms fundamental to the intermolecular interaction, we present a set of crystal structures, as well ssDNA-binding characterization of FUBP1 KH domains. All KH1-4 motifs were highly topologically conserved, and were able to interact with FUSE individually and independently. Nevertheless, differences in nucleotide binding properties among the four KH domains were evident, including higher nucleotide-binding potency for KH3 as well as diverse nucleotide sequence preferences. Variations in amino acid compositions at one side of the binding cleft responsible for nucleobase resulted in diverse shapes and electrostatic charge interaction, which might feasibly be a contributing factor for different nucleotide-binding propensities among KH1-4. Nonetheless, conservation of structure and nucleotide-binding property in all four KH motifs is essential for the cooperativity of multi KH modules present in FUBP1 towards nanomolar affinity for FUSE interaction. Comprehensive structural comparison and ssDNA binding characteristics of all four KH domains presented here provide molecular insights at a fundamental level that might be beneficial for elucidating the mechanisms of the FUBP1-FUSE interaction.
Human protein kinases play essential roles in cellular signaling pathways and - if deregulated - are linked to a large diversity of diseases such as cancer and inflammation or to metabolic diseases. Because of their key role in disease development or progression, kinases have developed into major drug targets resulting in the approval of 52 kinase inhibitors by the Food and Drug Administration (FDA) so far.
Within the drug discovery process, the affinity of the inhibitors is the parameter that is used most often to predict the later efficacy in humans. However, the kinetics of binding have recently emerged as an important but largely neglected factor of kinase inhibitor efficacy. To efficiently suppress a signaling pathway, the targeted kinase needs to be continuously inhibited. Thus, it has been hypothesized that fast binding on-rates and slow off-rates would be the preferred property of an efficacious inhibitor. Despite optimizing the potency of kinase inhibitors, in the past decade optimization of kinetic selectivity has therefore gained interest as a molecule cannot be active unless it is bound, as Paul Ehrlich once stated. There is increasing evidence of correlations between prolonged drug-target residence time and increased drug efficacy, and that inhibitor selectivity in cellular contexts can be modulated by altered residence times. In order to contribute to the understanding of the effect of long residence times on cellular targets we initiated two projects.
The first of these projects is related to the STE20 kinase Serine/threonine kinase 10 (STK10) and its close relative STE20 like kinase (SLK) which have been reported to be frequent off-targets for kinase inhibitors used in the clinics. Also, an inhibition of STK10 and SLK has been linked to a common side-effect of severe skin rash developed upon treatment with the EGFR inhibitor erlotinib, but not gefitinib and the severity of this rash correlated with the treatment outcome, which fits the known biology of STK10 and SLK to be regulators of lymphocyte migration and PLK kinases. However, there are yet no explanations why these two proteins show such high hit-rates across the kinome among the kinase inhibitors. Using structural analysis, we identified the flexibility of STK10 to be the main reason for this hit-rate. The observed strong in vitro potencies did however not translate to the cellular system which is why we investigated the inhibitors residence time on STK10. We found the same flexibility to be the main reason for slow residence times among several inhibitors. We observed large rearrangements in the hydrophobic backpocket of STK10 including the αC, the P-loop enclosing the inhibitor like a lid and strong π-π-stackings to be the main reasons for prolonged residence times on STK10. Interestingly, we observed an increased residence time for erlotinib, which showed skin-related side-effects, giving rise whether the binding kinetics should be investigated for weak cellular off-target effects in future drug discovery efforts.
In the second project we initiated, we illuminate a structural mechanism that allows kinetic selection between two closely related kinases, focal adhesion kinase (FAK) and proline-rich tyrosine kinase 2 (PYK2). Using an inhibitor series designed to probe the mechanism, residence times measured in vitro and in cells showed a strong correlation. Crystal structures and mutagenesis identified hydrophobic interactions with L567, adjacent to the DFG-motif, as being crucial to kinetic selectivity of FAK over PYK2. This specific interaction was observed only when the DFG-motif was stabilized into a helical conformation upon ligand binding to FAK. The interplay between the protein structural mobility and ligand-induced effect was found to be the key regulator of kinetic inhibitor selectivity for FAK over PYK2.
These two projects showed that the parameter residence time should be considered for different problems among the drug discovery process. First, in an open in vivo system not only the potency of a drug alone, but as well its residence time might be of importance. Here we showed that the weak cellular potency translated to prolonged residence times for several inhibitors in cells and established a link between the phenotypic outcome of skin rash after erlotinib treatment and the residence time of this inhibitor on STK10 in cells. On the other hand, medicinal chemistry efforts should consider structure kinetic relationships (SKR) in the optimization process and aim to understand the molecular basis for prolonged target residence times. Here, we showed that a hydrophobic interaction that is enforced upon inhibitor binding is crucial for an unusual helical DFG conformation which arrests the inhibitor and prolongs its residence time providing the molecular basis for understanding the kinetic selectivity of two closely related protein kinases. Establishing the SKRs will help medicinal chemists to kinetically optimize their drug candidates to select a suitable molecule to proceed into further optimization programs. Hence, the projects showed that the target residence time parameter needs to be considered both as a molecular optimization parameter to improve compound potency and binding behavior as well as a parameter to be understood for proceeding to the open system of in vivo models to later modulate the in vivo efficacy of protein kinase targeting drugs.
Nuclear receptor related 1 (Nurr1) is an orphan ligand-activated transcription factor and considered as neuroprotective transcriptional regulator with great potential as therapeutic target for neurodegenerative diseases. However, the collection of available Nurr1 modulators and mechanistic understanding of Nurr1 are limited. Here, we report the discovery of several structurally diverse non-steroidal anti-inflammatory drugs as inverse Nurr1 agonists demonstrating that Nurr1 activity can be regulated bidirectionally. As chemical tools, these ligands enable unraveling the co-regulatory network of Nurr1 and the mode of action distinguishing agonists from inverse agonists. In addition to its ability to dimerize, we observe an ability of Nurr1 to recruit several canonical nuclear receptor co-regulators in a ligand-dependent fashion. Distinct dimerization states and co-regulator interaction patterns arise as discriminating factors of Nurr1 agonists and inverse agonists. Our results contribute a valuable collection of Nurr1 modulators and relevant mechanistic insights for future Nurr1 target validation and drug discovery.