bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quality control of multiplex antibody detection in samples from large-scale surveys: the example of malaria in Haiti
Authors: van den Hoogen Lotus L. , Présumé Jacquelin , Romilus Ithamare , Mondélus Gina , Elismé Tamara , Sepúlveda Nuno , Stresman Gillian , Druetz Thomas , Ashton Ruth A. , Joseph Vena , Eisele Thomas P. , Hamre Karen E. S. , Chang Michelle A. , Lemoine Jean F. , Tetteh Kevin K. A. , Boncy Jacques , Existe Alexandre , Drakeley Chris , Rogier Eric 
Published: January 2020

AbstractMeasuring antimalarial antibodies can estimate transmission in a population. To compare outputs, standardized laboratory testing is required. Here we describe the in-country establishment and quality control (QC) of a multiplex bead assay (MBA) for three sero-surveys in Haiti. Total IgG data against 21 antigens were collected for 32,758 participants. Titration curves of hyperimmune sera were included on assay plates, assay signals underwent 5-parameter regression, and inspection of the median and interquartile range (IQR) for the y-inflection point was used to determine assay precision. The medians and IQRs were similar for Surveys 1 and 2 for most antigens, while the IQRs increased for some antigens in Survey 3. Levey-Jennings charts for selected antigens provided a pass/fail criterion for each assay plate and, of 387 assay plates, 13 (3.4%) were repeated. Individual samples failed if IgG binding to the generic glutathione-S-transferase protein was observed, with 659 (2.0%) samples failing. An additional 455 (1.4%) observations failed due to low bead numbers (<20/analyte). The final dataset included 609,438 anti-malaria IgG data points from 32,099 participants; 96.6% of all potential data points if no QC failures had occurred. The MBA can be deployed with high-throughput data collection and low inter-plate variability while ensuring data quality.
A Silicon Photonic Data Link with a Monolithic Erbium-Doped Laser
Authors: Li Nanxi , Xin Ming , Su Zhan , Magden Emir Salih , Singh Neetesh , Notaros Jelena , Timurdogan Erman , Purnawirman Purnawirman , Bradley Jonathan D. B. , Watts Michael R. 
Published: January 2020

AbstractTo meet the increasing demand for data communication bandwidth and overcome the limits of electrical interconnects, silicon photonic technology has been extensively studied, with various photonics devices and optical links being demonstrated. All of the optical data links previously demonstrated have used either heterogeneously integrated lasers or external laser sources. This work presents the first silicon photonic data link using a monolithic rare-earth-ion-doped laser, a silicon microdisk modulator, and a germanium photodetector integrated on a single chip. The fabrication is CMOS compatible, demonstrating data transmission as a proof-of-concept at kHz speed level, and potential data rate of more than 1 Gbps. This work provides a solution for the monolithic integration of laser sources on the silicon photonic platform, which is fully compatible with the CMOS fabrication line, and has potential applications such as free-space communication and integrated LIDAR.
Understanding the Lipid and Protein Corona Formation on Different Sized Polymeric Nanoparticles
Authors: Lima Tânia , Bernfur Katja , Vilanova Manuel , Cedervall Tommy 
Published: January 2020

AbstractWhen in contact with biological fluids, nanoparticles dynamically absorb biomolecules like proteins and lipids onto their surface, forming a “corona”. This biocorona is a dynamic and complex structure that determines how host cells respond to nanoparticles. Despite the common use of mouse models in pre-clinical and toxicological experiments, the impact of corona formed in mouse serum on the biophysical and biological properties of different size NP has not been thoroughly explored. Furthering the knowledge on the corona formed on NP exposed to mouse serum proteins can help in understanding what role it might have in in vivo studies at systemic, tissue, and cellular levels. To investigate biocorona formation, different sized polystyrene NP were exposed to mouse serum. Our data show a size- and time-dependent protein and lipid corona formation. Several proteins were identified and apolipoproteins were by far the most common group on the NPs surfaces. Moreover, we observed that cholesterol and triglycerides effectively bind to NP emphasizing that proteins are not the only biomolecules with high-affinity binding to nanomaterial surfaces. These results highlight that further knowledge on NP interactions with mouse serum is necessary regarding the common use of this model to predict the in vivo efficiency of NP.
Multi-omics characterization of a diet-induced obese model of non-alcoholic steatohepatitis
Authors: Ægidius Helene M. , Veidal Sanne S. , Feigh Michael , Hallenborg Philip , Puglia Michele , Pers Tune H. , Vrang Niels , Jelsing Jacob , Kornum Birgitte R. , Blagoev Blagoy , Rigbolt Kristoffer T. G. 
Published: January 2020

