bluuebunny/crossref_metadata_2025 huggingface dataset:
A Politics of Intensity: Some Aspects of Acceleration in Simondon and Deleuze
Authors: Hui Yuk , Morelle Louis
Published: November 2017

This article aims to clarify the question of speed and intensity in the thoughts of Simondon and Deleuze, in order to shed light on the recent debates regarding accelerationism and its politics. Instead of starting with speed, we propose to look into the notion of intensity and how it serves as a new ontological ground in Simondon's and Deleuze's philosophy and politics. Simondon mobilises the concept of intensity to criticise hylomorphism and substantialism; Deleuze, taking up Simondon's conceptual framework, repurposes it for his ontology of difference, elevating intensity to the rank of generic concept of being, thus bypassing notions of negativity and individuals as base, in favour of the productive and universal character of difference. In Deleuze, the correlation between intensity and speed is fraught with ambiguities, with each term threatening to subsume the other; this rampant tension becomes explicitly antagonistic when taken up by the diverse strands of contemporary accelerationism, resulting in two extreme cases in the posthuman discourse: either a pure becoming, achieved through destruction, or through abstraction that does away with intensity altogether; or an intensity without movement or speed, that remains a pure jouissance. Both cases appear to stumble over the problem of individuation, if not disindividuation. Hence, we wish to raise the following question: in what way can one think of an accelerationist politics with intensity, or an intensive politics without the fetishisation of speed? We consider this question central to the interrogation of the limits of acceleration and posthuman discourse, thus requiring a new philosophical thought on intensity and speed.
The Force that Is but Does Not Act: Ruyer, Leibniz and Deleuze
Authors: Bogue Ronald
Published: November 2017

In What Is Philosophy?, Deleuze and Guattari attribute to Leibniz and Raymond Ruyer a vitalism of ‘a force that is but does not act’. This is a judicious characterisation of Leibniz's vitalism, but not Ruyer's. In The Fold, Deleuze presents Ruyer as a disciple of Leibniz, but if Leibniz's monads have no doors or windows, Ruyer's are nothing but doors and windows, nothing but liaisons actively forming themselves. For Ruyer, there is only one force, a consciousness-force, matter-form in sustained, non-localisable self-formation. In Deleuze's reading of Leibniz's concept of the vinculum substantiale, Deleuze comes close to presenting a notion of force like that of Ruyer's, in that the vinculum inextricably interfolds monads and bodies, but ultimately the separation of the forces of monads from those of bodies prevails in a fashion incompatible with Ruyer's conception of force. Deleuze and Guattari make use of Ruyer's understanding of consciousness and the brain as the auto-overflight of an absolute surface in their concluding remarks on philosophy and the arts in What Is Philosophy?, but they depart from Ruyer in their characterisation of the relation of force to those two domains, ultimately because they reject Ruyer's advocacy of a universal, goal-directed finalism.
Forum: The Cantos and PedagogyThe Cantos and Pedagogy
Authors: Kindellan Michael , Kotin Joshua
Published: November 2017

The argument of Kindellan and Kotin's essay, ‘The Cantos and Pedagogy’, is that, contrary to the prevailing critical view, The Cantos is not a pedagogical poem. More specifically, they argue that the poem rejects the idea that a methodological approach to knowledge is desirable. The Cantos is obsessed with who we are, not what we can learn. Put otherwise, the horizon of Pound's concern in The Cantos is ontological, not epistemological. Charles Altieri, Alan Golding, Marjorie Perloff, and Steven G. Yao and Michael Coyle challenge this claim. The range of their replies demonstrates the breadth of the problem at hand. They all construe The Cantos as embodying an alternative pedagogy rather than, as Kindellan and Kotin argue, an alternative to pedagogy.
Snake-Like Robot with Fusion Gait for High Environmental Adaptability: Design, Modeling, and Experiment
Authors: Wang Kundong , Gao Wencan , Ma Shugen
Published: November 2017

A snake changes its gait to adapt to different environments. A snake-like robot that is able to perform as many or more gaits than a real-life snake has the potential to successfully adapt to a range of environments, similar to a real-life snake. However, only a few mechanisms in the current snake-like framework can perform common gaits. In this paper, a novel snake-like robot is developed to resolve this problem. A multi-gait is established and used as a reference for the articulation design. A non-snake-like mechanism with linear articulation is combined with the classical swing joint. A prototype is designed and constructed for verification and analysis. Two basic main gaits, namely, serpentine and rectilinear locomotion, are fused, and a novel obstacle-aided locomotion based on rectilinear motion is developed. The experiment demonstrates that the robot can generate all of the expected gaits with high movement efficiency.
The Screening Characteristics of the Dense Astrophysical Plasmas: The Three-Component Systems
Authors: Ignjatović Ljubinko , Srećković Vladimir , Dimitrijević Milan
Published: November 2017

