bluuebunny/crossref_metadata_2025 huggingface dataset:
A Comparison of DNA Mutation and Copy Number Profiles of Primary Breast Cancers and Paired Brain Metastases for Identifying Clinically Relevant Genetic Alterations in Brain Metastases
Authors: Tyran Marguerite , Carbuccia Nadine , Garnier Séverine , Guille Arnaud , Adelaïde José , Finetti Pascal , Touzlian Julien , Viens Patrice , Tallet Agnès , Goncalves Anthony , Metellus Philippe , Birnbaum Daniel , Chaffanet Max , Bertucci François
Published: May 2019

Improving the systemic treatment of brain metastases (BM) in primary breast cancer (PBC) is impaired by the lack of genomic characterization of BM. To estimate the concordance of DNA copy-number-alterations (CNAs), mutations, and actionable genetic alterations (AGAs) between paired samples, we performed whole-genome array-comparative-genomic-hybridization, and targeted-next-generation-sequencing on 14 clinical PBC–BM pairs. We found more CNAs, more mutations, and higher tumor mutational burden, and more AGAs in BM than in PBC; 92% of the pairs harbored at least one AGA in the BM not observed in the paired PBC. This concerned various therapeutic classes, including tyrosine-kinase-receptor-inhibitors, phosphatidylinositol 3-kinase/AKT/ mammalian Target of Rapamycin (PI3K/AKT/MTOR)-inhibitors, poly ADP ribose polymerase (PARP)-inhibitors, or cyclin-dependent kinase (CDK)-inhibitors. With regards to the PARP-inhibitors, the homologous recombination defect score was positive in 79% of BM, compared to 43% of PBC, discordant in 7 out of 14 pairs, and positive in the BM in 5 out of 14 cases. CDK-inhibitors were associated with the largest percentage of discordant AGA appearing in the BM. When considering the AGA with the highest clinical-evidence level, for each sample, 50% of the pairs harbored an AGA in the BM not detected or not retained from the analysis of the paired PBC. Thus, the profiling of BM provided a more reliable opportunity, than that of PBC, for diagnostic decision-making based on genomic analysis. Patients with BM deserve an investigation of several targeted therapies.
A Mild in-Situ Method to Construct Fe-Doped Cauliflower-Like Rutile TiO2 Photocatalysts for Degradation of Organic Dye in Wastewater
Authors: Shi Xiangcheng , Zhang Yanbin , Liu Xiaoyu , Jin Huihui , Lv Haiyang , He Shujiao , Hao Haigang , Li Changyan
Published: May 2019

A mild in situ method was developed to construct an iron doped rutile TiO2 photocatalyst like cauliflower for degradation synthetic textile dye-methyl orange. The synthesized photocatalysts presented distinguished photocatalytic activity. At the optimal Fe concentration (0.5%), the decomposition rate of methyl orange (MO) was about 90% under 40 min of ultraviolet (UV) light irradiation. Whereas, to our knowledge, only 70% of the decomposition rate of MO was achieved by commercial photocatalyst P25 under the similar reaction condition. Additionally, the rutile preparation temperature did not exceed 100 °C, which was much lower than the traditional preparation calcination temperature (e.g., 600 °C). The specific surface area of Fe doped catalysts was bigger than that of the control sample and the catalyst characterization indicated that the doped iron was incorporated into the rutile TiO2 lattice and resulted in the lattice disorder. The lattice disorder would have generated surface defects in the crystal structure, which was in favor of the photocatalytic reaction. The UV-Vis diffuse refection characterization and Density Functional Theory (DFT) calculation suggested that doping a small amount of Fe into the lattice of rutile would lead to a narrower band gap and the formation of a doping energy level between conduction and valence bands of TiO2. This further increased the degradation efficiency of synthetic textile dyes in wastewaters. Our study has provided a relatively easy operation for synthesis Fe doped rutile TiO2, which is a benefit to decrease the cost in wastewater treatment process.
Selective Hydrogenation of 3-Nitrostyrene over a Co-promoted Pt Catalyst Supported on P-containing Activated Charcoal
Authors: Wu Qifan , Zhang Chao , Lin Weiwei , Cheng Haiyang , Arai Masahiko , Zhao Fengyu
Published: May 2019

A series of Co-modified Pt catalysts supported on P-containing activated charcoal were studied for the selective hydrogenation of 3-nitrostyrene (NS) to 3-aminostyrene (AS). The addition of Co decreased the rate of hydrogenation but enhanced the selectivity to AS, being 92% at nearly 100% conversion over an optimized catalyst. The high AS selectivity should result from the configuration of NS adsorption on the catalyst, which occurs preferentially with its -NO2 group on the Pt–POx interface layer over the surface of supported Pt particles. The formation of such a Pt–POx area is promoted by the Co additive.
Controllable Fabrication of Heterogeneous p-TiO2 QDs@g-C3N4 p-n Junction for Efficient Photocatalysis
Authors: Wang Songbo , Wang Feifan , Su Zhiming , Wang Xiaoning , Han Yicheng , Zhang Lei , Xiang Jun , Du Wei , Tang Na
Published: May 2019

