bluuebunny/crossref_metadata_2025 huggingface dataset:
A Microcavity Array-Based 4D Cell Culture Platform
Authors: Nies Cordula , Rubner Tobias , Lorig Hanna , Colditz Vera , Seelmann Helen , Müller Andreas , Gottwald Eric
Published: May 2019

(1) Background: We describe a 4D cell culture platform with which we tried to detect and to characterize migration dynamics of single hematopoietic stem cells in polymer film microcavity arrays integrated into a microtiter plate. (2) Methods: The system was set up with CD34-expressing KG-1a cells as a surrogate for hematopoietic stem cells. We then evaluated the system as an artificial hematopoietic stem cell niche model comprised of a co-culture of human hematopoietic stem cells from cord blood (cord blood CD34+ cells, hHSCs) and human mesenchymal stromal cells (hMSCs) from bone marrow over a period of 21 days. We used a software-based cell detection method to count single hematopoietic stem cells (HSCs) in microcavities. (3) Results: It was possible to detect single HSCs and their migration behavior within single microcavities. The HSCs displayed a pronounced migration behavior with one population of CD34-expressing cells located at the bottom of the microcavities and one population located in the middle of the microcavities at day 14. However, at day 21 the two populations seemed to unite again so that no clear distinction between the two was possible anymore. (4) Conclusions: Single cell migration detection was possible but microscopy and flow cytometry delivered non-uniform data sets. Further optimization is currently being developed.
Human Sinusoidal Subendothelial Cells Regulate Homing and Invasion of Circulating Metastatic Prostate Cancer Cells to Bone Marrow
Authors: Funari Alessia , Alimandi Maurizio , Pierelli Luca , Pino Valentina , Gentileschi Stefano , Sacchetti Benedetto
Published: May 2019

Subendothelial cells (pericytes) are the clonogenic, multipotent and self-renewing skeletal stem cells (SSCs) found in bone marrow (BM) stroma. They express genes maintaining hematopoietic stem cell (HMC) niche identity and, transplanted in immunocompromised mice, organize the hematopoietic microenvironment (HME) generating humanized bone/BM ossicles. To create a mouse model of hematogenous metastasis of human prostate cancer (PC) cells to human bone/BM, we injected PC cells in the blood circulatory system of Severe Combined Immunodeficiency (SCID)/beige mice bearing heterotopic ossicles. Results indicate that PC cells could efficiently home to mice-implanted extraskeletal BM ossicles, but were not able to colonize mice skeletal segments. In humanized bone/BM ossicles, early foci of PC cells occupied a perisinusoidal position, in close contact with perivascular stromal cells. These findings demonstrate the importance of the SSC compartment in recreating a suitable environment to metastatic PC cells. Our data support the hypothesis that BM SSCs committed to a pericyte fate can specify for homing niches of PC cells, suggesting an involvement of specific interactions with subendothelial stromal cells in extravasation of circulating metastatic PC cells to BM.
Numerical Study on Effective Conditions for the Induction of Apoptotic Temperatures for Various Tumor Aspect Ratios Using a Single Continuous-Wave Laser in Photothermal Therapy Using Gold Nanorods
Authors: Kim Moojoong , Kim Gwantaek , Kim Donghyuk , Yoo Jaisuk , Kim Dong-Kwon , Kim Hyunjung
Published: May 2019

Photothermal therapy can serve as an alternative to classic surgery in the treatment of patients with cancer. However, using photothermal therapy can result in local overheating and damage to normal tissues. Therefore, it is important to determine effective heating conditions based on heat transfer. In this study, we analyzed laser–tissue interactions in gold nanoparticle (GNP)-enhanced photothermal therapy based on the theory of heat transfer. The thermal behavior inside tissues during photothermal therapy was analyzed using numerical analysis. The apoptosis ratio was defined by deriving the area having a temperature distribution between 43 °C and 50 °C, which is required for inducing apoptosis. Thermal damage, caused by local heating, was defined using the thermal hazard value. Using this approach, we confirmed that apoptosis can be predicted with respect to tumor size (aspect ratio) and heating conditions (laser intensity and radius) in photothermal therapy with a continuous-wave laser. Finally, we determined the effective apoptosis ratio and thermal hazard value of normal tissue according to tumor size and heating conditions, thereby establishing conditions for inducing maximal levels of cell apoptosis with minimal damage to normal tissue. The optimization conditions proposed in this study can be a gentle and effective treatment option for photothermal therapy.
Investigation of Microstructure and Photocatalytic Performance of a Modified Zeolite Supported Nanocrystal TiO2 Composite
Authors: Liao Gang , He Wei , He Yuming
Published: May 2019

