Miracle-dz/UniFAR-FTUs huggingface dataset:
The control of color change in the Pacific tree frog, Hyla regilla

A number of environmental variables have been identified as affecting anuran color, but rarely have the interactions between these variables been investigated. In attempt to elucidate the function of color change, we conducted a within-subject, full factorial experiment designed to determine the simple and interactive effects of background, temperature, and light intensity on the rate of color change in the Pacific tree frog (Hyla regilla Baird and Girard, 1852). Color was investigated holistically, as well as by decomposing it into its constituent parts (hue, chroma, and lightness), using digital photography. The rate of color change was faster on the green versus the brown background, at 10 versus 25 °C, and at low versus high light intensity. There was also a significant effect of the interaction between background color and temperature on the rate of color change. We found increased rates of hue, chroma, lightness, and color change with increasing initial hue, chroma, lightness, and color distances be.
Coral Recruitment and Regeneration on a Maldivian Reef 21 Months after the Coral Bleaching Event of 1998

This paper describes the quantitative inventory of stony corals on a Maldivian reef after the bleaching event of 1998. The detailed data, collected in March 1999 and March 2000, comprise survival, new recruitment and regenerates. They were obtained in 6 transects laid out randomly on the reef flat, on 22 Acropora tables on 6 sites at the reef edge and on 39 Porites lobata blocks and 1 Diploastrea heliopora colony. The present cover of living zooxanthellate corals is reduced to ca. 2 – 5 % of its previous state. Acroporidae and Pocilloporidae were practically wiped out, while Poritidae survived partly and Agariciidae (esp. Pavona) are now the dominant group. New settlements on dead Acropora tables were mainly Agariciidae, followed by Acroporidae and Pocilloporidae. Regenerates on Porites were pronounced and the apparent yearly increase in mass was about threefold that of Diploastrea, which is 3 – 4 mm per year. The influence on reef ecology in terms of coral substrate and species, possible sources of larvae, change of guilds in reef builders, other species and the prospect for further development of the reef, with respect to growth versus erosion, is discussed.
Arrangement of cell layers in the shoot apical meristems of periclinal chimeras influences cell fate

Summary Utilizing a complete set of six periclinal graft chimeras composed of Nicotiana tabacum and Nicotiana glauca (TGG, GTT, TTG, GGT, TGT, and GTG), the fate of the three apical cell layers in both vegetative and reproductive organs has been traced. An analysis of leaf phenotype indicated that only rarely did deviations from expected cell lineage occur and in only TTG did such deviations originate in the shoot apical meristem rather than during leaf development. In most plants that possess a stratified shoot apical meristem, gametes are derived from the second apical layer (L2). A phenotypic and/or DNA analysis of seed progeny following reciprocal crosses between all chimeras and their component species indicated that pollen and eggs were sometimes derived from non-L2 lineage in all but one periclinal chimera. There was no evidence for non-L2-derived gametes in 95 crosses where GTT was a parent whereas 40 of 104 crosses with TTG as a parent yielded some offspring that resulted from non-L2-derived gametes. Of these 40 cases, non-L2-derived pollen grains were responsible 39 times while non-L2-derived eggs were responsible just once. Therefore, the occurrence of non-L2-derived gametes was not random. The disruption of ‘normal’ lineage patterns was dependent on the specific arrangement of genetically dissimilar tissue layers in the shoot apices of the chimeras and was different for different organs.
Facilitating feedbacks between field measurements and ecosystem models

Ecological models help us understand how ecosystems function, predict responses to global change, and identify future research needs. However, widespread use of models is limited by the technical challenges of model–data synthesis and information management. To address these challenges, we present an ecoinformatic workflow, the Predictive Ecosystem Analyzer (PEcAn), which facilitates model analysis. Herein we describe the PEcAn modules that synthesize plant trait data to estimate model parameters, propagate parameter uncertainties through to model output, and evaluate the contribution of each parameter to model uncertainty. We illustrate a comprehensive approach to the estimation of parameter values, starting with a statement of prior knowledge that is refined by species-level data using Bayesian meta-analysis; this is the first use of a rigorous meta-analysis to inform the parameters of a mechanistic ecosystem model. Parameter uncertainty is propagated using ensemble methods to estimate model uncertainty.
Exploring Kinase Inhibition Properties of 9H-pyrimido[5,4-b]- and [4,5-b]indol-4-amine Derivatives

