bluuebunny/crossref_metadata_2025_split huggingface dataset:
Extension and validation of a revised Cassie-Baxter model for tailor-made surface topography design and controlled wettability
Authors: Lempesis Nikolaos , Koopmans Rudolf J , Díez-Ahedo Ruth , Kristiansen Per Magnus 
Published: April 2021

Abstract
Predicting wettability accurately across various materials, surface topographies and wetting liquids is undeniably of paramount importance as it sets the foundations for technological developments related to improved life quality, energy saving and economization of resources, thereby reducing the environmental impact for recycling and reuse. In this work, we extend and validate our recently published wetting model, constituting a refinement of the original Cassie-Baxter model after consideration of realistic curved liquid-air interfaces. Our model enabled more meaningful contact angle predictions, while it captured the experimentally observed trends between contact angle and surface roughness. Here, the formalism of our wetting model is further extended to 3D surface topographies, whereas the validity of our model, in its entirety, is evaluated. To this end, a total of thirty-two experimentally engineered surfaces of various materials exhibiting single- and multilevel hierarchical topographies of increasing complexity were utilized. Our model predictions were consistently in remarkable agreement with experimental data (deviations of 3%–6%) and, in most cases, within statistical inaccuracies of the experimental measurements. Direct comparison between experiments and modeling results corroborated that surface topographies featuring re-entrant geometries promoted enhanced liquid-repellency, whereas hierarchical multilevel surface topographies enabled even more pronounced nonwetting behaviors. For the sinusoidal topography, consideration of a second superimposing topography level almost doubled the observed water contact angles, whereas addition of a third level brought about an extra 12.5% increase in water contact angle.
Achieving a quantum smart workforce
Authors: Aiello Clarice D , Awschalom D D , Bernien Hannes , Brower Tina , Brown Kenneth R , Brun Todd A , Caram Justin R , Chitambar Eric , Di Felice Rosa , Edmonds Karina Montilla , Fox Michael F J , Haas Stephan , Holleitner Alexander W , Hudson Eric R , Hunt Jeffrey H , Joynt Robert , Koziol Scott , Larsen M , Lewandowski H J , McClure Doug T , Palsberg Jens , Passante Gina , Pudenz Kristen L , Richardson Christopher J K , Rosenberg Jessica L , Ross R S , Saffman Mark , Singh M , Steuerman David W , Stark Chad , Thijssen Jos , Vamivakas A Nick , Whitfield James D , Zwickl Benjamin M 
Published: April 2021

Abstract
Interest in building dedicated quantum information science and engineering (QISE) education programs has greatly expanded in recent years. These programs are inherently convergent, complex, often resource intensive and likely require collaboration with a broad variety of stakeholders. In order to address this combination of challenges, we have captured ideas from many members in the community. This manuscript not only addresses policy makers and funding agencies (both public and private and from the regional to the international level) but also contains needs identified by industry leaders and discusses the difficulties inherent in creating an inclusive QISE curriculum. We report on the status of eighteen post-secondary education programs in QISE and provide guidance for building new programs. Lastly, we encourage the development of a comprehensive strategic plan for quantum education and workforce development as a means to make the most of the ongoing substantial investments being made in QISE.
Dispersive readout of room-temperature ensemble spin sensors
Authors: Ebel J , Joas T , Schalk M , Weinbrenner P , Angerer A , Majer J , Reinhard F 
Published: April 2021

Abstract
We demonstrate dispersive readout of the spin of an ensemble of nitrogen-vacancy centers in a high-quality dielectric microwave resonator at room temperature. The spin state is inferred from the reflection phase of a microwave signal probing the resonator. Time-dependent tracking of the spin state is demonstrated, and is employed to measure the T
1 relaxation time of the spin ensemble. Dispersive readout provides a microwave interface to solid state spins, translating a spin signal into a microwave phase shift. We estimate that its sensitivity can outperform optical readout schemes, owing to the high accuracy achievable in a measurement of phase. The scheme is moreover applicable to optically inactive spin defects and it is non-destructive, which renders it insensitive to several systematic errors of optical readout and enables the use of quantum feedback.
Coral Reefs: A Very Short Introduction
Authors: Sheppard Charles 
Published: April 2021