Photocatalytic technology has been considered to be an ideal approach to solve the energy and environmental crises, and TiO2 is regarded as the most promising photocatalyst. Compared with bare TiO2, TiO2 based p-n heterojunction exhibits a much better performance in charge separation, light absorption and photocatalytic activity. Herein, we developed an efficient method to prepare p-type TiO2 quantum dots (QDs) and decorated graphitic carbonitrile (g-C3N4) nanocomposites, while the composition and structure of the TiO2@g-C3N4 were analyzed by X-ray diffraction, Fourier transform infrared spectroscopy, thermogravimetric analysis, transmission electron microscopy, X-ray photoelectron spectroscopy and UV-visible diffuse reflectance spectroscopy characterizations. The characterization results reveal the surface decorated TiO2 quantum dots is decomposed by titanium glycerolate, which exhibits p-type conductivity. The presence of p-n heterojunction over interface is confirmed, and photoluminescence results indicate a better performance in transfer and separation of photo-generated charge carriers than pure semiconductors and type-II heterojunction. Moreover, the synergy of p-n heterojunction over interface, strong interface interaction, and quantum-size effect significantly contributes to the promoted performance of TiO2 QDs@g-C3N4 composites. As a result, the as-fabricated TiO2 QDs@g-C3N4 composite with a p/n mass ratio of 0.15 exhibits improved photo-reactivity of 4.3-fold and 5.4-fold compared to pure g-C3N4 in degradation of organic pollutant under full solar spectrum and visible light irradiation, respectively.
Effect of Cyclic Fatigue Loading on Matrix Multiple Fracture of Fiber-Reinforced Ceramic-Matrix Composites
Authors: Li Longbiao
Published: May 2019

In this paper, the effect of cyclic fatigue loading on matrix multiple fracture of fiber-reinforced ceramic-matrix composites (CMCs) is investigated using the critical matrix strain energy (CMSE) criterion. The relationships between multiple matrix cracking, cyclic fatigue peak stress, fiber/matrix interface wear, and debonding are established. The effects of fiber volume fraction, fiber/matrix interface shear stress, and applied cycle number on matrix multiple fracture and fiber/matrix interface debonding and interface wear are discussed. Comparisons of multiple matrix cracking with/without cyclic fatigue loading are analyzed. The experimental matrix cracking of unidirectional SiC/CAS, SiC/SiC, SiC/Borosilicate, and mini-SiC/SiC composites with/without cyclic fatigue loading are predicted.
Validity of Pulmonary Valve Z-Scores in Predicting Valve-Sparing Tetralogy Repairs—Systematic Review †
Authors: Sinha Raina , Gooty Vasu , Jang Subin , Dodge-Khatami Ali , Salazar Jorge
Published: May 2019

There is a lack of consensus regarding the preoperative pulmonary valve (PV) Z-score “cut-off” in tetralogy of Fallot (ToF) patients to attempt a successful valve sparing surgery (VSS). Therefore, the aim of this study was to review the available evidence regarding the association between preoperative PV Z-score and rate of re-intervention for residual right ventricular outflow tract (RVOT) obstruction, i.e. successful valve sparing surgery. A systematic search of studies reporting outcomes of VSS for ToF was performed utilizing PubMed, EMBASE, and Scopus databases. Patients with ToF variants such as pulmonary atresia, major aortopulmonary collaterals, absent pulmonary valve, associated atrioventricular septal defect, and discontinuous pulmonary arteries were excluded. Out of 712 screened publications, 15 studies met inclusion criteria. A total of 1091 patients had surgery at a median age and weight of 6.9 months and 7.2 kg, respectively. VSS was performed on the basis of intraoperative PV assessment in 14 out of 15 studies. The median preoperative PV Z-score was −1.7 (0 to −4.9) with a median re-intervention rate of 4.7% (0–36.8%) during a median follow-up of 2.83 years (1.4–15.8 years). Quantitatively, there was no correlation between decreasing preoperative PV Z-scores and increasing RVOT re-intervention rates with a correlation coefficient of −0.03 and an associated p-value of 0.91. In observational studies, VSS for ToF repair was based on intraoperative evaluation and sizing of the PV following complete relief of all levels of obstruction of the RVOT, rather than pre-operative echocardiography derived PV Z-scores.
Homogenous Granulation and Its Epsilon Variant
Authors: Ropiak Krzysztof , Artiemjew Piotr
Published: May 2019

In the era of Big data, there is still place for techniques which reduce the data size with maintenance of its internal knowledge. This problem is the main subject of research of a family of granulation techniques proposed by Polkowski. In our recent works, we have developed new, really effective and simple techniques for decision approximation, homogenous granulation and epsilon homogenous granulation. The real problem in this family of methods was the choice of an effective parameter of approximation for any datasets. It was resolved by homogenous techniques. There is no need to estimate the optimal parameters of approximation for these methods, because those are set in a dynamic way according to the data internal indiscernibility level. In this work, we have presented an extension of the work presented at ICIST 2018 conference. We present results for homogenous and epsilon homogenous granulation with the comparison of its effectiveness.
On Quantum Extensions of Hydrodynamic Lattice Gas Automata
Authors: Love Peter
Published: May 2019

