bluuebunny/crossref_metadata_2025_split huggingface dataset:
Post‐column in‐source derivatisation in LC‐MS: a tool for natural products characterisation and metabolomics
Authors: Cirigliano Adriana M. , Cabrera Gabriela M. 
Published: February 2020

AbstractIntroductionAn efficient characterisation of metabolites is a crucial task in many aspects of basic research, such as the de‐replication of crude extracts in natural products chemistry or the tentative identification of compounds in untargeted metabolomics.ObjectiveThe goal of this work is the evaluation of the reaction with phenylhydrazine for the derivatisation post‐column in situ of carbonyl‐containing compounds in liquid chromatography‐mass spectrometry (LC‐MS).Materials and methodsLC‐MS was performed using electrospray, Atmospheric Pressure Chemical Ionisation (APCI) or Atmospheric Pressure Photoionization (APPI) as ionisation techniques. The post‐column addition of phenylhydrazine was done through a syringe pump via a T‐junction before entrance to the ion source.ResultsA variety of natural products having carbonyl groups, such as cycloartanes, steroids, cardenolides and other terpenoids, were analysed by this method. In the case of compounds with non‐hindered aldehyde or keto groups, the main signals of the mass spectra were those corresponding to the phenylhydrazones. However, the spectra of compounds with hindered carbonyl groups displayed mainly those signals corresponding to the product of the nucleophilic addition adduct of phenylhydrazine to the carbonyl, which is the first step of the derivatisation process. Finally, those compounds with conjugated ketones did not react with phenylhydrazine. This methodology was applied in the analysis of crude natural extracts.ConclusionThe results show that in situ derivatisation of carbonyl compounds in the ionisation source was achieved, yielding the typical derivatives of carbonyl compounds with phenylhydrazine.
Children's collective embodiment—Mobility practices and materialities in mobile preschools
Authors: Ekman Ladru Danielle , Gustafson Katarina 
Published: February 2020

AbstractThis article looks at young children's mobility practices in public spaces within the context of a mobile preschool practice (i.e., a preschool in a bus), with a specific focus on how materialities matter in children's mobilities. Using ethnographic data from a mobile preschool, we argue that the mobile preschool group's mobility should be understood in terms of collective embodiment and the mobile preschool should be viewed as a movingcollective bodyin public space through which children can negotiate their own mobility practices and exercise agency. We show how this collective body is constituted through an assemblage and collaboration of children's and teachers' bodies and material objects. Collective embodiment not only enables and supports children's mobilities in public space but also helps young children to appropriate and claim their democratic right to public space through the visible copresence of bodies and things.
Dispersal drives changes in fish community abundance in intermittent stream networks
Authors: Hedden Skyler C. , Gido Keith B. 
Published: February 2020

AbstractIncreasing trends in fragmentation and dewatering of streams warrants research on how populations and communities respond to varying water levels and barriers to movement. Although these responses are complicated by many spatial and temporal processes, long‐term datasets might help reveal complex patterns and processes driving variability in species abundances. The objective of this study was to develop a predictive framework for fish community and population responses to varying levels of water availability across six sites in two intermittent stream networks sampled >10 years. We predicted that fishes would emigrate into intermittent reaches during wet conditions; thus, overall abundances within perennial source locations will decline. Accordingly, when intermittent reaches dry, fishes will contract to wetted habitats resulting in high abundance. Observed fish community abundances were highly variable within and among study sites, but four of six sites matched our predictions. A tagging study confirmed these results and demonstrated a substantial proportion of individuals moved away from perennial reaches and into newly wetted intermittent reaches. However, site and species‐specific relationships were variable and likely depended on the habitat, metacommunity dynamics, and life history strategies. Findings suggest that species dispersal dynamics, in addition to recruitment and mortality, should be carefully considered when interpreting species responses to varying water levels, particularly in intermittent stream networks where access to habitat can change drastically with water availability.
Partial migration technique for GPGPU tasks to Prevent GPU Memory Starvation in RPC‐based GPU Virtualization
Authors: Kang JiHun , Lim JongBeom , Yu HeonChang 
Published: February 2020

