bluuebunny/crossref_metadata_2025_split huggingface dataset:
Fighting over food unites the birds of North America in a continental dominance hierarchy
Authors: Miller Eliot T. , Bonter David N. , Eldermire Charles , Freeman Benjamin G. , Greig Emma I. , Harmon Luke J. , Lisle Curtis , Hochachka Wesley M. 
Published: January 2017

ABSTRACTThe study of aggressive interactions between species has, to date, usually been restricted to interactions among small numbers of ecologically close competitors. Nothing is known about interspecific dominance hierarchies that include numerous, ecologically varied species. Such hierarchies are of interest because they could be used to address a variety of research questions, e.g. do similarly ranked species tend to avoid each other in time or space, and what will happen when such species come into contact as climates change? Here, we propose a method for creating a continental-scale hierarchy, and we make initial analyses based on this hierarchy. We quantified the extent to which a dominance hierarchy of feeder birds was linear, as intransitivities can promote local species’ coexistence. Using the existing network of citizen scientists participating in Project FeederWatch, we collected the data with which to create a continent-spanning interspecific dominance hierarchy that included species that do not currently have overlapping geographic distributions. Overall, the hierarchy was nearly linear, and largely predicted by body mass, although there were clade-specific deviations from the average mass–dominance relationship. Most of the small number of intransitive relationships in the hierarchy were based on small samples of observations. Few observations were made of interactions between close relatives and ecological competitors likeMelanerpeswoodpeckers and chickadees, as such species often have only marginally overlapping geographic distributions. Yet, these species’ ranks—emergent properties of the interaction network—were usually in agreement with published literature on dominance relationships between them.Interspecific dominance hierarchy, aggression, displacement, citizen scienceLAY SUMMARYWhen it comes to fighting over food, bigger is better but woodpeckers are best. The outcome of aggressive encounters between birds frequently determines which individual gains access to contested resources like food, but until now, little was known about such encounters between individuals of different species. We partnered with citizen scientists to record interspecific behavioral interactions at bird feeders around North America, and assembled these interactions into a continental dominance hierarchy.
In-Depth Resistome Analysis by Targeted Metagenomics
Authors: Lanza Val F. , Baquero Fernando , Martónez José Luós , Ramos-Ruóz Ricardo , González-Zorn Bruno , Andremont Antoine , Sánchez-Valenzuela Antonio , Ehrlich Dusko , Kennedy Sean , Ruppe Etienne , van Schaik Willem , Willems Rob J. , de la Cruz Fernando , Coque Teresa M. 
Published: January 2017

ABSTRACTWe developed ResCap, a targeted sequence capture platform based on SeqCapEZ technology, to analyse resistomes and other genes related to antimicrobial resistance (heavy metals, biocides and plasmids). ResCap includes probes for 8,667 canonical resistance genes (7,963 antibiotic resistance genes and 704 genes conferring resistance to metals or biocides), plus 2,517 relaxase genes (plasmid markers). Besides, it includes 78.600 genes homologous to the previous ones (47,806 for antibiotics and 30,794 for biocide or metals). ResCap enriched 279-fold the targeted sequences detected by metagenomic shotgun sequencing and improves their identification. Novel bioinformatic approaches allow quantifying “gene abundance” and “gene diversity”. ResCap, the first targeted sequence capture specifically developed to analyse resistomes, enhances the sensitivity and specificity of available metagenomic methods to analyse antibiotic resistance in complex populations, enables the analysis of other genes related to antimicrobial resistance and opens the possibility to accurately study other complex microbial systems.
Approaches for calculating solvation free energies and enthalpies demonstrated with an update of the FreeSolv database
Authors: Matos Guilherme Duarte Ramos , Kyu Daisy Y. , Loeffler Hannes H. , Chodera John D. , Shirts Michael R. , Mobley David L. 
Published: January 2017

