Miracle-dz/UniFAR-FTUs huggingface dataset:
Exogenous Fatty Acids Protect Enterococcus faecalis from Daptomycin-Induced Membrane Stress Independently of the Response Regulator LiaR

ABSTRACT Enterococcus faecalis is a commensal bacterium of the gastrointestinal tract that can cause nosocomial infections in immunocompromised humans. The hallmarks of this organism are its ability to survive in a variety of stressful habitats and, in particular, its ability to withstand membrane damage. One strategy used by E. faecalis to protect itself from membrane-damaging agents, including the antibiotic daptomycin, involves incorporation of exogenous fatty acids from bile or serum into the cell membrane. Additionally, the response regulator LiaR (a member of the LiaFSR [lipid II-interacting antibiotic response regulator and sensor] system associated with cell envelope stress responses) is required for the basal level of resistance E. faecalis has to daptomycin-induced membrane damage. This study aimed to determine if membrane fatty acid changes could provide protection against membrane stressors in a LiaR-deficient strain of E. faecalis. We noted that despite the loss of LiaR, the organism readily incorporated exogenous fatty acids into its membrane, and indeed growth in the presence of exogenous fatty acids increased the survival of LiaR-deficient cells when challenged with a variety of membrane stressors, including daptomycin. Combined, our results suggest that E. faecalis can utilize both LiaR-dependent and -independent mechanisms to protect itself from membrane damage. IMPORTANCE Enterococcus faecalis is responsible for a significant number of nosocomial infections. Worse, many of the antibiotics used to treat E. faecalis infection are no longer effective, as this organism has developed resistance to them. The drug daptomycin has been successfully used to treat some of these resistant strains; however, daptomycin-resistant isolates have been identified in hospitals. Many daptomycin-resistant isolates are found to harbor mutations in the genetic locus liaFSR, which is involved in membrane stress responses. Another mechanism shown to increase tolerance to daptomycin involves the incorporation of exogenous fatty acids from host fluids like serum or bile. This improved tolerance was found to be independent of liaFSR and suggests that there are additional ways to impact sensitivity to daptomycin. Thus, further studies are needed to understand how host fatty acid sources can influence antibiotic susceptibility.
Biochemical Trade-Offs: Evidence for Ecologically Linked Secondary Metabolism of the Sponge Oscarella balibaloi

Secondary metabolite production is assumed to be costly and therefore the resource allocation to their production should be optimized with respect to primary biological functions such as growth or reproduction. Sponges are known to produce a great diversity of secondary metabolites with powerful biological activities that may explain their domination in some hard substrate communities both in terms of diversity and biomass. Oscarella balibaloi (Homoscleromorpha) is a recently described, highly dynamic species, which often overgrows other sessile marine invertebrates. Bioactivity measurements (standardized Microtox assay) and metabolic fingerprints were used as indicators of the baseline variations of the O. balibaloi secondary metabolism, and related to the sponge reproductive effort over two years. The bioactivity showed a significant seasonal variation with the lowest values at the end of spring and in early summer followed by the highest bioactivity in the late summer and autumn. An effect of the seawater temperature was detected, with a significantly higher bioactivity in warm conditions. There was also a tendency of a higher bioactivity when O. balibaloi was found overgrowing other sponge species. Metabolic fingerprints revealed the existence of three principal metabolic phenotypes: phenotype 1 exhibited by a majority of low bioactive, female individuals, whereas phenotypes 2 and 3 correspond to a majority of highly bioactive, non-reproductive individuals. The bioactivity was negatively correlated to the reproductive effort, minimal bioactivities coinciding with the period of embryogenesis and larval development. Our results fit the Optimal Defense Theory with an investment in the reproduction mainly shaping the secondary metabolism variability, and a less pronounced influence of other biotic (species interaction) and abiotic (temperature) factors.
Genetic Footprints of Iberian Cattle in America 500 Years after the Arrival of Columbus

Background American Creole cattle presumably descend from animals imported from the Iberian Peninsula during the period of colonization and settlement, through different migration routes, and may have also suffered the influence of cattle directly imported from Africa. The introduction of European cattle, which began in the 18th century, and later of Zebu from India, has threatened the survival of Creole populations, some of which have nearly disappeared or were admixed with exotic breeds. Assessment of the genetic status of Creole cattle is essential for the establishment of conservation programs of these historical resources. Methodology/Principal Findings We sampled 27 Creole populations, 39 Iberian, 9 European and 6 Zebu breeds. We used microsatellite markers to assess the origins of Creole cattle, and to investigate the influence of different breeds on their genetic make-up. The major ancestral contributions are from breeds of southern Spain and Portugal, in agreement with the historical ports of departure of ships sailing towards the Western Hemisphere. This Iberian contribution to Creoles may also include some African influence, given the influential role that African cattle have had in the development of Iberian breeds, but the possibility of a direct influence on Creoles of African cattle imported to America can not be discarded. In addition to the Iberian influence, the admixture with other European breeds was minor. The Creoles from tropical areas, especially those from the Caribbean, show clear signs of admixture with Zebu. Conclusions/Significance Nearly five centuries since cattle were first brought to the Americas, Creoles still show a strong and predominant signature of their Iberian ancestors. Creole breeds differ widely from each other, both in genetic structure and influences from other breeds. Efforts are needed to avoid their extinction or further genetic erosion, which would compromise centuries of selective adaptation to a wide range of environmental conditions.
Pulsed terahertz imaging of breast cancer in freshly excised murine tumors