As the object of investigation, astrophysical fully ionized electron-ion plasma is chosen with positively charged ions of two different kinds, including the plasmas of higher non-ideality. The direct aim of this work is to develop, within the problem of finding the mean potential energy of the charged particle for such plasma, a new model, self-consistent method of describing the electrostatic screening. Within the presented method, such extremely significant phenomena as the electron-ion and ion-ion correlations are included in the used model. We wish to draw attention to the fact that the developed method is suitable for astrophysical applications. Here we keep in mind that in outer shells of stars, the physical conditions change from those that correspond to the rare, practically ideal plasma, to those that correspond to extremely dense non-ideal plasma.
In-Situ Self-Assembly of Zinc/Adenine Hybrid Nanomaterials for Enzyme Immobilization
Authors: Liang Hao , Sun Shanshan , Zhou Yan , Liu Yanhui
Published: November 2017

In this study, a one-step and facile immobilization of enzymes by self-assembly of zinc ions and adenine in aqueous solution with mild conditions was reported. Enzymes, such as glucose oxidase (GOx) and horseradish peroxidase (HRP), could be efficiently encapsulated in Zn/adenine coordination polymers (CPs) with high loading capacity over 90%. When the enzyme was immobilized by CPs, it displayed high catalytic efficiency, high selectivity and enhanced stability due to the protecting effect of the rigid framework. As a result, the relative activity of Zn/adenine nano-CP-immobilized GOx increased by 1.5-fold at pH 3 and 4-fold at 70 to 90 °C, compared to free GOx. The immobilized GOx had excellent reusability (more than 90% relative activity after being reused eight times). Furthermore, the use of this system as a glucose biosensor was also demonstrated by co-immobilization of two enzymes, detecting glucose down to 1.84 µM with excellent selectivity. The above work indicated that in-situ self-assembly of Zn/adenine CPs could be a simple and efficient method for biocatalyst immobilization.
Brief Review of Epitaxy and Emission Properties of GaSb and Related Semiconductors
Authors: Niu Shouzhu , Wei Zhipeng , Fang Xuan , Wang Dengkui , Wang Xinwei , Gao Xian , Chen Rui
Published: November 2017

Groups III–V semiconductors have received a great deal of attention because of their potential advantages for use in optoelectronic and electronic applications. Gallium antimonide (GaSb) and GaSb-related semiconductors, which exhibit high carrier mobility and a narrow band gap (0.725 eV at 300 K), have been recognized as suitable candidates for high-performance optoelectronics in the mid-infrared range. However, the performances of the resulting devices are strongly dependent on the structural and emission properties of the materials. Enhancement of the crystal quality, adjustment of the alloy components, and improvement of the emission properties have therefore become the focus of research efforts toward GaSb semiconductors. Molecular beam epitaxy (MBE) is suitable for the large-scale production of GaSb, especially for high crystal quality and beneficial optical properties. We review the recent progress in the epitaxy of GaSb materials, including films and nanostructures composed of GaSb-related alloys and compounds. The emission properties of these materials and their relationships to the alloy components and material structures are also discussed. Specific examples are included to provide insight on the common general physical and optical properties and parameters involved in the synergistic epitaxy processes. In addition, the further directions for the epitaxy of GaSb materials are forecasted.
Single-Cell Reprogramming in Mouse Embryo Development through a Critical Transition State
Authors: Tsuchiya Masa , Giuliani Alessandro , Yoshikawa Kenichi
Published: November 2017

Our previous work on the temporal development of the genome-expression profile in single-cell early mouse embryo indicated that reprogramming occurs via a critical transition state, where the critical-regulation pattern of the zygote state disappears. In this report, we unveil the detailed mechanism of how the dynamic interaction of thermodynamic states (critical states) enables the genome system to pass through the critical transition state to achieve genome reprogramming right after the late 2-cell state. Self-organized criticality (SOC) control of overall expression provides a snapshot of self-organization and explains the coexistence of critical states at a certain experimental time point. The time-development of self-organization is dynamically modulated by changes in expression flux between critical states through the cell nucleus milieu, where sequential global perturbations involving activation-inhibition of multiple critical states occur from the middle 2-cell to the 4-cell state. Two cyclic fluxes act as feedback flow and generate critical-state coherent oscillatory dynamics. Dynamic perturbation of these cyclic flows due to vivid activation of the ensemble of low-variance expression (sub-critical state) genes allows the genome system to overcome a transition state during reprogramming. Our findings imply that a universal mechanism of long-term global RNA oscillation underlies autonomous SOC control, and the critical gene ensemble at a critical point (CP) drives genome reprogramming. Identification of the corresponding molecular players will be essential for understanding single-cell reprogramming.
The Mean Field Theories of Magnetism and Turbulence
Authors: Egolf Peter W. , Hutter Kolumban
Published: November 2017

In the last few decades a series of experiments have revealed that turbulence is a cooperative and critical phenomenon showing a continuous phase change with the critical Reynolds number at its onset. However, the applications of phase transition models, such as the Mean Field Theory (MFT), the Heisenberg model, the XY model, etc. to turbulence, have not been realized so far. Now, in this article, a successful analogy to magnetism is reported, and it is shown that a Mean Field Theory of Turbulence (MFTT) can be built that reveals new results. In analogy to compressibility in fluids and susceptibility in magnetic materials, the vorticibility (the authors of this article propose this new name in analogy to response functions, derived and given names in other fields) of a turbulent flowing fluid is revealed, which is identical to the relative turbulence intensity. By analogy to magnetism, in a natural manner, the Curie Law of Turbulence was discovered. It is clear that the MFTT is a theory describing equilibrium flow systems, whereas for a long time it is known that turbulence is a highly non-equilibrium phenomenon. Nonetheless, as a starting point for the development of thermodynamic models of turbulence, the presented MFTT is very useful to gain physical insight, just as Kraichnan’s turbulent energy spectra of 2-D and 3-D turbulence are, which were developed with equilibrium Boltzmann-Gibbs thermodynamics and only recently have been generalized and adapted to non-equilibrium and intermittent turbulent flow fields.
Analysis of the Optimum Solar Collector Installation Angle from the Viewpoint of Energy Use Patterns
Authors: Jun Yong-Joon , Song Young-Hak , Kim Dae-Young , Park Kyung-Soon
Published: November 2017

