Miracle-dz/UniFAR-FTUs huggingface dataset:
Structure and activation of C1, the complex initiating the classical pathway of the complement cascade

Significance The complement system is an essential arm within the innate immune defense. Complement contributes to elimination of objects presenting danger signals such as pathogens, dying host cells, and abnormal molecular structures and is capable of inducing an inflammatory response stimulating further immune responses. The C1 complex is a giant proteolytic enzyme, which plays a leading role, because it is the first component in a proteolytic cascade initiated when complement is activated. On the basis of structural characterization of the C1 complex with X-rays and electron microscopy, we suggest that the first proteolytic reaction in the cascade, activation of the C1 complex itself, involves neighboring C1 complexes located near each other rather than a reaction within individual C1 complexes. The complement system is an important antimicrobial and inflammation-generating component of the innate immune system. The classical pathway of complement is activated upon binding of the 774-kDa C1 complex, consisting of the recognition molecule C1q and the tetrameric protease complex C1r2s2, to a variety of activators presenting specific molecular patterns such as IgG- and IgM-containing immune complexes. A canonical model entails a C1r2s2 with its serine protease domains tightly packed together in the center of C1 and an intricate intramolecular reaction mechanism for activation of C1r and C1s, induced upon C1 binding to the activator. Here, we show that the serine protease domains of C1r and C1s are located at the periphery of the C1r2s2 tetramer both when alone or within the nonactivated C1 complex. Our structural studies indicate that the C1 complex adopts a conformation incompatible with intramolecular activation of C1, suggesting instead that intermolecular proteolytic activation between neighboring C1 complexes bound to a complement activating surface occurs. Our results rationalize how a multitude of structurally unrelated molecular patterns can activate C1 and suggests a conserved mechanism for complement activation through the classical and the related lectin pathway.
Sami yoik, Sami history, Sami health: a narrative review

ABSTRACT Music as a possible health-promoting agent has attained increasing academic and scientific interest over the last decades. Nonetheless, possible connections between indigenous singing traditions and health beyond traditional ceremonial healing practices are still under-researched worldwide. The Sami, the indigenous people living in Northern Fennoscandia, have a distinct ancient vocal music tradition called “yoik” practiced from immemorial times. The Sami share a history of assimilation with many indigenous people. During this period of nearly 400 years, yoik alongside other cultural markers was under hard pressure and even banned at times. Compared to other indigenous people in the Arctic, Sami public health shows few significant unfavourable differences to the majority population. The potential role of yoik as a protective health and resilience factor within the Sami culture is the topic of this review. We suggest a two stage model for the health promoting effects of yoik through i) emotion regulation and stress relief on the level of the individual, and ii) as a socio-cultural resilience factors within the Sami population. This review is to be understood as theory-building review article striving for a scholarly review of the literature.
Approaches in Characterizing Genetic Structure and Mapping in a Rice Multiparental Population

Multi-parent Advanced Generation Intercross (MAGIC) populations are fast becoming mainstream tools for research and breeding, along with the technology and tools for analysis. This paper demonstrates the analysis of a rice MAGIC population from data filtering to imputation and processing of genetic data to characterizing genomic structure, and finally quantitative trait loci (QTL) mapping. In this study, 1316 S6:8 indica MAGIC (MI) lines and the eight founders were sequenced using Genotyping by Sequencing (GBS). As the GBS approach often includes missing data, the first step was to impute the missing SNPs. The observable number of recombinations in the population was then explored. Based on this case study, a general outline of procedures for a MAGIC analysis workflow is provided, as well as for QTL mapping of agronomic traits and biotic and abiotic stress, using the results from both association and interval mapping approaches. QTL for agronomic traits (yield, flowering time, and plant height), physical (grain length and grain width) and cooking properties (amylose content) of the rice grain, abiotic stress (submergence tolerance), and biotic stress (brown spot disease) were mapped. Through presenting this extensive analysis in the MI population in rice, we highlight important considerations when choosing analytical approaches. The methods and results reported in this paper will provide a guide to future genetic analysis methods applied to multi-parent populations.
Comprehensive characterization of the acute and chronic toxicity of the neonicotinoid insecticide thiamethoxam to a suite of aquatic primary producers, invertebrates, and fish

