bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Importance of Being Human
Authors: McNaughton David 
Published: June 2017

I wish from my Heart, I could avoid concluding, that since Morality, according to your Opinion as well as mine, is determin'd merely by Sentiment, it regards only human Nature & human Life. … If Morality were determin'd by Reason, that is the same to all rational Beings: But nothing but Experience can assure us, that the Sentiments are the same. What Experience have we with regard to superior Beings? How can we ascribe to them any Sentiments at all? They have implanted those Sentiments in us for the Conduct of Life like our bodily Sensations, which they possess not themselves. (Letter from Hume to Hutcheson: March 16, 1740)When we ask whether morality ‘regards only human nature and human life’ we might be concerned with one of two kinds of question. We may be asking what kinds of being could share our moral point of view. What is the potential scope of the community of moral agents and assessors? Is the moral point of view essentially a human point of view? Could we, or should we, adopt a wider standpoint (say that of rational agency as such) which would leave room for a significant moral dialogue with non-human moral agents, if there are any? Alternatively, we could be asking whether only human beings should be the objects of moral concern or whether we should widen the circle of concern to include other kinds of being. We may make the same point using a helpful device of Cora Diamond's. We may be concerned with what should replace x or with what should replace y in the formula: We xs assess together conduct and character in so far as it affects ourselves and our fellow ys.
How Many Selves Make Me?
Authors: Wilkes Kathleen V. 
Published: June 2017

The answer to the title question which I want to defend in this paper is ‘none’. That is: I doubt strongly that the notion of ‘a self’ has any use whatsoever as part of an explanans for the explanandum ‘person’.Put another way: I shall argue that the question itself is misguided, pointing the inquirer in quite the wrong direction by suggesting that the term ‘self’ points to something which can sustain a philosophically interesting or important degree of reification.
Intensity-modulated radiation therapy versus volumetric-modulated arc therapy in non-small cell lung cancer: assessing the risk of radiation pneumonitis
Authors: Rosas Sara , Barbosa Bárbara , Couto José G. 
Published: June 2017

AbstractPurposeThis study aimed to compare intensity-modulated radiation therapy (IMRT) and volumetric-modulated arc therapy (VMAT) regarding plan quality and healthy lung sparing, in stage III non-small cell lung cancer (NSCLC) patients.Materials and methodsThe plans of 60 patients were allocated either to the IMRT (n=30) or the VMAT (n=30) group. The dose prescribed to the planning target volume (PTV) was evaluated at the 95% level and the mean lung dose (MLD) and the healthy lung receiving 5, 10 and 20 Gy (V5, V10and V20, respectively) were analysed. The normal tissue complication probability (NTCP) for radiation pneumonitis was calculated with the Lyman–Kutcher–Burman model.ResultsBoth techniques achieved comparable results for target coverage (V95%=97·87 versus 97·18%,p>0·05) and homogeneity. The MLD (15·57 versus 16·98 Gy,p>0·05), V5(60·35 versus 67·25%,p>0·05) and V10(45·22 versus 53·14%,p=0·011) were lower for IMRT, whereas VMAT reduced V20(26·44 versus 25·90%,p>0·05). The NTCP for radiation pneumonitis was higher for VMAT, but no statistical significance was observed (11·07 versus 12·75,p>0·05).ConclusionBoth techniques seemed suitable for NSCLC treatment, but IMRT presented better results regarding lung sparing thus being beneficial in reducing the risk of radiation-induced pneumonitis.
Propelled abrasive grit applications for weed management in transitional corn grain production
Authors: Erazo-Barradas Mauricio , Friedrichsen Claire N. , Forcella Frank , Humburg Dan , Clay Sharon A. 
Published: June 2017

