bluuebunny/crossref_metadata_2025_split huggingface dataset:
Dynamics in the expression of epigenetic modifiers and histone modifications in perinatal rat germ cells during de novo DNA methylation†
Authors: Rwigemera Arlette , El omri-Charai Rhizlane , Lecante Laetitia L , Delbes Geraldine 
Published: November 2020

Abstract
Epigenetic reprogramming during perinatal germ cell development is essential for genomic imprinting and cell differentiation; however, the actors of this key event and their dynamics are poorly understood in rats. Our study aimed to characterize the expression patterns of epigenetic modifiers and the changes in histone modifications in rat gonocytes at the time of de novo DNA methylation. Using transgenic rats expressing Green Fluorescent Protein (GFP) specifically in germ cells, we purified male gonocytes by fluorescent activated cell sorting at various stages of perinatal development and established the transcriptomic profile of 165 epigenetic regulators. Using immunofluorescence on gonad sections, we tracked six histone modifications in rat male and female perinatal germ cells over time, including methylation of histone H3 on lysines 27, 9, and 4; ubiquitination of histone H2A on lysine119; and acetylation of histone H2B on lysine 20. The results revealed the dynamics in the expression of ten-eleven translocation enzymes and DNA methyltransferases in male gonocytes at the time of de novo DNA methylation. Moreover, our transcriptomic data indicate a decrease in histone ubiquitination and methylation coinciding with the beginning of de novo DNA methylation. Decreases in H2AK119Ub and H3K27me3 were further confirmed by immunofluorescence in the male germ cells but were not consistent for all H3 methylation sites examined. Together, our data highlighted transient chromatin remodeling involving histone modifications during de novo DNA methylation. Further studies addressing how these dynamic changes in histone posttranslational modifications could guide de novo DNA methylation will help explain the complex establishment of the male germ cell epigenome.
‘Playing the Game’: Power, Authority and Procedural Justice in Interactions Between Police and Homeless People in London
Authors: Kyprianides Arabella , Stott Clifford , Bradford Ben 
Published: November 2020

Abstract
We explore the relevance of procedural justice theory for understanding the relationship between police and marginalized groups and individuals. Analysis is based on ethnographic research into the policing of the street population in an inner London borough through shadowing policing patrols and embedding observation within the homeless community. Police–street population relationships appear characterized by: (1) a structural context of extreme disempowerment; (2) a micro-sociological dimension relating to the exercise of authority and (3) a dynamic power relationship characterized by ‘the game of cat and mouse’. The nature of interactions within this context and the extreme marginality of the street population alter the weight placed on fairness perceptions and the extent to which police activity can affect legitimacy and compliance.
Three-dimensional analysis of synaptic organization in the hippocampal CA1 field in Alzheimer’s disease
Authors: Montero-Crespo Marta , Domínguez-Álvaro Marta , Alonso-Nanclares Lidia , DeFelipe Javier , Blazquez-Llorca Lidia 
Published: November 2020

Abstract
Alzheimer’s disease is the most common form of dementia, characterized by a persistent and progressive impairment of cognitive functions. Alzheimer’s disease is typically associated with extracellular deposits of amyloid-β peptide and accumulation of abnormally phosphorylated tau protein inside neurons (amyloid-β and neurofibrillary pathologies). It has been proposed that these pathologies cause neuronal degeneration and synaptic alterations, which are thought to constitute the major neurobiological basis of cognitive dysfunction in Alzheimer’s disease. The hippocampal formation is especially vulnerable in the early stages of Alzheimer’s disease. However, the vast majority of electron microscopy studies have been performed in animal models. In the present study, we performed an extensive 3D study of the neuropil to investigate the synaptic organization in the stratum pyramidale and radiatum in the CA1 field of Alzheimer’s disease cases with different stages of the disease, using focused ion beam/scanning electron microscopy (FIB/SEM). In cases with early stages of Alzheimer’s disease, the synapse morphology looks normal and we observed no significant differences between control and Alzheimer’s disease cases regarding the synaptic density, the ratio of excitatory and inhibitory synapses, or the spatial distribution of synapses. However, differences in the distribution of postsynaptic targets and synaptic shapes were found. Furthermore, a lower proportion of larger excitatory synapses in both strata were found in Alzheimer’s disease cases. Individuals in late stages of the disease suffered the most severe synaptic alterations, including a decrease in synaptic density and morphological alterations of the remaining synapses. Since Alzheimer’s disease cases show cortical atrophy, our data indicate a reduction in the total number (but not the density) of synapses at early stages of the disease, with this reduction being much more accentuated in subjects with late stages of Alzheimer’s disease. The observed synaptic alterations may represent a structural basis for the progressive learning and memory dysfunctions seen in Alzheimer’s disease cases.
Fishing rights and colonial government: institutional development in the Bengal Presidency
Authors: Sen Shourya , Adelstein Richard 
Published: November 2020

