bluuebunny/crossref_metadata_2025_split huggingface dataset:
Fossilized solidification fronts in the Bushveld Complex argue for liquid-dominated magmatic systems
Authors: Kruger Willem , Latypov Rais 
Published: June 2020

AbstractChemical differentiation of magma on Earth occurs through physical separation of liquids and crystals. The mechanisms of this separation still remain elusive due to the lack of information on solidification fronts in plutonic magmatic systems. Here, we present records of fossilized solidification fronts from massive magnetitites of the Bushveld Complex in South Africa, obtained by two-dimensional geochemical mapping on field outcrops. The chemical zoning patterns of solidification fronts indicate that nucleation and crystallization occur directly at the chamber floor and result in near-perfect fractionation due to convective removal of a compositional boundary layer from in situ growing crystals. Our data precludes the existence of thick crystal mushes during the formation of massive magnetitites, thus providing no support for the recent paradigm that envisages only crystal-rich and liquid-poor mushy reservoirs in the Earth’s crust.
A personalised approach for identifying disease-relevant pathways in heterogeneous diseases
Authors: Somani Juhi , Ramchandran Siddharth , Lähdesmäki Harri 
Published: June 2020

AbstractNumerous time-course gene expression datasets have been generated for studying the biological dynamics that drive disease progression; and nearly as many methods have been proposed to analyse them. However, barely any method exists that can appropriately model time-course data while accounting for heterogeneity that entails many complex diseases. Most methods manage to fulfil either one of those qualities, but not both. The lack of appropriate methods hinders our capability of understanding the disease process and pursuing preventive treatments. We present a method that models time-course data in a personalised manner using Gaussian processes in order to identify differentially expressed genes (DEGs); and combines the DEG lists on a pathway-level using a permutation-based empirical hypothesis testing in order to overcome gene-level variability and inconsistencies prevalent to datasets from heterogenous diseases. Our method can be applied to study the time-course dynamics, as well as specific time-windows of heterogeneous diseases. We apply our personalised approach on three longitudinal type 1 diabetes (T1D) datasets, where the first two are used to determine perturbations taking place during early prognosis of the disease, as well as in time-windows before autoantibody positivity and T1D diagnosis; and the third is used to assess the generalisability of our method. By comparing to non-personalised methods, we demonstrate that our approach is biologically motivated and can reveal more insights into progression of heterogeneous diseases. With its robust capabilities of identifying disease-relevant pathways, our approach could be useful for predicting events in the progression of heterogeneous diseases and even for biomarker identification.
Influence of gut microbiota on mucosal IgA antibody response to the polio vaccine
Authors: Zhao Ting , Li Jing , Fu Yuting , Ye Hui , Liu Xiaochang , Li Guoliang , Yang Xiaolei , Yang Jingsi 
Published: June 2020

AbstractThe impact of intestinal microbiota on mucosal antibody response to the polio vaccine is poorly understood. We examined changes in vaccine-induced intestinal mucosal immunity to poliovirus by measuring the immunoglobulin A (IgA) antibody levels in stool samples collected from 107 infants in China, and the samples were collected 14 days after different sequential vaccinations combining inactivated polio vaccine (IPV) with oral poliovirus vaccine (OPV). Gut microbiota were identified using 16S ribosomal RNA sequencing 28 days before, 14 days before, and at the last dose of OPV. Vaccine-induced type 2-specific mucosal IgA showed a decrease after switching from trivalent to bivalent OPV (bOPV) (positive rate of polio type 2-specific mucosal IgA, 16.7%, 11.8%, and 45.9% for IPV + 2bOPV, 2IPV + bOPV, and 2IPV + trivalent OPV groups, respectively). The composition of the gut microbiome was significantly different, a higher abundance ofFirmicutesand a lower abundance ofActinobacteriawere observed in IgA-negative infant (n = 66) compared with IgA-positive infants (n = 39), and the gut microbiota were more diverse in IgA-negative infants on the day of OPV inoculation. The abundance ofClostridiawas concomitant with a significantly lower conversion rate of mucosal IgA responses to the polio vaccine. The composition of the gut microbiome may affect the intestinal mucosal IgA response to the polio vaccine.
Cardio-renal protective effect of the xanthine oxidase inhibitor febuxostat in the 5/6 nephrectomy model with hyperuricemia
Authors: Omizo Hiroki , Tamura Yoshifuru , Morimoto Chikayuki , Ueno Masaki , Hayama Yuto , Kuribayashi-Okuma Emiko , Uchida Shunya , Shibata Shigeru 
Published: June 2020

