bluuebunny/crossref_metadata_2025_split huggingface dataset:
A mosaic of independent innovations involvingeyes shutare critical for the evolutionary transition from closed to open rhabdoms
Authors: Mahato Simpla , Nie Jing , Plachetzki David C. , Zelhof Andrew C. 
Published: May 2018

AbstractA fundamental question in evolutionary biology is how developmental processes are modified to produce morphological innovations while abiding by functional constraints. Here we address this question by investigating the cellular mechanism responsible for the transition between fused and open rhabdoms in ommatidia of apposition compound eyes; a critical step required for the development of visual systems based on neural superposition. UtilizingDrosophilaandTriboliumas representatives of fused and open rhabdom morphology respectively, we identified three changes required for this innovation to occur. First, the expression pattern of the extracellular matrix protein Eyes Shut (EYS) was co-opted and expanded from mechanosensory neurons to the photoreceptor cells in taxa with open rhabdoms. Second, EYS homologs in these taxa obtained a novel extension of the amino terminus leading to the internalization of a cleaved signal sequence. This amino terminus extension does not interfere with cleavage or function in mechanosensory neurons, but it does permit specific targeting of the EYS protein to the apical photoreceptor membrane. Finally, a specific interaction evolved between EYS and a subset of Prominin homologs that is required for the development of open, but not fused, rhabdoms. Together, our findings portray a case study wherein the evolution of a set of molecular novelties has precipitated the origin of an adaptive photoreceptor cell arrangement.Author SummaryUnderstanding how adaptive morphologies originate is a central question in evolutionary developmental biology. Once confined largely to arguments about the relative frequencies of protein coding vs. regulatory mutations, numerous studies have since revealed more complex interactions involving alterations in gene expression and novel protein-protein interactions as drivers of novel trait evolution. Our study exploits the genetic amenability ofDrosophilaand utilizes direct comparisons withTriboliumto define a set of cellular mechanisms necessary for the evolutionary transition from a fused (Tribolium) to an open (Drosophila) rhabdom. Our results depict an evolutionary transition involving both non-coding and coding changes that resulted in a novel visual architecture, permitting a subset of diurnal insects to diversify into niches characterized by low light.
Domain Insertion Permissibility is a Measure of Engineerable Allostery in Ion Channels
Authors: Coyote-Maestas Willow , He Yungui , Myers Chad L. , Schmidt Daniel 
Published: May 2018

AbstractAllostery is a fundamental principle of protein regulation that remains poorly understood and hard to engineer, in particular in ion channels. Here we use human Inward Rectifier K+Channel Kir2.1 to establish domain insertion ‘permissibility’ as a new experimental paradigm to identify engineerable allosteric sites. We find that permissibility is best explained by dynamic protein properties, such as conformational flexibility. Many allosterically regulated sites in Kir2.1 or sites equivalent to those regulated in homologs, such as G-protein-gated inward rectifier K+channels (GIRK), havedifferentialpermissibility; that is, for these sites permissibility depends on the structural properties of the inserted domain. Our data and the well-established link between protein dynamics and allostery led us to propose that differential permissibility is a metric of both existing and latent allostery in Kir2.1. In support of this notion, inserting light-switchable domains into either existing or latent allosteric sites, but not elsewhere, renders Kir2.1 activity sensitive to light.
Vegetation monitoring using multispectral sensors – best practices and lessons learned from high latitudes
Authors: Assmann Jakob J , Kerby Jeffrey T , Cunliffe Andrew M , Myers-Smith Isla H 
Published: May 2018

AbstractEmerging drone technologies have the potential to revolutionise ecological monitoring. The rapid technological advances in recent years have dramatically increased affordability and ease of use of Unmanned Aerial Vehicles (UAVs) and associated sensors. Compact multispectral sensors, such as the Parrot Sequoia (Paris, France) and MicaSense RedEdge (Seattle WA, USA) capture spectrally accurate high-resolution (fine grain) imagery in visible and near-infrared parts of the electromagnetic spectrum, providing supplement to satellite and aircraft-based imagery. Observations of surface reflectance can be used to calculate vegetation indices such as the Normalised Difference Vegetation Index (NDVI) for productivity estimates and vegetation classification. Despite the advances in technology, challenges remain in capturing consistently high-quality data, particularly when operating in extreme environments such as the high latitudes. Here, we summarize three years of ecological monitoring with drone-based multispectral sensors in the remote Canadian Arctic. We discuss challenges, technical aspects and practical considerations, and highlight best practices that emerged from our experience, including: flight planning, factoring in weather conditions, and geolocation and radiometric calibration. We propose a standardised methodology based on established principles from remote sensing and our collective field experiences, using the Parrot Sequoia sensor as an example. With these good practises, multispectral sensors can provide meaningful spatial data that is reproducible and comparable across space and time.
ESCRT and autophagy cooperate to repair ESX-1-dependent damage to the Mycobacterium-containing vacuole
Authors: López-Jiménez Ana T. , Cardenal-Muñoz Elena , Leuba Florence , Gerstenmaier Lilli , Hagedorn Monica , King Jason S. , Soldati Thierry 
Published: May 2018