AbstractWeed control is challenging to farmers who are transitioning from production systems that use synthetic herbicides to organic systems. A 2-year field study examined air-propelled corncob grit abrasion for in-row weed control efficacy and effect on corn yield. Grit was applied based on corn vegetative developmental stages with one (V1, V3 or V5), two (V1 + V3, V1 + V5, or V3 + V5), or three (V1 + V3 + V5) applications. Flame-weeding or cultivation was used after the V5 application for between-row weed control. Grit applications decreased in-row weed densities by about 60% (α = 0.05) and biomass up to 95% (α = 0.001). Between-row treatments provided similar control, and reduced weed biomass by 55% in 2013 (α = 0.01) and 86% (α = 0.001) in 2014. In-row grit treatments increased corn yield up to 44%, and yield was more influenced by in-row weeds than between row weeds. These results indicate that abrasive corncob grit for in-row weed control, supplemented with cultivation or flaming, can reduce weed biomass substantially and help maintain corn yield. However, timing and frequency of grit application need further refinement based on weed growth as influenced by climate, as treatments at similar corn growth stages did not consistently provide adequate weed control between years.
Ius Constitutionale Commune en América Latina: Observations on Transformative Constitutionalism
Authors: von Bogdandy Armin 
Published: June 2017

A new approachIus Constitutionale Commune en América Latina (ICCAL) constitutes a new approach to constitutionalism in the region. It has transformative aims and draws its energy from the perception of unacceptable conditions of a systematic nature. Like many legal concepts it refers both to positive law as a well as to the legal discourse connected to it. In terms of positive law, it is above all based upon the American Convention on Human Rights and other inter-American legal instruments, the concordant guarantees of national constitutions, the constitutional clauses opening up the domestic legal order to international law as well as pertinent national and international case law. In terms of legal discourse it is characterized by a disciplinary combination of national and international legal scholarship, a comparative mindset, and a methodological orientation towards principles.The proponents of this approach set a stark accent on rights and the transformation of political and social realities but reject plebiscitary presidentialism and the centralization of power as a transformative strategy. Accordingly, the separation of powers and independent institutions are accorded great weight. ICCAL supports the regionally secured realization of the central promises of national constitutions, the embedding of the national legal orders in a larger context, and the transformation of society through law.
Identifying the core seed bank of a complex boreal bacterial metacommunity
Authors: Ruiz-González Clara , Niño-García Juan Pablo , Kembel Steven W , del Giorgio Paul A 
Published: June 2017

Abstract
Seed banks are believed to contribute to compositional changes within and across microbial assemblages, but the application of this concept to natural communities remains challenging. Here we describe the core seed bank of a bacterial metacommunity from a boreal watershed, using the spatial distribution of bacterial operational taxonomic units (OTUs) across 223 heterogeneous terrestrial, aquatic and phyllosphere bacterial assemblages. Taxa were considered potential seeds if they transitioned from rare to abundant somewhere within the metacommunity and if they were ubiquitous and able to persist under unfavorable conditions, the latter assessed by checking their presence in three deeply sequenced samples (one soil, one river and one lake, 2.2–3 million reads per sample). We show that only a small fraction (13%) of all detected OTUs constitute a metacommunity seed bank that is shared between all terrestrial and aquatic communities, but not by phyllosphere assemblages, which seem to recruit from a different taxa pool. Our results suggest directional recruitment driven by the flow of water in the landscape, since most aquatic sequences were associated to OTUs found in a single deeply-sequenced soil sample, but only 45% of terrestrial sequences belonged to OTUs found in the two deeply-sequenced aquatic communities. Finally, we hypothesize that extreme rarity, and its interplay with water residence time and growth rates, may further constrain the size of the potential seed bank.
Linking rhizosphere microbiome composition of wild and domesticated Phaseolus vulgaris to genotypic and root phenotypic traits
Authors: Pérez-Jaramillo Juan E , Carrión Víctor J , Bosse Mirte , Ferrão Luiz F V , de Hollander Mattias , Garcia Antonio A F , Ramírez Camilo A , Mendes Rodrigo , Raaijmakers Jos M 
Published: June 2017

