Miracle-dz/UniFAR-FTUs huggingface dataset:
Repertoire, Genealogy and Genomic Organization of Cruzipain and Homologous Genes in Trypanosoma cruzi, T. cruzi-Like and Other Trypanosome Species

Trypanosoma cruzi, the agent of Chagas disease, is a complex of genetically diverse isolates highly phylogenetically related to T. cruzi-like species, Trypanosoma cruzi marinkellei and Trypanosoma dionisii, all sharing morphology of blood and culture forms and development within cells. However, they differ in hosts, vectors and pathogenicity: T. cruzi is a human pathogen infective to virtually all mammals whilst the other two species are non-pathogenic and bat restricted. Previous studies suggest that variations in expression levels and genetic diversity of cruzipain, the major isoform of cathepsin L-like (CATL) enzymes of T. cruzi, correlate with levels of cellular invasion, differentiation, virulence and pathogenicity of distinct strains. In this study, we compared 80 sequences of genes encoding cruzipain from 25 T. cruzi isolates representative of all discrete typing units (DTUs TcI-TcVI) and the new genotype Tcbat and 10 sequences of homologous genes from other species. The catalytic domain repertoires diverged according to DTUs and trypanosome species. Relatively homogeneous sequences are found within and among isolates of the same DTU except TcV and TcVI, which displayed sequences unique or identical to those of TcII and TcIII, supporting their origin from the hybridization between these two DTUs. In network genealogies, sequences from T. cruzi clustered tightly together and closer to T. c. marinkellei than to T. dionisii and largely differed from homologues of T. rangeli and T. b. brucei. Here, analysis of isolates representative of the overall biological and genetic diversity of T. cruzi and closest T. cruzi-like species evidenced DTU- and species-specific polymorphisms corroborating phylogenetic relationships inferred with other genes. Comparison of both phylogenetically close and distant trypanosomes is valuable to understand host-parasite interactions, virulence and pathogenicity. Our findings corroborate cruzipain as valuable target for drugs, vaccine, diagnostic and genotyping approaches.
Trimetazidine Protects against Smoking-Induced Left Ventricular Remodeling via Attenuating Oxidative Stress, Apoptosis, and Inflammation

Trimetazidine, a piperazine derivative used as an anti-anginal agent, improves myocardial glucose utilization through inhibition of fatty acid metabolism. The present study was designed to investigate whether trimetazidine has the protective effects against smoking-induced left ventricular remodeling in rats. In this study, Wistar rats were randomly divided into 3 groups: smoking group (exposed to cigarette smoke), trimetazidine group (exposed to cigarette smoke and treated with trimetazidine), and control group. The echocardiographic and morphometric data indicated that trimetazidine has protective effects against smoking-induced left ventricular remodeling. Oxidative stress was evaluated by detecting malondialdehyde, superoxide dismutase, and glutathione peroxidase in the supernatant of left ventricular tissue. Cardiomyocyte apoptotic rate was determined by flow cytometry with Annexin V/PI staining. Gene expression and serum levels of inflammatory markers, including interleukin-1β, interleukin-6, and tumor necrosis factor-α, were deteced by quantitative real-time PCR and enzyme-linked immunosorbent assay. Our results suggested that trimetazidine could significantly reduce smoking-induced oxidative stress, apoptosis, and inflammation. In conclusion, our study demonstrates that trimetazidine protects against smoking-induced left ventricular remodeling via attenuating oxidative stress, apoptosis, and inflammation.
Dissociated Neural Processing for Decisions in Managers and Non-Managers

