Miracle-dz/UniFAR-FTUs huggingface dataset:
Genome-wide in silico identification, characterization and transcriptional analysis of the family of growth-regulating factors in common bean (Phaseolus vulgaris l.) subjected to polyethylene glycol-induced drought stress

According to most recent findings, growth regulating factors (GRFs) are plant-specific transcription factors (TFs) that play important roles in many processes, including abiotic and biotic stress response mechanisms. Completion of the common bean ( Phaseolus vulgaris ) genome project has provided researchers with the opportunity to identify all GRF genes in this species. With this aim, a genome-wide in silico study was performed and 10 GRF proteins (called PhvGRFs) were identified in the common bean genome. Conserved and mandatory motifs (QLQ and WRC) were confirmed in all identified PhvGRFs and two segmental duplication events were determined. Most of the PhvGRFs were found to be more similar to Arabidopsis thaliana GRFs than to Zea mays GRFs in a phylogenetic tree. According to the expression analysis of 10 PhvGRF s, inversely related expression patterns were observed in the roots of Yakutiye and Zulbiye cultivars based on their capacity to adopt to drought stress. After drought treatment of the Zulbiye cultivar, a drought-sensitive common bean cultivar, PhvGRF1, PhvGRF2, PhvGRF3, PhvGRF5, PhvGRF6, PhvGRF9 and PhvGRF10 genes were upregulated 2- to 4-fold in root tissues, as compared to the untreated control. The trend of PhvGRF1, PhvGRF2, PhvGRF3, PhvGRF5, PhvGRF6, PhvGRF7, PhvGRF9 and PhvGRF10 genes showed a consistent decline of 2- to 6-fold in root tissues of the drought-tolerant Yakutiye cultivar subjected to 24 h of drought stress. We demonstrated that the expression patterns of the identified PhvGRF s correlated with the drought-stress response in a cultivar-specific manner in the common bean. We suggest that members of the GRF family can also be used for genetic engineering applications in the common bean. DOI: 10.2298/ABS160204033B Received: February 4, 2016; Revised: March 21, 2016; Accepted: March 25, 2016; Published online: April 4, 2016 How to cite this article: Buyuk I, Aras S. Genome-wide in silico identification, characterization and transcriptional analysis of the family of growth-regulating factors in common bean (Phaseolus vulgaris l.) subjected to polyethylene glycolinduced drought stress. Arch Biol Sci. 2017;69(1):5-14.
Decision making styles in Australia, Malaysia and Singapore

This paper is an exploration of culture and the conflict model of decision making [1]. Six hundred and seventy three students in Austrlaia, Malaysia and Singapore were tested on the Melbourne Decision Making Qeustionnaire [2] to explore cultural differences between these three countries. Vigilance was reported as higher for Malaysian students compared to Australia and Singapore. Decision self esteem was reported as higher for Australians than the other two countries. Hyper-vigilance was reported as higher for Malaysia than the other two countires, while buck-passing and procrastination was reported as higher for Australia and Singapore. There were no differences reported on defensive avoidance and rationalization. These results are discussed in terms of cultural differences.
Insight into anthropogenic forcing on coastal upwelling off south-central Chile

Coastal upwelling systems off the coasts of Peru and Chile are among the most productive marine ecosystems in the world, sustaining a significant percentage of global primary production and fishery yields. Seasonal and interannual variability in these systems has been relatively well documented; however, an understanding of recent trends and the influence of climate change on marine processes such as surface cooling and primary productivity is limited. This study presents evidence that winds favorable to upwelling have increased within the southern boundary of the Humboldt Current System (35 ° –42 ° S) in recent decades. This trend is consistent with a poleward movement of the influence of the Southeast Pacific Anticyclone and resembles the spatial pattern projected by Global Circulation Models for warming scenarios. Chlorophyll a levels (from 2002 to present) determined by satellite and field-based time-series observations show a positive trend, mainly in austral spring–summer (December–January–February), potentially explained by observed increments in nutrient flux towards surface waters and photosynthetically active radiation. Both parameters appear to respond to alongshore wind stress and cloud cover in the latitudinal range of 35 ° S to 42 ° S. In addition, net annual deepening of the mixed layer depth is estimated using density and temperature profiles. Changes in this depth are associated with increasing winds and may explain cooler, more saline, and more productive surface waters, with the latter potentially causing fluctuations in dissolved oxygen and other gases, such as nitrous oxide, sensitive to changes in oxygenation. We argue that these recent changes represent, at least in part, a regional manifestation of the Anthropocene along the Chilean coast.
Determination of PCDD/F Levels in Wood Shavings Used as Bedding Material for Poultry Production

