bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic relatedness reveals total population size of white sharks in eastern Australia and New Zealand
Authors: Hillary R. M. , Bravington M. V. , Patterson T. A. , Grewe P. , Bradford R. , Feutry P. , Gunasekera R. , Peddemors V. , Werry J. , Francis M. P. , Duffy C. A. J. , Bruce B. D. 
Published: February 2018

AbstractConservation concerns exist for many sharks but robust estimates of abundance are often lacking. Improving population status is a performance measure for species under conservation or recovery plans, yet the lack of data permitting estimation of population size means the efficacy of management actions can be difficult to assess, and achieving the goal of removing species from conservation listing challenging. For potentially dangerous species, like the white shark, balancing conservation and public safety demands is politically and socially complex, often leading to vigorous debate about their population status. This increases the need for robust information to inform policy decisions. We developed a novel method for estimating the total abundance of white sharks in eastern Australia and New Zealand using the genetic-relatedness of juveniles and applying a close-kin mark-recapture framework and demographic model. Estimated numbers of adults are small (ca. 280–650), as is total population size (ca. 2,500–6,750). However, estimates of survival probability are high for adults (over 90%), and fairly high for juveniles (around 73%). This represents the first direct estimate of total white shark abundance and survival calculated from data across both the spatial and temporal life-history of the animal and provides a pathway to estimate population trend.
Internal noise sources limiting contrast sensitivity
Authors: Silvestre Daphné , Arleo Angelo , Allard Rémy 
Published: February 2018

AbstractContrast sensitivity varies substantially as a function of spatial frequency and luminance intensity. The variation as a function of luminance intensity is well known and characterized by three laws that can be attributed to the impact of three internal noise sources: early spontaneous neural activity limiting contrast sensitivity at low luminance intensities (i.e. early noise responsible for the linear law), probabilistic photon absorption at intermediate luminance intensities (i.e. photon noise responsible for de Vries-Rose law) and late spontaneous neural activity at high luminance intensities (i.e. late noise responsible for Weber’s law). The aim of this study was to characterize how the impact of these three internal noise sources vary with spatial frequency and determine which one is limiting contrast sensitivity as a function of luminance intensity and spatial frequency. To estimate the impact of the different internal noise sources, the current study used an external noise paradigm to factorize contrast sensitivity into equivalent input noise and calculation efficiency over a wide range of luminance intensities and spatial frequencies. The impact of early and late noise was found to drop linearly with spatial frequency, whereas the impact of photon noise rose with spatial frequency due to ocular factors.
Impact of Drinking Water Fluoride on Human Thyroid Hormones: A Case- Control Study
Authors: Kheradpisheh Zohreh , Mirzaei Masoud , Mahvi Amir Hossein , Mokhtari Mehdi , Azizi Reyhane , Fallahzadeh Hossein , Ehrampoush Mohammad Hassan 
Published: February 2018

AbstractThe elevated fluoride from drinking water impacts on T3, T4 and TSH hormones. The aim was study impacts of drinking water fluoride on T3, T4 and TSH hormones inYGA (Yazd Greater Area). In this case- control study 198 cases and 213 controls were selected. Fluoride was determined by the SPADNS Colorimetric Method. T3, T4 and TSH hormones tested in the Yazd central laboratory by RIA (Radio Immuno Assay) method. The average amount of TSH and T3 hormones based on the levels of fluoride in two concentration levels 0–0.29 and 0.3–0.5 (mg/L) was statistically significant (P = 0.001 for controls and P = 0.001 for cases). In multivariate regression logistic analysis, independent variable associated with Hypothyroidism were: gender (odds ratio: 2.5, CI 95%: 1.6–3.9), family history of thyroid disease (odds ratio: 2.7, CI 95%: 1.6–4.6), exercise (odds ratio: 5.34, CI 95%: 3.2–9), Diabetes (odds ratio: 3.7, CI 95%: 1.7–8), Hypertension (odds ratio: 3.2, CI 95%: 1.3–8.2), water consumption (odds ratio: 4, CI 95%: 1.2–14). It was found that fluoride has impacts on TSH, T3 hormones even in the standard concentration of less than 0.5 mg/L. Application of standard household water purification devices was recommended for hypothyroidism.
Hainan mantle plume produced late Cenozoic basaltic rocks in Thailand, Southeast Asia
Authors: Yan Quanshu , Shi Xuefa , Metcalfe Ian , Liu Shengfa , Xu Taoyu , Kornkanitnan Narumol , Sirichaiseth Thanyapat , Yuan Long , Zhang Ying , Zhang Hui 
Published: February 2018