Thiamethoxam is a neonicotinoid insecticide used widely in agriculture to control a broad spectrum of chewing and sucking insect pests. Recent detection of thiamethoxam in surface waters has raised interest in characterizing the potential impacts of this insecticide to aquatic organisms. We report the results of toxicity testing (acute and chronic) conducted under good laboratory practices for more than 30 freshwater species (insects, molluscs, crustaceans, algae, macrophytes, and fish) and 4 marine species (an alga, a mollusc, a crustacean, and a fish). As would be anticipated for a neonicotinoid, aquatic primary producers and fish were the least sensitive organisms tested, with acute median lethal and effect concentrations (LC50/EC50) observed to be ≥80 mg/L in all cases, which far exceeds surface water exposure concentrations. Tested molluscs, worms, and rotifers were similarly insensitive (EC50 ≥ 100 mg/L), except for Lumbriculus sp. , with an EC50 of 7.7 mg/L. In general, insects were the most sensitive group in the study, with most acute EC50 values < 1 mg/L. However, the crustaceans Asellus aquaticus and Ostracoda exhibited a sensitivity similar to that of insects (acute EC50 < 1 mg/L), and the midge larvae Chaoborus sp. were relatively insensitive compared with other insects (EC50 > 5.5 mg/L). The most sensitive chronic response was for Chironomus riparius, with a 30‐d no‐observed‐effect concentration (NOEC; emergence) of 0.01 mg/L. Observed toxicity to the tested marine organisms was comparable to that of freshwater species. We used the reported data to construct species sensitivity distributions for thiamethoxam, to calculate 5% hazard concentrations (HC5s) for acute data (freshwater invertebrates), and compared these with measured concentrations from relevant North American surface waters. Overall, based on acute toxicity endpoints, the potential acute risk to freshwater organisms was found to be minimal (likelihood of exceeding HC5s < 1%). Environ Toxicol Chem 2017;36:2838–2848. © 2017 The Authors. Environmental Toxicology and Chemistry published by Wiley Periodicals, Inc. on behalf of SETAC.
A Comparison of the Test Performance of Average and below Average Readers on the Mccarthy Scales of Children's Abilities

The MSCA was used to compare the pattern of tests results for below average readers distinct from a matched group of average readers. Two groups of 24 second-grade boys were selected and differentiated on the basis of their reading achievement scores. The two groups were carefully matched according to age level, IQ and socioeconomic status. Each S was individually administered the MSCA and a comparison of mean scale scores between the groups on each of the six MSCA scales was attempted. Analyses revealed non-significant differences between groups on all scales. The possible influence of methodological factors on the present results as well as the implications for diagnostic usefulness of the MSCA with reading disabled subjects were discussed.
Corrigendum: Free vibration analysis of magnetoelectroelastic plate resting on a Pasternak foundation (2014 Smart Mater. Struct. 23 025002)

Free vibration of a magnetoelectroelastic plate resting on a Pasternak foundation is investigated based on Mindlin theory. The in-plane electric and magnetic ﬁelds can be ignored for plates. According to the Maxwell equation and magnetoelectric boundary condition, the variation of electric and magnetic potentials along the thickness direction of the plate is determined. Using Hamilton’s principle, the governing equations of motion for the magnetoelectroelastic plate are derived. Numerical results reveal the effects of the electric and magnetic potentials, spring and shear coefﬁcients of the Pasternak foundation on the vibration frequency. These results may be useful in the analysis and design of smart structures constructed from magnetoelectroelastic materials.
Flat graphs based on affine spaces and affine symplectic spaces