Abstract
Plant domestication was a pivotal accomplishment in human history, but also led to a reduction in genetic diversity of crop species compared to their wild ancestors. How this reduced genetic diversity affected plant–microbe interactions belowground is largely unknown. Here, we investigated the genetic relatedness, root phenotypic traits and rhizobacterial community composition of modern and wild accessions of common bean (Phaseolus vulgaris) grown in agricultural soil from the highlands of Colombia, one of the centers of common bean diversification. Diversity Array Technology-based genotyping and phenotyping of local common bean accessions showed significant genetic and root architectural differences between wild and modern accessions, with a higher specific root length for the wild accessions. Canonical Correspondence Analysis indicated that the divergence in rhizobacterial community composition between wild and modern bean accessions is associated with differences in specific root length. Along the bean genotypic trajectory, going from wild to modern, we observed a gradual decrease in relative abundance of Bacteroidetes, mainly Chitinophagaceae and Cytophagaceae, and an increase in relative abundance of Actinobacteria and Proteobacteria, in particular Nocardioidaceae and Rhizobiaceae, respectively. Collectively, these results establish a link between common bean domestication, specific root morphological traits and rhizobacterial community assembly.
Letting go: bacterial genome reduction solves the dilemma of adapting to predation mortality in a substrate-restricted environment
Authors: Baumgartner Michael , Roffler Stefan , Wicker Thomas , Pernthaler Jakob 
Published: June 2017

Abstract
Resource limitation and predation mortality are major determinants of microbial population dynamics, and optimization for either aspect is considered to imply a trade-off with respect to the other. Adaptation to these selective factors may, moreover, lead to disadvantages at rich growth conditions. We present an example of a concomitant evolutionary optimization to both, substrate limitation and predation in an aggregate-forming freshwater bacterial isolate, and we elucidate an underlying genomic mechanism. Bacteria were propagated in serial batch culture in a nutrient-restricted environment either with or without a bacterivorous flagellate. Strains isolated after 26 growth cycles of the predator–prey co-cultures formed as much total biomass as the ancestor at ancestral growth conditions, albeit largely reallocated to cell aggregates. A ~273 kbp genome fragment was lost in three strains that had independently evolved with predators. These strains had significantly higher growth yield on substrate-restricted media than others that were isolated from the same treatment before the excision event. Under predation pressure, the isolates with the deletion outcompeted both, the ancestor and the strains evolved without predators even at rich growth conditions. At the same time, genome reduction led to a growth disadvantage in the presence of benzoate due to the loss of the respective degradation pathway, suggesting that niche constriction might be the price for the bidirectional optimization.
Nitrogen cost minimization is promoted by structural changes in the transcriptome of N-deprivedProchlorococcuscells
Authors: Read Robert W , Berube Paul M , Biller Steven J , Neveux Iva , Cubillos-Ruiz Andres , Chisholm Sallie W , Grzymski Joseph J 
Published: June 2017

AbstractProchlorococcus is a globally abundant marine cyanobacterium with many adaptations that reduce cellular nutrient requirements, facilitating growth in its nutrient-poor environment. One such genomic adaptation is the preferential utilization of amino acids containing fewer N-atoms, which minimizes cellular nitrogen requirements. We predicted that transcriptional regulation might further reduce cellular N budgets during transient N limitation. To explore this, we compared transcription start sites (TSSs) in Prochlorococcus MED4 under N-deprived and N-replete conditions. Of 64 genes with primary and internal TSSs in both conditions, N-deprived cells initiated transcription downstream of primary TSSs more frequently than N-replete cells. Additionally, 117 genes with only an internal TSS demonstrated increased internal transcription under N-deprivation. These shortened transcripts encode predicted proteins with an average of 21% less N content compared to full-length transcripts. We hypothesized that low translation rates, which afford greater control over protein abundances, would be beneficial to relatively slow-growing organisms like Prochlorococcus. Consistent with this idea, we found that Prochlorococcus exhibits greater usage of glycine–glycine motifs, which causes translational pausing, when compared to faster growing microbes. Our findings indicate that structural changes occur within the Prochlorococcus MED4 transcriptome during N-deprivation, potentially altering the size and structure of proteins expressed under nutrient limitation.
Shifts in rhizosphere fungal community during secondary succession following abandonment from agriculture
Authors: Hannula S Emilia , Morriën Elly , de Hollander Mattias , van der Putten Wim H , van Veen Johannes A , de Boer Wietse 
Published: June 2017

