Miracle-dz/UniFAR-FTUs huggingface dataset:
Acetyl-CoA Synthetase from the Amitochondriate EukaryoteGiardia lamblia Belongs to the Newly Recognized Superfamily of Acyl-CoA Synthetases (Nucleoside Diphosphate-forming)*

The gene coding for the acetyl-CoA synthetase (ADP-forming) from the amitochondriate eukaryote Giardia lamblia has been expressed in Escherichia coli. The recombinant enzyme exhibited the same substrate specificity as the native enzyme, utilizing acetyl-CoA and adenine nucleotides as preferred substrates and less efficiently, propionyl- and succinyl-CoA. N- and C-terminal parts of the G. lamblia acetyl-CoA synthetase sequence were found to be homologous to the α- and β-subunits, respectively, of succinyl-CoA synthetase. Sequence analysis of homologous enzymes from various bacteria, archaea, and the eukaryote, Plasmodium falciparum, identified conserved features in their organization, which allowed us to delineate a new superfamily of acyl-CoA synthetases (nucleoside diphosphate-forming) and its signature motifs. The representatives of this new superfamily of thiokinases vary in their domain arrangement, some consisting of separate α- and β-subunits and others comprising fusion proteins in α-β or β-α orientation. The presence of homologs of acetyl-CoA synthetase (ADP-forming) in such human pathogens as G. lamblia, Yersinia pestis, Bordetella pertussis,Pseudomonas aeruginosa, Vibrio cholerae,Salmonella typhi, Porphyromonas gingivalis, and the malaria agent P. falciparum suggests that they might be used as potential drug targets.
Experience-Centered Design: Designers, Users, and Communities in Dialogue

Experience-centered design, experience-based design, experience design, designing for experience, user experience design. All of these terms have emerged and gained acceptance in the Human-Computer Interaction (HCI) and Interaction Design relatively recently. In this book, we set out our understanding of experience-centered design as a humanistic approach to designing digital technologies and media that enhance lived experience. The book is divided into three sections. In Section 1, we outline the historical origins and basic concepts that led into and flow out from our understanding of experience as the heart of people's interactions with digital technology. In Section 2, we describe three examples of experience-centered projects and use them to illustrate and explain our dialogical approach. In Section 3, we recapitulate some of the main ideas and themes of the book and discuss the potential of experience-centered design to continue the humanist agenda by giving a voice to those who might otherwise be excluded from design and by creating opportunities for people to enrich their lived experience with and through technology. Table of Contents: How Did We Get Here? / Some Key Ideas Behind Experience-Centered Design / Making Sense of Experience in Experience-Centered Design / Experience-Centered Design as Dialogue / What do We Mean by Dialogue? / Valuing Experience-Centered Design / Where Do We Go from Here?
CCR5-Mediated Signaling is Involved in Invasion of Glioblastoma Cells in Its Microenvironment

The chemokine CCL5/RANTES is a versatile inflammatory mediator, which interacts with the receptor CCR5, promoting cancer cell interactions within the tumor microenvironment. Glioblastoma is a highly invasive tumor, in which CCL5 expression correlates with shorter patient survival. Using immunohistochemistry, we identified CCL5 and CCR5 in a series of glioblastoma samples and cells, including glioblastoma stem cells. CCL5 and CCR5 gene expression were significantly higher in a cohort of 38 glioblastoma samples, compared to low-grade glioma and non-cancerous tissues. The in vitro invasion of patients-derived primary glioblastoma cells and glioblastoma stem cells was dependent on CCL5-induced CCR5 signaling and is strongly inhibited by the small molecule CCR5 antagonist maraviroc. Invasion of these cells, which was enhanced when co-cultured with mesenchymal stem cells (MSCs), was inhibited by maraviroc, suggesting that MSCs release CCR5 ligands. In support of this model, we detected CCL5 and CCR5 in MSC monocultures and glioblastoma-associated MSC in tissue sections. We also found CCR5 expressing macrophages were in close proximity to glioblastoma cells. In conclusion, autocrine and paracrine cross-talk in glioblastoma and, in particular, glioblastoma stem cells with its stromal microenvironment, involves CCR5 and CCL5, contributing to glioblastoma invasion, suggesting the CCL5/CCR5 axis as a potential therapeutic target that can be targeted with repositioned drug maraviroc.
Obsessive-Compulsive Disorder Is Associated With Broad Impairments in Executive Function

