bluuebunny/crossref_metadata_2025_split huggingface dataset:
COVID-19—The largest isolation study in history: the value of shared learnings from spaceflight analogs
Authors: Choukér Alexander , Stahn Alexander C. 
Published: October 2020

AbstractThe world is currently experiencing the largest isolation experiment in history. In an attempt to slow down the spread of the COVID-19 pandemic numerous countries across the world have been shutting down economies, education, and public life. Governments have mandated strict regulations of quarantine and social distancing in an unprecedented manner. The effects of these measures on brain, behavior, neuro-humoral and immunological responses in humans are largely unknown. Life science research for space exploration has a long history in using high-fidelity spaceflight analogs to better understand the effect of prolonged isolation and confinement on genes, molecules, cells, neural circuits, and physiological systems to behavior. We here propose to leverage the extensive experience and data from these studies and build a bridge between spaceflight research and clinical settings to foster transdisciplinary approaches to characterize the neurobehavioral effects on the immune system and vice versa. These approaches are expected to develop innovative and efficient health screening tools, diagnostic systems, and treatments to mitigate health risks associated with isolation and confinement on Earth and during future exploratory spaceflight missions.
Microscopic and mechanical properties of undisturbed and remoulded red clay from Guiyang, China
Authors: Zhang Yanzhao , Pu Shaoyun , Li Rita Yi Man , Zhang Jing 
Published: October 2020

AbstractUnconsolidated-undrained (UU) tests were conducted to investigate the mechanical and morphological properties of undisturbed and remoulded red clay, with the microscopic characteristics determined by scanning electron microscopy (SEM). The microanalysis showed that the red clay aggregate was granular, curved-slice and thin layered and flower-shaped ellipsoid, with X and Y-type cracks and pores in the undisturbed red clay. Moreover, the contact modes of red clay aggregates were point contact, line contact, surface contact and mosaic contact. In addition, the main microstructure red clay was flocculation, honeycomb and pseudosphere structures. The pores in undisturbed soil were arranged in one direction, with no obvious directionality in remoulded red clay. The pore area, perimeter and maximum length of undisturbed red clay were smaller than those of remoulded red clay, with a larger probability entropy, probability distribution index and fractal dimension of pore distribution of undisturbed red clay than remoulded red clay. UU tests showed that the shear strength of undisturbed red clay was higher than that of remoulded red clay.
MicroRNAs 363 and 149 are differentially expressed in the maternal circulation preceding a diagnosis of preeclampsia
Authors: Whigham Carole-Anne , MacDonald Teresa M. , Walker Susan P. , Hiscock Richard , Hannan Natalie J. , Pritchard Natasha , Cannon Ping , Nguyen Tuong Vi , Miranda Manisha , Tong Stephen , Kaitu’u-Lino Tu’uhevaha J. 
Published: October 2020

AbstractPreeclampsia is a pregnancy complication associated with angiogenic dysbalance, maternal endothelial dysfunction and end-organ injury. A predictive test to identify those who will develop preeclampsia could substantially decrease morbidity and mortality. MicroRNAs (miRs) are small RNA molecules involved in post-transcriptional gene regulation. We screened for circulating miRs differentially expressed at 36 weeks’ gestation in pregnancies before the development of preeclampsia. We used a case–control group (198 controls, 34 pre-preeclampsia diagnosis) selected from a prospective cohort (n = 2015) and performed a PCR-based microarray to measure the expression of 41 miRs. We found six circulating miRs (miRs 363, 149, 18a, 1283, 16, 424) at 36 weeks' had significantly reduced expression (p < 0.0001–0.04). miR363 was significantly downregulated at 28 weeks’ gestation, 10–12 weeks before the onset of clinical disease. In the circulation of another cohort of 34 participants with established preterm preeclampsia (vs 23 controls), we found miRs363, 18a, 149 and 16 were significantly down regulated (p < 0.0001–0.04). Combined expression of miRs149 and 363 in the circulation at 36 weeks’ gestation provides a test with 45% sensitivity (at a specificity of 90%) which suggests measuring both miRs may have promise as part of a multi-marker test to predict preeclampsia.
The influence of anthropogenic habitat fragmentation on the genetic structure and diversity of the malaria vector Anopheles cruzii (Diptera: Culicidae)
Authors: Multini Laura Cristina , de Souza Ana Letícia da Silva , Marrelli Mauro Toledo , Wilke André Barretto Bruno 
Published: October 2020

