Miracle-dz/UniFAR-FTUs huggingface dataset:
GTVseq: A Web-based Genotyping Tool for Viral Sequences

Abstract Genotyping Tool for Viral SEQuences (GTVseq) provides scientists with the genotype information on the viral ge-nome sequences including HIV-1, HIV-2, HBV, HCV, HTLV-1, HTLV-2, poliovirus, enterovirus, flavivirus, Han-tavirus, and rotavirus. GTVseq produces alternative and additive genotype information for the query viral se-quences based on two different, but related, scoring methods. The genotype information produced is re-ported in a graphical manner for the reference genotype matches and each graphical output is linked to the de-tailed sequence alignments between the query and the matched reference sequences. GTVseq also reports the potential 'repeats' and/or 'recombination' sequence re-gion in a separated window. GTVseq does not replace completely other well-known genotyping tools such as NCBI's virus sequence genotyping tool (http://www.ncbi. nlm.nih.gov/projects/genotyping/formpage.cgi), but pro-vides additional information useful in the confirmation or for further investigation of the genotype(s) for the newly isolated viral sequences.Keywords: Genotyping, Recombination, Subtyping, Viral Genome, Viral Sequence, Virus database, Visualization, Web-Server
Multiple introduction of honeybee colonies increases cross-pollination, fruit-set and yield of ‘Black Diamond’ Japanese plum (Prunus salicina Lindl.)

Summary Japanese plum (Prunus salicina Lindl.) belongs to the Rosaceae family, which carries the S-RNase-mediated gametophytic self-incompatibility system, which prevents self-fertilisation, and thus promotes out-crossing. The plum cultivar ‘Black Diamond’® has become, one of the most important cultivars in Israel in the last decade, yet its yield is low in comparison with its known potential. Honeybees (Apis mellifera) are the most important pollinators for plums and several studies have demonstrated an apparent relationship between the number of honeybees and the size of the fruit crop. Therefore, in this study, we focussed on improving bee management in a ‘Black Diamond’ orchard. In four consecutive years of experiments, we examined the effects of increasing the density of bee colonies, and of making multiple introductions of colonies, on honeybee activity and on their effectiveness as pollinators of ‘Black Diamond’. We showed that four separate introductions, each of 0.625 colonies ha–1, every 2 – 3 d from 10% full bloom to 3 d after full bloom, with a total density of only 2.5 colonies ha–1, resulted in the greatest level of fruit set.
Plant Cover Estimation: A Contiguous Daubenmire Frame

lant cover is one of the most measured characteristics of vegetation. Cover is used to describe plant communities by individual species, to describe plantenvironmental interactions within these communities, to monitor effects of changes on plant species within these communities, and to assess restoration or reclamation success of disturbed plant communities. Cover values have been widely used to calculate synthetic variables such as diversity indices and plant community coefficients. Individual plant species cover has been used to develop models for prediction of individual species biomass.
An integrated field and remote sensing approach for mapping Seagrass Cover, Moreton Bay, Australia

Creating accurate maps of seagrass cover is a challenging procedure in coastal waters with variable water clarity and depths. This paper presents an approach for mapping seagrass cover from data sources commonly collected by natural resource management agencies responsible for coastal environments. The aim of the study was to develop an approach for mapping classes of seagrass cover from field and/or image data for an area with variable water clarity and depths. The study was carried out in Moreton Bay in eastern Australia. A Landsat 5 Thematic Mapper satellite image was acquired for the same area in August 2004. The image data were used to map seagrass cover in the exposed inter‐tidal and clear shallow water areas to depths of 3 m. Field survey data were collected, in July – August 2004, to map deep (> 3 m) and turbid sub‐tidal areas, using: real time video, snorkeller observations and transect surveys . The resulting maps were combined into a single layer of polygons, with the same seagrass cover classes used as existing mapping programs and with each polygon assigned to one of five cover classes (0 %, 1–25 %, 25–50 %, 50–75 %, 75–100 %). As independent field data were not available for accuracy assessment, a reliability assessment indicated that > 75 percent of the Bay was mapped with high categorical reliability. Most previously published seagrass mapping projects covered areas < 400 km2, were based on single data sets, and lacked assessment of accuracy or reliability. Our approach and methods address this gap and present guidelines for a generally applicable method to integrate image and field data sets over large areas (> 1000 km2) commonly used for monitoring and management.
Do Institutional Investors Herd in Emerging Markets? Evidence from the Taiwan Stock Market