SummaryGraphics processing unit (GPU) virtualization technology enables a single GPU to be shared among multiple virtual machines (VMs), thereby allowing multiple VMs to perform GPU operations simultaneously with a single GPU. Because GPUs exhibit lower resource scalability than central processing units (CPUs), memory, and storage, many VMs encounter resource shortages while running GPU operations concurrently, implying that the VM performing the GPU operation must wait to use the GPU. In this paper, we propose a partial migration technique for general‐purpose graphics processing unit (GPGPU) tasks to prevent the GPU resource shortage in a remote procedure call‐based GPU virtualization environment. The proposed method allows a GPGPU task to be migrated to another physical server's GPU based on the available resources of the target's GPU device, thereby reducing the wait time of the VM to use the GPU. With this approach, we prevent resource shortages and minimize performance degradation for GPGPU operations running on multiple VMs. Our proposed method can prevent GPU memory shortage, improve GPGPU task performance by up to 14%, and improve GPU computational performance by up to 82%. In addition, experiments show that the migration of GPGPU tasks minimizes the impact on other VMs.
Association of Branched Dextrin from Nägeli Amylodextrin in Water for Screening of Additives Affecting Starch Gel Properties
Authors: Matsuki Junko , Wada Masahisa , Sasaki Tomoko , Yoza Koichi , Maeda Hideo , Tokuyasu Ken 
Published: February 2020

AbstractA novel model system for characterization of double helix in starch is developed using branched dextrin (BD) purified from Nägeli amylodextrin by repeated precipitation in 10% ethanol. The solution of one‐time precipitated BD (BD1, 3% in water) starts to develop turbidity in 8 h of incubation at 4 °C. Volume particle size distribution during the association of four‐time precipitated BD sample (BD4) is analyzed using dynamic light scattering. The mean diameter of the particles jumps from 3.8 to 170 nm between 2 and 2.5 h of incubation, suggesting a prerequisite lag time for maturation of intermolecular association of BD4. Flakes of BD4 in water exhibit a B‐type crystal by X‐ray diffraction analysis. A screening system of additives affecting turbidity development of BD1 in water is applied for 82 compounds, and sodium tetraborate (borax) significantly retards the development. Borax affects the rate of turbidity development and maximum turbidity at the plateau stage in a concentration‐dependent manner. Borax is also added to rice starch gel, which reduces the increase of hardness of the gel during retrogradation. This novel assay system with BD can be used for screening and evaluation of additives affecting starch gelation and retrogradation.
Development and analysis of highly workable high‐strength heavyweight concrete using magnetite aggregates
Authors: Aslani Farhad , Lesslie David M. , Hamidi Fatemeh 
Published: February 2020

AbstractHeavyweight concrete (HWC) is produced by replacing natural aggregates in a concrete mix design with heavyweight aggregates of a higher specific gravity. HWC is mainly used for the prevention of leakage from radioactive containing structures and is hence primarily used in the medical and nuclear energy industries where this property is of particular benefit and importance. Also, high‐strength concrete (HSC) has been increasingly employed in both civil structures, such as high rise buildings and bridges and defense applications. This study makes attempt to develop and evaluate different concrete mixes, which are considered as high‐strength, heavyweight and highly workable in nature. Such mixes use magnetite as the primary aggregate. The three‐mentioned properties of these concrete types have been thoroughly investigated individually; however, there is a limited numbers of literature on the analysis of mix designs dealing with the three‐mentioned properties simultaneously, in which the water/cement ratio variation, and/or variation of the magnetite content have been assessed. In this study, nine highly workable high‐strength HWC mixes have been developed and fresh and hardened properties are discussed. The overall result indicates that the developed mixes satisfied the required high‐strength, heavyweight and highly workable criteria, as well as, compressive strength would increase by increasing the heavyweight aggregate content.
Appraisal and calibration of the actuator line model for the prediction of turbulent separated wakes
Authors: Rocchio Benedetto , Ciri Umberto , Salvetti Maria Vittoria , Leonardi Stefano 
Published: February 2020

