bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Texture of Rare and Common Lesions in Soemmerring and Baillie
Authors: Meli Domenico Bertoloni 
Published: June 2019

Abstract
The publications on morbid anatomy by Matthew Baillie and Samuel Thomas Soemmerring put pathological preparations and images center stage. A comparison between their works highlights major shifts from exceptional to more representative cases and significant differences in the art of representation. Initially Baillie provided careful descriptions of internal postmortem lesions (1793). Then Soemmerring’s prompt German translation added a wealth of references to the literature and specifically to pathological images available in print (1794). Soon after a second unillustrated edition incorporating some of Soemmerring’s comments (1797), Baillie issued ten installments with dozens of pathological plates (1799-1803). His plates differed from those referred to by Soemmerring for their broader scope, representing common and rare conditions alike, and specific attention to the fine changes of texture of the affected parts. Their works document the crucial status of pathological preparations and images at the time and highlight the achievement of Baillie’s work at an artistic as well as at an intellectual level.
Laparoscopic management of a late gastric perforation post-fundoplication
Authors: Keilig Robert , Shariff Raza M 
Published: June 2019

Abstract
Nissen fundoplication is a safe and effective procedure for gastroesophageal reflux. Gastric ulceration leading to perforation is an uncommon late complication with a mechanism of action that is poorly understood.
A 40-year-old male presented 3 years following his fundoplication with a perforated ulcer in the upper body of the stomach. The patient admitted ibuprofen use leading up to the perforation. The perforation was successfully repaired via laparoscopy, with good postoperative outcome.
Gastric ulcer perforation post-fundoplication is a rare late outcome. Gastric perforation may have been precipitated by the use of non-steroidal anti-inflammatory drugs (NSAIDs) in concert with the vascular mechanical changes caused by this procedure. A review of the literature reveals only a handful of accounts of gastric ulcers or perforations as a late outcome. Of note, many of these perforations occur in the upper stomach and in tandem with NSAID use.
Co-occurrence graph-based context adaptation: a new unsupervised approach to word sense disambiguation
Authors: Rahmani Saeed , Fakhrahmad Seyed Mostafa , Sadreddini Mohammad Hadi 
Published: June 2019

Abstract
Word sense disambiguation (WSD) is the task of selecting correct sense for an ambiguous word in its context. Since WSD is one of the most challenging tasks in various text processing systems, improving its accuracy can be very beneficial. In this article, we propose a new unsupervised method based on co-occurrence graph created by monolingual corpus without any dependency on the structure and properties of the language itself. In the proposed method, the context of an ambiguous word is represented as a sub-graph extracted from a large word co-occurrence graph built based on a corpus. Most of the words are connected in this graph. To clarify the exact sense of an ambiguous word, its senses and relations are added to the context graph, and various similarity functions are employed based on the senses and context graph. In the disambiguation process, we select senses with highest similarity to the context graph. As opposite to other WSD methods, the proposed method does not use any language-dependent resources (e.g. WordNet) and it just uses a monolingual corpus. Therefore, the proposed method can be employed for other languages. Moreover, by increasing the size of corpus, it is possible to enhance the accuracy of WSD. Experimental results on English and Persian datasets show that the proposed method is competitive with existing supervised and unsupervised WSD approaches.
Electromyographic Activity Evolution of Local Twitch Responses During Dry Needling of Latent Trigger Points in the Gastrocnemius Muscle: A Cross-Sectional Study
Authors: Baraja-Vegas Luis , Martín-Rodríguez Saúl , Piqueras-Sanchiz Francisco , Martín-Ruiz Julio , Yeste Fabregat Mireia , Florencio Lidiane L , Fernández-de-las-Peñas César 
Published: June 2019

Abstract

Objective
Trigger points (TrPs) are hypersensitive spots within taut bands of skeletal muscles that elicit referred pain and motor changes. Among the variety of techniques used for treating TrPs, dry needling is one of the most commonly applied interventions. The question of eliciting local twitch responses (LTRs) during TrP dry needling is unclear. Our main aim was to investigate the evolution of the electromyographic (EMG) peak activity of each LTR elicited during dry needling into latent TrPs of the gastrocnemius medialis muscle.

