bluuebunny/crossref_metadata_2025_split huggingface dataset:
VERA: agent-based modeling transmission of antibiotic resistance between human pathogens and gut microbiota
Authors: Glushchenko OE , Prianichnikov NA , Olekhnovich EI , Manolov AI , Odinzova VE , Tyaht AB , Kostrukova ES , Ilina EN 
Published: July 2018

AbstractThe resistance of bacterial pathogens to antibiotics is one of the most important issues of the modern health care. The human microbiota can accumulate resistance determinants and transfer them to pathogenic microflora by means of horizontal gene transfer (HGT). Thus, at the moment it is important to develop methods of prediction and monitoring of antibiotics resistance in human population. We represent the agent-based VERA model, which allows to simulate the spread of pathogen with account of possible horizontal transfer of resistance determinants from commensal microbiota community. The model considers the opportunity of residents to stay in the town or in medical institution, have wrong self-treatment, reception of several antibiotics types, transfer and accumulation of resistance determinants from a microbiota to a pathogen. In this model we have also created assessment of optimum intensity of observation of infection spread among the population. Investigating model behavior we show a number of nonlinear dependencies, including the exponential nature of dependence of total of the diseased on average resistance of a pathogen. As the model infection we considered infection with Shigella spp, though it could be applied to a wide range of other pathogens.Availability and implementationSource code and binaries VERA and VERA.viewer are freely available for download at github.com/lpenguin/microbiota-resistome. The code is written in Java, JavaScript and R for Linux platform.
Radial F-actin Organization During Early Neuronal Development
Authors: Praveen Meka Durga , Scharrenberg Robin , Zhao Bing , König Theresa , Schaefer Irina , Schwanke Birgit , Kobler Oliver , Klykov Sergei , Richter Melanie , Eggert Dennis , Windhorst Sabine , Dotti Carlos G. , Kreutz Michael R. , Mikhaylova Marina , Calderon de Anda Froylan 
Published: July 2018

AbstractThe centrosome is thought to be the major neuronal microtubule-organizing center (MTOC) in early neuronal development, producing microtubules with a radial organization. In addition, albeit in vitro, recent work showed that isolated centrosomes could serve as an actin-organizing center (Farina et al., 2016), raising the possibility that neuronal development may, in addition, require a centrosome-based actin radial organization. Here we report, using super-resolution microscopy and live-cell imaging, F-actin organization around the centrosome with dynamic F-actin aster-like structures with F-actin fibers extending and retracting actively. Photoconversion/photoactivation experiments and molecular manipulations of F-actin stability reveal a robust flux of somatic F-actin towards the cell periphery. Finally, we show that somatic F-actin intermingles with centrosomal PCM-1 satellites. Knockdown of PCM-1 and disruption of centrosomal activity not only affect F-actin dynamics near the centrosome but also in distal growth cones. Collectively the data show a radial F-actin organization during early neuronal development, which might be a cellular mechanism for providing peripheral regions with a fast and continuous source of actin polymers; hence sustaining initial neuronal development.
Antibiotic resistance evasion is explained by rare mutation frequency and not by lack of compensatory mechanisms
Authors: Evangelopoulos Dimitrios , Prosser Gareth A. , Rodgers Angela , Dagg Belinda M. , Khatri Bhagwati , Ho Mei Mei , Gutierrez Maximiliano G. , Cortes Teresa , de Carvalho Luiz Pedro S. 
Published: July 2018