Obsessive-compulsive disorder (OCD) is a serious and often chronically disabling condition. The current dominant model of OCD focuses on abnormalities in prefrontal-striatal circuits that support executive function (EF). Although there is growing evidence for EF impairments associated with OCD, results have been inconsistent, which makes the nature and magnitude of these impairments controversial. The current meta-analysis uses random-effects models to synthesize 110 studies in which participants with OCD were compared with healthy control participants on at least one neuropsychological measure of EF. The results indicate that individuals with OCD are impaired on tasks measuring most aspects of EF, consistent with broad impairment in EF. EF deficits were not explained by general motor slowness or depression. Effect sizes were largely stable across variation in demographic and clinical characteristics of samples, although medication use, age, and gender moderated some effects.
Individual differences in framing and conjunction effects

Individual differences on a variety of framing and conjunction problems were examined in light of Slovic and Tversky’s (1974) understanding/acceptance principle—that more reflective and skilled reasoners are more likely to affirm the axioms that define normative reasoning and to endorse the task construals of informed experts. The predictions derived from the principle were confirmed for the much discussed framing effect in the Disease Problem and for the conjunction fallacy on the Linda Problem. Subjects of higher cognitive ability were disproportionately likely to avoid each fallacy. Other framing problems produced much more modest levels of empirical support. It is conjectured that the varying patterns of individual differences are best explained by two-process theories of reasoning (e.g. Evans, 1984, 1996; Sloman, 1996) conjoined with the assumption that the two processes differentially reflect interactional and analytic intelligence.
How Important are Financial Frictions in the U.S. and the Euro Area

This paper aims to evaluate if frictions in credit markets are important for business cycles in the U.S. and the Euro area. For this purpose, I modify the DSGE financial accelerator model developed by Bernanke, Gertler and Gilchrist (1999) by adding frictions such as price indexation to past inflation, sticky wages, consumption habits and variable capital utilization. When I estimate the model with Bayesian methods, I find that financial frictions are relevant in both areas. According to the posterior odds ratio, the data clearly favors the model with financial frictions both in the U.S. and the Euro area. Moreover, consistent with common perceptions, financial frictions are larger in the Euro area.
Author ' s personal copy A closer look at decisions to quit

Aspects of March and Simon’s (1958) subjective expected utility model and a prediction of Lee and Mitchell’s (1994) unfolding model of voluntary employee turnover were tested. A policy capturing simulation that varied high, moderate, and low levels of five job characteristics was used to model voluntary turnover decision processes for 532 nurses. Survey measures of these job characteristics obtained over the next 2 years were multiplied by weights derived from nurse simulations to yield turnover likelihood estimates. These estimates exhibited 80%, 127%, and 190% more predictive power (depending on turnover operationalization) than post-employment survey estimates of turnover intention, job satisfaction, and job availability. Groups of nurses with homogeneous voluntary turnover decision models were also identified, though no groups with homogeneous job perceptions were observed. Evidence suggested nurses responded to ‘‘shocks’’ as predicted. March and Simon’s model of voluntary turnover was supported and implications drawn for managing voluntary nursing turnover. 2011 Elsevier Inc. All rights reserved.
High scores on the Western Aphasia Battery correlate with good functional communication skills (as measured with the Communicative Effectiveness Index) in aphasic stroke patients

Objective. To examine the correlation between an impairment-level and a functional-level assessment scale of aphasia. Design. Prospective, longitudinal study. Setting. A stroke rehabilitation unit. Subjects. Sixty-seven aphasic acute stroke patients who were undergoing a multi-disciplinary rehabilitation programme, including conventional speech and language therapy (SLT). Intervention. Patients were assessed on study entry and 4, 8, 12 and 24 weeks after the start of SLT. The language impairment was assessed with the Western Aphasia Battery (WAB) and the communicative functional limitation associated with aphasia was measured with the Communicative Effectiveness Index (CETI). Results. There was a statistically significant correlation between the two scales for all assessment periods (Pearson's r = 0.71; P < 0.01). Conclusion. The study suggests that in the acute and subacute stages of stroke the scores of WAB and CETI can be surmised from one another.
Intraocular pressure in the first days after implantation of posterior chamber lenses with the use of sodium hyaluronate (Healon®)