While solar energy is the most efficient energy source for heating, many problems can occur when the capacity selection of the system is wrong: a definite possibility in a place where the seasonal climate change is large, such as Korea. For example, if a system is designed for use in the winter, the system will be overloaded if it does not discard the energy it collects during the summer months. Conversely, if the capacity of the system is in accordance with the summer season demand, it will be necessary to input supplementary energy in the winter season. Solar energy also depends on the altitude and azimuth of the sun, and the amount of energy collected on the slope depends on the latitude of the area in which it is installed. Therefore, this study is divided into investigating the collection energy, heat radiation energy and auxiliary energy input according to the installation angle of the solar collector and the capacity of the heat storage tank according to latitude of the installation area. To this end, we formulate appropriate energy equations. Simulation coding was performed to track the temperature changes in each part. Additionally, we considered the amount of solar energy that can be effectively used, not simply the amount of solar energy collected, by substituting the actual hot water usage schedule.
Optimization of Bioethanol In Silico Production Process in a Fed-Batch Bioreactor Using Non-Linear Model Predictive Control and Evolutionary Computation Techniques
Authors: Freitas Hanniel , Olivo José , Andrade Cid
Published: November 2017

Due to growing worldwide energy demand, the search for diversification of the energy matrix stands out as an important research topic. Bioethanol represents a notable alternative of renewable and environmental-friendly energy sources extracted from biomass, the bioenergy. Thus, the assurance of optimal growth conditions in the fermenter through operational variables manipulation is cardinal for the maximization of the ethanol production process yield. The current work focuses in the determination of optimal control scheme for the fermenter feed rate and batch end-time, evaluating different parametrization profiles, and comparing evolutionary computation techniques, the genetic algorithm (GA) and differential evolution (DE), using a dynamic real-time optimization (DRTO) approach for the in silico ethanol production optimization. The DRTO was able to optimize the reactor feed rate considering disturbances in the process input. Open-loop tests results obtained for the algorithms were superior to several works presented in the literature. The results indicate that the interaction between the intervals of DRTO cycles and parametrization profile is more significant for the GA, both in terms of ethanol productivity and batch time. In general lines, the present work presents a methodology for control and optimization studies applicable to other bioenergy generation systems.
A Comprehensive Study of Energy Conservation in Electric-Hydraulic Injection-Molding Equipment
Authors: Zhang Hongjuan , Ren Lu , Gao Yan , Jin Baoquan
Published: November 2017

An injection-molding machine (IMM) is equipment that produces all kinds of plastic products. At present, the global production of IMMs amounts to more than 30 million units each year, and its total production accounts for 50% of all plastic molding equipment. Now, the main energy consumption equipment of plastic processing plants consists in IMMs. Therefore, energy conservation research on IMMs has become urgent. This paper initially introduces the current development of IMMs. The working principle and the distribution of energy consumption of IMMs are then analyzed in detail. In addition, the methods and characteristics of the energy conservation technology in hydraulic control circuits and electrical control circuits are developed. Meanwhile, the recovery and the reuse of braking energy of IMMs are proposed. Moreover, some control strategies are discussed in order to improve energy efficiency. Finally, challenges and prospects for hydraulic IMMs are carried out. This paper thus provides a comprehensive review on energy-saving technology of electric-hydraulic injection-molding equipment for researchers.
Switching Device Dead Time Optimization of Resonant Double-Sided LCC Wireless Charging System for Electric Vehicles
Authors: Zhang Xi , Lai Ziyang , Xiong Rui , Li Zhe , Zhang Zhimin , Song Liang
Published: November 2017

Aiming at the reduction of the influence of the dead time setting on power level and efficiency of the inverter of double-sided LCC resonant wireless power transfer (WPT) system, a dead time soft switching optimization method for metal–oxide–semiconductor field-effect transistor (MOSFET) is proposed. At first, the mathematic description of double-sided LCC resonant wireless charging system is established, and the operating mode is analyzed as well, deducing the quantitative characteristic that the secondary side compensation capacitor C2 can be adjusted to ensure that the circuit is inductive. A dead time optimization design method is proposed, contributing to achieving zero-voltage switching (ZVS) of the inverter, which is closely related to the performance of the WPT system. In the end, a prototype is built. The experimental results verify that dead time calculated by this optimized method can ensure the soft switching of the inverter MOSFET and promote the power and efficiency of the WPT.
Applicability of Compressive Sensing for Wireless Energy Harvesting Nodes
Authors: Nguyen Thu , Shin Yoan , Kim Jin , Kim Dong
Published: November 2017

