Miracle-dz/UniFAR-FTUs huggingface dataset:
Prevalence of Salmonella spp. Antibodies to Toxoplasma gondii, and Newcastle Disease Virus in Feral Pigeons (Columba livia) in the City of Jaboticabal, Brazil

Abstract The rock pigeon (Columba livia) may serve as a reservoir for several pathogenic agents that can be transmitted to poultry, wildlife, domesticated pets, and/or humans via excreta, secretions, or dust from feathers. In addition, ingestion of infected pigeons by wild and domestic animals can also transmit these pathogenic agents. The health status of 126 free-living pigeons in an urban area was evaluated by microbiologic culture for Salmonella and serologic testing for the presence of antibodies for Toxoplasma gondii and for Newcastle disease virus (NDV) from 120 and 109 pigeons, respectively. After drawing blood, the birds were euthanized, and fragments of the liver, spleen, lungs, and gonads, and feces were cultured for Salmonella spp. Salmonella spp. was isolated from 10 birds (7.94%), of which 8 were Salmonella typhimurium, one was Salmonella enterica subsp. enterica serotype 4,12 and one was Salmonella enterica subsp. enterica serotype 4,12,i. Six of 109 pigeons (5.50%) were positive for NDV antibodies when using the hemagglutination inhibition test. Toxoplasma gondii antibodies were detected by immunofluorescence in one of 120 sera tested (0.83%). The results indicate that feral rock pigeons were exposed to NDV and T. gondii, although the exposure was low. In addition, these birds had Salmonella spp. and could disseminate this pathogen in the environment.
Contrasting patterns of historical colonization in white oaks (Quercus spp.) in California and Europe

Phylogeography allows the inference of evolutionary processes that have shaped the current distribution of genealogical lineages across a landscape. In this perspective, comparative phylogeographical analyses are useful in detecting common historical patterns by either comparing different species within the same area within a continent or by comparing similar species in different areas. Here, we analyse one taxon (the white oak, genus Quercus, subgenus Quercus, section Quercus) that is widespread worldwide, and we evaluate its phylogeographical pattern on two different continents: western North America and Western Europe. The goals of the present study are: (i) to compare the chloroplast genetic diversity found in one California oak species vs. that found in the extensively studied European oak species (in France and the Iberian Peninsula); (ii) to contrast the geographical structure of haplotypes between these two taxa and test for a phylogeographical structure for the California species. For this purpose, we used the same six maternally inherited chloroplast microsatellite markers and a similar sampling strategy. The haplotype diversity within site as well as the differentiation among sites was alike in both taxa, but the Californian species has higher allelic richness with a greater number of haplotypes (39 vs. 11 in the European white oak complex). Furthermore, in California these 39 haplotypes are distributed locally in patches while in the European oaks haplotypes are distributed into lineages partitioned longitudinally. These contrasted patterns could indicate that gene movement in California oak populations have been more stable in response to past climatic and geological events, in contrast to their European counterparts.
Surface but not volumetric part structure mediates three-dimensional shape representation: Evidence from part–whole priming

The decomposition of three-dimensional (3-D) objects into shape primitives consisting of geometric volumes is a key proposal of some theories of object recognition. It implicitly assumes that recognition involves volumetric completion—the derivation of a three-dimensional structure that comprises inferred shape properties, such as surfaces, that are not directly visible due to self-occlusion. The goal of this study was to test this claim. In Experiment 1 participants memorized novel objects and then discriminated these from previously unseen objects. Targets were preceded by primes containing a subset of object surfaces that either matched those visible in the whole objects or that could only be inferred through volumetric completion. The results showed performance benefits through priming from visible surfaces but not from inferred surfaces. In Experiment 2, we found equivalent priming for part-primes containing two visible surfaces from the same volumetric part and for primes containing one surface from each of two volumes. These results challenge the view that 3-D object recognition is mediated by shape primitives comprising geometric volumes. Instead, the results support an alternative model that proposes that 3-D shapes are represented as a non-volumetric surface-based structural description.
Flow-table updating strategy for efficient use of renewable energy in software defined wireless relay networks