AbstractThe aim of this study is to further investigate the accuracy and the reliability of the actuator line model (ALM) predictions for turbulent separated wakes. Large eddy simulations (LES) of the flow around a NACA0009 airfoil are performed mimicking the geometry with the immersed boundary method. Results are validated against experiments and used to assess the accuracy of the ALM predictions for the same airfoil, with different values of the spreading parameter and of the reference velocity and for two values of the angle of attack. It is found that the ALM setup recently derived from linearized inviscid analysis leads to accurate results for the lower angle of attack, while at the higher one for which a significant separation of the boundary layer occurs, the ALM requires a different set of model parameters. This calls for a systematic investigation of the sensitivity to the ALM parameters for separated flows, which is carried out herein through a stochastic approach allowing continuous response surfaces to be obtained in the parameter space. The ALM parameters are calibrated against the results obtained with the immersed boundaries. With the calibrated model parameters, the ALM gives good predictions of the velocity and turbulent kinetic energy in the far wake. Finally, the proposed model parameters are used to predict the flow past a different geometry, a flat plate, at high angle of attack. The accuracy of the prediction of the far wake is again good, showing the robustness of the identified setup.
Distribution of P1(D1) wart disease resistance in potato germplasm and GWAS identification of haplotype-specific SNP markers
Authors: Prodhomme Charlotte , Vos Peter G. , Paulo Maria João , Tammes Jasper E. , Visser Richard G. F. , Vossen Jack H. , van Eck Herman J. 
Published: February 2020

AbstractKey messageA Genome-Wide Association Study using 330 commercial potato varieties identified haplotype specific SNP markers associated with pathotype 1(D1) wart disease resistance.AbstractSynchytrium endobioticumis a soilborne obligate biotrophic fungus responsible for wart disease. Growing resistant varieties is the most effective way to manage the disease. This paper addresses the challenge to apply molecular markers in potato breeding. Although markers linked toSen1were published before, the identification of haplotype-specific single-nucleotide polymorphisms may result in marker assays with high diagnostic value. To identify hs-SNP markers, we performed a genome-wide association study (GWAS) in a panel of 330 potato varieties representative of the commercial potato gene pool. SNP markers significantly associated with pathotype 1 resistance were identified on chromosome11, at the position of the previously identifiedSen1locus. Haplotype specificity of the SNP markers was examined through the analysis of false positives and false negatives and validated in two independent full-sib populations. This paper illustrates why it is not always feasible to design markers without false positives and false negatives for marker-assisted selection. In the case ofSen1, founders could not be traced because of a lack of identity by descent and because of the decay of linkage disequilibrium betweenSen1and flanking SNP markers.Sen1appeared to be the main source of pathotype 1 resistance in potato varieties, but it does not explain all the resistance observed. Recombination and introgression breeding may have introduced new, albeit rare haplotypes involved in pathotype 1 resistance. The GWAS approach, in such case, is instrumental to identify SNPs with the best possible diagnostic value for marker-assisted breeding.
Metabolic alterations in immune cells associate with progression to type 1 diabetes
Authors: Sen Partho , Dickens Alex M. , López-Bascón María Asunción , Lindeman Tuomas , Kemppainen Esko , Lamichhane Santosh , Rönkkö Tuukka , Ilonen Jorma , Toppari Jorma , Veijola Riitta , Hyöty Heikki , Hyötyläinen Tuulia , Knip Mikael , Orešič Matej 
Published: February 2020

Abstract
Aims/hypothesis
Previous metabolomics studies suggest that type 1 diabetes is preceded by specific metabolic disturbances. The aim of this study was to investigate whether distinct metabolic patterns occur in peripheral blood mononuclear cells (PBMCs) of children who later develop pancreatic beta cell autoimmunity or overt type 1 diabetes.

