bluuebunny/crossref_metadata_2025_split huggingface dataset:
Efficacy of a ciprofloxacin/amikacin combination against planktonic and biofilm cultures of susceptible and low-level resistant Pseudomonas aeruginosa
Authors: Soares Anaïs , Alexandre Kévin , Lamoureux Fabien , Lemée Ludovic , Caron François , Pestel-Caron Martine , Etienne Manuel 
Published: July 2019

AbstractBackgroundEradicating bacterial biofilm without mechanical dispersion remains a challenge. Combination therapy has been suggested as a suitable strategy to eradicate biofilm.ObjectivesTo evaluate the efficacy of a ciprofloxacin/amikacin combination in a model of in vitro Pseudomonas aeruginosa biofilm.MethodsThe antibacterial activity of ciprofloxacin and amikacin (alone, in combination and successively) was evaluated by planktonic and biofilm time–kill assays against five P. aeruginosa strains: PAO1, a WT clinical strain and three clinical strains overexpressing the efflux pumps MexAB-OprM (AB), MexXY-OprM (XY) and MexCD-OprJ (CD), respectively. Amikacin MIC was 16 mg/L for XY and ciprofloxacin MIC was 0.5 mg/L for CD. The other strains were fully susceptible to ciprofloxacin and amikacin. The numbers of total and resistant cells were determined.ResultsIn planktonic cultures, regrowth of high-level resistant mutants was observed when CD was exposed to ciprofloxacin alone and XY to amikacin alone. Eradication was obtained with ciprofloxacin or amikacin in the other strains, or with the combination in XY and CD strains. In biofilm, bactericidal reduction after 8 h followed by a mean 4 log10 cfu/mL plateau in all strains and for all regimens was noticed. No regrowth of resistant mutants was observed whatever the antibiotic regimen. The bacterial reduction obtained with a second antibiotic used simultaneously or consecutively was not significant.ConclusionsThe ciprofloxacin/amikacin combination prevented the emergence of resistant mutants in low-level resistant strains in planktonic cultures. Biofilm persister cells were not eradicated, either with monotherapy or with the combination.
Development of an algorithm to discriminate between plasmid- and chromosomal-mediated AmpC β-lactamase production in Escherichia coli by elaborate phenotypic and genotypic characterization
Authors: Coolen Jordy P M , den Drijver Evert P M , Kluytmans Jan A J W , Verweij Jaco J , Lamberts Bram A , Soer Joke A C J , Verhulst Carlo , Wertheim Heiman F L , Kolwijck Eva 
Published: July 2019

AbstractObjectivesAmpC-β-lactamase production is an under-recognized antibiotic resistance mechanism that renders Gram-negative bacteria resistant to common β-lactam antibiotics, similar to the well-known ESBLs. For infection control purposes, it is important to be able to discriminate between plasmid-mediated AmpC (pAmpC) production and chromosomal-mediated AmpC (cAmpC) hyperproduction in Gram-negative bacteria as pAmpC requires isolation precautions to minimize the risk of horizontal gene transmission. Detecting pAmpC in Escherichia coli is challenging, as both pAmpC production and cAmpC hyperproduction may lead to third-generation cephalosporin resistance.MethodsWe tested a collection of E. coli strains suspected to produce AmpC. Elaborate susceptibility testing for third-generation cephalosporins, WGS and machine learning were used to develop an algorithm to determine ampC genotypes in E. coli. WGS was applied to detect pampC genes, cAmpC hyperproducers and STs.ResultsIn total, 172 E. coli strains (n=75 ST) were divided into a training set and two validation sets. Ninety strains were pampC positive, the predominant gene being blaCMY-2 (86.7%), followed by blaDHA-1 (7.8%), and 59 strains were cAmpC hyperproducers. The algorithm used a cefotaxime MIC value above 6 mg/L to identify pampC-positive E. coli and an MIC value of 0.5 mg/L to discriminate between cAmpC-hyperproducing and non-cAmpC-hyperproducing E. coli strains. Accuracy was 0.88 (95% CI=0.79–0.94) on the training set, 0.79 (95% CI=0.64–0.89) on validation set 1 and 0.85 (95% CI=0.71–0.94) on validation set 2.ConclusionsThis approach resulted in a pragmatic algorithm for differentiating ampC genotypes in E. coli based on phenotypic susceptibility testing.
Cohort selection for clinical trials using deep learning models
Authors: Segura-Bedmar Isabel , Raez Pablo 
Published: July 2019

Abstract

Objective
The goal of the 2018 n2c2 shared task on cohort selection for clinical trials (track 1) is to identify which patients meet the selection criteria for clinical trials. Cohort selection is a particularly demanding task to which natural language processing and deep learning can make a valuable contribution. Our goal is to evaluate several deep learning architectures to deal with this task.

