bluuebunny/crossref_metadata_2025_split huggingface dataset:
Refinement of the Protein Immunomarking Technique for Mark-Capture Research
Authors: Hagler James R , Machtley Scott A 
Published: March 2020

Abstract
A follow-up study was conducted to further evaluate the marking efficiency of broadcast spray applications of egg albumin (from chicken egg whites) on Hippodamia convergens Guérin-Méneville (Coleoptera: Coccinellidae) in alfalfa. A previous study recorded exceptional marking efficiency (e.g., &gt;95% of the population) on H. convergens when using relatively high concentrations (10 to 50%) of chicken egg whites. The present study examines marking efficiency of egg whites using lower concentrations of 2.5, 5.0, and 10.0%. We used cadaver and free-roaming beetles to measure protein mark acquisition (and retention) of each protein concentration by direct contact with the spray application and incidental contact with protein residue on the plant tissue, respectively. The vertical distribution of the protein mark was also determined by sampling the upper and lower portions of the alfalfa canopy. The data indicate, regardless of the egg white treatment, that the backpack sprayer provided uniform coverage of egg albumin on the alfalfa plants and cadaver beetles. Also, almost every free-roaming beetle acquired a mark within 24 h after contact exposure to protein marked plants. This study shows that a very low concentration of egg albumin is sufficient for marking arthropods directly in the field.
Putting the Pieces Together: Completing the Mechanism of Action Jigsaw for Sipuleucel-T
Authors: Madan Ravi A , Antonarakis Emmanuel S , Drake Charles G , Fong Lawrence , Yu Evan Y , McNeel Douglas G , Lin Daniel W , Chang Nancy N , Sheikh Nadeem A , Gulley James L 
Published: March 2020

AbstractSipuleucel-T is an autologous cellular immunotherapy that induces an immune response targeted against prostatic acid phosphatase (PAP) to treat asymptomatic or minimally symptomatic metastatic castration-resistant prostate cancer. In the phase III IMPACT study, sipuleucel-T was associated with a statistically significantly increased overall survival (OS) (median = 4.1 months) vs placebo. Patients with baseline prostate-specific antigen levels in the lowest quartile (≤22.1 ng/mL) exhibited a 13-month improvement in OS with sipuleucel-T. Together, this led sipuleucel-T to be approved and recommended as first-line therapy in various guidelines for treatment of metastatic castration-resistant prostate cancer. This review discusses the varied findings about the mechanisms of action of sipuleucel-T, bringing them together to form a more coherent picture. These pieces include inducing a statistically significant increase in antigen-presenting cell activation; inducing a peripheral immune response specific to the target (PAP) and/or immunizing (PA2024) antigens; stimulating systemic cytotoxic T-lymphocyte activity; and mediating antigen spread (ie, increased antibody responses to secondary proteins in addition to PAP and PA2024). Each of these pieces individually correlates with OS. Sipuleucel-T also traffics T cells to the prostate and is associated with long-term immune memory such that a second course of treatment induces an anamnestic immune response. Prostate cancer does not have a strongly inflamed microenvironment, thus its response to immune checkpoint inhibitors is limited. Because sipuleucel-T is able to traffic T cells to the tumor, it may be an ideal combination partner with immunotherapies including immune checkpoint inhibitors or with radiation therapy.
Pre-akinete formation in Zygnema sp. from polar habitats is associated with metabolite re-arrangement
Authors: Arc Erwann , Pichrtová Martina , Kranner Ilse , Holzinger Andreas 
Published: March 2020

