Miracle-dz/UniFAR-FTUs huggingface dataset:
Singlet Oxygen Is the Major Reactive Oxygen Species Involved in Photooxidative Damage to Plants1[W]

Reactive oxygen species act as signaling molecules but can also directly provoke cellular damage by rapidly oxidizing cellular components, including lipids. We developed a high-performance liquid chromatography-electrospray ionization-tandem mass spectrometry-based quantitative method that allowed us to discriminate between free radical (type I)- and singlet oxygen (1O2; type II)-mediated lipid peroxidation (LPO) signatures by using hydroxy fatty acids as specific reporters. Using this method, we observed that in nonphotosynthesizing Arabidopsis (Arabidopsis thaliana) tissues, nonenzymatic LPO was almost exclusively catalyzed by free radicals both under normal and oxidative stress conditions. However, in leaf tissues under optimal growth conditions, 1O2 was responsible for more than 80% of the nonenzymatic LPO. In Arabidopsis mutants favoring 1O2 production, photooxidative stress led to a dramatic increase of 1O2 (type II) LPO that preceded cell death. Furthermore, under all conditions and in mutants that favor the production of superoxide and hydrogen peroxide (two sources for type I LPO reactions), plant cell death was nevertheless always preceded by an increase in 1O2-dependent (type II) LPO. Thus, besides triggering a genetic cell death program, as demonstrated previously with the Arabidopsis fluorescent mutant, 1O2 plays a major destructive role during the execution of reactive oxygen species-induced cell death in leaf tissues.
Dissociation of the tubulin dimer is extremely slow, thermodynamically very unfavorable, and reversible in the absence of an energy source.

The finding that exchange of tubulin subunits between tubulin dimers (alpha-beta + alpha'beta' <--> alpha'beta + alphabeta') does not occur in the absence of protein cofactors and GTP hydrolysis conflicts with the assumption that pure tubulin dimer and monomer are in rapid equilibrium. This assumption underlies the many physical chemical measurements of the K(d) for dimer dissociation. To resolve this discrepancy we used surface plasmon resonance to determine the rate constant for dimer dissociation. The half-time for dissociation was approximately 9.6 h with tubulin-GTP, 2.4 h with tubulin-GDP, and 1.3 h in the absence of nucleotide. A Kd equal to 10(-11) M was calculated from the measured rate for dissociation and an estimated rate for association. Dimer dissociation was found to be reversible, and dimer formation does not require GTP hydrolysis or folding information from protein cofactors, because 0.2 microM tubulin-GDP incubated for 20 h was eluted as dimer when analyzed by size exclusion chromatography. Because 20 h corresponds to eight half-times for dissociation, only monomer would be present if dissociation were an irreversible reaction and if dimer formation required GTP or protein cofactors. Additional evidence for a 10(-11) M K(d) was obtained from gel exclusion chromatography studies of 0.02-2 nM tubulin-GDP. The slow dissociation of the tubulin dimer suggests that protein tubulin cofactors function to catalyze dimer dissociation, rather than dimer assembly. Assuming N-site-GTP dissociation is from monomer, our results agree with the 16-h half-time for N-site GTP in vitro and 33 h half-life for tubulin N-site-GTP in CHO cells.
Direct Intramyocardial But Not Intracoronary Injection of Bone Marrow Cells Induces Ventricular Arrhythmias in a Rat Chronic Ischemic Heart Failure Model