Abstract
We examine the evolution of fishing rights in colonial Bengal through a series of cases heard at the Calcutta High Court in the 1880s and culminating in the passage of legislation in 1889. We posit an implicit relational contract between the colonizing British and the landowning class in colonial Bengal as a way to understand the concurrent evolution of fishing rights and institutions of governance in the region. The system of incentives created by this contract determined the development of fishing rights at a crucial moment in the history of colonial Bengal and, more broadly, became a primary mechanism of institutional change in the region. The analysis also shows the High Court to have acted, albeit in vain, as a truly independent judiciary; had its resolution of the cases prevailed, the institutional development of the region might have been substantially different than it was.
Long-term outcomes and left ventricular diastolic function of sarcomere mutation-positive and mutation-negative patients with hypertrophic cardiomyopathy: a prospective cohort study
Authors: Chen Ching-Yu Julius , Su Mao-Yuan Marine , Liao Ying-Chieh , Chang Fu-Lan , Wu Cho-Kai , Lin Lian-Yu , Chen Yih-Shurng , Lin Yen-Hung , Hwang Juey-Jen , Yu Sung-Liang , Kao Hsien-Li , Chen Wen-Jone , Lu Tzu-Pin , Shih Ching-Yu , Yeh Shih-Fan Sherri , Yang Dun-Hui , Lai Ling-Ping , Juang Jyh-Ming Jimmy 
Published: November 2020

Abstract

Aims
Hypertrophic cardiomyopathy (HCM) is an inheritable disease that leads to sudden cardiac death and heart failure (HF). Sarcomere mutations (SMs) have been associated with HF. However, the differences in ventricular function between SM-positive and SM-negative HCM patients are poorly characterized.

Methods and results
Of the prospectively enrolled 374 unrelated HCM patients in Taiwan, 115 patients underwent both 91 cardiomyopathy-related gene screening and cardiovascular magnetic resonance (45.6 ± 10.6 years old, 76.5% were male). Forty pathogenic/likely pathogenic mutations were identified in 52 patients by next-generation sequencing. The SM-positive group were younger at first cardiovascular event (P = 0.04) and progression to diastolic HF (P = 0.02) with higher N-terminal pro-brain natriuretic peptide (NT-proBNP) [New York Heart Association (NYHA) Class III/IV symptoms with left ventricular ejection fraction &gt; 55%] than the SM-negative group (P &lt; 0.001). SM-positive patients had a greater extent of late gadolinium enhancement (P = 0.01), larger left atrial diameter (P = 0.03), higher normalized peak filling rate (PFR) and PFR ratio, and a greater reduction in global longitudinal strain than SM-negative patients (all P ≤ 0.01). During mean lifelong follow-up time (49.2 ± 15.6 years), SM-positive was a predictor of earlier HF (NYHA Class III/IV symptoms) after multivariate adjustment (hazard ratio 3.5; 95% confidence interval 1.3–9.7; P = 0.015).