Software defined networking (SDN) is revolutionizing the telecommunication networking industry by providing flexible and efficient management. Because of energy cost and environmental concerns, green networking technologies are being developed to increasing energy efficiency and making use of renewable energy, for both wired and wireless networks. Relay nodes (RNs) are widely used in wireless networks to increasing energy efficiency as well as the network coverage. In this paper, we consider an SDN-enabled wireless relay network, in which the relay nodes are powered by renewable energy. In the beginning, all the users can connect to a BS or an RN in the most energy efficient way, however, the availability of renewable energy is unpredictable, and users connected to an RN will have to be handed over to base stations (BSs) when there is not enough renewable energy to power the RN. There are also occasions when an RN harvested more renewable energy than required to server the users connected to it, in these cases users connected to BS or other RNs can be transferred to connect through this RN, otherwise the harvested surplus renewable energy will be wasted as it cannot be stored. We transform the problem of optimizing the use of harvested renewable energy into a flow-table management problem. A model of harvested renewable energy available for RNs is built first, then we propose a dynamic flow-table updating strategy (DFTUS), which is driven by the availability of renewable energy, to maximize the use of the harvested renewable energy and thus minimize the use of traditional energy. DFTUS can be integrated as an application on top of an SDN controller. Simulation results show that DFTUS can make more efficient use of renewable energy thus make the overall relay network more energy efficient compared with other routing strategies such as the capacity limited strategy (CLS) and the optimal path strategy (OPS).
Multiple Catalase Genes Are Differentially Regulated in Aspergillus nidulans

ABSTRACT Detoxification of hydrogen peroxide is a fundamental aspect of the cellular antioxidant responses in which catalases play a major role. Two differentially regulated catalase genes, catA andcatB, have been studied in Aspergillus nidulans. Here we have characterized a third catalase gene, designated catC, which predicts a 475-amino-acid polypeptide containing a peroxisome-targeting signal. With a molecular mass of 54 kDa, CatC shows high similarity to other small-subunit monofunctional catalases and is most closely related to catalases from other fungi, Archaea, and animals. In contrast, the CatA (∼84 kDa) and CatB (∼79 kDa) enzymes belong to a family of large-subunit catalases, constituting a unique fungal and bacterial group. The catC gene displayed a relatively constant pattern of expression, not being induced by oxidative or other types of stress. Targeted disruption of catC eliminated a constitutive catalase activity not detected previously in zymogram gels. However, a catalase activity detected in catA catBmutant strains during late stationary phase was still present incatC and catABC null mutants, thus demonstrating the presence of a fourth catalase, here named catalase D (CatD). Neither catC nor catABC triple mutants showed any developmental defect, and both mutants grew as well as wild-type strains in H2O2-generating substrates, such as fatty acids, and/or purines as the sole carbon and nitrogen sources, respectively. CatD activity was induced during late stationary phase by glucose starvation, high temperature, and, to a lesser extent, H2O2 treatment. The existence of at least four differentially regulated catalases indicates a large and regulated capability for H2O2detoxification in filamentous fungi.
Level of Gene Expression Is a Major Determinant of Protein Evolution in the Viral Order Mononegavirales