Background— Therapeutic efficacy of bone marrow (BM) cell injection for treating ischemic chronic heart failure has not been established. In addition, experimental data are lacking on arrhythmia occurrence after BM cell injection. We hypothesized that therapeutic efficacy and arrhythmia occurrence induced by BM cell injection may be affected by the cell delivery route. Methods and Results— Three weeks after left coronary artery ligation, wild-type female rats were injected with 1×107 mononuclear BM cells derived from green fluorescent protein–transgenic male rats through either a direct intramyocardial or a retrograde intracoronary route. Both intramyocardial and intracoronary injection of BM cells demonstrated similar improvement in left ventricular ejection fraction measured by echocardiography and a similar graft size analyzed by real-time polymerase chain reaction for the Y chromosome–specific Sry gene. Noticeably, intramyocardial injection of BM cells induced frequent ventricular premature contractions (108±73 per hour at 7 days after BM cell injection), including multiform, consecutive ventricular premature contractions and ventricular tachycardia for the initial 14 days; intracoronary injection of BM cells and intramyocardial injection of phosphate-buffered saline rarely induced arrhythmias. Immunohistochemistry demonstrated that intramyocardial BM cell injection formed distinct cell clusters containing donor-derived cells and accumulated host-derived inflammatory cells in the infarct border zone, whereas intracoronary BM cell injection provided more homogeneous donor cell dissemination with less inflammation and without disrupting the native myocardial structure. Conclusions— BM cell injection is able to improve cardiac function in ischemic chronic heart failure but has a risk of arrhythmia occurrence when the intramyocardial route is used. Such arrhythmias may be prevented by using the intracoronary route.
Introduction: Social Protection for Social Justice

The articles in this IDS Bulletin are drawn from a conference hosted by the Centre for Social Protection at the Institute of Development Studies (IDS), Brighton, UK, in April 2011. The conference brought together academics and practitioners who understand social protection to be more than a palliative agenda for alleviating poverty and vulnerability, believing instead that social protection should be fundamentally interested in realising economic and social rights for all. This alternative agenda is one grounded in social justice, and it opens space for understanding how issues of rights, governance, distribution and access are critical for breaking the production and reproduction of vulnerability over time. The selection of articles in this IDS Bulletin aims to elaborate the linkages between social protection and social justice, to identify opportunities for operationalising the ‘transformative’ aspects of social protection and to strengthen the case for integrating social protection into broader social policy.
Measuring the Breathing Light Illusion by Means of Induced Simultaneous Contrast

By blurring the margins of a surface, both its brightness and the perceived contrast against a superimposed figure with sharp boundaries increase. Also, if one approaches a blurred white spot on a grey background, this spot will appear wider and brighter: this phenomenon is known as the Breathing Light Illusion (BLI) (Gori and Stubbs, 2006 Perception 35 1573–1577). We studied the increment of the achromatic contrast of a grey sharp-boundary disk when it was superimposed on the BLI. This augmentation of the perceived contrast in the dynamic presentation of the BLI was significantly stronger than the effect that Agostini and Galmonte (2002a Psychonomic Bulletin and Review 9 264–269) obtained in static presentation. Our study leads to an indirect quantification of the BLI. Two control experiments showed that the increment of the achromatic contrast depends on the blurred spot and is independent of the dynamic increment in angular size. These results argue for a causal relationship between the increase in brightness due to the BLI and the darkening of the superimposed disk.
Analysis of Correlation between Contacts to Cyber Obscene Materials and Sex Crime of High School Students

In this study, actual contact status to cyber obscene materials of high school students was grasped and the influence of contacts to cyber obscene materials on sex crime was analyzed. For this purpose, actual contacts status to cyber obscene materials, influence of cyber obscene materials, attitude of sex, and consciousness of sex crime were surveyed and accordingly correlation between each survey result were totally analyzed. This study result revealed that there is a close correlation between contacts to cyber obscene materials and sex crime. Obscene materials wrongly lead students who have big sexual curiosity to create distorted sexual behaviors and also commit sex crimes.
Chronic Fatigue Syndrome: An Evaluation of a Community Based Management Programme for Adolescents and their Families.

BACKGROUND Young people with chronic fatigue syndrome (CFS), families and clinicians may differ in their attributions about CFS and consequently in their approach to treatment. Research that clarifies the best treatment approaches is clearly needed. We have sought to develop a model that engages young people and their families in a collaborative way. The approach adopts an optimistic and holistic stance using an active rehabilitation model paying attention to the integrated nature of the physiological and psychological aspects of the illness. METHOD This small study set out to evaluate this approach from a service user perspective. Semi-structured interviews were carried out with young people and their parents separately in order to elicit their views on key treatment elements and their perceived degree of recovery. RESULTS Improvements are indicated in all key areas addressed and qualitative information suggests that families value this approach. CONCLUSION Further research is needed to address treatment issues for families who choose not to opt into the service model.
Perceived Impact of a Documentary Film