Methods
Twenty asymptomatic subjects with latent TrPs in the gastrocnemius medialis muscle participated in this cross-sectional study. Changes in EMG signal amplitude (root mean square [RMS]) with superficial EMG were assessed five minutes before, during, and five minutes after dry needling. The peak RMS score of each LTR was calculated (every 0.5 sec).

Results
Analysis of variance revealed a significant effect (F = 29.069, P &lt;0.001) showing a significant decrease of RMS peak amplitude after each subsequent LTR. Differences were significant (P &lt;0.001) during the first three LTRs, and stable until the end of the procedure. No changes (P =0.958) were found for mean RMS data at rest before (mean = 65.2 mv, 95% confidence interval [CI] = 47.3–83.1) and after (61.0 mv, 95% CI = 42.3–79.7) dry needling.

Conclusions
We found that, in a series of LTRs elicited during the application of dry needling over latent TrPs in the medial gastrocnemius muscle, the RMS peak amplitude of each subsequent LTR decreased as compared with the initial RMS peak amplitude of previous LTRs. No changes in superficial EMG activity at rest were observed after dry needling of latent TrPs of the gastrocnemius medialis muscle.
Developing Purpose-Oriented Networks: A Process View
Authors: Berthod Olivier , Segato Federica 
Published: June 2019

AbstractRejoining other authors’ arguments in favor of less linear and more process-based studies of change in purpose-oriented networks (PONs), we propose conceiving of PONs not as social entities or forms, but as processes constantly in flux. From this perspective, PONs comprise more or less interconnected processes constantly at play, albeit with more or less intensity, depending on the reflexive management and actions of their participants. We contend that a process view sheds light on three major themes categorizing extant research on network development: network development as the product of engineered, planned managerial actions; network evolution as the product of unintended, systemic changes both within and outside of PONs; and the management of network tensions as the central object of managerial attention.
Exposure to environmental level pesticides stimulates and diversifies evolution inEscherichia colitowards greater antibiotic resistance
Authors: Xing Yue , Wu Shuaiqi , Men Yujie 
Published: June 2019

AbstractAntibiotic resistance is one of the most challenging issues in public health. Antibiotic resistance can be selected by antibiotics at sub-inhibitory concentrations, the concentrations typically occurring in natural and engineered environments. Meanwhile, many other emerging organic contaminants such as pesticides are frequently co-occurring with antibiotics in agriculture-related environments and municipal wastewater treatment plants. To investigate the effects of the co-existing, non-antibiotic pesticides on the development of antibiotic resistance, we conducted long-term exposure experiments using a modelEscherichia colistrain. The results revealed that 1) the exposure to a high level (in mg/L) of pesticides alone led to the emergence of mutants with significantly higher resistance to streptomycin; 2) the exposure to an environmental level (in µg/L) of pesticides together with a sub-inhibitory level (in sub mg/L) of ampicillin synergistically stimulated the selection of ampicillin resistance and the cross-selection of resistance to three other antibiotics (i.e., ciprofloxacin, chloramphenicol, and tetracycline). Resistance levels of mutants selected from co-exposure were significantly higher than those of mutants selected from ampicillin exposure only. The comparative genomic and transcriptomic analyses indicate that distinct and diversified genetic mutations in ampicillin- and ciprofloxacin-resistant mutants were selected from co-exposure, which likely caused holistic transcriptional regulation and the increased antibiotic resistance. Together, the findings provide valuable fundamental insights into the development of antibiotic resistance under environmentally relevant conditions, as well as the underlying molecular mechanisms of the elevated antibiotic resistance induced by the exposure to pesticides.Significance statementAntibiotic resistance is a major threat to public health globally. Besides clinically relevant environments, the emergence and spread of resistant bacteria in non-clinical environments can also potentially pose risks of therapy failures. This study showed that the long-term, environment-level exposure to pesticides with and without antibiotics significantly stimulated the development of greater antibiotic resistance. The resistant strains selected from the exposure to pesticides are genetically and metabolically distinct from the ones selected by the antibiotic only. Although it is still being debated regarding whether or not a large use of antibiotics in plant agriculture is harmful, our findings provide the first fundamental evidence that greater concerns of antibiotic resistance may result if antibiotics are applied together with non-antibiotic pesticides.
Transcranial magnetic stimulation during British Sign Language production reveals monitoring of discrete linguistic units in left superior parietal lobule
Authors: Vinson David , Fox Neil , Devlin Joseph T. , Emmorey Karen , Vigliocco Gabriella 
Published: June 2019