Materials and Methods
Cohort selection can be formulated as a multilabeling problem whose goal is to determine which criteria are met for each patient record. We explore several deep learning architectures such as a simple convolutional neural network (CNN), a deep CNN, a recurrent neural network (RNN), and CNN-RNN hybrid architecture. Although our architectures are similar to those proposed in existing deep learning systems for text classification, our research also studies the impact of using a fully connected feedforward layer on the performance of these architectures.

Results
The RNN and hybrid models provide the best results, though without statistical significance. The use of the fully connected feedforward layer improves the results for all the architectures, except for the hybrid architecture.

Conclusions
Despite the limited size of the dataset, deep learning methods show promising results in learning useful features for the task of cohort selection. Therefore, they can be used as a previous filter for cohort selection for any clinical trial with a minimum of human intervention, thus reducing the cost and time of clinical trials significantly.
Extracting medications and associated adverse drug events using a natural language processing system combining knowledge base and deep learning
Authors: Chen Long , Gu Yu , Ji Xin , Sun Zhiyong , Li Haodan , Gao Yuan , Huang Yang 
Published: July 2019

Abstract

Objective
Detecting adverse drug events (ADEs) and medications related information in clinical notes is important for both hospital medical care and medical research. We describe our clinical natural language processing (NLP) system to automatically extract medical concepts and relations related to ADEs and medications from clinical narratives. This work was part of the 2018 National NLP Clinical Challenges Shared Task and Workshop on Adverse Drug Events and Medication Extraction.

Materials and Methods
The authors developed a hybrid clinical NLP system that employs a knowledge-based general clinical NLP system for medical concepts extraction, and a task-specific deep learning system for relations identification using attention-based bidirectional long short-term memory networks.

Results
The systems were evaluated as part of the 2018 National NLP Clinical Challenges challenge, and our attention-based bidirectional long short-term memory networks based system obtained an F-measure of 0.9442 for relations identification task, ranking fifth at the challenge, and had &lt;2% difference from the best system. Error analysis was also conducted targeting at figuring out the root causes and possible approaches for improvement.

Conclusions
We demonstrate the generic approaches and the practice of connecting general purposed clinical NLP system to task-specific requirements with deep learning methods. Our results indicate that a well-designed hybrid NLP system is capable of ADE and medication-related information extraction, which can be used in real-world applications to support ADE-related researches and medical decisions.
Analysis of Dextromethorphan and Three Metabolites in Decomposed Skeletal Tissues by UPLC–QToF–MS: Comparison of Acute and Repeated Drug Exposures
Authors: Cornthwaite Heather M , McDonald Claire S , Watterson James H 
Published: July 2019

Abstract
Ultra-performance liquid chromatography quadrupole time-of-flight mass spectrometry (UPLC–QToF–MS) analysis of dextromethorphan (DXM) and its metabolites—dextrorphan, 3-methoxymorphinan (3-MEM) and 3-hydroxymorphinan—in skeletal remains of rats exposed to DXM under different dosing patterns is described. Rats (n = 20) received DXM in one of four dosing patterns: acute (ACU1 or ACU2—100 or 200 mg/kg, i.p.; n = 5, respectively) or repeated (REP1 or REP2—3 doses of 25 or 50 mg/kg, i.p., 30 min apart; n = 5, respectively). Drug-free animals (n = 5) served as negative controls. Following euthanasia, the animals decomposed to skeleton outdoors. Bones were sorted by animal and skeletal element (vertebra, femur, pelvis, tibia, rib and skull), washed, air-dried and pulverized prior to dynamic methanolic drug extraction, filtration/pass-through extraction and analysis by UPLC–QToF–MS in positive electrospray ionization mode. Analyte levels (expressed as mass-normalized response ratios, RR/m) differed significantly between ACU1 and ACU2 (Mann–Whitney (MW), P &lt; 0.05) in all skeletal elements for all analytes investigated, and between REP1 and REP2 in most skeletal elements for 3-MEM and 3-HOM, but in all skeletal elements for DXM. Between ACU1 and ACU2, and between REP1 and REP2, analyte level ratios (RRi/RRj) differed significantly (MW, P &lt; 0.05) in 3/6 to 6/6 skeletal elements, depending on the ratios concerned, with no analyte level ratio differing significantly between both ACU1 vs ACU2 and REP1 vs REP2. Kruskal–Wallis (KW) analysis showed skeletal element to be a main effect for all analyte levels and analyte level ratios in all ACU and REP groups examined (P &lt; 0.05). For data pooled only according to exposure pattern, KW analysis showed dose pattern to be a main effect for both analyte levels and analyte level ratios (P &lt; 0.05). These data illustrate a dependence of these measures on dose, dose pattern and skeletal element, suggesting that some exposure patterns may be distinguished by toxicological analysis of bone.
Oral Fluid and Drug Impairment: Pairing Toxicology with Drug Recognition Expert Observations
Authors: Truver Michael T , Palmquist Kaitlyn B , Swortwood Madeleine J 
Published: July 2019