A modified zeolite/TiO2 composite (MZTC) was prepared through a method of saturated infiltration and synthesis in situ. The crystalline phase, micromorphology, elementary composition, specific surface area, pore size distribution, chemical bond and band gap variation of the products were characterized by X-ray diffraction (XRD), scanning electron microscopy (SEM), energy dispersive spectroscopy (EDS), BET specific surface area and pore size distribution analysis (BET), Fourier transform infrared spectroscopy (FTIR) and UV–vis diffuse reflectance spectroscopy (UV-vis DRS), respectively. The microscopic characterization results showed that TiO2 was homogeneously dispersed in the structure of zeolite at the nanoscale range, and a strong chemical bond was established between TiO2 and zeolite. The photocatalytic performance of MZTC was evaluated by studying the degradation rate of methylene blue (MB) dye in aqueous solution under UV-light irradiation. The results of the degradation experiment showed that the MB degradation rate of MZTC-2.5 was the highest, reaching 93.6%, which was 2.4 times higher than hydrolysis TiO2 powder (HTOP) containing the same mass of pure TiO2. The MB degradation rate of MZTC-2.5 still maintained 86.5% after five tests, suggesting the excellent recyclability of MZTC-2.5. The possible mechanism of MB degradation was also discussed.
Improved Oxygen Supply to Multicellular Spheroids Using A Gas-permeable Plate and Embedded Hydrogel Beads
Authors: Mihara Hirotaka , Kugawa Mai , Sayo Kanae , Tao Fumiya , Shinohara Marie , Nishikawa Masaki , Sakai Yasuyuki , Akama Takeshi , Kojima Nobuhiko
Published: May 2019

Culture systems for three-dimensional tissues, such as multicellular spheroids, are indispensable for high-throughput screening of primary or patient-derived xenograft (PDX)-expanded cancer tissues. Oxygen supply to the center of such spheroids is particularly critical for maintaining cellular functions as well as avoiding the development of a necrotic core. In this study, we evaluated two methods to enhance oxygen supply: (1) using a culture plate with a gas-permeable polydimethylsiloxane (PDMS) membrane on the bottom, and; (2) embedding hydrogel beads in the spheroids. Culturing spheroids on PDMS increased cell growth and affected glucose/lactate metabolism and CYP3A4 mRNA expression and subsequent enzyme activity. The spheroids, comprised of 5000 Hep G2 cells and 5000 20 µm-diameter hydrogel beads, did not develop a necrotic core for nine days when cultured on a gas-permeable sheet. In contrast, central necrosis in spheroids lacking hydrogel beads was observed after day 3 of culture, even when using PDMS. These results indicate that the combination of gas-permeable culture equipment and embedded hydrogel beads improves culture 3D spheroids produced from primary or PDX-expanded tumor cells.
Oxytocin Suppresses Inflammatory Responses Induced by Lipopolysaccharide through Inhibition of the eIF-2α–ATF4 Pathway in Mouse Microglia
Authors: Inoue Takayuki , Yamakage Hajime , Tanaka Masashi , Kusakabe Toru , Shimatsu Akira , Satoh-Asahara Noriko
Published: May 2019

Microglia maintain brain homeostasis and modulate neuroinflammation and are implicated in the pathogenesis of various neurological diseases such as Alzheimer’s disease. In this study, we found that in lipopolysaccharide (LPS)-stimulated microglia, the endoplasmic reticulum (ER) stress-related eIF-2α–ATF4 pathway plays significant roles in TNF-α and IL-6 production, as well as in the inflammasome-mediated production of IL-1β. Furthermore, our analysis revealed that oxytocin (OT), a nonapeptide synthesized in the hypothalamus, suppressed the production of these proinflammatory cytokines by inhibiting activation of the eIF-2α–ATF4 pathway. Our findings therefore suggest a novel anti-inflammatory axis of OT in activated microglia, which would be helpful for developing the novel effective strategies for regulating microglia-associated neuroinflammation.
Superspreading on Hydrophobic Substrates: Effect of Glycerol Additive
Authors: Kovalchuk Nina M. , Dunn Jacques , Davies Jack , Simmons Mark J. H.
Published: May 2019

The spreading of solutions of three trisiloxane surfactants on two hydrophobic substrates, polyethylene and polyvinylidenefluoride, was studied with the addition of 0–40 mass % of glycerol. It was found that all the surfactant solutions spread faster than silicone oil of the same viscosity, confirming the existence of a mechanism which accelerates the spreading of the surfactant solutions. For the non-superspreading surfactant, BT-233, addition of glycerol improved the spreading performance on polyvinylidenefluoride and resulted in a transition from partial to complete wetting on polyethylene. The fastest spreading was observed for BT-233 at a concentration of 2.5 g/L, independent of glycerol content. For the superspreading surfactants, BT-240 and BT-278, the concentration at which the fastest spreading occurs systematically increased with concentration of glycerol on both substrates from 1.25 g/L for solutions in water to 10 g/L for solutions in 40% glycerol/water mixture. Thus, the surfactant equilibration rate (and therefore formation of surface tension gradients) and Marangoni flow are important components of a superspreading mechanism. De-wetting of the solutions containing glycerol, once spread on the substrates, resulted in the formation of circular drop patterns. This is in contrast to the solely aqueous solutions where the spread film shrank due to evaporation, without any visible traces being left behind.
Effects of Land Cover Pattern Along Urban-Rural Gradient on Bird Diversity in Wetlands
Authors: Mao Qian , Liao Chencan , Wu Zhaolu , Guan Wenbo , Yang Wenda , Tang Yuqin , Wu Gang
Published: May 2019