AbstractAlthough hyperuricemia has been shown to be associated with the progression of cardiovascular disorder and chronic kidney disease (CKD), there is conflicting evidence as to whether xanthine oxidase (XO) inhibitors confer organ protection besides lowering serum urate levels. In this study, we addressed the cardio-renal effects of XO inhibition in rodent CKD model with hyperuricemia. Sprague-Dawley rats underwent 5/6 nephrectomy and received a uricase inhibitor oxonic acid for 8 weeks (RK + HUA rats). In some rats, a XO inhibitor febuxostat was administered orally. Compared with control group, RK + HUA group showed a significant increase in albuminuria and renal injury. Febuxostat reduced serum uric acid as well as urinary albumin levels. Histological and immunohistochemical analysis of the kidney revealed that febuxostat alleviated glomerular, tubulointerstitial, and arteriolar injury in RK + HUA rats. Moreover, in the heart, RK + HUA showed individual myofiber hypertrophy and cardiac fibrosis, which was significantly attenuated by febuxostat. We found that renal injury and the indices of cardiac changes were well correlated, confirming the cardio-renal interaction in this model. Finally, NF-E2-related factor 2 (Nrf2) and the downstream target heme oxygenase-1 (HO-1) protein levels were increased both in the heart and in the kidney in RK + HUA rats, and these changes were alleviated by febuxostat, suggesting that tissue oxidative stress burden was attenuated by the treatment. These data demonstrate that febuxostat protects against cardiac and renal injury in RK + HUA rats, and underscore the pathological importance of XO in the cardio-renal interaction.
Early visualization of skin burn severity using a topically applied dye-loaded liquid bandage
Authors: Nguyen John Quan , Marks Haley L. , Everett Tyler , Haire Timothy , Carlsson Anders , Chan Rodney , Evans Conor L. 
Published: June 2020

AbstractSkin burns are a significant source of injury in both military and civilian sectors. They are especially problematic in low resource environments where non-fatal injuries can lead to high morbidity rates, prolonged hospitalization, and disability. These multifaceted wounds can be highly complex and must be quickly diagnosed and treated to achieve optimal outcomes. When the appropriate resources are available, the current gold standard for assessing skin burns is through tissue punch biopsies followed by histological analysis. Apart from being invasive, costly, and time-consuming, this method can suffer from heterogeneous sampling errors when interrogating large burn areas. Here we present a practical method for the early visualization of skin burn severity using a topically applied fluorescein-loaded liquid bandage and an unmodified commercial digital camera. Quantitative linear mixed effects models of color images from a four day porcine burn study demonstrate that colorimetric changes within the HSB colorspace can be used to estimate burn depth severity immediately after burning. The finding was verified using fluorescence imaging, tissue cross-sectioning, and histopathology. This low-cost, rapid, and non-invasive color analysis approach demonstrates the potential of dye-loaded liquid bandages as a method for skin burn assessment in settings such as emergency medicine triage and low resource environments.
A novel study on the inhibitory effect of marine macroalgal extracts on hyphal growth and biofilm formation of candidemia isolates
Authors: El Zawawy Nessma A. , El-Shenody Rania A. , Ali Sameh S. , El-Shetehy Mohamed 
Published: June 2020

