bluuebunny/crossref_metadata_2025_split huggingface dataset:
Short microsecond pulses achieve homogeneous electroporation of elongated biological cells irrespective of their orientation in electric field
Authors: Dermol-Černe Janja , Batista Napotnik Tina , Reberšek Matej , Miklavčič Damijan 
Published: June 2020

AbstractIn gene electrotransfer and cardiac ablation with irreversible electroporation, treated muscle cells are typically of elongated shape and their orientation may vary. Orientation of cells in electric field has been reported to affect electroporation, and hence electrodes placement and pulse parameters choice in treatments for achieving homogeneous effect in tissue is important. We investigated how cell orientation influences electroporation with respect to different pulse durations (ns to ms range), both experimentally and numerically. Experimentally detected electroporation (evaluated separately for cells parallel and perpendicular to electric field) via Ca2+ uptake in H9c2 and AC16 cardiomyocytes was numerically modeled using the asymptotic pore equation. Results showed that cell orientation affects electroporation extent: using short, nanosecond pulses, cells perpendicular to electric field are significantly more electroporated than parallel (up to 100-times more pores formed), and with long, millisecond pulses, cells parallel to electric field are more electroporated than perpendicular (up to 1000-times more pores formed). In the range of a few microseconds, cells of both orientations were electroporated to the same extent. Using pulses of a few microseconds lends itself as a new possible strategy in achieving homogeneous electroporation in tissue with elongated cells of different orientation (e.g. electroporation-based cardiac ablation).
De novo RNA sequencing analysis of Aeluropus littoralis halophyte plant under salinity stress
Authors: Younesi-Melerdi Elham , Nematzadeh Ghorban-Ali , Pakdin-Parizi Ali , Bakhtiarizadeh Mohammad Reza , Motahari Seyed Abolfazl 
Published: June 2020

AbstractThe study of salt tolerance mechanisms in halophyte plants can provide valuable information for crop breeding and plant engineering programs. The aim of the present study was to investigate whole transcriptome analysis ofAeluropus littoralisin response to salinity stress (200 and 400 mM NaCl) byde novoRNA-sequencing. To assemble the transcriptome, Trinity v2.4.0 and Bridger tools, were comparatively used with two k-mer sizes (25 and 32 bp). Thede novoassembled transcriptome by Bridger (k-mer 32) was chosen as final assembly for subsequent analysis. In general, 103290 transcripts were obtained. The differential expression analysis (log2FC > 1 and FDR < 0.01) showed that 1861 transcripts expressed differentially, including169 up and 316 down-regulated transcripts in 200 mM NaCl treatment and 1035 up and 430 down-regulated transcripts in 400 mM NaCl treatment compared to control. In addition, 89 transcripts were common in both treatments. The most important over-represented terms in the GO analysis of differentially expressed genes (FDR < 0.05) were chitin response, response to abscisic acid, and regulation of jasmonic acid mediated signaling pathway under 400 mM NaCl treatment and cell cycle, cell division, and mitotic cell cycle process under 200 mM treatment. In addition, the phosphatidylcholine biosynthetic process term was common in both salt treatments. Interestingly, under 400 mM salt treatment, the PRC1 complex that contributes to chromatin remodeling was also enriched along with vacuole as a general salinity stress responsive cell component. Among enriched pathways, the MAPK signaling pathway (ko04016) and phytohormone signal transduction (ko04075) were significantly enriched in 400 mM NaCl treatment, whereas DNA replication (ko03032) was the only pathway that significantly enriched in 200 mM NaCl treatment. Finally, our findings indicate the salt-concentration depended responses ofA. littoralis, which well-known salinity stress-related pathways are induced in 400 mM NaCl, while less considered pathways, e.g. cell cycle and DNA replication, are highlighted under 200 mM NaCl treatment.
Traumatic Brain Injury Severity in a Network Perspective: A Diffusion MRI Based Connectome Study
Authors: Raizman Reut , Tavor Ido , Biegon Anat , Harnof Sagi , Hoffmann Chen , Tsarfaty Galia , Fruchter Eyal , Tatsa-Laur Lucian , Weiser Mark , Livny Abigail 
Published: June 2020