This study explores the factors that moderate first-person perception of socially desirable messages and the behavioral consequences of the perceived self-other perceptual disparity. A total of 255 participants watched An Inconvenient Truth and completed a survey thereafter. The participants acknowledged themselves to be more receptive to the film than others and acted on this perceived difference by supporting the distribution of the film. The message desirability, perceived message quality and sensation value, sensation-seeking tendency, and issue knowledge not only affected assessments of the perceived effect on the self and others differently but also increased the willingness to take action and stop global warming.
Structures of trehalose-6-phosphate phosphatase from pathogenic fungi reveal the mechanisms of substrate recognition and catalysis

Significance Fungal infections pose a serious threat to human health and result in several million deaths annually. To survive in their human host, pathogenic fungi require the disaccharide, trehalose. Significantly, the enzymes that synthesize trehalose are absent in humans, and thus serve as potential targets for novel antifungal intervention. Here, we describe multiple structures of one of the trehalose biosynthetic enzymes, trehalose-6-phosphate phosphatase (Tps2). These structures and germane in vivo and biochemical studies reveal the significance of the Tps2 N-terminal domain in fungal cellular stress responses and the conformational flexibility of the Tps2 C-terminal domain that imposes exquisite substrate specificity and permits efficient catalysis. These structures pave the way for “rational” inhibitor design against Tps2, facilitating antifungal drug design. Trehalose is a disaccharide essential for the survival and virulence of pathogenic fungi. The biosynthesis of trehalose requires trehalose-6-phosphate synthase, Tps1, and trehalose-6-phosphate phosphatase, Tps2. Here, we report the structures of the N-terminal domain of Tps2 (Tps2NTD) from Candida albicans, a transition-state complex of the Tps2 C-terminal trehalose-6-phosphate phosphatase domain (Tps2PD) bound to BeF3 and trehalose, and catalytically dead Tps2PD(D24N) from Cryptococcus neoformans bound to trehalose-6-phosphate (T6P). The Tps2NTD closely resembles the structure of Tps1 but lacks any catalytic activity. The Tps2PD–BeF3–trehalose and Tps2PD(D24N)–T6P complex structures reveal a “closed” conformation that is effected by extensive interactions between each trehalose hydroxyl group and residues of the cap and core domains of the protein, thereby providing exquisite substrate specificity. Disruption of any of the direct substrate–protein residue interactions leads to significant or complete loss of phosphatase activity. Notably, the Tps2PD–BeF3–trehalose complex structure captures an aspartyl-BeF3 covalent adduct, which closely mimics the proposed aspartyl-phosphate intermediate of the phosphatase catalytic cycle. Structures of substrate-free Tps2PD reveal an “open” conformation whereby the cap and core domains separate and visualize the striking conformational changes effected by substrate binding and product release and the role of two hinge regions centered at approximately residues 102–103 and 184–188. Significantly, tps2Δ, tps2NTDΔ, and tps2D705N strains are unable to grow at elevated temperatures. Combined, these studies provide a deeper understanding of the substrate recognition and catalytic mechanism of Tps2 and provide a structural basis for the future design of novel antifungal compounds against a target found in three major fungal pathogens.
Antibiotic Resistance in Listeriaspp

