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Incorporation of noncanonical amino acids (ncAAs) with bioorthogonal reactive groups by amber suppression allows the generation of synthetic proteins with desired novel properties. Such modified molecules are in high demand for basic research and therapeutic applications such as cancer treatment and in vivo imaging. The positioning of the ncAA-responsive codon within the protein's coding sequence is critical in order to maintain protein function, achieve high yields of ncAA-containing protein, and allow effective conjugation. Cell-free ncAA incorporation is of particular interest due to the open nature of cell-free systems and their concurrent ease of manipulation. In this study, we report a straightforward workflow to inquire ncAA positions in regard to incorporation efficiency and protein functionality in a Chinese hamster ovary (CHO) cell-free system. As a model, the well-established orthogonal translation components Escherichia coli tyrosyl-tRNA synthetase (TyrRS) and tRNATyr(CUA) were used to site-specifically incorporate the ncAA p-azido-l-phenylalanine (AzF) in response to UAG codons. A total of seven ncAA sites within an anti-epidermal growth factor receptor (EGFR) single-chain variable fragment (scFv) N-terminally fused to the red fluorescent protein mRFP1 and C-terminally fused to the green fluorescent protein sfGFP were investigated for ncAA incorporation efficiency and impact on antigen binding. The characterized cell-free dual fluorescence reporter system allows screening for ncAA incorporation sites with high incorporation efficiency that maintain protein activity. It is parallelizable, scalable, and easy to operate. We propose that the established CHO-based cell-free dual fluorescence reporter system can be of particular interest for the development of antibody-drug conjugates (ADCs).
Law smells
(2022)
Building on the computer science concept of code smells, we initiate the study of law smells, i.e., patterns in legal texts that pose threats to the comprehensibility and maintainability of the law. With five intuitive law smells as running examples-namely, duplicated phrase, long element, large reference tree, ambiguous syntax, and natural language obsession-, we develop a comprehensive law smell taxonomy. This taxonomy classifies law smells by when they can be detected, which aspects of law they relate to, and how they can be discovered. We introduce text-based and graph-based methods to identify instances of law smells, confirming their utility in practice using the United States Code as a test case. Our work demonstrates how ideas from software engineering can be leveraged to assess and improve the quality of legal code, thus drawing attention to an understudied area in the intersection of law and computer science and highlighting the potential of computational legal drafting.
Deep lipidomics in human plasma: cardiometabolic disease risk and effect of dietary fat modulation
(2022)
Background: In blood and tissues, dietary and endogenously generated fatty acids (FAs) occur in free form or as part of complex lipid molecules that collectively represent the lipidome of the respective tissue. We assessed associations of plasma lipids derived from high-resolution lipidomics with incident cardiometabolic diseases and subsequently tested if the identified risk-associated lipids were sensitive to dietary fat modification. Methods: The EPIC Potsdam cohort study (European Prospective Investigation into Cancer and Nutrition) comprises 27 548 participants recruited within an age range of 35 to 65 years from the general population around Potsdam, Germany. We generated 2 disease-specific case cohorts on the basis of a fixed random subsample (n=1262) and all respective cohort-wide identified incident primary cardiovascular disease (composite of fatal and nonfatal myocardial infarction and stroke; n=551) and type 2 diabetes (n=775) cases. We estimated the associations of baseline plasma concentrations of 282 class-specific FA abundances (calculated from 940 distinct molecular species across 15 lipid classes) with the outcomes in multivariable-adjusted Cox models. We tested the effect of an isoenergetic dietary fat modification on risk-associated lipids in the DIVAS randomized controlled trial (Dietary Intervention and Vascular Function; n=113). Participants consumed either a diet rich in saturated FAs (control), monounsaturated FAs, or a mixture of monounsaturated and n-6 polyunsaturated FAs for 16 weeks. Results: Sixty-nine lipids associated (false discovery rate<0.05) with at least 1 outcome (both, 8; only cardiovascular disease, 49; only type 2 diabetes, 12). In brief, several monoacylglycerols and FA16:0 and FA18:0 in diacylglycerols were associated with both outcomes; cholesteryl esters, free fatty acids, and sphingolipids were largely cardiovascular disease specific; and several (glycero)phospholipids were type 2 diabetes specific. In addition, 19 risk-associated lipids were affected (false discovery rate<0.05) by the diets rich in unsaturated dietary FAs compared with the saturated fat diet (17 in a direction consistent with a potential beneficial effect on long-term cardiometabolic risk). For example, the monounsaturated FA-rich diet decreased diacylglycerol(FA16:0) by 0.4 (95% CI, 0.5-0.3) SD units and increased triacylglycerol(FA22:1) by 0.5 (95% CI, 0.4-0.7) SD units. Conclusions: We identified several lipids associated with cardiometabolic disease risk. A subset was beneficially altered by a dietary fat intervention that supports the substitution of dietary saturated FAs with unsaturated FAs as a potential tool for primary disease prevention.
In seismic risk assessment, the sources of uncertainty associated with building exposure modelling have not received as much attention as other components related to hazard and vulnerability. Conventional practices such as assuming absolute portfolio compositions (i.e., proportions per building class) from expert-based assumptions over aggregated data crudely disregard the contribution of uncertainty of the exposure upon earthquake loss models. In this work, we introduce the concept that the degree of knowledge of a building stock can be described within a Bayesian probabilistic approach that integrates both expert-based prior distributions and data collection on individual buildings. We investigate the impact of the epistemic uncertainty in the portfolio composition on scenario-based earthquake loss models through an exposure-oriented logic tree arrangement based on synthetic building portfolios. For illustrative purposes, we consider the residential building stock of Valparaiso (Chile) subjected to seismic ground-shaking from one subduction earthquake. We have found that building class reconnaissance, either from prior assumptions by desktop studies with aggregated data (top-down approach), or from building-by-building data collection (bottom-up approach), plays a fundamental role in the statistical modelling of exposure. To model the vulnerability of such a heterogeneous building stock, we require that their associated set of structural fragility functions handle multiple spectral periods. Thereby, we also discuss the relevance and specific uncertainty upon generating either uncorrelated or spatially cross-correlated ground motion fields within this framework. We successively show how various epistemic uncertainties embedded within these probabilistic exposure models are differently propagated throughout the computed direct financial losses. This work calls for further efforts to redesign desktop exposure studies, while also highlighting the importance of exposure data collection with standardized and iterative approaches.
Hot, compact, hydrogen-deficient pre-white dwarfs (pre-WDs) with effective temperatures of Teff > 70 000 K and a surface gravity of 5.0 < logg < 7.0 are rather rare objects despite recent and ongoing surveys. It is believed that they are the outcome of either single star evolution (late helium-shell flash or late helium-core flash) or binary star evolution (double WD merger). Their study is interesting because the surface elemental abundances reflect the physics of thermonuclear flashes and merger events. Spectroscopically they are divided in three different classes, namely PG1159, O(He), or He-sdO. We present a spectroscopic analysis of five such stars that turned out to have atmospheric parameters in the range Teff = 70 000-80 000 K and logg = 5.2-6.3. The three investigated He-sdOs have a relatively high hydrogen mass fraction (10%) that is unexplained by both single (He core flash) and binary evolution (He-WD merger) scenarios. The O(He) star JL 9 is probably a binary helium-WD merger, but its hydrogen content (6%) is also at odds with merger models. We found that RL 104 is the 'coolest' (Teff = 80 000 K) member of the PG1159 class in a pre-WD stage. Its optical spectrum is remarkable because it exhibits C※ IV lines involving Rydberg states with principal quantum numbers up to n = 22. Its rather low mass (0.48-0.02+0.03 M·) is difficult to reconcile with the common evolutionary scenario for PG1159 stars due to it being the outcome of a (very) late He-shell flash. The same mass-problem faces a merger model of a close He-sdO plus CO WD binary that predicts PG1159-like abundances. Perhaps RL 104 originates from a very late He-shell flash in a CO/He WD formed by a merger of two low-mass He-WDs.