Wetlands play an important role in the feeding, breeding, and lives of birds. However, available habitats for bird species are changing due to intensifying human activity, especially in the context of China’s mass urbanization. Urban sprawl has taken over the wetlands along the lakes in the past decades, which places tremendous pressure on wetland ecosystems and, therefore, on bird communities. However, the ways urban land cover pattern along the urban-rural gradient affects bird communities is still unclear. To investigate the influence of land cover pattern on the α and β diversity of birds in the urban-rural gradient we chose 31 sites distributed within the wetlands around the Dianchi Lake in Yunnan, China. We calculated the species richness to indicate α diversity and used the Morisita–Horn index to indicate β diversity. Meanwhile, we assessed the land cover pattern of each site by measuring the proportion of emergent plants, floating plants, submerged plants, ponds, forests, lawns, roads, agricultural lands and built lands in a quadrat of 1 square kilometer. Simple linear regressions, model selection, and an averaging approach based on corrected Akaike information criterion (AICc) were used to test the effects of land cover pattern on bird diversity. Using one-way ANOVA and Tukey’s HSD (honestly significant difference) test, we compared the difference between α and β diversity, respectively, along the urban-rural gradient. Based on our analyses, urban and suburban wetland birds were significantly homogeneous. The community structure in rural wetlands, however, was significantly different from that of the suburban and urban areas. According to our research, the land cover patterns that influenced bird species richness were the built lands acreage, submerged plants acreage, ponds acreage, and the edge density of emergent plants. Meanwhile, of these variables, the built lands acreage, ponds acreage and edge density of emergent plants were significantly different in urban, suburban, and rural wetlands. Therefore, to maintain high biodiversity in wetlands affected by urbanization, we must pay more attention to the land cover patterns.
Positional Precision Analysis of Orthomosaics Derived from Drone Captured Aerial Imagery
Authors: Hung I-Kuai , Unger Daniel , Kulhavy David , Zhang Yanli
Published: May 2019

The advancement of drones has revolutionized the production of aerial imagery. Using a drone with its associated flight control and image processing applications, a high resolution orthorectified mosaic from multiple individual aerial images can be produced within just a few hours. However, the positional precision and accuracy of any orthomosaic produced should not be overlooked. In this project, we flew a DJI Phantom drone once a month over a seven-month period over Oak Grove Cemetery in Nacogdoches, Texas, USA resulting in seven orthomosaics of the same location. We identified 30 ground control points (GCPs) based on permanent features in the cemetery and recorded the geographic coordinates of each GCP on each of the seven orthomosaics. Analyzing the cluster of each GCP containing seven coincident positions depicts the positional precision of the orthomosaics. Our analysis is an attempt to answer the fundamental question, “Are we obtaining the same geographic coordinates for the same feature found on every aerial image mosaic captured by a drone over time?” The results showed that the positional precision was higher at the center of the orthomosaic compared to the edge areas. In addition, the positional precision was lower parallel to the direction of the drone flight.
Experimental Investigation of Ash Deposit Behavior during Co-Combustion of Bituminous Coal with Wood Pellets and Empty Fruit Bunches
Authors: Jeong Tae-Yong , Sh Lkhagvadorj , Kim Jong-Ho , Lee Byoung-Hwa , Jeon Chung-Hwan
Published: May 2019

In Korea, oil-palm empty fruit bunches (EFBs), which are byproducts of the crude palm-oil milling process, are among the most promising potential energy sources for power plants. However, the slagging and fouling characteristics of EFBs during combustion have not yet been fully studied. Accordingly, in this study, we investigated the fundamental ash behavior of EFBs in comparison to that of wood pellets (WPs) using a thermomechanical analyzer (TMA) and a drop-tube furnace (DTF). Ash melting and the deposition of ash particles were investigated with traditional prediction indices at several biomass blending ratios. The results demonstrated that, as the ratio of WPs to EFBs increases, the melting temperature decreases and the slagging propensity increases because of the increased biomass alkali content. Moreover, the penetration derived using the TMA shows a higher melting peak at which rapid melting occurs, and the melting temperature distribution is decreased with increased biomass blending. Conversely, the DTF results show different phenomena for ash deposition under the same blending conditions. Blend ratios approaching 10% WP and 15% EFB result in gradual decreases in ash deposition tendencies because of the lower ash contents of the co-combusted mass compared to that of the single coal ash. Further biomass addition increases ash deposition, which is attributable to ash agglomeration from the biomass. Thus, this study demonstrates that blending ratios of 10% WP and 15% EFB provide optimal conditions for co-combustion with the selected bituminous coal. In addition, it is shown that the slagging propensity of EFB is higher than that of WP owing to its ash content and simultaneous agglomeration.
Integrated Techno-Economic Power System Planning of Transmission and Distribution Grids
Authors: Müller Ulf Philipp , Schachler Birgit , Scharf Malte , Bunke Wolf-Dieter , Günther Stephan , Bartels Julian , Pleßmann Guido
Published: May 2019