This study employs daily trading data to examine the herding behavior of institutional investors in Taiwan’s stock market. Our results show evidence of herding for institutional investors; indeed, they would follow both other institutional trades and their own trades. We also find that institutional investors are not driven principally by impulse or instinct and that “herded into” stocks do not exhibit unusual return reversals. Moreover, the intensity of herding is negatively related to firm size, which suggests that institutional herding in Taiwan’s stock market is driven primarily by information cascades. Keywords: Institutional investor, Herding behavior, Information cascade, Emerging markets JEL Classifications : G11, G20, N25
Intertemporal approach to the current account: evidence from Malaysia and Indonesia

This article presents an application of the intertemporal approach to the current account positions of Indonesia and Malaysia over the past four decades. Comparing the results for these two emerging market economies, the model performed noticeable better for Malaysia. Meanwhile, Indonesia’s external imbalances revealed the followings: deficits of the mid-1980s and 1990s prior to the 1997 crisis appeared to be an unsustainable path; surpluses during the post-crisis period deviated from the ‘optimal path’ significantly, implying that savings had reached a level that was beyond what would be required to support full ‘consumption-smoothing’; and capital movements appeared to be excessively volatile.
Antiparasitic Efficacy of Artemisia ludoviciana Nutt. (Asteraceae) Essential Oil for Acanthamoeba castellanii, Leishmania infantum and Trichomonas vaginalis

Background: Artemisia ludoviciana Nutt. (Asteraceae) is an aromatic, herbaceous, perennial plant and known commonly name as “White Sage”, “Black Sage”, “Prairie Sage” or “Cudweed Sagewort”. It is traditionally used as an antispasmodic, anthelminthic, antidiarrhoeal, stomachic, hepatic colic, appetizer, and regulator of menstruation, antimalaric and antiparasitic efficiancy. Objective: The essential oil composition of the flowering herb of A. ludoviciana (AL) was investigated and for the first time, the oil was screened for antiparasitic activity. Methods: The chemical composition of the hydrodistilled essential oil (EO) obtained from the herb with flowered of A. ludoviciana was analyzed by Gas Chromatography–Flame Ionization Detector (GC-FID) and Gas Chromatography–Mass Spectrometry (GC-MS). Results and Discussion: The outcomes showed that the major components of oil were camphor (40.6%), 1,8-cineole (25.5%) and camphene (4.7%), among 45 identified compounds, comprising 98.5 of the total oil. In addition, the oil was tested against Acanthamoeba castellanii, Leishmania infantum and Trichomonas vaginalis. Conclusion: In this study, it is first demonstrated that A. ludoviciana essential oil (AL-EO) is effective against three important parasites.
Pre-Contract Assumptions in Practice: A qualitative study of the flexibility to changes in DBFM contracts - Blankenburgverbinding project case study

qualitative study on the flexibility to changes in DBFM contracts BlankenburgVerbinding Project case study In: Raiden, A B and Aboagye-Nimo, E (Eds) Procs 31 st Annual ARCOM Conference, 7-9 September 2015, Lincoln, UK, Association of Researchers in Construction Management, 53-62. PRE-CONTRACT ASSUMPTIONS IN PRACTICE: A QUALITATIVE STUDY ON THE FLEXIBILITY TO CHANGES IN DBFM CONTRACTS BLANKENBURGVERBINDING PROJECT CASE STUDY
Interactive comment on “Quantifying the impacts of human water use and climate variations on recent drying of Lake Urmia basin: the value of different sets of spaceborne and in-situ data for calibrating a hydrological model” by Seyed-Mohammad Hosseini-Moghari et al

This manuscript uses WaterGAP Global Hydrology model to quantify the effects of human water use on inflow to Lake Urmia, lake water volume, and groundwater. The model was manually calibrated 4 for time using different observation data sets (remote sensing of irrigated area, monthly total water storage anomaly, insitu observations of stream flow, and groundwater levels from 284 wells). Strengths of the work include a focus on the pressing problem or Lake Urmia decline and identification of the effects on groundwater. With these strengths, there are also several issues that I feel need to C1
Public Perception of Science: Mapping the Concepts of Brazilian Undergraduate Students of the State of Sao Paulo through Structural Equation Modeling