The benefits of counting butterflies: recommendations for a successful citizen science project
(2022)
Citizen science (CS) projects, being popular across many fields of science, have recently also become a popular tool to collect biodiversity data. Although the benefits of such projects for science and policy making are well understood, relatively little is known about the benefits participants get from these projects as well as their personal backgrounds and motivations. Furthermore, very little is known about their expectations. We here examine these aspects, with the citizen science project "German Butterfly Monitoring" as an example. A questionnaire was sent to all participants of the project and the responses to the questionnaire indicated the following: center dot Most transect walkers do not have a professional background in this field, though they do have a high educational level, and are close to retirement, with a high number of females; center dot An important motivation to join the project is to preserve the natural environment and to contribute to scientific knowledge; center dot Participants benefit by enhancing their knowledge about butterflies and especially their ability to identify different species (taxonomic knowledge); center dot Participants do not have specific expectations regarding the project beyond proper management and coordination, but have an intrinsic sense of working for a greater good. The willingness to join a project is higher if the project contributes to the solution of a problem discussed in the media (here, insect decline). Based on our findings from the analysis of the questionnaire we can derive a set of recommendations for establishing a successful CS project. These include the importance of good communication, e.g., by explaining what the (scientific) purpose of the project is and what problems are to be solved with the help of the data collected in the project. The motivation to join a CS project is mostly intrinsic and CS is a good tool to engage people during difficult times such as the COVID-19 pandemic, giving participants the feeling of doing something useful.
In this paper, we employ an experimental paradigm using insights from the psychology of reasoning to investigate the question whether certain modals generate and draw attention to alternatives. The article extends and builds on the methodology and findings of Mascarenhas & Picat (2019). Based on experimental results, they argue that the English epistemic modal might raises alternatives. We apply the same methodology to the English modal allowed to to test different hypotheses regarding the involvement of alternatives in deontic modality. We find commonalities and differences between the two modals we tested. We discuss theoretical consequences for existing semantic analyses of these modals, and argue that reasoning tasks can serve as a diagnostic tool to discover which natural language expressions involve alternatives.
So far, various studies have aimed at decomposing the integrated terrestrial water storage variations observed by satellite gravimetry (GRACE, GRACE-FO) with the help of large-scale hydrological models. While the results of the storage decomposition depend on model structure, little attention has been given to the impact of the way that vegetation is represented in these models. Although vegetation structure and activity represent the crucial link between water, carbon, and energy cycles, their representation in large-scale hydrological models remains a major source of uncertainty. At the same time, the increasing availability and quality of Earth-observation-based vegetation data provide valuable information with good prospects for improving model simulations and gaining better insights into the role of vegetation within the global water cycle. In this study, we use observation-based vegetation information such as vegetation indices and rooting depths for spatializing the parameters of a simple global hydrological model to define infiltration, root water uptake, and transpiration processes. The parameters are further constrained by considering observations of terrestrial water storage anomalies (TWS), soil moisture, evapotranspiration (ET) and gridded runoff ( Q) estimates in a multi-criteria calibration approach. We assess the implications of including varying vegetation characteristics on the simulation results, with a particular focus on the partitioning between water storage components. To isolate the effect of vegetation, we compare a model experiment in which vegetation parameters vary in space and time to a baseline experiment in which all parameters are calibrated as static, globally uniform values. Both experiments show good overall performance, but explicitly including varying vegetation data leads to even better performance and more physically plausible parameter values. The largest improvements regarding TWS and ET are seen in supply-limited (semi-arid) regions and in the tropics, whereas Q simulations improve mainly in northern latitudes. While the total fluxes and storages are similar, accounting for vegetation substantially changes the contributions of different soil water storage components to the TWS variations. This suggests an important role of the representation of vegetation in hydrological models for interpreting TWS variations. Our simulations further indicate a major effect of deeper moisture storages and groundwater-soil moisture-vegetation interactions as a key to understanding TWS variations. We highlight the need for further observations to identify the adequate model structure rather than only model parameters for a reasonable representation and interpretation of vegetation-water interactions.
Guidance of postinfarct myocardial remodeling processes by an epicardial patch system may alleviate the consequences of ischemic heart disease. As macrophages are highly relevant in balancing immune response and regenerative processes their suitable instruction would ensure therapeutic success. A polymeric mesh capable of attracting and instructing monocytes by purely physical cues and accelerating implant degradation at the cell/implant interface is designed. In a murine model for myocardial infarction the meshes are compared to those either coated with extracellular matrix or loaded with induced cardiomyocyte progenitor cells. All implants promote macrophage infiltration and polarization in the epicardium, which is verified by in vitro experiments. 6 weeks post-MI, especially the implantation of the mesh attenuates left ventricular adverse remodeling processes as shown by reduced infarct size (14.7% vs 28-32%) and increased wall thickness (854 mu m vs 400-600 mu m), enhanced angiogenesis/arteriogenesis (more than 50% increase compared to controls and other groups), and improved heart function (ejection fraction = 36.8% compared to 12.7-31.3%). Upscaling as well as process controls is comprehensively considered in the presented mesh fabrication scheme to warrant further progression from bench to bedside.
In the picture-word interference paradigm, participants name pictures while ignoring a written or spoken distractor word. Naming times to the pictures are slowed down by the presence of the distractor word. The present study investigates in detail the impact of distractor and target word properties on picture naming times, building on the seminal study by Miozzo and Caramazza. We report the results of several Bayesian meta-analyses based on 26 datasets. These analyses provide estimates of effect sizes and their precision for several variables and their interactions. They show the reliability of the distractor frequency effect on picture naming latencies (latencies decrease as the frequency of the distractor increases) and demonstrate for the first time the impact of distractor length, with longer naming latencies for trials with longer distractors. Moreover, distractor frequency interacts with target word frequency to predict picture naming latencies. The methodological and theoretical implications of these findings are discussed.
The purpose of the present study was to investigate the moderating effect of technology use for friendship maintenance in the associations between self-isolation during the COVID-19 pandemic and friendship quality, measured 6 months later (Time 2). Participants were 1,567 seventh and eighth graders (51% female; 51% white; M-age = 13.47) from the United States. They completed questionnaires on friendship quality at Time 1, and self-isolation during COVID-19 and technology use for friendship maintenance and friendship quality at Time 2. The findings revealed that self-isolation during COVID-19 was related positively to technology use for friendship maintenance and negatively to Time 2 friendship quality. Higher technology use for friendship maintenance buffered against the negative impacts on friendship quality associated with self-isolation during COVID-19, while lower technology use had the opposite effects on Time 2 friendship quality.