During 2006 and 2011, following the implementation of dioxin contamination monitoring in poultry meat, levels higher than legally allowed in meat from poultry slaughtered for human consumption, were found. The wood shavings used as bedding material in the poultry farm showed considerable high contaminations, indicating that these materials were the likely source of contamination of the animals. Wood shavings samples (n = 23), used as poultry litters in intensive farms of broilers, were analysed. In both episodes, contamination profiles of higher and lower concentrations, seem to be very similar, being OCDD, OCDF, 1,2,3,4,6,7,8-HpCDD and 1,2,3,4,6,7,8-HpCDF responsible for 97.4 % of the total contamination. The present work describes the analytical adapted, used methodology and the specific clean-up procedures, which revealed that recoveries of 13C12-Labelled compounds added to the wood shavings samples ranged from 71.3% to 86.3%.
Determining natal sources of capelin in a boreal marine park using otolith microchemistry

Determining natal sources of capelin in a boreal marine park using otolith microchemistry Angélique V. Lazartigues*, Stéphane Plourde, Julian J. Dodson, Olivier Morissette, Patrick Ouellet, and Pascal Sirois Département des Sciences Fondamentales, Laboratoire des Sciences Aquatiques, Université du Québec a Chicoutimi, 555 boulevard de l’Université, Chicoutimi, QC G7H 2B1, Canada Direction Régionale Des Sciences Océaniques, Institut Maurice-Lamontagne, Pêches et Océans Canada, 850 route de la Mer, Mont-Joli, QC G5H 3Z4, Canada Département de Biologie, Pavillon Alexandre-Vachon, Université Laval, Québec, QC G1K 7P4, Canada *Corresponding author: tel: þ1 418-545-5011 #5658; fax: þ1 418-615-1203; e-mail: alazartigues@yahoo.fr.
Understanding the tribological impacts of alkali element on lubrication of binary borate melt

Melt lubricants have been regarded as an effective class to deliver lubrication on moving mechanical contacts at extreme temperatures. Among the elementary constituents, alkali elements play a critical role in governing the physical–chemical characteristics of the lubricant despite the obscurity regarding their intrinsic roles on the rubbing interfaces. The present study attempts to unfold the effects of sodium on the tribological responses of mating steel pair under borate melt lubrication. It has been found that the involvement of Na inspires a total reversal in lubricating potentials of the lone B2O3 melt manifested by remarkable friction reduction, wear inhibition and prolonged load-bearing capacity. These exceptional performances are attributed to the accretion of nanothin Na layers on the contact interfaces. The interfacial occurrences are interpreted from a physico-chemistry perspective while the influences of surface microstructure are also discussed in detail. Multiple characterizations are employed to thoroughly examine the sliding interfaces in multi-dimensions including Scanning Electron Microscopy (SEM), Scanning Transmission Electron Microscopy (STEM) and Atomic Force Microscopy (AFM). In addition, chemical fingerprints of relevant elements are determined by Energy Dispersive Spectroscopy (EDS) and Electron Loss Energy Spectroscopy (EELS).
Tax Enforcement Problems

We study an income tax enforcement problem using a principal-agent model where the government sets the tax and inspection functions. These are announced to the agents and there is no commitment problem. The penalty function for dishonest taxpayers is given exogenously and satisfies certain social norms. We prove that, for a large family of penalty functions, this policy is such that honesty implies regressiveness. This result does not depend on the fact that agents know the true probability of inspection.
Steady and unsteady analysis of NACA 0018 airfoil in vertical-axis wind turbine

Numerical results are presented for aerodynamic unsteady and steady airfoil characteristics of the NACA 0018 airfoil of a two-dimensional vertical-axis wind turbine. A geometrical model of the Darrieus-type wind turbine and the rotor operating parameters used for numerical simulation are taken from the literature. Airfoil characteristics are investigated using the same mesh distribution around the airfoil edges and two turbulence models: the RNG k-" and the SST Transition. Computed results for the SST Transition model are in good agreement with the experiment, especially for static airfoil characteristics.
Fitting Together the H I Absorption and Emission in the Southern Galactic Plane Survey