We consider quantum extensions of classical hydrodynamic lattice gas models. We find that the existence of local conserved quantities strongly constrains such extensions. We find the only extensions that retain local conserved quantities correspond to changing the local encoding of a subset of the bits. These models maintain separability of the state throughout the evolution and are thus efficiently classically simulable. We then consider evolution of these models in the case where any of the bits can be encoded and measured in one of two local bases. In the case that either encoding is allowed, the models are efficiently classically simulable. In the case that both encoding and measurement is allowed in either basis, we argue that efficient classical simulation is unlikely. In particular, for classical models that are computationally universal such quantum extensions can encode Simon’s algorithm, thus presenting an obstacle to efficient classical simulation.
Effects of a Phenol-Enriched Purified Extract from Olive Mill Wastewater on Skin Cells
Authors: Schlupp Peggy , Schmidts Thomas , Pössl Axel , Wildenhain Sören , Lo Franco Gianni , Lo Franco Antonio , Lo Franco Bandino
Published: May 2019

Olive trees (Olea europaea) and their processed products, such as olive oil, play a major role in the Mediterranean way of life. Their positive impact on human health is being intensely investigated. One research topic is the identification of new application areas of olive mill wastewater (OMWW). OMWW is characterized by the high content of polyphenols possessing many positive health effects. Thus, the phenol-enriched OMWW extract offers the potential for the treatment of skin disorders and for cosmetic application. The aim of the present study was to evaluate cell viability and proliferation, the anti-inflammatory and anti-oxidative properties of a phenol-enriched OMWW extract on an immortal keratinocyte cell line (HaCaT cells). Moreover, the influence on the growth of various microorganisms was investigated; furthermore, the effects on normal human epidermal keratinocytes (NHEK) and human melanoma cells (A375) were studied in a commercially available tumor invasion skin model. The phenol-enriched OMWW extract showed excellent antimicrobial activity. Moreover, a noticeable reduction in reactive oxygen species formation as well as Interleukin-8 release in HaCaT cells were observed. Finally, the inhibited growth of A375 melanoma nodules in the melanoma skin model could be shown. Our results indicate that the OMWW extract is a promising ingredient for dermal applications to improve skin health and skin protection as well as having a positive impact on skin ageing.
Increasing Usability of Homecare Applications for Older Adults: A Case Study
Authors: Panagopoulos Christos , Menychtas Andreas , Tsanakas Panayiotis , Maglogiannis Ilias
Published: May 2019

As the world’s population is ageing, the field dealing with technology adoption by seniors has made headway in the scientific community. Recent technological advances have enabled the development of intelligent homecare systems that support seniors’ independent living and allow monitoring of their health status. However, despite the amount of research to understand the requirements of systems designed for the elderly, there are still unresolved usability issues that often prevent seniors from enjoying the benefits that modern ICT technologies may offer. This work presents a usability assessment of “HeartAround”, an integrated homecare solution incorporating communication functionalities, as well as health monitoring and emergency response features. An assessment with the system usability scale (SUS) method, along with in-depth interviews and qualitative analysis, has provided valuable insights for designing homecare systems for seniors, and validated some effective practical guidelines.
MACE for Diagnosis of Dementia and MCI: Examining Cut-Offs and Predictive Values
Authors: Larner Andrew J.
Published: May 2019

The definition of test cut-offs is a critical determinant of many paired and unitary measures of diagnostic or screening test accuracy, such as sensitivity and specificity, positive and negative predictive values, and correct classification accuracy. Revision of test cut-offs from those defined in index studies is frowned upon as a potential source of bias, seemingly accepting any biases present in the index study, for example related to sample bias. Data from a large pragmatic test accuracy study examining the Mini-Addenbrooke’s Cognitive Examination (MACE) were interrogated to determine optimal test cut-offs for the diagnosis of dementia and mild cognitive impairment (MCI) using either the maximal Youden index or the maximal correct classification accuracy. Receiver operating characteristic (ROC) and precision recall (PR) curves for dementia and MCI were also plotted, and MACE predictive values across a range of disease prevalences were calculated. Optimal cut-offs were found to be a point lower than those defined in the index study. MACE had good metrics for the area under the ROC curve and for the effect size (Cohen’s d) for both dementia and MCI diagnosis, but PR curves suggested the superiority for MCI diagnosis. MACE had high negative predictive value at all prevalences, suggesting that a MACE test score above either cut-off excludes dementia and MCI in any setting.
Do Firms R&D Collaborations with the Science System and Enterprise Group Partners Stimulate Their Product and Process Innovations?
Authors: Odei Samuel Amponsah , Stejskal Jan
Published: May 2019

There is a growing consensus that knowledge drives firms’ process and product innovations. An important source of these innovations is from firms networking with R&D partners, such as those in the science system and other industries in the enterprise group. This paper aimed to examine firms’ innovation collaborations with science systems and enterprise group partners and how these influence their product and process innovations. We focused on firms in the manufacturing sectors in the Czech Republic and Hungary. For our empirical analysis, we used the truncated data from the Eurostat Community Innovation Survey (CIS) 2012–2014, and the binary logistic regression model. Our results have demonstrated that firms’ collaborations with these actors have a discernible positive influence on their product innovations. Conversely, the collaborations with these R&D partners for process innovations produced mixed results for both countries.
Compact Convolutional Neural Network Accelerator for IoT Endpoint SoC
Authors: Ge Fen , Wu Ning , Xiao Hao , Zhang Yuanyuan , Zhou Fang
Published: May 2019