Conclusion
SM-positive HCM patients had a higher extent of myocardial fibrosis and more severe ventricular diastolic dysfunction than those without, which may contribute to earlier onset of advanced HF, suggesting the importance of close surveillance and early treatment throughout life.
Severe biventricular thrombosis in eosinophilic granulomatosis with polyangiitis: a case report
Authors: Hamudi Jihad , Karkabi Basheer , Zisman Devy , Shiran Avinoam 
Published: November 2020

Abstract

Background
Eosinophilic granulomatosis with polyangiitis (EGPA), formerly known as Churg–Strauss syndrome, is a rare multisystem disease characterized by asthma, rhinosinusitis, and eosinophilia. Cardiac involvement, present in half the patients, may be life threatening.

Case summary
A young woman with long-standing asthma and nasal polyposis was admitted with new-onset dyspnoea, sinus tachycardia, and eosinophilia. She had severe biventricular thrombosis and severe tricuspid regurgitation (TR) on echocardiography, with preserved ejection fraction of both ventricles. Cardiac magnetic resonance (CMR) imaging showed diffuse subendocardial late gadolinium enhancement (LGE). She had a positive test for perinuclear antineutrophil cytoplasmic antibodies (p-ANCA) confirming the diagnosis of ANCA positive EGPA. She was treated with anticoagulation, high-dose corticosteroids, cyclophosphamide, and rituximab with gradual resolution of her symptoms. Follow-up echocardiography showed significant improvement in ventricular thrombi and TR but could not reliably exclude residual ventricular thrombus. Repeat CMR at 11 months confirmed complete resolution of both ventricular thrombi and near complete resolution of LGE.

Discussion
Cardiac involvement in EGPA, a rare cause of heart failure, can manifest as severe biventricular thrombosis and severe TR, resulting in heart failure with preserved ejection fraction. Combined immunosuppression and anticoagulation can lead to complete remission within a year. CMR is instrumental for both diagnosis and follow-up of EGPA, allowing for safe discontinuation of oral anticoagulation.
Who Will Do It? Volunteering to Change Cooperation Rules in a Heterogeneous Population
Authors: Gërxhani Klarita , Volker Beate , van Breemen Jacqueline 
Published: November 2020

AbstractWe study whether and when a second-order collective action problem, like the change of existing formal rules governing cooperation, can be resolved to ultimately solve first-order collective good dilemmas. We do so by examining the conditions under which individuals change cooperation rules when both their material incentives to cooperate and their social preferences for outcome distributions differ. Our experimental findings show that proselfs who benefit the most from cooperation are most likely to initiate a rule change to a higher minimum contribution level. Regarding prosocials, we find that their underlying motives in favour or against this rule change vary depending on their relative earnings’ position. If they are ‘wealthy’, that is, they have a higher earnings potential, they are more concerned about equality. When they are relatively ‘less wealthy’, they seem to care more about enhancing collective outcomes.
Coronavirus disease 2019 in adults with congenital heart disease: a position paper from the ESC working group of adult congenital heart disease, and the International Society for Adult Congenital Heart Disease
Authors: Diller Gerhard-Paul , Gatzoulis Michael A , Broberg Craig S , Aboulhosn Jamil , Brida Margarita , Schwerzmann Markus , Chessa Massimo , Kovacs Adrienne H , Roos-Hesselink Jolien 
Published: November 2020

Abstract
We are witnessing an unparalleled pandemic caused by the novel Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) associated with coronavirus disease 2019 (COVID-19). Current data show that SARS-CoV-2 results in mild flu-like symptoms in the majority of healthy and young patients affected. Nevertheless, the severity of COVID-19 respiratory syndrome and the risk of adverse or catastrophic outcomes are increased in patients with pre-existing cardiovascular disease. Patients with adult congenital heart disease (ACHD)—by definition—have underlying cardiovascular disease. Many patients with ACHD are also afflicted with residual haemodynamic lesions such as valve dysfunction, diminished ventricular function, arrhythmias or cyanosis, have extracardiac comorbidities, and face additional challenges regarding pregnancy. Currently, there are emerging data of the effect of COVID-19 on ACHD patients, but many aspects, especially risk stratification and treatment considerations, remain unclear. In this article, we aim to discuss the broad impact of COVID-19 on ACHD patients, focusing specifically on pathophysiology, risk stratification for work, self-isolation, hospitalization, impact on pregnancy, psychosocial health, and longer-term implications for the provision of ACHD care.
Divergence in environmental adaptation between terrestrial clades of the Bacillus cereus group
Authors: Manktelow C James , White Hugh , Crickmore Neil , Raymond Ben 
Published: November 2020