AbstractDrug resistant infections represent one of the most challenging medical problems of our time. D-cycloserine is an antibiotic used for decades without appearance and dissemination of antibiotic resistant strains, making it an ideal model compound to understand what drives resistance evasion. We investigated whyMycobacterium tuberculosisfails to become resistant to D-cycloserine. To address this question we employed a combination of bacterial genetics, genomics, biochemistry and fitness analysisin vitro, in macrophages and in mice. Altogether, our results suggest that the ultra-low mutation frequency associated with D-cycloserine resistance is the dominant factor delaying the appearance of clinical resistance to this antibiotic in bacteria infecting humans, and not lack of potential compensatory mechanisms.One Sentence SummaryWe show that the lack of D-cycloserine resistance inMycobacterium tuberculosisis due its ultra-low mutation frequency rather than lack of compensatory mechanisms.
Basal Forebrain Deep Brain Stimulation Impacts the Regulation of Extracellular Vesicle Related Proteins in the Rat Brain
Authors: Li Wenxue , Montes Laura Lozano , Nair Jayakrishnan , Dimanico Marta , Mazloum Reza , Hu Zehan , Scolari Brigitte , Dengjel Jörn , Theilig Franziska , Harvey Michael , Zhang Xiaozhe , Rainer Gregor 
Published: July 2018

AbstractExtracellular vesicle (EV) signaling has attracted considerable attention in recent years because EVs play a key role in long distance cellular communication functions. EV studies have begun to reveal aspects of physiological and physiopathological regulation in numerous applications, although many areas remain to date largely unexplored. Deep brain stimulation (DBS) has shown remarkable therapeutic benefits of patients with neuropsychiatric disorders, but despite of the long and successful history of use, the mechanisms of action on neural ensemble activity are not yet fully understood. Here we explore how DBS of the basal forebrain impacts EV signaling in the rat brain. We employed differential centrifugations to isolate the EVs prefrontal cortex (PFC), hippocampus and striatum. We then performed quantitative analysis of EV-associated proteins using an MS-based proteomics method. We identified a considerable number of EV-associated proteins are modulated by DBS in three brain regions, some of which have been previously linked with central nervous system disorders. Particularly, neurofilament proteins NFL and NFM were both significantly changed in EVs of PFC, hippocampus and striatum after DBS stimulation compared with controls. The SOD1 protein, associated previously with neurodegenerative diseases, was significantly increased only in PFC. Our study is the first, to our knowledge, to use EV protein analysis to examine DBS effects on brain physiological regulation. Our findings open an entirely new perspective on brain area specific DBS effects.
Static stability predicts the continuum of interleg coordination patterns inDrosophila
Authors: Szczecinski Nicholas S. , Bockemühl Till , Chockley Alexander S. , Büschges Ansgar 
Published: July 2018

AbstractDuring walking, insects must coordinate the movements of their six legs for efficient locomotion. This interleg coordination is speed-dependent; fast walking in insects is associated with tripod coordination patterns, while slow walking is associated with more variable, tetrapod-like patterns. To date, however, there has been no comprehensive explanation as to why these speed-dependent shifts in interleg coordination should occur in insects. Tripod coordination would be sufficient at low walking speeds. The fact that insects use a different interleg coordination pattern at lower speeds suggests that it is more optimal or advantageous at these speeds. Furthermore, previous studies focused on discrete tripod and tetrapod coordination patterns. Experimental data, however, suggest that changes observed in interleg coordination are part of a speed-dependent spectrum. Here, we explore these issues in relation to static stability as an important aspect of interleg coordination inDrosophila. We created a model that uses basic experimentally measured parameters in fruit flies to find the interleg phase relationships that maximize stability for a given walking speed. Based on this measure, the model predicted a continuum of interleg coordination patterns spanning the complete range of walking speeds. Furthermore, for low walking speeds the model predicted tetrapod-like patterns to be most stable, while at high walking speeds tripod coordination emerged as most optimal. Finally, we validated the basic assumption of a continuum of interleg coordination patterns in a large set of experimental data from walking fruit flies and compared these data with the model-based predictions.Summary statementA simple stability-based modelling approach can explain why walking insects use different leg coordination patterns in a speed-dependent way.
Genetic differentiation is determined by geographic distance inClarkia pulchella
Authors: Bontrager Megan , Angert Amy L. 
Published: July 2018

