bluuebunny/crossref_metadata_2025_split huggingface dataset:
Correlates of neutralizing/SARS-CoV-2-S1-binding antibody response with adverse effects and immune kinetics in BNT162b2-vaccinated individuals
Authors: Maeda Kenji , Amano Masayuki , Uemura Yukari , Tsuchiya Kiyoto , Matsushima Tomoko , Noda Kenta , Shimizu Yosuke , Fujiwara Asuka , Takamatsu Yuki , Ichikawa Yasuko , Nishimura Hidehiro , Kinoshita Mari , Matsumoto Shota , Gatanaga Hiroyuki , Yoshimura Kazuhisa , Oka Shin-ichi , Mikami Ayako , Sugiura Wataru , Sato Toshiyuki , Yoshida Tomokazu , Shimada Shinya , Mitsuya Hiroaki 
Published: November 2021

AbstractWhile mRNA vaccines against SARS-CoV-2 are exceedingly effective in preventing symptomatic infection, their immune response features remain to be clarified. In the present prospective study, 225 healthy individuals in Japan, who received two BNT162b2 doses, were enrolled. Correlates of BNT162b2-elicited SARS-CoV-2-neutralizing activity (50% neutralization titer: NT50; assessed using infectious virions) with various determinants were examined and the potency of sera against variants of concerns was determined. Significant rise in NT50s was seen in sera on day 28 post-1st dose. A moderate inverse correlation was seen between NT50s and ages, but no correlation seen between NT50s and adverse effects. NT50s and SARS-CoV-2-S1-binding-IgG levels on day 28 post-1st dose and pain scores following the 2nd dose were greater in women than in men. The average half-life of NT50s was ~ 68 days, and 23.6% (49 out of 208 individuals) failed to show detectable neutralizing activity on day 150. While sera from elite-responders (NT50s > 1,500: the top 4% among the participants) potently to moderately blocked all variants of concerns examined, some sera with low NT50s failed to block the B.1.351-beta strain. Since BNT162b2-elicited immunity against SARS-CoV-2 is short, an additional vaccine or other protective measures are needed.
An inducible rodent glaucoma model that exhibits gradual sustained increase in intraocular pressure with distinct inner retina and optic nerve inflammation
Authors: Mathew David J. , Livne-Bar Izhar , Sivak Jeremy M. 
Published: November 2021

AbstractGlaucoma is a chronic and progressive neurodegenerative disease of the optic nerve resulting in loss of retinal ganglion cells (RGCs) and vision. The most prominent glaucoma risk factor is increased intraocular pressure (IOP), and most models focus on reproducing this aspect to study disease mechanisms and targets. Yet, current models result in IOP profiles that often do not resemble clinical glaucoma. Here we introduce a new model that results in a gradual and sustained IOP increase over time. This approach modifies a circumlimbal suture method, taking care to make the sutures ‘snug’ instead of tight, without inducing an initial IOP spike. This approach did not immediately affect IOPs, but generated gradual ocular hypertension (gOHT) as the sutures tighten over time, in comparison to loosely sutured control eyes (CON), resulting in an average 12.6 mmHg increase in IOP at 17 weeks (p < 0.001). Corresponding characterization revealed relevant retinal and optic nerve pathology, such as thinning of the retinal nerve fiber layer, decreased optokinetic response, RGC loss, and optic nerve head remodeling. Yet, angles remained open, with no evidence of inflammation. Corresponding biochemical profiling indicated significant increases in TGF-β2 and 3, and IL-1 family cytokines in gOHT optic nerve tissues compared to CON, with accompanying microglial reactivity, consistent with active tissue injury and repair mechanisms. Remarkably, this signature was absent from optic nerves following acute ocular hypertension (aOHT) associated with intentionally tightened sutures, although the resulting RGC loss was similar in both methods. These results suggest that the pattern of IOP change has an important impact on underlying pathophysiology.
A new experimental model for the investigation of sequential hermaphroditism
Authors: Goikoetxea A. , Muncaster S. , Todd E. V. , Lokman P. M. , Robertson H. A. , De Farias e Moraes C. E. , Damsteegt E. L. , Gemmell N. J. 
Published: November 2021