This paper proposes an approach toward solving an issue pertaining to measuring compressible data in large-scale energy-harvesting wireless sensor networks with channel fading. We consider a scenario in which N sensors observe hidden phenomenon values, transmit their observations using amplify-and-forward protocol over fading channels to a fusion center (FC), and the FC needs to choose a number of sensors to collect data and recover them according to the desired approximation error using the compressive sensing. In order to reduce the communication cost, sparse random matrices are exploited in the pre-processing procedure. We first investigate the sparse representation for sensors with regard to recovery accuracy. Then, we present the construction of sparse random projection matrices based on the fact that the energy consumption can vary across the energy harvesting sensor nodes. The key ingredient is the sparsity level of the random projection, which can greatly reduce the communication costs. The corresponding number of measurements is chosen according to the desired approximation error. Analysis and simulation results validate the potential of the proposed approach.
Chromosomal Evolution in Mole Voles Ellobius (Cricetidae, Rodentia): Bizarre Sex Chromosomes, Variable Autosomes and Meiosis
Authors: Matveevsky Sergey , Kolomiets Oxana , Bogdanov Alexey , Hakhverdyan Mikhayil , Bakloushinskaya Irina
Published: November 2017

This study reports on extensive experimental material covering more than 30 years of studying the genetics of mole voles. Sex chromosomes of Ellobius demonstrate an extraordinary case of mammalian sex chromosomes evolution. Five species of mole voles own three types of sex chromosomes; typical for placentals: XY♂/XX♀; and atypical X0♂/X0♀; or XX♂/XX♀. Mechanisms of sex determination in all Ellobius species remain enigmatic. It was supposed that the Y chromosome was lost twice and independently in subgenera Bramus and Ellobius. Previous to the Y being lost, the X chromosome in distinct species obtained some parts of the Y chromosome, with or without Sry, and accumulated one or several copies of the Eif2s3y gene. Along with enormous variations of sex chromosomes, genes of sex determination pathway and autosomes, and five mole vole species demonstrate ability to establish different meiotic mechanisms, which stabilize their genetic systems and make it possible to overcome the evolutionary deadlocks.
A Cross-Sectional Investigation of the Importance of Park Features for Promoting Regular Physical Activity in Parks
Authors: Costigan Sarah , Veitch Jenny , Crawford David , Carver Alison , Timperio Anna
Published: November 2017

Introduction: Parks in the US and Australia are generally underutilised, and park visitors typically engage in low levels of physical activity (PA). Better understanding park features that may encourage visitors to be active is important. This study examined the perceived importance of park features for encouraging park-based PA and examined differences by sex, age, parental-status and participation in PA. Methods: Cross-sectional surveys were completed by local residents (n = 2775) living near two parks (2013/2015). Demographic variables, park visitation and leisure-time PA were self-reported, respondents rated the importance of 20 park features for encouraging park-based PA in the next fortnight. Chi-square tests of independence examined differences in importance of park features for PA among sub-groups of local residents (sex, age, parental-status, PA). Results: Park features ranked most important for park-based PA were: well maintained (96.2%), feel safe (95.4%), relaxing atmosphere (91.2%), easy to get to (91.7%), and shady trees (90.3%). All subgroups ranked ‘well maintained’ as most important. Conclusions: Natural and built environment features of parks are important for promoting adults’ park-based PA, and should be considered in park (re)design.
Reproductive Investment and Health Costs in Roma Women
Authors: Čvorović Jelena , Coe Kathryn
Published: November 2017

In this paper, we examine whether variation in reproductive investment affects the health of Roma women using a dataset collected through original anthropological fieldwork among Roma women in Serbia. Data were collected in 2014–2016 in several Roma semi-urban settlements in central Serbia. The sample consisted of 468 Roma women, averaging 44 years of age. We collected demographic data (age, school levels, socioeconomic status), risk behaviors (smoking and alcohol consumption), marital status, and reproductive history variables (the timing of reproduction, the intensity of reproduction, reproductive effort and investment after birth), in addition to self-reported health, height, and weight. Data analyses showed that somatic, short-term costs of reproduction were revealed in this population, while evolutionary, long-term costs were unobservable—contrariwise, Roma women in poor health contributed more to the gene pool of the next generation than their healthy counterparts. Our findings appear to be consistent with simple trade-off models that suggest inverse relationships between reproductive effort and health. Thus, personal sacrifice—poor health as an outcome—seems crucial for greater reproductive success.
Stress-Induced Hyperglycemia, but Not Diabetic Hyperglycemia, Is Associated with Higher Mortality in Patients with Isolated Moderate and Severe Traumatic Brain Injury: Analysis of a Propensity Score-Matched Population
Authors: Rau Cheng-Shyuan , Wu Shao-Chun , Chen Yi-Chun , Chien Peng-Chen , Hsieh Hsiao-Yun , Kuo Pao-Jen , Hsieh Ching-Hua
Published: November 2017