AbstractSolvation free energies can now be calculated precisely from molecular simulations, providing a valuable test of the energy functions underlying these simulations. Here, we briefly review “alchemical” approaches for calculating the solvation free energies of small, neutral organic molecules from molecular simulations, and illustrate by applying them to calculate aqueous solvation free energies (hydration free energies). These approaches use a non-physical pathway to compute free energy differences from a simulation or set of simulations and appear to be a particularly robust and general-purpose approach for this task. We also present an update (version 0.5) to our FreeSolv database of experimental and calculated hydration free energies of neutral compounds and provide input files in formats for several simulation packages. This revision to FreeSolv provides calculated values generated with a single protocol and software version, rather than the heterogeneous protocols used in the prior version of the database. We also further update the database to provide calculated enthalpies and entropies of hydration and some experimental enthalpies and entropies, as well as electrostatic and nonpolar components of solvation free energies.
Olig2 and Hes regulatory dynamics during motor neuron differentiation revealed by single cell transcriptomics
Authors: Sagner Andreas , Gaber Zachary B. , Delile Julien , Kong Jennifer H. , Rousso David L. , Pearson Caroline A. , Weicksel Steven E. , Melchionda Manuela , Mousavy Gharavy Neda S. , Briscoe James , Novitch Bennett G. 
Published: January 2017

ABSTRACTDuring tissue development, multipotent progenitors differentiate into specific cell types in characteristic spatial and temporal patterns. We address the mechanism linking progenitor identity and differentiation rate in the neural tube, where motor neuron (MN) progenitors differentiate more rapidly than other progenitors. Using single cell transcriptomics, we define the transcriptional changes associated with the transition of neural progenitors into MNs. Reconstruction of gene expression dynamics from these data indicate a pivotal role for the MN determinant Olig2 just prior to MN differentiation. Olig2 represses expression of the Notch signaling pathway effectors Hes1 and Hes5. Olig2 repression of Hes5 appears to be direct, via a conserved regulatory element within the Hes5 locus that restricts expression from MN progenitors. These findings reveal a tight coupling between the regulatory networks that control patterning and neuronal differentiation, and demonstrate how Olig2 acts as the developmental pacemaker coordinating the spatial and temporal pattern of MN generation.
Cannabinoid glycosides:In vitroproduction of a new class of cannabinoids with improved physicochemical properties
Authors: Hardman Janee’ M. , Brooke Robert T. , Zipp Brandon J. 
Published: January 2017

AbstractThe cannabinoid signaling system has recently garnered attention as a therapeutic target for numerous indications, and cannabinoids are now being pursued as new treatment options in diverse medical fields such as neurology, gastroenterology, pain management, and oncology. Cannabinoids are extremely hydrophobic and relatively unstable compounds, and as a result, formulation and delivery options are severely limited. Enzymatic glycosylation is a strategy to alter the physicochemical properties of small molecules, often improving their stability and aqueous solubility, as well as enabling site-specific drug targeting strategies. To determine if cannabinoids are a candidate for glycosylation, a library of glucosyltransferase (UGT) enzymes was screened for glycosylation activity towards various cannabinoids. The UGT76G1 enzyme fromStevia rebaudianahas been identified as having glucosyltransferase activity towards a broad range of cannabinoids. Compounds that were successfully glycosylated by UGT76G1 include the phytocannabinoids cannabidiol (CBD), Δ9-tetrahydrocannabinol (Δ9-THC), cannabidivarin (CBDV), and cannabinol (CBN), and the human endocannabinoids anandamide (AEA), 2-arachidonoyl-glycerol (2AG), 1-arachidonoyl-glycerol (1AG), and synaptamide (DHEA). Interestingly, UGT76G1 is able to transfer primary, secondary, and tertiary glycosylations at each acceptor of most of the cannabinoids tested. Additionally, Os03g0702000p, a glycosyltransferase fromOryza sativa, was able to transfer secondary glucose residues onto cannabinoid monoglycosides previously established by UGT76G1. This new class of cannabinoid-glycosides has been termed cannabosides. The compounds have greatly improved solubility in aqueous solutions. This increased aqueous solubility may enable new oral pharmaceutical delivery options for cannabinoids, as well as targeted delivery and release of cannabinoids within the intestines through glycoside prodrug metabolism.
Expressing Biologically Active Membrane Proteins in a Cell-Free Transcription-Translation Platform
Authors: Guo Shaobin , Vaish Amit , Chen Qing , Murray Richard M. 
Published: January 2017