As a classical artificial intelligence algorithm, the convolutional neural network (CNN) algorithm plays an important role in image recognition and classification and is gradually being applied in the Internet of Things (IoT) system. A compact CNN accelerator for the IoT endpoint System-on-Chip (SoC) is proposed in this paper to meet the needs of CNN computations. Based on analysis of the CNN structure, basic functional modules of CNN such as convolution circuit and pooling circuit with a low data bandwidth and a smaller area are designed, and an accelerator is constructed in the form of four acceleration chains. After the acceleration unit design is completed, the Cortex-M3 is used to construct a verification SoC and the designed verification platform is implemented on the FPGA to evaluate the resource consumption and performance analysis of the CNN accelerator. The CNN accelerator achieved a throughput of 6.54 GOPS (giga operations per second) by consuming 4901 LUTs without using any hardware multipliers. The comparison shows that the compact accelerator proposed in this paper makes the CNN computational power of the SoC based on the Cortex-M3 kernel two times higher than the quad-core Cortex-A7 SoC and 67% of the computational power of eight-core Cortex-A53 SoC.
Discriminative Sparsity Graph Embedding for Unconstrained Face Recognition
Authors: Tong Ying , Zhang Jiachao , Chen Rui
Published: May 2019

In this paper, we propose a new dimensionality reduction method named Discriminative Sparsity Graph Embedding (DSGE) which considers the local structure information and the global distribution information simultaneously. Firstly, we adopt the intra-class compactness constraint to automatically construct the intrinsic adjacent graph, which enhances the reconstruction relationship between the given sample and the non-neighbor samples with the same class. Meanwhile, the inter-class compactness constraint is exploited to construct the penalty adjacent graph, which reduces the reconstruction influence between the given sample and the pseudo-neighbor samples with the different classes. Then, the global distribution constraints are introduced to the projection objective function for seeking the optimal subspace which compacts intra-classes samples and alienates inter-classes samples at the same time. Extensive experiments are carried out on AR, Extended Yale B, LFW and PubFig databases which are four representative face datasets, and the corresponding experimental results illustrate the effectiveness of our proposed method.
A Vibration-Based Structural Health Monitoring System for Transmission Line Towers
Authors: Zhao Long , Huang Xinbo , Zhang Ye , Tian Yi , Zhao Yu
Published: May 2019

In this paper, we present a vibration-based transmission tower structural health monitoring system consisting of two parts that identifies structural changes in towers. An accelerometer group realizes vibration response acquisition at different positions and reduces the risk of data loss by data compression technology. A solar cell provides the power supply. An analyser receives the data from the acceleration sensor group and calculates the transmission tower natural frequencies, and the change in the structure is determined based on natural frequencies. Then, the data are sent to the monitoring center. Furthermore, analysis of the vibration signal and the calculation method of natural frequencies are proposed. The response and natural frequencies of vibration at different wind speeds are analysed by time-domain signal, power spectral density (PSD), root mean square (RMS) and short-time Fouier transform (STFT). The natural frequency identification of the overall structure by the stochastic subspace identification (SSI) method reveals that the number of natural frequencies that can be calculated at different wind speeds is different, but the 2nd, 3rd and 4th natural frequencies can be excited. Finally, the system was tested on a 110 kV experimental transmission line. After 18 h of experimentation, the natural frequency of the overall structure of the transmission tower was determined before and after the tower leg was lifted. The results show that before and after the tower leg is lifted, the natural frequencies of each order exhibit obvious changes, and the differences in the average values can be used as the basis for judging the structural changes of the tower.
Design of Broadband W-Band Waveguide Package and Application to Low Noise Amplifier Module
Authors: Doo Jihoon , Park Woojin , Choe Wonseok , Jeong Jinho
Published: May 2019

In this paper, the broadband millimeter-wave waveguide package, which can cover the entire W-band (75–110 GHz) is presented and applied to build a low noise amplifier module. For this purpose, a broadband waveguide-to-microstrip transition was designed using an extended E-plane probe in a low-loss and thin dielectric substrate. The end of the probe substrate was firmly fixed on to the waveguide wall in order to minimize the performance degradation caused by the probable bending of the substrate. In addition, we predicted and analyzed in-band resonances by the simulations that are caused by the empty spaces in the waveguide package to accommodate integrated circuits (ICs) and external bias circuits. These resonances are removed by designing an asymmetrical bias space structure with a radiation boundary at an external bias connection plane. The bond-wires, which are used to connect the ICs with the transition, can generate impedance mismatches and limit the bandwidth performance of the waveguide package. Their effect is carefully compensated for by designing the broadband two-section matching circuits in the transition substrate. Finally, the broadband waveguide package is designed using a commercial three-dimensional electromagnetic structure simulator and applied to build a W-band low noise amplifier module. The measurement of the back-to-back connected waveguide-to-microstrip transition including the empty spaces for the ICs and bias circuits showed the insertion loss less than 3.5 dB and return loss higher than 13.3 dB across the entire W-band without any in-band resonances. The measured insertion loss includes the losses of 8.7 mm-long microstrip line and 41.8 mm-long waveguide section. The designed waveguide package was utilized to build the low noise amplifier module that had a measured gain greater than 14.9 dB from 75 GHz to 105 GHz (>12.9 dB at the entire W-band) and noise figure less than 4.4 dB from 93.5 GHz to 94.5 GHz.
Importance of Reliability Criterion in Power System Expansion Planning
Authors: Slipac Goran , Zeljko Mladen , Šljivac Damir
Published: May 2019