AbstractTraumatic brain injury (TBI) is often characterized by alterations in brain connectivity. We explored connectivity alterations from a network perspective, using graph theory, and examined whether injury severity affected structural connectivity and modulated the association between brain connectivity and cognitive deficits post-TBI. We performed diffusion imaging network analysis on chronic TBI patients, with different injury severities and healthy subjects. From both global and local perspectives, we found an effect of injury severity on network strength. In addition, regions which were considered as hubs differed between groups. Further exploration of graph measures in the determined hub regions showed that efficiency of six regions differed between groups. An association between reduced efficiency in the precuneus and nonverbal abstract reasoning deficits (calculated using actual pre-injury scores) was found in the controls but was lost in TBI patients. Our results suggest that disconnection of network hubs led to a less efficient network, which in turn may have contributed to the cognitive impairments manifested in TBI patients. We conclude that injury severity modulates the disruption of network organization, reflecting a “dose response” relationship and emphasize the role of efficiency as an important diagnostic tool to detect subtle brain injury specifically in mild TBI patients.
Inequalities by education and marital status in the co-occurrence of cardiovascular risk factors in Finland persisted between 1997–2017
Authors: Paalanen Laura , Härkänen Tommi , Kontto Jukka , Tolonen Hanna 
Published: June 2020

AbstractUnderstanding on sociodemographic variation of the co-occurrence of cardiovascular disease risk factors is crucial for planning future prevention strategies. We aimed at examining (1) the co-occurrence of smoking, obesity, hypertension and elevated serum cholesterol by education and marital status, and (2) its trends in different sociodemographic groups in Finland. We used data from cross-sectional health examination surveys among the general population (25–64 years): for 1997–2012 the National FINRISK Study and for 2017 the FinHealth 2017 Survey (n = 25036). A risk factor accumulation score with categories (1) zero, (2) one, (3) two, and (4) three or four elevated risk factors was the outcome in multinomial logistic regression. The risk factor score was more favourable among women, among high education groups, and slightly among participants living with a spouse. Among men, the lowest risk factor score class became more prevalent especially in the intermediate education group, which approached the highest education group over time. Our results indicate an overall transition towards a more favourable risk factor distribution. However, risk factor accumulation among the least educated remained emphasizing the need to develop and implement more targeted prevention interventions and public health policies to decrease the risk factor burden particularly in this group.
Cellular Fibronectin Containing Extra Domain A Causes Insulin Resistance via Toll-like Receptor 4
Authors: Rajak Sangam , Hussain Yusuf , Singh Khushboo , Tiwari Swasti , Ahmad Basir , Bharti Sachi , Prakash Prem 
Published: June 2020

AbstractWe determined the role of cellular fibronectin (CFN) containing the alternatively spliced extra domain A (FN-EDA) in causing insulin resistance (IR) through toll-like receptor 4 (TLR4). Circulating FN-EDA level was evaluated in mouse and rat IR models. Specific anti-FN-EDA antibody and TLR4 inhibitor were used to study its role in IR in mice. CFN protein was injected to evaluate TLR4 dependent effect of FN-EDA in IR. Furthermore, FN-EDA was estimated in blood plasma and correlated with demographic and clinical characteristics in healthy human participants (n = 38). High-fat diet feeding significantly increased circulating FN-EDA in both mouse (P = 0.03) and rat (P = 0.02) IR models. Antibody against FN-EDA protected mice from IR by increasing glucose disposal rate following glucose (P = 0.02) and insulin (P = 0.01) tolerance tests. CFN protein injection caused IR, however, TLR4 inhibitor protected the mice from CFN induced IR. Multivariate regression analysis predicted an independent positive correlation between circulating FN-EDA and fasting plasma glucose (P = 0.003) in healthy human participants. In conclusion, FN-EDA may cause IR through TLR4 by decreasing glucose disposal rate following glucose and insulin load. Targeting FN-EDA thus can be considered as a possible therapeutic strategy to delay prediabetes progression to diabetes.
Wideband Magnetic Excitation System for Atomic Force Microscopy Cantilevers with Megahertz-Order Resonance Frequency
Authors: Hirata Kaito , Igarashi Takumi , Suzuki Keita , Miyazawa Keisuke , Fukuma Takeshi 
Published: June 2020