In this paper we study 21 cm absorption spectra and the corresponding emission spectra toward bright continuum sources in the test region (326° < l < 333°) of the Southern Galactic Plane Survey. This survey combines the high resolution of the Australia Telescope Compact Array with the full brightness temperature information of the Parkes single-dish telescope. In particular, we focus on the abundance and temperature of the cool atomic clouds in the inner Galaxy. The resulting mean opacity of the H I, , is measured as a function of Galactic radius; it increases going in from the solar circle, to a peak in the molecular ring of about 4 times its local value. This suggests that the cool phase is more abundant there, and colder, than it is locally. The distribution of cool-phase temperatures is derived in three different ways. The naive, "spin temperature" technique overestimates the cloud temperatures, as expected. Using two alternative approaches, we get good agreement on a histogram of the cloud temperatures, Tcool, corrected for blending with warm-phase gas. The median temperature is about 65 K, but there is a long tail reaching down to temperatures below 20 K. Clouds with temperatures below 40 K are common though not as common as warmer clouds (40-100 K). Using these results, we discuss two related quantities, the peak brightness temperature seen in emission surveys and the incidence of clouds seen in H I self-absorption. Both phenomena match what would be expected based on our measurements of and Tcool.
LARGE TIME BEHAVIOR OF A COMPLEX NETWORK OF REACTION-DIFFUSION SYSTEMS OF FITZHUGH-NAGUMO TYPE

We focus on the long time behavior of complex networks of reactiondiffusion (RD) systems. We prove the existence of the global attractor and a L∞-bound for a network of n RD systems with d variables each. This allows us to prove the identical synchronization for general class of networks and establish the existence of a coupling strength threshold value that ensures such a synchronization. Then, we apply these results to some particular networks with different structures (i.e. different topologies) and perform numerical simulations. We found out theoretical and numerical heuristic laws for the minimal coupling strength needed for synchronization relatively to the number of nodes and the network topology, and discuss the link between spatial dimension and synchronization. Reaction-Diffusion systems, complex networks, attractor, synchronization.
Critical Revision and Development Perspectives of Herbicide Residues Analysis in Agro Ecosystems

Veronica Cesio1, Lucia Pareja1, Silvina Niell1, Lucia Geis Asteggiante1, Bernardo Bocking2, Claudio Garcia3, Grisel Fernandez4, Amadeo R. Fernandez-Alba5 and Horacio Heinzen1 1Farmacognosia y Productos Naturales, Facultad de Quimica UDELAR General Flores 2124, Montevideo 11800, 2Donistar S.C, Col. Rubio, Salto, 3INIA Las Brujas, Las Brujas, Canelones, 4Malherbologia EEMAC, Facultad de Agronomia, UDELAR Km366 Ruta 3 Paysandu, 5 Grupo de Investigacion de Laboratorio de Residuos de Plaguicidas, Almeria, Universidad de Almeria, Canada de San Urbano s/n, Almeria 1,2,3,4Uruguay 5Spain
Constraining the warm dark matter particle mass with Milky Way satellites

Particle physics theories predict the existence of particles (such as keV mass sterile neutrinos) which could behave as warm dark matter (WDM), producing a cutoff in the linear density power spectrum on the scale of dwarf galaxies. Thus, the abundance of Milky Way satellite galaxies depends on the mass of the warm particle and also scales with the mass of the host galactic halo. We use the GALFORM semi-analytic model of galaxy formation to compare predicted satellite luminosity functions to Milky Way data and determine a lower bound on the thermally produced WDM particle mass. This depends strongly on the Milky Way halo mass and, to some extent, on the baryonic physics assumed. For our fiducial model, we find that for a particle mass of 3.3 keV (the 2σ lower limit from an analysis of the Lyman α forest by Viel et al.) the Milky Way halo mass is required to be >1.4 × 1012 M⊙. For this same fiducial model, we also find that all WDM particle masses are ruled out (at 95 per cent confidence) if the Milky Way halo mass is smaller than 1.1 × 1012 M⊙, while if the mass of the Galactic halo is greater than 1.8 × 1012 M⊙, only WDM particle masses larger than 2 keV are allowed.
Journal of Geophysical Research: Earth Surface Linking the morphology of ﬂuvial fan systems to aquifer stratigraphy in the Sutlej-Yamuna plain of northwest India