The self-sufficiency of a power system is no longer a relevant issue at the electricity market, since day-to-day optimization and security of supply are realized at the regional or the internal electricity market. Research connected to security of supply, i.e., having reliable power capacities to meet demand, has been conducted by transmission system operators. Some of the common parameters of security of supply are loss of load probability (LOLP) and/or loss of load expectation (LOLE), which are calculated by a special algorithm. These parameters are specific for each power system. This work presents the way of calculating LOLP as well as the optimization algorithm of LOLP, which takes into consideration the particularities of the power system. It also presents a difference in the treatment of LOLP regarding the observed power system and the necessary installed power capacity if applied to the calculated LOLP in relation to the optimized LOLP. As a conclusion, the study analyzed the parameters impact the regional electricity market—where the participants are countries with different development levels and various particularities of power systems—i.e., what it means when the same LOLP criterion is applied to them and the optimized LOLP.
A Fast Method to Compute the Dynamic Response of Induction Motor Loads Considering the Negative-Sequence Components in Stability Studies
Authors: Mao Xiaoming , Chen Junxian
Published: May 2019

This paper deals with the modeling and simulation of induction motor loads in power system stability studies considering the influence of the negative-sequence components. A practical method for computing the dynamic behavior of an induction motor under asymmetric faults is proposed and implemented in MATLAB. The accuracy of the proposed method is verified through classical electromagnetic transient simulations using the PSCAD/EMTDC software package. Compared with the existing traditional transient stability simulations, the method increases a little computational burden yet achieves much better simulation accuracy under asymmetric faults.
Global DNA Methylation in the Limbic System of Cattle
Authors: Cantrell Bonnie , Lachance Hannah , Murdoch Brenda , Sjoquist Julia , Funston Richard , Weaber Robert , McKay Stephanie
Published: May 2019

To elucidate the extent to which DNA methylation varies across multiple tissues in the brain and between animals, we have quantified global DNA methylation in tissues comprising the limbic system for six Red Angus x Simmental steers. Global DNA methylation was measured in nine regions of the bovine brain: amygdala, the bed nucleus of the stria terminalis, cingulate gyrus, dorsal raphe, hippocampus, hypothalamus, nucleus accumbens, periaqueductal gray and prefrontal cortex. DNA methylation varies among animals for each tissue type and varies among tissue types for each animal. The highest amounts of DNA methylation were found in the amygdala, cingulate gyrus and dorsal raphe, while the bed nucleus of the stria terminalis, nucleus accumbens and periaqueductal gray had the lowest amounts of DNA methylation. A heatmap sorted by k-means clustering was generated to graphically display percent DNA methylation in relation to tissue type and animal number. This is the first study to report measures of DNA methylation in the limbic system of the bovine brain and can be used to inform the cattle genomics community of expected variation in cattle brain methylation.
Pretreatment with High-Dose Gamma Irradiation on Seeds Enhances the Tolerance of Sweet Osmanthus Seedlings to Salinity Stress
Authors: Geng Xingmin , Zhang Yuemiao , Wang Lianggui , Yang Xiulian
Published: May 2019

The landscape application of sweet osmanthus (Osmanthus fragrans) with flower fragrance and high ornamental value is severely limited by salinity stress. Gamma irradiation applied to seeds enhanced their tolerance to salinity stress as reported in other plants. In this study, O. fragrans ‘Huangchuang Jingui’ seeds were pretreated with different doses of gamma irradiation, and tolerance of the seedlings germinated from the irradiated seeds to salinity stress and the changes of reactive oxygen species (ROS) production and ROS scavenging systems induced by gamma irradiation were observed. The results showed that seed pretreatment with different doses of gamma irradiation enhanced the tolerance of sweet osmanthus seedlings to salinity stress, and the positive effect induced by gamma irradiation was more remarkable with the increase of radiation dose (50–150 Gy). The pretreatment with high-dose irradiation decreased O2− production under salinity stress and mitigated the oxidative damage marked by a lower malondialdehyde (MDA) level, which could be related to the significant increase of superoxide dismutase (SOD), peroxidase (POD) and catalase (CAT) activities in the seedlings germinated from the irradiated seeds compared to the corresponding control seedlings. In addition, the accumulation of proline in the irradiated seedlings may contribute to enhancing their tolerance to salt stress by the osmotic adjustment. The study demonstrated the importance of regulating plant ROS balance under salt stress and provided a potential approach to improve the tolerance of sweet osmanthus to salt stress.
Hydraulic Characteristics of Populus euphratica in an Arid Environment
Authors: Li Duan , Si Jianhua , Zhang Xiaoyou , Gao Yayu , Wang Chunlin , Luo Huan , Qin Jie , Gao Guanlong
Published: May 2019