AbstractFragmentation of natural environments as a result of human interference has been associated with a decrease in species richness and increase in abundance of a few species that have adapted to these environments. The Brazilian Atlantic Forest, which has been undergoing an intense process of fragmentation and deforestation caused by human-made changes to the environment, is an important hotspot for malaria transmission. The main vector of simian and human malaria in this biome is the mosquitoAnopheles cruzii. Anthropogenic processes reduce the availability of natural resources at the tree canopies,An. cruziiprimary habitat. As a consequence,An. cruziimoves to the border of the Atlantic Forest nearing urban areas seeking resources, increasing their contact with humans in the process. We hypothesized that different levels of anthropogenic changes to the environment can be an important factor in driving the genetic structure and diversity inAn. cruziipopulations. Five different hypotheses using a cross-sectional and a longitudinal design were tested to assess genetic structure in sympatricAn. cruziipopulations and microevolutionary processes driving these populations. Single nucleotide polymorphisms were used to assess microgeographic genetic structure inAn. cruziipopulations in a low-endemicity area in the city of São Paulo, Brazil. Our results show an overall weak genetic structure among the populations, indicating a high gene flow system. However, our results also pointed to the presence of significant genetic structure between sympatricAn. cruziipopulations collected at ground and tree-canopy habitats in the urban environment and higher genetic variation in the ground-level population. This indicates that anthropogenic modifications leading to habitat fragmentation and a higher genetic diversity and structure in ground-level populations could be driving the behavior ofAn. cruzii,ultimately increasing its contact with humans. Understanding how anthropogenic changes in natural areas affectAn. cruziiis essential for the development of more effective mosquito control strategies and, on a broader scale, for malaria-elimination efforts in the Brazilian Atlantic Forest.
Brain structure correlates of expected social threat and reward
Authors: Crawford Bonni , Muhlert Nils , MacDonald Geoff , Lawrence Andrew D. 
Published: October 2020

AbstractProspection (mentally simulating future events) generates emotionally-charged mental images that guide social decision-making. Positive and negative social expectancies—imagining new social interactions to be rewarding versus threatening—are core components of social approach and avoidance motivation, respectively. Interindividual differences in such positive and negative future-related cognitions may be underpinned by distinct neuroanatomical substrates. Here, we asked 100 healthy adults to vividly imagine themselves in a novel self-relevant event that was ambiguous with regards to possible social acceptance or rejection. During this task we measured participants’ expectancies for social reward (anticipated feelings of social connection) or threat (anticipated feelings of rejection). On a separate day they underwent structural MRI; voxel-based morphometry was used to explore the relation between social reward and threat expectancies and regional grey matter volumes (rGMV). Increased rGMV in key default-network regions involved in prospection, socio-emotional cognition, and subjective valuation, including ventromedial prefrontal cortex, correlated with both higher social reward and lower social threat expectancies. In contrast, social threat expectancies uniquely correlated with rGMV of regions involved in social attention (posterior superior temporal sulcus, pSTS) and interoception (somatosensory cortex). These findings provide novel insight into the neurobiology of future-oriented cognitive-affective processes critical to adaptive social functioning.
Meta-gene markers predict meningioma recurrence with high accuracy
Authors: Zador Zsolt , Landry Alexander P. , Haibe-Kains Benjamin , Cusimano Michael D. 
Published: October 2020