AbstractBiofilm formation and hyphal growth are considered to be the most serious virulence factors of Candida species in blood causing candidemia infections, which are difficult to treat due to the spread of resistant Candida isolates to most antifungal drugs. Therefore, in this study, we investigated the effect of different types and concentrations of selected macroalgal extracts from Cladostephus spongiosus (Phaeophyta), Laurencia papillosa (Rhodophyta), and Codium arabicum (Chlorophyta) in inhibiting those virulence factors of the isolated Candida. Acetone extract of C. spongiosus (AECS) showed a stronger anticandidal activity against the selected strains than ethanol extract. Candida krusei was the highest biofilm producer among the selected isolates. AECS showed an inhibition of C. krusei biofilm formation as well as a reduction in the viability of preformed biofilms. Also, AECS reduced various sugars in the candidal exo-polysaccaride layer (EPS). Scanning electron microscopy (SEM) and light microscopic images revealed an absence of hyphae and an alteration in the morphology of biofilm cells when treated with AECS. Moreover, AECS downregulated the expression of hyphal specific genes, hyphal wall protein 1 (HWP1), Agglutinin-like protein 1 (ALS1) and fourth secreted aspartyl proteinase (SAP4), which confirmed the inhibitory effect of AECS on hyphal growth and biofilm formation. Gas chromatography-mass spectrophotometer (GC-MS) analysis of AECS showed three major compounds, which were non-existent in the ethanol extract, and might be responsible for the anticandidal activity; these revealed compounds were 4-hydroxy-4-methyl-2-pentanone, n-hexadecenoic acid, and phenol, 2-methoxy-4-(2-propenyl). These active compounds of AECS may be promising for future pharmaceutical applications in the treatment of candidemia.
First data on the organization of the nervous system in juveniles of Novocrania anomala (Brachiopoda, Craniiformea)
Authors: Temereva Elena N. 
Published: June 2020

AbstractThe organization and development of the nervous system are traditionally used for phylogenetic analysis and may be useful for clarification of evolution and phylogeny of some poor studied groups. One of these groups is brachiopods: most data on their nervous system organization were obtained in 19th century. In this research, antibody staining and confocal laser scanning microscopy were used to study the nervous system of early ontogenetic stages of the brachiopod Novocrania anomala. Although N. anomala adults are thought to lack a supraenteric ganglion, a large supraenteric ganglion exists in N. anomala juveniles with either a trocholophe or a schizolophe. During ontogenesis, the supraenteric ganglion in the juvenile changes its shape: the commissure between the two lobes of the ganglion extends. This commissure possibly gives rise to the main brachial nerve in adults. The supraenteric ganglion gives rise to the cross (transversal) nerves that extend to the accessory brachial nerve, which gives rise to the tentacular nerves. In juveniles with a trocholophe, the accessory brachial nerve gives rise to the frontal and intertentacular nerves of tentacles that form a single row. When the trocholophe transforms into the schizolophe, the second row of tentacles appears and the innervation of the tentacles changes. The intertentacular nerves disappear and the second accessory nerve forms and gives rise to the laterofrontal tentacular nerves of the inner and outer tentacles and to the abfrontal nerves of the inner tentacles. The so-called subenteric ganglion, which was described as a ganglion in N. anomala adults, is represented by a large circumvisceral nerve in N. anomala juveniles.The results suggest that ‘phoronid-like’ non-specialized tentacles may be regarded as the ancestral type of tentacles for brachiopods and probably for all lophophorates. The presence of intertentacular nerves is the ancestral feature of all lophophorates. The transformation of the juvenile supraenteric ganglion into the main brachial nerve of N. anomala adults suggests that research is needed on the development and organization of the supraenteric ganglion and the main brachial nerve in other brachiopods, whose adults have a prominent supraenteric ganglion.
Characteristics of land-atmosphere interaction parameters in hinterland of the Taklimakan Desert
Authors: Liu Yongqiang , Meng Xianyong , Mamtimin Ali , He Qing 
Published: June 2020

AbstractThe importance of the energy exchange between the land surface and the atmosphere can be characterized by bulk transfer coefficients for momentum, Cd, and heat, Ch. The diurnal and monthly variations of both bulk transfer coefficients and lengths of surface roughness are analyzed. Based on observed data from January to December 2009 in hinterland of the Taklimakan Desert, the characteristics of aerodynamic roughness length, z0m, and thermal roughness length, z0h, are discussed. It should be noted that the diurnal and monthly variations of the parameters are fundamentally different from those reported in vegetated areas. Specifically, four unique features can be identified in the surface layer. First, in Taklimakan Desert, z0m does not vary with seasons; however, it significantly depends on wind speed. Second, z0h is higher in the daytime and lower at night, showing obvious diurnal characteristics. The high values appear at sunrise and sunset. Third, both Cd and Ch have two peaks, one peak at sunrise, and another one at noon. Fourth, both Cd and Ch have larger values in winter season and smaller values in summer season.
Claudin expression profile in flat wart and cutaneous squamous cell carcinoma in epidermodysplasia verruciformis
Authors: da Cruz Silva Lana Luiza , de Oliveira Walmar Roncalli Pereira , Pereira Naiura Vieira , Halpern Ilana , Tanabe Claudia Kwei-Fong Dai , Mattos Mayra Servilha Grion , Sotto Mirian N. 
Published: June 2020

