bluuebunny/crossref_metadata_2025_split huggingface dataset:
Small‐Scale Variability of Bottom Oxygen in the Northern Gulf of Mexico
Authors: Ruiz Xomchuk Veronica , Hetland Robert D. , Qu Lixin 
Published: November 2020

AbstractWhile the occurrence of seasonal bottom hypoxia in the Northern Gulf of Mexico is an extensively studied subject, most research effort has been put on understanding and quantifying hypoxic extent, and little is known about internal variability and short‐term shifts. We use a realistic hydrodynamic model with a simple oxygen parametrization to demonstrate that hypoxia development in the far‐field of the Mississippi plume is subject to physical processes with spatial scales ranging from (10) to (100 km) and temporal scales from the near‐inertial period to seasonality. We use a budget decomposition of the oxygen equation to explore patterns. The mean spatial structure of the local rate of change reveals features shaped as oxygen loss rings enclosing oxygenation cores. This structure is mainly a balance between net advection (horizontal and vertical) and sediment oxygen demand. In terms of temporal variability, we found a large near‐inertial signal in advection, following a convergence‐divergence pattern, at all spatial scales, and a strong subinertial signal at smaller scales only. Variability in advection increases with decreasing temporal and spatial scales, consistently with a field rich in instabilities introducing small‐scale, strong anomalies. Through a Reynolds decomposition of the budget, we separate anomalies from the main flow and identify the total vertical perturbation flux as the primary counterbalance to sediment oxygen demand during periods when the hypoxic extent is maintained or destroyed. Vertical flux anomalies manifest as bottom water intrusions into the mid water column, which have been captured by high‐resolution observations.
Physical Processes Determine Spatial Structure in Water Temperature and Residence Time on a Wide Reef Flat
Authors: Reid E. C. , Lentz S. J. , DeCarlo T. M. , Cohen A. L. , Davis K. A. 
Published: November 2020

AbstractOn coral reefs, flow determines residence time of water influencing physical and chemical environments and creating observable microclimates within the reef structure. Understanding the physical mechanisms driving environmental variability on shallow reefs, which distinguishes them from the open ocean, is important for understanding what contributes to thermal resilience of coral communities and predicting their response to future anomalies. In June 2014, a field experiment conducted at Dongsha Atoll in the northern South China Sea investigated the physical forces that drive flow over a broad shallow reef flat. Instrumentation included current and pressure sensors and a distributed temperature sensing system, which resolved spatially and temporally continuous temperature measurements over a 3‐km cross‐reef section from the lagoon to reef crest. Spectral analysis shows that while diurnal variability was significant across the reef flat—a result expected from daily solar heating—temperature also varied at higher frequencies near the reef crest. These spatially variable temperature regimes, or thermal microclimates, are influenced by circulation on the wide reef flat, with spatially and temporally variable contributions from tides, wind, and waves. Through particle tracking simulations, we find the residence time of water is shorter near the reef crest (3.6 h) than near the lagoon (8.6 h). Tidal variability in flow direction on the reef flat leads to patterns in residence time that are different than what would be predicted from unidirectional flow. Circulation on the reef also determines the source (originating from offshore vs. the lagoon) of the water present on the reef flat.
Examining the Climate Effects of a Regional Nuclear Weapons Exchange Using a Multiscale Atmospheric Modeling Approach
Authors: Wagman Benjamin M. , Lundquist Katherine A. , Tang Qi , Glascoe Lee G. , Bader David C. 
Published: November 2020