In this article we prove upper bounds for the Laplace eigenvalues lambda(k) below the essential spectrum for strictly negatively curved Cartan-Hadamard manifolds. Our bound is given in terms of k(2) and specific geometric data of the manifold. This applies also to the particular case of non-compact manifolds whose sectional curvature tends to -infinity, where no essential spectrum is present due to a theorem of Donnelly/Li. The result stands in clear contrast to Laplacians on graphs where such a bound fails to be true in general.
Human induced pluripotent stem cells (hiPSCs) are highly sensitive to extrinsic physical and biochemical signals from their extracellular microenvironments. In this study, we analyzed the effect of cyclic temperature changes on hiPSCs behaviors, especially by means of scanning force microscopy (BIO-AFM). The alternation in cellular mechanics, as well as the secretion and pattern of deposition of extracellular matrix (ECM) protein in hiPSCs were evaluated. The arrangement of the actin cytoskeleton changed with the variation of the temperature. The rearranged cytoskeleton architecture led to the subsequent changes in cell mechanics (Young's modulus of hiPSCs). With the exposure to the cyclic cold stimuli, an increase in the average surface roughness (Ra) and roughness mean square (RMS) was detected. This observation might be at least in part due to the upregulated secretion of Laminin alpha 5 during repeated temporary cooling. The expression of pluripotent markers, NANOG and SOX2, was not impaired in hiPSCs, when exposed to the cyclic cold stimuli for 24 h. Our findings provide an insight into the effect of temperature on the hiPSC behaviors, which may contribute to a better understanding of the application of locally controlled therapeutic hypothermia.
We consider an array of nonlocally coupled oscillators on a ring, which for equally spaced units possesses a Kuramoto-Battogtokh chimera regime and a synchronous state. We demonstrate that disorder in oscillators positions leads to a transition from the synchronous to the chimera state. For a static (quenched) disorder we find that the probability of synchrony survival depends on the number of particles, from nearly zero at small populations to one in the thermodynamic limit. Furthermore, we demonstrate how the synchrony gets destroyed for randomly (ballistically or diffusively) moving oscillators. We show that, depending on the number of oscillators, there are different scalings of the transition time with this number and the velocity of the units.
Binary III-V nitrides such as AlN, GaN and InN in the wurtzite-type structure have long been considered as potent semiconducting materials because of their optoelectronic properties, amongst others. With rising concerns over the utilization of scarce elements, a replacement of the trivalent cations by others in ternary and multinary nitrides has led to the development of different variants of nitrides and oxide nitrides crystallizing in lower-symmetry variants of wurtzite. This work presents the symmetry relationships between these structural types specific to nitrides and oxide nitrides and updates some prior work on this matter. The non-existence of compounds crystallizing in Pmc2(1), formally the highest subgroup of the wurtzite type fulfilling Pauling's rules for 1:1:2 stoichiometries, has been puzzling scientists for a while; a rationalization is given, from a crystallographic basis, of why this space group is unlikely to be adopted.
1. Microplastics in soils have become an important threat for terrestrial systems as they may potentially alter the geochemical/biophysical soil environment and can interact with drought. As microplastics may affect soil water content, this could exacerbate the well-known negative effects of drought on ecosystem functionality. Thus, functions including litter decomposition, soil aggregation or those related with nutrient cycling can be altered. Despite this potential interaction, we know relatively little about how microplastics, under different soil water conditions, affect ecosystem functions and multifunctionality.
2. To address this gap, we performed an experiment using grassland plant communities growing in microcosms. Microplastic fibres (absent, present) and soil water conditions (well-watered, drought) were applied in a fully factorial design. At harvest, we measured soil ecosystem functions related to nutrient cycling (beta-glucosaminidase, beta-D-cellobiosidase, phosphatase, beta-glucosidase enzymes), respiration, nutrient retention, pH, litter decomposition and soil aggregation (water stable aggregates). As terrestrial systems provide these functions simultaneously, we also assessed ecosystem multifunctionality, an index that encompasses the array of ecosystem functions measured here.
3. We found that the interaction between microplastic fibres and drought affected ecosystem functions and multifunctionality. Drought had negatively affected nutrient cycling by decreasing enzymatic activities by up to similar to 39%, while microplastics increased soil aggregation by similar to 18%, soil pH by similar to 4% and nutrient retention by up to similar to 70% by diminishing nutrient leaching. Microplastic fibres also impacted soil enzymes, respiration and ecosystem multifunctionality, but importantly, the direction of these effects depended on soil water status. That is, under well-watered conditions, these functions decreased with microplastic fibres by up to similar to 34% while under drought they had similar values irrespective of the microplastic presence, or tended to increase with microplastics. Litter decomposition had a contrary pattern increasing with microplastics by similar to 6% under well-watered conditions while decreasing to a similar percentage under drought.
4. Synthesis and applications. Single ecosystem functions can be positively or negatively affected by microplastics fibres depending on soil water status. However, our results suggest that microplastic fibres may cause negative effects on ecosystem soil multifunctionality of a similar magnitude as drought. Thus, strategies to counteract this new global change factor are necessary.
Satellite-measured tidal magnetic signals are of growing importance. These fields are mainly used to infer Earth's mantle conductivity, but also to derive changes in the oceanic heat content. We present a new Kalman filter-based method to derive tidal magnetic fields from satellite magnetometers: KALMAG. The method's advantage is that it allows to study a precisely estimated posterior error covariance matrix. We present the results of a simultaneous estimation of the magnetic signals of 8 major tides from 17 years of Swarm and CHAMP data. For the first time, robustly derived posterior error distributions are reported along with the reported tidal magnetic fields. The results are compared to other estimates that are either based on numerical forward models or on satellite inversions of the same data. For all comparisons, maximal differences and the corresponding globally averaged RMSE are reported. We found that the inter-product differences are comparable with the KALMAG-based errors only in a global mean sense. Here, all approaches give values of the same order, e.g., 0.09 nT-0.14 nT for M2. Locally, the KALMAG posterior errors are up to one order smaller than the inter-product differences, e.g., 0.12 nT vs. 0.96 nT for M2.
Planned decommissioning of coal-fired plants in Europe requires innovative technical and economic strategies to support coal regions on their path towards a climate-resilient future. The repurposing of open pit mines into hybrid pumped hydro power storage (HPHS) of excess energy from the electric grid, and renewable sources will contribute to the EU Green Deal, increase the economic value, stabilize the regional job market and contribute to the EU energy supply security. This study aims to present a preliminary phase of a geospatial workflow used to evaluate land suitability by implementing a multi-criteria decision making (MCDM) technique with an advanced geographic information system (GIS) in the context of an interdisciplinary feasibility study on HPHS in the Kardia lignite open pit mine (Western Macedonia, Greece). The introduced geospatial analysis is based on the utilization of the constraints and ranking criteria within the boundaries of the abandoned mine regarding specific topographic and proximity criteria. The applied criteria were selected from the literature, while for their weights, the experts' judgement was introduced by implementing the analytic hierarchy process (AHP), in the framework of the ATLANTIS research program. According to the results, seven regions were recognized as suitable, with a potential energy storage capacity from 1.09 to 5.16 GWh. Particularly, the present study's results reveal that 9.27% (212,884 m(2)) of the area had a very low suitability, 15.83% (363,599 m(2)) had a low suitability, 23.99% (550,998 m(2)) had a moderate suitability, 24.99% (573,813 m(2)) had a high suitability, and 25.92% (595,125 m(2)) had a very high suitability for the construction of the upper reservoir. The proposed semi-automatic geospatial workflow introduces an innovative tool that can be applied to open pit mines globally to identify the optimum design for an HPHS system depending on the existing lower reservoir.