The Indo-Gangetic foreland basin has some of the highest rates of groundwater extraction in the world, focused in the states of Punjab and Haryana in northwest India. Any assessment of the eﬀects of extraction on groundwater variation requires understanding of the geometry and sedimentary architecture of the alluvial aquifers, which in turn are set by their geomorphic and depositional setting. To assess the overall architecture of the aquifer system, we used satellite imagery and digital elevation models to map the geomorphology of the Sutlej and Yamuna fan systems, while aquifer geometry was assessed using 243 wells that extend to ∼ 200 m depth. Aquifers formed by sandy channel bodies in the subsurface of the Sutlej and Yamuna fans have a median thickness of 7 and 6 m, respectively, and follow heavy-tailed thickness distributions. These distributions, along with evidence of persistence in aquifer fractions as determined from compensation analysis, indicate persistent reoccupation of channel positions and suggest that the major aquifers consist of stacked, multistoried channel bodies. The percentage of aquifer material in individual boreholes decreases down fan, although the exponent on the aquifer body thickness distribution remains similar, indicating that the total number of aquifer bodies decreases down fan but that individual bodies do not thin appreciably, particularly on the Yamuna fan. The interfan area and the fan marginal zone have thinner aquifers and a lower proportion of aquifer material, even in proximal locations. We conclude that geomorphic setting provides a ﬁrst-order control on the thickness, geometry, and stacking pattern of aquifer bodies across this critical region.
Water loss from terrestrial planets orbiting ultracool dwarfs: implications for the planets of TRAPPIST-1

Ultracool dwarfs (UCD) encompass the population of extremely low mass stars (later than M6-type) and brown dwarfs. Because UCDs cool monotonically, their habitable zone (HZ) sweeps inward in time. Assuming they possess water, planets found in the HZ of UCDs have experienced a runaway greenhouse phase too hot for liquid water prior to entering the HZ. It has been proposed that such planets are desiccated by this hot early phase and enter the HZ as dry, inhospitable worlds. Here we model the water loss during this pre-HZ hot phase taking into account recent upper limits on the XUV emission of UCDs and using 1D radiation-hydrodynamic simulations. We address the whole range of UCDs but also focus on the planets b, c and d recently found around the 0:08 M dwarf TRAPPIST-1. Despite assumptions maximizing the FUV-photolysis of water and the XUV-driven escape of hydrogen, we find that planets can retain significant amounts of water in the HZ of UCDs, with a sweet spot in the 0:04 ‐ 0:06 M range. With our assumptions, TRAPPIST-1b and c can lose as much as 4 Earth Ocean but planet d ‐ which may be inside the HZ depending on its actual period ‐ may have kept enough water to remain habitable depending on its initial content. TRAPPIST-1 planets are key targets for atmospheric characterization and could provide strong constraints on the water erosion around UCDs.
Role of fasciae around the median nerve in pathogenesis of carpal tunnel syndrome: microscopic and ultrasound study

This study investigated the connections between the median nerve paraneural sheath and myofascial structures near it, from both macroscopic and microscopic points of view. Four samples of median nerve and surrounding tissues were excised from nine non‐embalmed upper limbs for microscopic analysis. Ultrasound images were analysed in 21 healthy subjects and 16 carpal tunnel syndrome patients to evaluate median nerve transversal displacement during finger motion at carpal tunnel and forearm levels. An anatomical continuity between epimysium and paraneural sheath and a reduction of paraneural fat tissue from proximal to distal was found in all samples. Median nerve displacements at both levels were significantly reduced in carpal tunnel syndrome subjects (P < 0.001). It was observed that the median nerve is not an isolated structure but is entirely connected to myofascial structures. Therefore, unbalanced tension of epimysial fasciae can affect the paraneural sheath, limiting nerve displacement, and consequently this must be included in carpal tunnel syndrome pathogenesis.
Combining Co-Training with Ensemble Learning for Application on Single-View Natural Language Datasets