AbstractSuccessful human hand and arm movements are typically carried out by combining visual, motoric, and proprioceptive information in planning, initiation, prediction, and control. The superior parietal lobule (SPL) has been argued to play a key role in integrating visual and motoric information particularly during grasping of objects and other such tasks which prioritise visual information. However, sign language production also engages SPL even though fluent signers do not visually track their hands or fixate on target locations. Does sign language production simply rely on the motoric/ proprioceptive processes engaged in visually guided action, or do the unique characteristics of signed languages change these processes? Fifteen fluent British Sign Language users named pictures while we administered transcranial magnetic stimulation (TMS) to left SPL, a control site, or no TMS. TMS to SPL had very specific effects: an increased rate of (sign-based) phonological substitution errors for complex two-handed signs (those requiring hand contact), but TMS did not slow or otherwise impair performance. Thus, TMS decreased the likelihood of detecting or correcting phonological errors during otherwise successful bimanual coordination, but it did not noticeably alter fine movement control. These findings confirm that for fluent signers SPL has adapted to monitor motor plans for discrete hand configurations retrieved from memory as well as more fine-grained aspects of visually guided actions.
Quantifying phenotypic variability and fitness in finite microbial populations
Authors: Levien Ethan , Kondev Jane , Amir Ariel 
Published: June 2019

SummaryIn isogenic microbial populations, phenotypic variability is generated by a combination of intrinsic factors, specified by cell physiology, and environmental factors. Here we address the question: how does phenotypic variability of a microbial population affect its fitness? While this question has previously been studied for exponentially growing populations, the situation when the population size is kept fixed has received much less attention. We show that in competition experiments with multiple microbial species, the fitness of the population can be determined from the distribution of phenotypes, provided all variability is due to intrinsic factors. We then explore how robust the relationship between fitness and phenotypic variability is to environmental fluctuations. We find that this relationship breaks down in the presence of environmental fluctuations, and derive a simple formula relating the average fitness of a population to the phenotype distribution and fluctuations in the instantaneous population growth rate. Using published experimental data we demonstrate how our formulas can be used to discriminate between intrinsic and environmental contributions to phenotypic diversity.
Nicotinamide riboside augments the human skeletal muscle NAD+ metabolome and induces transcriptomic and anti-inflammatory signatures in aged subjects: a placebo-controlled, randomized trial
Authors: Elhassan Yasir S , Kluckova Katarina , Fletcher Rachel S , Schmidt Mark , Garten Antje , Doig Craig L , Cartwright David M , Oakey Lucy , Burley Claire V , Jenkinson Ned , Wilson Martin , Lucas Samuel J E , Akerman Ildem , Seabright Alex , Lai Yu-Chiang , Tennant Daniel A , Nightingale Peter , Wallis Gareth A , Manolopoulos Konstantinos N , Brenner Charles , Philp Andrew , Lavery Gareth G 
Published: June 2019

SUMMARYNAD+ is modulated by conditions of metabolic stress and has been reported to decline with aging, but human data are sparse. Nicotinamide riboside (NR) supplementation ameliorates metabolic dysfunction in rodents. We aimed to establish whether oral NR supplementation in aged participants can increase the skeletal muscle NAD+ metabolome, and questioned if tissue NAD+ levels are depressed with aging. We supplemented 12 aged men with NR 1g per day for 21-days in a placebo-controlled, randomized, double-blind, crossover trial. Targeted metabolomics showed that NR elevated the muscle NAD+ metabolome, evident by increased nicotinic acid adenine dinucleotide and nicotinamide clearance products. Muscle RNA sequencing revealed NR-mediated downregulation of energy metabolism and mitochondria pathways. NR also depressed levels of circulating inflammatory cytokines. In an additional study, 31P magnetic resonance spectroscopy-based NAD+ measurement in muscle and brain showed no difference between young and aged individuals. Our data establish that oral NR is available to aged human muscle and identify anti-inflammatory effects of NR, while suggesting that NAD+ decline is not associated with chronological aging per se in human muscle or brain.
Distinct Basket Nucleoporins roles in Nuclear Pore Function and Gene Expression: Tpr is an integral component of the TREX-2 mRNA export pathway
Authors: Aksenova Vasilisa , Lee Hang Noh , Smith Alexandra , Chen Shane , Bhat Prasanna , Iben James , Echeverria Carlos , Fontoura Beatriz , Arnaoutov Alexei , Dasso Mary 
Published: June 2019