Once modern society depends in large-scale of scientific development, the degree of association between scientific knowledge and attitudes toward science has historical, social and political implications. In this sense, it becomes crucial to analyze the public attitudes regarding to science as these are related to the changing context of scientific practices and their implications for practical problems. Thus, we developed a survey instrument that allowed us to assess the causal relationships and correlations between conceptions, attitudes and socio-demographic factors in relation to science, using as a mediator theme the genetic engineering. Among the socio-demographic factors are included: gender, age, income, religion, schooling, consumption of information provided by the media, perception of knowledge and personal experience. For the composition of the sample, students from various undergraduate courses from public and private institutions were selected. The data were analyzed quantitatively by structural equation modeling. The results show that the conceptions that people have about science directly and positively influence their attitudes towards science. The social factors have their weight, but on a much smaller scale.
Spiral Strand Cables Subjected to High Velocity Fragment Impact

This paper presents a numerical and experimental study on high-strength steel spiral strand cables when subjected to high velocity fragment impact. Spiral strand cables, 60 mm in diameter, manufactured from 120 wires were subjected to impact by 20 mm fragment simulating projectiles travelling at velocities between 200 and 1400 m/s. Full 3D non-linear finite element models were developed for the numerical analysis and carefully compared to the experimental impact tests. The penetration and perforation resistance of the cables and the magnitudes of localised fragment impact damage were studied with respect to the fragment impact velocity. This study found that for each fragment impact velocity, the cable penetration depth was less than half of the cable diameter, thus demonstrating a reasonable amount of resilience to fragment impact. Considering the damage sustained, the residual cable breaking strengths were estimated and found to be still higher than the minimum breaking load of an un-damaged cable. The numerical models were also able to reproduce the main features of the impact tests, including the extent of localised damage area, the fragment penetration depth and mode of individual wire failures, thus demonstrating their potential to be used in industry for structural robustness assessments by risk analysts.
Invasive plant ecosystem engineer facilitates community and trophic level alteration for brackish marsh invertebrates

Wetland habitats are becoming increasingly scarce worldwide while experiencing exceptionally high levels of plant invasion. Invasive plant species affect ecosystems through numerous avenues, including acting as ecosystem engineers, contributing unique plant functional traits, and altering trophic dynamics. We examined the impacts of the invasive weed Lepidium latifolium on soil-dwelling and canopy-dwelling invertebrate communities in a brackish marsh of northern California. Invertebrate abundance, species richness, diversity, and community composition were measured in both invaded and non-invaded areas of the marsh in four time periods that correspond with different L. latifolium phenologic phases. We observed these different stages of L. latifolium, and we recorded alterations in the habitat structure provided by L. latifolium as the plant entered senescence. L. latifolium had differential impacts on the two invertebrate communities studied. The presence of L. latifolium increased abundance of soil-dwell.
Gauge Invariance in Classical Electrodynamics 1

RÉSUMÉ. Le concept de l’invariance de jauge dans l’électrodynamique classique suppose tacitement que les équations de Maxwell possèdent des solutions uniques. Mais en calculant le champ électromagnétique d’une particule en mouvement faisant usage de la jauge de Lorenz ainsi que de la jauge de Coulomb, et résolvant directement les équations des champs nous obtenons des solutions contradictoires. Nous concluons donc que l’hypothèse tacite de l’unicité de la solution n’est pas justifiée. La raison pour cette difficulté peut être attribuée aux équations d’onde inhomogènes qui connectent simultanément les champs propageants et leurs sources.
Siting and Distribution of Framework Aluminium Atoms in Silicon-Rich Zeolites and Impact on Catalysis