ABSTRACT Although the rate at which proteins change is a key parameter in molecular evolution, its determinants are poorly understood in viruses. A variety of factors, including gene length, codon usage bias, protein abundance, protein function, and gene expression level, have been shown to affect the rate of protein evolution in a diverse array of organisms. However, the role of these factors in viral evolution has yet to be addressed. The polar 3′-5′ stepwise attenuation of transcription in the Mononegavirales, a group of single-strand negative-sense RNA viruses, provides a unique system to explore the determinants of protein evolution in viruses. We analyzed the relative importance of a variety of factors in shaping patterns of sequence variation in full-length genomes from 13 Mononegavirales species. Our analysis suggests that the level of gene expression, and by extension the relative genomic position of each gene, is a key determinant of the protein evolution in these viruses. This appears to be the consequence of selection for translational robustness, but not for translational accuracy, in highly expressed genes. The small genome size and number of proteins encoded by these viruses allowed us to identify other protein-specific factors that may also play a role in virus evolution, such as host-virus interactions and functional constraints. Finally, we explored the evolutionary pressures acting on noncoding regions in Mononegavirales genomes and observed that, despite being less constrained than coding regions, their evolutionary rates are also associated with genomic position.
Quasi Two-Level PWM Operation of an MMC Phase Leg With Reduced Module Capacitance

The modular multilevel converter offers benefits for medium and high voltage power conversion due to indirect series connection of devices. The drawback is a large amount of capacitance that has to be installed in each module, often prohibiting its use in cost sensitive applications. This letter proposes a new operation mode of modular multilevel topologies that allows reducing the capacitance by at least an order of magnitude. To achieve this, the multilevel operation is sacrificed, but many advantages of indirect series connection, such as proper voltage sharing, small voltage steps, limited voltage slopes, modularity, and scalability remain.
Behavioral flexibility in rats and mice: contributions of distinct frontocortical regions

Research examining the contribution of genetics to behavior is increasingly focused on higher order behavioral and cognitive processes including the ability to modify behaviors when environmental demands change. The frontal cortices of mammals, including rodents, subserve a diverse set of behavioral and cognitive functions including motor planning, social behavior, evaluation of expected outcomes and working memory, which may be particularly sensitive to genetic factors and interactions with experience (e.g. stress). Behavioral flexibility is a core attribute of these functions. This review orients readers to the current landscape of the literature on the frontocortical bases of behavioral flexibility in rodent laboratory experiments. Studies are divided into three broad categories: reversal learning, inhibitory learning and set‐shifting. Functional dissociations within the broader scope of behavioral flexibility are reviewed, followed by discussion of the associations between specific components of frontal cortex and specific aspects of relevant behavioral processes. Finally, the authors identify open questions that need to be addressed to better establish the constituents of frontal cortex underlying behavioral flexibility.
Is there a difference in the reliable measurement of temporomandibular disorder signs between experienced and inexperienced examiners?

AIMS To determine whether there is a difference in terms of reliability between experienced examiners and inexperienced examiners in the measurement of signs of temporomandibular disorders (TMD). METHODS A total of 27 patients seen for treatment of TMD were rated blindly and in random sequence by 2 experienced and 2 inexperienced examiners. The examiners participated in a 4-hour calibration session on the day preceding the reliability study. Both experienced and inexperienced examiners participated in the calibration session to reduce the effect of examiner subjectivity and allow the study focus to be on the effect of experience. The rating followed the Research Diagnostic Criteria for Temporomandibular Disorders and included mandibular movements, joint sounds, and digital palpation of muscles and joints. Intraclass correlation coefficients and kappa statistics were calculated to estimate interrater reliability. The Wilcoxon signed rank test was performed to test for differences between experienced and inexperienced examiners' results, and the Friedman test was used for differences between all 6 examiner combinations. RESULTS Excellent overall reliability was found for vertical mandibular motions, acceptable reliability was found for the summed muscle palpation pain sites, and moderate to poor reliability was found for excursive movements, joint sounds, and single muscle palpation pain sites. No significant differences in the measurement results could be found between the experienced examiners and the inexperienced examiners. CONCLUSION Examiner calibration rather than professional experience seems to be the most important factor for reliable measurement of TMD symptoms.
The relationship between oxidative stress markers and visual evoked potentials in different hypertension models.