The energy transition towards renewable and more distributed power production triggers the need for grid and storage expansion on all voltage levels. Today’s power system planning focuses on certain voltage levels or spatial resolutions. In this work we present an open source software tool eGo which is able to optimize grid and storage expansion throughout all voltage levels in a developed top-down approach. Operation and investment costs are minimized by applying a multi-period linear optimal power flow considering the grid infrastructure of the extra-high and high-voltage (380 to 110 kV) level. Hence, the common differentiation of transmission and distribution grid is partly dissolved, integrating the high-voltage level into the optimization problem. Consecutively, optimized curtailment and storage units are allocated in the medium voltage grid in order to lower medium and low voltage grid expansion needs, that are consequently determined. Here, heuristic optimization methods using the non-linear power flow were developed. Applying the tool on future scenarios we derived cost-efficient grid and storage expansion for all voltage levels in Germany. Due to the integrated approach, storage expansion and curtailment can significantly lower grid expansion costs in medium and low voltage grids and at the same time serve the optimal functioning of the overall system. Nevertheless, the cost-reducing effect for the whole of Germany was marginal. Instead, the consideration of realistic, spatially differentiated time series led to substantial overall savings.
Comparative Porosity and Pore Structure Assessment in Shales: Measurement Techniques, Influencing Factors and Implications for Reservoir Characterization
Authors: Yuan Yujie , Rezaee Reza
Published: May 2019

Porosity and pore size distribution (PSD) are essential petrophysical parameters controlling permeability and storage capacity in shale gas reservoirs. Various techniques to assess pore structure have been introduced; nevertheless, discrepancies and inconsistencies exist between each of them. This study compares the porosity and PSD in two different shale formations, i.e., the clay-rich Permian Carynginia Formation in the Perth Basin, Western Australia, and the clay-poor Monterey Formation in San Joaquin Basin, USA. Porosity and PSD have been interpreted based on nuclear magnetic resonance (NMR), low-pressure N2 gas adsorption (LP-N2-GA), mercury intrusion capillary pressure (MICP) and helium expansion porosimetry. The results highlight NMR with the advantage of detecting the full-scaled size of pores that are not accessible by MICP, and the ineffective/closed pores occupied by clay bound water (CBW) that are not approachable by other penetration techniques (e.g., helium expansion, low-pressure gas adsorption and MICP). The NMR porosity is largely discrepant with the helium porosity and the MICP porosity in clay-rich Carynginia shales, but a high consistency is displayed in clay-poor Monterey shales, implying the impact of clay contents on the distinction of shale pore structure interpretations between different measurements. Further, the CBW, which is calculated by subtracting the measured effective porosity from total porosity, presents a good linear correlation with the clay content (R2 = 0.76), implying that our correlated equation is adaptable to estimate the CBW in shale formations with the dominant clay type of illite.
Experimental Study on Temperature Change and Crack Expansion of High Temperature Granite under Different Cooling Shock Treatments
Authors: Shen Yan-Jun , Hou Xin , Yuan Jiang-Qiang , Zhao Chun-Hu
Published: May 2019

It is valuable to observe the influence of different cooling methods on the exploitation of geothermal energy and breaking hard rocks in deep geo-engineering. In this work, the effects of different cooling shock treatments on high temperature granite are discussed. First, perforated 100-mm-side cubic biotite adamellite samples were heated to four targeted temperatures (150 °C, 350 °C, 550 °C, and 750 °C). Then, anti-freeze solutions were compounded to produce the different cooling shock effects (20 °C, 0 °C, and −30 °C) by adjusting the calcium chloride solution concentration, and these anti-freeze solutions were injected rapidly into the holes to reflect the rapid cooling shock of high-temperature granite. Finally, the temperature variations and crack expansions of high-temperature granite under different cooling shock treatments were analyzed and the cooling shock cracking mechanism is discussed briefly. The main results can be summarized as: (1) The high temperature granite exposed to the cooling shock exhibited a "rapid cooling + rapid heating" change during the first 5 min. Due to the cooling shock, the total temperature was significantly lower than the natural cooling until 120 min later. (2) Below 350 °C, the macrocracking effect was not significant, and the sample reflected a certain range of uniform microcracks around the injection hole, while the macrocracks tended to be obvious above 550 °C. Moreover, as the refrigerant temperature decreased, the local distribution characteristics of the macrocracking became more obvious. (3) Based on the analysis of the dynamic heat balance, the undulation and width of the cracks around the heat balance zone were stable, but the numbers and widths of cracks near the hole wall and the side of the sample were visibly increased. This study extends our understanding of the influence of cooling shock on granite cracking.
Indoor Vehicles Geolocalization Using LoRaWAN
Authors: Manzoni Pietro , Calafate Carlos T. , Cano Juan-Carlos , Hernández-Orallo Enrique
Published: May 2019

One of the main drawbacks of Global Navigation Satellite Sytems (GNSS) is that they do not work indoors. When inside, there is often no direct line from the satellite signals to the device and the ultra high frequency (UHF) used is blocked by thick, solid materials such as brick, metal, stone or wood. In this paper, we describe a solution based on the Long Range Wide Area Network (LoRaWAN) technology to geolocalise vehicles indoors. Through estimation of the behaviour of a LoRaWAN channel and using trilateration, the localisation of a vehicle can be obtained within a 20–30 m range. Indoor geolocation for Intelligent Transporation Systems (ITS) can be used to locate vehicles of any type in underground parkings, keep a platoon of trucks in formation or create geo-fences, that is, sending an alert if an object moves outside a defined area, like a bicycle being stolen. Routing of heavy vehicles within an industrial setting is another possibility.
Studying Kenai River Fisheries’ Social-Ecological Drivers Using a Holistic Fisheries Agent-Based Model: Implications for Policy and Adaptive Capacity
Authors: Franklin Maxwell , Cenek Martin , Trammell E. Jamie
Published: May 2019