Abstract. This paper investigates terahertz (THz) imaging and classification of freshly excised murine xenograft breast cancer tumors. These tumors are grown via injection of E0771 breast adenocarcinoma cells into the flank of mice maintained on high-fat diet. Within 1 h of excision, the tumor and adjacent tissues are imaged using a pulsed THz system in the reflection mode. The THz images are classified using a statistical Bayesian mixture model with unsupervised and supervised approaches. Correlation with digitized pathology images is conducted using classification images assigned by a modal class decision rule. The corresponding receiver operating characteristic curves are obtained based on the classification results. A total of 13 tumor samples obtained from 9 tumors are investigated. The results show good correlation of THz images with pathology results in all samples of cancer and fat tissues. For tumor samples of cancer, fat, and muscle tissues, THz images show reasonable correlation with pathology where the primary challenge lies in the overlapping dielectric properties of cancer and muscle tissues. The use of a supervised regression approach shows improvement in the classification images although not consistently in all tissue regions. Advancing THz imaging of breast tumors from mice and the development of accurate statistical models will ultimately progress the technique for the assessment of human breast tumor margins.
Product Data Sheet Chemical Properties Product

Chemical Name: 2-(phosphonomethyl)pentanedioic acid Canonical SMILES: C(CC(=O)O)C(CP(=O)(O)O)C(=O)O Solubility: Soluble to 100 mM in sterile water Storage: Desiccate at RT General tips: For obtaining a higher solubility , please warm the tube at 37°C and shake it in the ultrasonic bath for a while.Stock solution can be stored below -20°C for several months. Shopping Condition: Evaluation sample solution : ship with blue ice All other available size: ship with RT , or blue ice upon request
Orthopaedics injuries in male professional football players in Brazil: a prospective comparison between two divisions.

Background Football is a high-speed contact sport and the risk of injury is high. The objective of this study was to compare the two main divisions (A1 and A2) of the São Paulo Football Championship and to perform a correlation analysis of the variables studied. Methods A prospective study was conducted using an electronic questionnaire previously developed by the Medical Committee of the São Paulo Football Federation. The questionnaire was sent to the doctors of the teams playing in the A1 and A2 divisions of the São Paulo Football Championship after each round. Setting: 2016 São Paulo Football Championship. Results The comparison of divisions A1 and A2 showed few significant differences among the various variables analysed in this study. The only significant differences were for right-side involvement in division A1 (p=0.044) and morning matches in division A2 (p<0.001). The correlation analysis of the variables studied showed expected associations, including sprains with a higher rate of need for surgery, ultrasound with muscle strains and moderate severity (8-28 days lost) with muscle strains. Conclusion Despite the differences between the two divisions regarding budgets and team characteristics, there was a little difference in the variables analysed and there were associations such as sprains with a higher rate of need for surgery, ultrasound with muscle strains and moderate severity (8-28 days lost) with muscle strains. Level of evidence II b, individual cohort study.
Evaluation of the predictive value of fetal Doppler ultrasound for neonatal outcome from the 36th week of pregnancy