Stable hydraulic conductivity in forest trees maintains healthy tree crowns and contributes to productivity in forest ecosystems. Drought conditions break down this relationship, but the mechanisms are poorly known and may depend on drought severity. To increase the understanding of changes in hydraulic conductivity during drought, we determined hydraulic parameters in Populus euphratica Oliv. (P. euphratica) in naturally arid conditions and in a simulated severe drought using a high-pressure flow meter. The results showed that leaf-specific hydraulic conductance (LSC) of leaf blades was less variable in mild drought, and increased significantly in severe drought. Plants attempted to maintain stability in leaf blade LSC under moderate water stress. In extreme drought, LSC was enhanced by increasing hydraulic conductance in plant parts with less hydraulic limitation, decreasing it in other parts, and decreasing leaf area; this mechanism protected the integrity of water transport in portions of tree crowns, and induced scorched branches and partial mortality in other parts of crowns. We conclude that limitation in water supply and elastic regulation of hydraulic characteristics may drive the mortality of tree branches as a result of severe drought. Evaluation of adaptive water transport capacity in riparian plants in arid areas provides a scientific basis for riparian forest restoration.
Transcriptome Sequencing of Different Avocado Ecotypes: de novo Transcriptome Assembly, Annotation, Identification and Validation of EST-SSR Markers
Authors: Ge Yu , Tan Lin , Wu Bin , Wang Tao , Zhang Teng , Chen Haihong , Zou Minghong , Ma Funing , Xu Zining , Zhan Rulin
Published: May 2019

Avocado (Persea americana Mill.) could be considered as an important tropical and subtropical woody oil crop with high economic and nutritional value. Despite the importance of this species, genomic information is currently unavailable for avocado and closely related congeners. In this study, we generated more than 216 million clean reads from different avocado ecotypes using Illumina HiSeq high-throughput sequencing technology. The high-quality reads were assembled into 154,310 unigenes with an average length of 922 bp. A total of 55,558 simple sequence repeat (SSR) loci detected among the 43,270 SSR-containing unigene sequences were used to develop 74,580 expressed sequence tag (EST)-SSR markers. From these markers, a subset of 100 EST-SSR markers was randomly chosen to identify polymorphic EST-SSR markers in 28 avocado accessions. Sixteen EST-SSR markers with moderate to high polymorphism levels were detected, with polymorphism information contents ranging from 0.33 to 0.84 and averaging 0.63. These 16 polymorphic EST-SSRs could clearly and effectively distinguish the 28 avocado accessions. In summary, our study is the first presentation of transcriptome data of different avocado ecotypes and comprehensive study on the development and analysis of a set of EST-SSR markers in avocado. The application of next-generation sequencing techniques for SSR development is a potentially powerful tool for genetic studies.
Combining Global Remote Sensing Products with Hydrological Modeling to Measure the Impact of Tropical Forest Loss on Water-Based Ecosystem Services
Authors: Netzer Michael S. , Sidman Gabriel , Pearson Timothy R.H. , Walker Sarah M. , Srinivasan Raghavan
Published: May 2019

In the Lower Mekong River Basin (LMB), deforestation rates are some of the highest in the world as land is converted primarily into intensive agriculture and plantations. While this has been a key for the region’s economic development, rural populations dependent on the freshwater water resources that support their fishing and agriculture industries are increasingly vulnerable to the impacts of flood, drought and non-point source pollution. Impacts of deforestation on ecosystem services (ES) including hydrological ES that control the availability and quality of fresh water across the landscape, regulating floods and droughts, soil erosion and non-point source pollution are known. Despite this understanding at the hillslope level, few studies have been able to quantify the impact of wide-scale deforestation on larger tropical watersheds. This study introduces a new methodology to quantify the impact of deforestation on water-based ES in the LMB with a focus on Cambodia by combining spatial datasets on forest loss from remote sensing and spatially-explicit hydrological modeling. Numerous global and regional remote sensing products are synthesized to develop detailed land use change maps for 2001 to 2013 for the LMB, which are then used as inputs into a hydrological model to develop unique spatial datasets that map ES changes due to deforestation across the LMB. The results point to a clear correlation between forest loss and surface runoff, with a weaker but upward trending relationship between forest loss and sediment yield. This resulted in increased river discharge for 17 of the 22 watersheds, and increased sediment for all 22 watersheds. While there is considerable variability between watersheds, these results could be helpful for prioritizing interventions to decrease deforestation by highlighting which areas have experienced the greatest change in water-based ES provision. These results are also presented in a web-based platform called the Watershed Ecosystem Service Tool.
Multi-Analytical Approach for Asbestos Minerals and Their Non-Asbestiform Analogues: Inferences from Host Rock Textural Constraints
Authors: Militello Gaia Maria , Bloise Andrea , Gaggero Laura , Lanzafame Gabriele , Punturo Rosalda
Published: May 2019

Asbestos is a hazardous mineral, as well as a common and well-known issue worldwide. However, amphiboles equal in composition but not in morphology, as well as the fibrous antigorite and lizardite, are not classified as asbestos even if more common than other forms of the mineral. Still, their potential hazardous properties requires further exploration. The proposed multi-instrumental approach focuses on the influence of textural constraints on the subsequent origin of asbestiform products in massive rock. This aspect has a significant effect on diagnostic policies addressing environmental monitoring and the clinical perspective. Concerning minerals that are chemically and geometrically (length > 5 μm, width < 3 μm and length:diameter > 3:1) but not morphologically analogous to regulated asbestos, the debate about their potential hazardous properties is open and ongoing. Therefore, a selection of various lithotypes featuring the challenging identification of fibrous phases with critical counting dimensions was investigated; this selection consisted of two serpentinites, one metabasalt and one pyroxenite. The analytical protocol included optical microscopy (OM), scanning and transmission electron microscopy combined with energy dispersive spectrometry (SEM/EDS; TEM/EDS), micro-Raman spectroscopy and synchrotron radiation X-ray microtomography (SR X-ray μCT). The latter is an original non-destructive approach that allows the observation of the fiber arrangement in a three-dimensional space, avoiding morphological influence as a result of comminution.
A Missense Variant in SCN8A in Alpine Dachsbracke Dogs Affected by Spinocerebellar Ataxia
Authors: Letko Anna , Dietschi Elisabeth , Nieburg Marco , Jagannathan Vidhya , Gurtner Corinne , Oevermann Anna , Drögemüller Cord
Published: May 2019