AbstractThe stunning sexual transformation commonly triggered by age, size or social context in some fishes is one of the best examples of phenotypic plasticity thus far described. To date our understanding of this process is dominated by studies on a handful of subtropical and tropical teleosts, often in wild settings. Here we have established the protogynous New Zealand spotty wrasse, Notolabruscelidotus, as a temperate model for the experimental investigation of sex change. Captive fish were induced to change sex using aromatase inhibition or manipulation of social groups. Complete female-to-male transition occurred over 60 days in both cases and time-series sampling was used to quantify changes in hormone production, gene expression and gonadal cellular anatomy. Early-stage decreases in plasma 17β-estradiol (E2) concentrations or gonadal aromatase (cyp19a1a) expression were not detected in spotty wrasse, despite these being commonly associated with the onset of sex change in subtropical and tropical protogynous (female-to-male) hermaphrodites. In contrast, expression of the masculinising factor amh (anti-Müllerian hormone) increased during early sex change, implying a potential role as a proximate trigger for masculinisation. Collectively, these data provide a foundation for the spotty wrasse as a temperate teleost model to study sex change and cell fate in vertebrates.
Tianeptine, but not fluoxetine, decreases avoidant behavior in a mouse model of early developmental exposure to fluoxetine
Authors: Pekarskaya Elizabeth A. , Holt Emma S. , Gingrich Jay A. , Ansorge Mark S. , Javitch Jonathan A. , Canetta Sarah E. 
Published: November 2021

AbstractDepression and anxiety, two of the most common mental health disorders, share common symptoms and treatments. Most pharmacological agents available to treat these disorders target monoamine systems. Currently, finding the most effective treatment for an individual is a process of trial and error. To better understand how disease etiology may predict treatment response, we studied mice exposed developmentally to the selective serotonin reuptake inhibitor (SSRI) fluoxetine (FLX). These mice show the murine equivalent of anxiety- and depression-like symptoms in adulthood and here we report that these mice are also behaviorally resistant to the antidepressant-like effects of adult SSRI administration. We investigated whether tianeptine (TIA), which exerts its therapeutic effects through agonism of the mu-opioid receptor instead of targeting monoaminergic systems, would be more effective in this model. We found that C57BL/6J pups exposed to FLX from postnatal day 2 to 11 (PNFLX, the mouse equivalent in terms of brain development to the human third trimester) showed increased avoidant behaviors as adults that failed to improve, or were even exacerbated, by chronic SSRI treatment. By contrast, avoidant behaviors in these same mice were drastically improved following chronic treatment with TIA. Overall, this demonstrates that TIA may be a promising alternative treatment for patients that fail to respond to typical antidepressants, especially in patients whose serotonergic system has been altered by in utero exposure to SSRIs.
Single-cell DNA and RNA sequencing of circulating tumor cells
Authors: Kojima Masato , Harada Takanori , Fukazawa Takahiro , Kurihara Sho , Saeki Isamu , Takahashi Shinya , Hiyama Eiso 
Published: November 2021

AbstractSingle-cell sequencing of circulating tumor cells can precisely represent tumor heterogeneity and provide useful information for cancer treatment and research. After spiking TGW neuroblastoma cells into blood derived from healthy volunteer, the cells were isolated by fluorescence-activated cell sorting. DNA and mRNA were amplified by four different whole-genome amplifications (WGA) and three whole-transcriptome amplifications (WTA) methods, followed by single-cell DNA and RNA sequencing. Multiple displacement amplification (MDA)-based WGA methods showed higher amplification efficiency than other methods with a comparable depth of coverage as the bulk sample. The uniformity of coverage greatly differed among samples (12.5–89.2%), with some samples evaluated by the MDA-based WGA method using phi29 DNA polymerase and random primers showing a high (> 80%) uniformity of coverage. The MDA-based WTA method less effectively amplified mRNA and showed non-specific gene expression patterns. The PCR-based WTA using template switching with locked nucleic acid technology accurately amplified mRNA from a single cell. Taken together, our results present a more reliable and adaptable approach for CTC profiling at the single-cell level. Such molecular information on CTCs derived from clinical patients will promote cancer treatment and research.
Related health risk assessment of exposure to arsenic and some heavy metals in gold mines in Banmauk Township, Myanmar
Authors: Wongsasuluk Pokkate , Tun Aung Zaw , Chotpantarat Srilert , Siriwong Wattasit 
Published: November 2021