AbstractIn streptophytic green algae in the genus Zygnema, pre-akinete formation is considered a key survival strategy under extreme environmental conditions in alpine and polar regions. The transition from young, dividing cells to pre-akinetes is associated with morphological changes and the accumulation of storage products. Understanding the underlying metabolic changes could provide insights into survival strategies in polar habitats. Here, GC-MS-based metabolite profiling was used to study the metabolic signature associated with pre-akinete formation in Zygnema sp. from polar regions under laboratory conditions, induced by water and nutrient depletion, or collected in the field. Light microscopy and TEM revealed drastic changes in chloroplast morphology and ultrastructure, degradation of starch grains, and accumulation of lipid bodies in pre-akinetes. Accordingly, the metabolite profiles upon pre-akinete formation reflected a gradual shift in metabolic activity. Compared with young cells, pre-akinetes showed an overall reduction in primary metabolites such as amino acids and intermediates of the tricarboxylic acid (TCA) cycle, consistent with a lower metabolic turnover, while they accumulated lipids and oligosaccharides. Overall, the transition to the pre-akinete stage involves re-allocation of photosynthetically fixed energy into storage instead of growth, supporting survival of extreme environmental conditions.
Defence against the modern arts: the curse of statistics—Part II: ‘Score-based likelihood ratios’
Authors: Neumann Cedric , Ausdemore Madeline 
Published: March 2020

Abstract
For several decades, legal and scientific scholars have argued that conclusions from forensic examinations should be supported by statistical data and reported within a probabilistic framework. Multiple models have been proposed to quantify and express the probative value of forensic evidence. Unfortunately, the use of statistics to perform inferences in forensic science adds a layer of complexity that most forensic scientists, court officers and lay individuals are not armed to handle. Many applications of statistics to forensic science rely on ad-hoc strategies and are not scientifically sound. The opacity of the technical jargon used to describe probabilistic models and their results, and the complexity of the techniques involved make it very difficult for the untrained user to separate the wheat from the chaff. This series of papers is intended to help forensic scientists and lawyers recognize limitations and issues in tools proposed to interpret the results of forensic examinations. This article focuses on tools that have been proposed to leverage the use of similarity scores to assess the probative value of forensic findings. We call this family of tools ‘score-based likelihood ratios’. In this article, we present the fundamental concepts on which these tools are built, we describe some specific members of this family of tools, and we compare them explore to the Bayes factor through an intuitive geometrical approach and through simulations. Finally, we discuss their validation and their potential usefulness as a decision-making tool in forensic science.
Elevated ionizing photon production efficiency in faint high-equivalent-width Lyman-α emitters
Authors: Maseda Michael V , Bacon Roland , Lam Daniel , Matthee Jorryt , Brinchmann Jarle , Schaye Joop , Labbe Ivo , Schmidt Kasper B , Boogaard Leindert , Bouwens Rychard , Cantalupo Sebastiano , Franx Marijn , Hashimoto Takuya , Inami Hanae , Kusakabe Haruka , Mahler Guillaume , Nanayakkara Themiya , Richard Johan , Wisotzki Lutz 
Published: March 2020

ABSTRACT
While low-luminosity galaxies dominate number counts at all redshifts, their contribution to cosmic reionization is poorly understood due to a lack of knowledge of their physical properties. We isolate a sample of 35 z ≈ 4–5 continuum-faint Lyman-α emitters from deep VLT/MUSE spectroscopy and directly measure their H α emission using stacked Spitzer/IRAC Ch. 1 photometry. Based on Hubble Space Telescope imaging, we determine that the average UV continuum magnitude is fainter than −16 (≈ 0.01 L⋆), implying a median Lyman-α equivalent width of 259 Å. By combining the H α measurement with the UV magnitude, we determine the ionizing photon production efficiency, ξion, a first for such faint galaxies. The measurement of log10 (ξion [Hz erg−1]) = 26.28 ($^{+0.28}_{-0.40}$) is in excess of literature measurements of both continuum- and emission line-selected samples, implying a more efficient production of ionizing photons in these lower luminosity, Lyman-α-selected systems. We conclude that this elevated efficiency can be explained by stellar populations with metallicities between 4 × 10−4 and 0.008, with light-weighted ages less than 3 Myr.
Convergent Losses of TLR5 Suggest Altered Extracellular Flagellin Detection in Four Mammalian Lineages
Authors: Sharma Virag , Hecker Nikolai , Walther Felix , Stuckas Heiko , Hiller Michael 
Published: March 2020