Background: Admission hyperglycemia is associated with higher morbidity and mortality in patients with traumatic brain injury (TBI). Stress-induced hyperglycemia (SIH), a form of hyperglycemia induced by the stress response, is associated with increased patient mortality following TBI. However, admission hyperglycemia occurs not only in SIH but also in patients with diabetic hyperglycemia (DH). Current information regarding whether trauma patients with SIH represent a distinct group with differential outcomes compared to those with DH remains limited. Methods: Serum glucose concentration ≥200 mg/dL upon arrival at the emergency department was defined as hyperglycemia. Presence of diabetes mellitus (DM) was determined by patient history and/or admission glycated hemoglobin (HbA1c) level ≥6.5%. In the present study, the patient cohort included those with moderate and severe TBI, as defined by an Abbreviated Injury Scale (AIS) score ≥3 points in the head, and excluded those who had additional AIS scores ≥3 points in any other region of the body. A total of 1798 adult patients with isolated moderate to severe TBI were allocated into four groups: SIH (n = 140), DH (n = 187), diabetic normoglycemia (DN, n = 186), and non-diabetic normoglycemia (NDN, n = 1285). Detailed patient information was retrieved from the Trauma Registry System at a level I trauma center between 1 January 2009, and 31 December 2015. Unpaired Student’s t- and Mann–Whitney U-tests were used to analyze normally and non-normally distributed continuous data, respectively. Categorical data were compared using the Pearson chi-square or two-sided Fisher’s exact tests. Matched patient populations were allocated in a 1:1 ratio according to propensity scores calculated by NCSS software. Logistic regression was used to evaluate the effect of SIH and DH on the adjusted mortality outcome. Results: In patients with isolated moderate to severe TBI, the presence of SIH and DH led to 9.1-fold and 2.3-fold higher odds of mortality, respectively, than patients with NDN. After adjusting for confounding factors, including sex and age, pre-existing co-morbidities, existence of different kinds of intracerebral hemorrhage, and injury severity, patients with SIH still had 6.6-fold higher odds of mortality than those with NDN; however, DH did not present significantly higher adjusted mortality odds. SIH and DH presented different effects on outcomes after TBI. The results also suggested that the pathophysiological effect associated with SIH was different from that of DH. Conclusions: This study demonstrated that patients with SIH and DH had significantly higher mortality than patients with NDN. However, the adjusted mortality was significantly higher only in the selected propensity score-matched patients with SIH and not in those with DH.
Near-Real-Time OGC Catalogue Service for Geoscience Big Data
Authors: Song Jia , Di Liping
Published: November 2017

Geoscience data are typically big data, and they are distributed in various agencies and individuals worldwide. Efficient data sharing and interoperability are important for managing and applying geoscience data. The OGC (Open Geospatial Consortium) Catalogue Service for the Web (CSW) is an open interoperability standard for supporting the discovery of geospatial data. In the past, regular OGC catalogue services have been studied, but few studies have discussed a near-real-time OGC catalogue service for geoscience big data. A near-real-time OGC catalogue service requires frequent updates of a metadata repository in a short time. When dealing with massive amounts of geoscience data, this comprises an extremely challenging issue. Discovering these data via an OGC catalogue service in near real-time is desirable. In this study, we focus on how the near-real-time OGC catalogue service is realized through several lightweight data structures, algorithms, and tools. We propose a framework of a near-real-time OGC catalogue service and discuss each element of the framework to which more attention should be paid when dealing with the massive amounts of real-time data, followed by a review of several methods that need to be considered in a near-real-time OGC CSW service. A case study on providing an OGC catalogue service to Unidata real-time data is presented to demonstrate how specific methods are utilized to deal with real-time data. The goal of this paper is to fill the gap in knowledge regarding an OGC catalogue service for geoscience big data, and it has realistic significance in facilitating a near-real-time OGC catalogue service.
An Index Based on Joint Density of Corners and Line Segments for Built-Up Area Detection from High Resolution Satellite Imagery
Authors: Ning Xiaogang , Lin Xiangguo
Published: November 2017

Detection of built-up areas from Very High Spatial Resolution (VHSR) remote sensing images is a critical step in urbanization monitoring. This paper presents a method for extracting built-up areas from VHSR remote sensing imagery by using feature-level-based fusion of right angle corners, right angle sides and road marks. This method has six main steps. First, line segments are detected. Second, the Harris corner points are detected. Third, the right-angle corners and right-angle sides are determined by cross-verification of the above detected Harris corners and line segments. Fourth, the potential road marks are detected by the template matching method. Fifth, a built-up index image is constructed. Finally, the built-up areas are extracted through a binary thresholding of the above index image. Three satellite images with wide coverage are employed for evaluating the above proposed method. The experimental results suggest that the proposed method outperforms the classic PanTex method. On average, the completeness and the quality of the proposed method are respectively 17.94% and 13.33% better than those of the PanTex method, while there is no great difference between the two methods on the correctness.
Mutational Biases and GC-Biased Gene Conversion Affect GC Content in the Plastomes of Dendrobium Genus
Authors: Niu Zhitao , Xue Qingyun , Wang Hui , Xie Xuezhu , Zhu Shuying , Liu Wei , Ding Xiaoyu
Published: November 2017