AbstractCell-free transcription-translation platforms have been widely utilized to express soluble proteins in basic synthetic biological circuit prototyping. From a synthetic biology point of view, it is critical to express membrane proteins in cell-free transcription-translation systems, and use them directly in biocircuits, considering the fact that histidine kinases, G-protein coupled receptors (GPCRs) and other important biosensors are all membrane proteins. Previous studies have expressed membrane proteins in cell-free systems with the help of detergents, liposomes or nanodiscs, but have not demonstrated the ability to prototype circuit behavior for the purpose of testing more complex circuit functions involving membrane-bound proteins. Built on previous efforts, in this work we demonstrated that we could co-translationally express solubilized and active membrane proteins in our cell-free TX-TL platform with membrane-like materials. We first tested the expression of several constructs with β1 and β2 adrenergic receptors in TX-TL and observed significant insoluble membrane protein production. The addition of nanodiscs to the cell free expression system enabled solubilization of membrane proteins. Nanodisc is lipoprotein-based membrane-like material. The activity of β2 adrenergic receptor was tested with both fluorescence and Surface Plasmon Resonance (SPR) binding assays by monitoring the specific binding response of small-molecule binders, carazolol and norepinephrine. Our results suggest that it is promising to use cell-free expression systems to prototype synthetic biocircuits involving single chain membrane proteins without extra procedures. This data made us one step closer to testing complex membrane protein circuits in cell-free environment.
RFID monitoring system of fiber optic connectors
Authors: Guzowski Bartlomiej , Gozdur Roman , Lakomski Mateusz , Bernacki Lukasz 
Published: January 2017

Purpose
The purpose of this paper is to develop identification system for fiber optic connectors in passive distribution cabinets. The system should have alternative power supply and wireless communication unlike the identification systems commercially available, which will make the system fully autonomous.

Design/methodology/approach
Detailed project and realization of real demonstrator of fully autonomous identification system. After the realization of the demonstrator, its optimization was performed.

Findings
It is possible to build fully autonomous identification system which requires 15.6 mJ energy to perform one cycle of identification process. Moreover, it is possible to use the alternative power method to supply this system.

Originality/value
Fully autonomous identification system of fiber optic connectors with alternative power supply and wireless communication.
Mechanical and thermal reliability of conductive circuits inkjet printed on flexible substrates
Authors: Arazna Aneta , Janeczek Kamil , Futera Konrad 
Published: January 2017

Purpose
This paper aims to present the results of investigations of inkjet-printed electronic circuits fabricated on a flexible substrate (KAPTON foil) using silver nanoparticles ink.

Design/methodology/approach
Fully inkjet-printed conductive circuit tracks were printed on a flexible, transparent KAPTON foil, using a commercial 40LT-15 C nanosilver ink as well as a PixDro LP50 inkjet printer with KonicaMinnolta 512 printhead. After cure, electrical properties by resistance measurements and printing quality by optical and SEM microscopic observation of conductive tracks were examined. Afterwards, the tested samples were annealed for 1, 2 and 3 h at 150°C or subjected to cycling bending.

Findings
It was found that silver nanoparticles ink could be used for the preparation of electronic circuits using the inkjet printing technique. The obtained patterns had appropriate mapping and good quality. It was also noticed that thermal annealing caused a decrease in resistivity values of the tested lines irrespective of their width. Approximately 34 per cent decrease was achieved in the values of resistivity of all the tested lines after the first hour of thermal annealing. After the second hour, the values of resistivity decreased by another 50 per cent. There were no visible changes in resistivity values after 1,000 cycles of bending.