Infection is a common and often deadly complication after burn injury. A major underlying factor is burn-induced immune dysfunction, particularly with respect to neutrophils as the primary responders to infection. Temporally after murine scald injury, we demonstrate impaired bone marrow neutrophil chemotaxis toward CXCL1 ex vivo. Additionally, we observed a reduced recruitment of neutrophils to the peritoneal after elicitation 7 days after injury. We demonstrate that neutrophil ceramide levels increase after burn injury, and this is associated with decreased expression of CXCR2 and blunted chemotaxis. A major signaling event upon CXCR2 activation is Akt phosphorylation and this was reduced when ceramide was elevated. In contrast, PTEN levels were elevated and PTEN-inhibition elevated phospho-Akt levels and mitigated the burn-induced neutrophil chemotaxis defect. Altogether, this study identifies a newly described pathway of ceramide-mediated suppression of neutrophil chemotaxis after burn injury and introduces potential targets to mitigate this defect and reduce infection-related morbidity and mortality after burn.
Full-length transcriptome
(2021)
Fish is considered as a supreme model for clarifying the evolution and regulatory mechanism of vertebrate immunity. However, the knowledge of distinct immune cell populations in fish is still limited, and further development of techniques advancing the identification of fish immune cell populations and their functions are required. Single cell RNA-seq (scRNA-seq) has provided a new approach for effective in-depth identification and characterization of cell subpopulations. Current approaches for scRNA-seq data analysis usually rely on comparison with a reference genome and hence are not suited for samples without any reference genome, which is currently very common in fish research. Here, we present an alternative, i.e. scRNA-seq data analysis with a full-length transcriptome as a reference, and evaluate this approach on samples from Epinephelus coioides-a teleost without any published genome. We show that it reconstructs well most of the present transcripts in the scRNA-seq data achieving a sensitivity equivalent to approaches relying on genome alignments of related species. Based on cell heterogeneity and known markers, we characterized four cell types: T cells, B cells, monocytes/macrophages (Mo/M phi) and NCC (non-specific cytotoxic cells). Further analysis indicated the presence of two subsets of Mo/M phi including M1 and M2 type, as well as four subsets in B cells, i.e. mature B cells, immature B cells, pre B cells and early-pre B cells. Our research will provide new clues for understanding biological characteristics, development and function of immune cell populations of teleost. Furthermore, our approach provides a reliable alternative for scRNA-seq data analysis in teleost for which no reference genome is currently available.
Neutrons on rails
(2021)
Large-scale measurements of the spatial distribution of water content in soils and snow are challenging for state-of-the-art hydrogeophysical methods. Cosmic-ray neutron sensing (CRNS) is a noninvasive technology that has the potential to bridge the scale gap between conventional in situ sensors and remote sensing products in both, horizontal and vertical domains. In this study, we explore the feasibility and potential of estimating water content in soils and snow with neutron detectors in moving trains. Theoretical considerations quantify the stochastic measurement uncertainty as a function of water content, altitude, resolution, and detector efficiency. Numerical experiments demonstrate that the sensitivity of measured water content is almost unperturbed by train materials. Finally, three distinct real-world experiments provide a proof of concept on short and long-range tracks. With our results a transregional observational soil moisture product becomes a realistic vision within the next years.
Teaching quality is a key factor in student academic success, but few studies have investigated how teaching quality changes at the beginning of secondary education and how such changes are predicted by dimensions of teacher motivation. This study investigated the changes in class-level student perceptions of teaching quality over one school year at the beginning of secondary school and examined how teachers? self-efficacy and enthusiasm predicted such changes. Data from 1996 students (53.8% male; mean age: 11.09 years, SD = 0.55) and their homeroom teachers (N = 105), who were surveyed at the beginning of Grades 5 and 6, were analyzed. Results showed a significant decline in class-level student-perceived emotional support, classroom management, and instructional clarity. Teacher-reported self-efficacy was not significantly related to changes in teaching quality. Teacher-reported enthusiasm buffered the decline in students? class-level classroom management.
Objective
Problem-drinking among university students is common and poses serious health-related risks. Therefore, identifying and addressing associated factors is important.
Participants and methods
A large cross-sectional online-survey with 12,914 university students from Berlin was conducted from November 2016 to August 2017. Relative-risk- and correlation-analysis was used to identify factors associated with problem-drinking and regular heavy-drinking. Independent t-tests compared impulsivity and personality traits, chi-square-tests compared drinking motives between risk- and non-risk-drinkers.
Results
Male gender, tobacco-smoking, illegal substance use, impulsivity and various sociodemographic and psychosocial variables were significantly related to problem/heavy-drinking. Extraversion was a risk, conscientiousness and agreeableness were protective factors. Drinking-motives did not differ significantly between risk- and non-risk-drinkers. Generally, the main drinking-motives were to feel elated, relax and social purposes.
Conclusion
The identified markers and related problem behaviors may serve as a tool to enhance the identification of student subgroups at risk for problem/heavy-drinking, and hence improve targeted health-intervention-programs.
Objectives To compare image quality of deep learning reconstruction (AiCE) for radiomics feature extraction with filtered back projection (FBP), hybrid iterative reconstruction (AIDR 3D), and model-based iterative reconstruction (FIRST). Methods Effects of image reconstruction on radiomics features were investigated using a phantom that realistically mimicked a 65-year-old patient's abdomen with hepatic metastases. The phantom was scanned at 18 doses from 0.2 to 4 mGy, with 20 repeated scans per dose. Images were reconstructed with FBP, AIDR 3D, FIRST, and AiCE. Ninety-three radiomics features were extracted from 24 regions of interest, which were evenly distributed across three tissue classes: normal liver, metastatic core, and metastatic rim. Features were analyzed in terms of their consistent characterization of tissues within the same image (intraclass correlation coefficient >= 0.75), discriminative power (Kruskal-Wallis test p value < 0.05), and repeatability (overall concordance correlation coefficient >= 0.75). Results The median fraction of consistent features across all doses was 6%, 8%, 6%, and 22% with FBP, AIDR 3D, FIRST, and AiCE, respectively. Adequate discriminative power was achieved by 48%, 82%, 84%, and 92% of features, and 52%, 20%, 17%, and 39% of features were repeatable, respectively. Only 5% of features combined consistency, discriminative power, and repeatability with FBP, AIDR 3D, and FIRST versus 13% with AiCE at doses above 1 mGy and 17% at doses >= 3 mGy. AiCE was the only reconstruction technique that enabled extraction of higher-order features. Conclusions AiCE more than doubled the yield of radiomics features at doses typically used clinically. Inconsistent tissue characterization within CT images contributes significantly to the poor stability of radiomics features.