Abstract
According to the Governors Highway Safety Association, drugs are detected more frequently in fatally injured drivers than alcohol. Due to the variety of drugs (prescribed and/or illicit) and their various physiological effects on the body, it is difficult for law enforcement to detect/prosecute drug impairment. While blood and urine are typical biological specimens used to test for drugs, oral fluid is an attractive alternative matrix. Drugs are incorporated into oral fluid by oral contamination (chewing or smoking) or from the bloodstream. Oral fluid is non-invasive and easy to collect without the need for a trained professional to obtain the sample, unlike urine or blood. This study analyzes paired oral fluid and urine with drug recognition expert (DRE) observations. Authentic oral fluid samples (n = 20) were collected via Quantisal™ devices from arrestees under an institutional review board-approved protocol. Urine samples (n = 18) were collected with EZ-SCREEN® cups that presumptively screened for Δ9-tetrahydrocannabinol (cannabinoids), opiates, methamphetamine, cocaine, methadone, phencyclidine, amphetamine, benzodiazepines and oxycodone. Impairment observations (n = 18) were recorded from officers undergoing DRE certification. Oral fluid samples were screened using an Agilent Technologies 1290 Infinity liquid chromatograph (LC) coupled to an Agilent Technologies 6530 Accurate Mass Time-of-Flight mass spectrometer (MS). Personal compound and database libraries were produced in-house containing 64 drugs of abuse. An Agilent 1290 Infinity LC system equipped with an Agilent 6470 Triple Quadrupole MS was used for quantification of buprenorphine, heroin markers (6-acetylmorphine, morphine) and synthetic opioids. Subjects were 23–54 years old; 11 (55%) were male and 9 (45%) were female. Evaluator opinion of drug class was confirmed in oral fluid 90% of time and in urine 85% of the time in reference to scope of testing by the LC–MS methods employed (excludes cannabis and central nervous system depressants). Data indicate that oral fluid may be a viable source for confirming driving under the influence of drugs.
Dynamic regulation of subcellular mitochondrial position for localized metabolite levels
Authors: Alshaabi Haya , Heininger Meara , Cunniff Brian 
Published: July 2019

Abstract
Mitochondria are not passive bystanders aimlessly floating throughout our cell’s cytoplasm. Instead, mitochondria actively move, anchor, divide, fuse, self-destruct and transfer between cells in a coordinated fashion, all to ensure proper structure and position supporting cell function. The existence of the mitochondria in our cells has long been appreciated, but their dynamic nature and interaction with other subcellular compartments has only recently been fully realized with the advancement of high-resolution live-cell microscopy and improved fractionization techniques. The how and why that dictates positioning of mitochondria to specific subcellular sites is an ever-expanding research area. Furthermore, the advent of new and improved functional probes, sensitive to changes in subcellular metabolite levels has increased our understanding of local mitochondrial populations. In this review, we will address the evidence for intentional mitochondrial positioning in supporting subcellular mitochondrial metabolite levels, including calcium, adenosine triphosphate and reactive oxygen species and the role mitochondrial metabolites play in dictating cell outcomes.
The Meaning of Distraction: How Metacognitive Inferences from Distraction during Multitasking Affect Brand Evaluations
Authors: Zane Daniel M , Smith Robert W , Reczek Rebecca Walker 
Published: July 2019