OBJECTIVE We aimed to define the influence of different hypertension models on lipid peroxidation markers [conjugated dienes (CD) and thiobarbituric acid-reactive substances (TBARS)], antioxidant protection [paraoxonase-1 (PON1) activity] and visual evoked potential (VEP) changes in rats. METHODS The study was designed as four different hypertension models. Rats (n=84) were divided equally into six groups: Control group (C), Sham operated (Sham), Two kidney-one clip (2K-1C), One kidney-one clip (1K-1C), Deoxycorticosterone acetate (DOCA) and N-omega-nitro-L-arginine-methyl ester (L-NAME). Brain TBARS, serum lipids (total and lipoprotein bound cholesterols and triglycerides) CD and TBARS levels and PON1 activity were assayed. Comparisons were performed using ANOVA or Wilcoxon/Kruskal-Wallis tests. Pearson correlation and linear regression analysis were used to evaluate associations of independent predictors with hypertension. RESULTS Mean arterial pressure, brain and serum lipid peroxidation markers, VEP latencies were significantly higher in four hypertensive groups compared with control and sham groups (p<0.05). Compared with controls, PON1 activity was decreased in DOCA, 1K1C and L-NAME groups (p<0.05). Serum PON1 activity was negatively correlated with lipid peroxidation markers and VEPs. In terms of VEP's records linear regression analysis showed that changes in N2 (B=1.51±0.34; p<0.001), P1 (B=-1.71±0.28; p<0.001), P3 (B=0.54±0.14; p<0.001), serum TBARS levels (B=0.94±0.24; p<0.001) and PON1 activity (B=0.05±0.02; p<0.01) were independently associated with elevated blood pressure. CONCLUSION Lipid peroxidation measured in serum and brain was associated with increased electrophysiological alterations recorded as VEPs. This study might suggest that serum PON1 activity may be protective against brain and serum lipid peroxidation as well as electrophysiological alterations in the brain in different hypertension models.
Panitumumab in the management of patients with KRAS wild-type metastatic colorectal cancer

The past 15 years has seen a marked increase in available therapeutic options for patients with metastatic colorectal cancer resulting in improvements in median survival from 12 to 24 months. One of these new options is panitumumab, which is a fully humanized monoclonal antibody that binds to the epidermal growth factor receptor of tumor cells and inhibits downstream cell signaling with antitumor effects of inhibition of tumor growth, induction of apoptosis and inhibition of angiogenesis. Large randomized clinical trials have demonstrated significant improvements in tumor response rates and progression-free survival when panitumumab is combined with chemotherapy and as monotherapy in chemorefractory metastatic colorectal cancer. Clinical benefit with panitumumab is limited to patients with nonmutated KRAS tumors. Rash is a common toxicity of panitumumab treatment but can potentially be ameliorated with the use of prophylactic strategies. The role of panitumumab in the overall treatment of metastatic colorectal cancer is evolving and future clinical trials will focus on improved patient selection through use of novel predictive biomarkers, and the optimal timing of treatment.
The effects of habitat fragmentation on the social kin structure and mating system of the agile antechinus, Antechinus agilis

Habitat fragmentation is one of the major contributors to the loss of biodiversity worldwide. However, relatively little is known about its more immediate impacts on within‐patch population processes such as social structure and mating systems, whose alteration may play an important role in extinction risk. We investigated the impacts of habitat fragmentation due to the establishment of an exotic softwood plantation on the social kin structure and breeding system of the Australian marsupial carnivore, Antechinus agilis. Restricted dispersal by males in fragmented habitat resulted in elevated relatedness among potential mates in populations in fragments, potentially increasing the risk of inbreeding. Antechinus agilis nests communally in tree hollows; these nests are important points for social contact between males and females in the mating season. In response to elevated relatedness among potential mates in fragmented habitat, A. agilis significantly avoided sharing nests with opposite‐sex relatives in large fragment sites (but not in small ones, possibly due to limited nest locations and small population sizes). Because opposite‐sex individuals shared nests randomly with respect to relatedness in unfragmented habitat, we interpreted the phenomenon in fragmented habitat as a precursor to inbreeding avoidance via mate choice. Despite evidence that female A. agilis at high inbreeding risk selected relatively unrelated mates, there was no overall increased avoidance of related mates by females in fragmented habitats compared to unfragmented habitats. Simulations indicated that only dispersal, and not nonrandom mating, contributed to inbreeding avoidance in either habitat context. However, habitat fragmentation did influence the mating system in that the degree of multiple paternity was reduced due to the reduction in population sizes and population connectivity. This, in turn, reduced the number of males available to females in the breeding season. This suggests that in addition to the obvious impacts of reduced recruitment, patch recolonization and increased genetic drift, the isolation of populations in habitat patches may cause changes in breeding behaviour that contribute to the negative impacts of habitat fragmentation.
Reconstitution of Insulin-sensitive Glucose Transport in Fibroblasts Requires Expression of Both PPARγ and C/EBPα*