AbstractBoth environmental differences and geographic distances may contribute to the genetic differentiation of populations on the landscape. Understanding the relative importance of these drivers is of particular interest in the context of geographic range limits, as both swamping gene flow and lack of genetic diversity are hypothesized causes of range limits. We investigated the landscape genetic structure of 32 populations of the annual wildflowerClarkia pulchellafrom across the species’ geographic range in the interior Pacific North-west. We tested whether climatic differences between populations influenced the magnitude of their genetic differentiation. We also investigated patterns of population structure and geographic gradients in genetic diversity. Contrary to our expectations, we found an increase in genetic diversity near the species’ northern range edge. We found no notable contribution of climatic differences to genetic differentiation, indicating that any processes that might operate to differentiate populations based on temperature or precipitation are not affecting the putatively neutral loci in these analyses. Rather, these results support seed and pollen movement at limited distances relative to the species’ range and that this movement and the subsequent incorporation of immigrants into the local gene pool are not influenced by temperature or precipitation similarities among populations. We found that populations in the northern and southern parts of the range tended to belong to distinct genetic groups and that central and eastern populations were admixed between these two groups. This pattern could be the result of a past or current geographic barrier associated with the Columbia Plateau, or it could be the result of spread from separate sets of refugia after the last glacial maximum.
Perineuronal nets set the strength of thalamic recruitment of interneurons in the adult visual cortex
Authors: Faini Giulia , Aguirre Andrea , Landi Silvia , Pizzorusso Tommaso , Ratto Gian Michele , Deleuze Charlotte , Bacci Alberto 
Published: July 2018

SummaryIn the neocortex, the closure of critical periods (CPs) of plasticity is paralleled by the accumulation of perineuronal nets (PNNs) around parvalbumin (PV)-positive inhibitory interneurons. Accordingly, PNN degradation in adult mammals re-opens cortical plasticity. However, how PNNs tune cortical function and plasticity is unknown. We found that PNNs modulated the gain of visual responses in the adult mouse visual cortex in vivo. Removal of PNNs in adult V1 strongly increased thalamic neurotransmission selectively on layer 4 PV cells. This produced a differential gating of feed-forward inhibition on principal neurons and other PV cells, with no alterations of unitary inhibitory synaptic transmission and neuronal excitability. These effects depended on visual input, as they were strongly attenuated by monocular deprivation in PNN-depleted adult mice. Thus, PNNs control visual processing and plasticity by selectively setting the strength of thalamic recruitment of PV cells. We conclude that PNN accumulation during circuit maturation likely prevents excessive thalamic excitation of PV cells at the expense of cortical plasticity.
BET inhibition induces HEXIM1- and RAD51-dependent conflicts between transcription and replication
Authors: Bowry Akhil , Piberger Ann Liza , Petermann Eva 
Published: July 2018

SUMMARYBET bromodomain proteins are epigenetic readers required for oncogenic transcription activities, and BET inhibitors have been rapidly advanced into clinical trials. Understanding the effects of BET inhibition on other nuclear processes such as DNA replication will be important for future clinical applications. Here we show that BET inhibition causes replication stress in cancer and non-cancer cells due to a rapid burst in global RNA synthesis and interference of transcription with replication. We identify BRD4 as the main BET inhibitor target in this process and provide evidence that BRD4 inhibition causes transcription-replication interference through release of P-TEFb from its inhibitor HEXIM1, promoting RNA Polymerase II phosphorylation. Unusually, BET inhibitor-induced transcription-replication interference does not activate the classic ATM/ATR-dependent DNA damage response. We show however that they promote foci formation of the homologous recombination factor RAD51. Both HEXIM1 and RAD51 are required for BET inhibitor-induced fork slowing, but rescuing fork slowing by HEXIM1 or RAD51 depletion activate a DNA damage response. Our data support a new mechanism where BRD4 inhibition slows replication and suppresses DNA damage through concerted action of transcription and homologous recombination machineries. They shed new light on the roles of DNA replication and recombination in the action of this new class of cancer drugs.
Schizophrenia-associated genomic copy number variants and subcortical brain volumes in the UK Biobank
Authors: Warland Anthony , Kendall Kimberley M , Rees Elliott , Kirov George , Caseras Xavier 
Published: July 2018