Let AG(n,Fq) be the n-dimensional affine space over the finite field Fq. For 0 ≤ m ≤ n − 1, define a graph G whose vertex set is the set of all m-flats of AG(n,Fq), such that two vertices F1 and F2 are adjacent if dim(F1∨F2) = m+1, where F1∨F2 is the minimum flat containing both F1 and F2. Let ASG(2ν,Fq) be the 2ν-dimensional affine-symplectic space over Fq. Define a graph S (ν) whose vertex set is the set of all maximal totally isotropic flats of ASG(2ν,Fq) such that two vertices F1 and F2 are adjacent if dim(F1 ∨ F2) = ν + 1. In this paper we study structures of the maximal cliques for the graph S and present several bounds on the size of error-correcting codes for the graphs G and S.
Effects of intravenous low-dose dopamine infusion on glucose regulation during prolonged aerobic exercise.

The carotid body chemoreceptors are activated during hypoglycemia and contribute to glucoregulation during prolonged exercise in dogs. Low-dose intravenous infusions of dopamine have been shown to blunt the activation of the carotid body chemoreceptors during hypoxia. Therefore, we tested the hypotheses that dopamine would blunt glucoregulatory responses and attenuate plasma glucose during prolonged aerobic exercise in healthy participants. Twelve healthy participants completed two randomized exercise sessions at 65% peak oxygen consumption for up to 120 min. Saline was infused during one exercise session, and dopamine (2 μg·kg-1·min-1) was infused during the other session. Arterial plasma glucose, growth hormone, glucagon, cortisol, norepinephrine, and epinephrine were measured every 10 min. Exercise duration during dopamine infusion was 107 ± 6 and 119 ± 0.8 min during saline infusion. Glucose area under the curve during exercise was lower during dopamine (9,821 ± 686 vs. 11,194 ± 395 arbitrary units; P = 0.016). The ratio of circulating growth hormone to glucose and the ratio of glucagon to glucose were greater during dopamine ( P = 0.045 and 0.037, respectively). These results indicate that the infusion of dopamine during aerobic exercise impairs glucoregulation. This suggests that the carotid body chemoreceptors contribute to glucoregulation during prolonged exercise in healthy exercise-trained humans.
Population genetic structure and geographic differentiation in butter catfish, Ompok bimaculatus, from Indian waters inferred by cytochrome b mitochondrial gene

Abstract Documentation of genetic differentiation among the populations of a species can provide useful information that has roles in conservation, breeding, and management plans. In the present study, we examined the genetic structure and phylogenetic relationships among the 149 individuals of Ompok bimaculatus belonging to 24 populations, collected from Indian waters, using cytochrome b gene. The combined analyses of data suggested that the Indian O. bimaculatus consist of three distinct mtDNA lineages with star-like haplotypes network, which exhibited high genetic variation and haplotypic diversity. Analysis of molecular variance indicated that most of the observed genetic variation was found among the populations suggesting restricted gene flow. Long-term interruption of gene flow was also evidenced by high overall Fst values (0.82367) that could be favored by the discontinuous distributions of the lineages.
Randomized control trial to assess the efficacy of metacognitive training compared with a psycho-educational group in people with a recent-onset psychosis

Background Aims were to assess the efficacy of metacognitive training (MCT) in people with a recent onset of psychosis in terms of symptoms as a primary outcome and metacognitive variables as a secondary outcome. Method A multicenter, randomized, controlled clinical trial was performed. A total of 126 patients were randomized to an MCT or a psycho-educational intervention with cognitive-behavioral elements. The sample was composed of people with a recent onset of psychosis, recruited from nine public centers in Spain. The treatment consisted of eight weekly sessions for both groups. Patients were assessed at three time-points: baseline, post-treatment, and at 6 months follow-up. The evaluator was blinded to the condition of the patient. Symptoms were assessed with the PANSS and metacognition was assessed with a battery of questionnaires of cognitive biases and social cognition. Results Both MCT and psycho-educational groups had improved symptoms post-treatment and at follow-up, with greater improvements in the MCT group. The MCT group was superior to the psycho-educational group on the Beck Cognitive Insight Scale (BCIS) total (p = 0.026) and self-certainty (p = 0.035) and dependence self-subscale of irrational beliefs, comparing baseline and post-treatment. Moreover, comparing baseline and follow-up, the MCT group was better than the psycho-educational group in self-reflectiveness on the BCIS (p = 0.047), total BCIS (p = 0.045), and intolerance to frustration (p = 0.014). Jumping to Conclusions (JTC) improved more in the MCT group than the psycho-educational group (p = 0.021). Regarding the comparison within each group, Theory of Mind (ToM), Personalizing Bias, and other subscales of irrational beliefs improved in the MCT group but not the psycho-educational group (p < 0.001–0.032). Conclusions MCT could be an effective psychological intervention for people with recent onset of psychosis in order to improve cognitive insight, JTC, and tolerance to frustration. It seems that MCT could be useful to improve symptoms, ToM, and personalizing bias.
Development and optimization of a standard method for extraction of microplastics in mussels by enzyme digestion of soft tissues