AbstractSmall cantilevers with a megahertz-order resonance frequency provide excellent sensitivity and speed in liquid-environment atomic force microscopy (AFM). However, stable and accurate oscillation control of a small cantilever requires the photothermal excitation, which has hindered their applications to the studies on photo-sensitive materials. Here, we develop a magnetic excitation system with a bandwidth wider than 4 MHz, enabling a light-free excitation of small cantilevers. In the system, a cantilever with a magnetic bead is driven by a magnetic field generated by a coil. In the coil driver, a differentiation circuit is used for compensating the frequency dependence of the coil impedance and keeping the current constant. By implementing several differentiation circuits with different frequency ranges, we enable to drive various cantilevers having different resonance frequencies with sufficient excitation efficiency. In contrast to the conventional coil driver with a closed-loop circuit, the developed one consists of an open-loop circuit and hence can be stably operated regardless of the coil design. With the developed system, atomic-resolution imaging of mica in liquid using a small cantilever with a megahertz-order resonance frequency is demonstrated. This development should lead to the future applications of AFM with small cantilevers to the studies on various photo-sensitive materials and phenomena.
Sentinel optical and SAR data highlights multi-segment faulting during the 2018 Palu-Sulawesi earthquake (Mw 7.5)
Authors: Bacques Guillaume , de Michele Marcello , Foumelis Michael , Raucoules Daniel , Lemoine Anne , Briole Pierre 
Published: June 2020

AbstractThe main active tectonic structure in the western part of Central Sulawesi (Indonesia) is the left-lateral Palu-Koro strike-slip fault. Its offshore section was thought not to have broken during the Mw 7.5 Palu Earthquake on 28 September 2018, challenging the established knowledge of the tectonic setting at this location. Here, we use Sentinel-1 SAR interferometry to produce a map of the ground velocities in the area of the Mw 7.5 earthquake for the seven months following the 2018 earthquake. We show evidence of surface deformation along the western coast of the Palu bay, indicating that the Palu Koro offshore fault section might have contribute to or been affected by the earthquake. As the possibility of multi-segment ruptures is a high concern in the area because of the high seismic and tsunami hazard, we present here, a fault model that includes the offshore section of the Palu-Koro fault. Thanks to four independents space-based geodetics measurements of the co-seismic displacement (Sentinel-1 and Sentinel-2 correlograms) we constrain the 3D co-seismic ground displacements. The modeling of these displacements allows us to estimate the co-seismic fault slip amplitude and geometry at depth. At the end, we consider the multi-segment faulting scenario, including the offshore section of the Palu-Koro fault, as a plausible model to explain the submarine landslides and the tsunamis. This study also gives the opportunity to observe a super-shear earthquake in the context of a complex fault network and implies an increase in the probability of submarine landslides within the bay in the forthcoming years.
Experimental investigation of jet-induced wall pressure fluctuations over a tangential flat plate at two Reynolds numbers
Authors: Meloni Stefano , Di Marco Alessandro , Mancinelli Matteo , Camussi Roberto 
Published: June 2020

AbstractThe wall pressure fluctuations induced by a subsonic circular jet on a rigid flat plate have been investigated considering two jets with different exit section diameters at the same Mach number. The analysis is aimed at completing the series of papers presented by the authors on the interaction between a subsonic jet and infinite tangential flat plate where the exit Mach number was the only parameter of the jet flow that was varied. In order to analyse other effects out of the Mach number, two configurations with different nozzle exhaust diameters were explored with the objective of isolating the Reynolds number effect keeping fixed the exit Mach number. The nozzle exhaust diameters are 12 mm and 25.4 mm and the instrumented flat plate, installed parallel to the jet flow, is moved at different radial distances from the jet axis. The pressure footprint on the plate has been measured in the stream-wise direction by means of a pair of flush-mounted pressure transducers, providing point-wise pressure signals. Wall pressure fluctuations have been characterised in terms of spectral and statistical quantities. The effect of Reynolds is evidenced and possible scaling relationships that account for the Reynolds dependence are proposed. Implications for modeling the spectral coherence have been considered by the application of the Corcos’ model and the effect of the jet Reynolds number on the model coefficients is analyzed.
The microbial biogeography of the gastrointestinal tract of preterm and term lambs
Authors: Chong Clara Yieh Lin , Vatanen Tommi , Oliver Mark , Bloomfield Frank H. , O’Sullivan Justin M. 
Published: June 2020