Abstract Intraocular pressure (IOP) was measured before and 6, 24, 48 and 72 h after extracapsular catacact extraction with implantation of a posterior chambers lens in 3 groups of patients. Group I (30 patients): Sodium hyaluronate (Healon®) was used during anterior capsulotomy and lens implantation and was aspirated at the end of surgery. Group II (22 patients): Healon as in group I + 500 mg acetazolamide at the end of surgery. Group III (17 patients): BSS and/or air was used instead of Healon during surgery. In all groups statistically significant rises in IOP after 6 h were followed by significant falls in the remaining post‐operative period. The rise and subsequent fall in IOP was significantly greater in group I than in group III. Acetazolamide in group II did not prevent excessive rises in IOP. Aspiration probably shortens the period of Healon‐induced hypertension. We recommend a meticulous aspiration of Healon at the end of surgery.
Insight into the Regulatory Relationships between the Insulin-Like Androgenic Gland Hormone Gene and the Insulin-Like Androgenic Gland Hormone-binding Protein Gene in Giant Freshwater Prawns (Macrobrachium rosenbergii)

Giant freshwater prawns (Macrobrachium rosenbergii) are commonly found throughout the world. The size of the male giant freshwater prawn is much larger than that of the female. Therefore, understanding the molecular mechanism that underlies the sexual differentiation of M. rosenbergii is of both commercial and scientific importance. Insulin-like androgenic gland hormone (IAG) plays a key role in the differentiation of sex in M. rosenbergii. Although IAG has been investigated, the regulatory relationship between IAG and its binding protein partner, the insulin-like androgenic gland hormone-binding protein (IAGBP), has not been studied in M. rosenbergii. Here, we cloned and characterized the IAGBP from M. rosenbergii (Mr-IAGBP) for the very first time. Transcriptomic analysis showed that Mr-IAGBP mRNA was detected in a wide array of tissues with the highest expression found in the androgenic gland. The importance of IAG in male development was further demonstrated by an increase in IAG transcripts during the development of the androgenic gland and Mr-IAG was only highly transcribed in the androgenic gland of M. rosenbergii. Interestingly, we found that the Mr-IAG gene expression started during the 20th-day larva after hatching stage (LH20), followed (20th-day post-larval stage, PL20) by a gradual elevation of Mr-IAGBP levels. The levels of both genes peaked at the adult stage. The relationship between Mr-IAGBP and Mr-IAG was further analyzed using RNA interference. The injection of Mr-IAGBP double-stranded RNA (dsRNA) significantly reduced the transcription of Mr-IAG, while the amount of Mr-IAGBP mRNA and the translation of IAGBP protein was significantly reduced by the injection of Mr-IAG dsRNA. These results revealed that IAGBP is involved in IAG signaling. Furthermore, our data supports the hypothesis that (IAG and IAGBP)-IAG receptor signaling schemes exist in M. rosenbergii. Our results will provide important information for the further study of determining the sex of M. rosenbergii.
Epidermal Hyperplasia and Elevated HB-EGF are More Prominent in Retinoid Dermatitis Compared with Irritant Contact Dermatitis Induced by Benzalkonium Chloride.

