Miracle-dz/UniFAR-FTUs huggingface dataset:
Peripatric speciation associated with genome expansion and female-biased sex ratios in the moss genus Ceratodon

PREMISE OF THE STUDY A period of allopatry is widely believed to be essential for the evolution of reproductive isolation. However, strict allopatry may be difficult to achieve in some cosmopolitan, spore-dispersed groups, like mosses. Here we examine the genetic and genome size diversity in Mediterranean populations of the moss Ceratodon purpureus s.l. to evaluate the role of allopatry and ploidy change in population divergence. METHODS We sampled populations of the genus Ceratodon from mountainous areas and lowlands of the Mediterranean region, and from western and central Europe. We performed phylogenetic and coalescent analyses on sequences from five nuclear introns and a chloroplast locus to reconstruct their evolutionary history. We also estimated the genome size using flow cytometry, employing propidium iodide, and determined their sex using a sex-linked PCR marker. KEY RESULTS Two well differentiated clades were resolved, discriminating two homogeneous groups: the widespread C. purpureus and a local group mostly restricted to the mountains in southern Spain. The latter also possessed a genome size 25% larger than the widespread C. purpureus, and the samples of this group consist entirely of females. We also found hybrids, and some of them had a genome size equivalent to the sum of the C. purpureus and Spanish genome, suggesting that they arose by allopolyploidy. CONCLUSIONS These data suggest that a new species of Ceratodon arose via peripatric speciation, potentially involving a genome size change and a strong female-biased sex ratio. The new species has hybridized in the past with C. purpureus.
Neurodegeneration, synaptic dysfunction, and gliosis are phenotypic of Alzheimer dementia

Objective To test the hypothesis that cognitively unimpaired individuals with Alzheimer disease (AD) neuropathology differ from individuals with AD dementia on biomarkers of neurodegeneration, synaptic dysfunction, and glial activation. Methods In a cross-sectional study, adult participants >70 years old (n = 79, age 77.1 ± 5.3 years) underwent comprehensive cognitive evaluation and CSF collection, which was assayed for markers of amyloid, phosphorylated tau (p-tau), neurodegeneration (neurofilament light protein [NFL] and total tau), synaptic dysfunction (neurogranin), and glial activation (chitinase-3–like protein 1 [YKL-40]). Participants were divided into 3 groups based on diagnosis and p-tau/β-amyloid42 (Aβ42): those with low p-tau/Aβ42 and unimpaired cognition were classified as controls (n = 25); those with high p-tau/Aβ42 diagnosed with AD-dementia or AD–mild cognitive impairment were classified as AD-Dementia (n = 40); and those with high p-tau/Aβ42 but unimpaired cognition were classified as mismatches (n = 14). A similar, secondary analysis was performed with no age exclusion criteria (n = 411). Results In both the primary and secondary analyses, biomarker levels between groups were compared with the use of analysis of covariance while controlling for age and demographic variables. Despite p-tau/Aβ42 and Aβ42/Aβ40 levels comparable to those of the AD-Dementia group, mismatches had significantly lower levels of NFL and total tau. While not significantly lower than the AD-Dementia group on YKL-40 and neurogranin, mismatches were also not significantly different from controls. Conclusions These results provide evidence that, in the absence of significant neurodegenerative processes, individuals who harbor AD neuropathology may remain cognitively unimpaired. This finding provides insight into the biological processes phenotypic of dementia and supports monitoring multiple biomarkers in individuals positive for AD neuropathology.
A Reduction in Time with Electronic Monitoring In Stroke (ARTEMIS): study protocol for a randomised multicentre trial