AbstractNutritional supplementation is a common clinical intervention to support the growth of preterm infants. There is little information on how nutritional supplementation interacts with the developing microbiome of the small intestine, the major site for nutrient metabolism and absorption. We investigated the effect of preterm birth and nutritional supplementation on the mucosal and luminal microbiota along the gastrointestinal tract (GIT) of preterm lambs. Preterm lambs (n = 24) were enterally supplemented with branched-chain amino acids (BCAAs), carbohydrate (maltodextrin), or water for two weeks from birth. Term lambs (n = 7) received water. Mucosal scrapings and luminal samples were collected from the duodenum, jejunum, ileum (small intestine) and colon at six weeks post-term age and analysed by 16S rRNA amplicon sequencing. Anatomical site explained 54% (q = 0.0004) of the variance and differences between the term and preterm groups explained 5.7% (q = 0.024) of the variance in microbial beta-diversities. The colon was enriched with Tenericutes and Verrucomicrobia compared to the small intestine, while Actinobacteria, and superphylum Patescibacteria were present in higher abundance in the small intestine compared to the colon. Our findings highlight that early-life short-term nutritional supplementation in preterm lambs does not alter the microbial community residing in the small intestine and colon.
Subjective versus objective, polymer bur-based selective carious tissue removal: 1-year interim analysis of a randomized clinical trial
Authors: Marques Marta Gomes , Hilgert Leandro Augusto , Silva Larissa Ribeiro , Demarchi Karine Medeiros , dos Santos Matias Patrícia Magno , Ribeiro Ana Paula Dias , Leal Soraya Coelho , Paris Sebastian , Schwendicke Falk 
Published: June 2020

AbstractWe aimed to compare subjective (S) vs. objective (O) selective carious tissue removal using hand-excavation versus a self-limiting polymer bur, respectively. A community-based single-blind cluster-randomized controlled superiority trial was performed. This is a 1-year-interim analysis. 115 children (age 7–8 years) with ≥1 vital primary molar with a deep dentin lesion (>1/2 dentin depth) were included (60 S/55 O). The cluster was the child, with eligible molars being treated identically (91 S/86 O). Cavities were prepared and carious tissue on pulpo-proximal walls selectively removed using hand instruments (S), or a self-limiting polymer bur (Polybur P1, Komet). Cavities were restored using glass-hybrid material (Equia Forte, GC). Treatment times and children’s satisfaction were recorded. Generalized-linear models (GLM) and multi-level Cox-regression analysis were applied. Initial treatment times were not significantly different between protocols (mean; 95%CI S: 433; 404–462 sec; O: 412; 382-441 sec; p = 0.378/GLM). There was no significant difference in patients’ satisfaction (p = 0.164). No pulpal exposures occurred. 113 children were re-examined. Failures occurred in 22/84 O-molars (26.2%) and 26/90 S-molars (28.9%). Pulpal complications occurred in 5(6%) O and 2(2.2%) S molars, respectively. Risk of failure was not significantly associated with the removal protocol, age, sex, dental arch or tooth type (p > 0.05/Cox), but was nearly 5-times higher in multi-surface than single-surface restorations (HR: 4.60; 95% CI: 1.70-12.4). Within the limitations of this interim analysis, there was no significant difference in treatment time, satisfaction and risk of failure between O and S.
Cell-free expression tools to study co-translational folding of alpha helical membrane transporters
Authors: Harris Nicola J. , Pellowe Grant A. , Booth Paula J. 
Published: June 2020

AbstractMost helical membrane proteins fold co-translationally during unidirectional polypeptide elongation by the ribosome. Studies thus far, however, have largely focussed on refolding full-length proteins from artificially induced denatured states that are far removed from the natural co-translational process. Cell-free translation offers opportunities to remedy this deficit in folding studies and has previously been used for membrane proteins. We exploit this cell-free approach to develop tools to probe co-translational folding. We show that two transporters from the ubiquitous Major Facilitator Superfamily can successfully insert into a synthetic bilayer without the need for translocon insertase apparatus that is essential in vivo. We also assess the cooperativity of domain insertion, by expressing the individual transporter domains cell-free. Furthermore, we manipulate the cell-free reaction to pause and re-start protein synthesis at specific points in the protein sequence. We find that full-length protein can still be made when stalling after the first N terminal helix has inserted into the bilayer. However, stalling after the first three helices have exited the ribosome cannot be successfully recovered. These three helices cannot insert stably when ribosome-bound during co-translational folding, as they require insertion of downstream helices.
Construction and characterization of avermectin B2 solid nanodispersion
Authors: Cui Bo , Gao Fei , Zeng Zhanghua , Wang Chunxin , Wang Yan , Sun Changjiao , Zhao Xiang , Guo Liang , Shen Yue , Liu Guoqiang , Cui Haixin 
Published: June 2020