ABSTRACT
The Bacillus cereus group encompasses beneficial and harmful species in diverse niches and has a much debated taxonomy. Investigating whether selection has led to ecological divergence between phylogenetic clades can help understand the basis of speciation, and has implications for predicting biological safety across this group. Using three most terrestrial species in this group (B. cereus, Bacillus thuringiensis and Bacillus mycoides) we charactererized ecological specialization in terms of resource use, thermal adaptation and fitness in different environmental conditions and tested whether taxonomic species or phylogenetic clade best explained phenotypic variation. All isolates grew vigorously in protein rich media and insect cadavers, but exploitation of soil or plant derived nutrients was similarly weak for all. For B. thuringiensis and B. mycoides, clade and taxonomic species were important predictors of relative fitness in insect infections. Fully psychrotolerant isolates could outcompete B. thuringiensis in insects at low temperature, although psychrotolerance predicted growth in artificial media better than clade. In contrast to predictions, isolates in the Bacillus anthracis clade had sub-optimal growth at 37°C. The common ecological niche in these terrestrial B. cereus species is the ability to exploit protein rich resources such as cadavers. However, selection has led to different phylogenetic groups developing different strategies for accessing this resource. Thus, clades, as well as traditional taxonomic phenotypes, predict biologically important traits.
Fermentation revival in the classroom: investigating ancient human practices as CUREs for modern diseases
Authors: Lyles Jennifer K , Oli Monika 
Published: November 2020

ABSTRACTA course-based undergraduate research experience (CURE) was designed to integrate key microbiological principles and techniques into an authentic research experience in a classroom setting and was implemented in an undergraduate microbiology laboratory course. Students conducted a 6-week study in order to determine the identity and quantity of unique probiotic species from various types of kefir. This course module followed an inquiry-based pedagogical approach in which students use the scientific process to investigate an unknown question with no predetermined outcome. During each lab, relevant microbiological topics and laboratory concepts were presented. Students then performed various laboratory techniques, reinforcing the lecture material with hands-on experience. In addition, students participated in reflection through group presentation of their results, bioinformatic analysis and literature review. Based on data collected from pre- and post-study survey responses, both student knowledge and attitudes towards the topics covered improved due to participation in this CURE. Importantly, this CURE can be implemented at many levels of education, requiring only minimal resources and common laboratory equipment.
Beneficial biofilms for land rehabilitation and fertilization
Authors: Rossi Federico 
Published: November 2020

ABSTRACTThe acquisition of a biofilm lifestyle is common in nature for microorganisms. It increases their biotic and abiotic stress tolerance and their capability to provide ecosystem services. Although diminutive communities, soil beneficial biofilms are essential for nutrient cycling, soil stabilization and direct or indirect promotion of plant development. Some biofilms represent valid biotechnological tools to deal with problems related to soil degradation, which threat food quality and the maintenance of ecosystem functions. Three genres of biofilms: rhizobacterial biofilms, fungal-bacterial biofilms and biocrusts are reviewed, and their beneficial effects on the environment outlined. Their induction by microbial inoculation represents a potential eco-friendly and sustainable approach to restore lost ecosystem functions and counteract the effects of soil erosion. Yet, some existing knowledge and methodological gaps, that will be discussed here, still hamper the optimization of this technology, and its application at its full potential.
Expired probiotics: what is really in your cabinet?
Authors: Wilcox Hannah , Carr Charles , Seney Shannon , Reid Gregor , Burton Jeremy P 
Published: November 2020