AbstractMeningiomas, the most common adult brain tumors, recur in up to half of cases. This requires timely intervention and therefore accurate risk assessment of recurrence is essential. Our current practice relies heavily on histological grade and extent of surgical excision to predict meningioma recurrence. However, prediction accuracy can be as poor as 50% for low or intermediate grade tumors which constitute the majority of cases. Moreover, attempts to find molecular markers to predict their recurrence have been impeded by low or heterogenous genetic signal. We therefore sought to apply systems-biology approaches to transcriptomic data to better predict meningioma recurrence. We apply gene co-expression networks to a cohort of 252 adult patients from the publicly available genetic repository Gene Expression Omnibus. Resultant gene clusters (“modules”) were represented by the first principle component of their expression, and their ability to predict recurrence assessed with a logistic regression model. External validation was done using two independent samples: one merged microarray-based cohort with a total of 108 patients and one RNA-seq-based cohort with 145 patients, using the same modules. We used the bioinformatics database Enrichr to examine the gene ontology associations and driver transcription factors of each module. Using gene co-expression analysis, we were able predict tumor recurrence with high accuracy using a single module which mapped to cell cycle-related processes (AUC of 0.81 ± 0.09 and 0.77 ± 0.10 in external validation using microarray and RNA-seq data, respectively). This module remained predictive when controlling for WHO grade in all cohorts, and was associated with several cancer-associated transcription factors which may serve as novel therapeutic targets for patients with this disease. With the easy accessibility of gene panels in healthcare diagnostics, our results offer a basis for routine molecular testing in meningioma management and propose potential therapeutic targets for future research.
Observations of lightning in relation to transitions in volcanic activity during the 3 June 2018 Fuego Eruption
Authors: Schultz Christopher J. , Andrews Virginia P. , Genareau Kimberly D. , Naeger Aaron R. 
Published: October 2020

AbstractSatellite and ground-based remote sensing are combined to characterize lightning occurrence during the 3 June 2018 Volcán de Fuego eruption in Guatemala. The combination of the space-based Geostationary Lightning Mapper (GLM) and ground-based Earth Networks Total Lightning Network observed two distinct periods of lightning during this eruption totaling 75 unique lightning flash occurrences over five hours (57 in cloud, 18 cloud-to-ground). The first period of lightning coincided with the rapid growth of the ash cloud, while the second maxima occurred near the time of a deadly pyroclastic density current (PDC) and thunderstorm. Ninety-one percent of the lightning during the event was observed by only one of the lightning sensors, thus showing the importance of combining lightning datasets across multiple frequencies to characterize electrical activity in volcanic eruptions. GLM flashes during the event had a median total optical energy and flash length of 16 fJ, and 12 km, respectively. These median GLM flash energies and lengths observed in the volcanic plume are on the lower end of the flash spectrum because flashes observed in surrounding thunderstorms on 3 June had larger median total optical energy values (130 fJ) and longer median flash lengths (20 km). All 18 cloud-to-ground flashes were negative polarity, supportive of net negative charge within the plume. Mechanisms for the generation of the secondary lightning maxima are discussed based on the presence and potential interaction between ash plume, thunderstorm, and PDC transport during this secondary period of observed lightning.
Prediction of rifampicin resistance beyond the RRDR using structure-based machine learning approaches
Authors: Portelli Stephanie , Myung Yoochan , Furnham Nicholas , Vedithi Sundeep Chaitanya , Pires Douglas E. V. , Ascher David B. 
Published: October 2020

AbstractRifampicin resistance is a major therapeutic challenge, particularly in tuberculosis, leprosy, P. aeruginosa and S. aureus infections, where it develops via missense mutations in gene rpoB. Previously we have highlighted that these mutations reduce protein affinities within the RNA polymerase complex, subsequently reducing nucleic acid affinity. Here, we have used these insights to develop a computational rifampicin resistance predictor capable of identifying resistant mutations even outside the well-defined rifampicin resistance determining region (RRDR), using clinical M. tuberculosis sequencing information. Our tool successfully identified up to 90.9% of M. tuberculosis rpoB variants correctly, with sensitivity of 92.2%, specificity of 83.6% and MCC of 0.69, outperforming the current gold-standard GeneXpert-MTB/RIF. We show our model can be translated to other clinically relevant organisms: M. leprae, P. aeruginosa and S. aureus, despite weak sequence identity. Our method was implemented as an interactive tool, SUSPECT-RIF (StrUctural Susceptibility PrEdiCTion for RIFampicin), freely available at https://biosig.unimelb.edu.au/suspect_rif/.
Preparation of parenteral nanocrystal suspensions of etoposide from the excipient free dry state of the drug to enhance in vivo antitumoral properties
Authors: Martin Brice , Seguin Johanne , Annereau Maxime , Fleury Thomas , Lai-Kuen René , Neri Giovanni , Lam Anita , Bally Marcel , Mignet Nathalie , Corvis Yohann 
Published: October 2020