We previously highlighted the interest in 6,5,6-fused tricyclic analogues of 4-aminoquinazolines as kinase inhibitors in the micromolar to the nanomolar range of IC50 values. For the generation of chemical libraries, the formamide-mediated cyclization of the cyanoamidine precursors was carried out under microwave irradiation in an eco-friendly approach. In order to explore more in-depth the pharmacological interest in such tricyclic skeletons, the central five member ring, i.e., thiophène or furan, was replaced by a pyrrole to afford 9H-pyrimido[5,4-b]- and [4,5-b]indol-4-amine derivatives inspired from harmine. The inhibitory potency of the final products was determined against four protein kinases (CDK5/p25, CK1δ/ε, GSK3α/β, and DYRK1A). As a result, we have identified promising compounds targeting CK1δ/ε and DYRK1A and displaying micromolar and submicromolar IC50 values.
Mesh smoothing algorithm based on exterior angles split

Since meshes of poor quality give rise to low accuracy in finite element analysis and kinds of inconveniences in many other applications, mesh smoothing is widely used as an essential technique for the improvement of mesh quality. With respect to this issue, the main contribution of this paper is that a novel mesh smoothing method based on an exterior-angle-split process is proposed. The proposed method contains three main stages: the first stage is independent element geometric transformation performed by exterior-angle-split operations, treating elements unconnected; the second stage is to offset scaling and displacement induced by element transformation; the third stage is to determine the final positions of nodes with a weighted strategy. Theoretical proof describes the regularity of this method and many numerical experiments illustrate its convergence. Not only is this method applicable for triangular mesh, but also can be naturally extended to arbitrary polygonal surface mesh. Quality improvements of demonstrations on triangular and quadrilateral meshes show the effectiveness of this method.
Feasibility of Barley Straw Fibers as Reinforcement in Fully Biobased Polyethylene Composites: Macro and Micro Mechanics of the Flexural Strength

Awareness on deforestation, forest degradation, and its impact on biodiversity and global warming, is giving rise to the use of alternative fiber sources in replacement of wood feedstock for some applications such as composite materials and energy production. In this category, barley straw is an important agricultural crop, due to its abundance and availability. In the current investigation, the residue was submitted to thermomechanical process for fiber extraction and individualization. The high content of holocellulose combined with their relatively high aspect ratio inspires the potential use of these fibers as reinforcement in plastic composites. Therefore, fully biobased composites were fabricated using barley fibers and a biobased polyethylene (BioPE) as polymer matrix. BioPE is completely biobased and 100% recyclable. As for material performance, the flexural properties of the materials were studied. A good dispersion of the reinforcement inside the plastic was achieved contributing to the elevate increments in the flexural strength. At a 45 wt. % of reinforcement, an increment in the flexural strength of about 147% was attained. The mean contribution of the fibers to the flexural strength was assessed by means of a fiber flexural strength factor, reaching a value of 91.4. The micromechanical analysis allowed the prediction of the intrinsic flexural strength of the fibers, arriving up to around 700 MPa, and coupling factors between 0.18 and 0.19, which are in line with other natural fiber composites. Overall, the investigation brightness on the potential use of barley straw residues as reinforcement in fully biobased polymer composites.
Cytogenetic Mapping of 35 New Markers in the Alpaca (Vicugna pacos)