Originality/value
In this paper, the results of thermal annealing and bending tests of inkjet-printed silver nanoparticle conductive tracks on flexible substrate were presented. That is very important information for producing printed circuit boards using ecological, rapid and low-cost inkjet printing techniques, particularly during the production of printed circuit boards on flexible substrates working in different conditions of mechanical and thermal stresses.
A case study in institutional repository content curation
Authors: Miller A. 
Published: January 2017

Purpose
The purpose of this case study is to illustrate how a university library collaborated with a specific college to preserve scholarship with a sustainable approach. The practical process described is recommended for increasing content submissions in a newly established institutional repository. Of the eight colleges at Middle Tennessee State University (MTSU), the Honors College was selected as a case study for a library–college collaboration on content curation for the institutional repository that is maintained by MTSU’s Walker Library.

Design/methodology/approach
Concept of shared and divided responsibilities for the upload, maintenance and sustainability of institutional repository submissions based on a particular case study and aided with literature on data management, digital publishing, library publishing and preservation research.

Findings
The partner approach, the sharing and division of responsibilities, is instrumental to the growth and sustainability of a library publishing program and for the preservation of university scholarship.

Practical implications
The (college) partner approach not only educates campus units about a new resource (e.g. institutional repository), but also encourages campus units to rethink other current and outdated practices that need to adapt to technological changes that support the unit and its students. This approach will help the library with campus outreach after an institutional repository is implemented and offers guidance on a collaborative approach to repository submission growth.

Originality/value
This paper suggests a (college) partner approach that mutually benefits the College and its students, departments and the library that maintains the institutional repository on behalf of the university. During the implementation process of this case study, an Americans with Disabilities Act (ADA)/accessibility compliance issue of repository items surfaced and allowed for a new course of action to be taken campus wide which adds to the originality of this case study.
Enhancing instructional leadership through collaborative coaching: a multi-case study
Authors: Houchens Gary W. , A. Stewart Tom , Jennings Sara 
Published: January 2017

PurposeExecutive coaching has become increasingly important for enhancing organizational leaders’ professional effectiveness. The purpose of this paper is to contribute to a growing body of research literature that examines how coaching techniques help school principals improve their instructional leadership.Design/methodology/approachUsing a protocol based on atheories of practiceframework (Argyris and Schön, 1974) to support principals in deepening their self-reflection, this study added the element of a guided peer-coaching component in a group setting.FindingsResults confirmed the effectiveness of the coaching protocol for assisting principals in deepening their self-awareness and critical reflection regarding their leadership, including the way principals’ core assumptions about teaching and leadership shaped the outcomes of their problem-solving strategies. Perceptions of the peer-coaching element were mixed, however. While principals reported feeling affirmed by sharing their leadership challenges with others, and indicated that the group coaching experience contributed to their sense of professional community, there were limitations to principals’ willingness to challenge one another’s core assumptions.Originality/valueThis study builds on literature that cites theories of practice as a mechanism for enhancing professional effectiveness and represents a further iteration of recent research studies applying the concept to the work of school principals. Findings affirm that a coaching protocol based on theories of practice is well received by principals, serves to deepen self-reflection, and can, in limited cases, contribute to sweeping changes of thinking and practice congruent with the concept of double-loop learning.
Binding of Caffeine and Quinine by Whey Protein and the Effect on Bitterness
Authors: Tenney Kelsey , Hayes John , Euston Stephen , Elias Ryan , Coupland John 
Published: January 2017

AbstractMany drugs and phytochemicals are bitter, leading to noncompliance with prescriptions and avoidance of healthy foods and a need to suppress their taste. The goal of this study was to investigate the binding of bitterants (quinine and caffeine) by whey protein isolate (WPI) and the effect on perceived bitterness. Caffeine interacted minimally with WPI, while the proportion of unbound quinine decreased exponentially with protein concentration. Molecular modeling was used to show the energy of the quinine‐Β‐lactoglubulin interaction was an order of magnitude greater than the caffeine‐Β‐lactoglobulin interaction. Untrained assessors were used to assess the bitterness of caffeine (1.8, 5.7, and 18 mM) and quinine (0.056, 0.10, and 0.18 mM) solutions with 0% or 1% WPI. There was no significant effect of protein on the bitterness of caffeine solutions, but WPI decreased the bitterness of quinine relative to the same concentration in water. This is generally consistent with our hypothesis that higher binding results in lower bitterness; however the magnitude of reduction was not large and the bitterness of the protein‐quinine solutions was greater than would be expected for the unbound quinine present.
A Survey of Commercially Available Isomaltooligosaccharide‐Based Food Ingredients
Authors: Madsen Lee R. , Stanley Sarah , Swann Peter , Oswald Jack 
Published: January 2017