BACKGROUND 'Retinoid dermatitis' is a retinoid-induced irritant contact dermatitis (ICD). The mechanism of retinoid dermatitis may be different from that of other ICDs. However, it remains uncertain how topical retinoid induce ICD. OBJECTIVE We compared several aspects of contact dermatitis induced by topical retinol and benzalkonium chloride (BKC) on hairless mice skin. METHODS 2% retinol or 2.5% BKC was applied to hairless mice and transepidermal water loss (TEWL), ear thickness, histologic and immunohistochemical findings were compared. We also compared mRNA expression of inflammatory cytokines, epidermal differential markers, cyclooxygenases (COXs) and heparin binding epidermal growth factor like growth factor (HB-EGF). RESULTS Topical application of 2% retinol and 2.5% BKC increased TEWL and ear thickness in similar intensity. Epidermal hyperplasia was more prominent in retinol treated skin. Proliferating cell nuclear antigen, involucrin and loricrin expression were higher in retinol-treated skin than in BKC-treated skin. Filaggrin, however, was more expressed in BKC-treated skin. The mRNA expression of IL-8, TNF-alpha, COX-2, involucrin, loricrin and filaggrin were increased in both retinol- and BKC-treated skin in similar intensity. HB-EGF was more significantly increased in retinol-treated skin. CONCLUSION Elevated HB-EGF and epidermal hyperplasia are more prominent features of retinoid dermatitis than in BKC-induced ICD.
Interoperable Supply-Chain Applications: Message Metamodel-Based Semantic Reconciliation of B2B Messages

Supply-chain applications exchange numerous electronic business-to-business (B2B) messages of varied types. Traditionally, prior to a message exchange, partners adopt one particular message specification that constrains message structure and syntax to implement compatible application message interfaces. However, in open, dynamic supply-chains, the applications need to interact even though their message interfaces are based on different, yet incompatible message specifications. To achieve such interactions, we propose the Message Metamodel-based semantic reconciliation of B2B messages. The Message Metamodel is a novel, ontological form that provides for common representation of B2B message specifications and messages of various syntaxes, such as Extensible Markup Language (XML) or Electronic Data Interchange (EDI). The experimental investigation showed that proposed semantic reconciliation architecture built atop the Message Metamodel (1) insulates the reconciliation activities from the specific message syntaxes, (2) supports the reconciliation of messages irrespective of message standards used, and (3) enables seamless interoperable message exchange between heterogeneous supply-chain applications.
The tumor microenvironment and Immunoscore are critical determinants of dissemination to distant metastasis

Local lymphatic vessel density and immune cytotoxicity prevent metastatic invasion. Managing metastasis Because of the poor prognosis of metastatic cancer, it is critical to determine exactly how different factors contribute to cancer spread. Mlecnik et al. examined the impact of tumor-intrinsic, microenvironmental, and immunological factors on tumor metastasis in colorectal cancer patients. They found that decreased presence of lymphatic vessels and reduced immune cytotoxicity were more strongly associated with the metastatic process than tumor-intrinsic factors such as chromosomal instability or cancer-associated mutations. These data support testing the Immunoscore as a biomarker to predict metastasis and guide therapy. Although distant metastases account for most of the deaths in cancer patients, fundamental questions regarding mechanisms that promote or inhibit metastasis remain unanswered. We show the impact of mutations, genomic instability, lymphatic and blood vascularization, and the immune contexture of the tumor microenvironment on synchronous metastases in large cohorts of colorectal cancer patients. We observed large genetic heterogeneity among primary tumors, but no major differences in chromosomal instability or key cancer-associated mutations. Similar patterns of cancer-related gene expression levels were observed between patients. No cancer-associated genes or pathways were associated with M stage. Instead, mutations of FBXW7 were associated with the absence of metastasis and correlated with increased expression of T cell proliferation and antigen presentation functions. Analyzing the tumor microenvironment, we observed two hallmarks of the metastatic process: decreased presence of lymphatic vessels and reduced immune cytotoxicity. These events could be the initiating factors driving both synchronous and metachronous metastases. Our data demonstrate the protective impact of the Immunoscore, a cytotoxic immune signature, and increased marginal lymphatic vessels, against the generation of distant metastases, regardless of genomic instability.
Relationships Between Soil Nitrogen Availability Indices, Yield, and Nitrogen Accumulation of Wheat