Applications of advanced cathode materials with well-designed chemical components and/or optimized nanostructures promoting the sulfur redox kinetics and suppressing the shuttle effect of polysulfides are highly valued. However, in the case of actual lithium-sulfur (Li-S) batteries under practical working conditions, one long-term obstacle still exists, which is mainly due to the difficulties in massive synthesis of such nanomaterials with low cost and ease of control on the nanostructure. Herein, we develop a facile synthesis of carbon coated Ti4O7 hollow nanoparticles (Ti4O7) using spherical polymer electrolyte brush as soft template, which is scalable via utilizing a minipilot reactor. The C Ti4O7 hollow nanoparticles provide strong chemical adsorption to polysulfides through the large polar surface and additional physical confinement by rich micro- & mesopores and have successfully been employed as an efficient sulfur host for multilayer pouch cells. Besides, the sluggish kinetics of the sulfur and lithium sulfide redox mechanism can be improved by the highly conductive Ti4O7 via catalyzation of the conversion of polysulfides. Consequently, the C-Ti4O7 based pouch cell endows a high discharge capacity of 1003 mAhg(-1) at 0.05 C, a high-capacity retention of 83.7% after 100 cycles at 0.1 C, and a high Coulombic efficiency of 97.5% at the 100th cycle. This work proposes an effective approach to transfer the synthesis of hollow Ti4O7 nanoparticles from lab- to large-scale production, paving the way to explore a wide range of advanced nanomaterials for multilayer Li-S pouch cells.
Immense uncertainty and the need for drastic interventions cause politicians to rely heavily on scientific advice for underpinning or legitimating their COVID-19 decision-making. This paper explores the role of scientific advice in this policy field in Germany, Italy, the Netherlands and the UK. It shows that scientific advice is based on the disciplinary, mainly medical, backgrounds of advisors but is also influenced by social and economic values, which are core to what politicians find important. During the pandemic a growing gap between scientific advice and political decisions is observed.
We report generation of ultra-broadband longitudinal acoustic coherent phonon wavepackets in SrTiO3 (STO) with frequency components extending throughout the first Brillouin zone. The wavepackets are efficiently generated in STO using femtosecond infrared laser excitation of an atomically flat 1.6 nm-thick epitaxial SrRuO3 film. We use femtosecond x-ray diffraction at the European X-Ray Free Electron Laser Facility to study the dispersion and damping of phonon wavepackets. The experimentally determined damping constants for multi-THz frequency phonons compare favorably to the extrapolation of a simple ultrasound damping model over several orders of magnitude.
We address the effect of stochastic resetting on diffusion and subdiffusion process. For diffusion we find that mean square displacement relaxes to a constant only when the distribution of reset times possess finite mean and variance. In this case, the leading order contribution to the probability density function (PDF) of a Gaussian propagator under resetting exhibits a cusp independent of the specific details of the reset time distribution. For subdiffusion we derive the PDF in Laplace space for arbitrary resetting protocol. Resetting at constant rate allows evaluation of the PDF in terms of H function. We analyze the steady state and derive the rate function governing the relaxation behavior. For a subdiffusive process the steady state could exist even if the distribution of reset times possesses only finite mean.
There has been little research attention given to how Gay-Straight Alliances might mitigate mental health consequences associated with experiencing homophobic cyberbullying. To address this gap in knowledge, the purpose of this one-year longitudinal study was to investigate the moderating effect of perceived social support from Gay-Straight Alliances in the relationships among homophobic cyberbullying victimization and bystanding and depressive and anxiety symptoms among 466 LGBTQIA adolescents (M-age = 15.76; 52% female). The findings revealed that perceived social support was related negatively to homophobic cyberbullying involvement and depressive and anxiety symptoms. Homophobic cyberbullying involvement was related positively to depressive and anxiety symptoms. High perceived social support buffered against the depressive and anxiety symptoms resulting from homophobic victimization and bystanding among LGBTQIA adolescents but low levels and average levels did not moderate these associations. These findings highlight the importance of expanding Gay-Straight Alliances in schools.
The stabilizing properties of mineral-organic carbon (OC) interactions have been studied in many soil environments (temperate soils, podzol lateritic soils, and paddy soils). Recently, interest in their role in permafrost regions is increasing as permafrost was identified as a hotspot of change. In thawing ice-rich permafrost regions, such as the Yedoma domain, 327-466 Gt of frozen OC is buried in deep sediments. Interactions between minerals and OC are important because OC is located very near the mineral matrix. Mineral surfaces and elements could mitigate recent and future greenhouse gas emissions through physical and/or physicochemical protection of OC. The dynamic changes in redox and pH conditions associated with thermokarst lake formation and drainage trigger metal-oxide dissolution and precipitation, likely influencing OC stabilization and microbial mineralization. However, the influence of thermokarst processes on mineral-OC interactions remains poorly constrained. In this study, we aim to characterize Fe, Mn, Al, and Ca minerals and their potential protective role for OC. Total and selective extractions were used to assess the crystalline and amorphous oxides or complexed metal pools as well as the organic acids found within these pools. We analyzed four sediment cores from an ice-rich permafrost area in Central Yakutia, which were drilled (i) in undisturbed Yedoma uplands, (ii) beneath a recent lake formed within Yedoma deposits, (iii) in a drained thermokarst lake basin, and (iv) beneath a mature thermokarst lake from the early Holocene period. We find a decrease in the amount of reactive Fe, Mn, Al, and Ca in the deposits on lake formation (promoting reduction reactions), and this was largely balanced by an increase in the amount of reactive metals in the deposits on lake drainage (promoting oxidation reactions). We demonstrate an increase in the metal to C molar ratio on thermokarst process, which may indicate an increase in metal-C bindings and could provide a higher protective role against microbial mineralization of organic matter. Finally, we find that an increase in mineral-OC interactions corresponded to a decrease in CO2 and CH4 gas emissions on thermokarst process. Mineral-OC interactions could mitigate greenhouse gas production from permafrost thaw as soon as lake drainage occurs.
We study the first-arrival (first-hitting) dynamics and efficiency of a one-dimensional random search model performing asymmetric Levy flights by leveraging the Fokker-Planck equation with a delta-sink and an asymmetric space-fractional derivative operator with stable index alpha and asymmetry (skewness) parameter beta.
We find exact analytical results for the probability density of first-arrival times and the search efficiency, and we analyse their behaviour within the limits of short and long times.
We find that when the starting point of the searcher is to the right of the target, random search by Brownian motion is more efficient than Levy flights with beta <= 0 (with a rightward bias) for short initial distances, while for beta>0 (with a leftward bias) Levy flights with alpha -> 1 are more efficient.
When increasing the initial distance of the searcher to the target, Levy flight search (except for alpha=1 with beta=0) is more efficient than the Brownian search. Moreover, the asymmetry in jumps leads to essentially higher efficiency of the Levy search compared to symmetric Levy flights at both short and long distances, and the effect is more pronounced for stable indices alpha close to unity.
Rainfall-intense summer monsoon seasons on the Indian subcontinent that are exceeding long-term averages cause widespread floods and landslides.
Here we show that the latest generation of coupled climate models robustly project an intensification of very rainfall-intense seasons (June-September).