Abstract
Toll-like receptors (TLRs) play an important role for the innate immune system by detecting pathogen-associated molecular patterns. TLR5 encodes the major extracellular receptor for bacterial flagellin and frequently evolves under positive selection, consistent with coevolutionary arms races between the host and pathogens. Furthermore, TLR5 is inactivated in several vertebrates and a TLR5 stop codon polymorphism is widespread in human populations. Here, we analyzed the genomes of 120 mammals and discovered that TLR5 is convergently lost in four independent lineages, comprising guinea pigs, Yangtze river dolphin, pinnipeds, and pangolins. Validated inactivating mutations, absence of protein-coding transcript expression, and relaxed selection on the TLR5 remnants confirm these losses. PCR analysis further confirmed the loss of TLR5 in the pinniped stem lineage. Finally, we show that TLR11, encoding a second extracellular flagellin receptor, is also absent in these four lineages. Independent losses of TLR5 and TLR11 suggest that a major pathway for detecting flagellated bacteria is not essential for different mammals and predicts an impaired capacity to sense extracellular flagellin.
Mammalian Alternative Translation Initiation Is Mostly Nonadaptive
Authors: Xu Chuan , Zhang Jianzhi 
Published: March 2020

Abstract
Alternative translation initiation (ATLI) refers to the existence of multiple translation initiation sites per gene and is a widespread phenomenon in eukaryotes. ATLI is commonly assumed to be advantageous through creating proteome diversity or regulating protein synthesis. We here propose an alternative hypothesis that ATLI arises primarily from nonadaptive initiation errors presumably due to the limited ability of ribosomes to distinguish sequence motifs truly signaling translation initiation from similar sequences. Our hypothesis, but not the adaptive hypothesis, predicts a series of global patterns of ATLI, all of which are confirmed at the genomic scale by quantitative translation initiation sequencing in multiple human and mouse cell lines and tissues. Similarly, although many codons differing from AUG by one nucleotide can serve as start codons, our analysis suggests that using non-AUG start codons is mostly disadvantageous. These and other findings strongly suggest that ATLI predominantly results from molecular error, requiring a major revision of our understanding of the precision and regulation of translation initiation.
The complete mitochondrial genomes of four Baikal molluscs from the endemic family Baicaliidae (Caenogastropoda: Truncatelloida)
Authors: Peretolchina T E , Sitnikova T Ya , Sherbakov D Yu 
Published: March 2020

AbstractHere, we present the complete mitochondrial (mt) genomes of four members of the Baicaliidae Fisher, 1885, a truncatelloidean family that is endemic to Lake Baikal (East Siberia). The mt genomes are those of Korotnewia korotnevi (15,171 bp), Godlewskia godlewskii (15,224 bp), Baicalia turriformis (15,127) and Maackia herderiana (15,154 bp). All these mt genomes contain 13 protein-coding genes, 2 ribosomal RNA (rRNA) genes and 22 transfer RNA (tRNA) genes. We detected non-canonical base pairs in some of the tRNA genes and variable numbers of non-coding spacers; some tRNAs do not have a TψC loop. We found gene order to be highly conserved in these Lake Baikal species and similar to the majority of caenogastropod mt genomes available on GenBank. A position of the putative control region is delimited to the non-coding region between trnF and the cox3 gene. It contains the ‘GAA(A)nT’ motif at the 3′ end and is similar to the replication origin found in most Caenogastropoda studied to date. We also compared the evolutionary rates of different genes to evaluate their use in different kinds of population or phylogenetic studies of this group of gastropods.
“Taking the Temperature of the Room”
Authors: McGregor Shannon C 
Published: March 2020

Abstract
For most of the twentieth century, public opinion was nearly analogous with polling. Enter social media, which has upended the social, technical, and communication contingencies upon which public opinion is constructed. This study documents how political professionals turn to social media to understand the public, charting important implications for the practice of campaigning as well as the study of public opinion itself. An analysis of in-depth interviews with 13 professionals from 2016 US presidential campaigns details how they use social media to understand and represent public opinion. I map these uses of social media onto a theoretical model, accounting for quantitative and qualitative measurement, for instrumental and symbolic purposes. Campaigns’ use of social media data to infer and symbolize public opinion is a new development in the relationship between campaigns and supporters. These new tools and symbols of public opinion are shaped by campaigns and drive press coverage (McGregor 2019), highlighting the hybrid logic of the political media system (Chadwick 2017). The model I present brings much-needed attention to qualitative data, a novel aspect of social media in understanding public opinion. The use of social media data to understand the public, for all its problems of representativeness, may provide a retort to long-standing criticisms of surveys—specifically that surveys do not reveal hierarchical, social, or public aspects of opinion formation (Blumer 1948; Herbst 1998; Cramer 2016). This model highlights a need to explicate what can—and cannot—be understood about public opinion via social media.
Can Social Media Incivility Induce Enthusiasm?
Authors: Kosmidis Spyros , Theocharis Yannis 
Published: March 2020