AbstractTo improve the understanding of the complex biological processes underlying the development of non-alcoholic steatohepatitis (NASH), a multi-omics approach combining bulk RNA-sequencing based transcriptomics, quantitative proteomics and single-cell RNA-sequencing was used to characterize tissue biopsies from histologically validated diet-induced obese (DIO) NASH mice compared to chow-fed controls. Bulk RNA-sequencing and proteomics showed a clear distinction between phenotypes and a good correspondence between mRNA and protein level regulations, apart from specific regulatory events discovered by each technology. Transcriptomics-based gene set enrichment analysis revealed changes associated with key clinical manifestations of NASH, including impaired lipid metabolism, increased extracellular matrix formation/remodeling and pro-inflammatory responses, whereas proteomics-based gene set enrichment analysis pinpointed metabolic pathway perturbations. Integration with single-cell RNA-sequencing data identified key regulated cell types involved in development of NASH demonstrating the cellular heterogeneity and complexity of NASH pathogenesis.
The Association Between Play Fighting and Information Gathering during Subsequent Contests
Authors: Weller Jennifer E. , Turner Simon P. , Farish Marianne , Camerlink Irene , Arnott Gareth 
Published: January 2020

AbstractMany hypotheses regarding the evolution of social play have been suggested, including the development of later-life assessment skills. However, the link between play fighting experience and information gathering during contests has yet to be examined. This paper explores the association between play fighting and contest assessment strategy in the domestic pig (Sus scrofa). Using an established framework, we provide evidence suggesting play fighting frequency may affect the extent to which individuals incorporate information regarding their own and their competitors’ resource holding potential (RHP) in escalation decisions. Pigs were allocated as ‘high play’ or ‘low play’ based upon their relative play fighting frequency. To maximise variation in play, 12 litters underwent a socialisation treatment while the remaining 12 litters were kept isolated within their home pen (i.e. control treatment). At eight weeks of age contests were staged between pairs of unfamiliar pigs, using 19 ‘high play’ dyads and 19 ‘low play’ dyads. While ‘high play’ dyads were observed to rely on a pure self-assessment strategy, ‘low play dyads’ did not meet the predictions of either self- or mutual assessment, suggesting their contest behaviour may have been motivated by alternative factors. We suggest that early life play fighting may therefore allow individuals to develop an accurate estimate of their RHP.
Clonally selected primitive endothelial cells promote occlusive pulmonary arteriopathy and severe pulmonary hypertension in rats exposed to chronic hypoxia
Authors: Bhagwani Aneel R. , Farkas Daniela , Harmon Brennan , Authelet Kayla J. , Cool Carlyne D. , Kolb Martin , Goncharova Elena , Yoder Mervin C. , Clauss Matthias , Freishtat Robert , Farkas Laszlo 
Published: January 2020

AbstractOne current concept suggests that unchecked proliferation of clonally selected precursors of endothelial cells (ECs) contribute to severe pulmonary arterial hypertension (PAH). We hypothesized that clonally selected ECs expressing the progenitor marker CD117 promote severe occlusive pulmonary hypertension (PH). The remodelled pulmonary arteries of PAH patients harboured CD117+ ECs. Rat lung CD117+ ECs underwent four generations of clonal expansion to enrich hyperproliferative ECs. The resulting clonally enriched ECs behaved like ECs, as measured by in vitro and in vivo angiogenesis assays. The same primitive ECs showed a limited ability for mesenchymal lineage differentiation. Endothelial differentiation and function were enhanced by blocking TGF-β signalling, promoting bone morphogenic protein (BMP) signalling. The transplantation of the EC clones caused arterio-occlusive PH in rats exposed to chronic hypoxia. These EC clones engrafted in the pulmonary arteries. Yet cessation of chronic hypoxia promoted lung cell apoptosis and resolution of vascular lesions. In conclusion, this is to the best of our knowledge, the first report that clonally enriched primitive ECs promote occlusive pulmonary arteriopathy and severe PH. These primitive EC clones further give rise to cells of endothelial and mesenchymal lineage as directed by BMP and TGF-β signaling.
Experimental fortification of intestinal anastomoses with nanofibrous materials in a large animal model
Authors: Rosendorf Jachym , Horakova Jana , Klicova Marketa , Palek Richard , Cervenkova Lenka , Kural Tomas , Hosek Petr , Kriz Tomas , Tegl Vaclav , Moulisova Vladimira , Tonar Zbynek , Treska Vladislav , Lukas David , Liska Vaclav 
Published: January 2020