AbstractIntraplate volcanism initiated shortly after the cessation of Cenozoic seafloor spreading in the South China Sea (SCS) region, but the full extent of its influence on the Indochina block has not been well constrained. Here we present major and trace element data and Sr-Nd-Pb-Hf isotope ratios of late Cenozoic basaltic lavas from the Khorat plateau and some volcanic centers in the Paleozoic Sukhothai arc terrane in Thailand. These volcanic rocks are mainly trachybasalts and basaltic trachyandesites. Trace element patterns and Sr-Nd-Pb-Hf isotopic compositions show that these alkaline volcanic lavas exhibit oceanic island basalt (OIB)-like characteristics with enrichments in both large-ion lithophile elements (LILE) and high field strength elements (HFSEs). Their mantle source is a mixture between a depleted Indian MORB-type mantle and an enriched mantle type 2 (EMII). We suggest that the post-spreading intraplate volcanism in the SCS region was induced by a Hainan mantle plume which spread westwards to the Paleozoic Sukhothai arc terrane.
Accelerated invagination of vacuoles as a stress response in chronically heat-stressed yeasts
Authors: Ishii Ayane , Kawai Masahito , Noda Haruka , Kato Hiroyuki , Takeda Kohei , Asakawa Kotomi , Ichikawa Yoshinobu , Sasanami Tomohiro , Tanaka Keiji , Kimura Yoko 
Published: February 2018

AbstractWhen exposed to sublethal high temperatures, budding yeast cells can survive for a period of time; however, a sufficient amount of ubiquitin is necessary for this survival. To understand the nature of the stress, we examined the morphological changes in yeast cells, focusing on the vacuoles. Changes in vacuolar morphology were notable, and ruffled vacuolar membranes, accelerated invaginations of vacuolar membranes, and vesicle-like formations were observed. These changes occurred in the absence of Atg1, Atg9 or Ivy1 but appeared to require endosomal sorting proteins, such as Vps23, Vps24 or Pep12. Furthermore, the serial sections of the vacuoles analysed using an electron microscopic analysis revealed that spherical invaginated structures were linked together in a vacuole. Because degradation of cell surface proteins is induced from heat stress, fusion of endosomal and vacuolar membranes might occur frequently in heat-stressed cells, and yeast cells might be able to cope with a rapid increase in vacuolar surface area by such invaginations.
Adverse drug events in Chinese pediatric inpatients and associated risk factors: a retrospective review using the Global Trigger Tool
Authors: Ji Huan-huan , Song Lin , Xiao Jian-wen , Guo Yu-xia , Wei Ping , Tang Ting-ting , Tian Xiao-jiang , Tang Xue-wen , Jia Yun-tao 
Published: February 2018

AbstractUnderstanding the epidemiology and risk factors of adverse drug events (ADEs) in pediatric inpatient is essential if we are to prevent, reduce or ameliorate the harm experienced. The Global Trigger Tool (GTT) is a method of retrospective medical record review that measures harm in hospitalized children. We employed a three-stage retrospective chart review of random samples of 1800 pediatric inpatients discharged from January 2013 to December 2015. 31 kinds of pediatric-specific triggers were made based on the previous trigger tool studies developed for use in adult or pediatric. Positive predictive value (PPV) of individual triggers, as well as ADEs detection rates were calculated. Stepwise logistic regression was performed to investigate risk factors associated with ADEs. Of 1746 patients, detected in 221 patients (12.7%) with 247 ADEs. The PPV of the trigger tool was 13.3%. Of the 247 ADEs, 82.6% were identified as category E, 11.7% category F and 5.7% category H. The pediatric-focused trigger tool is a feasible and useful tool for detecting pediatric ADEs. Especially for patients who have had more drugs, more doses or more admissions which needs to be closely monitored as triggers to improve the safety.
Central Composite Design Optimization of Zinc Removal from Contaminated Soil, Using Citric Acid as Biodegradable Chelant
Authors: Asadzadeh Farrokh , Maleki-Kaklar Mahdi , Soiltanalinejad Nooshin , Shabani Farzin 
Published: February 2018