Abstract Most studies of online incivility report negative effects on attitudes and behaviors of both the victims and the audiences who are exposed to it. But while we have extensive insights about the attitudinal and behavioral consequences of incivility, less emphasis has been paid on its emotional effects. We conduct a series of survey experiments using statements posted on Twitter by elite actors along with the comments they receive and measure the emotional reactions of the public in relation to the content of the original post. We find that when the raw information is accompanied by uncivil commentary (compared to civil or no commentary), respondents express higher levels of positive and lower levels of negative emotions. Further analysis of heterogeneous effects focusing on partisanship shows that the effects are primarily driven by those who are generally expected to agree with the expert’s claim. The broader consequences of incivility as entertainment on social media platforms are discussed.
Computer-guided library generation applied to the optimization of single-domain antibodies
Authors: Akiba Hiroki , Tamura Hiroko , Caaveiro Jose M M , Tsumoto Kouhei 
Published: March 2020

AbstractComputer-guided library generation is a plausible strategy to optimize antibodies. Herein, we report the improvement of the affinity of a single-domain camelid antibody for its antigen using such approach. We first conducted experimental and computational alanine scanning to describe the precise energetic profile of the antibody–antigen interaction surface. Based on this characterization, we hypothesized that in-silico mutagenesis could be employed to guide the development of a small library for phage display with the goal of improving the affinity of an antibody for its antigen. Optimized antibody mutants were identified after three rounds of selection, in which an alanine residue at the core of the antibody–antigen interface was substituted by residues with large side-chains, generating diverse kinetic responses, and resulting in greater affinity (&gt;10-fold) for the antigen.
MTX intolerance in children and adolescents with juvenile idiopathic arthritis
Authors: Hügle Boris , van Dijkhuizen E H Pieter 
Published: March 2020

AbstractMTX is the medication most commonly used for antirheumatic treatment in juvenile idiopathic arthritis. It has high efficacy, is usually well tolerated and has an excellent safety profile. However, frequently intolerance symptoms develop that manifest as nausea, feelings of disgust or abdominal complaints prior to or directly after administration of the medication. No obvious toxicity is causing these intolerance symptoms, but symptoms are strictly limited to MTX and not transferred to other medications. MTX intolerance causes a significant reduction of quality of life in affected patients, frequently puts the treating physician in difficult situations regarding treatment choice, and may lead to uncomfortable decisions whether or not to stop an otherwise effective drug. Conventional countermeasures such as antiemetics, change of route from subcutaneous to oral or vice versa, or taste masking usually have only a limited effect. In this review, we present the current knowledge on MTX intolerance, its clinical picture and commonly employed strategies. We also consider newer behavioural treatment strategies that may offer a more effective symptom control.
Economization of Expert Knowledge about Gender Equality in the European Union
Authors: Elomäki Anna 
Published: March 2020

AbstractThe article analyzes (i) how the increasing demand for empirical evidence about the economic impacts of gender equality transforms expert knowledge about gender equality in the European Union (EU) and (ii) the implications of these transformations. The article argues that the much-debated discursive economization of gender equality in the EU context is underpinned by the economization of expert knowledge about gender equality—the increasing reliance on mainstream economics to support gender equality claims. This has increased the influence of gender-biased economics knowledge and its modes of knowledge production in EU gender equality policy.
State laws matter when it comes to school provisions for structured PE and daily PE participation
Authors: Piekarz-Porter Elizabeth , Lin Wanting , Leider Julien , Turner Lindsey , Perna Frank , Chriqui Jamie F 
Published: March 2020