AbstractAnastomotic leakage is a severe complication in gastrointestinal surgery. It is often a reason for reoperation together with intestinal passage blockage due to formation of peritoneal adhesions. Different materials as local prevention of these complications have been studied, none of which are nowadays routinely used in clinical practice. Nanofabrics created proved to promote healing with their structure similar to extracellular matrix. We decided to study their impact on anastomotic healing and formation of peritoneal adhesions. We performed an experiment on 24 piglets. We constructed 3 hand sutured end-to-end anastomoses on the small intestine of each pig. We covered the anastomoses with a sheet of polycaprolactone nanomaterial in the first experimental group, with a sheet of copolymer of polylactic acid with polycaprolactone in the second one and no fortifying material was used in the Control group. The animals were sacrificed after 3 weeks of observation. Clinical, biochemical and macroscopic signs of anastomotic leakage or intestinal obstruction were monitored, the quality of the scar tissue was assessed histologically, and a newly developed scoring system was employed to evaluate the presence of adhesions. The material is easy to manipulate with. There was no mortality or major morbidity in our groups. No statistical difference was found inbetween the groups in the matter of level of peritoneal adhesions or the quality of the anastomoses. We created a new adhesion scoring system. The material appears to be safe however needs to be studied further to prove itsʹ positive effects.
Defining the Environmental Adaptations of Genus Devosia: Insights into its Expansive Short Peptide Transport System and Positively Selected Genes
Authors: Talwar Chandni , Nagar Shekhar , Kumar Roshan , Scaria Joy , Lal Rup , Negi Ram Krishan 
Published: January 2020

AbstractDevosia are well known for their dominance in soil habitats contaminated with various toxins and are best characterized for their bioremediation potential. In this study, we compared the genomes of 27 strains of Devosia with aim to understand their metabolic abilities. The analysis revealed their adaptive gene repertoire which was bared from 52% unique pan-gene content. A striking feature of all genomes was the abundance of oligo- and di-peptide permeases (oppABCDF and dppABCDF) with each genome harboring an average of 60.7 ± 19.1 and 36.5 ± 10.6 operon associated genes respectively. Apart from their primary role in nutrition, these permeases may help Devosia to sense environmental signals and in chemotaxis at stressed habitats. Through sequence similarity network analyses, we identified 29 Opp and 19 Dpp sequences that shared very little homology with any other sequence suggesting an expansive short peptidic transport system within Devosia. The substrate determining components of these permeases viz. OppA and DppA further displayed a large diversity that separated into 12 and 9 homologous clusters respectively in addition to large number of isolated nodes. We also dissected the genome scale positive evolution and found genes associated with growth (exopolyphosphatase, HesB_IscA_SufA family protein), detoxification (moeB, nifU-like domain protein, alpha/beta hydrolase), chemotaxis (cheB, luxR) and stress response (phoQ, uspA, luxR, sufE) were positively selected. The study highlights the genomic plasticity of the Devosia spp. for conferring adaptation, bioremediation and the potential to utilize a wide range of substrates. The widespread toxin-antitoxin loci and ‘open’ state of the pangenome provided evidence of plastic genomes and a much larger genetic repertoire of the genus which is yet uncovered.
Investigations of the Influences of Processing Conditions on the Properties of Spray Dried Chitosan-Tripolyphosphate Particles loaded with Theophylline
Authors: Wei Yang , Huang Yu-Hung , Cheng Kuo-Chung , Song Yu-Lin 
Published: January 2020