Siting of Al atoms in the framework T sites, in zeolite rings and channel/cavity system, and the distribution of Al atoms between single Al atoms and close Al atoms in various Al-O-(Si-O)n-Al sequences in Si-rich zeolites represent key parameters controlling properties of counter ion species. Framework Al siting and distribution is not random or controlled by simple rules and depends on the conditions of the zeolite synthesis. Al in Al-O-(Si-O)2-Al in one 6-MR and single Al atoms predominate in Si-rich zeolites and their population can be varied to a large extent. The siting and distribution of framework Al atoms dramatically affect catalytic activity/selectivity both of protonic and transition metal ion-containing zeolite catalysts.
Molecular taxonomy and phylogeography of Miniopterus schreibersii (Kuhl, 1817) (Chiroptera: Vespertilionidae), in the Eurasian transition

Miniopterus schreibersii is a polytypic bat species, with one of the widest distribution ranges among the mammals. We studied the genetic differentiation and taxonomy of this species in the transition zone between south-eastern Europe and Anatolia (in Asia), where two subspecies have been described. The results indicated a sharp genetic break between the samples from western Anatolia and south-eastern Europe and those of eastern Anatolia. In addition, the samples from western Anatolia and south-eastern Europe were seen to be reciprocally monophyletic, although the differentiation was less drastic. These patterns of genetic differentiation suggest the presence of two distinct groups within the M. schreibersii complex in the region, concordant with previous subspecific recognition. The cause of this genetic break is most likely differentiation in separate glacial refugia followed by secondary contact. However, more samples are needed to assess whether these represent different species, as well as to understand more clearly the causes of this differentiation. © 2006 The Linnean Society of London, Biological Journal of the Linnean Society, 2006, 87, 577–582.
Thymosin α1-Based Immunomodulatory Therapy for Sepsis: A Meta-Analysis with Trial Sequential Analysis of Randomized Controlled Trials

Background: Preclinical studies suggest that thymosin α1 has immunoregulatory and anti-inflammatory properties in various septic models. However, whether these effects will transform into improved outcomes in humans with sepsis remains unclear. We performed a meta-analysis to define the role of thymosin α1-based immunomodulatory therapy in sepsis.Methods: We searched Medline and Embase to identify randomized controlled trials that assessed the effect of thymosin α1-based immunomodulatory therapy compared with standard care for adults with sepsis. We calculated risk ratios (RRs) with 95% confidence intervals (CIs) using a random-effects model. The primary outcome was 28-day mortality.Results: Nine articles with 10 trials involving 1425 patients were included. Compared with standard care, thymosin α1-based immunomodulatory therapy was associated with a significant 31% relative risk reduction of 28-day mortality (RR 0.69, 95% CI 0.60-0.80, P<0.001), with no statistical heterogeneity (I2=0%). The benefit was confirmed by trial sequential analysis and was consistent across all subgroup analyses. For secondary outcomes, thymosin α1-based immunomodulatory therapy was associated with shorter length of intensive care unit (ICU) stay and duration of mechanical ventilation, increased T lymphocyte subsets (CD3+, CD4+, and CD4+/CD8+), and decreased inflammatory mediators (tumor necrosis factor-α, interleukin-1β, and interleukin-6). Conclusions: Thymosin α1-based immunomodulatory therapy decreases 28-day mortality in patients with sepsis. The benefit might be attributed to its immunomodulatory and anti-inflammatory effects. However, caution should be used to translate these findings to clinical practice, because current evidence is potentially subject to bias. Hence, high-quality and adequately powered trials are still warranted. Citation: Wan-Jie Gu, Xiao-Ping Gu, Zheng-Liang Ma. Thymosin α1-based immunomodulatory therapy for sepsis: a meta-analysis with trial sequential analysis of randomized controlled trials. J Anesth Perioper Med 2017; x: x-x. doi:10.24015/JAPM.2017. 0017This is an open-access article, published by Evidence Based Communications (EBC). This work is licensed under the Creative Commons Attribution 4.0 International License, which permits unrestricted use, distribution, and reproduction in any medium or format for any lawful purpose. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
Sugarcane powder biofortified with kefir grains: effect of spray drying process