Alaska’s salmon fisheries are one of the more intensely managed natural resources in the world. The state’s salmon fisheries support recreational, subsistence, and commercial harvest with multiple billions of dollars flowing into the economy, and define the cultural identity of many Alaskans. Fishery management practices rely on historic records to set policies with two goals: to meet salmon escapement quota and to maximize salmon harvest. At the same time, rapid social and ecological changes to the sub-Arctic are already impacting salmon runs and fisheries management. Combined with the inability of fishery managers to test the outcome of proposed policy changes, an understanding of the role social and ecological drivers play in harvest and effort is required. To address the two-forked problem of understanding socio-ecological dynamics and potential policy responses to ecological and social changes, we (1) conducted stakeholder workshops to solicit key system drivers, (2) built an integrated agent based model (ABM) of the system’s socio-ecological dynamics, and (3) tested the impacts of alternative future scenarios of ecological, social, and policy changes on the system’s outcomes. We previously constructed and validated a high-fidelity, data-driven, agent-based model of the Kenai River, Alaska that simulates seasonal harvest of sockeye and Chinook salmon, the fishing activities of the personal use fishery, commercial drift, and set gillnet agents. We study the role of key stakeholder and ecological drivers, using the ABM decision support tool, and their implications for fisheries management policies. Analysis of the scenario based studies found resilience in management of commercial fisheries to changing salmon migration dynamics, a lack of adaptive capacity in recreational (personal use) dipnet users to altered sockeye salmon runs, and the possible utility of introducing management measures in the dipnet fishery to manipulate sockeye escapement levels. These findings represent the usefulness of this type of ABM in assisting fishery managers everywhere in investigating possible future outcomes of different management or ecological scenarios.
Effect of Inclination on Vortex Shedding Frequency Behind a Bent Cylinder: An Experimental Study
Authors: Silva-Leon Jorge , Cioncolini Andrea
Published: May 2019

This paper presents experimental results on the vortex shedding frequency measured behind a bent cylinder. Experiments were conducted in a wind tunnel covering Reynolds numbers between 50 and 500, a range of interest for flow sensing, flow control, and energy harvesting applications. The bent cylinder comprised a vertical leg always oriented at normal incidence with respect to the free-stream flow, and an inclined leg whose inclination was varied during the tests between 90° and 15°. The bent cylinder was oriented in the wind tunnel with the vertical leg upstream and the inclined leg downstream, and the vortex shedding frequency was measured with hot-wire anemometry at several locations behind the inclined leg. The present bent cylinder design improves upon those previously considered by providing a finer control on the upstream boundary condition acting upon the inclined leg, which in the present design is not affected by the yaw angle of the inclined leg. With the exception of free-end effects, only noticeable for certain inclinations and Reynolds number values, inclination effects were surprisingly not observed, and the frequency of vortex shedding measured behind the inclined leg of the bent cylinder was consistent (within a few percent) with the cross-flow vortex shedding frequency at the same flow velocity. The present results corroborate and significantly extend the limited observations on bent cylinders available in the literature, further highlighting the importance of the upstream boundary condition on the vortex shedding process with inclined cylinders.
Show Me More! The Influence of Visibility on Sustainable Food Choices
Authors: Coucke Nicky , Vermeir Iris , Slabbinck Hendrik , Van Kerckhove Anneleen
Published: May 2019

Visual cues are omnipresent in an in-store environment and can enhance the visibility of a product. By using these visual cues, policy makers can design a choice environment to nudge consumers towards more sustainable consumer behavior. In this study, we use a combined nudge of display area size and quantity of displayed products to nudge consumers towards more sustainable meat choices. We performed a field experiment of four weeks in a butchery, located in a supermarket. The size of the display area and quantity of displayed poultry products, serving as the nudging intervention, were increased, whereas these were decreased for less sustainable meat products. In order to evaluate the effectiveness of our nudging intervention, we also collected data from a control store and performed a pre-and post-intervention measurement. We kept records of the sales data of the sold meat (amount of weight & revenue). When conducting a three-way ANOVA and post hoc contrast tests, we found that the sales of poultry increased during the nudging intervention, but did not decrease for less sustainable meat products. When removing the nudge again, the sales of poultry decreased again significantly in the experimental store. Changing the size of display area and the amount of products displayed in this display area created a shift in the consumers’ purchase behavior of meat.
On the Population Dynamics of Junk: A Review on the Population Genomics of Transposable Elements
Authors: Bourgeois Yann , Boissinot Stéphane
Published: May 2019