Alpaca is a camelid species of broad economic, biological and biomedical interest, and an essential part of the cultural and historical heritage of Peru. Recently, efforts have been made to improve knowledge of the alpaca genome, and its genetics and cytogenetics, to develop molecular tools for selection and breeding. Here, we report cytogenetic mapping of 35 new markers to 19 alpaca autosomes and the X chromosome. Twenty-eight markers represent alpaca SNPs, of which 17 are located inside or near protein-coding genes, two are in ncRNA genes and nine are intergenic. The remaining seven markers correspond to candidate genes for fiber characteristics (BMP4, COL1A2, GLI1, SFRP4), coat color (TYR) and development (CHD7, PAX7). The results take the tally of cytogenetically mapped markers in alpaca to 281, covering all 36 autosomes and the sex chromosomes. The new map assignments overall agree with human–camelid conserved synteny data, except for mapping BMP4 to VPA3, suggesting a hitherto unknown homology with HSA14. The findings validate, refine and correct the current alpaca assembly VicPac3.1 by anchoring unassigned sequence scaffolds, and ordering and orienting assigned scaffolds. The study contributes to the improvement in the alpaca reference genome and advances camelid molecular cytogenetics.
Frequency and enzymatic activity of Candida albicans isolated from the oral cavity of HIV-positive patients at Fortaleza, Ceará

Candida albicans and other species are usually involved in opportunistic infections in patients with acquired immunological deficiency syndrome (AIDS). The virulence mechanisms by which this yeast expresses its pathogenicity include adherence patterns, ability to form pseudomycelia and production of extracellular enzymes, among others. The objective of this research was to verify the frequency of Candida and the production of proteinase and phospholipase in 52 strains of Candida albicans from the oral cavity of patients infected by HIV treated at Hospital Sao Jose, AIDS reference and training center in Fortaleza, Ceara. Samples were collected of patients, with or without oral lesions characteristic of candidosis. From 100 patients, 80% presented positivity for Candida: 65% (52) were identified as C. albicans, 27.5% (22) as C. tropicalis, 2.5% (2) as C. glabrata, 2.5% (2) as C. krusei and 2.5% (2) as C. guilliermondii. Among the strains of C. albicans isolated from the oral cavity, proteinase and phospholipase were detected in 69.2% and 73%, respectively. The results suggested that C. albicans was the most frequent species observed, with intermediate expression of proteinase and phospholipase.
Laparoscopic Splenic Vessels and Spleen Preservation Distal Pancreatectomy Via Inferior-Posterior Splenic Vein Approach

Background: Preservation of splenic vessels can minimize the risks of splenic infarction and gastric varices in laparoscopic spleen preserving distal pancreatectomy. A well-established procedure would provide high splenic vessels and spleen preservation rate. This study evaluated the outcomes and depending factors of laparoscopic splenic vessels and spleen preservation distal pancreatectomy (LsvspDP) via inferior-posterior splenic vein approach. Materials and Methods: This retrospective study enrolled patients who underwent LsvspDP via inferior-posterior splenic vein approach in National Cheng-Kung University Hospital from February 2009 to June 2019. The clinic-pathologic data were collected and analyzed. The primary outcome of this study was the learning curve based on the cumulative sum analysis. The secondary outcomes were to evaluate the critical factors for the failure of splenic vessels and spleen preservation. Results: During the study period, a total of 64 patients received LsvspDP attempt. Splenic vessels were successfully preserved in 49 patients and the overall spleen preservation rate was 76.6%. According to cumulative sum analysis, the learning curve of LsvspDP was the 33rd case and several plateaus were observed during the learning curve phase. Old age (P=0.001), tail location (P=0.038), and large tumor (P=0.01) were independent risk factors of failed splenic vessels preservation, whereas the cut-off point of tumor size for prediction of spleen preservation was 5.4 cm. The complication rates were 7.8%, 7.8%, and 12.5% for Clavien grade I, II, and III, respectively, and 0% for Clavien grade IV or V. The rate of postoperative pancreatic fistula-grade B was 14.8%, among which the tail location was lower than the nontail location (0% vs. 24.3%; P=0.008). The mean value of operative time, blood loss, and hospital stay were 198±67 minutes, 139±242 mL, and 8.5±5.6 days, respectively. Conclusions: In LsvspDP, the inferior-posterior splenic vein approach resulted in high splenic vessels and spleen preservation rate. Thirty-three patients were required to overcome the learning curve. Old age, tail location, and large tumor size were independent factors for the failure of splenic vessels preservation, whereas the cut-off value for tumor size was 5.4 cm to predict splenic vessels preservation.
Enhancing Performance of Magnetic Field Based Indoor Localization Using Magnetic Patterns from Multiple Smartphones