AbstractCitric acid (CA) was evaluated in terms of its efficiency as a biodegradable chelating agent, in removing zinc (Zn) from heavily contaminated soil, using a soil washing process. To determine preliminary ranges of variables in the washing process, single factor experiments were carried out with different CA concentrations, pH levels and washing times. Optimization of batch washing conditions followed using a response surface methodology (RSM) based central composite design (CCD) approach. CCD predicted values and experimental results showed strong agreement, with an R2 value of 0.966. Maximum removal of 92.8% occurred with a CA concentration of 167.6 mM, pH of 4.43, and washing time of 30 min as optimal variable values. A leaching column experiment followed, to examine the efficiency of the optimum conditions established by the CCD model. A comparison of two soil washing techniques indicated that the removal efficiency rate of the column experiment (85.8%) closely matching that of the batch experiment (92.8%). The methodology supporting the research experimentation for optimizing Zn removal may be useful in the design of protocols for practical engineering soil decontamination applications
The yield difference between wild-type cotton and transgenic cotton that expresses IPT depends on when water-deficit stress is applied
Authors: Zhu Xunlu , Sun Li , Kuppu Sundaram , Hu Rongbin , Mishra Neelam , Smith Jennifer , Esmaeili Nardana , Herath Maheshika , Gore Michael A. , Payton Paxton , Shen Guoxin , Zhang Hong 
Published: February 2018

AbstractDrought is the No. 1 factor that limits agricultural production in the world, thus, making crops more drought tolerant is a major goal in agriculture. Many genes with functions in abiotic stress tolerance were identified, and overexpression of these genes confers increased drought tolerance in transgenic plants. The isopentenyltransferase gene (IPT) that encodes a rate limiting enzyme in cytokinin biosynthesis is one of them. Interestingly, when IPT-transgenic cotton was field-tested at two different sites, Texas and Arizona, different results were obtained. To explain this phenomenon, reduced irrigation experiments with different timing in applying water deficit stress were conducted. It was found that the timing of water deficit stress is critical for IPT-transgenic cotton to display its yield advantage over control plants (i.e. wild-type and segregated non-transgenic plants). If water deficit stress occurs before flowering (vegetative phase), IPT-transgenic cotton would outperform control plants; however, if water deficit stress occurs at or after flowering (reproductive phase), there would not be a yield difference between IPT-transgenic and control cotton plants. This result suggests that an early induction of IPT expression (before first flowering) is needed in order to realize the benefits of IPT-expression in transgenic plants that face water-deficit stress later in development.
Multiparameter Analysis of Gas Transport Phenomena in Shale Gas Reservoirs: Apparent Permeability Characterization
Authors: Shen Yinghao , Pang Yu , Shen Ziqi , Tian Yuanyuan , Ge Hongkui 
Published: February 2018

AbstractThe large amount of nanoscale pores in shale results in the inability to apply Darcy’s law. Moreover, the gas adsorption of shale increases the complexity of pore size characterization and thus decreases the accuracy of flow regime estimation. In this study, an apparent permeability model, which describes the adsorptive gas flow behavior in shale by considering the effects of gas adsorption, stress dependence, and non-Darcy flow, is proposed. The pore size distribution, methane adsorption capacity, pore compressibility, and matrix permeability of the Barnett and Eagle Ford shales are measured in the laboratory to determine the critical parameters of gas transport phenomena. The slip coefficients, tortuosity, and surface diffusivity are predicted via the regression analysis of the permeability data. The results indicate that the apparent permeability model, which considers second-order gas slippage, Knudsen diffusion, and surface diffusion, could describe the gas flow behavior in the transition flow regime for nanoporous shale. Second-order gas slippage and surface diffusion play key roles in the gas flow in nanopores for Knudsen numbers ranging from 0.18 to 0.5. Therefore, the gas adsorption and non-Darcy flow effects, which involve gas slippage, Knudsen diffusion, and surface diffusion, are indispensable parameters of the permeability model for shale.
Soil salinity and matric potential interaction on water use, water use efficiency and yield response factor of bean and wheat
Authors: Khataar Mahnaz , Mohammadi Mohammad Hossien , Shabani Farzin 
Published: February 2018