In this paper we propose a novel semi-supervised learning algorithm, called Random Split Statistic algorithm (RSSalg), designed to exploit the advantages of co- training algorithm, while being exempt from co-training requirement for the existence of adequate feature split in the dataset. In our method, co-training algorithm is run for a predefined number of times, using a different random split of features in each run. Each run of co-training produces a different enlarged training set, consisting of initial labeled data and data labeled in the co-training process. Examples from the enlarged training sets are combined in a final training set and pruned in order to keep only the most confidently labeled ones. The final classifier in RSSalg is obtained by training the base learner on a set created this way. Pruning of the examples is done by employing a genetic algorithm that keeps only the most reliable and informative cases. Our experiments performed on 17 datasets with various characteristics show that RSSalg outperforms all considered alternative methods on the more redundant natural language datasets and is comparable to considered alternative settings on the datasets with less redundancy.
The Origin of High Ice Crystal Number Densities in Cirrus Clouds

Abstract Recent measurements with four independent particle instruments in cirrus clouds, which formed without convective or orographic influence, report high number densities of ice particles (as high as nice = 50 cm−3) embedded in broad density distributions (nice = 0.1–50 cm−3). It is shown here that small-scale temperature fluctuations related to gravity waves, mechanical turbulence, or other small-scale air motions are required to explain these observations. These waves have typical peak-to-peak amplitudes of 1–2 K and frequencies of up to 10 h−1, corresponding to instantaneous cooling rates of up to 60 K h−1. Such waves remain unresolved in even the most advanced state-of-the-art global atmospheric models. Given the ubiquitous nature of these fluctuations, it is suggested that the character of young in situ forming cirrus clouds is mostly determined by homogeneous freezing of ice in solution droplets, driven by a broad range of small-scale fluctuations (period ∼a few minutes) with moderate to high c.
Baseline Climatology of Viti Levu (Fiji) and Current Climatic Trends1

ABSTRACT In this paper we characterize the climate at Nadi and Suva in Fiji from 1961 to the present, providing a picture of ongoing climate trends. The focus is on surface observations of air temperature and rainfall, although some information on South Pacific Ocean climate is also discussed, given its relevance for Fiji. Our findings suggest that surface air temperatures have registered increasing trends at both Suva and Nadi (the two observatory sites in Fiji identified as Weather Observing Stations under the global network of the World Meteorological Organization) during the period 1961–2003. There has been a steady increase in the number of days per year with warmer nighttime temperatures in recent decades. The rise in annual mean surface air temperature over Suva was ~1.2 °C over the 43-yr period considered here (at a significantly increasing rate of 0.25 °C per decade, which is 1.5 times higher than the trends in global average temperature increase during the past century). The rate of increase in annual mean surface air temperature at Nadi was 0.07 °C per decade. No trend in annual mean rainfall has been observed, however, at either of the locations. Significant interannual variability in annual as well as summer rainfall observed at both sites (including extreme rainfall events during the 43-yr period) can largely be attributed to El Niño–Southern Oscillation (ENSO) events and intraseasonal oscillations in the mean position of the South Pacific Convergence Zone.
UvA-DARE ( Digital Academic Repository ) Constrained registration of the wrist joint

Comparing wrist shapes of different individuals requires alignment of these wrists into the same pose. Unconstrained registration of the carpal bones results in anatomically nonfeasible wrists. In this paper, we propose to constrain the registration using the shapes of adjacent bones, by keeping the width of the gap between adjacent bones constant. The registration is formulated as an optimization involving two terms. One term aligns the wrist bones by minimizing the distances between corresponding bone surfaces. The second term constrains the registration by minimizing the distances between adjacent sliding surfaces. The registration is based on the Iterative Closest Point algorithm. All bones are registered concurrently so that no bias is introduced towards any of the bones. The proposed registration method delivers anatomically correct configurations of the bones. The registration errors are in the order of the voxel size of the acquired CT data (0.3 0.3 0.3 mm ). The standard deviation in the widths of gaps between adjacent bones is in the order of 10% with an insignificant bias. This is a large improvement over the standard deviations of 30%–80% encountered in unconstrained registration. The value of this method is its capability of accurately registering joints in varying poses resulting in physiological joint configurations.