The Spray Drying process of sugarcane concentrate fermented with Kefir Grains was evaluated using Response Surface Methodology based on the following independent variables: Air Inlet Temperature (AIT) (120-140oC), Air Outlet Temperature (AOT) (65-75°C), and Atomizing Disk Speed (ADS) (20000-25000 rpm). Results were analyzed using the Design Expert 8.0. 5.2 software, and the following conditions were found to be optimal: AIT 125oC, AOT 65oC, and ADS 25000 rpm. Likewise, optimal values for dependent variables were: moisture = 3.4±0.6%, aw = 0.210±0.030, solubility = 97.54±0.01%, fractal dimension = 2.64±0.04, particle sizes (D(3,2) = 14.78 μm and D(4,3) = 35.9 μm), yield = 81.5±8.3%, and lactobacilli, lactococci and yeast survival = 85.4, 67.1 and 74.9%, respectively. Results showed that, at optimal conditions for spray drying, the process has a good yield and produces a stable powder food with good levels of microorganisms from KG. It is also very soluble in aqueous phases, which facilitates its use as a reconstituted beverage or as an ingredient in several industries. 3064 Misael Cortés Rodríguez et al.
The Effects of Job Satisfaction towards Employee Turnover in the Hotel Industry: A Case Study of Hotels in Kuala Lumpur City Center

The hospitality sector is labeled as a service sector which provides services to their guest. The industry requires manpower to cope and provide to the guest demands. This situation creates the industry to be labor intensive. How about manpower supply to the industry? Over the years employee turnover has become part of the industries challenge to retain and employ new workforce. The research was to understand the determinants of Job Satisfaction and Effects on Employee Turnover in the hotels. The focus was on the Hospitality industry Food and Beverage department Operational Employees. The research tried to assess the determinants of Job satisfaction and their decision to quit therefore creating a situation of Turnover. The research revealed that Job Performance influenced Turnover where Choice of Work doesn’t and the main factors of Job Satisfaction that lead to turnover were Wages/ Salary and Opportunity for advancement/Career progression. The analysis also revealed that there need to be a balance in order to attract and maintain potential employees as all factors that affect Job Satisfaction directly leads to turnover.
Testing the robustness and limitations of 0 – 1 Ma absolute paleointensity data

Absolute paleomagnetic field intensity data derived from thermally magnetized lavas and archeological objects provide information about past geomagnetic field behavior, but the average field strength, its variability, and the expected statistical distribution of these observations remain uncertain despite growing data sets. We investigate these issues for the 0–1 Ma field using data compiled in Perrin and Schnepp [Perrin, M. , Schnepp, E. , 2004. IAGA paleointensity database: distribution and quality of the data set. Phys. Earth Planet. Int. 147, 255–267], 1124 samples of heterogeneous quality and with restricted temporal and spatial coverage. We accommodate variable spatial sampling by using virtual axial dipole moments (VADM) in our analyses. Uneven temporal sampling results in biased estimates for the mean field and its statistical distribution. We correct for these effects using a bootstrap technique, and find an average VADM of 7.26 ± 0.14 × 1022 A m2. The associated statistical distribution appears bimodal with a subsidiary peak at approximately 5 × 1022 A m2. We evaluate a range of potential sources for this behavior. We find no visible evidence for contamination by poor quality data when considering author-supplied uncertainties in the 0–1 Ma data set. The influence of material type is assessed using independent data compilations to compare Holocene data from lava flows, submarine basaltic glass (SBG), and archeological objects. The comparison to SBG is inconclusive because of dating issues, but paleointensity estimates from lavas are on average about 10% higher than for archeological materials and show greater dispersion. Only limited tests of geographic sampling bias are possible. We compare the large number of 0–0.55 Ma Hawaiian data to the global data set with no definitive results. The possibility of over-representation of typically low intensity excursional data is discounted because exclusion of transitional data still leaves a bimodal distribution. No direct test has allowed us to rule out the idea that the observed pdf results from a mixture of two distinct distributions corresponding to two identifiable intensity states for the magnetic field. We investigate an alternative possibility that we were simply unable to recover a hypothetically smoother underlying distribution with a time span of only 1 Myr and the resolution of the current data set. Simulations from a stochastic model based on the geomagnetic field spectrum demonstrate that long period intensity variations can have a strong impact on the observed distributions and could plausibly explain the apparent bimodality. Our 0–1 Ma distribution of VADMs is consistent with that obtained for average relative paleointensity records derived from sediments. © 2008 Elsevier B.V. All rights reserved.