Functional neuroimaging studies of decision-making so far mainly focused on decisions under uncertainty or negotiation with other persons. Dual process theory assumes that, in such situations, decision making relies on either a rapid intuitive, automated or a slower rational processing system. However, it still remains elusive how personality factors or professional requirements might modulate the decision process and the underlying neural mechanisms. Since decision making is a key task of managers, we hypothesized that managers, facing higher pressure for frequent and rapid decisions than non-managers, prefer the heuristic, automated decision strategy in contrast to non-managers. Such different strategies may, in turn, rely on different neural systems. We tested managers and non-managers in a functional magnetic resonance imaging study using a forced-choice paradigm on word-pairs. Managers showed subcortical activation in the head of the caudate nucleus, and reduced hemodynamic response within the cortex. In contrast, non-managers revealed the opposite pattern. With the head of the caudate nucleus being an initiating component for process automation, these results supported the initial hypothesis, hinting at automation during decisions in managers. More generally, the findings reveal how different professional requirements might modulate cognitive decision processing.
Morphological Phylogenetic Analysis of Seven Varieties of Ficus deltoidea Jack from the Malay Peninsula of Malaysia

This study is the first report to suggest a morphological phylogenetic framework for the seven varieties of Ficus deltoidea Jack (Ficus: Moraceae) from the Malay Peninsula of Malaysia. Several molecular-based classifications on the genus Ficus had been proposed, but neither had discussed the relationship between seven varieties of F. deltoidea to its allies nor within the varieties. The relationship between seven varieties of F. deltoidea is still debated due to the extreme morphological variabilities and ambiguous boundaries between taxa. Thus, the correct identification of these varieties is important as several morphological characters are variety-specific. To test the monophyly and further resolved the relationship in F. deltoidea, a morphological phylogenetic analysis was conducted based on herbarium specimens representing the seven varieties of F. deltoidea that were collected from the Malay Peninsula of Malaysia, by using related species of the genus Ficus; F. grossularioides, F. ischnopoda and F. oleifolia as the outgroups. Parsimony and neighbour-joining analyses indicated that F. deltoidea is monophyletic, in that the seven varieties of F. deltoidea nested into two clades; clade subspecies deltoidea (var. deltoidea, var. bilobata, var. angustifolia, var. kunstleri and var. trengganuensis) and clade subspecies motleyana (var. intermedia and var. motleyana).
Panconnectivity, fault‐tolerant hamiltonicity and hamiltonian‐connectivity in alternating group graphs

Jwo et al. [Networks 23 (1993) 315–326] introduced the alternating group graph as an interconnection network topology for computing systems. They showed that the proposed structure has many advantages over n‐cubes and star graphs. For example, all alternating group graphs are hamiltonian‐connected (i.e., every pair of vertices in the graph are connected by a hamiltonian path) and pancyclic (i.e., the graph can embed cycles with arbitrary length with dilation 1). In this article, we give a stronger result: all alternating group graphs are panconnected, that is, every two vertices x and y in the graph are connected by a path of length k for each k satisfying d(x, y) ≤ k ≤ |V| − 1, where d(x, y) denotes the distance between x and y, and |V| is the number of vertices in the graph. Moreover, we show that the r‐dimensional alternating group graph AGr, r ≥ 4, is (r − 3)‐vertex fault‐tolerant Hamiltonian‐connected and (r − 2)‐vertex fault‐tolerant hamiltonian. The latter result can be viewed as complementary to the recent work of Lo and Chen [IEEE Trans. Parallel and Distributed Systems 12 (2001) 209–222], which studies the fault‐tolerant hamiltonicity in faulty arrangement graphs. © 2004 Wiley Periodicals, Inc. NETWORKS, Vol. 44(4), 302–310 2004
Adhesive Capsulitis

Adhesive capsulitis is characterized by a painful, gradual loss of both active and passive glenohumeral motion resulting from progressive fibrosis and ultimate contracture of the glenohumeral joint capsule. Variable nomenclature, inconsistent reporting of disease staging, and a multitude of different treatments have created a confusing and contradictory body of literature about this condition. Our purpose is to review the evidence for both nonsurgical and surgical management of adhesive capsulitis with an emphasis on level I and II studies when available. Significant deficits in the literature include a paucity of randomized controlled trials, failure to report response to treatment in a stage-based fashion, and an incomplete understanding of the disease's natural course. Recognition that the clinical stages reflect a progression in the underlying pathological changes should guide future treatments.
Is the imperilled spur-thighed tortoise ( Testudo graeca ) native in Sardinia? Implications from population genetics and for conservation