Transposable elements (TEs) play an important role in shaping genomic organization and structure, and may cause dramatic changes in phenotypes. Despite the genetic load they may impose on their host and their importance in microevolutionary processes such as adaptation and speciation, the number of population genetics studies focused on TEs has been rather limited so far compared to single nucleotide polymorphisms (SNPs). Here, we review the current knowledge about the dynamics of transposable elements at recent evolutionary time scales, and discuss the mechanisms that condition their abundance and frequency. We first discuss non-adaptive mechanisms such as purifying selection and the variable rates of transposition and elimination, and then focus on positive and balancing selection, to finally conclude on the potential role of TEs in causing genomic incompatibilities and eventually speciation. We also suggest possible ways to better model TEs dynamics in a population genomics context by incorporating recent advances in TEs into the rich information provided by SNPs about the demography, selection, and intrinsic properties of genomes.
Temporal Analysis of the Microbial Community from the Crystallizer Ponds in Cabo Rojo, Puerto Rico, Using Metagenomics
Authors: Couto-Rodríguez Ricardo L. , Montalvo-Rodríguez Rafael
Published: May 2019

The Cabo Rojo solar salterns are a hypersaline environment located in a tropical climate, where conditions remain stable throughout the year. These conditions can favor the establishment of steady microbial communities. Little is known about the microbial composition that thrives in hypersaline environments in the tropics. The main goal of this study was to assess the microbial diversity present in the crystallizer ponds of Cabo Rojo, in terms of structure and metabolic processes across time using metagenomic techniques. Three samplings (December 2014, March and July 2016) were carried out, where water samples (50 L each) were filtered through a Millipore pressurized filtering system. DNA was subsequently extracted using physical–chemical methods and sequenced using paired end Illumina technologies. The sequencing effort produced three paired end libraries with a total of 111,816,040 reads, that were subsequently assembled into three metagenomes. Out of the phyla detected, the microbial diversity was dominated in all three samples by Euryarchaeota, followed by Bacteroidetes and Proteobacteria. However, sample MFF1 (for Muestreo Final Fraternidad) exhibited a higher diversity, with 12 prokaryotic phyla detected at 34% NaCl (w/v), when compared to samples MFF2 and MFF3, which only exhibited three phyla. Precipitation events might be one of the contributing factors to the change in the microbial community composition through time. Diversity at genus level revealed a more stable community structure, with an overwhelming dominance of the square archaeon Haloquadratum in the three metagenomes. Furthermore, functional annotation was carried out in order to detect genes related to metabolic processes, such as carbon, nitrogen, and sulfur cycles. The presence of gene sequences related to nitrogen fixation, ammonia oxidation, sulfate reduction, sulfur oxidation, and phosphate solubilization were detected. Through binning methods, four putative novel genomes were obtained, including a possible novel genus belonging to the Bacteroidetes and possible new species for the genera Natronomonas, Halomicrobium, and Haloquadratum. Using a metagenomic approach, a 3-year study has been performed in a Caribbean hypersaline environment. When compared to other salterns around the world, the Cabo Rojo salterns harbor a similar community composition, which is stable through time. Moreover, an analysis of gene composition highlights the importance of the microbial community in the biogeochemical cycles at hypersaline environments.
Validation of the Block Walk Method for Assessing Physical Activity occurring on Sidewalks/Streets
Authors: Suminski Richard R. , Dominick Gregory M. , Plautz Eric
Published: May 2019

The block walk method (BWM) is one of the more common approaches for assessing physical activity (PA) performed on sidewalks/streets; however, it is non-technical, labor-intensive, and lacks validation. This study aimed to validate the BWM and examine the potential for using a wearable video device (WVD) to assess PA occurring on sidewalks/streets. Trained observers (one wearing and one not wearing the WVD) walked together and performed the BWM according to a previously developed protocol along routes in low, medium, and high walkable areas. Two experts then reviewed the videos. A total of 1150 (traditional) and 1087 (video review) individuals were observed during 900 min of observation. When larger numbers of individuals were observed, the traditional method overestimated the overall number of people as well as those walking and sitting/standing, while underestimating the number of runners. Valid estimates of PA occurring on sidewalks/streets can be obtained by the traditional BWM in low and medium walkability areas and/or with non-common activities (cycling); however, its validity is questionable when sidewalks/streets use volume is high. The use of WVDs in PA assessment has the potential to establish new levels of accuracy, reduce resource requirements, and open up the possibility for retrospective analysis.
Microbial Community Structure in the Sediments and Its Relation to Environmental Factors in Eutrophicated Sancha Lake
Authors: Li Yong , Zhang Jiejie , Zhang Jianqiang , Xu Wenlai , Mou Zishen
Published: May 2019

To study the microbial community structure in sediments and its relation to eutrophication environment factors, the sediments and the overlying water of Sancha Lake were collected in the four seasons. MiSeq high-throughput sequencing was conducted for the V3–V4 hypervariable regions of the 16S rRNA gene and was used to analyze the microbial community structure in sediments. Pearson correlation and redundancy analysis (RDA) were conducted to determine the relation between microbial populations and eutrophic factors. The results demonstrated four main patterns: (1) in the 36 samples that were collected, the classification annotation suggested 64 phyla, 259 classes, 476 orders, 759 families, and 9325 OTUs; (2) The diversity indices were ordered according to their values as with summer > winter > autumn > spring; (3) The microbial populations in the four seasons belonged to two distinct characteristic groups; (4) pH, dissolved oxygen (DO), total phosphorus (TP), and total nitrogen (TN) had significant effects on the community composition and structure, which further affected the dissolved total phosphorus (DTP) significantly. The present study demonstrates that the microbial communities in Sancha Lake sediments are highly diverse, their compositions and distributions are significantly different between spring and non-spring, and Actinobacteria and Cyanobacteria may be the key populations or indicator organisms for eutrophication.
Classification of Fatigued and Drunk Driving Based on Decision Tree Methods: A Simulator Study
Authors: Yao Ying , Zhao Xiaohua , Du Hongji , Zhang Yunlong , Zhang Guohui , Rong Jian
Published: May 2019