AbstractConsumers often encounter advertisements in the background while primarily focused on other stimuli (e.g., while multitasking). Consumers’ perceived level of distraction by these background ads serves as a metacognitive cue from which inferences are drawn. When consumers perceive themselves to be relatively distracted by a background advertisement, they draw on an underlying lay theory that distraction implies interest in the contents of the distracting stimulus to make the metacognitive inference that they have positive evaluations of the advertised brand. Across five studies, we provide evidence for this proposed metacognitive inferential process by demonstrating that perceived distraction does not enhance brand evaluations when the distraction = interest lay theory is not perceived to be (1) diagnostic or (2) applicable to the current context (e.g., when consumers have little interest in the product category being advertised). Thus, this research introduces distraction as a new metacognitive experience from which consumers draw inferences and offers important insights into when and how background ads shape brand evaluations.
Relative Toxicity and Residual Activity of Nanocapsules and Commercial Formulations of Pirimicarb and Pymetrozine Against Myzus persicae (Hemiptera: Aphididae)
Authors: Maroofpour Nariman , Hejazi Mir Jalil , Hamishehkar Hamed , Iranipour Shahzad 
Published: July 2019

AbstractThe green peach aphid, Myzus persicae (Sulzer), is one of the most common pest species that has the potential to transmit more than 100 plant viruses. Controlling this pest is difficult because it has become resistant to a wide range of insecticides. Nanoformulation has the capacity to reduce the pesticide load in agriculture and thus reduce the risks on human health and the environment. In this study, nanocapsules of pirimicarb and pymetrozine were prepared using nanostructured lipid carriers. The size, morphology, and encapsulation efficiency of nanocapsules were investigated using dynamic light scattering, scanning electron microscopy, and UV-VIS spectrophotometer. Zeta potential studies revealed stability of the nanocapsules of both insecticides. The encapsulation efficiencies were 85 and 81% for pirimicarb and pymetrozine, respectively. The nanocapsules were spherical with sizes of 35.38 and 35.12 nm for pirimicarb and pymetrozine, respectively. The LC50 values for the wettable powder (WP) and nanocapsule of pirimicarb after 48 h were 216.2 and 73.2 mg ai/l; for pymetrozine after 96 h, the values were 40.6 and 14.8 mg ai/l, respectively. Durations of residual activity for WP and nanocapsule formulations of pirimicarb were 7 and 15 d, respectively. The residual activity periods for WP and nanocapsule formulations of pymetrozine were 9 and 17 d, respectively. The results revealed that nanoencapsulation can improve performance allowing for reduced doses and increased duration of insecticidal activity for both of the insecticides tested.
New Data on the Range Expansion of the Thaumetopoea pityocampa (Lepidoptera: Notodontidae) ‘ENA clade’ in Greece: The Role of Bacterial Endosymbionts
Authors: Avtzis Dimitrios N , Schebeck Martin , Petsopoulos Dimitrios , Memtsas George I , Stauffer Christian , Kavallieratos Nickolas G , Athanassiou Christos G , Boukouvala Maria C 
Published: July 2019

AbstractThe pine processionary moth, Thaumetopoea pityocampa (Denis and Schiffermüller), is an important insect in the Mediterranean region, as it defoliates pines and its urticating hairs can cause allergic reactions in humans and animals. Moreover, this species exhibits an interesting genetic structure as recently a distinct East-North African mtDNA lineage (‘ENA clade’) has been described. This clade has been recently detected in Greek populations where it has currently expanded its range by replacing the ‘endemic’ T. pityocampa lineages. Here, we report new data on the rapid spread of ‘ENA clade’ in the Greek island Evoia in only a few years. As the underlying mechanisms of the ‘ENA clade’ range expansion has not been studied so far, we screened T. pityocampa for an infection with the heritable bacterial endosymbionts Wolbachia (Bacteria: Anaplasmataceae), Cardinium (Bacteria: Bacteroidaceae), Rickettsia (Bacteria: Rickettsiaceae) and Spiroplasma (Bacteria: Spiroplasmataceae). These bacteria can manipulate the reproduction of infected hosts, something that could potentially explain the rapid spread of ‘ENA clade’ lineage. Therefore, we screened 28 individuals that exhibited T. pityocampa ‘ENA clade’ and ‘endemic’ T. pityocampa haplotypes from nine populations scattered all over Greece. None of them was infected with any of the four endosymbionts, suggesting that these bacteria do not cause reproductive manipulations in T. pityocampa lineages and, thus, other factors should be explored in future research efforts.
Toxicity of Bacterial Isolates on Adults of Zaprionus indianus (Diptera: Drosophilidae) and Parasitoids Trichopria anastrephae (Hymenoptera: Diapriidae) and Pachycrepoideus vindemmiae (Hymenoptera: Pteromalidae)
Authors: Geisler Fernanda Carla Santos , Cunha Nicole de Souza , Martins Liliane Natigal , Oliveira Daiana da Costa , Stupp Paloma , de Oliveira Igor Gustavo , Leite Fábio Pereira Leivas , Garcia Flávio Roberto Melo , Bernardi Daniel 
Published: July 2019