Using mtDNA sequences and 12 microsatellite loci, we compare populations of Testudo graeca from Sardinia and North Africa. The observed pattern of almost no differentiation combined with reduced variation in the Sardinian population is consistent with introduction in prehistoric or historic times from what is now Tunisia and neighbouring Algeria. Furthermore, in the light of the recently published recommendation to eradicate the non-native T. graeca from Italy, we review recent studies on the archaeological and fossil record, on the phylogeography and population genetics of the three other chelonian species occurring in Sardinia (Emys orbicularis, T. hermanni, T. marginata). We conclude that the extant Sardinian populations of all four species are not native. However, they are and should be safeguarded under EC law (Council Regulation No 338/97 on the Protection of Species of Wild Fauna and Flora; Flora Fauna Habitat Directive: Appendix IV, Art. 12) because they serve as a back-up for the declining mainland populations. Moreover, these populations constitute an important part of the human-shaped natural heritage of the Mediterranean.
Links Between Remembered Childhood Emotion Socialization and Adult Adjustment

The purpose of this article was to examine whether recollections of mothers’ emotion socialization practices during childhood are linked to adult emotional well-being as indexed by depression, trait anger, and cardiac vagal tone, and whether these effects vary for African American and European American women. Participants included 251 women (128 European American, 123 African American) who ranged in age from 18 to 44 years (M = 25 years). Multigroup confirmatory factor analyses indicated strong measurement and factor invariance across African American and European American participants. Remembered nonsupportive emotion socialization was linked with elevated depressive symptoms for European American women but not African American women and with elevated trait anger for both groups. Remembered supportive emotion socialization was linked with higher resting vagal tone for both groups. The results provide some support for the view that nonsupportive emotion socialization may be more detrimental for European Americans than African Americans.
The Incidence of Complications in Single-stage Endoscopic Stone Removal for Patients with Common Bile Duct Stones: A Propensity Score Analysis

Objective Single-stage endoscopic stone removal for choledocholithiasis is an advantageous approach because it is associated with a shorter hospital stay; however, few studies have reported the incidence of complications related to this procedure in detail. The aim of this study was to examine the incidence of complications and efficacy of this procedure. Methods This retrospective study investigated the incidence of complications in 345 patients with naive papilla who underwent therapeutic endoscopic retrograde cholangiopancreatography (ERCP) for choledocholithiasis at three institutions between April 2014 and March 2016 by a propensity score analysis. The efficacy of single-stage endoscopic stone removal was assessed based on a hospital stay of within 7 days and the number of ERCP attempts. Results Among 114 patients who underwent single-stage endoscopic stone removal, 15 patients (13.2%) experienced complications. Among the remaining 231 patients in the two-stage endoscopic stone removal group, complications were observed in 17 patients (7.4%). The propensity score analysis, which was adjusted for confounding factors, revealed that single-stage endoscopic stone removal was not a significant risk factor for complications (p=0.52). In patients in whom >10 min was required for deep cannulation, single-stage endoscopic stone removal was not a significant risk factor for complications in the propensity score analysis (p=0.37). In the single-stage group, the proportion of patients with a hospital stay of within 7 days was significantly higher and the number of ERCP attempts was significantly lower in comparison to the two-stage group (p <0.0001 and <0.0001, respectively). Conclusion Single-stage endoscopic stone removal did not increase the incidence of complications associated with ERCP and was effective for reducing the hospital stay and the number of ERCP attempts.
Distinct calcitonin gene-related peptide expression pattern in primary afferents contribute to different neuropathic symptoms following chronic constriction or crush injuries to the rat sciatic nerve