The variation of GC content is a key genome feature because it is associated with fundamental elements of genome organization. However, the reason for this variation is still an open question. Different kinds of hypotheses have been proposed to explain the variation of GC content during genome evolution. However, these hypotheses have not been explicitly investigated in whole plastome sequences. Dendrobium is one of the largest genera in the orchid species. Evolutionary studies of the plastomic organization and base composition are limited in this genus. In this study, we obtained the high-quality plastome sequences of D. loddigesii and D. devonianum. The comparison results showed a nearly identical organization in Dendrobium plastomes, indicating that the plastomic organization is highly conserved in Dendrobium genus. Furthermore, the impact of three evolutionary forces—selection, mutational biases, and GC-biased gene conversion (gBGC)—on the variation of GC content in Dendrobium plastomes was evaluated. Our results revealed: (1) consistent GC content evolution trends and mutational biases in single-copy (SC) and inverted repeats (IRs) regions; and (2) that gBGC has influenced the plastome-wide GC content evolution. These results suggest that both mutational biases and gBGC affect GC content in the plastomes of Dendrobium genus.
International Journal of Molecular Science 2017 Best Paper Award
Authors:   International Journal of Molecular Science Editorial Office
Published: November 2017

The Editors of the International Journal of Molecular Sciences have established the Best Paper Award to recognize the most outstanding articles published in the areas of molecular biology, molecular physics and chemistry that have been published in the International Journal of Molecular Sciences. The prizes have been awarded annually since 2012 [...]
Effect of Saturated Stearic Acid on MAP Kinase and ER Stress Signaling Pathways during Apoptosis Induction in Human Pancreatic β-Cells Is Inhibited by Unsaturated Oleic Acid
Authors: Šrámek Jan , Němcová-Fürstová Vlasta , Pavlíková Nela , Kovář Jan
Published: November 2017

It has been shown that saturated fatty acids (FAs) have a detrimental effect on pancreatic β-cells function and survival, leading to apoptosis, whereas unsaturated FAs are well tolerated and are even capable of inhibiting the pro-apoptotic effect of saturated FAs. Molecular mechanisms of apoptosis induction and regulation by FAs in β-cells remain unclear; however, mitogen-activated protein (MAP) kinase and endoplasmic reticulum (ER) stress signaling pathways may be involved. In this study, we tested how unsaturated oleic acid (OA) affects the effect of saturated stearic acid (SA) on the p38 mitogen-activated protein kinase (MAPK) and extracellular signal-regulated kinase (ERK) pathways as well as the ER stress signaling pathways during apoptosis induction in the human pancreatic β-cells NES2Y. We demonstrated that OA is able to inhibit all effects of SA. OA alone has only minimal or no effects on tested signaling in NES2Y cells. The point of OA inhibitory intervention in SA-induced apoptotic signaling thus seems to be located upstream of the discussed signaling pathways.
Eburicoic Acid, a Triterpenoid Compound from Antrodia camphorata, Displays Antidiabetic and Antihyperlipidemic Effects in Palmitate-Treated C2C12 Myotubes and in High-Fat Diet-Fed Mice
Authors: Lin Cheng-Hsiu , Kuo Yueh-Hsiung , Shih Chun-Ching
Published: November 2017

This study was designed to investigate the antidiabetic and antihyperlipidemic effects and mechanisms of eburicoic acid (TRR); one component of Antrodia camphorata in vitro and in an animal model for 14 weeks. Expression levels of membrane glucose transporter type 4 (GLUT4); phospho-5′-adenosine monophosphate-activated protein kinase (AMPK)/total AMPK; and phospho-Akt/total-Akt in insulin-resistant C2C12 myotube cells were significantly decreased by palmitate; and such decrease was prevented and restored by TRR at different concentrations. A group of control (CON) was on low-fat diet over a period of 14 weeks. Diabetic mice; after high-fat-diet (HFD) induction for 10 weeks; were randomly divided into six groups and were given once a day oral gavage doses of either TRR (at three dosage levels); fenofibrate (Feno) (at 0.25 g/kg body weight); metformin (Metf) (at 0.3 g/kg body weight); or vehicle (distilled water) (HF group) over a period of 4 weeks and still on HFD. Levels of glucose; triglyceride; free fatty acid (FFA); insulin; and leptin in blood were increased in 14-week HFD-fed mice as compared to the CON group; and the increases were prevented by TRR, Feno, or Metf as compared to the HF group. Moreover, HFD-induction displayed a decrease in circulating adiponectin levels, and the decrease was prevented by TRR, Feno, or Metf treatment. The overall effect of TRR is to decrease glucose and triglyceride levels and improved peripheral insulin sensitivity. Eburicoic acid, Feno, and Metf displayed both enhanced expression levels of phospho-AMPK and membrane expression levels of GLUT4 in the skeletal muscle of HFD-fed mice to facilitate glucose uptake with consequent enhanced hepatic expression levels of phospho-AMPK in the liver and phosphorylation of the transcription factor forkhead box protein O1 (FOXO1) but decreased messenger RNA (mRNA) of phosphenolpyruvate carboxykinase (PEPCK) to inhibit hepatic glucose production; resulting in lowered blood glucose levels. Moreover; TRR treatment increased hepatic expression levels of the peroxisome proliferator-activated receptor α (PPARα) to enhance fatty acid oxidation; but displayed a reduction in expressions of hepatic fatty acid synthase (FAS) but an increase in fatty acid oxidation PPARα coincident with a decrease in hepatic mRNA levels of sterol response element binding protein-1c (SREBP-1c); resulting in a decrease in blood triglycerides and amelioration of hepatic ballooning degeneration. Eburicoic acid-treated mice reduced adipose expression levels of lipogenic FAS and peroxisome proliferator-activated receptor γ (PPARγ) and led to decreased adipose lipid accumulation. The present findings demonstrated that TRR exhibits a beneficial therapeutic potential in the treatment of type 2 diabetes and hyperlipidemia.
The Long Noncoding RNA HOTAIR in Breast Cancer: Does Autophagy Play a Role?
Authors: Pawłowska Elżbieta , Szczepanska Joanna , Blasiak Janusz
Published: November 2017