Due to the multiplicity of antibiotics, infections caused by drug-resistant bacteria did not represent a medical problem until the early 1980s. However, evolution of bacteria towards resistance has been considerably accelerated by the selective pressure exerted by overprescription of drugs in clinical settings and their heavy use as growth promoters for farm animals. Since bacteria have the remarkable ability to develop resistance to every antibiotic, we can anticipate that even bacterial species such as Listeria, which are still considered to be susceptible to almost all antibiotics, will evolve toward multiresistance. Listeria spp. are ubiquitous bacteria widely distributed in the environment (20, 41). Among the seven species of Listeria, only Listeria monocytogenes is commonly pathogenic for humans. It can cause serious infections such as meningitis or septicemia in newborns, immunocompromised patients, and the elderly or lead to abortion (16, 20, 27, 41, 43). Although human listeriosis occurs only sporadically (16, 41, 43) several outbreaks have been observed during the last two decades (20, 25, 43). It is now established that food-borne transmission constitutes the main route of acquisition of listeriosis (16, 34, 41, 43). Despite efficient antibiotic therapy, listeriosis represents a public health problem since it is fatal in up to 30% of cases (16, 26). In general, isolates of L. monocytogenes, as well as strains of other Listeria spp. , are susceptible to a wide range of antibiotics except cephalosporins and fosfomycin (23, 24). The treatment of choice for listeriosis remains the administration of ampicillin or penicillin G combined with an aminoglycoside, classically gentamicin (4, 12, 18, 20, 26, 27, 29, 31, 32). The association of trimethoprim with a sulfonamide, such as sulfamethoxazole in co-trimoxazole, is considered to be a second-choice therapy. The most active agent in the combination seems to be trimethoprim, which is synergized by sulfamethoxazole (4, 26, 27, 29, 32, 43). Most isolates from clinical as well as food-borne and environmental sources are susceptible to the antibiotics active against gram-positive bacteria. The first L. monocytogenes strains resistant to antibiotics were reported in 1988 (35). The strains were resistant to >10 μg of tetracycline per ml. The first multiresistant strain of L. monocytogenes was isolated in France in 1988 (35). Since then, other strains of Listeria spp. isolated from food or the environment or in sporadic cases of human listeriosis resistant to one or several antibiotics have been described (2, 9, 14, 15, 18, 21, 30, 36, 38, 44). This review will focus on the recent emergence of antibiotic resistance in Listeria spp. by acquisition of three types of mobile genetic elements: self-transferable and mobilizable plasmids and conjugative transposons (2, 8, 9, 21, 35, 36).
Transcriptional Regulation of the Gene Encoding an Alcohol Dehydrogenase in the Archaeon Sulfolobus solfataricus Involves Multiple Factors and Control Elements

ABSTRACT A transcriptionally active region has been identified in the 5′ flanking region of the alcohol dehydrogenase gene of the crenarchaeon Sulfolobus solfataricus through the evaluation of the activity of putative transcriptional regulators and the role of the region upstream of the gene under specific metabolic circumstances. Electrophoretic mobility shift assays with crude extracts revealed protein complexes that most likely contain TATA box-associated factors. When the TATA element was deleted from the region, binding sites for both DNA binding proteins, such as the small chromatin structure-modeling Sso7d and Sso10b (Alba), and transcription factors, such as the repressor Lrs14, were revealed. To understand the molecular mechanisms underlying the substrate-induced expression of the adh gene, the promoter was analyzed for the presence of cis-acting elements recognized by specific transcription factors upon exposure of the cell to benzaldehyde. Progressive dissection of the identified promoter region restricted the analysis to a minimal responsive element (PAL) located immediately upstream of the transcription factor B-responsive element-TATA element, resembling typical bacterial regulatory sequences. A benzaldehyde-activated transcription factor (Bald) that specifically binds to the PAL cis-acting element was also identified. This protein was purified from heparin-fractionated extracts of benzaldehyde-induced cells and was shown to have a molecular mass of ∼16 kDa. The correlation between S. solfataricus adh gene activation and benzaldehyde-inducible occupation of a specific DNA sequence in its promoter suggests that a molecular signaling mechanism is responsible for the switch of the aromatic aldehyde metabolism as a response to environmental changes.
Interlinking educational resources and the web of data: A survey of challenges and approaches

Purpose - Research in the area of technology-enhanced learning (TEL) throughout the last decade has largely focused on sharing and reusing educational resources and data. This effort has led to a fragmented landscape of competing metadata schemas, or interface mechanisms. More recently, semantic technologies were taken into account to improve interoperability. The linked data approach has emerged as the de facto standard for sharing data on the web. To this end, it is obvious that the application of linked data principles offers a large potential to solve interoperability issues in the field of TEL. This paper aims to address this issue. Design/methodology/approach - In this paper, approaches are surveyed that are aimed towards a vision of linked education, i.e. education which exploits educational web data. It particularly considers the exploitation of the wealth of already existing TEL data on the web by allowing its exposure as linked data and by taking into account automated enrichment and interlinking techniques to provide rich and well-interlinked data for the educational domain. Findings - So far web-scale integration of educational resources is not facilitated, mainly due to the lack of take-up of shared principles, datasets and schemas. However, linked data principles increasingly are recognized by the TEL community. The paper provides a structured assessment and classification of existing challenges and approaches, serving as potential guideline for researchers and practitioners in the field. Originality/value - Being one of the first comprehensive surveys on the topic of linked data for education, the paper has the potential to become a widely recognized reference publication in the area.
Experimental Study on Artificial Cemented Sand Prepared with Ordinary Portland Cement with Different Contents