Introduction Time is the most crucial factor limiting efficacy of intravenous thrombolysis (IVT) and intra-arterial thrombectomy (IAT). The delay between alarming the Emergency Medical Services (EMS) dispatch office and IVT/IAT initiation, that is, the ‘total system delay’ (TSD), depends on logistics and team effort. A promising method to reduce TSD is real-time audio-visual feedback to caregivers involved. With ‘A Reduction in Time with Electronic Monitoring in Stroke’ (ARTEMIS), we aim to investigate the effect of real-time audio-visual feedback on actual TSD to IVT/IAT to caregivers. Methods and analysis ARTEMIS is a multiregional, multicentre, randomised open end-point trial including patients ≥18 years considered IVT/IAT-eligible by the EMS dispatch office or on-site EMS personnel. Patients are electronically tracked and randomised for real-time audio-visual feedback on TSD to caregivers via premounted handhelds and tablets throughout the TSD trajectory. Primary outcome is TSD to IVT/IAT. Secondary outcomes comprise proportion of IVT/IAT-treated patients, symptomatic intracerebral haemorrhage, IVT/IAT-treated stroke mimics, clinical outcome after three months and cost-effectiveness. Separate analyses for IAT-patients with or without prior IVT, within or out of office hours and EMS region will be performed. With 75 IAT-patients and 225 IVT-patients in each arm, we will be able to demonstrate a 20 min difference in TSD to IAT and a 10 min difference in TSD to IVT (p=0.05 and power=0.8). Ethics and dissemination Study findings will be disseminated through peer-reviewed journals and (inter)national conference presentations. Trial registration number NCT02808806; Pre-results.
Ventricular Tachycardia (VT) Substrate Characteristics: Insights from Multimodality Structural and Functional Imaging of the VT Substrate Using Cardiac MRI Scar, 123I-Metaiodobenzylguanidine SPECT Innervation, and Bipolar Voltage

Postischemic adaptation results in characteristic myocardial structural and functional changes in the ventricular tachycardia (VT) substrate. The aim of this study was to compare myocardial structural and functional adaptations (late gadolinium enhancement/abnormal innervation) with detailed VT mapping data to identify regional heterogeneities in postischemic changes. Methods: Fifteen patients with ischemic cardiomyopathy and drug-refractory VT underwent late gadolinium enhancement cardiac MRI (CMR), 123I-metaiodobenzylguanidine SPECT, and high-resolution bipolar voltage mapping to assess fibrosis (>3 SDs), abnormal innervation (<50% tracer uptake), and low-voltage area (<1.5 mV), respectively. Three-dimensional reconstructed CMR/123I-metaiodobenzylguanidine models were coregistered for further comparison. Results: Postischemic structural and functional adaptations in all 3 categories were similar in size (reported as median [quartile 1–quartile 3]: CMR scar, 46.1 cm2 [33.1–86.9 cm2]; abnormal innervation, 47.8 cm2 [40.5–68.1 cm2]; and low-voltage area, 29.5 cm2 [24.5–102.6 cm2]; P > 0.05). However, any single modality underestimated the total VT substrate area defined as abnormal in at least 1 of the 3 modalities (76.0 cm2 [57.9–143.2 cm2]; P < 0.001). Within the total VT substrate area, regions abnormal in all 3 modalities were most common (25.2%). However, significant parts of the VT substrate had undergone heterogeneous adaptation (abnormal in <3 modalities); the most common categories were “abnormal innervation only” (18.2%), “CMR scar plus abnormal innervation only” (14.9%), and “CMR scar only” (14.6%). All 14 VT channel/exit sites (0.88 ± 0.74 mV) were localized to myocardium demonstrating CMR scar and abnormal innervation. This specific tissue category accounted for 68.3% of the CMR scar and 31.2% of the total abnormal postischemic VT substrate area. Conclusion: Structural and functional imaging demonstrated regional heterogeneities in the postischemic VT substrate not appreciated by any single modality alone. The coexistence of abnormal innervation and CMR scar may identify a particularly “proarrhythmic” adaptation and may represent a potential novel target for VT ablation.
Efficient expression of recombinant human telomerase inhibitor 1 (hPinX1) in Pichia pastoris

Abstract PinX1 encoded by a remarkable tumor suppressor gene and located in human chromosome 8p23 is known as telomerase inhibitor. In recent years, this protein has been of interest as clinically tumor suppressor. Pichia pastoris expression system is preferred to produce heterologous proteins and is suitable for industrial and research purposes. In the present study, human PinX1 gene (hPinX1) was cloned in E. coli One Shot TOP10 cells and overexpressed in P. pastoris strain X-33 intracellularly, using a strong AOX (alcohol oxidase) promoter. The recombinant cells were grown in shaking flask. Induction time, methanol concentration and initial pH were optimized for obtaining high levels of hPinX1 protein production. Recombinant protein production was confirmed by Western blot analysis and the relative expression levels of rhPinX1 were quantified. According to Western blot analysis, molecular mass of produced hPinX1 was determined as 47.5 kDa. At the end of optimization studies, the best fermentation conditions were determined as induction time 48 h, methanol concentration 3% and initial culture pH 5.0. This process would be an applicable way for obtaining recombinant hPinX1 using P. pastoris expression system. This is the first report on recombinant production of hPinX1 in P. pastoris.
AKR unter kombinierten Einwirkungen - Rissbildungs- und Transportmechanismen