AbstractRecent studies examine the potential for large urban fires ignited in a hypothetical nuclear exchange of one hundred 15 kt weapons between India and Pakistan to alter the climate (e.g., Mills et al., 2014, https://doi.org/10.1002/2013EF000205, and Reisner et al., 2018, https://doi.org/10.1002/2017JD027331). In this study, the global climate forcing and response is predicted by combining two atmospheric models, which together span the micro‐scale to global scale processes involved. Individual fire plumes are modeled using the Weather Research and Forecasting (WRF) model, and the climate response is predicted by injecting the WRF‐simulated black carbon (BC) emissions into the Energy Exascale Earth System Model (E3SM) atmosphere model Version 1 (EAMv1). Consistent with previous studies, the radiative forcing depends on smoke quantity and injection height, examined here as functions of fuel loading and atmospheric conditions. If the fuel burned is 1 g cm−2, BC is quickly removed from the troposphere, causing no global mean climate forcing. If the fuel burned is 16 g cm−2 and 100 such fires occurred simultaneously with characteristics similar to historical large urban firestorms, BC reaches the stratosphere, reducing solar radiation and causing cooling at the Earth's surface. Uncertainties in smoke composition and aerosol representation cause large uncertainties in the magnitude of the radiative forcing and cooling. The approximately 4 yr duration of the radiative forcing is shorter than the 8 to 15 yr that has previously been simulated. Uncertainties point to the need for further development of potential nuclear exchange scenarios, quantification of fuel loading, and improved understanding of fire propagation and aerosol modeling.
A systematic review of contamination (aerosol, splatter and droplet generation) associated with oral surgery and its relevance to COVID-19
Authors: Gallagher Jennifer E. , K.C. Sukriti , Johnson Ilona G. , Al-Yaseen Waraf , Jones Rhiannon , McGregor Scott , Robertson Mark , Harris Rebecca , Innes Nicola , Wade William G. 
Published: November 2020

Abstract
Introduction
The current COVID-19 pandemic caused by the SARS-CoV-2 virus has impacted the delivery of dental care globally and has led to re-evaluation of infection control standards. However, lack of clarity around what is known and unknown regarding droplet and aerosol generation in dentistry (including oral surgery and extractions), and their relative risk to patients and the dental team, necessitates a review of evidence relating to specific dental procedures. This review is part of a wider body of research exploring the evidence on bioaerosols in dentistry and involves detailed consideration of the risk of contamination in relation to oral surgery.

Methods
A comprehensive search of Medline (OVID), Embase (OVID), Cochrane Central Register of Controlled Trials, Scopus, Web of Science, LILACS and ClinicalTrials.Gov was conducted using key terms and MeSH (Medical Subject Headings) words relating to the review questions. Methodological quality including sensitivity was assessed using a schema developed to measure quality aspects of studies using a traffic light system to allow inter- and intra-study overview and comparison. A narrative synthesis was conducted for assessment of the included studies and for the synthesis of results.

Results
Eleven studies on oral surgery (including extractions) were included in the review. They explored microbiological (bacterial and fungal) and blood (visible and/or imperceptible) contamination at the person level (patients, operators and assistants) and/or at a wider environmental level, using settle plates, chemiluminescence reagents or air samplers; all within 1 m of the surgical site. Studies were of generally low to medium quality and highlighted an overall risk of contaminated aerosol, droplet and splatter generation during oral surgery procedures, most notably during removal of impacted teeth using rotatory handpieces. Risk of contamination and spread was increased by factors, including proximity to the operatory site, longer duration of treatment, higher procedural complexity, non-use of an extraoral evacuator and areas involving more frequent contact during treatment.

Conclusion
A risk of contamination (microbiological, visible and imperceptible blood) to patients, dental team members and the clinical environment is present during oral surgery procedures, including routine extractions. However, the extent of contamination has not been explored fully in relation to time and distance. Variability across studies with regards to the analysis methods used and outcome measures makes it difficult to draw robust conclusions. Further studies with improved methodologies, including higher test sensitivity and consideration of viruses, are required to validate these findings.
Common diseases alter the physiological age-related blood microRNA profile
Authors: Fehlmann Tobias , Lehallier Benoit , Schaum Nicholas , Hahn Oliver , Kahraman Mustafa , Li Yongping , Grammes Nadja , Geffers Lars , Backes Christina , Balling Rudi , Kern Fabian , Krüger Rejko , Lammert Frank , Ludwig Nicole , Meder Benjamin , Fromm Bastian , Maetzler Walter , Berg Daniela , Brockmann Kathrin , Deuschle Christian , von Thaler Anna-Katharina , Eschweiler Gerhard W. , Milman Sofiya , Barziliai Nir , Reichert Matthias , Wyss-Coray Tony , Meese Eckart , Keller Andreas 
Published: November 2020