Adipocyte differentiation is regulated by at least two major transcription factors, CCAAT/enhancer-binding protein α (C/EBPα) and peroxisome proliferator-activated receptor γ (PPARγ). Expression of PPARγ in fibroblasts converts them to fat-laden cells with an adipocyte-like morphology. Here, we investigate the ability of PPARγ to confer insulin-sensitive glucose transport to a variety of murine fibroblast cell lines. When cultured in the presence of a PPARγ ligand, Swiss-3T3 and BALB/c-3T3 cells ectopically expressing PPARγ accumulate lipid droplets, express C/EBPα, aP2, insulin-responsive aminopeptidase, and glucose transporter isoform 4 (GLUT4), and exhibit highly insulin-responsive 2-deoxyglucose uptake. In contrast, PPARγ-expressing NIH-3T3 cells, despite similar lipid accumulation, adipocyte morphology, and aP2 expression, do not express C/EBPα or GLUT4 and fail to acquire insulin sensitivity. In cells ectopically expressing PPARγ, the development of insulin-responsive glucose uptake correlates with C/EBPα expression. Furthermore, ectopic expression of C/EBPα in NIH-3T3 cells converts them to the adipocyte phenotype and restores insulin-sensitive glucose uptake. We propose that the pathway(s) leading to fat accumulation and morphological changes are distinct from that leading to insulin-dependent glucose transport. Our results suggest that although PPARγ is sufficient to trigger the adipogenic program, C/EBPα is required for establishment of insulin-sensitive glucose transport.
The missing biomarker link: Relationships between effects on the cellular energy allocation biomarker of toxicant‐stressed Daphnia magna and corresponding population characteristics

The cellular energy allocation (CEA) methodology was used to assess the adverse effects of toxic stress on the energy budget of test organisms. This biochemical assay is quantified by determining changes in the available energy reserves, Ea (total carbohydrate, protein, and lipid content) and the energy consumption, Ec (electron transport activity). The CEA methodology was fully explored by using neonates of Daphnia magna exposed for 96 h to six model toxicants (CdCl2, K2Cr2O7, tributyltin chloride, linear alkylbenzene sulfonic acid, sodium pentachlorophenolate, and 2,4‐dichlorophenoxyacetic acid). To evaluate the ecological relevance of the CEA parameter, we compared the suborganismal responses with population‐level parameters (obtained from 21‐d life‐table experiments) such as the intrinsic rate of natural increase (rm) and the mean total offspring per female. The observed reductions in CEA values were both the result of a decrease in Ea and an increase in Ec. From all individual CEA components analyzed, the lipid reserve criterion was the most sensitive endpoint studied. Both the CEA‐based lowest‐observed‐adverse‐effect concentration (LOAEC) values and the effective concentration of 10% (EC10) values were significantly (p < 0.05) and linearly correlated with the chronic (21‐d) LOAEC and EC10 values based on growth, survival, and reproduction. This relationship demonstrates the usefulness of the methodology to predict long‐term effects. Furthermore, significant (p < 0.0001) sigmoid relationships between the 96‐h CEA value (expressed as percentage relative to the control) and population‐level effects were observed.