AbstractSchizophrenia is a highly heritable disorder for which anatomical brain alterations have been repeatedly reported in clinical samples. Unaffected at-risk groups have also been studied in an attempt to identify brain changes that do not reflect reverse causation or treatment effects. However, no robust associations have been observed between neuroanatomical phenotypes and known genetic risk factors for schizophrenia. We tested subcortical brain volume differences between 49 unaffected participants carrying at least one of the 12 copy number variants associated with schizophrenia in UK Biobank and 9,063 individuals who did not carry any of the 93 copy number variants reported to be pathogenic. Our results show that CNV carriers have reduced volume in some of the subcortical structures previously shown to be reduced in schizophrenia. Moreover, these associations were partially accounted for by the association between pathogenic copy number variants and cognitive impairment, which is one of the features of schizophrenia.
Feasibility of automated insulin delivery guided by continuous glucose monitoring, in extremely preterm infants
Authors: Beardsall Kathryn , Thomson Lynn , Elleri Daniela , Dunger David B , Hovorka Roman 
Published: July 2018

One Sentence SummaryClosed loop systems based on subcutaneous glucose measurements could provide an efficacious and safe means of optimizing glucose control in preterm infants while reducing resources required including time of bedside personnel.AbstractClosed loop systems have been used to optimise insulin delivery in children with diabetes, but they have not been tested in neonatal intensive care. Extremely preterm infants are prone to life-threating hyperglycaemia and hypoglycaemia; both of which have been associated with adverse outcomes. Insulin delivery is notoriously variable in these babies and time-consuming, with management requiring frequent changes of dextrose-containing fluids and careful monitoring. We aimed to evaluate the feasibility of closed loop management of glucose control in preterm infants in a single centre feasibility study with a randomised parallel design. Eligibility criteria included birth weight <1200g and <48hours of age. All infants had subcutaneous continuous glucose monitoring for the first week of life, with those in the intervention group receiving closed loop insulin delivery between 48 and 72hours of age. The primary outcome was percentage of time in target (sensor glucose 4-8mmol/l). The mean (SD) gestational age and birth weight of intervention and control study arms were 27.0(2.4) weeks, 962(164) g and 27.5(2.8) weeks, 823(282) g respectively. The time in target was dramatically increased from median (IQR) 26%(6,64) with paper guidance to 91%(78, 99) during closed loop (p<0.001), without increasing hypoglycaemia. There were no serious adverse events and no difference in total insulin infused. Closed loop glucose control based on subcutaneous glucose measurements is feasible and appears to provide an efficacious means of optimising glucose control in extremely preterm infants.
Indicators of service quality and satisfaction among graduating students of a higher education institution (HEI) in Ghana
Authors: Mattah Precious Agbeko D. , Kwarteng Albert Justice , Mensah Justice 
Published: July 2018

Purpose
The purpose of this paper is to explore the indicators of service quality from the perspective of graduating students in a public university in Ghana. The identified indicators of service quality were rated and the extent of satisfaction among the students was determined. Another issue explored was whether the satisfaction among the respondents inures to their loyalty to the university.

Design/methodology/approach
A questionnaire was designed, pre-tested and administered to 500 graduating students, and 482 of them were returned for analyses. Principal component analysis was used to determine the indicators of service quality. Independent sample t-test and z-test for proportions were used to compare mean scores and proportions of respondents on various variables, respectively.

Findings
The results revealed three indicators of service quality which include quality of academic services and facilities, quality of lecturers and quality of academic programs. Graduands were satisfied with academic services, lecturers and programs. They were, however, not satisfied with the quality of facilities. Majority of the respondents will remain associated with the university as a result of their satisfaction with the services, lecturers as well as programs of the university. It is recommended that the university works assiduously on improving infrastructural facilities to help boost the confidence of the students in the university.