AbstractAging is a key risk factor for chronic diseases of the elderly. MicroRNAs regulate post-transcriptional gene silencing through base-pair binding on their target mRNAs. We identified nonlinear changes in age-related microRNAs by analyzing whole blood from 1334 healthy individuals. We observed a larger influence of the age as compared to the sex and provide evidence for a shift to the 5’ mature form of miRNAs in healthy aging. The addition of 3059 diseased patients uncovered pan-disease and disease-specific alterations in aging profiles. Disease biomarker sets for all diseases were different between young and old patients. Computational deconvolution of whole-blood miRNAs into blood cell types suggests that cell intrinsic gene expression changes may impart greater significance than cell abundance changes to the whole blood miRNA profile. Altogether, these data provide a foundation for understanding the relationship between healthy aging and disease, and for the development of age-specific disease biomarkers.
High-throughput laboratory evolution reveals evolutionary constraints in Escherichia coli
Authors: Maeda Tomoya , Iwasawa Junichiro , Kotani Hazuki , Sakata Natsue , Kawada Masako , Horinouchi Takaaki , Sakai Aki , Tanabe Kumi , Furusawa Chikara 
Published: November 2020

AbstractUnderstanding the constraints that shape the evolution of antibiotic resistance is critical for predicting and controlling drug resistance. Despite its importance, however, a systematic investigation of evolutionary constraints is lacking. Here, we perform a high-throughput laboratory evolution of Escherichia coli under the addition of 95 antibacterial chemicals and quantified the transcriptome, resistance, and genomic profiles for the evolved strains. Utilizing machine learning techniques, we analyze the phenotype–genotype data and identified low dimensional phenotypic states among the evolved strains. Further analysis reveals the underlying biological processes responsible for these distinct states, leading to the identification of trade-off relationships associated with drug resistance. We also report a decelerated evolution of β-lactam resistance, a phenomenon experienced by certain strains under various stresses resulting in higher acquired resistance to β-lactams compared to strains directly selected by β-lactams. These findings bridge the genotypic, gene expression, and drug resistance gap, while contributing to a better understanding of evolutionary constraints for antibiotic resistance.
HLH-11 modulates lipid metabolism in response to nutrient availability
Authors: Li Yi , Ding Wanqiu , Li Chuan-Yun , Liu Ying 
Published: November 2020

AbstractThe ability of organisms to sense nutrient availability and tailor their metabolic states to withstand nutrient deficiency is critical for survival. To identify previously unknown regulators that couple nutrient deficiency to body fat utilization, we performed a cherry-picked RNAi screen in C. elegans and found that the transcription factor HLH-11 regulates lipid metabolism in response to food availability. In well-fed worms, HLH-11 suppresses transcription of lipid catabolism genes. Upon fasting, the HLH-11 protein level is reduced through lysosome- and proteasome-mediated degradation, thus alleviating the inhibitory effect of HLH-11, activating the transcription of lipid catabolism genes, and utilizing fat. Additionally, lipid profiling revealed that reduction in the HLH-11 protein level remodels the lipid landscape in C. elegans. Moreover, TFAP4, the mammalian homolog of HLH-11, plays an evolutionarily conserved role in regulating lipid metabolism in response to starvation. Thus, TFAP4 may represent a potential therapeutic target for lipid storage disorders.
Th17-related mammary immunity, but not a high systemic Th1 immune response is associated with protection against E. coli mastitis
Authors: Cebron Nathan , Maman Sarah , Walachowski Sarah , Gausserès Blandine , Cunha Patricia , Rainard Pascal , Foucras Gilles 
Published: November 2020

AbstractVaccination against bovine mastitis lags behind despite high demand from the dairy industry and margin for efficacy improvement. We previously compared two immunization protocols against E. coli using either only the intramuscular route or a combination of intramuscular and mammary ductal routes, also known as ‘prime and pull’ strategy. A homologous mammary challenge during the memory phase showed that immunization favorably modified the mastitis course, notably in locally immunized cows in comparison to intramuscular and control adjuvant-only groups. Here, we performed whole-blood profiling through RNA-seq transcriptome and plasma cytokine 15-plex analyses at time points of the E. coli mastitis that showed significant clinical and laboratory differences among the groups. Diminished production of inflammatory cytokines and increased IFNγ were detected in the blood of immunized cows, where a T lymphocyte activation profile was evidenced at 12-h post infection. Acute phase neutropenia was less severe in these cows, and pathways related to neutrophil diapedesis and monocyte activation were also present. Furthermore, three intramammary-immunized cows showing faster healing and shorter mastitis duration had gene profiles that differed from their counterparts, but without any clue for the mastitis susceptibility difference. Inasmuch, when gene expression of CD4 T cells was assessed in mammary tissue, enrichment of IL-17-associated pathways was identified in the quarters of intramammary-immunized cows not only after challenge but also in the control quarters that were not infected. These findings indicate that local immunization mobilizes protective mechanisms that rely on the settlement of type 3 immunity-related CD4 T cells prior to infection.
Dietary flavanols improve cerebral cortical oxygenation and cognition in healthy adults
Authors: Gratton Gabriele , Weaver Samuel R. , Burley Claire V. , Low Kathy A. , Maclin Edward L. , Johns Paul W. , Pham Quang S. , Lucas Samuel J. E. , Fabiani Monica , Rendeiro Catarina 
Published: November 2020