Under the shared socioeconomic pathway SSP5-8.5, very wet monsoon seasons as observed in only 5 years in the period 1965-2015 are projected to occur 8 times more often in 2050-2100 in the multi-model average.
Under SSP2-4.5, these seasons become only a factor of 6 times more frequent, showing that even modest efforts to mitigate climate change can have a strong impact on the frequency of very strong rainfall seasons.
Besides, we find that the increasing risk of extreme seasonal rainfall is accompanied by a shift from days with light rainfall to days with moderate or heavy rainfall. Additionally, the number of wet days is projected to increase.
Species community structures of Afrotropical butterflies differ depending on the monitoring method
(2022)
Standardised biodiversity assessment is crucial to understand community structures and population dynamics of animals.
There exist various methods to monitor biodiversity. Approaches differ depending on the target species group and the aim of study, and show advantages and disadvantages.
The obtained data and results are influenced by local environmental conditions and seasonal variability.
In a comparative approach, we studied butterfly diversity and community structure in the dryland savannah biome of south-eastern Kenya with two different methods, transect counts and bait trapping.
We repeatedly collected data throughout the dry and rainy seasons, in both near natural and anthropogenically influenced landscapes. Significantly more species and individuals were recorded by transect counts than by bait trapping, though the larger and more mobile Nymphalid species (and in particular representatives of the genus Charaxes) were comparatively overrepresented in traps.
The transect data revealed much more pronounced effects of land-use and seasonality than the trap data. These results show that the choice of data collection methods must depend on the general research question, habitat conditions and season. To study the relative variation of species diversity and abundance, the collection of a fraction of the total species diversity might be sufficient.
However, if the focus is on a largely complete recording of species diversity, the use of various collection methods is essential. More specifically, our data clearly demonstrate that transect counts represent a reasonable method for assessing butterfly diversity for the African dryland savannah region, but fails to fully capture occurrences of all species. Bait trapping can be used only as a supplementary method for assessing some few highly mobile low-density species.
Electrochemical reduction stands as an alternative to revalorize CO2. Among the different alternatives, Ni single atoms supported on carbonaceous materials are an appealing catalytic solution due to the low cost and versatility of the support and the optimal usage of Ni and its predicted selectivity and efficiency (ca. 100% towards CO). Herein, we have used noble carbonaceous support derived from cytosine to load Ni subnanometric sites. The large heteroatom content of the support allows the stabilization of up to 11 wt% of Ni without the formation of nanoparticles through a simple impregnation plus calcination approach, where nickel promotes the stabilization of C3NOx frameworks and the oxidative support promotes a high oxidation state of nickel. EXAFS analysis points at nickel single atoms or subnanometric clusters coordinated by oxygen in the material surface. Unlike the wellknown N-coordinated Ni single sites selectivity towards CO2 reduction, O-coordinated-Ni single sites (ca. 7 wt% of Ni) reduced CO2 to CO, but subnanometric clusters (11 wt% of Ni) foster the unprecedented formation of HCOOH with 27% Faradaic efficiency at - 1.4 V. Larger Ni amounts ended up on the formation of NiO nanoparticles and almost 100% selectivity towards hydrogen evolution.
Ground-penetrating radar (GPR) is a method that can provide detailed information about the near subsurface in sedimentary and carbonate environments.
The classical interpretation of GPR data (e.g., based on manual feature selection) often is labor-intensive and limited by the experience of the intercally used for seismic interpretation, can provide faster, more repeatable, and less biased interpretations. We have recorded a 3D GPD data set collected across a paleokarst breccia pipe in the Billefjorden area on Spitsbergen, Svalbard. After performing advanced processing, we compare the results of a classical GPR interpretation to the results of an attribute-based classification.
Our attribute classification incorporates a selection of dip and textural attributes as the input for a k-means clustering approach. Similar to the results of the classical interpretation, the resulting classes differentiate between undisturbed strata and breccias or fault zones.
The classes also reveal details inside the breccia pipe that are not discerned in the classical fer that the intrapipe GPR facies result from subtle differences, such as breccia lithology, clast size, or pore-space filling.
Shallow earthquakes frequently disturb the hydrological and mechanical state of the subsurface, with consequences for hazard and water management. Transient post-seismic hydrological behavior has been widely reported, suggesting that the recovery of material properties (relaxation) following ground shaking may impact groundwater fluctuations. However, the monitoring of seismic velocity variations associated with earthquake damage and hydrological variations are often done assuming that both effects are independent. In a field site prone to highly variable hydrological conditions, we disentangle the different forcing of the relative seismic velocity variations delta v retrieved from a small dense seismic array in Nepal in the aftermath of the 2015 M-w 7.8 Gorkha earthquake. We successfully model transient damage effects by introducing a universal relaxation function that contains a unique maximum relaxation timescale for the main shock and the aftershocks, independent of the ground shaking levels. Next, we remove the modeled velocity from the raw data and test whether the corresponding residuals agree with a background hydrological behavior we inferred from a previously calibrated groundwater model. The fitting of the delta v data with this model is improved when we introduce transient hydrological properties in the phase immediately following the main shock. This transient behavior, interpreted as an enhanced permeability in the shallow subsurface, lasts for similar to 6 months and is shorter than the damage relaxation (similar to 1 yr). Thus, we demonstrate the capability of seismic interferometry to deconvolve transient hydrological properties after earthquakes from non-linear mechanical recovery.
Soil bacteria play a fundamental role in pedogenesis. However, knowledge about both the impact of climate and slope aspects on microbial communities and the consequences of these items in pedogenesis is lacking. Therefore, soil-bacterial communities from four sites and two different aspects along the climate gradient of the Chilean Coastal Cordillera were investigated. Using a combination of microbiological and physicochemical methods, soils that developed in arid, semi-arid, mediterranean, and humid climates were analyzed. Proteobacteria, Acidobacteria, Chloroflexi, Verrucomicrobia, and Planctomycetes were found to increase in abundance from arid to humid climates, while Actinobacteria and Gemmatimonadetes decreased along the transect. Bacterial-community structure varied with climate and aspect and was influenced by pH, bulk density, plant-available phosphorus, clay, and total organic-matter content. Higher bacterial specialization was found in arid and humid climates and on the south-facing slope and was likely promoted by stable microclimatic conditions. The presence of specialists was associated with ecosystem-functional traits, which shifted from pioneers that accumulated organic matter in arid climates to organic decomposers in humid climates. These findings provide new perspectives on how climate and slope aspects influence the composition and functional capabilities of bacteria, with most of these capabilities being involved in pedogenetic processes.
Aim
There is little evidence of the impact of diabetes risk scores on individual diabetes risk factors, motivation for behaviour changes and mental health. The aim of this study was to investigate the effect of applying a noninvasive diabetes risk score in primary care as component of routine health checks on physical activity and secondary outcomes.
Methods
Cluster randomised trial, in which primary care physicians (PCPs), randomised (1:1) by minimisation, enrolled participants with statutory health insurance without known diabetes, >= 35 years of age with a body mass index >= 27.0 kg/m(2). The German Diabetes Risk Score was applied as add-on to the standard routine health check, conducted in the controls. Primary outcome was the difference in participants' physical activity (International Physical Activity Questionnaire) after 12 months. Secondary outcomes included body mass index, perceived health, anxiety, depression, and motivation for lifestyle change. Analysis was by intention-to-treat principle using mixed models.