AbstractPhagocytes capture invader microbes within the bactericidal phagosome. Some pathogens subvert killing by damaging and escaping from this compartment. To prevent and fight bacterial escape, cells contain and repair the membrane damage, or finally eliminate the cytosolic escapees. All eukaryotic cells engage highly conserved mechanisms to ensure integrity of membranes in a multitude of physiological and pathological situations, including the Endosomal Sorting Complex Required for Transport (ESCRT) and autophagy machineries. In Dictyostelium discoideum, recruitment of the ESCRT-III protein Snf7/Chmp4/Vps32 and the ATPase Vps4 to sites of membrane repair relies on the ESCRT-I component Tsg101 and occurs in absence of Ca2+. The ESX-1 dependent membrane perforations produced by the pathogen Mycobacterium marinum separately engage both ESCRT and autophagy. In absence of Tsg101, M. marinum escapes earlier to the cytosol, where it is restricted by xenophagy. We propose that ESCRT has an evolutionary conserved function in containing intracellular pathogens in intact compartments.
An Indexing Theory for Working Memory based on Fast Hebbian Plasticity
Authors: Fiebig Florian , Herman Pawel , Lansner Anders 
Published: May 2018

AbstractWorking memory (WM) is a key component of human memory and cognition. Computational models have been used to study the underlying neural mechanisms, but neglected the important role of short- and long-term memory interactions (STM, LTM) for WM. Here, we investigate these using a novel multi-area spiking neural network model of prefrontal cortex (PFC) and two parieto-temporal cortical areas based on macaque data. We propose a WM indexing theory that explains how PFC could associate, maintain and update multi-modal LTM representations. Our simulations demonstrate how simultaneous, brief multi-modal memory cues could build a temporary joint memory representation as an “index” in PFC by means of fast Hebbian synaptic plasticity. This index can then reactivate spontaneously and thereby reactivate the associated LTM representations. Cueing one LTM item rapidly pattern-completes the associated un-cued item via PFC. The PFC-STM network updates flexibly as new stimuli arrive thereby gradually over-writing older representations.
Insights into the mutational burden of human induced pluripotent stem cells using an integrative omics approach
Authors: D’Antonio Matteo , Benaglio Paola , Jakubosky David , Greenwald William W. , Matsui Hiroko , Donovan Margaret K. R. , Li He , Smith Erin N. , D’Antonio-Chronowska Agnieszka , Frazer Kelly A. 
Published: May 2018

SummaryTo understand the mutational burden of human induced pluripotent stem cells (iPSCs), we whole genome sequenced 18 fibroblast-derived iPSC lines and identified different classes of somatic mutations based on structure, origin and frequency. Copy number alterations affected 295 kb in each sample and strongly impacted gene expression. UV-damage mutations were present in ~45% of the iPSCs and accounted for most of the observed heterogeneity in mutation rates across lines. Subclonal mutations (not present in all iPSCs within a line) composed 10% of point mutations, and compared with clonal variants, showed an enrichment in active promoters and increased association with altered gene expression. Our study shows that, by combining WGS, transcriptome and epigenome data, we can understand the mutational burden of each iPSC line on an individual basis and suggests that this information could be used to prioritize iPSC lines for models of specific human diseases and/or transplantation therapy.
Comparative evaluation of the Geenius™ HIV 1/2 Confirmatory Assay and the HIV-1 and HIV-2 Western blots in the Japanese population
Authors: Kondo Makiko , Sudo Koji , Sano Takako , Kawahata Takuya , Itoda Ichiro , Iwamuro Shinya , Yoshimura Yukihiro , Tachikawa Natsuo , Kojima Yoko , Mori Haruyo , Fujiwara Hiroshi , Hasegawa Naoki , Kato Shingo 
Published: May 2018