AbstractNanoparticle technology in cancer chemotherapy is a promising approach to enhance active ingredient pharmacology and pharmacodynamics. Indeed, drug nanoparticles display various assets such as extended blood lifespan, high drug loading and reduced cytotoxicity leading to better drug compliance. In this context, organic nanocrystal suspensions for pharmaceutical use have been developed in the past ten years. Nanocrystals offer new possibilities by combining the nanoformulation features with the properties of solid dispersed therapeutic ingredients including (i) high loading of the active ingredient, (ii) its bioavailability improvement, and (iii) reduced drug systemic cytotoxicity. However, surprisingly, no antitumoral drug has been marketed as a nanocrystal suspension until now. Etoposide, which is largely used as an anti-cancerous agent against testicular, ovarian, small cell lung, colon and breast cancer in its liquid dosage form, has been selected to develop injectable nanocrystal suspensions designed to be transferred to the clinic. The aim of the present work is to provide optimized formulations for nanostructured etoposide solutions and validate by means of in vitro and in vivo evaluations the efficiency of this multiphase system. Indeed, the etoposide formulated as a nanosuspension by a bottom-up approach showed higher blood life span, reduced tumor growth and higher tolerance in a murine carcinoma cancer model. The results obtained are promising for future clinical evaluation of these etoposide nanosuspensions.
Influence of surfactant-tailored Mn-doped ZnO nanoparticles on ROS production and DNA damage induced in murine fibroblast cells
Authors: Popescu Traian , Matei Christien Oktaviani , Vlaicu Ioana Dorina , Tivig Ioan , Kuncser Andrei Cristian , Stefan Mariana , Ghica Daniela , Miclea Luminita Claudia , Savopol Tudor , Culita Daniela Cristina , Moisescu Mihaela Georgeta 
Published: October 2020

AbstractThe present study concerns the in vitro oxidative stress responses of non-malignant murine cells exposed to surfactant-tailored ZnO nanoparticles (NPs) with distinct morphologies and different levels of manganese doping. Two series of Mn-doped ZnO NPs were obtained by coprecipitation synthesis method, in the presence of either polyvinylpyrrolidone (PVP) or sodium hexametaphosphate (SHMTP). The samples were investigated by powder X-ray Diffraction, Transmission Electron Microscopy, Fourier-Transform Infrared and Electron Paramagnetic Resonance spectroscopic methods, and N2 adsorption–desorption analysis. The observed surfactant-dependent effects concerned: i) particle size and morphology; ii) Mn-doping level; iii) specific surface area and porosity. The relationship between the surfactant dependent characteristics of the Mn-doped ZnO NPs and their in vitro toxicity was assessed by studying the cell viability, intracellular reactive oxygen species (ROS) generation, and DNA fragmentation in NIH3T3 fibroblast cells. The results indicated a positive correlation between the specific surface area and the magnitude of the induced toxicological effects and suggested that Mn-doping exerted a protective effect on cells by diminishing the pro-oxidative action associated with the increase in the specific BET area. The obtained results support the possibility to modulate the in vitro toxicity of ZnO nanomaterials by surfactant-controlled Mn-doping.
Improving image quality in fast, time-resolved micro-CT by weighted back projection
Authors: Heyndrickx Marjolein , Bultreys Tom , Goethals Wannes , Van Hoorebeke Luc , Boone Matthieu N. 
Published: October 2020