Methods
In a longitudinal cohort setting, PBMC metabolomic analysis was applied in children who (1) progressed to type 1 diabetes (PT1D, n = 34), (2) seroconverted to ≥1 islet autoantibody without progressing to type 1 diabetes (P1Ab, n = 27) or (3) remained autoantibody negative during follow-up (CTRL, n = 10).

Results
During the first year of life, levels of most lipids and polar metabolites were lower in the PT1D and P1Ab groups compared with the CTRL group. Pathway over-representation analysis suggested alanine, aspartate, glutamate, glycerophospholipid and sphingolipid metabolism were over-represented in PT1D. Genome-scale metabolic models of PBMCs during type 1 diabetes progression were developed by using publicly available transcriptomics data and constrained with metabolomics data from our study. Metabolic modelling confirmed altered ceramide pathways, known to play an important role in immune regulation, as specifically associated with type 1 diabetes progression.

Conclusions/interpretation
Our data suggest that systemic dysregulation of lipid metabolism, as observed in plasma, may impact the metabolism and function of immune cells during progression to overt type 1 diabetes.

Data availability
The GEMs for PBMCs have been submitted to BioModels (www.ebi.ac.uk/biomodels/), under accession number MODEL1905270001. The metabolomics datasets and the clinical metadata generated in this study were submitted to MetaboLights (https://www.ebi.ac.uk/metabolights/), under accession number MTBLS1015.
Implications of Kunita–Itô–Wentzell Formula for k-Forms in Stochastic Fluid Dynamics
Authors: de Léon Aythami Bethencourt , Holm Darryl D. , Luesink Erwin , Takao So 
Published: February 2020

Abstract
We extend the Itô–Wentzell formula for the evolution of a time-dependent stochastic field along a semimartingale to k-form-valued stochastic processes. The result is the Kunita–Itô–Wentzell (KIW) formula for k-forms. We also establish a correspondence between the KIW formula for k-forms derived here and a certain class of stochastic fluid dynamics models which preserve the geometric structure of deterministic ideal fluid dynamics. This geometric structure includes Eulerian and Lagrangian variational principles, Lie–Poisson Hamiltonian formulations and natural analogues of the Kelvin circulation theorem, all derived in the stochastic setting.
The pathology of central nervous system inflammatory demyelinating disease accompanying myelin oligodendrocyte glycoprotein autoantibody
Authors: Höftberger Romana , Guo Yong , Flanagan Eoin P. , Lopez-Chiriboga A. Sebastian , Endmayr Verena , Hochmeister Sonja , Joldic Damir , Pittock Sean J. , Tillema Jan Mendelt , Gorman Mark , Lassmann Hans , Lucchinetti Claudia F. 
Published: February 2020

AbstractWe sought to define the pathological features of myelin oligodendrocyte glycoprotein (MOG) antibody associated disorders (MOGAD) in an archival autopsy/biopsy cohort. We histopathologically analyzed 2 autopsies and 22 brain biopsies from patients with CNS inflammatory demyelinating diseases seropositive for MOG-antibody by live-cell-based-assay with full length MOG in its conformational form. MOGAD autopsies (ages 52 and 67) demonstrate the full spectrum of histopathological features observed within the 22 brain biopsies (median age, 10 years; range, 1–66; 56% female). Clinical, radiologic, and laboratory characteristics and course (78% relapsing) are consistent with MOGAD. MOGAD pathology is dominated by coexistence of both perivenous and confluent white matter demyelination, with an over-representation of intracortical demyelinated lesions compared to typical MS. Radially expanding confluent slowly expanding smoldering lesions in the white matter as seen in MS, are not present. A CD4+ T-cell dominated inflammatory reaction with granulocytic infiltration predominates. Complement deposition is present in all active white matter lesions, but a preferential loss of MOG is not observed. AQP4 is preserved, with absence of dystrophic astrocytes, and variable oligodendrocyte and axonal destruction. MOGAD is pathologically distinguished from AQP4-IgG seropositive NMOSD, but shares some overlapping features with both MS and ADEM, suggesting a transitional pathology. Complement deposition in the absence of selective MOG protein loss suggest humoral mechanisms are involved, however argue against endocytic internalization of the MOG antigen. Parallels with MOG-EAE suggest MOG may be an amplification factor that augments CNS demyelination, possibly via complement mediated destruction of myelin or ADCC phagocytosis.
z-Knotted Triangulations of Surfaces
Authors: Pankov Mark , Tyc Adam 
Published: February 2020