Abstract
Reefs and the coral life that builds them were for centuries a source of mystery to naturalists and hazard to seafarers. Many ideas were developed of what built them and why they all existed so close to sea level but never above it. Darwin developed the theory of how they were built, which was proven a century later. The coral polyp is central to each coral colony and to the reef. Each houses countless symbiotic algal cells that provide the energy that supports the coral reef ecosystem, and the energy needed to extract minerals from seawater to deposit as solid limestone. These are the ocean’s most biodiverse ecosystem. The islands perched on them include many entire nations, and reefs provide land, food, and protection to these as well as parts of many others. The diversity and abundance of other species, from microbial systems that are key to nutrient and energy transfer, to the large predatory fish, are similarly vast, and various components of the reef system have been researched intensively since the advent of scuba techniques. Today, however, local impacts and pressures from pollution to overfishing have degraded and damaged many, and more recently, warming of ocean water resulting from climate change is causing an existential threat to the survival of this rich ecosystem. Arresting the decline is no longer a scientific problem but one for society and governments, and failure to do so will result, indeed already is, in untold damage to human societies that depend on coral reefs.
Mitochondrial DNA as a Molecular Marker in Insect Ecology: Current Status and Future Prospects
Authors: Dong Zhaoke , Wang Yangzhou , Li Chao , Li Lili , Men Xingyuan 
Published: April 2021

Abstract
Molecular techniques are powerful tools that can address many research problems in insect ecology. Mitochondrial DNA (mtDNA) is a widely used molecular marker. It is easy to use and has favorable biological properties, such as near-neutrality, lack of recombination, and a clock-like evolutionary rate. However, there are some issues involved when using mtDNA data in population genetics, species delimitation, and estimating the evolutionary history of populations and species. Exceptions to the simplicity of mitochondrial inheritance and other limitations include small effective population sizes, maternal inheritance, and complex evolutionary processes. Combining mtDNA and nuclear DNA markers can improve the power of molecular data to test phylogenetic and phylogeographic hypotheses. We review the applications of mtDNA in insect ecology and conclude that a better understanding of the properties of mitochondria is essential for the application of mtDNA.
The Question of Comparison
Authors: Petretta Ida 
Published: April 2021

Abstract
Comparison is a key component of legal reasoning. We move merrily from like to like within the doctrine of precedent. We invoke comparison whenever we distinguish or apply a case. This Article begins by elucidating how comparison is present in law. The Article shows how law cannot function without comparison, and how the legal world skips over the central role comparison plays in these matters. The Article explores the literature on legal comparison and draws on insights from philosophy, comparative law, and anthropology to better understand comparison in practice. This Article argues that while we are entangled in the questions of sameness and difference, of finding the function and tying together, we are still not asking the question of comparison. What is function and how is it related to comparison? Inspired by James Tully’s writings, the Article explores the aspectival views of the legal world suggested by the different games of comparison. The Article draws on Stephen Mulhall’s work on Wittgenstein’s seeing as, aspect dawning, and aspect blindness to further ask about our relationship to comparison. The Article shows how mainstream comparisons are ontic comparisons that think togetherness through the comparatist. The comparatist steers the belonging together and (un)makes the meaning of all things in mainstream comparison. The argument builds on earlier work by Igor Stramignoni, showing how the Western legal tradition is within a kind of Heideggerian calculative thinking. The Article explores the possibility of other kinds of comparison through Stramignoni’s poetic comparisons. This Article calls on us to slow down our comparisons and begin to question comparison itself.
Is Protestant Interpretation an Acceptable Attitude Toward Normative Social Practices? An Analysis of Dworkin and Postema
Authors: Bustamante Thomas 
Published: April 2021