Originality/value
This paper argues that what constitutes quality service vary from one academic institution to the other. It is, therefore, needful for institutions to determine from the perspective of their students what may indicate quality service.
Event detection from Twitter – a survey
Authors: Ramachandran Dharini , Ramasubramanian Parvathi 
Published: July 2018

Purpose
“What’s happening?” around you can be spread through the very pronounced social media to everybody. It provides a powerful platform that brings to light the latest news, trends and happenings around the world in “near instant” time. Microblog is a popular Web service that enables users to post small pieces of digital content, such as text, picture, video and link to external resource. The raw data from microblog prove indispensable in extracting information from it, offering a way to single out the physical events and popular topics prevalent in social media. This study aims to present and review the varied methods carried out for event detection from microblogs. An event is an activity or action with a clear finite duration in which the target entity plays a key role. Event detection helps in the timely understanding of people’s opinion and actual condition of the detected events.

Design/methodology/approach
This paper presents a study of various approaches adopted for event detection from microblogs. The approaches are reviewed according to the techniques used, applications and the element detected (event or topic).

Findings
Various ideas explored, important observations inferred, corresponding outcomes and assessment of results from those approaches are discussed.

Originality/value
The approaches and techniques for event detection are studied in two categories: first, based on the kind of event being detected (physical occurrence or emerging/popular topic) and second, within each category, the approaches further categorized into supervised- and unsupervised-based techniques.
Exploring the everyday life information needs and the socio-cultural adaptation barriers of Syrian refugees in Scotland
Authors: Martzoukou Konstantina , Burnett Simon 
Published: July 2018

Purpose
This paper presents the research findings of the “Syrian New Scots’ Information Literacy Way-finding practices” research project, funded by the Information Literacy Group of the Chartered Institute of Library and Information Professionals. The purpose of this paper is to explore the information needs of “Syrian New Scots” (the preferred name for refugees in Scotland), their habitual and adaptive information literacy practices and the barriers and enablers they encounter within their new socio-cultural setting via their interactions with people, tools and processes.

Design/methodology/approach
Primary data were collected via interviews with three Local Authority Leads for Syrian Resettlement and focus groups with Syrian New Scots in three geographical locations in Scotland: two rural areas and one urban. Syrian research subjects were also involved in a drawing exercise that helped to contextualise the findings.

Findings
The main information needs expressed by participants revolved around the learning of English language which was linked to addressing health-related information needs, well-being and community engagement. All participants also highlighted the issue of socio-cultural differences in fulfilling everyday life information needs (such as health and housing). Information provision to Syrian New Scots requires a more structured process that acknowledges personalised information needs and it is tailored to the different stages of the adaptation process. The findings suggest that the “ways of knowing” that Syrian refugees bring with them are converging information experiences of past and new knowledge structures gained via different socio-cultural and migration experiences.

Originality/value
The research findings of this project will be of interest to local and regional support organisations and community volunteer groups who contribute to the social well-being and social integration of Syrian refugees. In addition, they may be of interest to public libraries due to their role as centres for educational and cultural orientation sessions, and as places of support for newly settled Syrian refugees and the communities that embrace them.
Corruption in the Nigeria Judicial System: An Overview
Authors: Salihu Habeeb Abdulrauf , Gholami Hossein 
Published: July 2018

Purpose
The purpose of this study is to examine corruption in the Nigeria judicial system, the implications on justice administration and the fight against corruption in the country, and proffer recommendations on ways to eradicate corruption in the system.

Design/methodology/approach
This paper is essentially a desk research with reliance on secondary source of data in published outlets such as journal articles, online articles and books.

Findings
There is prevalence of corruption in the judicial system, and it is one the obstacles hindering the fight against corruption in the country.

Originality/value
Its scope is limited to issue and content analysis of judicial corruption in Nigeria.