AbstractWe studied the effects of soil matric potential and salinity on the water use (WU), water use efficiency (WUE) and yield response factor (Ky), for wheat (Triticum aestivum cv. Mahdavi) and bean (Phaseoulus vulgaris cv. COS16) in sandy loam and clay loam soils under greenhouse conditions. Results showed that aeration porosity is the predominant factor controlling WU, WUE, Ky and shoot biomass (Bs) at high soil water potentials. As matric potential was decreased, soil aeration improved, with Bs, WU and Ky reaching maximum value at −6 to −10 kPa, under all salinities. Wheat WUE remained almost unchanged by reduction of matric potential under low salinities (EC ≤ 8 dSm−1), but increased under higher salinities (EC ≥ 8 dSm−1), as did bean WUE at all salinities, as matric potential decreased to −33 kPa. Wheat WUE exceeds that of bean in both sandy loam and clay loam soils. WUE of both plants increased with higher shoot/root ratio and a high correlation coefficient exists between them. Results showed that salinity decreases all parameters, particularly at high potentials (h = −2 kPa), and amplifies the effects of waterlogging. Further, we observed a strong relationship between transpiration (T) and root respiration (Rr) for all experiments.
Flexible and Accurate Simulation of Radiation Cooling with FETD Method
Authors: Zhang Huan Huan , Sha Wei E. I. , Huang Zhi Xiang , Shi Guang Ming 
Published: February 2018

AbstractThermal management and simulation are becoming increasingly important in many areas of engineering applications. There are three cooling routes for thermal management, namely thermal conduction, thermal convection and thermal radiation, among which the first two approaches have been widely studied and applied, while the radiation cooling has not yet attracted much attention in terrestrial environment because it usually contributes less to the total amount of thermal dissipation. Thus the simulation method for radiation cooling was also seldom noticed. The traditional way to simulate the radiation cooling is to solve the thermal conduction equation with an approximate radiation boundary condition, which neglects the wavelength and angular dependence of the emissivity of the object surface. In this paper, we combine the heat conduction equation with a rigorous radiation boundary condition discretized by the finite-element time-domain method to simulate the radiation cooling accurately and flexibly. Numerical results are given to demonstrate the accuracy, flexibilities and potential applications of the proposed method. The proposed numerical model can provide a powerful tool to gain deep physical insight and optimize the physical design of radiation cooling.
Temporal downregulation of the polyubiquitin gene Ubb affects neuronal differentiation, but not maturation, in cells cultured in vitro
Authors: Jung Byung-Kwon , Park Chul-Woo , Ryu Kwon-Yul 
Published: February 2018

AbstractReduced levels of cellular ubiquitin (Ub) pools due to disruption of the polyubiquitin gene Ubb lead to dysregulation of neural stem cell (NSC) differentiation and impaired neuronal maturation in cells isolated from Ubb
−/−
mouse embryonic brains. However, it is currently unknown whether Ub is required for the specific stage of neuronal development or whether it plays a pleiotropic role throughout the process. To answer this question, we aimed to downregulate Ubb expression temporally during neuronal development, which could not be achieved in Ubb
−/−
cells. Therefore, we exploited lentivirus-mediated knockdown (KD) of Ubb at different stages of neuronal development, and investigated their phenotypes. Here, we report the outcome of Ubb KD on two independent culture days in vitro (DIV): DIV1 and DIV7. We observed that NSCs did not differentiate properly via Ubb KD on DIV1, but the maturation of already differentiated neurons was intact via Ubb KD on DIV7. Intriguingly, Ubb KD activated Notch signaling when it had been suppressed, but exerted no effect when it had already been activated. Therefore, our study suggests that Ub plays a pivotal role in NSC differentiation to suppress Notch signaling, but not in the subsequent maturation stages of neurons that had already been differentiated.
Identification of T helper (Th)1- and Th2-associated antigens of Cryptococcus neoformans in a murine model of pulmonary infection
Authors: Firacative Carolina , Gressler A. Elisabeth , Schubert Kristin , Schulze Bianca , Müller Uwe , Brombacher Frank , von Bergen Martin , Alber Gottfried 
Published: February 2018