Wide expansion of smartphones triggered a rapid demand for precise localization that can meet the requirements of location-based services. Although the global positioning system is widely used for outdoor positioning, it cannot provide the same accuracy for the indoor. As a result, many alternative indoor positioning technologies like Wi-Fi, Bluetooth Low Energy (BLE), and geomagnetic field localization have been investigated during the last few years. Today smartphones possess a rich variety of embedded sensors like accelerometer, gyroscope, and magnetometer that can facilitate estimating the current location of the user. Traditional geomagnetic field-based fingerprint localization, although it shows promising results, it is limited by the fact that various smartphones have embedded magnetic sensors from different manufacturers and the magnetic field strength that is measured from these smartphones vary significantly. Consequently, the localization performance from various smartphones is different even when the same localization approach is used. So devising an approach that can provide similar performance with various smartphones is a big challenge. Contrary to previous works that build the fingerprint database from the geomagnetic field data of a single smartphone, this study proposes using the geomagnetic field data collected from multiple smartphones to make the geomagnetic field pattern (MP) database. Many experiments are carried out to analyze the performance of the proposed approach with various smartphones. Additionally, a lightweight threshold technique is proposed that can detect user motion using the acceleration data. Results demonstrate that the localization performance for four different smartphones is almost identical when tested with the database made using the magnetic field data from multiple smartphones than that of which considers the magnetic field data from only one smartphone. Moreover, the performance comparison with previous research indicates that the overall performance of smartphones is improved.
Parasite Population Genetic Contributions to the Schistosomiasis Consortium for Operational Research and Evaluation within Sub-Saharan Africa

Abstract. Analyses of the population genetic structure of schistosomes under the “Schistosomiasis Consortium for Operational Research and Evaluation” (SCORE) contrasting treatment pressure scenarios in Tanzania, Niger, and Zanzibar were performed to provide supplementary critical information with which to evaluate the impact of these large-scale control activities and guide how activities could be adjusted. We predicted that population genetic analyses would reveal information on a range of important parameters including, but not exclusive to, recruitment and transmission of genotypes, occurrence of hybridization events, differences in reproductive mode, and degrees of inbreeding, and hence, the evolutionary potential, and responses of parasite populations under contrasting treatment pressures. Key findings revealed that naturally high levels of gene flow and mixing of the parasite populations between neighboring sites were likely to dilute any effects imposed by the SCORE treatment arms. Furthermore, significant inherent differences in parasite fecundity were observed, independent of current treatment arm, but potentially of major impact in terms of maintaining high levels of ongoing transmission in persistent “biological hotspot” sites. Within Niger, naturally occurring Schistosoma haematobium/Schistosoma bovis viable hybrids were found to be abundant, often occurring in significantly higher proportions than that of single-species S. haematobium infections. By examining parasite population genetic structures across hosts, treatment regimens, and the spatial landscape, our results to date illustrate key transmission processes over and above that which could be achieved through standard parasitological monitoring of prevalence and intensity alone, as well as adding to our understanding of Schistosoma spp. life history strategies in general.
Developmental constraints on fin diversity

The fish fin is a breathtaking repository full of evolutionary diversity, novelty, and convergence. Over 500 million years, the adaptation to novel habitats has provided landscapes of fin diversity. Although comparative anatomy of evolutionarily divergent patterns over centuries has highlighted the fundamental architectures and evolutionary trends of fins, including convergent evolution, the developmental constraints on fin evolution, which bias the evolutionary trajectories of fin morphology, largely remain elusive. Here, we review the evolutionary history, developmental mechanisms, and evolutionary underpinnings of paired fins, illuminating possible developmental constraints on fin evolution. Our compilation of anatomical and genetic knowledge of fin development sheds light on the canalized and the unpredictable aspects of fin shape in evolution. Leveraged by an arsenal of genomic and genetic tools within the working arena of spectacular fin diversity, evolutionary developmental biology embarks on the establishment of conceptual framework for developmental constraints, previously enigmatic properties of evolution.
Chronic subclinical mastitis reduces milk and components yield at the cow level