AbstractExposure to heavy metals in mining activities is a health issue among miners. This study was carried out at three small-scale gold mining sites situated in Banmauk Township, Myanmar and aims to assess the occupational health risks of small-scale gold miners who are exposed to arsenic (As), cadmium (Cd), mercury (Hg) and lead (Pb) in the soil through the dermal route. Soil samples were analyzed through atomic absorption spectroscopy (AAS). The concentrations of the heavy metals in soils found As, ranged 1.04 mg/kg to 22.17 mg/kg, 0.13 mg/kg to 3.07 mg/kg for Cd, 0.15 mg/kg to 77.44 mg/kg for Hg, and 7.67 mg/kg to 210.00 mg/kg for Pb. In this study, 79% of the participants did not use any form of personal protective equipment (PPE) while working in gold mining processes. Regarding noncancer risk assessment, the results found all hazard quotient were lower than acceptable level (HQ < 1). In addition, all hazard index (HI) was lover than 1, the highest HI was found as 5.66 × 10−1 in the amalgamation process. On the other hand, the result found cancer risk ranged from 8.02 × 10−8 to 1.75 × 10−6, and the estimated cancer risks for 9 years ranged from 4.78 × 10−7 to 1.04 × 10−5. Therefore, the cancer risks of the miners were greater than the United State Environmental Protection Agency (U.S. EPA) acceptable cancer risk level, 1 × 10−6, and the miners may be at risk of developing carcinogenic diseases. The suggestion is to educate miners about the health risks of heavy metals and to encourage the use of proper PPE all the time while working in gold mine.
Critical switching current density of magnetic tunnel junction with shape perpendicular magnetic anisotropy through the combination of spin-transfer and spin-orbit torques
Authors: Kang Doo Hyung , Shin Mincheol 
Published: November 2021

AbstractRecently, magnetic tunnel junctions (MTJs) with shape perpendicular magnetic anisotropy (S-PMA) have been studied extensively because they ensure high thermal stability at junctions smaller than 20 nm. Furthermore, spin-transfer torque (STT) and spin-orbit torque (SOT) hybrid switching, which guarantees fast magnetization switching and deterministic switching, has recently been achieved in experiments. In this study, the critical switching current density of the MTJ with S-PMA through the interplay of STT and SOT was investigated using theoretical and numerical methods. As the current density inducing SOT ($$J_{\text {SOT}}$$

J
SOT

) increases, the critical switching current density inducing STT ($$J_{\text {STT,c}}$$

J
STT,c

) decreases. Furthermore, for a given $$J_{\text {SOT}}$$

J
SOT

, $$J_{\text {STT,c}}$$

J
STT,c

increases with increasing thickness, whereas $$J_{\text {STT,c}}$$

J
STT,c

decreases as the diameter increases. Moreover, $$J_{\text {STT,c}}$$

J
STT,c

in the plane of thickness and spin-orbit field-like torque ($$\beta$$
β
) was investigated for a fixed $$J_{\text {SOT}}$$

J
SOT

and diameter. Although $$J_{\text {STT,c}}$$

J
STT,c

decreases with increasing $$\beta$$
β
, $$J_{\text {STT,c}}$$

J
STT,c

slowly increases with increasing thickness and increasing $$\beta$$
β
. The power consumption was investigated as a function of thickness and diameter at the critical switching current density. Experimental confirmation of these results using existing experimental techniques is anticipated.
Palaeohistology reveals a slow pace of life for the dwarfed Sicilian elephant
Authors: Köhler Meike , Herridge Victoria , Nacarino-Meneses Carmen , Fortuny Josep , Moncunill-Solé Blanca , Rosso Antonietta , Sanfilippo Rossana , Palombo Maria Rita , Moyà-Solà Salvador 
Published: November 2021