Abstract:
Gerald Postema raised a powerful challenge to Ronald Dworkin’s theory of interpretation. By allowing each interpreter to make her own judgment about the content of a social norm, Dworkinian interpretation becomes insufficiently intersubjective and insufficiently political. In previous work, I argued that this criticism must be rejected because Postema’s own account of law, analogical reasoning, and the rule of law requires one to make a reflected judgment and hold other actors accountable to the law. Nevertheless, a powerful objection claims that protestant interpretation is incompatible with the first person-plural reasoning that an intersubjective social practice requires. In response to the objection, I argue that no such incompatibility exists. On closer examination, protestant interpretation is part of the attitude that a rational agent must adopt if she is to acquit her moral responsibilities as a participant in a social practice.
Estimating Historical Exposure to Respirable Crystalline Silica in the Mining Industry in Ontario, Canada Using a Newly Developed Exposure Database
Authors: Blagrove-Hall Nicola , Berriault Colin , Jardine Katherine J , Demers Paul A , Arrandale Victoria H 
Published: April 2021

Abstract

Objectives
To use the recently developed Ontario Mining Exposure Database (OMED) to describe historical silica exposure in the Ontario metal mining industry and identify predictors of historical silica exposure.

Methods
Personal respirable crystalline silica (RCS) data for metal mines were extracted from OMED and included both individual and summary measures, where multiple exposure measurements (n &gt; 1) were aggregated and entered as a single exposure value (n = 1). Data were stratified by sample location (underground/surface) for analysis. Monte Carlo simulation was used to simulate individual measures from the summary measures. A fixed effects multiple linear regression model was used to assess the effects of commodity (ore mined), sample year, source of exposure data, and occupational group on RCS concentration. Parameter estimates (β), standard errors, and 95% upper and lower confidence intervals were reported.

Results
The OMED contained 12 995 silica measurements. After limiting to RCS measurements in metal mines, and measures with sufficient information for analysis, 2883 RCS measurements collected from 1974 to 1991 remained, including 2816 individual and 67 summary measurements. In total, 321 individual RCS measurements were simulated from the 67 summary measures. The analysis database contained 2771 (12% simulated) underground measurements and 366 surface measurements (0% simulated). In the underground group, an overall geometric mean (GM) of 0.05 [geometric standard deviation (GSD) 3.09] mg m−3 was estimated with a 6% annual decrease over time. In this group, the commodity with the highest average RCS level was zinc mines (GM = 0.07 mg m−3) and the lowest was iron mines (GM = 0.01 mg m−3). In the surface group, an overall GM of 0.05 (GSD 3.70) mg m−3 was estimated with an 8% decreased over time. In this group, the commodity with the highest average RCS level was gold mines (GM = 0.07 mg m−3) and the lowest was zinc mines (GM = 0.03 mg m−3). In both groups, company collected data had lower estimated RCS compared with regulator collected data.

Conclusions
Historical RCS levels decreased over time. Mean measurements exceeded the American Conference of Governmental Industrial Hygienists current health-based threshold limit value (0.025 mg m−3). The main predictors of exposure were commodity, source of exposure data, and sample year. However, low R2 and high GSD values suggest additional predictors of RCS exposures in Ontario’s metal mines exist that were unavailable in OMED.
Identifying Risks for Persistent Postconcussive Symptoms in a Pediatric Emergency Department: An Examination of a Clinical Risk Score
Authors: Root J M , Gai J , Sady M D , Vaughan C G , Madati P J 
Published: April 2021

Abstract

Objective
External examination of a clinical risk score to predict persistent postconcussive symptoms (PPCS) in a pediatric emergency department (ED).

Methods
Prospective cohort study of 5- to 18-year-old patients diagnosed with an acute concussion. Risk factors were collected at diagnosis and participants (n = 85) were followed to determine PPCS 30 days postinjury. Univariate logistic regression analyses were completed to examine associations of risk factors with PPCS.

Results
Headache and total clinical risk score were associated with increased odds of PPCS in the univariate analyses, OR 3.37 (95% CI 1.02, 11.10) and OR 1.25 (95% CI 1.02, 1.52), respectively. Additionally, teenage age group, history of prolonged concussions, and risk group trended toward association with PPCS, OR 4.79 (95% CI 0.93, 24.7), OR 3.41 (95% CI 0.88, 13.20), and OR 2.23 (95% CI 0.88, 5.66), respectively.