Results
36 PCPs were randomised; remaining 30 PCPs (intervention: n = 16; control: n = 14) recruited 315 participants (intervention: n = 153; controls: n = 162). A slight increase in physical activity was observed in the intervention group with an adjusted mean change of 388 (95% confidence interval: - 235; 1011) metabolic equivalents minutes per week. There were no relevant changes in secondary outcomes.
Conclusions
The application of a noninvasive diabetes risk score alone is not effective in promoting physical activity in primary care. Clinical Trial Registration: ClinicalTrials.gov (NCT03234322, registration date: July 31, 2017).
HCNO is a molecule of considerable astrochemical interest as a precursor to prebiotic molecules. It is synthesized by preparative pyrolysis and is unstable at room temperature. Here, we investigate its spectroscopy in the soft X-ray regime at the C 1s, N 1s and O 1s edges. All 1s ionization energies are reported and X-ray absorption spectra reveal the transitions from the 1s to the pi* state. Resonant and normal Auger electron spectra for the decay of the core hole states are recorded in a hemispherical analyzer. An assignment of the experimental spectra is provided with the aid of theoretical counterparts. The latter are using a valence configuration interaction representation of the intermediate and final state energies and wavefunctions, the one-center approximation for transition rates and band shapes according to the moment theory. The computed spectra are in very good agreement with the experimental data and most of the relevant bands are assigned. Additionally, we present a simple approach to estimate relative Auger transition rates on the basis of a minimal basis representation of the molecular orbitals. We demonstrate that this provides a qualitatively good and reliable estimate for several signals in the normal and resonant Auger electron spectra which have significantly different intensities in the decay of the three core holes.
The interplay between free charge carriers, charge transfer (CT) states and singlet excitons (S-1) determines the recombination pathway and the resulting open circuit voltage (V-OC) of organic solar cells.
By combining a well-aggregated low bandgap polymer with different blend ratios of the fullerenes PCBM and ICBA, the energy of the CT state (E-CT) is varied by 130 meV while leaving the S-1 energy of the polymer (ES1\[{E_{{{\rm{S}}_1}}}\]) unaffected.
It is found that the polymer exciton dominates the radiative properties of the blend when ECT\[{E_{{\rm{CT}}}}\] approaches ES1\[{E_{{{\rm{S}}_1}}}\], while the V-OC remains limited by the non-radiative decay of the CT state.
It is concluded that an increasing strength of the exciton in the optical spectra of organic solar cells will generally decrease the non-radiative voltage loss because it lowers the radiative V-OC limit (V-OC,V-rad), but not because it is more emissive.
The analysis further suggests that electronic coupling between the CT state and the S-1 will not improve the V-OC, but rather reduce the V-OC,V-rad.
It is anticipated that only at very low CT state absorption combined with a fairly high CT radiative efficiency the solar cell benefit from the radiative properties of the singlet excitons.
The region of West Bohemia and Upper Palatinate belongs to the West Bohemian Massif. The study area is situated at the junction of three different Variscan tectonic units and hosts the ENE-WSW trending Ohre Rift as well as many different fault systems. The entire region is characterized by ongoing magmatic processes in the intra-continental lithospheric mantle expressed by a series of phenomena, including e.g. the occurrence of repeated earthquake swarms and massive degassing of mantle derived CO2 in form of mineral springs and mofettes. Ongoing active tectonics is mainly manifested by Cenozoic volcanism represented by different Quaternary volcanic structures. All these phenomena make the Ohre Rift a unique target area for European intra-continental geo-scientific research. With magnetotelluric (MT) measurements we image the subsurface distribution of the electrical resistivity and map possible fluid pathways. Two-dimensional (2D) inversion results by Munoz et al. (2018) reveal a conductive channel in the vicinity of the earthquake swarm region that extends from the lower crust to the surface forming a pathway for fluids into the region of the mofettes. A second conductive channel is present in the south of their model; however, their 2D inversions allow ambiguous interpretations of this feature. Therefore, we conducted a large 3D MT field experiment extending the study area towards the south. The 3D inversion result matches well with the known geology imaging different fluid/magma reservoirs at crust-mantle depth and mapping possible fluid pathways from the reservoirs to the surface feeding known mofettes and spas. A comparison of 3D and 2D inversion results suggests that the 2D inversion results are considerably characterized by 3D and off-profile structures. In this context, the new results advocate for the swarm earthquakes being located in the resistive host rock surrounding the conductive channels; a finding in line with observations e.g. at the San Andreas Fault, California.
Understanding catchment controls on catchment solute export is a prerequisite for water quality management. StorAge Selection (SAS) functions encapsulate essential information about catchment functioning in terms of discharge selection preference and solute export dynamics. However, they lack information on the spatial origin of solutes when applied at the catchment scale, thereby limiting our understanding of the internal (subcatchment) functioning. Here, we parameterized SAS functions in a spatially explicit way to understand the internal catchment responses and transport dynamics of reactive dissolved nitrate (N-NO3). The model was applied in a nested mesoscale catchment (457 km(2)), consisting of a mountainous partly forested, partly agricultural subcatchment, a middle-reach forested subcatchment, and a lowland agricultural subcatchment. The model captured flow and nitrate concentration dynamics not only at the catchment outlet but also at internal gauging stations. Results reveal disparate subsurface mixing dynamics and nitrate export among headwater and lowland subcatchments. The headwater subcatchment has high seasonal variation in subsurface mixing schemes and younger water in discharge, while the lowland subcatchment has less pronounced seasonality in subsurface mixing and much older water in discharge. Consequently, nitrate concentration in discharge from the headwater subcatchment shows strong seasonality, whereas that from the lowland subcatchment is stable in time. The temporally varying responses of headwater and lowland subcatchments alternate the dominant contribution to nitrate export in high and low-flow periods between subcatchments. Overall, our results demonstrate that the spatially explicit SAS modeling provides useful information about internal catchment functioning, helping to develop or evaluate spatial management practices.
The subsequent observing runs of the advanced gravitational-wave detector network will likely provide us with various gravitational-wave observations of binary neutron star systems. For an accurate interpretation of these detections, we need reliable gravitational-wave models. To test and to point out how existing models could be improved, we perform a set of high-resolution numerical relativity simulations for four different physical setups with mass ratios q = 1.25, 1.50, 1.75, 2.00, and total gravitational mass M = 2.7 M???. Each configuration is simulated with five different resolutions to allow a proper error assessment. Overall, we find approximately second-order converging results for the dominant (2,2) mode, but also the subdominant (2,1), (3,3), and (4,4) modes, while generally, the convergence order reduces slightly for an increasing mass ratio. Our simulations allow us to validate waveform models, where we find generally good agreement between state-of-the-art models and our data, and to prove that scaling relations for higher modes currently employed for binary black hole waveform modeling also apply for the tidal contribution. Finally, we also test if the current NRTidal model used to describe tidal effects is a valid description for high-mass-ratio systems. We hope that our simulation results can be used to further improve and test waveform models in preparation for the next observing runs.