Artificial cemented sand test samples were prepared by using ordinary Portland cement (OPC) as the cementing agent. Through uniaxial compression tests and consolidated drained triaxial compression tests, the stress-strain curves of the artificial cemented sand with different cementing agent contents (0.01, 0.03, 0.05 and 0.08) under various confining pressures (0.00 MPa, 0.25 MPa, 0.50 MPa and 1.00 MPa) were obtained. Based on the test results, the effect of the cementing agent content (Cv) on the physical and mechanical properties of the artificial cemented sand were analyzed and the Mohr-Coulomb strength theory was modified by using Cv. The research reveals that when Cv is high (e.g., Cv = 0.03, 0.05 or 0.08), the stress-strain curves of the samples indicate a strain softening behavior; under the same confining pressure, as Cv increases, both the peak strength and residual strength of the samples show a significant increase. When Cv is low (e.g., Cv = 0.01), the stress-strain curves of the samples indicate strain hardening behavior. From the test data, a function of Cv (the cementing agent content) with c′ (the cohesion force of the sample) and Δϕ′ (the increment of the angle of shearing resistance) is obtained. Furthermore, through modification of the Mohr-Coulomb strength theory, the effect of cementing agent content on the strength of the cemented sand is demonstrated.
Targeting Plasma Cells in Autoimmune Diseases

Antibodies specific for self-antigens mediate life-threatening pathology in several autoimmune diseases. Clearly the ability to target the plasma cells (PCs) producing the autoantibodies would be of great clinical benefit. Current immunosuppressive therapies are based on the premise that autoreactive PCs are short-lived and replenished from ongoing immune responses. However, recent results question this assumption and suggest that optimizing the treatment of severe autoimmune conditions will require a significant investment in elucidating the details of PC biology.
A novel, potent, and selective insulin-like growth factor-I receptor kinase inhibitor blocks insulin-like growth factor-I receptor signaling in vitro and inhibits insulin-like growth factor-I receptor–dependent tumor growth in vivo

Insulin-like growth factor-I receptor (IGF-IR) and its ligands, IGF-I and IGF-II, are up-regulated in a variety of human cancers. In tumors, such as colorectal, non–small cell lung, ovarian, and pediatric cancers, which may drive their own growth and survival through autocrine IGF-II expression, the role of IGF-IR is especially critical. Here, we present a novel small-molecule IGF-IR kinase inhibitor, cis-3-[3-(4-methyl-piperazin-l-yl)-cyclobutyl]-1-(2-phenyl-quinolin-7-yl)-imidazo[1,5-a]pyrazin-8-ylamine (PQIP), which displayed a cellular IC50 of 19 nmol/L for inhibition of ligand-dependent autophosphorylation of human IGF-IR with 14-fold cellular selectivity relative to the human insulin receptor. PQIP showed minimal activity against a panel of 32 other protein kinases. It also abolished the ligand-induced activation of downstream phosphorylated AKT and phosphorylated extracellular signal-regulated kinase 1/2 in both IGF-IR transfectant cells and a GEO human colorectal cancer cell line. Analysis of GEO cells revealed a significant level of both phosphorylated IGF-IR and IGF-II expression. Furthermore, inactivation of IGF-II in conditioned GEO culture medium by a neutralizing antibody diminished IGF-IR activation, indicating the presence of a functional IGF-II/IGF-IR autocrine loop in GEO cells. Once daily oral dosing of PQIP induced robust antitumor efficacy in GEO xenografts. The antitumor efficacy correlated with the degree and duration of inhibition of tumor IGF-IR phosphorylation in vivo by this compound. Moreover, when mice were treated for 3 days with a dose of PQIP that maximally inhibited tumor growth, only minor changes in blood glucose were observed. Thus, PQIP represents a potent and selective IGF-IR kinase inhibitor that is especially efficacious in an IGF-II–driven human tumor model. [Mol Cancer Ther 2007;6(8):2158–67]