AbstractCryptococcosis, caused by Cryptococcus neoformans, has been demonstrated to be controlled by T helper (Th)1 cells while Th2 cells are associated with fungal growth and dissemination. Although cryptococcal immunoreactive protein antigens were previously identified, their association with Th1 or Th2 immune responses was not provided. In mice, Th1-dependent IFN-γ induces the production of IgG2a, whereas the Th2 cytokine IL-4 stimulates the expression of IgG1 rendering each isotype an indicator of the underlying Th cell response. Therefore, we performed an immunoproteomic study that distinguishes Th1- and Th2-associated antigens by their reactivity with Th1-dependent IgG2a or Th2-dependent IgG1 antibodies in sera from C. neoformans-infected wild-type mice. We additionally analysed sera from Th2-prone IL-12-deficient and Th1-prone IL-4Rα-deficient mice extending the results found in wild-type mice. In total, ten, four, and three protein antigens associated with IgG1, IgG2a, or both isotypes, respectively, were identified. Th2-associated antigens represent promising candidates for development of immunotherapy regimens, whereas Th1-associated antigens may serve as candidates for vaccine development. In conclusion, this study points to intrinsic immunomodulatory effects of fungal antigens on the process of Th cell differentiation based on the identification of cryptococcal protein antigens specifically associated with Th1 or Th2 responses throughout mice of different genotypes.
Protein interactomes of protein phosphatase 2A B55 regulatory subunits reveal B55-mediated regulation of replication protein A under replication stress
Authors: Wang Feifei , Zhu Songli , Fisher Laura A. , Wang Weidong , Oakley Gregory G. , Li Chunling , Peng Aimin 
Published: February 2018

AbstractThe specific function of PP2A, a major serine/threonine phosphatase, is mediated by regulatory targeting subunits, such as members of the B55 family. Although implicated in cell division and other pathways, the specific substrates and functions of B55 targeting subunits are largely undefined. In this study we identified over 100 binding proteins of B55α and B55β in Xenopus egg extracts that are involved in metabolism, mitochondria function, molecular trafficking, cell division, cytoskeleton, DNA replication, DNA repair, and cell signaling. Among the B55α and B55β-associated proteins were numerous mitotic regulators, including many substrates of CDK1. Consistently, upregulation of B55α accelerated M-phase exit and inhibited M-phase entry. Moreover, specific substrates of CDK2, including factors of DNA replication and chromatin remodeling were identified within the interactomes of B55α and B55β, suggesting a role for these phosphatase subunits in DNA replication. In particular, we confirmed in human cells that B55α binds RPA and mediates the dephosphorylation of RPA2. The B55-RPA association is disrupted after replication stress, consistent with the induction of RPA2 phosphorylation. Thus, we report here a new mechanism that accounts for both how RPA phosphorylation is modulated by PP2A and how the phosphorylation of RPA2 is abruptly induced after replication stress.
Terawatt-scale optical half-cycle attosecond pulses
Authors: Xu Jiancai , Shen Baifei , Zhang Xiaomei , Shi Yin , Ji Liangliang , Zhang Lingang , Xu Tongjun , Wang Wenpeng , Zhao Xueyan , Xu Zhizhan 
Published: February 2018

AbstractExtreme-ultravoilet (XUV) attosecond pulses with durations of a few tens of attosecond have been successfully applied for exploring ultrafast electron dynamics at the atomic scale. But their weak intensities limit the further application in demonstrating nonlinear responses of inner-shell electrons. Optical attosecond pulses will provide sufficient photon flux to initiate strong-field processes. Here we proposed a novel method to generate an ultra-intense isolated optical attosecond pulse through relativistic multi-cycle laser pulse interacting with a designed gas-foil target. The underdense gas target sharpens the multi-cycle laser pulse, producing a dense layer of relativistic electrons with a thickness of a few hundred nanometers. When the dense electron layer passes through an oblique foil, it emits single ultra-intense half-cycle attosecond pulse in the visible and ultraviolet spectral range. The emitted pulse has a peak intensity exceeding 1018 W/cm2 and full-width-half-maximum duration of 200 as. The peak power of this attosecond light source reaches 2 terawatt. The proposed method relaxes the single-cycle requirement on the driving pulse for isolated attosecond pulse generation and significantly boosts the peak power, thus it may open up the route to new experiments tracking the nonlinear response of inner-shell electrons as well as nonlinear attosecond phenomena investigation.