AbstractThe 1-m-tall dwarf elephantPalaeoloxodon falconerifrom the Pleistocene of Sicily (Italy) is an extreme example of insular dwarfism and epitomizes the Island Rule. Based on scaling of life-history (LH) traits with body mass,P. falconeriis widely considered to be ‘r-selected’ by truncation of the growth period, associated with an early onset of reproduction and an abbreviated lifespan. These conjectures are, however, at odds with predictions from LH models for adaptive shifts in body size on islands. To settle the LH strategy ofP. falconeri, we used bone, molar, and tusk histology to infer growth rates, age at first reproduction, and longevity. Our results from all approaches are congruent and provide evidence that the insular dwarf elephant grew at very slow rates over an extended period; attained maturity at the age of 15 years; and had a minimum lifespan of 68 years. This surpasses not only the values predicted from body mass but even those of both its giant sister taxon (P. antiquus) and its large mainland cousin (L. africana). The suite of LH traits ofP. falconeriis consistent with the LH data hitherto inferred for other dwarfed insular mammals.P. falconeri, thus, not only epitomizes the Island Rule but it can also be viewed as a paradigm of evolutionary change towards a slow LH that accompanies the process of dwarfing in insular mammals.
High prevalence of multiple antibiotic resistance in clinical E. coli isolates from Bangladesh and prediction of molecular resistance determinants using WGS of an XDR isolate
Authors: Jain Preeti , Bepari Asim Kumar , Sen Prosengit Kumer , Rafe Tanzir , Imtiaz Rashed , Hossain Maqsud , Reza Hasan Mahmud 
Published: November 2021

AbstractMulti-drug-resistance (MDR) is a severe public health concern worldwide, and its containment is more challenging in developing countries due to poor antimicrobial resistance (AMR) surveillance and irrational use of antibiotics. The current study investigated 100 clinical E. coli isolates and revealed that 98% of them were MDR. PCR analysis using 25 selected isolates showed the predominance of metallo-β-lactamase gene blaNDM (80%) and ESBL genes blaOXA (48%) and blaCTX-M-15 (32%). The AmpC gene was detected in 68% of the isolates, while 32% was tetC positive. Notably, 34% of the isolates were resistant to carbapenem. Whole genome sequence (WGS) analysis of an extensively drug-resistant (XDR) isolate (L16) revealed the presence of the notorious sequence type 131 responsible for multi-drug-resistant infections, multiple antibiotic resistance genes (ARGs), virulence genes, and mobile genetic elements that pose risks to environmental transmission. Our results indicate that MDR is alarmingly increasing in Bangladesh that critically limits the treatment option against infections and contributes to further aggravation to the prevailing situation of MDR worldwide. The findings of this study will be valuable in designing sustainable strategies to contain MDR in the region.
Neural networks for computing and denoising the continuous nonlinear Fourier spectrum in focusing nonlinear Schrödinger equation
Authors: Sedov Egor V. , Freire Pedro J. , Seredin Vladimir V. , Kolbasin Vladyslav A. , Kamalian-Kopae Morteza , Chekhovskoy Igor S. , Turitsyn Sergei K. , Prilepsky Jaroslaw E. 
Published: November 2021

AbstractWe combine the nonlinear Fourier transform (NFT) signal processing with machine learning methods for solving the direct spectral problem associated with the nonlinear Schrödinger equation. The latter is one of the core nonlinear science models emerging in a range of applications. Our focus is on the unexplored problem of computing the continuous nonlinear Fourier spectrum associated with decaying profiles, using a specially-structured deep neural network which we coined NFT-Net. The Bayesian optimisation is utilised to find the optimal neural network architecture. The benefits of using the NFT-Net as compared to the conventional numerical NFT methods becomes evident when we deal with noise-corrupted signals, where the neural networks-based processing results in effective noise suppression. This advantage becomes more pronounced when the noise level is sufficiently high, and we train the neural network on the noise-corrupted field profiles. The maximum restoration quality corresponds to the case where the signal-to-noise ratio of the training data coincides with that of the validation signals. Finally, we also demonstrate that the NFT b-coefficient important for optical communication applications can be recovered with high accuracy and denoised by the neural network with the same architecture.
Temperature dependence of amorphous magnesium carbonate structure studied by PDF and XAFS analyses
Authors: Yamamoto Gen-ichiro , Kyono Atsushi , Okada Satoru 
Published: November 2021

AbstractMineral trapping through the precipitation of carbonate minerals is a potential approach to reduce CO2accumulation in the atmosphere. The temperature dependence of amorphous magnesium carbonate (AMC), a precursor of crystalline magnesium carbonate hydrates, was investigated using synchrotron X-ray scattering experiments with atomic pair distribution function (PDF) and X-ray absorption fine structure analysis. PDF analysis revealed that there were no substantial structural differences among the AMC samples synthesized at 20, 60, and 80 °C. In addition, the medium-range order of all three AMC samples was very similar to that of hydromagnesite. Stirring in aqueous solution at room temperature caused the AMC sample to hydrate immediately and form a three-dimensional hydrogen-bonding network. Consequently, it crystallized with the long-range structural order of nesquehonite. The Mg K-edge X-ray absorption near-edge structure spectrum of AMC prepared at 20 °C was very similar to that of nesquehonite, implying that the electronic structure and coordination geometry of Mg atoms in AMC synthesized at 20 °C are highly similar to those in nesquehonite. Therefore, the short-range order (coordination environment) around the Mg atoms was slightly modified with temperature, but the medium-range order of AMC remained unchanged between 20 and 80 °C.
In silico evaluation of the interaction between ACE2 and SARS-CoV-2 Spike protein in a hyperglycemic environment
Authors: Sartore Giovanni , Bassani Davide , Ragazzi Eugenio , Traldi Pietro , Lapolla Annunziata , Moro Stefano 
Published: November 2021