ln den letzten Jahren sind im deutschen Bundesautobahnnetz verstarkt Schaden an Betonfahrbahndecken aufgetreten, die mit einer Alkali-Kieselsaure-Reaktion (AKR) in Verbindung gebracht werden. Die damit einhergehende oft drastische Reduzierung der Nutzungsdauer der Betonfahrbahndecke fuhrte zu einer starken Intensivierung der Forschung auf diesem Gebiet. Zentraler Forschungsgegenstand war bisher neben der Suche nach geeigneten praventiven betontechnologischen Masnahmen vor allem die Entwicklung performanceorientierter Prufverfahren zur AKR-Pravention. Dabei wurden insbesondere die klimatischen Einwirkungen auf die Betonfahrbahndecke und der externe Alkalieintrag zeitraffend simuliert. Die zusatzlich interagierenden mechanischen Einwirkungen aus dem Verkehr fanden bisher keine Berucksichtigung. Vor diesem Hintergrund verfolgt die 2011 eingerichtete und 2015 um weitere drei Jahre verlangerte DFG-Forschergruppe 1498 u. a. das Ziel, den Einfluss einer mechanisch induzierten Vorschadigung (Ermudungsbeanspruchung) auf den AKR-Schadigungsprozess zu klaren. Die hierfur erforderliche Beschreibung der vielfaltigen interagierenden Schadigungs- und Transportprozesse erfordert eine enge Verknupfung von Experimenten mit einer mehrskaligen Modellierung. Die experimentelle Basis bildet die mechanische Vorschadigung (Ermudung) grosformatiger Balken aus einem Fahrbahndeckenbeton mit einem erhohten AKR-Schadigungspotenzial. Aus diesen Balken werden nach der Ermudungsbeanspruchung kleinformatige Probekorper gewonnen, an denen die Auswirkungen der mechanischen Vorschadigung auf das Betongefuge und die interagierenden Transport- und Schadigungsprozesse analysiert werden. Das Teilprojekt der SAM hat in diesem Kontext die Aufgabe, ganzheitlich die Rissbildungsprozesse und den interagierenden Eintrag bzw. Auslaugung der Alkalien von der mechanisch induzierten Vorschadigung bis zum AKR-Schadigungsprozess in enger Abstimmung mit den Forschungspartnern zu untersuchen. Den Schwerpunkt dieses Beitrags bildet die Charakterisierung der Rissbildungsprozesse durch die mechanische Vorschadigung und ihrer Auswirkungen auf die interagierenden Transportprozesse. Das schliest die Vorstellung der hierfur angewandten innovative Pruftechniken und Prufmethodologien ein.
Machine Learning Adaptive Basis Sets for Efficient Large Scale Density Functional Theory Simulation

It is chemically intuitive that an optimal atom centered basis set must adapt to its atomic environment, for example by polarizing toward nearby atoms. Adaptive basis sets of small size can be significantly more accurate than traditional atom centered basis sets of the same size. The small size and well conditioned nature of these basis sets leads to large saving in computational cost, in particular in a linear scaling framework. Here, it is shown that machine learning can be used to predict such adaptive basis sets using local geometrical information only. As a result, various properties of standard DFT calculations can be easily obtained at much lower costs, including nuclear gradients. In our approach, a rotationally invariant parametrization of the basis is obtained by employing a potential anchored on neighboring atoms to ultimately construct a rotation matrix that turns a traditional atom centered basis set into a suitable adaptive basis set. The method is demonstrated using MD simulations of liquid water, where it is shown that minimal basis sets yield structural properties in fair agreement with basis set converged results, while reducing the computational cost in the best case by a factor of 200 and the required flops by 4 orders of magnitude. Already a very small training set yields satisfactory results as the variational nature of the method provides robustness.
Lignocellulosic biomass to biofuels and biochemicals: A comprehensive review with a focus on ethanol organosolv pretreatment technology