AbstractTime-resolved micro-CT is an increasingly powerful technique for studying dynamic processes in materials and structures. However, it is still difficult to study very fast processes with this technique, since fast scanning is typically associated with high image noise levels. We present weighted back projection, a technique applicable in iterative reconstruction methods using two types of prior knowledge: (1) a virtual starting volume resembling the sample, for example obtained from a scan before the dynamic process was initiated, and (2) knowledge on which regions in the sample are more likely to undergo the dynamic process. Therefore, processes on which this technique is applicable are preferably occurring within a static grid. Weighted back projection has the ability to handle small errors in the prior knowledge, while similar 4D micro-CT techniques require the prior knowledge to be exactly correct. It incorporates the prior knowledge within the reconstruction by using a weight volume, representing for each voxel its probability of undergoing the dynamic process. Qualitative analysis on a sparse subset of projection data from a real micro-CT experiment indicates that this method requires significantly fewer projection angles to converge to a correct volume. This can lead to an improved temporal resolution.
Synaptotagmin-1 membrane binding is driven by the C2B domain and assisted cooperatively by the C2A domain
Authors: Gruget Clémence , Bello Oscar , Coleman Jeff , Krishnakumar Shyam S. , Perez Eric , Rothman James E. , Pincet Frederic , Donaldson Stephen H. 
Published: October 2020

AbstractSynaptotagmin interaction with anionic lipid (phosphatidylserine/phosphatidylinositol) containing membranes, both in the absence and presence of calcium ions (Ca2+), is critical to its central role in orchestrating neurotransmitter release. The molecular surfaces involved, namely the conserved polylysine motif in the C2B domain and Ca2+-binding aliphatic loops on both C2A and C2B domains, are known. Here we use surface force apparatus combined with systematic mutational analysis of the functional surfaces to directly measure Syt1-membrane interaction and fully map the site-binding energetics of Syt1 both in the absence and presence of Ca2+. By correlating energetics data with the molecular rearrangements measured during confinement, we find that both C2 domains cooperate in membrane binding, with the C2B domain functioning as the main energetic driver, and the C2A domain acting as a facilitator.
Maximized quantitative phosphoproteomics allows high confidence dissection of the DNA damage signaling network
Authors: Faca Vitor Marcel , Sanford Ethan J. , Tieu Jennifer , Comstock William , Gupta Shagun , Marshall Shannon , Yu Haiyuan , Smolka Marcus B. 
Published: October 2020

AbstractThe maintenance of genomic stability relies on DNA damage sensor kinases that detect DNA lesions and phosphorylate an extensive network of substrates. The Mec1/ATR kinase is one of the primary sensor kinases responsible for orchestrating DNA damage responses. Despite the importance of Mec1/ATR, the current network of its identified substrates remains incomplete due, in part, to limitations in mass spectrometry-based quantitative phosphoproteomics. Phosphoproteomics suffers from lack of redundancy and statistical power for generating high confidence datasets, since information about phosphopeptide identity, site-localization, and quantitation must often be gleaned from a single peptide-spectrum match (PSM). Here we carefully analyzed the isotope label swapping strategy for phosphoproteomics, using data consistency among reciprocal labeling experiments as a central filtering rule for maximizing phosphopeptide identification and quantitation. We demonstrate that the approach allows drastic reduction of false positive quantitations and identifications even from phosphopeptides with a low number of spectral matches. Application of this approach identifies new Mec1/ATR-dependent signaling events, expanding our understanding of the DNA damage signaling network. Overall, the proposed quantitative phosphoproteomic approach should be generally applicable for investigating kinase signaling networks with high confidence and depth.
Causes of Variations in Sediment Yield in the Jinghe River Basin, China
Authors: Zhang Jinliang , Shang Yizi , Liu Jinyong , Fu Jian , Wei Shitao , Tong Liang 
Published: October 2020

AbstractThe Jinghe River remains the major sediment source of the Yellow River in China; however, sediment discharge in the Jinghe River has reduced significantly since the 1950s. The objective of this study is to identify the causes of sediment yield variations in the Jinghe River Basin based on soil and water conservation methods and rainfall analyses. The results revealed that soil and water conservation projects were responsible for half of the total sediment reduction; sediment retention due to reservoirs and water diversion projects was responsible for 1.3% of the total reduction. Moreover, the Jinghe River Basin has negligible opportunity to improve its vegetation cover (currently 55% of the basin is covered with lawns and trees), and silt-arrester dams play a smaller role in reducing sediment significantly before they are entirely full. Therefore, new large-scale sediment trapping projects must be implemented across the Jinghe River Basin, where heavy rainfall events are likely to substantially increase in the future, leading to higher sediment discharge.