Spinocerebellar ataxias is an umbrella term for clinically- and neuropathologically-heterogeneous early-onset hereditary neurodegenerative diseases affecting several dog breeds. The purpose of this study is to identify the causative genetic variant associated with ataxia, tremor, and loss of balance in Alpine Dachsbracke dogs. We investigated two related litters in which four cases were reported. Neuropathology of two dogs revealed spongy degeneration associated with axonal degeneration. Combined genetic linkage and autozygosity analyses in four cases and eight related controls showed one critical disease-associated interval on chromosomes 27. Private whole-genome sequence variants of one ataxia case against 600 unrelated controls revealed one protein-changing variant within the critical interval in the SCN8A gene (c.4898G>T; p.Gly1633Val). Perfect segregation with the phenotype was confirmed by genotyping >200 Alpine Dachsbracke dogs. SCN8A encodes a voltage-gated sodium channel and the missense variant was predicted deleterious by three different in silico prediction tools. Pathogenic variants in SCN8A were previously reported in humans with ataxia, pancerebellar atrophy, and cognitive disability. Furthermore, cerebellar ataxia syndrome in the ‘jolting’ mutant mice is caused by a missense variant in Scn8a. Therefore, we considered the SCN8A:c.4898G>T variant to be the most likely cause for recessively inherited spinocerebellar ataxia in Alpine Dachsbracke dogs.
Finite Element Modelling of Coupled Fluid-Flow and Geomechanical Aspects for the Sustainable Exploitation of Reservoirs: The Case Study of the Cavone Reservoir
Authors: Benvenuti Elena , Maurillo Giulia
Published: May 2019

The study of the seismogenic mechanical effects induced by oil & gas activities is a socially impacting issue of environmental engineering as well as a challenging task in computational geomechanics. It requires the solution of a coupled problem governed by poroelastic and fluid flow equations in a faulted domain in the presence of in situ stress fields. As a viable alternative to state-of-the-art academical computational models, the present study contributes a simplified methodology based on a commercial Finite Element multiphysics software. The focus is on the evaluation of the link between the oil & gas activities of the Cavone oilfield reservoir, located in North Italy and adjacent to the Mirandola fault, and the recent seismic sequence that struck Emilia in May 2012. An operational coupled fluid-geomechanical procedure is developed where the Cavone reservoir is subjected to the typical in situ stresses, and the nearby Mirandola fault is modelled as an impervious thin layer.
Influence of Climate on Stable Nitrogen Isotopic Values of Contemporary Greek Samples: Implications for Isotopic Studies of Human Remains from Neolithic to Late Bronze Age Greece
Authors: Dotsika Elissavet , Diamantopoulos Georgios
Published: May 2019

In this paper, we study δ15N enrichment as an indicator not only of marine protein diet, but also of climate change. The slope of the variation of δ15N with precipitation was calculated equal to 0.38/100 mm of precipitation for Greek plants, 0.38/100 mm of precipitation for herbivores, and 0.32/100 mm of precipitation for the Greek human population (hair samples). As a case study, the slope was used to re-evaluate the published mean δ15N human bone collagen values from the Early Neolithic to Late Bronze Age for 22 archaeological sites. The results indicate that climate has a significant impact on the final δ15N values of plant and animal tissues. Furthermore, for the same sites, we investigated the intra-site diet patterns, while taking into account the environmental effect on the observed δ15N human bone collagen values.
Microbial Diversity in Sub-Seafloor Sediments from the Costa Rica Margin
Authors: Martino Amanda , Rhodes Matthew E. , León-Zayas Rosa , Valente Isabella E. , Biddle Jennifer F. , House Christopher H.
Published: May 2019

The exploration of the deep biosphere continues to reveal a great diversity of microorganisms, many of which remain poorly understood. This study provides a first look at the microbial community composition of the Costa Rica Margin sub-seafloor from two sites on the upper plate of the subduction zone, between the Cocos and Caribbean plates. Despite being in close geographical proximity, with similar lithologies, both sites show distinctions in the relative abundance of the archaeal domain and major microbial phyla, assessed using a pair of universal primers and supported by the sequencing of six metagenomes. Elusimicrobia, Chloroflexi, Aerophobetes, Actinobacteria, Lokiarchaeota, and Atribacteria were dominant phyla at Site 1378, and Bathyarchaeota, Chloroflexi, Hadesarchaeota, Aerophobetes, Elusimicrobia, and Lokiarchaeota were dominant at Site 1379. Correlations of microbial taxa with geochemistry were examined and notable relationships were seen with ammonia, sulfate, and depth. With deep sediments, there is always a concern that drilling technologies impact analyses due to contamination of the sediments via drilling fluid. Here, we use analysis of the drilling fluid in conjunction with the sediment analysis, to assess the level of contamination and remove any problematic sequences. In the majority of samples, we find the level of drilling fluid contamination, negligible.
Mapping Cultural Heritage in Coastal Areas with UAS: The Case Study of Lesvos Island
Authors: Papakonstantinou Apostolos , Kavroudakis Dimitris , Kourtzellis Yannis , Chtenellis Michail , Kopsachilis Vasilis , Topouzelis Konstantinos , Vaitis Michail
Published: May 2019