It is a commonly known fact that both alcohol and fatigue impair driving performance. Therefore, the identification of fatigue and drinking status is very important. In this study, each of the 22 participants finished five driving tests in total. The control condition, serving as the benchmark in the five driving tests, refers to alert driving. The other four test conditions include driving with three blood alcohol content (BAC) levels (0.02%, 0.05%, and 0.08%) and driving in a fatigued state. The driving scenario included straight and curved roads. The straight roads connected the curved ones with radii of 200 m, 500 m, and 800 m with two turning directions (left and right). Driving performance indicators such as the average and standard deviation of longitudinal speed and lane position were selected to identify drunk driving and fatigued driving. In the process of identification, road geometry (straight segments, radius, and direction of curves) was also taken into account. Alert vs. abnormal and fatigued vs. drunk driving with various BAC levels were analyzed separately using the Classification and Regression Tree (CART) model, and the significance of the variables on the binary response variable was determined. The results showed that the decision tree could be used to distinguish normal driving from abnormal driving, fatigued driving, and drunk driving based on the indexes of vehicle speed and lane position at curves with different radii. The overall accuracy of classification of “alert” and “abnormal” driving was 90.9%, and that of “fatigued” and “drunk” driving was 94.4%. The accuracy was relatively low in identifying different BAC degrees. This experiment is designed to provide a reference for detecting dangerous driving states.
Chinese Public Response to Occupational Safety and Health Problems—A Study Based on Psychological Distance
Authors: Li Shanshan , Chen Hong , Huang Xinru , Hou Congmei , Chen Feiyu
Published: May 2019

Background: The effective governance of occupational safety and health problems is inseparable from public participation and response. Methods: Based on the perspective of psychological distance, this paper adopted a quadratic response surface regression analysis method to investigate cognitive, emotional, expected and behavioral distances to occupational safety and health topics and their corresponding responses. Results: As demonstrated by the data statistics and response surface regression analysis results for 2386 valid samples, the relatively close psychological distance dimensions of the public with regard to occupational safety and health problems indicated the high endogenous tendency of the public to pay attention to occupational safety and health problems. The consistency between public cognitive and emotional distance with regard to occupational safety and health presented a “progressive decrease” in response towards behavioral distance, whereas the consistency between cognitive and expected distance reflected “convex” changes towards behavioral distance. Finally, the consistency between emotional and expected distance generally presented a “progressive increase” response towards behavioral distance. Conclusions: This research provides information regarding the public awareness of and response to occupational safety and health issues and how to promote occupational safety and health issues in order to improve them.
Sex Hormone Receptor Signals in Human Malignancies
Authors: Miyamoto Hiroshi
Published: May 2019

Sex steroids, including androgens, estrogens, and progestogens, are known to have widespread physiological actions beyond the reproductive system via binding to the sex hormone receptors, members of the nuclear receptor superfamily that function as ligand-inducible transcription factors [...]
IDH1R132H Causes Resistance to HDAC Inhibitors by Increasing NANOG in Glioblastoma Cells
Authors: Kim Geon-Hee , Choi So Young , Oh Taek-In , Kan Sang-Yeon , Kang Hyeji , Lee Sujin , Oh Taerim , Ko Hyun Myung , Lim Ji-Hong
Published: May 2019

The R132H mutation in isocitrate dehydrogenase 1 (IDH1R132H) is commonly observed and associated with better survival in glioblastoma multiforme (GBM), a malignant brain tumor. However, the functional role of IDH1R132H as a molecular target for GBM treatment is not completely understood. In this study, we found that the overexpression of IDH1R132H suppresses cell growth, cell cycle progression and motility in U87MG glioblastoma cells. Based on cell viability and apoptosis assays, we found that IDH1R132H-overexpressing U87MG and U373MG cells are resistant to the anti-cancer effect of histone deacetylase inhibitors (HDACi), such as trichostatin A (TSA), vorinostat (SAHA), and valproic acid. Octyl-(R)-2-hydroxyglutarate (Octyl-2HG), which is a membrane-permeable precursor form of the oncometabolite (R)-2-hydroxyglutarate (R-2HG) produced in IDH1-mutant tumor cells, significantly increased HDACi resistance in glioblastoma cells. Mechanistically, IDH1R132H and Octyl-2HG enhanced the promoter activation of NANOG via increased H3K4-3Me, consequently increasing NANOG mRNA and protein expression. Indeed, HDACi resistance was attenuated in IDH1R132H-expressing glioblastoma cells by the suppression of NANOG using small interfering RNAs. Furthermore, we found that AGI-5198, a selective inhibitor of IDH1R132H, significantly attenuates HDACi resistance and NANOG expression IDH1R132H-expressing glioblastoma cells. These results suggested that IDH1R132H is a potential molecular target for HDACi-based therapy for GBM.
Artemisinin Attenuated Hydrogen Peroxide (H2O2)-Induced Oxidative Injury in SH-SY5Y and Hippocampal Neurons via the Activation of AMPK Pathway
Authors: Zhao Xia , Fang Jiankang , Li Shuai , Gaur Uma , Xing Xingan , Wang Huan , Zheng Wenhua
Published: May 2019