Genomic prediction has revolutionized crop breeding despite remaining issues of transferability of models to unseen environmental conditions and environments. Usage of endophenotypes rather than genomic markers leads to the possibility of building phenomic prediction models that can account, in part, for this challenge. Here, we compare and contrast genomic prediction and phenomic prediction models for 3 growth-related traits, namely, leaf count, tree height, and trunk diameter, from 2 coffee 3-way hybrid populations exposed to a series of treatment-inducing environmental conditions. The models are based on 7 different statistical methods built with genomic markers and ChlF data used as predictors. This comparative analysis demonstrates that the best-performing phenomic prediction models show higher predictability than the best genomic prediction models for the considered traits and environments in the vast majority of comparisons within 3-way hybrid populations. In addition, we show that phenomic prediction models are transferrable between conditions but to a lower extent between populations and we conclude that chlorophyll a fluorescence data can serve as alternative predictors in statistical models of coffee hybrid performance. Future directions will explore their combination with other endophenotypes to further improve the prediction of growth-related traits for crops.
Free base 5,10,15,20-tetrakis(4-carboxylatophenyl)porphyrin stands for the class of powerful porphyrin photosensitizers for singlet oxygen generation and light-harvesting. The atomic level selectivity of dynamic UV pump - N K-edge probe X-ray absorption spectroscopy in combination with time-dependent density functional theory (TD-DFT) gives direct access to the crucial excited molecular states within the unusual relaxation pathway.
The efficient intersystem crossing, that is El-Sayed forbidden and not facilitated by a heavy atom is confirmed to be the result of the long singlet excited state lifetime (Q(x) 4.9 ns) and thermal effects.
Overall, the interplay of stabilization by conservation of angular momenta and vibronic relaxation drive the de-excitation in these chromophores.
Fragmentation of peptides leaves characteristic patterns in mass spectrometry data, which can be used to identify protein sequences, but this method is challenging for mutated or modified sequences for which limited information exist. Altenburg et al. use an ad hoc learning approach to learn relevant patterns directly from unannotated fragmentation spectra.
Mass spectrometry-based proteomics provides a holistic snapshot of the entire protein set of living cells on a molecular level. Currently, only a few deep learning approaches exist that involve peptide fragmentation spectra, which represent partial sequence information of proteins.
Commonly, these approaches lack the ability to characterize less studied or even unknown patterns in spectra because of their use of explicit domain knowledge.
Here, to elevate unrestricted learning from spectra, we introduce 'ad hoc learning of fragmentation' (AHLF), a deep learning model that is end-to-end trained on 19.2 million spectra from several phosphoproteomic datasets. AHLF is interpretable, and we show that peak-level feature importance values and pairwise interactions between peaks are in line with corresponding peptide fragments.
We demonstrate our approach by detecting post-translational modifications, specifically protein phosphorylation based on only the fragmentation spectrum without a database search. AHLF increases the area under the receiver operating characteristic curve (AUC) by an average of 9.4% on recent phosphoproteomic data compared with the current state of the art on this task.
Furthermore, use of AHLF in rescoring search results increases the number of phosphopeptide identifications by a margin of up to 15.1% at a constant false discovery rate. To show the broad applicability of AHLF, we use transfer learning to also detect cross-linked peptides, as used in protein structure analysis, with an AUC of up to 94%.
In the past decade, sediment connectivity has become a widely recognized characteristic of a geomorphic system. However, the quantification of functional connectivity (i.e. connectivity which arises due to the actual occurrence of sediment transport processes) and its variation over space and time is still a challenge. In this context, this study assesses the effects of expected future phenomena in the context of climate change (i.e. glacier retreat, permafrost degradation or meteorological extreme events) on sediment transport dynamics in a glacierised Alpine basin. The study area is the Sulden river basin (drainage area 130 km(2)) in the Italian Alps, which is composed of two geomorphologically diverse sub-basins. Based on graph theory, we evaluated the spatio-temporal variations in functional connectivity in these two sub-basins. The graph-object, obtained by manually mapping sediment transport processes between landforms, was adapted to 6 different hydro-meteorological scenarios, which derive from combining base, heatwave and rainstorm conditions with snowmelt and glacier-melt periods. For each scenario and each sub-basin, the sediment transport network and related catchment characteristics were analysed. To compare the effects of the scenarios on functional connectivity, we introduced a connectivity degree, calculated based on the area of the landforms involved in sediment cascades. Results indicate that the area of the basin connected to its outlet in terms of sediment transport might feature a six-fold increase in case of rainstorm conditions compared to "average " meteorological conditions assumed for the base scenario. Furthermore, markedly different effects of climate change on sediment connectivity are expected between the two sub-catchments due to their contrasting morphological and lithological characteristics, in terms of relative importance of rainfall triggered colluvial processes vs temperature-driven proglacial fluvial dynamics.
EC 22536-5304
(2021)
Helium-burning hot subdwarf stars of spectral types O and B (sdO/B) are thought to be produced through various types of binary interactions. The helium-rich hot subdwarf star EC 22536-5304 was recently found to be extremely enriched in lead. Here, we show that EC 22536-5304 is a binary star with a metal-poor subdwarf F-type (sdF) companion. We performed a detailed analysis of high-resolution SALT/HRS and VLT/UVES spectra, deriving metal abundances for the hot subdwarf, as well as atmospheric parameters for both components. Because we consider the contribution of the sdF star, the derived lead abundance for the sdOB, + 6.3 +/- 0.3 dex relative to solar, is even higher than previously thought. We derive T-eff = 6210 +/- 70 K, log g = 4.64 +/- 0.10, [FE/H] = - 1.95 +/- 0.04, and [alpha/Fe] = + 0.40 +/- 0.04 for the sdF component. Radial velocity variations, although poorly sampled at present, indicate that the binary system has a long orbital period of about 457 days. This suggests that the system was likely formed through stable Roche lobe overflow (RLOF). A kinematic analysis shows that EC 22536-5304 is on an eccentric orbit around the Galactic centre. This, as well as the low metallicity and strong alpha enhancement of the sdF-type companion, indicate that EC 22536-5304 is part of the Galactic halo or metal-weak thick disc. As the first long-period hot subdwarf binary at [FE/H] less than or similar to- 1, EC 22536-5304 may help to constrain the RLOF mechanism for mass transfer from low-mass, low-metallicity red giant branch (RGB) stars to main-sequence companions.
Reducing greenhouse gas emissions in food systems is becoming more challenging as food is increasingly consumed away from producer regions, highlighting the need to consider emissions embodied in trade in agricultural emissions accounting.
To address this, our study explores recent trends in trade-adjusted agricultural emissions of food items at the global, regional, and national levels.
We find that emissions are largely dependent on a country’s consumption patterns and their agricultural emission intensities relative to their trading partners’.
The absolute differences between the production-based and trade-adjusted emissions accounting approaches are especially apparent for major agricultural exporters and importers and where large shares of emission-intensive items such as ruminant meat, milk products and rice are involved.
In relative terms, some low-income and emerging and developing economies with consumption of high emission intensity food products show large differences between approaches.
Similar trends are also found under various specifications that account for trade and re-exports differently.
These findings could serve as an important element towards constructing national emissions reduction targets that consider trading partners, leading to more effective emissions reductions overall.