Abstract
The physical and mental benefits children receive from physical activity have been well documented, and physical education is a key way to ensure that physical activity opportunities are available during the school day. This study evaluates whether state PE laws are associated with school-level practices of requiring structured PE classes and whether students take PE classes daily. State laws were obtained as part of the National Cancer Institute’s Classification of Laws Associated with School Students (CLASS) and were compiled for all 50 states and District of Columbia using Boolean keyword searches in LexisAdvance and WestlawNext. PE time requirements and state daily PE requirements in the laws were subsequently linked to school-required structured PE classes and daily PE in the School Nutrition and Meal Cost Study (SNMCS) Principal Survey. Logistic regression analyses were conducted while controlling for grade level, district child poverty rate, district race/ethnicity, school urbanicity, and school size. The state daily PE analysis also controlled for region. Schools located in a state that required at least 90 min of PE per week at the elementary level or 150 min of PE per week at the middle or high school levels had almost seven times higher odds of requiring structured PE. Schools located in a state that required daily participation of PE had almost five times higher odds of at least some students taking PE daily. State policymakers can utilize these findings to promote laws that require time for PE every week, daily if possible.
Variation in the access to deep soil water pools explains tree-to-tree differences in drought-triggered dieback of Mediterranean oaks
Authors: Ripullone Francesco , Camarero J Julio , Colangelo Michele , Voltas Jordi 
Published: March 2020

Abstract
Individual differences in the access to deep soil water pools may explain the differential damage among coexisting, conspecific trees as a consequence of drought-induced dieback. We addressed this issue by comparing the responses to a severe drought of three Mediterranean oak species with different drought tolerance, Quercus pubescens L. and Quercus frainetto Ten., mainly thriving at xeric and mesic sites, respectively, and Quercus cerris L., which dominates at intermediate sites. For each species, we compared coexisting declining (D) and non-declining (ND) trees. The stable isotope composition (δ2H, δ18O) of xylem and soil water was used to infer a differential use of soil water sources. We also measured tree size and radial growth to quantify the long-term divergence of wood production between D and ND trees and non-structural carbohydrates (NSCs) in sapwood to evaluate if D trees presented lower NSC values. The ND trees had access to deeper soil water than D trees except in Q. frainetto, as indicated by significantly more depleted xylem water values. However, a strong δ2H offset between soil and xylem water isotopes observed in peak summer could suggest that both tree types were not physiologically active under extreme drought conditions. Alternative processes causing deuterium fractionation, however, could not be ruled out. Tree height and recent (last 15–25 years) growth rates in all species studied were lower in D than in ND trees by 22 and 44%, respectively. Lastly, there was not a consistent pattern of NSC sapwood concentration; in Q. pubescens, it was higher in ND trees while in Q. frainetto, the D trees were the ones exhibiting the higher NSC concentration. We conclude that the vulnerability to drought among conspecific Mediterranean oaks depends on the differential access to deep soil water pools, which may be related to differences in rooting depth, tree size and growth rate.
Taxonomic reassessment ofParasesarma(Crustacea: Brachyura: Decapoda: Sesarmidae) based on genetic and morphological comparisons, with the description of a new genus
Authors: Shahdadi Adnan , Fratini Sara , Schubart Christoph D 
Published: March 2020

AbstractParasesarma is a species-rich genus whose representatives are common in wetlands and mangroves of the Indo-Pacific. Morphologically, the genus is heterogeneous and has been postulated to constitute a polyphyletic taxon. In the present study, most species of Parasesarma are re-evaluated phylogenetically, using mitochondrial and nuclear molecular markers. The results show that the majority of the examined species cluster consistently with the type species Parasesarma plicatum. However, some species, among them the tree-climbing Parasesarma leptosoma, are clearly separated from this main clade of Parasesarma, forming a second stable monophyletic group, distinct from other known genera. Based on these results, and with additional support by morphological diagnoses highlighting consistent differences between the two species groups, we propose a new genus for the species clustering around P. leptosoma, proposing the new name Leptarma gen. nov.