Conclusion
Our study supports the use of multiple variables of a clinical risk score to assist with ED risk stratification for pediatric patients at risk for PPCS.
Acoustic and visual stimuli combined promote stronger responses to aerial predation in fish
Authors: Lukas Juliane , Romanczuk Pawel , Klenz Haider , Klamser Pascal , Arias Rodriguez Lenin , Krause Jens , Bierbach David 
Published: April 2021

AbstractBird predation poses a strong selection pressure on fish. Since birds must enter the water to catch fish, a combination of visual and mechano-acoustic cues (multimodal) characterize an immediate attack, while single cues (unimodal) may represent less dangerous disturbances. We investigated whether fish could use this information to distinguish between non-threatening and dangerous events and adjust their antipredator response to the perceived level of risk. To do so, we investigated the antipredator behavior of the sulphur molly (Poecilia sulphuraria), a small freshwater fish which is almost exclusively preyed on by piscivorous birds in its endemic sulfide spring habitat. In a field survey, we confirmed that these fish frequently have to distinguish between disturbances stemming from attacking birds (multimodal) and those which pose no (immediate) threat such as bird overflights (unimodal). In a laboratory experiment, we then exposed fish to artificial visual and/or acoustic stimuli presented separately or combined. Sensitivity was high regardless of stimulus type and number (more than 96% of fish initiated diving), but fish dove deeper, faster, and for longer when both stimuli were available simultaneously. Based on the system’s high rates of bird activity, we argue that such an unselective dive initiation with subsequent fine-tuning of diving parameters in accordance to cue modality represents an optimal strategy for these fish to save energy necessary to respond to future attacks. Ultimately, our study shows that fish anticipate the imminent risk posed by disturbances linked to bird predation through integrating information from both visual and acoustic cues.
Artificial light at night alters activity, body mass, and corticosterone level in a tropical anuran
Authors: Secondi Jean , Mondy Nathalie , Gippet Jérôme Marcel Walter , Touzot Morgane , Gardette Vanessa , Guillard Ludovic , Lengagne Thierry 
Published: April 2021

Abstract
Photoperiod is a major factor regulating biological rhythms in animals and plants. At low latitudes, annual variation in daylength is low and species are expected to strongly rely on photic cues to reset their circadian clocks. A corollary is that individuals should be strongly affected by sudden changes in the photic regime as those generated by artificial light at night (ALAN). We tested this hypothesis in an anuran in Costa Rica (10°N). Using an outdoor experimental design, we exposed adult cane toads Rhinella marina, a broadly distributed tropical anuran species to two ALAN intensities (0.04 and 5 lx). Locomotor activity was reduced at the lowest intensity, and the activity pattern shifted from crepuscular to nocturnal. Contrary to humans and mice in which ALAN favor obesity, toads from the two exposed groups did not gain mass whereas controls did. Corticosterone was reduced at the highest intensity, a possible consequence of the reduced activity of toads or the altered regulation of their circadian pattern. Thus, the behavioral and physiological disruption that we observed supports the hypothesis of the strong reliance on photic cues to regulate circadian rhythms and control homeostasis in this intertropical anuran. Furthermore, our results suggest that the negative effects of ALAN on physiology, in particular body mass regulation, may differ between vertebrate groups, thus preventing anticipated generalization before more comparative studies have been carried out. We stress the importance of considering the impact of the changing nocturnal environment in the intertropical zone which host the largest fraction of biodiversity.
Social and spatial conflict drive resident aggression toward outsiders in a group-living fish
Authors: Gübel Jakob , Bose Aneesh P H , Jordan Alex 
Published: April 2021