AbstractThe preparation of chitosan-tripolyphosphate (chitosan-TPP) particles by the spray drying had been reported word widely for a sustained release of drugs to prevent rapid drug metabolism. Although the spray drying is a straightforward procedure turning a liquid feed into a well-defined dry powder, seldom research works were focusing on how the processing parameters and liquid feeding constitutions of spray drying system might affect the properties of spray-dried chitosan particles loaded with drugs, such as the particle size and morphologies, which would be very important to drug encapsulation and dissolution of the drug delivery design. This study thus prepared the chitosan particles with theophylline (TH) loaded as a model drug and TPP as cross-linker at various spray drying conditions. Our results indicate the diameter of the TH/chitosan-TPP particles made by customized spray drying apparatus spans from 424 to 497 nm with a geometric standard deviation of less than 2. The corresponding release of TH was tunable by the chitosan-TPP matrix density under the selected spray drying temperature and the carrying air flow rate. These results suggest an indeed need for optimized spray drying processing conditions to make the ideal spray-dried TH/chitosan-TPP particles for the desired drug delivery.
Watching eyes do not stop dogs stealing food: evidence against a general risk-aversion hypothesis for the watching-eye effect
Authors: Neilands Patrick , Hassall Rebecca , Derks Frederique , Bastos Amalia P. M. , Taylor Alex H. 
Published: January 2020

AbstractThe presence of pictures of eyes reduces antisocial behaviour in humans. It has been suggested that this ‘watching-eye’ effect is the result of a uniquely human sensitivity to reputation-management cues. However, an alternative explanation is that humans are less likely to carry out risky behaviour in general when they feel like they are being watched. This risk-aversion hypothesis predicts that other animals should also show the watching-eye effect because many animals behave more cautiously when being observed. Dogs are an ideal species to test between these hypotheses because they behave in a risk-averse manner when being watched and attend specifically to eyes when assessing humans’ attentional states. Here, we examined if dogs were slower to steal food in the presence of pictures of eyes compared to flowers. Dogs showed no difference in the latency to steal food between the two conditions. This finding shows that dogs are not sensitive to watching-eyes and is not consistent with a risk-aversion hypothesis for the watching-eye effect.
Comprehensive Behavioral Intervention for Tics reduces perception-action binding during inhibitory control in Gilles de la Tourette syndrome
Authors: Petruo Vanessa , Bodmer Benjamin , Bluschke Annet , Münchau Alexander , Roessner Veit , Beste Christian 
Published: January 2020

AbstractGilles de la Tourette Syndrome (GTS) is a developmental disorder. Empirical studies and an emerging cognitive framework on GTS suggest that GTS is a disorder of abnormally strong ‘perception-action binding’. Theoretical considerations imply that the effectiveness of long-established behavioral interventions might be related to a normalization of increased binding in GTS. This has not been tested yet. We examined the effect of a standardized Comprehensive Behavior Intervention for Tics (CBIT) in N = 21 adolescent GTS patients and N = 21 healthy controls on perception-action binding in an inhibitory control paradigm. Prior to CBIT, GTS patients showed compromised performance compared to controls, specifically when inhibitory control was triggered by uni-modal visual compared to bi-modal stimuli. After CBIT intervention, GTS patient’s performance was at the same level as healthy controls. This is supported by a Bayesian data analysis. CBIT specifically affected inhibitory control in a condition where reconfigurations of perception-action bindings are necessary to perform inhibitory control. A power of 95% was evident for these effects. CBIT reduces increased ‘binding’ between perception and action in GTS and thereby increases the ability to perform response inhibition. The results are the first to provide insights as to why CBIT is effective by relating elements of this intervention to overarching cognitive theoretical frameworks on perception-action bindings.
Inhibition of hypoxia-inducible factor 1α accumulation by glyceryl trinitrate and cyclic guanosine monophosphate
Authors: Kim Judy , Barsoum Ivraym B. , Loh Harrison , Paré Jean-François , Siemens D. Robert , Graham Charles H. 
Published: January 2020