Although calcitonin gene-related peptide is a recognized pain transducer, the expression of calcitonin gene-related peptide in primary afferents may be differentially affected following different types of nerve injury. Here, we examined whether different calcitonin gene-related peptide expression patterns in primary afferents contributes to distinct sensory disturbances in three animal models of sciatic nerve injury: chronic constriction injury, mild (100g force) or strong (1000g force) transient crush in rats. Assessments of withdrawal reflexes and spontaneous behavior indicated that chronic constriction injury and mild crush resulted in positive neuropathic symptoms (static/dynamic mechanical allodynia, heat hyperalgesia, cold allodynia, spontaneous pain). However, strong crush led to both positive (dynamic mechanical allodynia, cold allodynia, spontaneous pain) and negative symptoms (static mechanical hypoesthesia, heat hypoalgesia). Calcitonin gene-related peptide immunoreactivity in dorsal root ganglia and corresponding spinal cord segments, and calcitonin gene-related peptide mRNA levels in dorsal root ganglia, indicated that the primary afferent calcitonin gene-related peptide supply was markedly reduced only after strong crush. This reduction paralleled the development of negative symptoms (static mechanical hypoesthesia and heat hypoalgesia). Administration of exogenous calcitonin gene-related peptide intrathecally after strong crush did not alter heat hypoalgesia but ameliorated static mechanical hypoesthesia, an effect blocked by a calcitonin gene-related peptide receptor antagonist. Thus, reducing the primary afferent calcitonin gene-related peptide supply contributed to subsequent negative neuropathic symptoms, especially to static mechanical stimuli. Moreover, nerve injury caused a subcellular redistribution of calcitonin gene-related peptide from small- and medium-size dorsal root ganglia neurons to large-size dorsal root ganglia neurons, which paralleled the development of positive neuropathic symptoms. Intrathecal administration of the calcitonin gene-related peptide receptor antagonist ameliorated these positive symptoms, indicating that the expression of calcitonin gene-related peptide in large-size dorsal root ganglia neurons is important for the positive neuropathic symptoms in all three models. Taken together, these results suggest that distinct calcitonin gene-related peptide expression pattern in primary afferents contribute to different neuropathic symptoms following chronic constriction or crush injuries to the rat sciatic nerve.
The 5-Hydroxymethylcytosine (5hmC) Reader UHRF2 Is Required for Normal Levels of 5hmC in Mouse Adult Brain and Spatial Learning and Memory*

UHRF2 has been implicated as a novel regulator for both DNA methylation (5mC) and hydroxymethylation (5hmC), but its physiological function and role in DNA methylation/hydroxymethylation are unknown. Here we show that in mice, UHRF2 is more abundantly expressed in the brain and a few other tissues. Uhrf2 knock-out mice are viable and fertile and exhibit no gross defect. Although there is no significant change of DNA methylation, the Uhrf2 null mice exhibit a reduction of 5hmC in the brain, including the cortex and hippocampus. Furthermore, the Uhrf2 null mice exhibit a partial impairment in spatial memory acquisition and retention. Consistent with the phenotype, gene expression profiling uncovers a role for UHRF2 in regulating neuron-related gene expression. Finally, we provide evidence that UHRF2 binds 5hmC in cells but does not appear to affect the TET1 enzymatic activity. Together, our study supports UHRF2 as a bona fide 5hmC reader and further demonstrates a role for 5hmC in neuronal function.
Topological superconductors: a review

This review elaborates pedagogically on the fundamental concept, basic theory, expected properties, and materials realizations of topological superconductors. The relation between topological superconductivity and Majorana fermions are explained, and the difference between dispersive Majorana fermions and a localized Majorana zero mode is emphasized. A variety of routes to topological superconductivity are explained with an emphasis on the roles of spin–orbit coupling. Present experimental situations and possible signatures of topological superconductivity are summarized with an emphasis on intrinsic topological superconductors.
Clinical and Audiologic Characteristics of Tinnitus in Subjects Aged <65 and >65 Years.