AbstractIsomaltooligosaccharides (IMOs) are included in many commercially available food products including protein/fiber bars, shakes, and other dietary supplements. Marketed as “high fiber,” “prebiotic soluble fiber,” and/or as a “low‐calorie, low glycemic sweetener,” IMO may be present in significant amounts, for example, more than 15 g/item or serving. Herein, high‐pressure anion exchange chromatography with pulsed amperometric detection and high‐pressure liquid chromatography with differential refractive index detection are used to compare 7 commercially available IMO‐containing bulk food ingredients. The ingredients are typical of those produced either (a) via bacterial fermentation (“fermented” IMO or MIMO) of sucrose in the presence of a maltose acceptor mediated by a glucosyltransferase enzyme (dextransucrase), or (b) via transglycosylation of hydrolyzed starch with α‐glucosidase (“industrial” IMO). Analysis of the results with respect to digestibility suggests that the potential glycemic impact of the ingredients and products containing “industrial” IMO may be inconsistent with the product labeling and/or certificates of analysis with respect to overall fiber content, prebiotic fiber content, and glycemic response and are thus inappropriate for diabetic patients and those on low‐carbohydrate (for example, ketogenic) diets.
Real‐time monitoring of trans‐epithelial electrical resistance in cultured intestinal epithelial cells: the barrier protection of water‐soluble dietary fiber
Authors: Majima Atsushi , Handa Osamu , Naito Yuji , Suyama Yosuke , Onozawa Yuriko , Higashimura Yasuki , Mizushima Katsura , Morita Mayuko , Uehara Yukiko , Horie Hideki , Iida Takaya , Fukui Akifumu , Dohi Osamu , Okayama Tetsuya , Yoshida Naohisa , Kamada Kazuhiro , Katada Kazuhiro , Uchiyama Kazuhiko , Ishikawa Takeshi , Takagi Tomohisa , Konishi Hideyuki , Yasukawa Zenta , Tokunaga Makoto , Okubo Tsutomu , Itoh Yoshito 
Published: January 2017

OBJECTIVESIn this study we aimed to verify a real‐time trans‐epithelial electrical resistance (TEER) monitoring system in a Caco‐2 monolayer and to investigate the therapeutic effect of partially hydrolyzed guar gum (PHGG), a dietary fiber, against interferon (IFN)‐γ‐induced intestinal barrier dysfunction using this monitoring system.METHODSWe measured TEER using a real‐time monitoring system and evaluated epithelial paracellular permeability using fluorescein isothiocyanate‐conjugated dextran (4 kDa; FD4) in Caco‐2 monolayers treated with IFN‐γ for 48 h. The expression and distribution of tight junction (TJ)‐associated proteins, ZO‐1 and occludin, were analyzed by Western blot and immunocytochemistry, respectively. In some experiments PHGG was added prior to IFN‐γ treatment in order to investigate its protective effect on barrier function.RESULTSIFN‐γ treatment significantly decreased TEER and increased FD4 flux across Caco‐2 monolayers, indicating a great influence of IFN‐γ on the intestinal epithelial paracellular permeability. In contrast, the pretreatment of PHGG significantly reduced the IFN‐γ‐induced increment of FD4 flux without affecting TEER. Neither IFN‐γ nor PHGG treatment affected the expressions of TJ‐associated proteins, while immunocytochemistry showed that IFN‐γ‐induced redistribution of occludin was clearly restored by PHGG.CONCLUSIONSReal‐time TEER monitoring enabled us to evaluate the dynamic changes of intestinal epithelial barrier function. PHGG may have a protective effect against IFN‐γ‐induced barrier dysfunction by attenuating the paracellular hyperpermeability; thus, its promotion as a functional food is anticipated.