AbstractGroup-living animals often experience within-group competition for resources like shelter and space, as well as for social status. Because of this conflict, residents may aggressively resist joining attempts by new members. Here, we asked whether different forms of competition mediate this response, specifically competition over 1) shelter, 2) spatial position within groups, and 3) social or sexual roles. We performed experiments on wild groups of Neolamprologus multifasciatus cichlids in Lake Tanganyika, either increasing or decreasing the number of shelters (empty snail shells) within their territories. We predicted that increases in resource abundance would reduce conflict and lower the aggression of residents toward presented conspecifics, while decreases in resources would increase aggression. We explored the effects of social conflict and spatial arrangement by introducing same or opposite sex conspecifics, at greater or lesser distances from resident subterritories. We found that changing the abundance of shells had no detectable effect on the responses of residents to presented conspecifics. Rather, aggression was strongly sex-dependent, with male residents almost exclusively aggressing presented males, and female residents almost exclusively aggressing presented females. For females, this aggression was influenced by the spatial distances between the presented conspecific and the resident female subterritory, with aggression scaling with proximity. In contrast, presentation distance did not influence resident males, which were aggressive to all presented males regardless of location. Overall, our results show that group residents respond to presented conspecifics differently depending on the type of competitive threat these potential joiners pose.
ARAMIS: From systematic errors of NGS long reads to accurate assemblies
Authors: Sacristán-Horcajada E , González-de la Fuente S , Peiró-Pastor R , Carrasco-Ramiro F , Amils R , Requena J M , Berenguer J , Aguado B 
Published: April 2021

Abstract
NGS long-reads sequencing technologies (or third generation) such as Pacific BioSciences (PacBio) have revolutionized the sequencing field over the last decade improving multiple genomic applications like de novo genome assemblies. However, their error rate, mostly involving insertions and deletions (indels), is currently an important concern that requires special attention to be solved. Multiple algorithms are available to fix these sequencing errors using short reads (such as Illumina), although they require long processing times and some errors may persist.
Here, we present Accurate long-Reads Assembly correction Method for Indel errorS (ARAMIS), the first NGS long-reads indels correction pipeline that combines several correction software in just one step using accurate short reads. As a proof OF concept, six organisms were selected based on their different GC content, size and genome complexity, and their PacBio-assembled genomes were corrected thoroughly by this pipeline. We found that the presence of systematic sequencing errors in long-reads PacBio sequences affecting homopolymeric regions, and that the type of indel error introduced during PacBio sequencing are related to the GC content of the organism. The lack of knowledge of this fact leads to the existence of numerous published studies where such errors have been found and should be resolved since they may contain incorrect biological information.
ARAMIS yields better results with less computational resources needed than other correction tools and gives the possibility of detecting the nature of the found indel errors found and its distribution along the genome. The source code of ARAMIS is available at https://github.com/genomics-ngsCBMSO/ARAMIS.git
A machine learning framework to predict antibiotic resistance traits and yet unknown genes underlying resistance to specific antibiotics in bacterial strains
Authors: Sunuwar Janak , Azad Rajeev K 
Published: April 2021

AbstractRecently, the frequency of observing bacterial strains without known genetic components underlying phenotypic resistance to antibiotics has increased. There are several strains of bacteria lacking known resistance genes; however, they demonstrate resistance phenotype to drugs of that family. Although such strains are fewer compared to the overall population, they pose grave emerging threats to an already heavily challenged area of antimicrobial resistance (AMR), where death tolls have reached ~700 000 per year and a grim projection of ~10 million deaths per year by 2050 looms. Considering the fact that development of novel antibiotics is not keeping pace with the emergence and dissemination of resistance, there is a pressing need to decipher yet unknown genetic mechanisms of resistance, which will enable developing strategies for the best use of available interventions and show the way for the development of new drugs. In this study, we present a machine learning framework to predict novel AMR factors that are potentially responsible for resistance to specific antimicrobial drugs. The machine learning framework utilizes whole-genome sequencing AMR genetic data and antimicrobial susceptibility testing phenotypic data to predict resistance phenotypes and rank AMR genes by their importance in discriminating the resistance from the susceptible phenotypes. In summary, we present here a bioinformatics framework for training machine learning models, evaluating their performances, selecting the best performing model(s) and finally predicting the most important AMR loci for the resistance involved.