Abstract
A key mechanism mediating cellular adaptive responses to hypoxia involves the activity of hypoxia-inducible factor 1 (HIF-1), a transcription factor composed of HIF-1α, and HIF-1β subunits. The classical mechanism of regulation of HIF-1 activity involves destabilisation of HIF-1α via oxygen-dependent hydroxylation of proline residues and subsequent proteasomal degradation. Studies from our laboratory revealed that nitric oxide (NO)-mediated activation of cyclic guanosine monophosphate (cGMP) signalling inhibits the acquisition of hypoxia-induced malignant phenotypes in tumour cells. The present study aimed to elucidate a mechanism of HIF-1 regulation involving NO/cGMP signalling. Using human DU145 prostate cancer cells, we assessed the effect of the NO mimetic glyceryl trinitrate (GTN) and the cGMP analogue 8-Bromo-cGMP on hypoxic accumulation of HIF-1α. Concentrations of GTN known to primarily activate the NO/cGMP pathway (100 nM–1 µM) inhibited hypoxia-induced HIF-1α protein accumulation in a time-dependent manner. Incubation with 8-Bromo-cGMP (1 nM–10 µM) also attenuated HIF-1α accumulation, while levels of HIF-1α mRNA remained unaltered by exposure to GTN or 8-Bromo-cGMP. Furthermore, treatment of cells with the calpain (Ca2+-activated proteinase) inhibitor calpastatin attenuated the effects of GTN and 8-Bromo-cGMP on HIF-1α accumulation. However, since calpain activity was not affected by incubation of DU145 cells with various concentrations of GTN or 8-Bromo-cGMP (10 nM or 1 µM) under hypoxic or well-oxygenated conditions, it is unlikely that NO/cGMP signalling inhibits HIF-1α accumulation via regulation of calpain activity. These findings provide evidence for a role of NO/cGMP signalling in the regulation of HIF-1α, and hence HIF-1-mediated hypoxic responses, via a mechanism dependent on calpain.
NORAD accelerates chemo-resistance of non-small-cell lung cancer via targeting at miR-129-1-3p/SOX4 axis
Authors: Huang Qiang , Xing Shijiang , Peng Aiping , Yu Zhiwu 
Published: January 2020

Abstract
Substantial researches indicated that long non-coding RNAs (lncRNAs) exerted profound effects on chemo-resistance in cancer treatment. Nonetheless, the role of NORAD in non-small-cell lung cancer (NSCLC) remains unclear. In the present study, we chose NSCLC cell lines H446 and A549 to explore the function of non-coding RNA activated damage (NORAD) in response to cisplatin (DDP) resistance of NSCLC. Experimental data manifested that NORAD was up-regulated in DDP-resistant NSCLC tissues and cells. NSCLC patients with high NORAD expression suffered a poor prognosis. NORAD knockdown resensitized H446/DDP and A549/DDP to DDP. Besides, NORAD acted as a molecular sponge of miR-129-1-3p. MiR-129-1-3p showed a low level of expression in DDP-resistant NSCLC tissues. Moreover, miR-129-1-3p overexpression impaired DDP resistance in H446/DDP and A549/DDP cells. SOX4 was the downstream target of miR-129-1-3p. Especially, SOX4 overexpression offset the effects of NORAD silence on H446/DDP and A549/DDP cells resistance to DDP. NORAD knockdown resensitized H446/DDP and A549/DDP to DDP in NSCLC via targeting miR-129-1-3p/SOX4 axis, offering a brand-new target for NSCLC chemo-resistance.
Galectin-3 and Cardiovascular Biomarkers Reflect Adaptation Response
to Scuba Diving
Authors: Žarak Marko , Perović Antonija , Dobrović Irena , Goreta Sandra Šupraha , Dumić Jerka 
Published: January 2020

AbstractTo understand better the adaptation response of the cardiovascular system (CVS)
to self-contained underwater breathing apparatus (SCUBA) diving, Galectin-3
(Gal-3) and specific CVS biomarkers were measured in plasma of 16 male
recreational divers before and after (30 min, 3 and 6 h) diving
(total time of 30 min at 30 m depth) undertaken a after long
non-dive period. The one-time SCUBA dive caused a significant increase in Gal-3,
N-terminal prohormone of brain natriuretic peptide (NT-proBNP), high-sensitivity
troponin-I (hs-TnI), and myoglobin immediately after diving. Whereas Gal-3 and
myoglobin dropped down to the basal levels during the recovery period, NT-proBNP
and hs-TnI concentration continued to increase. An immediate increase of
vascular endothelial growth factor, detected immediately after diving, was
followed by a significant decrease and return to the basal level, 3 and 6 h
after diving, respectively. After a significant initial decrease, endothelin-1
increased during the recovery period, but did not return to the basal level. The
observed changes in these biomarkers reflect comprehensive, but transient
adaptation of CVS and muscular system to the specific environmental conditions
during the SCUBA dive. Whether the recurrent activation of these adaption
mechanisms due to repetitive dives has positive or negative effects on CVS
remains to be elucidated.