AbstractEpidermodysplasia verruciformis (EV) is a genodermatosis related to human beta-papillomavirus (beta-HPV), with a high risk of cutaneous squamous cell carcinoma (cSCC). Claudins are transmembrane proteins expressed in epithelia and may be altered during carcinogenesis. For a better understanding of the role of beta-HPV in cutaneous carcinogenesis, this claudin expression study was conducted on lesions of patients with and without EV. In this study, claudins-1, -2, -3, -4, -5, -7 and -11 expressions were analyzed by applying the immunohistochemistry technique, in samples of 108 normal skin, 39 flat warts and 174 cSCC. The cSCC samples were organized in tissue microarrays. We found that claudin-1 and claudin-3 focal expressions were associated with cSCC (p < 0.001), and claudin-2 focal or negative expression with flat wart (p < 0.001), in EV and NEV (non-EV) groups. For claudin-5, EV group showed a lower chance of focal and negative expression (p < 0.001), and its negative expression was associated with flat wart (p < 0.001) and lower mean age (p < 0.001). Claudins-4, -7 and -11 showed a diffuse expression in almost all studied samples. Our findings suggest that claudin-5 increased expression observed on normal skin, flat wart and cSCC showed association with EV. Claudin-1 and -3 down expression were also observed, but they could not be related to beta-HPV infection.
Physical activity and sedentary behaviour in the Middle East and North Africa: An overview of systematic reviews and meta-analysis
Authors: Chaabane Sonia , Chaabna Karima , Abraham Amit , Mamtani Ravinder , Cheema Sohaila 
Published: June 2020

AbstractTo support the global strategy to reduce risk factors for obesity, we synthesized the evidence on physical activity (PA) and sedentary behaviour in the Middle East and North Africa (MENA) region. Our systematic overview included seven systematic reviews reporting 229 primary studies. The meta-analysis included 125 prevalence measures from 20 MENA countries. After 2000, 50.8% of adults (ranging from 13.2% in Sudan to 94.9% in Jordan) and 25.6% of youth (ranging from 8.3% in Egypt to 51.0% in Lebanon) were sufficiently active. Limited data on PA behaviours is available for MENA countries, with the exception of Gulf Cooperation Council countries. The meta-regression identified gender and geographical coverage among youth, and the PA measurement as predictors of PA prevalence for both adults and youth. Our analysis suggests a significant PA prevalence increase among adults over the last two decades. The inconsistency in sedentary behaviour measurement is related to the absence of standardized guidelines for its quantification and interpretation. The global epidemic of insufficient PA is prevalent in MENA. Lower PA participation among youth and specifically females should be addressed by focused lifestyle interventions. The recognition of sedentary behaviour as a public health issue in the region remains unclear. Additional data on PA behaviours is needed from low- and middle-income countries in the region.
Density Scaling Based Detection of Thermodynamic Regions of Complex Intermolecular Interactions Characterizing Supramolecular Structures
Authors: Pawlus Sebastian , Grzybowski Andrzej , Kołodziej Sławomir , Wikarek Michał , Dzida Marzena , Góralski Paweł , Bair Scott , Paluch Marian 
Published: June 2020

AbstractIn this paper, applying the density scaling idea to an associated liquid 4-methyl-2-pentanol used as an example, we identify different pressure-volume-temperature ranges within which molecular dynamics is dominated by either complex H-bonded networks most probably leading to supramolecular structures or non-specific intermolecular interactions like van der Waals forces. In this way, we show that the density scaling law for molecular dynamics near the glass transition provides a sensitive tool to detect thermodynamic regions characterized by intermolecular interactions of different type and complexity for a given material in the wide pressure-volume-temperature domain even if its typical form with constant scaling exponent is not obeyed. Moreover, we quantify the observed decoupling between dielectric and mechanical relaxations of the material in the density scaling regime. The suggested methods of analyses and their interpretations open new prospects for formulating models based on proper effective intermolecular potentials describing physicochemical phenomena near the glass transition.
Electromagnetic and optical responses of a composite material comprising individual single-walled carbon-nanotubes with a polymer coating
Authors: Shuba Mikhail V. , Yuko Dzmitry , Kuzhir Polina P. , Maksimenko Sergey A. , Ksenevich Vitaly K. , Lim Sung-Hwan , Kim Tae-Hwan , Choi Sung-Min 
Published: June 2020