Lignocellulosic biomass is one of the potential feedstocks to produce second‐generation cellulosic ethanol and biochemicals. To enhance the enzymatic digestibility of lignocellulosic biomass for efficient enzymatic saccharification, a variety of pretreatment methods have been studied. Among these, organosolv pretreatment using ethanol is a promising pretreatment method owing to its inherent advantages, such as low solvent cost, lack of toxicity, the ability to retain most cellulose fraction in substrates for enzymatic hydrolysis, coproduction of high‐purity lignin and hemicellulosic sugars, easy solvent recovery, and reuse. In this review, the research progress regarding different types of ethanol organosolv pretreatment processes has been summarized in terms of methods, substrate properties, reaction mechanisms, delignification kinetic as well as the impact of pretreatment methods on the enzymatic digestibility. Attempts are also made to provide insights into the complete utilization of lignocellulosic biomass to achieve high potential revenues. Though some ethanol organosolv processes have been studied or are being developed towards commercialization, ethanol organosolv pretreatment is still facing some challenges. Finally, the direction for future work is given to develop a proper ethanol organosolv pretreatment for commercialization.
Antibacterial Activity of Semenovia suffruticosa (Essential Oil) Against Pathogenic Bacteria and Determination of Chemical Composition of Essential Oils by Gas Chromatography–Mass Spectrometry Analysis in Four Regions of Kerman

ABSTRACT The use of medicinal plants has been considered due to increasing bacterial resistance to antibiotics. Semenovia suffruticosa is a plant with high potential in medicine. The aim of this study was to evaluate the antibacterial activities and gas chromatography–mass spectrometry (GC-MS) analyses of the essential oil of S. suffruticosa from four regions in Kerman: Hezar Mountain, Laleh Zar, Bidkhan, and Rabor. The essential oil of this plant was extracted by Clevenger. The antibacterial activities were evaluated against three Gram-negative bacteria (P. aeruginosa, K. pneumonia, Acinetobacter) and three Gram-positive bactria (B. subtilis, S. aureus, S. pneumoniae). By disk diffusion method, minimum inhibitory concentration (MIC) and minimum bactericidal concentration (MBC) values were determined. The composition of essential oil was identified by GC-MS analysis. In our study, most yield of essential oil of S. suffruticosa was 1.2% from the Laleh Zar region and the main components were Z-β-ocimene (25.4%) in Laleh Zar, linalool (17.7%) in Hezar, Z-β-ocimene (18.5%) in Bidkhan, and β-pinene (10.5%) in the Rabor region. Maximum inhibition zone by the essential oil from region Bidkhan was observed against K. pneumoniae (30 mm). The MIC value for S. suffruticosa collected from Laleh Zar was 1.25 mg/ml against S. aureus and S. pneumonia. The results of this study confirm that the significant antibacterial effects of S. suffruticosa and make it a valuable compound in essential oils for pharmaceutical use and a good replacement for chemical antibiotics. Environmental conditions can result in a difference in yields and components; this can be considered significant potential for this plant.
Self-reported healthcare utilization by adults with diabetic retinopathy in the United States

ABSTRACT Purpose: To assess healthcare utilization patterns across diabetic retinopathy (DR) severity levels in the United States (US). Design: Cross-sectional study of 699 adults, participating in the 2005–2008 National Health and Nutritional Examination Surveys. Methods: Diagnosis of DR was based on fundus photographs and categorized as: (1) no DR; (2) mild/moderate nonproliferative DR (NPDR); and (3) severe NPDR/proliferative DR (PDR). Healthcare utilization patterns were assessed during a household questionnaire where survey participants self-reported: (1) awareness that diabetes had affected their eyes; (2) pupil-dilation during the past year; and (3) visits to a diabetes education/nutrition specialist during the past year. Results: Among adults with self-reported diabetes, the proportion of those that were aware that diabetes had affected their eye was 15.3% [95% confidence interval (C.I.)] 10.9–19.6%), 21.7% (95% C.I. 14.6–28.7%), and 81.5% (95% C.I. 66.5–96.5%) across those with no retinopathy, mild/moderate NPDR, and severe NPDR/PDR, respectively (p < 0.01). The utilization of a diabetic education/nutrition specialist during the past year was 30.4% (95% C.I. 24.8–36.0%), 31.8% (95% C.I 23.4–40.2%), and 55.9% (95% C.I. 32.3–79.6%) across those with no retinopathy, mild/moderate NPDR, and severe NPDR/PDR, respectively (p = 0.13). Pupil dilation within the past year was 62.2% (95% C.I. 56.3–68.1%), 62.1% (95% C.I. 53.4–70.8%), and 93.8% (95% C.I. 87.3–100.0%) across those with no DR, mild/moderate NPDR, and severe NPDR/PDR, respectively (p = 0.01). Conclusions: Adults with diabetes in the United States, even those with the most severe forms of DR, do not fully utilize healthcare services for diabetic eye disease. Future studies should aim to address barriers to appropriate diabetes care.
Influence of Diet and Gender on Plasma DPP4 Activity and GLP-1 in Patients with Metabolic Syndrome: An Experimental Pilot Study