AbstractNuclear pore complexes (NPCs) are important for many processes beyond nucleocytoplasmic trafficking, including protein modification, chromatin remodeling, transcription, mRNA processing and mRNA export. The multi-faceted nature of NPCs and the slow turnover of their components has made it difficult to understand the role of basket nucleoporins (Nup153, Nup50 and Tpr) in these diverse processes. To address this question, we used anAuxin-InducedDegron (AID) system to distinguish roles of basket nucleoporins: Loss of individual nucleoporins caused distinct alteration in patterns of nucleocytoplasmic trafficking and gene expression. Importantly, Tpr elimination caused rapid and pronounced changes in transcriptomic profiles within two hours of auxin addition. These changes were dissimilar to shifts observed after loss of Nup153 or Nup50, but closely related to changes after depletion of mRNA export receptor NXF1 or the GANP subunit of the TRanscription-EXport-2 (TREX-2) mRNA export complex. Moreover, GANP association to NPCs was specifically disrupted upon TPR depletion. Together, our findings demonstrate a unique and pivotal role of Tpr in regulating gene expression through GANP- and/or NXF1-dependent mRNA nuclear export.
Hippocampal transcriptome analysis following maternal separation implicates altered RNA processing in a mouse model of fetal alcohol spectrum disorder
Authors: Alberry Bonnie LJ , Castellani Christina A , Singh Shiva M 
Published: June 2019

ABSTRACTFetal alcohol spectrum disorders (FASD) are common, seen in 1-5% of the population in the United States and Canada. Children diagnosed with FASD are not likely to remain with their biological parents, facing early maternal separation and foster placements throughout childhood. We have modeled FASD in mice via prenatal alcohol exposure and further induce early life stress through maternal separation. We report an association between adult hippocampal gene expression and prenatal ethanol exposure followed by postnatal separation stress that is related to behavioral changes. Clustering of expression profiles through weighted gene co-expression network analysis (WGCNA) identifies a set of transcripts, module 19, associated with anxiety-like behavior (r = 0.79, p = 0.002) as well as treatment group (r = 0.68, p = 0.015). Genes in this module are overrepresented by genes involved in transcriptional regulation and other pathways related to neurodevelopment. Interestingly, one member of this module, Polr2a, polymerase (RNA) II (DNA directed) polypeptide A, is downregulated by the combination of prenatal ethanol and postnatal stress in an RNA-Seq experiment and qPCR validation (q = 2e-12, p = 0.004, respectively). Together, transcriptional control in the hippocampus is implicated as a potential underlying mechanism leading to anxiety-like behavior via environmental insults. Further research is required to elucidate the mechanism involved and use this insight towards early diagnosis and amelioration strategies involving children born with FASD.SUMMARY STATEMENTMouse hippocampal gene expression alterations following prenatal alcohol exposure and maternal separation are associated with behavioral deficits. Transcriptomic analysis implicates systems defect involving RNA processing, specifically including downregulation of Polr2a.
Armeniaspirols inhibit the AAA+ proteases ClpXP and ClpYQ leading to cell division arrest in Gram-positive bacteria
Authors: Labana Puneet , Dornan Mark H. , Lafrenière Matthew , Czarny Tomasz L. , Brown Eric D. , Pezacki John P. , Boddy Christopher N. 
Published: June 2019