The authors compared procedures for digestion of mussel soft tissues and extraction of microplastics. Complete tissue digestion was achieved with 1M NaOH, 35% HNO3, and protease at 9.6 UHb/mL (unit hemoglobin per mL); but use of HNO3 caused unacceptable destruction of some microplastics. Recovery of microplastics spiked into mussels was similar (93 ± 10%) for NaOH and enzyme digestions. The authors recommend use of industrial enzymes based on digestion efficiency, microplastic recovery, and avoidance of caustic chemicals. Environ Toxicol Chem 2017;36:947–951. © 2016 SETAC
Different Age Distribution between Campylobacteriosis and Nontyphoidal Salmonellosis in Hospitalized Korean Children with Acute Inflammatory Diarrhea

We investigated recent epidemiologic trends regarding campylobacteriosis vs. nontyphoidal salmonellosis (NTS), a previously known leading cause of bacterial enterocolitis in Korean children. Among 363 hospitalized children with acute inflammatory diarrhea, Campylobacter (18.7%) was the most frequently detected pathogen using multiplex polymerase chain reaction tests followed by Salmonella (15.4%). Children with campylobacteriosis were older than children with NTS (112.6 months [interquartile range (IQR) 66.0–160.1] vs. 53 months [IQR 31.0–124.0], P < 0.001) and had higher prevalences of abdominal cramping and stool hemoglobin. Campylobacteriosis may be suspected as a primary cause of acute inflammatory diarrhea in hospitalized school-aged Korean children and adolescents.
Crowdroid: behavior-based malware detection system for Android

The sharp increase in the number of smartphones on the market, with the Android platform posed to becoming a market leader makes the need for malware analysis on this platform an urgent issue. In this paper we capitalize on earlier approaches for dynamic analysis of application behavior as a means for detecting malware in the Android platform. The detector is embedded in a overall framework for collection of traces from an unlimited number of real users based on crowdsourcing. Our framework has been demonstrated by analyzing the data collected in the central server using two types of data sets: those from artificial malware created for test purposes, and those from real malware found in the wild. The method is shown to be an effective means of isolating the malware and alerting the users of a downloaded malware. This shows the potential for avoiding the spreading of a detected malware to a larger community.
Voronoi tessellations in the CRT and continuum random maps of finite excess

Given a large graph G and k agents on this graph, we consider the Voronoi tessellation induced by the graph distance. Each agent gets control of the portion of the graph that is closer to itself than to any other agent. We study the limit law of the vector Vor := (V1/n, V2/n,., Vk/n), whose i'th coordinate records the fraction of vertices of G controlled by the i'th agent, as n tends to infinity. We show that if G is a uniform random tree, and the agents are placed uniformly at random, the limit law of Vor is uniform on the (k − 1)-dimensional simplex. In particular, when k = 2, the two agents each get a uniform random fraction of the territory. In fact, we prove the result directly on the Brownian continuum random tree (CRT), and we also prove the same result for a "higher genus" analogue of the CRT that we call the continuum random unicellular map, indexed by a genus parameter g ≥ 0. As a key step of independent interest, we study the case when G is a random planar embedded graph with a finite number of faces. The main idea of the proof is to show that Vor has the same distribution as another partition of mass Int := (I1/n,I2/n, ., Ik/n) where Ij is the contour length separating the i-th agent from the next one in clockwise order around the graph.
Building Resilience in an Urban Police Department