Abstract We evaluated the effects of chronic subclinical mastitis (CSM) caused by different types of pathogens on milk yield and milk components at the cow level. A total of 388 Holstein cows had milk yield measured and were milk sampled three times at intervals of two weeks for determination of SCC and milk composition, and microbiological culture was performed. Cows were considered healthy if all three samples of SCC were ≤200 000 cells/ml and were culture-negative at the third milk sampling. Cows with one result of SCC > 200 000 cells/ml were considered to suffer non-chronic subclinical mastitis whereas cows with at least 2 out of 3 results of SCC > 200 000 cells/ml had CSM. These latter cows were further sorted according to culture results into chronic negative-culture or chronic positive-culture. This resulted in four udder health statuses: healthy, non-chronic, chronicNC or chronicPC. The milk and components yields were evaluated according to the udder health status and by pathogen using a linear mixed effects model. A total of 134 out of 388 cows (34.5%) were chronicPC, 57 cows (14.7%) were chronicNC, 78 cows (20.1%) were non-chronic and 119 cows (30.7%) were considered healthy, which resulted in a grand total of 1164 cow records included in the statistical model. The healthy cows produced more milk than each of the other groups (+2.1 to +5.7 kg/cow/day) and produced higher milk component yields than the chronicPC cows. The healthy cows produced more milk than cows with chronicPC caused by minor (+5.2 kg/cow/day) and major pathogens (+7.1 kg/cow/day) and losses varied from 5.8 to 11.8 kg/cow/day depending on the pathogen causing chronicPC mastitis. Chronic positive-culture cows had a reduction of at least 24.5% of milk yield and 22.4% of total solids yield.
Computerization and Digital Workflow in Medicine: Focus on Digital Dentistry

Continuously evolving technologies make dentistry one of the most advanced sectors in the field of medicine. The digital improvements in recent years have brought many advantages to clinicians and patients, including reduced working times, lower costs and increased efficiency of performance. Some of the most important digital technologies introduced in the dental filed are cone beam computer tomography (CBCT) scan, Computer Aided Design/Computer Aided Manufacturing (CAD-CAM) systems, and intraoral scanners. All of these allow faster and more accurate rehabilitations, with the opportunity of pre-simulation of the final treatment. The evolution of computer science has brought significant advantages in the medical and dental fields, making the diagnosis and execution of even complex treatments, such as implantology and bone reconstruction, possible. The digital world is trying to supplant the traditional analog workflow, and over time, with the further advance of technologies, it should tend to be the treatment of choice of our patients.
Modulation of Lipoteichoic Acids and Exopolysaccharides Prevents Streptococcus mutans Biofilm Accumulation

Dental caries is a diet–biofilm-dependent disease. Streptococcus mutans contributes to cariogenic biofilms by producing an extracellular matrix rich in exopolysaccharides and acids. The study aimed to determine the effect of topical treatments with compound 1771 (modulates lipoteichoic acid (LTA) metabolism) and myricetin (affects the synthesis of exopolysaccharides) on S. mutans biofilms. In vitro S. mutans UA159 biofilms were grown on saliva-coated hydroxyapatite discs, alternating 0.1% sucrose and 0.5% sucrose plus 1% starch. Twice-daily topical treatments were performed with both agents alone and combined with and without fluoride: compound 1771 (2.6 µg/mL), myricetin (500 µg/mL), 1771 + myricetin, fluoride (250 ppm), 1771 + fluoride, myricetin + fluoride, 1771 + myricetin + fluoride, and vehicle. Biofilms were evaluated via microbiological, biochemical, imaging, and gene expression methods. Compound 1771 alone yielded less viable counts, biomass, exopolysaccharides, and extracellular LTA. Moreover, the combination 1771 + myricetin + fluoride decreased three logs of bacterium counts, 60% biomass, >74% exopolysaccharides, and 20% LTA. The effect of treatments on extracellular DNA was not pronounced. The combination strategy affected the size of microcolonies and exopolysaccharides distribution and inhibited the expression of genes linked to insoluble exopolysaccharides synthesis. Therefore, compound 1771 prevented the accumulation of S. mutans biofilm; however, the effect was more pronounced when it was associated with fluoride and myricetin.