Background: Glucagon-Like Peptide-1 (GLP-1) is hydrolyzed by Dipeptidyl-Peptidase 4 (DPP4), and several studies suggest that both GLP-1 and DPP4 inhibitors have potentially beneficial effects on cardiovascular risks. The objective of this study was to analyze the differences between plasma GLP-1 and DPP4 activity in male and female patients with metabolic syndrome, and its relationship with physiological and metabolic parameters. The study included 25 apparently healthy Controls (C) and 21 Metabolic Syndrome patients (MS). Anthropometric indices, cardiovascular risk-score, and Mediterranean Diet Adherence (AMeDit) were evaluated. Fasting glucose, glycosylated hemoglobin (HbA1c), and insulin were measured. Insulin, GLP-1, and plasma DPP4 were determined within the first 30-min postprandial period. Body-Mass-Index was significantly higher, and AMeDit was significantly lower, but only in MS women. However, fasting glucose, HbA1c, and postprandial insulin were significantly higher in MS men, but not in MS women. Postprandial GLP-1 levels were lower in C men than in C women. Interestingly, in comparison with controls, we found significant lower levels of plasma DPP4 in MS-women only. Moreover, negative lineal regressions were established between DPP4 activity with waist-to-hip ratio and cardiovascular risk-score, and positive lineal regression with AMeDit. These results indicate gender differences in the behavior of GLP-1 and DPP4 activity in MS, which could be relevant for its treatment with GLP-1 analogues and DPP4 inhibitors.
TEMPORAL PATTERNS OF BASKING BEHAVIOUR IN A MEDITERRANEAN LACERTID LIZARD

1. I studied the thermoregulatory behaviour of the diurnal basker Psammodromus algirus (Reptilia, Lacertidae) in the mosaic of sunshade patches of a Mediterranean evergreen forest. 48 behavioural sequences associated with measurements of the thermal environment provided data on the percentages of time spent basking by focal animals, the duration of individual basking periods and the frequency of basking. 2. The percentage of time basking decreased linearly from the onset of the activity period until midday. The average duration of basking periods had a pronounced decrease after 0700 h and remained constant throughout the rest of the morning, whereas the basking rates, that were minimal before 0700 h, reached a peak between 0700 and 0800 h followed by a progressive fall that continued until noon. 3. In order to explain these behavioural patterns, I experimentally determined the effects of environmental variables (air and ground temperature and solar angle) on the heating and cooling rates of captive lizards. The resulting regression models were then used to predict the heat exchange rates of the observed free-ranging animals. 4. The moment at which heating rates should equal and then exceed cooling rates, appeared to set off the behavioural shift towards a larger frequency of shorter basking periods. Under these circumstances, the apparently random movement of a shuttling heliotherm with respect to sun and shade might still be of thermoregulatory significance.
An REA Ontology-Based Model for Mapping Big Data to Accounting Information Systems Elements

ABSTRACT The term “Big Data” refers to massive volumes of data that grow at an increasing rate and encompass complex data types such as audio and video. While the applications of Big Data and analytic techniques for business purposes have received considerable attention, it is less clear how external sources of Big Data relate to the transaction processing-oriented world of accounting information systems. This paper uses the Resource-Event-Agent Enterprise Ontology (REA) (McCarthy 1982; International Standards Organization [ISO] 2007) to model the implications of external Big Data sources on business transactions. The five-phase REA-based specification of a business transaction as defined in ISO (2007) is used to formally define associations between specific Big Data elements and business transactions. Using Big Data technologies such as Apache Hadoop and MapReduce, a number of information extraction patterns are specified for extracting business transaction-related information from Big Data. We also pres.