AbstractThe worse outcome of COVID-19 in people with diabetes mellitus could be related to the non-enzymatic glycation of human ACE2, leading to a more susceptible interaction with virus Spike protein. We aimed to evaluate, through a computational approach, the interaction between human ACE2 receptor and SARS-CoV-2 Spike protein under different conditions of hyperglycemic environment. A computational analysis was performed, based on the X-ray crystallographic structure of the Spike Receptor-Binding Domain (RBD)-ACE2 system. The possible scenarios of lysine aminoacid residues on surface transformed by glycation were considered: (1) on ACE2 receptor; (2) on Spike protein; (3) on both ACE2 receptor and Spike protein. In comparison to the native condition, the number of polar bonds (comprising both hydrogen bonds and salt bridges) in the poses considered are 10, 6, 6, and 4 for the states ACE2/Spike both native, ACE2 native/Spike glycated, ACE2 glycated/Spike native, ACE2/Spike both glycated, respectively. The analysis highlighted also how the number of non-polar contacts (in this case, van der Waals and aromatic interactions) significantly decreases when the lysine aminoacid residues undergo glycation. Following non-enzymatic glycation, the number of interactions between human ACE2 receptor and SARS-CoV-2 Spike protein is decreased in comparison to the unmodified model. The reduced affinity of the Spike protein for ACE2 receptor in case of non-enzymatic glycation may shift the virus to multiple alternative entry routes.
Alteration of acute toxicity of inorganic and methyl mercury to Daphnia magna by dietary addition
Authors: Hylton Christopher A. , Tsui Martin Tsz-Ki 
Published: November 2021

AbstractAcute toxicity of inorganic mercury [Hg(II)] and methylmercury (MeHg) to Daphnia magna was characterized using a 48-h static, non-renewal acute toxicity test, in which we compared the toxicity of Hg(II) and MeHg in the absence (water-only) and presence of diet [green alga (Raphidocelis subcapitata), yeast, Cerophyll, and trout chow (YCT), or both]. Overall, Hg(II) is more toxic to D. magna than MeHg, with 48-h median lethal concentrations (LC50s) being 4.3 µg/L (95% confidence interval: 4.1–4.5 µg/L) for Hg(II) and 14.3 µg/L (13.2–15.3 µg/L) for MeHg. For Hg(II), the addition of any diet would significantly increase its 48-h LC50, but the 48-h LC50 for MeHg decreased significantly to 7.1 µg/L (6.4–7.8 µg/L) with the algal addition. We also show that the addition of diets significantly influenced the levels and speciation (dissolved vs. particulate) of both Hg forms in the test solution. The bioaccumulation of Hg(II) and MeHg was impacted by the dietary addition, and it appears that the body residue level triggering mortality varied widely among treatments. The results suggest that standard short-term toxicity tests (water-only) should be supplemented with extra tests with dietary addition to provide a more environmentally relevant estimation of short-term toxicity of chemical compounds.
A new model to identify node importance in complex networks based on DEMATEL method
Authors: Fan Wentao , He Yuhuan , Han Xiao , Feng Yancheng 
Published: November 2021

AbstractIt is still a hot research topic to identify node importance in complex networks. Recently many methods have been proposed to deal with this problem. However, most of the methods only focus on local or path information, they do not combine local and global information well. In this paper, a new model to identify node importance based on Decision-making Trial and Evaluation Laboratory (DEMATEL) is presented. DEMATEL method is based on graph theory which takes the global information into full consideration so that it can effectively identify the importance of one element in the whole complex system. Some experiments based on susceptible-infected (SI) model are used to compare the new model with other methods. The applications in three different networks illustrate the effectiveness of the new model.