Abstract
Activities of rhizosphere microbes are key to the functioning of terrestrial ecosystems. It is commonly believed that bacteria are the major consumers of root exudates and that the role of fungi in the rhizosphere is mostly limited to plant-associated taxa, such as mycorrhizal fungi, pathogens and endophytes, whereas less is known about the role of saprotrophs. In order to test the hypothesis that the role of saprotrophic fungi in rhizosphere processes increases with increased time after abandonment from agriculture, we determined the composition of fungi that are active in the rhizosphere along a chronosequence of ex-arable fields in the Netherlands. Intact soil cores were collected from nine fields that represent three stages of land abandonment and pulse labeled with 13CO2. The fungal contribution to metabolization of plant-derived carbon was evaluated using phospholipid analysis combined with stable isotope probing (SIP), whereas fungal diversity was analyzed using DNA-SIP combined with 454-sequencing. We show that in recently abandoned fields most of the root-derived 13C was taken up by bacteria but that in long-term abandoned fields most of the root-derived 13C was found in fungal biomass. Furthermore, the composition of the active functional fungal community changed from one composed of fast-growing and pathogenic fungal species to one consisting of beneficial and slower-growing fungal species, which may have essential consequences for the carbon flow through the soil food web and consequently nutrient cycling and plant succession.
Compaction of quasi-one-dimensional elastoplastic materials
Authors: Shaebani M. Reza , Najafi Javad , Farnudi Ali , Bonn Daniel , Habibi Mehdi 
Published: June 2017

AbstractInsight into crumpling or compaction of one-dimensional objects is important for understanding biopolymer packaging and designing innovative technological devices. By compacting various types of wires in rigid confinements and characterizing the morphology of the resulting crumpled structures, here, we report how friction, plasticity and torsion enhance disorder, leading to a transition from coiled to folded morphologies. In the latter case, where folding dominates the crumpling process, we find that reducing the relative wire thickness counter-intuitively causes the maximum packing density to decrease. The segment size distribution gradually becomes more asymmetric during compaction, reflecting an increase of spatial correlations. We introduce a self-avoiding random walk model and verify that the cumulative injected wire length follows a universal dependence on segment size, allowing for the prediction of the efficiency of compaction as a function of material properties, container size and injection force.
Organic hydrogen peroxide-driven low charge potentials for high-performance lithium-oxygen batteries with carbon cathodes
Authors: Wu Shichao , Qiao Yu , Yang Sixie , Ishida Masayoshi , He Ping , Zhou Haoshen 
Published: June 2017

AbstractReducing the high charge potential is a crucial concern in advancing the performance of lithium-oxygen batteries. Here, for water-containing lithium-oxygen batteries with lithium hydroxide products, we find that a hydrogen peroxide aqueous solution added in the electrolyte can effectively promote the decomposition of lithium hydroxide compounds at the ultralow charge potential on a catalyst-free Ketjen Black-based cathode. Furthermore, for non-aqueous lithium-oxygen batteries with lithium peroxide products, we introduce a urea hydrogen peroxide, chelating hydrogen peroxide without any water in the organic, as an electrolyte additive in lithium-oxygen batteries with a lithium metal anode and succeed in the realization of the low charge potential of ∼3.26 V, which is among the best levels reported. In addition, the undesired water generally accompanying hydrogen peroxide solutions is circumvented to protect the lithium metal anode and ensure good battery cycling stability. Our results should provide illuminating insights into approaches to enhancing lithium-oxygen batteries.
Blood-brain-barrier spheroids as an in vitro screening platform for brain-penetrating agents
Authors: Cho Choi-Fong , Wolfe Justin M. , Fadzen Colin M. , Calligaris David , Hornburg Kalvis , Chiocca E. Antonio , Agar Nathalie Y. R. , Pentelute Bradley L. , Lawler Sean E. 
Published: June 2017