AbstractAccurate diagnosis of earlier HIV infection is essential for treatment and prevention. Currently, confirmation tests of HIV infection in Japan are performed using Western blot (WB), but WB has several limitations including low sensitivity and cross-reactivity between HIV-1 and HIV-2 antibodies. To address these problems, a new HIV testing algorithm and a more reliable confirmation and HIV-1/2 differentiation assay are required. The Bio-Rad Geenius™ HIV-1/2 Confirmatory Assay (Geenius) has recently been approved and recommended for use in the revised guidelines for diagnosis of HIV infection by the Center for Disease Control and Prevention (USA). We made comprehensive comparison of the performance of Geenius and the Bio-Rad NEW LAV BLOT 1 and 2 (NLB 1 and 2) which are WB kits for HIV-1 and HIV-2, respectively, to examine if Geenius is a suitable alternative to these WB assays which are now being used in HIV testing in Japan. A total of 166 HIV-1 positive samples (146 from patients with established HIV-1 infection and 20 from patients with acute infection), five HIV-1 seroconversion panels containing 21 samples and 30 HIV-2 positive samples were used. In addition, a total of 140 HIV negative samples containing 10 false-positives on screening tests were examined. The sensitivity of Geenius and NLB 1 for HIV-1 positive samples was 99.3% and 98.6%, respectively. Geenius provided more positive results in the samples from acute infections and detected positivity 0 to 32 days earlier in seroconversion panels than NLB 1. NLB 2 gave positive results in 12.3% of HIV-1 positive samples. The sensitivity of both Geenius and NLB 2 for HIV-2 positive samples was 100%. The specificity of Geenius, NLB 1 and NLB 2 was 98.5%, 81.5% and 90.0%, respectively. Geenius is an attractive alternative to WB for confirmation and differentiation of HIV-1 and HIV-2 infections. The adaptation of Geenius to the HIV testing algorithm may be advantageous for rapid diagnosis and the reduction of testing costs.
TMEM135 is an LXR-inducible regulator of peroxisomal metabolism
Authors: Renquist Benjamin J. , Madanayake Thushara W. , Hennebold Jon D. , Ghimire Susma , Geisler Caroline E. , Xu Yafei , Bogan Randy L. 
Published: May 2018

AbstractThe liver x receptors (LXRs) are key regulators of systemic lipid metabolism. We determined whether transmembrane protein 135 (TMEM135) is an LXR target gene and its physiologic function. An LXR agonist increased TMEM135 mRNA and protein in human hepatocyte and macrophage cell lines, which was prevented by LXR knockdown. The humanTMEM135promoter contains an LXR response element that bound the LXRs via EMSA and ChIP, and mediated LXR-induced transcription in reporter assays. Knockdown of TMEM135 in HepG2 cells caused triglyceride accumulation despite reduced lipogenic gene expression, indicating a potential role in β-oxidation. To determine physiologic importance, TMEM135 was knocked-down via siRNA in livers of fed and fasted C57BL/6 mice. Fasting increased hepatic fatty acid and NADH concentrations in control mice, consistent with increased fatty acid uptake and β-oxidation. However, in fasted TMEM135 knockdown mice, there was a further significant increase in hepatic fatty acid concentrations and a significant decrease in NADH, indicating an impairment in β-oxidation by peroxisomes and/or mitochondria. Conversely, hepatic ketones tended to increase in fasted TMEM135 knockdown compared to control mice, and because ketogenesis is exclusively dependent on mitochondrial β-oxidation, this indicates peroxisomal β-oxidation was impaired in knockdown mice. Localization studies demonstrated that TMEM135 co-localized with peroxisomes but not mitochondria. Mechanistically, proteomic and Western blot analyses indicated that TMEM135 regulates concentrations of matrix enzymes within peroxisomes. In conclusion,TMEM135is a novel LXR target gene in humans that mediates peroxisomal metabolism, and thus TMEM135 may be a therapeutic target for metabolic disorders associated with peroxisome dysfunction.
POT1a depletion in the developing brain leads to p53-dependent neuronal cell death and ataxia
Authors: She Robert , Clapp Charlie , Denchi Eros Lazzerini 
Published: May 2018

AbstractThe processes that control genome stability are essential for the development of the Central Nervous System (CNS) and the prevention of neurological disease. Here we investigated whether activation of a DNA damage response by dysfunctional telomeres affects neurogenesis. More specifically, we analyzed ATR-dependent DNA damage response by depletion of POT1a in neural progenitors. These experiments revealed that POT1a inactivation leads to a partially penetrant lethality, and surviving mice displayed ataxia due to loss of neuronal progenitor cells, and died by 3 weeks of age. Inactivation of p53 was sufficient to completely suppress the lethality associated with POT1a depletion and rescued the neuronal defects characterizing POT1a depleted animals. In contrast, activation of ATM by the depletion of the shelterin protein TRF2 resulted in a fully penetrant lethality that could not be rescued by p53 inactivation (Lobanova et al.). This data reveals that activation of distinct types of DNA damage response pathway give rise to different types of neuropathology. Moreover, our data provides an explanation for the heterogeneity of the neurological defects observed in patients affected by telomere biological disorders.
Industrial relations in France
Authors: Rehfeldt Udo 
Published: May 2018

Purpose
The purpose of this paper is to present the actors, institutions and changing rules of the French system of industrial relations (IR). It questions whether the traditional view of the French model as “state-centric” is still adequate.