Background: Early prediction of adverse neonatal outcome would be possible by Doppler impedance indices of middle cerebral artery (MCA), umbilical artery (UmA), and descending aortal artery (AO) that result in decrease neonatal morbidity and mortality rate. The aim of the present study was a determination of optimal value for the ratio of MCA to descending aorta blood flow (MCA/AO) impedance indices and its comparison with the ratio of MCA to UmA (MCA/UmA) impedance indices and their relationship with neonatal outcome. Materials and Methods: This was a prospective cohort study on 212 pregnant women with gestational age 36 weeks or more, in three hospitals in Tehran, from April 2012 to April 2013. We investigated AO, MCA, and UmA impedance indices Doppler ultrasound every 2 weeks till delivery. The mother was monitored for adverse pregnancy outcome (hypertension [HTN], fetal growth retardation, and other maternal complications) then infant birth weight, cord blood of pH, and Neonatal Intensive Care Unit (NICU) admission during the first 24 h after delivery were assessed. Finally, we investigated relationships between Doppler indices and neonatal outcomes include neonatal body weight (NBW), cord blood of pH, and NICU admission. Results: MCA/AO resistance index (RI) and MCA/AO pulsatile index (PI) showed an area under the receiver operating characteristics curve (area under the curve) of 0.905 (95% confidence interval (CI): 0.850, 0.959) and 0.818 (95% CI: 0.679, 0.956), respectively. The cutoff values for pH (≥7.2 vs. <7.2) based on MCA/AO RI and MCA/AO PI indices were 0.951 (sensitivity, 80% and specificity, 86%) and 0.853 (sensitivity, 91% and specificity, 83%), respectively. The cutoff value for NBW (≥2500 vs. <2500 g) based on MCA/UmA PI index was 1.467 (sensitivity, 73% and specificity, 63%). The cutoff value of NICU admission of child based on MCA/AO PI index was 1.114 (sensitivity, 73% and specificity, 54%). Conclusion: In the end of third-trimester pregnancies with the assessment of MCA and AO artery Doppler ultrasonography, it is possible to prevent many cases of neonatal acidosis caused by prenatal asphyxia as well as inappropriate interventions which are applied on mother. If MCA/AO PI was <0.85, the fetus needs to be evaluated further because it is at risk for acidosis.
The Hcp-like protein HilE inhibits homodimerization and DNA binding of the virulence-associated transcriptional regulator HilD in Salmonella

HilD is an AraC-like transcriptional regulator that plays a central role in Salmonella virulence. HilD controls the expression of the genes within the Salmonella pathogenicity island 1 (SPI-1) and of several genes located outside SPI-1, which are mainly required for Salmonella invasion of host cells. The expression, amount, and activity of HilD are tightly controlled by the activities of several factors. The HilE protein represses the expression of the SPI-1 genes through its interaction with HilD; however, the mechanism by which HilE affects HilD is unknown. In this study, we used genetic and biochemical assays revealing how HilE controls the transcriptional activity of HilD. We found that HilD needs to assemble in homodimers to induce expression of its target genes. Our results further indicated that HilE individually interacts with each the central and the C-terminal HilD regions, mediating dimerization and DNA binding, respectively. We also observed that these interactions consistently inhibit HilD dimerization and DNA binding. Interestingly, a computational analysis revealed that HilE shares sequence and structural similarities with Hcp proteins, which act as structural components of type 6 secretion systems in Gram-negative bacteria. In conclusion, our results uncover the molecular mechanism by which the Hcp-like protein HilE controls dimerization and DNA binding of the virulence-promoting transcriptional regulator HilD. Our findings may indicate that HilE's activity represents a functional adaptation during the evolution of Salmonella pathogenicity.
Real-time classification of forearm movements based on high density surface electromyography

Partial or complete loss of the upper limb motor function has great impact on the activities of daily life (ADL) of post-stroke survivors. To improve the rehabilitation effect of fine motor function of forearms, a couple of recent studies focused on methods that try to decode the limb motion intent of patients through physical exercises. However, there exist a few studies on real-time active rehabilitation method for the classification of multiple hand movements. In the current investigate, a pattern-recognition based rehabilitation environment was set up using high-density surface electromyogram (HD-sEMG) and the real-time classification performance of 21 forearm motions was investigated with eight healthy subjects. The results showed that the average motion completion rate across all subjects was 91.17% + 2.86%, which suggests the potential of intention-initiated approach in assistive rehabilitation technique.
A Multi-Level Geographical Study of Italian Political Elections from Twitter Data

In this paper we present an analysis of the behavior of Italian Twitter users during national political elections. We monitor the volumes of the tweets related to the leaders of the various political parties and we compare them to the elections results. Furthermore, we study the topics that are associated with the co-occurrence of two politicians in the same tweet. We cannot conclude, from a simple statistical analysis of tweet volume and their time evolution, that it is possible to precisely predict the election outcome (or at least not in our case of study that was characterized by a “too-close-to-call” scenario). On the other hand, we found that the volume of tweets and their change in time provide a very good proxy of the final results. We present this analysis both at a national level and at smaller levels, ranging from the regions composing the country to macro-areas (North, Center, South).
Early phase mixed chimerism in bone marrow does not affect long-term outcomes of myeloablative single-unit cord blood transplantation for adult patients with hematological malignancies