Oxidative stress is believed to be one of the main causes of neurodegenerative diseases such as Alzheimer’s disease (AD). The pathogenesis of AD is still not elucidated clearly but oxidative stress is one of the key hypotheses. Here, we found that artemisinin, an anti-malarial Chinese medicine, possesses neuroprotective effects. However, the antioxidative effects of artemisinin remain to be explored. In this study, we found that artemisinin rescued SH-SY5Y and hippocampal neuronal cells from hydrogen peroxide (H2O2)-induced cell death at clinically relevant doses in a concentration-dependent manner. Further studies showed that artemisinin significantly restored the nuclear morphology, improved the abnormal changes in intracellular reactive oxygen species (ROS), reduced the mitochondrial membrane potential, and caspase-3 activation, thereby attenuating apoptosis. Artemisinin also stimulated the phosphorylation of the adenosine monophosphate -activated protein kinase (AMPK) pathway in SH-SY5Y cells in a time- and concentration-dependent manner. Inhibition of the AMPK pathway attenuated the protective effect of artemisinin. These data put together suggested that artemisinin has the potential to protect neuronal cells. Similar results were obtained in primary cultured hippocampal neurons. Cumulatively, these results indicated that artemisinin protected neuronal cells from oxidative damage, at least in part through the activation of AMPK. Our findings support the role of artemisinin as a potential therapeutic agent for neurodegenerative diseases.
Cytochrome P450 Monooxygenase CYP139 Family Involved in the Synthesis of Secondary Metabolites in 824 Mycobacterial Species
Authors: Syed Puleng Rosinah , Chen Wanping , Nelson David R. , Kappo Abidemi Paul , Yu Jae-Hyuk , Karpoormath Rajshekhar , Syed Khajamohiddin
Published: May 2019

Tuberculosis (TB) is one of the top infectious diseases causing numerous human deaths in the world. Despite enormous efforts, the physiology of the causative agent, Mycobacterium tuberculosis, is poorly understood. To contribute to better understanding the physiological capacity of these microbes, we have carried out extensive in silico analyses of the 1111 mycobacterial species genomes focusing on revealing the role of the orphan cytochrome P450 monooxygenase (CYP) CYP139 family. We have found that CYP139 members are present in 894 species belonging to three mycobacterial groups: M. tuberculosis complex (850-species), Mycobacterium avium complex (34-species), and non-tuberculosis mycobacteria (10-species), with all CYP139 members belonging to the subfamily “A”. CYP139 members have unique amino acid patterns at the CXG motif. Amino acid conservation analysis placed this family in the 8th among CYP families belonging to different biological domains and kingdoms. Biosynthetic gene cluster analyses have revealed that 92% of CYP139As might be associated with producing different secondary metabolites. Such enhanced secondary metabolic potentials with the involvement of CYP139A members might have provided mycobacterial species with advantageous traits in diverse niches competing with other microbial or viral agents, and might help these microbes infect hosts by interfering with the hosts’ metabolism and immune system.
Mesenchymal Stem Cells for Spinal Cord Injury: Current Options, Limitations, and Future of Cell Therapy
Authors: Cofano Fabio , Boido Marina , Monticelli Matteo , Zenga Francesco , Ducati Alessandro , Vercelli Alessandro , Garbossa Diego
Published: May 2019

Spinal cord injury (SCI) constitutes an inestimable public health issue. The most crucial phase in the pathophysiological process of SCI concerns the well-known secondary injury, which is the uncontrolled and destructive cascade occurring later with aberrant molecular signaling, inflammation, vascular changes, and secondary cellular dysfunctions. The use of mesenchymal stem cells (MSCs) represents one of the most important and promising tested strategies. Their appeal, among the other sources and types of stem cells, increased because of their ease of isolation/preservation and their properties. Nevertheless, encouraging promise from preclinical studies was followed by weak and conflicting results in clinical trials. In this review, the therapeutic role of MSCs is discussed, together with their properties, application, limitations, and future perspectives.
Performance Comparing and Analysis for Slot Allocation Model
Authors: Ye ZhiJian , Li YanWei , Bai JingTing , Zheng XinXin
Published: May 2019

The purpose of this study is to ascertain whether implementation difficulty can be used in a slot allocation model as a new mechanism for slightly weakening grandfather rights; according to which, a linear integer programming model is designed to compare and analyze displacement, implementation difficulty and priority with different weights. Test results show that the implementation difficulty can be significantly reduced without causing excessive displacement and disruption of existing priorities, by weight setting while declared capacity is cleared. In addition to this, whether the movements are listed in order of descending priority or not have great impact on displacement and implementation difficulty within the slot allocation model. Capacity is surely a key factor affecting displacement and implementation difficulties. This study contributes to propose a new mechanism for slightly weakening grandfather right, which can help decision makers to upgrade slot allocation policies.