AbstractBacillus thuringiensis (Berliner) has demonstrated potential use in insect pest management. We evaluated the toxicity and sublethal effects of formulations of toxic baits composed of bacterial isolates (Bt) B. thuringiensis var. oswaldo cruzi (Bto), B. thuringiensis var. israelensis (Bti), B. thuringiensis var. kurstaki (Btk), and B. circulars (Bc) in combination with three food attractants 50% grape juice, 7% sugar cane molasses, and 7% hydrolyzed protein on adults of Zaprionus indianus (Gupta, 1970), the main pest of fig fruit (Ficus carica) in Brazil. Likewise, we evaluated the toxicity on the parasitoids Trichopria anastrephae Lima, 1940 and Pachycrepoideus vindemmiae (Rondani, 1875) in ingestion bioassays. Adults of Z. indianus showed high susceptibility to Bacterial isolates. However, the Bto isolate (1013 CFU. ml−1) caused adult mortality of 100%, in 72 h after exposure, with LT50 values of ≈20 h. By using the lethal concentrations (LC90) of the Bto isolate, estimated via the concentration–response curves with the food attractants, a significant reduction (40 to 50%) in the total fecundity and in the embryonic viability of eggs from females fed with the toxic baits was observed. The food attractants + Bto (80 × 108 CFU. ml−1) did not cause significant mortality of T. anastrephae and P. vindemmiae adults (mortality &lt; 20%). The bacterial isolates Bti, Btk, Bc, and Bto are considered promising for the formulation of toxic baits, because, besides providing toxic effect on adults of Z. indianus, they showed no toxicity on T. anastrephae and P. vindemmiae adults.
Development and Field Validation of a Beta-cyfluthrin-Based ‘Attract-and-Kill’ Device for Suppression of Asian Citrus Psyllid (Hemiptera: Liviidae) on Residential Citrus
Authors: Chow Andrew , Czokajlo Darek , Patt Joseph M , Sétamou Mamoudou 
Published: July 2019

Abstract
An ‘attract-and-kill’ (AK) device was evaluated for suppression of adult Asian citrus psyllid, Diaphorina citri Kuwayama (Hemiptera: Liviidae), on residential citrus. The AK device, made from weather-resistant plasticized PVC, lured D. citri adults by simulating the color of citrus flush and killed them with beta-cyfluthrin. This study evaluated: 1) lethality of AK devices weathered up to 8 wk on residential citrus; 2) survival of psyllids caged with potted plants and AK devices; 3) psyllid suppression achieved by AK devices on individual dooryard trees. AK devices weathered for up to 8 wk remained lethal to psyllids. Greenhouse trials evaluated survival of adult psyllids caged for 4 d with orange jasmine plants that were: 1) treated with an (beta-cyfluthrin-infused) AK device; 2) treated with a blank (no insecticide) AK device; or 3) ‘untreated’ with no AK device. After 4 d, psyllid survival was on average 95% lower among adults exposed to plants with AK devices than adults exposed to untreated plants or plants with blank AK devices. Less than half of the adults exposed to plants with AK devices were alive after 1 d and nearly all were dead after 4 d. Deployment of 20 AK devices per tree provided significant psyllid suppression on infested lemon trees from winter to summer and reduced mean reproduction (cumulative eggs) by 91% and mean attack intensity (cumulative psyllid-days) of adults by 59% and nymphs by 53%. AK devices could be an effective control option for D. citri in urban areas.
Migration restrictions and long-term regional development: evidence from large-scale expulsions of Germans after World War II
Authors: Wyrwich Michael 
Published: July 2019

AbstractThis article investigates the long-run impact of a migration barrier on regional development. The analysis is based on the large-scale expulsion of Germans from Central and Eastern Europe after World War II (WWII). Expellees were not allowed to resettle in the French occupation zone in the first years after the War while there was no such legislation in the other occupation zones (USA; UK; Soviet Union). The temporary migration barrier had long-lasting consequences. In a nutshell, results of a Difference-in-Difference (DiD) analysis show that growth of population and population density were significantly lower even 60 years after the removal of the barrier if a region was part of the French occupation zone. There was a common trend in regional development before the migration barrier became effective. Further analyses suggest that this pattern is driven by different population dynamics in agglomerated areas. The article discusses implications for spatial theory namely whether location fundamentals, agglomeration theories or both affect the spatial equilibrium under certain conditions.