Objective: The aim of this study is to examine a resilience training intervention that impacts autonomic responses to stress and improves cardiovascular risk, psychological, and physiological outcomes in police. Methods: Officers [(n = 38) 22 to 54 years] modified emotional and physical responses to stress using self-regulation. Measurements include psychological and physiological measures [eg, heart rate variability (HRV), blood pressure, C-reactive protein)] obtained at three time intervals. Results: Age was significantly (P < 0.05) associated with changes on several measures of psychological stress (eg, critical incident stress, emotional vitality, and depression). Associations were found between coherence and improved HbA1c (r = −0.66, P < 0.001) and stress due to organizational pressures (r = −0.44, P = 0.03). Improvements in sympathetic and parasympathetic contributors of HRV were significant (P < 0.03). Conclusion: A stress-resilience intervention improves certain responses to job stress with greater benefits for younger participants.
The brainstem network controlling blood pressure: an important role for pressor sites in the caudal medulla and cervical spinal cord

&NA; Although medullary control of blood pressure (BP) has been extensively studied, the contribution of critical regions, such as pressor sites in the caudal medulla and upper cervical spinal cord and the lateral tegmental field, remains controversial and underappreciated. A series of pressor sites caudal to the caudal ventrolateral medulla (CVLM), including the caudal pressor area (CPA) and medullocervical pressor area, play an important role in control of BP. Activation and inhibition of these sites elicits pressor and depressor responses, respectively. Basal sympathetic tone is provided principally by the medullary lateral tegmental field and rostral ventrolateral medulla (RVLM). RVLM presympathetic neurons, which project to and drive preganglionic sympathetic somata in the intermediolateral cell column, are powerfully regulated by neurons in CVLM via tonic and phasic inhibition. The current state of knowledge is summarized thus: rostrocaudally organized columns of pressor sites caudal to CVLM extend to the upper cervical spinal cord; CPA pressor responses are RVLM-dependent; CPA mediates pressor responses by (first) inhibiting RVLM-projecting inhibitory CVLM units and (second) activating RVLM-projecting excitatory CVLM units; the chemoreflex is CPA-dependent; the baroreflex is CPA-independent; pressor responses to raphe obscurus stimulation are CPA-dependent; and medullocervical pressor area pressor responses are RVLM-independent, likely mediated by direct projections to the intermediolateral cell column. In this review, we seek to underscore and characterize the critical role played by the caudal medulla and upper cervical spinal cord in BP regulation and highlight important gaps in knowledge in interactions between the caudal medulla and other regions controlling BP, which may prove critical in revealing central mechanisms underlying pathophysiology of, and pharmacotherapeutic targets for, hypertension.
Mechanistic Explanation of the Weak Carbonic Anhydrase’s Esterase Activity

In order to elucidate the elementary mechanism of the promiscuous esterase activity of human carbonic anhydrase (h-CA), we present an accurate theoretical investigation on the hydrolysis of fully-acetylated d-glucose functionalized as sulfamate. This h-CA’s inhibitor is of potential relevance in cancer therapy. The study has been performed within the framework of three-layer ONIOM (QM-high:QM’-medium:MM-low) hybrid approach. The computations revealed that the hydrolysis process is not energetically favored, in agreement with the observed weak carbonic anhydrase’s esterase activity.
Diversity in Big Data: A Review

Big data technology offers unprecedented opportunities to society as a whole and also to its individual members. At the same time, this technology poses significant risks to those it overlooks. In this article, we give an overview of recent technical work on diversity, particularly in selection tasks, discuss connections between diversity and fairness, and identify promising directions for future work that will position diversity as an important component of a data-responsible society. We argue that diversity should come to the forefront of our discourse, for reasons that are both ethical-to mitigate the risks of exclusion-and utilitarian, to enable more powerful, accurate, and engaging data analysis and use.