AbstractCulture-based blood–brain barrier (BBB) models are crucial tools to enable rapid screening of brain-penetrating drugs. However, reproducibility ofin vitrobarrier properties and permeability remain as major challenges. Here, we report that self-assembling multicellular BBB spheroids display reproducible BBB features and functions. The spheroid core is comprised mainly of astrocytes, while brain endothelial cells and pericytes encase the surface, acting as a barrier that regulates transport of molecules. The spheroid surface exhibits high expression of tight junction proteins, VEGF-dependent permeability, efflux pump activity and receptor-mediated transcytosis of angiopep-2. In contrast, the transwell co-culture system displays comparatively low levels of BBB regulatory proteins, and is unable to discriminate between the transport of angiopep-2 and a control peptide. Finally, we have utilized the BBB spheroids to screen and identify BBB-penetrant cell-penetrating peptides (CPPs). This robustin vitroBBB model could serve as a valuable next-generation platform for expediting the development of CNS therapeutics.
Tailoring protein nanomechanics with chemical reactivity
Authors: Beedle Amy E. M. , Mora Marc , Lynham Steven , Stirnemann Guillaume , Garcia-Manyes Sergi 
Published: June 2017

AbstractThe nanomechanical properties of elastomeric proteins determine the elasticity of a variety of tissues. A widespread natural tactic to regulate protein extensibility lies in the presence of covalent disulfide bonds, which significantly enhance protein stiffness. The prevalent in vivo strategy to form disulfide bonds requires the presence of dedicated enzymes. Here we propose an alternative chemical route to promote non-enzymatic oxidative protein folding via disulfide isomerization based on naturally occurring small molecules. Using single-molecule force-clamp spectroscopy, supported by DFT calculations and mass spectrometry measurements, we demonstrate that subtle changes in the chemical structure of a transient mixed-disulfide intermediate adduct between a protein cysteine and an attacking low molecular-weight thiol have a dramatic effect on the protein’s mechanical stability. This approach provides a general tool to rationalize the dynamics of S-thiolation and its role in modulating protein nanomechanics, offering molecular insights on how chemical reactivity regulates protein elasticity.
Conserved linear dynamics of single-molecule Brownian motion
Authors: Serag Maged F. , Habuchi Satoshi 
Published: June 2017

AbstractMacromolecular diffusion in homogeneous fluid at length scales greater than the size of the molecule is regarded as a random process. The mean-squared displacement (MSD) of molecules in this regime increases linearly with time. Here we show that non-random motion of DNA molecules in this regime that is undetectable by the MSD analysis can be quantified by characterizing the molecular motion relative to a latticed frame of reference. Our lattice occupancy analysis reveals unexpected sub-modes of motion of DNA that deviate from expected random motion in the linear, diffusive regime. We demonstrate that a subtle interplay between these sub-modes causes the overall diffusive motion of DNA to appear to conform to the linear regime. Our results show that apparently random motion of macromolecules could be governed by non-random dynamics that are detectable only by their relative motion. Our analytical approach should advance broad understanding of diffusion processes of fundamental relevance.
Single-mutation fitness landscapes for an enzyme on multiple substrates reveal specificity is globally encoded
Authors: Wrenbeck Emily E. , Azouz Laura R. , Whitehead Timothy A. 
Published: June 2017

AbstractOur lack of total understanding of the intricacies of how enzymes behave has constrained our ability to robustly engineer substrate specificity. Furthermore, the mechanisms of natural evolution leading to improved or novel substrate specificities are not wholly defined. Here we generate near-comprehensive single-mutation fitness landscapes comprising >96.3% of all possible single nonsynonymous mutations for hydrolysis activity of an amidase expressed in E. coli with three different substrates. For all three selections, we find that the distribution of beneficial mutations can be described as exponential, supporting a current hypothesis for adaptive molecular evolution. Beneficial mutations in one selection have essentially no correlation with fitness for other selections and are dispersed throughout the protein sequence and structure. Our results further demonstrate the dependence of local fitness landscapes on substrate identity and provide an example of globally distributed sequence-specificity determinants for an enzyme.