Dynamic processes in coastal zones and human activities in the coastal environment produce pressure on cultural heritage, especially in touristic places. Unmanned aerial systems (UAS) are used as an additional tool for monitoring cultural heritage sites in sensitive coastal areas. UASs provide low-cost accurate spatial data and high-resolution imagery products in various spatial and temporal scales. The use of UAS for mapping cultural heritage sites in the coastal zone is of increasing interest among scientists and archaeologists in terms of monitoring, documentation, mapping, and restoration. This study outlines the integration of UAS data acquisition and structure from motion (SfM) pipeline for the visualization of selected cultural heritage areas (ancient harbors) in the coastal zone. The UAS-SfM methodology produces very detailed orthophoto maps for mapping and detecting cultural heritage sites. Additionally, a metadata cataloging system has been developed in order to facilitate online searching operations for all products of the data acquisition, SfM pipeline, and cartographic processes. For this reason, a specific metadata profile was implemented, based on the European INSPIRE framework. As a result, datasets reusability and catalogs interoperability are promoted.
The Association of Black Cardiologists (ABC) Cardiovascular Implementation Study (CVIS): A Research Registry Integrating Social Determinants to Support Care for Underserved Patients
Authors: Ofili Elizabeth , Schanberg Laura , Hutchinson Barbara , Sogade Felix , Fergus Icilma , Duncan Phillip , Hargrove Joe , Artis Andre , Onyekwere Osita , Batchelor Wayne , Williams Marcus , Oduwole Adefisayo , Onwuanyi Anekwe , Ojutalayo Folake , Cross Jo , Seto Todd , Okafor Henry , Pemu Priscilla , Immergluck Lilly , Foreman Marilyn , Mensah Ernest , Quarshie Alexander , Mubasher Mohamed , Baker Almelida , Ngare Alnida , Dent Andrew , Malouhi Mohamad , Tchounwou Paul , Lee Jae , Hayes Traci , Abdelrahim Muna , Sarpong Daniel , Fernandez-Repollet Emma , Sodeke Stephen , Hernandez Adrian , Thomas Kevin , Dennos Anne , Smith David , Gbadebo David , AJULUCHUKWU Janet , Kong B. , McCollough Cassandra , Weiler Sarah , Natter Marc , Mandl Kenneth , Murphy Shawn
Published: May 2019

African Americans, other minorities and underserved populations are consistently under- represented in clinical trials. Such underrepresentation results in a gap in the evidence base, and health disparities. The ABC Cardiovascular Implementation Study (CVIS) is a comprehensive prospective cohort registry that integrates social determinants of health. ABC CVIS uses real world clinical practice data to address critical gaps in care by facilitating robust participation of African Americans and other minorities in clinical trials. ABC CVIS will include diverse patients from collaborating ABC member private practices, as well as patients from academic health centers and Federally Qualified Health Centers (FQHCs). This paper describes the rationale and design of the ABC CVIS Registry. The registry will: (1) prospectively collect socio-demographic, clinical and biospecimen data from enrolled adults, adolescents and children with prioritized cardiovascular diseases; (2) Evaluate the safety and clinical outcomes of new therapeutic agents, including post marketing surveillance and pharmacovigilance; (3) Support National Institutes of Health (NIH) and industry sponsored research; (4) Support Quality Measures standards from the Center for Medicare and Medicaid Services (CMS) and Commercial Health Plans. The registry will utilize novel data and technology tools to facilitate mobile health technology application programming interface (API) to health system or practice electronic health records (EHR). Long term, CVIS will become the most comprehensive patient registry for underserved diverse patients with cardiovascular disease (CVD) and co morbid conditions, providing real world data to address health disparities. At least 10,000 patients will be enrolled from 50 sites across the United States.
Morbi-Mortality of the Victims of Internal Conflict and Poor Population in the Risaralda Province, Colombia
Authors: Rentería-Ramos Rafael , Hurtado-Heredia Rafael , Urdinola B Piedad
Published: May 2019

This work studies the health status of two populations similar in most social and environmental interactions but one: the individuals from one population are victims of an internal armed conflict. Both populations are located in the Risaralda province, Colombia and the data for this study results from a combination of administrative records from the health system, between 2011 and 2016. We implemented a methodology based on graph theory that defines the system as a set of heterogeneous social actors, including individuals as well as organizations, embedded in a biological environment. The model of analysis uses the diagnoses in medical records to detect morbidity and mortality patterns for each individual (ego-networks), and assumes that these patterns contain relevant information about the effects of the actions of social actors, in a given environment, on the status of health. The analysis of the diagnoses and causes of specific mortality, following the Social Network Analysis framework, shows similar morbidity and mortality rates for both populations. However, the diagnoses’ patterns show that victims portray broader interactions between diagnoses, including mental and behavioral disorders, due to the hardships of this population.