ABSTRACTThe popularity of using probiotics has surged, since they became widely accepted as safe and help improve general health. Inevitably, some of these products are used after expiration when microbial cell viability is below the recommended effective dose. Given that probiotics must be live microorganisms administered in adequate amounts, the aim of this study was to measure viability in expired products and assess how packaging and storage conditions impact efficacy, if at all. Thirty-three expired probiotic products were evaluated, of which 26 were stored in conditions recommended by the manufacturer. The viable microbial cells were enumerated and representative isolates identified by 16S and internally transcribed spacer rRNA gene sequencing. While the products had a mean past expiration time of 11.32 (1–22) years, 22 still had viable contents, and 5 were within or above the original product cell count claim. Product formulation and the number of species present did not appear to impact the stability of the products. However, overall packaging type, storage conditions and time since expiry were found to affect viability. All products with viable cells had the strain stipulated on the label. Despite some selected probiotic products retaining viability past their expiry date (indicating long-term storage is possible), the total counts were mostly well below that required for efficacious use as recommended by the manufacturer. Consuming expired probiotics may not yield the benefits for which they were designed.
Improved linear inversion of low induction number electromagnetic data
Authors: Parnow Saeed , Oskooi Behrooz , Florio Giovanni 
Published: November 2020

SUMMARY
We define a two-step procedure to obtain reliable inverse models of the distribution of electrical conductivity at depth from apparent conductivities estimated by electromagnetic instruments such as GEONICS EM38, EM31 or EM 34-3. The first step of our procedure consists in the correction of the apparent conductivities to make them consistent with a low induction number condition, for which these data are very similar to the true conductivity. Then, we use a linear inversion approach to obtain a conductivity model. To improve the conductivity estimation at depth we introduced a depth-weighting function in our regularized weighted minimum length solution algorithm. We test the whole procedure on two synthetic data sets generated by the COMSOL Multiphysics for both the vertical magnetic dipole and horizontal magnetic dipole configurations of the loops. Our technique was also tested on a real data set, and the inversion result has been compared with the one obtained using the dipole-dipole DC electrical resistivity (ER) method. Our model not only reproduces all shallow conductive areas similar to the ER model, but also succeeds in replicating its deeper conductivity structures. On the contrary, inversion of uncorrected data provides a biased model underestimating the true conductivity.
A comparative study on methods for determining the hydraulic properties of a clay shale
Authors: Winhausen Lisa , Amann-Hildenbrand Alexandra , Fink Reinhard , Jalali Mohammadreza , Khaledi Kavan , Hamdi Pooya , Urai Janos L , Schmatz Joyce , Amann Florian 
Published: November 2020

SUMMARY
A comprehensive characterization of clay shale behavior requires quantifying both geomechanical and hydromechanical characteristics. This paper presents a comparative laboratory study of different methods to determine the water permeability of saturated Opalinus Clay: (i) pore pressure oscillation, (ii) pressure pulse decay and (iii) pore pressure equilibration. Based on a comprehensive data set obtained on one sample under well-defined temperature and isostatic effective stress conditions, we discuss the sensitivity of permeability and storativity on the experimental boundary conditions (oscillation frequency, pore pressure amplitudes and effective stress). The results show that permeability coefficients obtained by all three methods differ less than 15 per cent at a constant effective stress of 24 MPa (kmean = 6.6E-21 to 7.5E-21 m2). The pore pressure transmission technique tends towards lower permeability coefficients, whereas the pulse decay and pressure oscillation techniques result in slightly higher values. The discrepancies are considered minor and experimental times of the techniques are similar in the range of 1–2 d for this sample. We found that permeability coefficients determined by the pore pressure oscillation technique increase with higher frequencies, that is oscillation periods shorter than 2 hr. No dependence is found for the applied pressure amplitudes (5, 10 and 25 per cent of the mean pore pressure). By means of experimental handling and data density, the pore pressure oscillation technique appears to be the most efficient. Data can be recorded continuously over a user-defined period of time and yield information on both, permeability and storativity. Furthermore, effective stress conditions can be held constant during the test and pressure equilibration prior to testing is not necessary. Electron microscopic imaging of ion-beam polished surfaces before and after testing suggests that testing at effective stresses higher than in situ did not lead to pore significant collapse or other irreversible damage in the samples. The study also shows that unloading during the experiment did not result in a permeability increase, which is associated to the persistent closure of microcracks at effective stresses between 24 and 6 MPa.