AbstractA zigzag in a map (a 2-cell embedding of a connected graph in a connected closed 2-dimensional surface) is a cyclic sequence of edges satisfying the following conditions: (1) any two consecutive edges lie on the same face and have a common vertex, (2) for any three consecutive edges the first and the third edges are disjoint and the face containing the first and the second edges is distinct from the face which contains the second and the third one. A map is z-knotted if it contains a single zigzag. Such maps are closely related to the Gauss code problem and have nice homological properties. We show that every triangulation of a connected closed 2-dimensional surface admits a z-knotted shredding.
Simultaneous X-ray Video-Fluoroscopy and Pulsed Ultrasound Velocimetry Analyses of the Pharyngeal Phase of Swallowing of Boluses with Different Rheological Properties
Authors: Qazi Waqas M. , Ekberg Olle , Wiklund Johan , Mansoor Rashid , Stading Mats 
Published: February 2020

AbstractThe Ultrasound Velocity Profiling (UVP) technique allows real-time, non-invasive flow mapping of a fluid along a 1D-measuring line. This study explores the possibility of using the UVP technique and X-ray video-fluoroscopy (XVF) to elucidate the deglutition process with the focus on bolus rheology. By positioning the UVP probe so that the pulsed ultrasonic beam passes behind the air-filled trachea, the bolus flow in the pharynx can be measured. Healthy subjects in a clinical study swallowed fluids with different rheological properties: Newtonian (constant shear viscosity and non-elastic); Boger (constant shear viscosity and elastic); and shear thinning (shear rate-dependent shear viscosity and elastic). The results from both the UVP and XVF reveal higher velocities for the shear thinning fluid, followed by the Boger and the Newtonian fluids, demonstrating that the UVP method has equivalent sensitivities for detecting the velocities of fluids with different rheological properties. The velocity of the contraction wave that clears the pharynx was measured in the UVP and found to be independent of bolus rheology. The results show that UVP not only assesses accurately the fluid velocity in a bolus flow, but it can also monitor the structural changes that take place in response to a bolus flow, with the added advantage of being a completely non-invasive technique that does not require the introduction of contrast media.
Redox potential research in the field of balneochemistry: case study on equilibrium approach to bioactive elements in therapeutic waters
Authors: Wątor Katarzyna , Dobrzyński Dariusz , Sugimori Kenji , Kmiecik Ewa 
Published: February 2020

AbstractIn some countries (e.g. Poland, Czechia, Slovakia, Russia, Germany), oxidation-reduction potential (ORP) measurements are required to document the quality of groundwater which are planned to be used as therapeutic waters. ORP is still rarely studied and not fully availed in therapeutic water research. Studies of ORP in various types of therapeutic, mineral and thermal waters in sites of Poland integrated with geochemical equilibrium approach were employed to characterize two redox-sensitive and bioactive elements, i.e. iron and sulphur. Studied waters present reducing conditions (EH between − 406 and − 41 mV) at outflow or extraction sites; however, they significantly differ in terms of total dissolved solids, temperature, and iron, sulphur(II) and sulphate concentrations. These result in recognizable differences, e.g. in terms of saturation state with respect to aquifer rock minerals and the dominating forms of occurrence of elements studied disclosed on the stability field diagrams. Considering the methodological determinants, ORP orchestrated with geochemical modelling tools might be successfully applied for studying natural linkages between various groundwater in natural systems, protecting the therapeutic water resource, and identifying the changes of water quality both at exploitation sites (springs, wells) and treatment places.