ABSTRACTMulti-drug resistant bacteria present an urgent threat to modern medicine, creating a desperate need for the discovery of antibiotics with new modes of action. Natural products whose unique highly diverse structures have been shaped by evolution to possess biologically relevant activity are an ideal discovery ground for new antibiotics with new mechanisms of action. In this study we elucidate the mechanism of action of the Gram-positive antibiotic armeniaspirol, a compound for which resistant bacteria could not be selected for. We show that armeniaspirol inhibits the ATP-dependent proteases ClpXP and ClpYQ in biochemical assays and in the Gram-positive bacteria Bacillus subtilis. We then show that this activity dysregulates key proteins involved in the divisome and elongasome including FtsZ, DivIVA, and MreB all of which are known to inhibit cell division when upregulated. Inhibition of ClpXP and ClpYQ leading to dysregulation of the divisome and elongasome represents a new mechanism of action and armeniaspirol is the first known natural product inhibitor of the coveted anti-virulence target ClpP. Thus armeniaspirol is the lead compound for a promising new class of antibiotics with a unique pharmacology and a novel mechanism for combating antimicrobial resistance, making it a highly promising candidate for further development.
Classic and introgressed selective sweeps shape mimicry loci across a butterfly adaptive radiation
Authors: Moest Markus , Van Belleghem Steven M. , James Jennifer E. , Salazar Camilo , Martin Simon H. , Barker Sarah L. , Moreira Gilson R. P. , Mérot Claire , Joron Mathieu , Nadeau Nicola J. , Steiner Florian M. , Jiggins Chris D. 
Published: June 2019

AbstractNatural selection leaves distinct signatures in the genome that can reveal the targets and history of adaptive evolution. By analysing high-coverage genome sequence data from four major colour pattern loci sampled from nearly 600 individuals in 53 populations, we show pervasive selection on wing patterns across theHeliconiusadaptive radiation. The strongest signatures correspond to loci with the greatest phenotypic effects, consistent with visual selection by predators, and are found in colour patterns with geographically restricted distributions. These recent sweeps are similar between co-mimics and indicate colour pattern turn-over events despite strong stabilizing selection. Using simulations we compare sweep signatures expected under classic hard sweeps with those resulting from adaptive introgression, an important aspect of mimicry evolution inHeliconius. Simulated recipient populations show a distinct ‘volcano’ pattern with peaks of increased genetic diversity around the selected target, consistent with patterns found in some populations. Our genomic data provide unprecedented insights into the recent history of selection across theHeliconiusadaptive radiation.
Ecophysiology ofpotentilla gracilisdouglas ex hook (rosaceae): effects of night temperature and water stress on photosynthetic gas exchange
Authors: Nepal Madhav P. , Berg Virginia S. 
Published: June 2019

ABSTRACTPlants in stressful environments have evolved strategies to cope with fluctuating environmental conditions.Potentilla gracilis, also known as Alpine Cinquefoil, grows in alpine meadows of the Rocky Mountains (USA), and is subjected to wide ranges of temperature, light intensity and water availability on a time scale of minutes to days during the growing season. Leaves often freeze to a brittle state at night, are exposed to high radiation while still frosty, dehydrate to wilting during the following light period, and then repeat the cycle the following day. The main objective of this research was to determine the effect of night temperature on subsequent photosynthetic gas exchange inP. gracilis. We used a photosynthetic gas exchange system to compare assimilation and stomatal conductance from light response curves of cold-acclimatedP. gracilisfollowing warm and chilling nights, and for plants at different water potentials. From the light response curves, dark respiration, light compensation point, maximum assimilation, light saturation point, and inhibition of photosynthesis were determined and were compared among the same plants under varying conditions. Assimilation and stomatal conductance decreased with the fall in measurement temperature, following chilling nights, and with the severity of water stress. Low night temperature and high photon flux density during the daytime, which are very common during the growing season in the field, cause a reduction in photosynthesis of the plant. The probable underlying damage during inhibition is likely repairable indicating protection rather than damage. The cold nocturnal temperature, with its less efficient biochemical repair capabilities, may partly be responsible for the reduction in assimilation of the following day.P. gracilisspecies exhibited persistent acquired freezing tolerance; substantial photosynthetic productivity over a wide range of light intensity and temperature; and significant tolerance of, and rapid recovery from, severe drought; making a maximum use of often challenging resources.