OBJECTIVE This study compared the characteristics of tinnitus, by audiologic tests and questionnaires, in older and younger subjects. MATERIALS AND METHODS Medical records of 258 outpatients with tinnitus were retrospectively reviewed. Characteristics compared in subjects aged <65 and >65 years included patient history and the results of physical examinations, questionnaires, and audiologic tests. RESULTS Fifty-nine patients were aged 65 years and older (older group), and 199 were less than 65 years old (younger group). The prevalence of chronic tinnitus was significantly higher in the older group (p<0.05). Assessments of audiologic configuration showed that the rate of high frequency steeply sloping configuration was significantly higher (p<0.05). The rate of sensorineural hearing loss was significantly higher in the older group (p<0.05). On tinnitograms, loudness was significantly higher in the older group (p<0.05). Auditory brainstem responses analysis showed that V latency was longer in the older group (p<0.05). The older group showed lower responses at every frequency on distortion product otoacoustic emissions (p<0.05) and lower signal-to-noise ratio at every frequency on transient evoked otoacoustic emissions (p<0.05). CONCLUSION The clinical manifestations of tinnitus and audiological results differ between older and younger subjects with tinnitus.
Measuring, Understanding, and Classifying News Media Sympathy on Twitter after Crisis Events

This paper investigates bias in coverage between Western and Arab media on Twitter after the November 2015 Beirut and Paris terror attacks. Using two Twitter datasets covering each attack, we investigate how Western and Arab media differed in coverage bias, sympathy bias, and resulting information propagation. We crowdsourced sympathy and sentiment labels for 2,390 tweets across four languages (English, Arabic, French, German), built a regression model to characterize sympathy, and thereafter trained a deep convolutional neural network to predict sympathy. Key findings show: (a) both events were disproportionately covered (b) Western media exhibited less sympathy, where each media coverage was more sympathetic towards the country affected in their respective region (c) Sympathy predictions supported ground truth analysis that Western media was less sympathetic than Arab media (d) Sympathetic tweets do not spread any further. We discuss our results in light of global news flow, Twitter affordances, and public perception impact.
Effectiveness of Constructed Wetlands in Reducing Nitrogen and Phosphorus Export from Agricultural Tile Drainage

Much of the nonpoint N and P entering surface waters of the Midwest is from agriculture. We determined if constructed wetlands could be used to reduce nonpoint N and P exports from agricultural tile drainage systems to surface waters. Three treatment wetlands (0.3 to 0.8 ha in surface area, 1200 to 5400 m 3 in volume) that intercepted subsurface tile drainage water were constructed in 1994 on Colo soils (fine-silty, mixed, superactive, mesic Cumulic Endoaquoll) between upland maize (Zea mays L.) and soybean [Glycine max (L.) Merr. ] cropland and the adjacent Embarras River. Water (tile flow, precipitation, evapotranspiration, outlet flow, and seepage) and nutrient (N and P) budgets were determined from 1 Oct. 1994 through 30 Sept. 1997 for each wetland. Wetlands received 4639 kg total N during the 3-yr period (96% as NO 3 -N) and removed 1697 kg N, or 37% of inputs. Wetlands decreased NO 3 -N concentrations in inlet water (annual outlet volume weighted average concentrations of 4.6 to 14.5 mg N L -1 ) by 28% compared with the outlets. When the wetlands were coupled with the 15.3-m buffer strip between the wetlands and the river, an additional 9% of the tile NO 3 -N was apparently removed, increasing the N removal efficiency to 46%. Overall, total P removal was only 2% during the 3-yr period, with highly variable results in each wetland and year. Treatment wetlands can be an effective tool in reducing agricultural N loading to surface water and for attaining drinking water standards in the Midwest.