AbstractCocoa flavanols protect humans against vascular disease, as evidenced by improvements in peripheral endothelial function, likely through nitric oxide signalling. Emerging evidence also suggests that flavanol-rich diets protect against cognitive aging, but mechanisms remain elusive. In a randomized double-blind within-subject acute study in healthy young adults, we link these two lines of research by showing, for the first time, that flavanol intake leads to faster and greater brain oxygenation responses to hypercapnia, as well as higher performance only when cognitive demand is high. Individual difference analyses further show that participants who benefit from flavanols intake during hypercapnia are also those who do so in the cognitive challenge. These data support the hypothesis that similar vascular mechanisms underlie both the peripheral and cerebral effects of flavanols. They further show the importance of studies combining physiological and graded cognitive challenges in young adults to investigate the actions of dietary flavanols on brain function.
A randomised controlled single-centre open-label pharmacokinetic study to examine various approaches of nicotine delivery using electronic cigarettes
Authors: Ebajemito James K. , McEwan Michael , Gale Nathan , Camacho Oscar M. , Hardie George , Proctor Christopher J. 
Published: November 2020

AbstractSmokers who switch completely to e-cigarettes may reduce their relative risk of tobacco-related disease. Effective nicotine delivery from e-cigarettes is important in consumer acceptance. We assessed whether protonated nicotine and e-cigarette devices delivering greater aerosol mass increase nicotine delivery and product liking. A randomised controlled non-blinded eight-arm crossover study was used to assess plasma nicotine pharmacokinetics and product liking for two e-cigarettes (Vype ePen3 and Vype ePen) with various nicotine e-liquid formulations and a conventional cigarette among 24 healthy dual-users of cigarettes and e-cigarettes. Product use and puff count were also assessed. Results show that nicotine bioavailability was greater for Vype ePen3 with greater aerosol mass delivery than for Vype ePen (Cmax, p = 0.0073; AUC0–120 min, p = 0.0102). Protonated nicotine (18 mg/mL, medium protonation) e-liquid yielded higher nicotine bioavailability than unprotonated nicotine (18 mg/mL) e-liquid (Cmax, p = 0.0001; AUC0–120 min, p = 0.0026). There was no significant difference in Tmax between e-liquids. Nicotine bioavailability did not differ between nicotine benzoate formulation (30 mg/mL nicotine, high protonation) and combustible cigarettes (Cmax, p = 0.79; AUC0–120 min, p = 0.13). Vype ePen3 with protonated nicotine delivers nicotine more efficiently with the potential to increase product liking relative to earlier devices using unprotonated e-liquid.
Dynamics of chiral solitons driven by polarized currents in monoaxial helimagnets
Authors: Laliena Victor , Bustingorry Sebastian , Campo Javier 
Published: November 2020

AbstractChiral solitons are one dimensional localized magnetic structures that are metastable in some ferromagnetic systems with Dzyaloshinskii–Moriya interactions and/or uniaxial magnetic anisotropy. Though topological textures in general provide a very interesting playground for new spintronics phenomena, how to properly create and control single chiral solitons is still unclear. We show here that chiral solitons in monoaxial helimagnets, characterized by a uniaxial Dzyaloshinskii–Moriya interaction, can be stabilized with external magnetic fields. Once created, the soliton moves steadily in response to a polarized electric current, provided the induced spin-transfer torque has a dissipative (nonadiabatic) component. The structure of the soliton depends on the applied current density in such a way that steady motion exists only if the applied current density is lower than a critical value, beyond which the soliton is no longer stable.
A new tool to sense pH changes at the neuromuscular junction synaptic cleft
Authors: Blaustein Matías , Wirth Sonia , Saldaña Gustavo , Piantanida Ana Paula , Bogetti María Eugenia , Martin María Eugenia , Colman-Lerner Alejandro , Uchitel Osvaldo D. 
Published: November 2020