The success of variable rate N fertilizer application rests on our ability to predict the contribution of soil N to growing crops. We assessed relationships between soil N availability indices (SNAIs), yield, and total N accumulation of wheat (Triticum aestivum L.) grown in a typical glacial till landscape in Saskatchewan, Canada. Soil samples were collected at 3-m intervals along a 300-m transect comprised of low (LCFS) and high catchment footslopes (HCFS), and low (LCSH) and high catchment shoulders (HCSH). Total soil N and C, organic C, mineral N, depth of A horizon, spring soil moisture, grain yield, and total plant N were measured. Soil N availability indices used in this study included: (i) cumulative N released during a 2-wk aerobic incubation (N MIN ); (ii) potentially mineralizable N estimated using a 16-wk aerobic incubation (N 0 ); (iii) NO 3 sorbed on anion-exchange membranes (NO 3AEM ); (iv) N extracted with hot KCl (N KCl ); and (v) N hydrolyzed with hot KCl (N HYDR ). Although all SNAIs were significantly correlated to yield and, with the exception of N 0 , total plant N when analyzed across the transect, typically <40% of the yield variability was explained. Forward stepwise regression revealed that most SNAIs failed to explain more variability in crop N accumulation than did basic soil properties or relative elevation. Although these results do not invalidate the use of SNAIs for soil testing purposes, it is clear that SNAIs must be combined with additional information about field scale variability for predicting fertilizer N requirements. Without this information, grid sampling as a means of assessing N requirements remains ill-advised for glacial till semiarid landscapes.
Novel Phospholipase A Activity Secreted byLegionella Species

ABSTRACT Bacterial phospholipases are regarded as a major virulence factor in infection. In bacteria associated with pneumonia, destruction of lung surfactant and host cell membranes by bacterial phospholipases secreted during infection is thought to contribute to the disease. Phospholipase C (PLC) activity has been described in severalLegionella species (W. B. Baine, J. Gen. Microbiol. 134:489–498, 1988; W. B. Baine, J. Gen. Microbiol. 131:1383–1391, 1985). By using detection methods such as thin-layer chromatography and mass spectrometry, PLC activity could not be detected in several strains of Legionella pneumophila. Instead, phospholipid degradation was identified to be caused by a novel PLA activity. We could demonstrate that PLA secretion starts at the mid-exponential-growth phase when bacteria were grown in liquid culture. Several Legionella species secreted different amounts of PLA. Legionella PLA may act as a powerful agent in the mediation of pathogenicity due to destruction of lung surfactant and epithelial cells.
Continuous High-Altitude Measurements of Cosmic Ray Neutrons and SEU/MCU at Various Locations: Correlation and Analyses Based-On MUSCA SEP$^{3}$

In this paper are described measurements at high-altitude of both radiation environment and effects. These measurements comprise cosmic ray neutrons and SBU/MCU on nanoscales devices. Results obtained at Pic-du-Midi, France, and in the city of Puno, Peru, are presented and analyzed. Analyses and cross comparisons based-on MUSCA SEP3 calculations show a good agreement between experimental data and modeling, thus illustrating the importance of the knowledge of the radiation field for a reliable prediction.
Protease Production by Bacillus subtilis Immobilized on Different Matrices

Protease production by Bacillus subtilis with free and immobilized cells was examined in this study. Entrapment method of immobilization was used with gelatin, polyacrylamide, calcium alginate and agar matrices and protease production was studied compared to equivalent weight of free cells. Results showed that the gelatin entrapped cells produce 10.8 U/ml; the maximum enzyme titer followed by polyacrylamide, 9.22 U/ml; calcium alginate, 7.8 U/ml and agar, 6.48 U/ml. Equivalent free cells produce 5.7 U/ml protease enzyme. The cell leakage by gelatin was less, 0.06 mg/ml; by polyacrylamide, 0.22 mg/ml; calcium alginate, 0.32 mg/ml and the maximum, 0.74 mg/ml by agar. On repeated batch culturing it was observed that the gelatin entrapped cells can be reused for 7 cycles, followed by polyacrylamide, 6 cycles; calcium alginate, 5 cycles and agar for 3 cycles. The overall protease production by gelatin entrapped cells was 45.36 U/ml. The study suggests the gelatin, a better matrix than others for protease production by Bacillus subtilis. (New York Science Journal 2010;3(7):20-24). (ISSN: 1554-0200).