AbstractThe composites and thin films comprising individual single-walled carbon nanotubes with a polymer coating (p-CNTs) have been prepared and their electromagnetic responses have been studied in a wide range from low-frequency (25–107 Hz) up to the infrared region. In spite of the high volume fraction of the nanotubes (up to 3.3%), the polymer coating prevents direct p-CNT contacts and the formation of the percolation network in those composites, so that p-CNTs interact only via the electromagnetic coupling. Thereby it is an ideal model system to verify experimentally the fundamental issues related to carbon nanotube electromagnetics, such as the influence of inter-tube electron tunneling on the localized plasmon resonance in the terahertz range, or the infrared absorption enhancement of polymer molecules attached to the nanotube surface. Along with addressing the fundamentals, applied carbon nanotube electromagnetics got insights important for the applications of p-CNT based composites as dielectric media in the terahertz regime. In particular, we found that the real part of the permittivity of the p-CNT film in the terahertz range is rather competitive, i.e. 8–13, however the loss tangent is not so small (0.4–0.6) as has been predicted. The way to increase p-CNT terahertz performance is also discussed.
Age-independent increasing prevalence of Human Papillomavirus-driven oropharyngeal carcinomas in North-East Italy
Authors: Del Mistro Annarosa , Frayle Helena , Menegaldo Anna , Favaretto Niccolò , Gori Silvia , Nicolai Piero , Spinato Giacomo , Romeo Salvatore , Tirelli Giancarlo , da Mosto Maria Cristina , Polesel Jerry , Boscolo Rizzo Paolo 
Published: June 2020

AbstractHPV-driven oropharyngeal carcinomas (OPCs) show geographical variations with increasing temporal trends in several areas. We investigated their frequency and clinical outcomes within a prospective multicenter cohort study in North-East Italy. A tumor was defined as HPV-driven by using at least two different biomarkers, usually HPV-DNA positivity and p16INK4A overexpression. Different survival outcomes were compared among patients with HPV-driven and non-HPV-driven tumors. Overall, 42/130 (32.3%) patients with newly diagnosed OPC during the period 2000–2018 resulted HPV-driven; HPV16 was involved in 37 cases (88%), HPV33 in 3 cases (7%), HPV58 and HPV18 in 1 case each. Over time, HPV-driven cases raised from 16.7% (6/36) during 2000–2006 to 46.1% (24/52) during 2013–2018 (p < 0.001). The increase in HPV-driven OPCs was more marked in females than males (p = 0.010), and the frequency of HPV-driven cases was similar in the different age groups. In comparison to cases with non-HPV-driven tumors, a significantly (p < 0.001) better progression-free and overall survival were recorded among patients affected by HPV-driven OPC. The prevalence of HPV-driven OPC cases has been significantly increasing during the last two decades also in North-East Italy and was associated with favorable outcome. OPCs driven by non-HPV16 oncogenic types were restricted to patients older than 68-yrs.
Non-Newtonian droplet-based microfluidics logic gates
Authors: Asghari Elmira , Moosavi Ali , Hannani Siamak Kazemzadeh 
Published: June 2020

AbstractDroplet-based microfluidic logic gates have many applications in diagnostic assays and biosciences due to their automation and the ability to be cascaded. In spite of many bio-fluids, such as blood exhibit non-Newtonian characteristics, all the previous studies have been concerned with the Newtonian fluids. Moreover, none of the previous studies has investigated the operating regions of the logic gates. In this research, we consider a typical AND/OR logic gate with a power-law fluid. We study the effects of important parameters such as the power-law index, the droplet length, the capillary number, and the geometrical parameters of the microfluidic system on the operating regions of the system. The results indicate that AND/OR states mechanism function in opposite directions. By increasing the droplet length, the capillary number and the power-law index, the operating region of AND state increases while the operating region of OR state reduces. Increasing the channel width will decrease the operating region of AND state while it increases the operating region of OR state. For proper operation of the logic gate, it should work in both AND/OR states appropriately. By combining the operating regions of these two states, the overall operating region of the logic gate is achieved.