HOTAIR (HOX transcript antisense RNA) plays a critical role in chromatin dynamics through the interaction with histone modifiers resulting in transcriptional gene silencing. The promoter of the HOTAIR gene contains multiple estrogen response elements (EREs) and is transcriptionally activated by estradiol in estrogen receptor-positive breast cancer cells. HOTAIR competes with BRCA1, a critical protein in breast cancer and is a critical regulator of genes involved in epithelial-to-mesenchymal transition. It mediates an oncogenic action of c-Myc, essential for breast carcinogenesis. The carcinogenic action of HOTAIR was confirmed in breast cancer stem-like cells, in which it was essential for self-renewal and proliferation. Several miRNAs regulate the expression of HOTAIR and HOTAIR interacts with many miRNAs to support cancer transformation. Many studies point at miR-34a as a major component of HOTAIR–miRNAs–cancer cross-talk. The most important role of HOTAIR can be attributed to cancer progression as its overexpression stimulates invasion and metastasis. HOTAIR can regulate autophagy, important for breast cancer cells survival, through the interaction with miRNAs specific for autophagy genes and directly with these genes. The role of HOTAIR-mediated autophagy in breast cancer progression can be underlined by its interaction with matrix metalloproteinases, essential for cancer invasion, and β-catenin can be important for this interaction. Therefore, there are several mechanisms of the interplay between HOTAIR and autophagy important for breast cancer, but further studies are needed to determine more details of this interplay.
Hydrogel Film-Immobilized Lactobacillus brevis RK03 for γ-Aminobutyric Acid Production
Authors: Hsueh Yi-Huang , Liaw Wen-Chang , Kuo Jen-Min , Deng Chi-Shin , Wu Chien-Hui
Published: November 2017

Hydrogels of 2-hydroxyethyl methacrylate/polyethylene glycol diacrylate (HEMA/PEGDA) have been extensively studied for their use in biomedical and pharmaceutical applications owing to their nontoxic and highly hydrophilic characteristics. Recently, cells immobilized by HEMA/PEGDA hydrogels have also been studied for enhanced production in fermentation. Hydrogel films of HEMA/PEGDA copolymer were generated by Ultraviolet (UV)-initiated photopolymerization. The hydrogel films were used to immobilize viable Lactobacillus brevis RK03 cells for the bioconversion of monosodium glutamate (MSG) to γ-aminobutyric acid (GABA). The mechanical properties and fermentation yields of the L. brevis RK03 cells immobilized on polyacrylate hydrogel films with different monomeric formulations were investigated. Fermentation was carried out in 75 mL de Man, Rogosa and Sharpe (MRS) medium containing various concentrations of MSG. We found that HEMA (93%)/PEGDA (3%) hydrogels (sample H) maximized GABA production. The conversion rate of MSG to GABA reached a maximum value of 98.4% after 240 h. Bioconversion activity gradually declined after 420 h to 83.8% after five cycles of semi-continuous fermentation. Our results suggest that HEMA (93%)/PEGDA (3%) hydrogels have great potential for use in GABA production via semi-continuous fermentation.
A Distributed Ledger for Supply Chain Physical Distribution Visibility
Authors: Wu Haoyan , Li Zhijie , King Brian , Ben Miled Zina , Wassick John , Tazelaar Jeffrey
Published: November 2017

Supply chains (SC) span many geographies, modes and industries and involve several phases where data flows in both directions from suppliers, manufacturers, distributors, retailers, to customers. This data flow is necessary to support critical business decisions that may impact product cost and market share. Current SC information systems are unable to provide validated, pseudo real-time shipment tracking during the distribution phase. This information is available from a single source, often the carrier, and is shared with other stakeholders on an as-needed basis. This paper introduces an independent, crowd-validated, online shipment tracking framework that complements current enterprise-based SC management solutions. The proposed framework consists of a set of private distributed ledgers and a single blockchain public ledger. Each private ledger allows the private sharing of custody events among the trading partners in a given shipment. Privacy is necessary, for example, when trading high-end products or chemical and pharmaceutical products. The second type of ledger is a blockchain public ledger. It consists of the hash code of each private event in addition to monitoring events. The latter provide an independently validated immutable record of the pseudo real-time geolocation status of the shipment from a large number of sources using commuters-sourcing.
MCC/Eisosomes Regulate Cell Wall Synthesis and Stress Responses in Fungi
Authors: Foderaro Jenna , Douglas Lois , Konopka James
Published: November 2017