AbstractSynaptic transmission triggers transient acidification of the synaptic cleft. Recently, it has been shown that pH affects the opening of postsynaptic channels and therefore the production of tools that allow to study these behaviors should result of paramount value. We fused α-bungarotoxin, a neurotoxin derived from the snakeBungarus multicinctusthat binds irreversibly to the acetylcholine receptor extracellular domain, to the pH sensitive GFP Super Ecliptic pHluorin, and efficiently expressed it inPichia pastoris. This sensor allows synaptic changes in pH to be measured without the need of incorporating transgenes into animal cells. Here, we show that incubation of the mouse levator auris muscle with a solution containing this recombinant protein is enough to fluorescently label the endplate post synaptic membrane. Furthermore, we could physiologically alter and measure post synaptic pH by evaluating changes in the fluorescent signal of pHluorin molecules bound to acetylcholine receptors. In fact, using this tool we were able to detect a drop in 0.01 to 0.05 pH units in the vicinity of the acetylcholine receptors following vesicle exocytosis triggered by nerve electrical stimulation. Further experiments will allow to learn the precise changes in pH during and after synaptic activation.
Transcriptome analyses reveals the dynamic nature of oil accumulation during seed development of Plukenetia volubilis L.
Authors: Liu Guo , Wu Zhihua , Peng Yan , Shang Xiuhua , Xie Yaojian , Arnold Roger J. 
Published: November 2020

AbstractSacha inchi (Plukenetia volubilis L.) is a shrub native to Amazon rainforests that’s of commercial interest as its seeds contain 35–60% edible oil (dry weight). This oil is one of the healthiest vegetable oils due to its high polyunsaturated fatty acid content and favourable ratio of omega-6 to omega-3 fatty acids. De novo transcriptome assembly and comparative analyses were performed on sacha inchi seeds from five stages of seed development in order to identifying genes associated with oil accumulation and fatty acid production. Of 30,189 unigenes that could be annotated in public databases, 20,446 were differentially expressed unigenes. A total of 14 KEGG pathways related to lipid metabolism were found, and 86 unigenes encoding enzymes involved in α-linolenic acid (ALA) biosynthesis were obtained including five unigenes encoding FATA (Unigene0008403), SAD (Unigene0012943), DHLAT (Unigene0014324), α-CT (Unigene0022151) and KAS II (Unigene0024371) that were significantly up-regulated in the final stage of seed development. A total of 66 unigenes encoding key enzymes involved in the synthesis of triacylglycerols (TAGs) were found, along with seven unigenes encoding PDCT (Unigene0000909), LPCAT (Unigene0007846), Oleosin3 (Unigene0010027), PDAT1 (Unigene0016056), GPDH (Unigene0022660), FAD2 (Unigene0037808) and FAD3 (Unigene0044238); these also proved to be up-regulated in the final stage of seed development.
Autologous culture method improves retention of tumors’ native properties
Authors: Tang Yao , Xu Qian , Yan Meiling , Zhang Yimin , Zhu Ping , Li Xianghong , Sang Limin , Zhang Ming , Huang Wenhe , Lin Lianxing , Wu Jundong , Xin Yue , Fu Junhui , Zhang Li , Zhang Shuming , Gu Jiang 
Published: November 2020

AbstractNo current in vitro tumor model replicates a tumor’s in vivo microenvironment. A culturing technique that better preserves a tumor’s pathophysiological conditions is needed for some important clinical applications, including personalized drug-sensitivity/resistance assays. In this study, we utilized autologous serum or body fluid to build a 3D scaffold and grow a patient’s tumor. We named this technique “3D-ACM” (autologous culture method). Forty-five clinical samples from biopsies, surgically removed tumor tissues and malignant body fluids were cultured with 3D-ACM. Traditional 3D-FBS (fetal bovine serum) cultures were performed side-by-side for comparison. The results were that cells cultured in 3D-ACM rebuilt tissue-like structures, and retained their immuno-phenotypes and cytokine productions. In contrast, the 3D-FBS method promoted mesenchymal cell proliferation. In preliminary chemo drug-sensitivity assays, significantly higher mortality was always associated with FBS-cultured cells. Accordingly, 3D-ACM appears to more reliably preserve a tumor’s biological characteristics, which might improve the accuracy of drug-testing for personalized cancer treatment.