AbstractPoorly water-soluble pesticide compounds are difficult to be formulated as environmentally friendly formulations with high efficacy. For the conventional formulations, more than 50% of pesticides are lost during application due to the decomposition of active ingredient, dust drift and running off. Therefore, there is an urgent need to construct a novel formulation for improving the bioavailability of pesticides. The avermectin B2 solid nanodispersion was developed by self-emulsifying and solidification technology. The average particle size, surface tension and contact angle on cabbage leaves of the solid nanodispersion were 35.3 nm, 36.6 mN/m and 58°, respectively. The toxicities of the nanoformulation against diamondback moths and root-knot nematode were more than 1.7 times that of conventional emulsion in water and water dispersible granule. This investigation demonstrated that for foliage-applied pesticides, the formulation bioavailability had positive correlation with wettability which was negatively correlated with surface tension and contact angle. This study provides an easy and scalable technique to construct the effective and environmentally friendly nanoformulations. The toxicity improvement of the solid nanodispersion will significantly reduce dosage and environmental pollution of pesticide. The clarified relationship between formulation parameters and biological activity will contribute to the design and construction of novel pesticide formulations.
Opening or closing eyes at rest modulates the functional connectivity of V1 with default and salience networks
Authors: Costumero Víctor , Bueichekú Elisenda , Adrián-Ventura Jesús , Ávila César 
Published: June 2020

AbstractCurrent evidence suggests that volitional opening or closing of the eyes modulates brain activity and connectivity. However, how the eye state influences the functional connectivity of the primary visual cortex has been poorly investigated. Using the same scanner, fMRI data from two groups of participants similar in age, sex and educational level were acquired. One group (n = 105) performed a resting state with eyes closed, and the other group (n = 63) performed a resting state with eyes open. Seed-based voxel-wise functional connectivity whole-brain analyses were performed to study differences in the connectivity of the primary visual cortex. This region showed higher connectivity with the default mode and sensorimotor networks in the eyes closed group, but higher connectivity with the salience network in the eyes open group. All these findings were replicated using an open source shared dataset. These results suggest that opening or closing the eyes may set brain functional connectivity in an interoceptive or exteroceptive state.
Effect of Down syndrome and keratoconus on corneal density and volume: a triple comparative study
Authors: Asgari Soheila , Aghamirsalim Mohammadreza , Mehravaran Shiva , Hashemi Hassan 
Published: June 2020

AbstractKeratoconus (KCN) and Down syndrome affect the corneal density and volume. In this study included Down syndrome patients with and without KCN (24 Down-KCN and 204 Down-nonKCN eyes) and normal age- and gender-matched individuals (184 eyes). Studied parameters were the corneal density measured with Pentacam HR in 5 concentric zones and annuli (0–2 mm, 2–6 mm, 6–10 mm, 10–12 mm, and 0–12 mm) in 4 different depth layers (anterior 120 µm, posterior 60 µm, middle layer, and the full thickness of the cornea), and the 10 mm zone corneal volume. In Down-KCN, Down-nonKCN, and control groups, respectively, mean full thickness density in the 0–12 mm zone was 19.35 ± 2.92, 17.85 ± 2.55, and 15.78 ± 2.67 GSU, and mean corneal volume was 57.45 ± 4.37, 56.99 ± 3.46, and 61.43 ± 3.42mm3. All density readings were significantly different between the three studied groups (all P < 0.01) except full thickness density in 0–2 mm and 2–6 mm (P > 0.05) and corneal volume (P = 0.519) between Down-KCN and Down-nonKCN groups; these inter-group densitometry differences within the 6 mm zone were only in the middle layer, and not the anterior or posterior thickness layers (all P > 0.05). Corneal density increased with age and corneal thickness, but there was no significant relationship with gender. Overall, Down syndrome is associated with increased density and light scatter in all corneal layers up to the 12 mm diameter. In Down patients with KCN, the increased light scatter and density in the 6 mm zone is only in the middle thickness layer. Corneal volume is reduced in Down syndrome irrespective of the presence or absence of KCN.