The fungal plasma membrane is critical for cell wall synthesis and other important processes including nutrient uptake, secretion, endocytosis, morphogenesis, and response to stress. To coordinate these diverse functions, the plasma membrane is organized into specialized compartments that vary in size, stability, and composition. One recently identified domain known as the Membrane Compartment of Can1 (MCC)/eisosome is distinctive in that it corresponds to a furrow-like invagination in the plasma membrane. MCC/eisosomes have been shown to be formed by the Bin/Amphiphysin/Rvs (BAR) domain proteins Lsp1 and Pil1 in a range of fungi. MCC/eisosome domains influence multiple cellular functions; but a very pronounced defect in cell wall synthesis has been observed for mutants with defects in MCC/eisosomes in some yeast species. For example, Candida albicans MCC/eisosome mutants display abnormal spatial regulation of cell wall synthesis, including large invaginations and altered chemical composition of the walls. Recent studies indicate that MCC/eisosomes affect cell wall synthesis in part by regulating the levels of the key regulatory lipid phosphatidylinositol 4,5-bisphosphate (PI4,5P2) in the plasma membrane. One general way MCC/eisosomes function is by acting as protected islands in the plasma membrane, since these domains are very stable. They also act as scaffolds to recruit >20 proteins. Genetic studies aimed at defining the function of the MCC/eisosome proteins have identified important roles in resistance to stress, such as resistance to oxidative stress mediated by the flavodoxin-like proteins Pst1, Pst2, Pst3 and Ycp4. Thus, MCC/eisosomes play multiple roles in plasma membrane organization that protect fungal cells from the environment.
Clinical Pharmacogenetics of Cytochrome P450-Associated Drugs in Children
Authors: Aka Ida , Bernal Christiana J. , Carroll Robert , Maxwell-Horn Angela , Oshikoya Kazeem A. , Van Driest Sara L.
Published: November 2017

Cytochrome P450 (CYP) enzymes are commonly involved in drug metabolism, and genetic variation in the genes encoding CYPs are associated with variable drug response. While genotype-guided therapy has been clinically implemented in adults, these associations are less well established for pediatric patients. In order to understand the frequency of pediatric exposures to drugs with known CYP interactions, we compiled all actionable drug–CYP interactions with a high level of evidence using Clinical Pharmacogenomic Implementation Consortium (CPIC) data and surveyed 10 years of electronic health records (EHR) data for the number of children exposed to CYP-associated drugs. Subsequently, we performed a focused literature review for drugs commonly used in pediatrics, defined as more than 5000 pediatric patients exposed in the decade-long EHR cohort. There were 48 drug–CYP interactions with a high level of evidence in the CPIC database. Of those, only 10 drugs were commonly used in children (ondansetron, oxycodone, codeine, omeprazole, lansoprazole, sertraline, amitriptyline, citalopram, escitalopram, and risperidone). For these drugs, reports of the drug–CYP interaction in cohorts including children were sparse. There are adequate data for implementation of genotype-guided therapy for children for three of the 10 commonly used drugs (codeine, omeprazole and lansoprazole). For the majority of commonly used drugs with known CYP interactions, more data are required to support pharmacogenomic implementation in children.
Landscape Risk Assessment Model and Decision Support System for the Protection of the Natural and Cultural Heritage in the Eastern Mediterranean Area
Authors: Trovato Maria , Ali Dana , Nicolas Jessica , El Halabi Ammar , Meouche Sarah
Published: November 2017

In recent years, the competition of uses for scarce and highly valuable natural resources, and the frequency and severity of natural and technological disasters have increased, and this trend is likely to worsen in the years to come. In the Mediterranean area, especially in its Eastern part, the high human exploitation driven by different economic sectors and interests is resulting in intensive use of the land and its resources. Tourism intensification, rapid growth of urban settlement and related sprawl, movement and displacement of populations, rural abandonment, and adoption of different agricultural techniques are profoundly and rapidly changing the landscape character of the East Mediterranean. In view of the risks to cultural and natural heritage, a Landscape Risk Assessment Model (LRA) and Decision Support System (LDSS) were developed through the MedScapes-ENPI project. This paper reports the experience conducted at the Landscape Design and Ecosystem Management Department (LDEM) in the American University of Beirut (AUB) in developing the two tools, LRA and LDSS. It aims to provide insight into the methodology designed and tested during the length of the project to take into account the protection of landscapes of particular interest as well as the rational planning of all the landscapes with special emphasis on the use of natural resources. The assessment was applied in the study area of each partner country of the ENPI project, allowing for a better understanding of the implications in land-use and conservation decision-making.
Grain Structure Control of Additively Manufactured Metallic Materials
Authors: Yan Fuyao , Xiong Wei , Faierson Eric
Published: November 2017

Grain structure control is challenging for metal additive manufacturing (AM). Grain structure optimization requires the control of grain morphology with grain size refinement, which can improve the mechanical properties of additive manufactured components. This work summarizes methods to promote fine equiaxed grains in both the additive manufacturing process and subsequent heat treatment. Influences of temperature gradient, solidification velocity and alloy composition on grain morphology are discussed. Equiaxed solidification is greatly promoted by introducing a high density of heterogeneous nucleation sites via powder rate control in the direct energy deposition (DED) technique or powder surface treatment for powder-bed techniques. Grain growth/coarsening during post-processing heat treatment can be restricted by presence of nano-scale oxide particles formed in-situ during AM. Grain refinement of martensitic steels can also be achieved by cyclic austenitizing in post-processing heat treatment. Evidently, new alloy powder design is another sustainable method enhancing the capability of AM for high-performance components with desirable microstructures.