Abstract Coexisting hematopoiesis from donor and recipient origin, called a mixed chimerism status, can occur in patients after myeloablative allogeneic hematopoietic stem cell transplantation. However, its impact on the outcomes of cord blood transplantation (CBT) has yet to be clarified. We retrospectively analyzed 150 adult patients who received myeloablative single-unit CBT for hematological malignancies in our institute. At the median time of first bone marrow analysis of 41 days after CBT, mixed chimerism was observed in 16 of the 150 patients. Among patients with mixed chimerism, 4 patients relapsed. The remaining 12 patients were alive and in remission at a median follow-up of 50 months. Bone marrow-mixed chimerism did not have a significant impact on the incidences of disease-free survival, relapse, or transplant-related mortality after CBT. These data show that early phase mixed chimerism did not have a significant impact on long-term outcomes after myeloablative single-unit CBT for hematological malignancies.
A General Model for Food Web Structure

www.sciencemag. org (this information is current as of May 2, 2008 ): The following resources related to this article are available online at http://www.sciencemag. org/cgi/content/full/320/5876/658 version of this article at: including high-resolution figures, can be found in the online Updated information and services, http://www.sciencemag. org/cgi/content/full/320/5876/658/DC1 can be found at: Supporting Online Material http://www.sciencemag. org/cgi/content/full/320/5876/658#otherarticles , 4 of which can be accessed for free: cites 25 articles This article http://www.sciencemag. org/cgi/collection/ecology Ecology : subject collections This article appears in the following http://www.sciencemag. org/about/permissions.dtl in whole or in part can be found at: this article permission to reproduce of this article or about obtaining reprints Information about obtaining
Salt management strategy defines the stem and leaf hydraulic characteristics of six mangrove tree species

Mangroves in hypersaline coastal habitats are under constant high xylem tension and face great risk of hydraulic dysfunction. To investigate the relationships between functional traits and salt management, we measured 20 hydraulic and photosynthetic traits in four salt-adapted (SA) and two non-SA (NSA) mangrove tree species in south China. The SA species included two salt secretors (SSs), Avicennia marina (Forsskål) Vierhapper and Aegiceras corniculatum (L.) Blanco and two salt excluders (SEs), Bruguiera gymnorrhiza (L.) Savigny and Kandelia obovata (L.) Sheue et al. The two NSA species were Hibiscus tiliaceus (L.) and Pongamia pinnata (L.) Merr. Extremely high xylem cavitation resistance, indicated by water potential at 50% loss of xylem conductivity (Ψ50; -7.85 MPa), was found in SEs. Lower cavitation resistance was observed in SSs, and may result from incomplete salt removal that reduces the magnitude of xylem tension required to maintain water uptake from the soil. Surprisingly, the NSA species, P. pinnata, had very low Ψ50 (-5.44 MPa). Compared with NSAs, SAs had lower photosynthesis, vessel density, hydraulic conductivity and vessel diameter, but higher sapwood density. Eight traits were strongly associated with species' salt management strategies, with predawn water potential (ΨPD) and mean vessel diameter accounting for 95% flow (D95) having the most significant association; D95 separated SAs from NSAs and SEs had the lowest ΨPD. There was significant coupling between hydraulic traits and carbon assimilation traits. Instead of hydraulic safety being compromised by xylem efficiency, mangrove species with higher safety had higher efficiency and greater sapwood density (ρSapwood), but there was no relationship between ρSapwood and efficiency. Principal component analysis differentiated the species of the three salt management strategies by loading D, D95 and vessel density on the first axis and loading ΨPD, Ψ50 and water potential at 12% loss of xylem conductivity (Ψ12), ρSapwood and quantum yield on the second axis. Our results provide the first comparative characterization of hydraulic and photosynthetic traits among mangroves with different salt management strategies.
Impact of chronic urticaria on the quality of life in Australian and Sri Lankan populations

Background Chronic idiopathic urticaria (CIU) has a significant impact on patients' quality of life. Objective The purpose of this study is to assess that impact and to compare differences by culture, gender, age or duration of treatment. Methods We used the modified chronic urticaria quality of life questionnaire, consisting of 15 questions. Over the course of 6 months, patients attending Immunology clinics at Campbelltown Hospital and private rooms in Australia and at the faculty of Medicine, University of Kelaniya in Sri Lanka were asked to fill out the questionnaires. We have obtained the data from 125 patients (43 Australian vs. 82 Sri Lankan). There were significantly more female patients (P < 0.01). The data was analysed using SAS. Results Overall, patients were affected mostly by itch and wheals and least affected by the side effects of treatments. Sri Lankan populations were more affected by wheals and by interference on activities, mood and food choices but were less affected by tiredness due to sleep disturbances (P < 0.01). Females were more affected by sleep disturbance (P < 0.05) while those older than 40 years of age were more impacted by tiredness and by the side effects from medications (P < 0.05), though the complaints themselves were mild. Those who suffered from CIU for more than 1 year were more affected by wheal, tiredness and irritability (P ≤ 0.05). Conclusion The questionnaire highlighted some differences between patients attending Australian versus Sri Lankan outpatients. Significant differences were found in one third of parameters which include mood, sleep, daily activities and food choices.