Design/methodology/approach
Based on institutionalist IR theories of social regulation and neocorporatism, the paper analyses the evolution of the French IR system from a “State-centric” model to the development of collective bargaining, both at the sector and company level, as well as of tripartite concertation.

Findings
Initially based on adversarial relations between trade unions and employers, compensated by strong state interventionism, the French IR system has experienced a series of reforms, adopted under the pressure of the unions in the 1980s and mostly under the pressure of the employers’ organisations since the turn of the century. These reforms boosted collective bargaining at the workplace level and tripartite concertation at the peak level. The paper analyses the limits of both developments and explains why a reversal of the hierarchy of norms was imposed in 2016 by law without prior concertation.

Originality/value
The paper presents an original explanation of the change of the initial French IR model, stressing the importance of power relations and the role of IR experts in the different reform moments.
Assessment of service quality using text mining – evidence from private sector banks in India
Authors: Chakrabarti Somnath , Trehan Deepak , Makhija Mayank 
Published: May 2018

PurposeAs the retail banking institutions are becoming more customer centric, their focus on service quality is increasing. Established service quality frameworks such as SERVQUAL and SERVPERF have been applied in the banking sector. While these models are widely accepted, they are expensive because of the need for replication across bank branches. The purpose of this paper is to propose a novel, user friendly and cost effective approach by amalgamating the traditional concept of service quality in banks (marketing base) and sentiment analysis literature (information systems base).Design/methodology/approachIn this study, the main objective is to analyze user reviews to better understand the correlation between RATER dimension sentiment scores as independent variables and user overall rating (customer satisfaction) grouping in “good” and “bad” as dependent variable through development of authors’ own logistic regression model using lexicon-based sentiment analysis. The model has been developed for three largest private banks in India pertaining to three banking product categories of loans, savings and current accounts and credit cards.FindingsThe results show that the responsiveness and tangibles dimensions significantly impact the user evaluation rating. Even though the three largest private banks in India are concentrating on the tangibles dimension, not all of them are sufficiently focused on the responsiveness dimension. Additionally, customers looking for loan products are more susceptible to negative perceptions on service quality.Originality/valueThis study has highlighted two types of scores whereby user provided overall evaluation scores help provide validation to the sentiment scores. The developed model can be used to assess performance of a bank in comparison to its peers and to generate in depth insights on point of parity (POP) and point of difference (POD) fronts.
Expectations of Facebook users towards a virtual dialogue with their public utility
Authors: Martin Sebastian , Greiling Dorothea , Wetzelhütter Daniela 
Published: May 2018

PurposeA growing amount of German and Austrian utilities create own Facebook accounts to communicate with their stakeholders. Whereas existing studies describe how utility companies are currently using Facebook, to the best of the authors’ knowledge, there exists no study which focuses on the actual expectations of Facebook users. Nevertheless, as the occurrence of social media redefined stakeholders’ expectations, research on the expectations of Facebook users become crucial. Therefore, the purpose of this paper is to contribute to the existing social media literature by investigating the expectations of Facebook users towards a virtual stakeholder dialogue with their public utility companies on Facebook.Design/methodology/approachEight German and six Austrian public utilities supported the empirical study by posting a link to an online survey on their Facebook account. In total, 258 Facebook users followed that link and completed the survey.FindingsThe broad majority of participants expect public utility companies to use Facebook as a communication channel. They request to regularly receive a variety of information on different topics. In addition, participants want to have the opportunity to post general queries, complaints or criticism, suggestions for improvement, positive feedback or queries in a crisis situation. Moreover, the empirical data reveal that user-specific characteristics such as gender, age, country of residence, length of Facebook membership or number of Facebook friends impact the expectations towards a Facebook conversation.Originality/valueThe findings enable scholars and practitioners to gain in-depth insights into Facebook conversations from the actual user perspective.
Interactive Network Branding
Authors: Koporcic Nikolina , Halinen Aino 
Published: June 2018

PurposeThe purpose of this paper is to examine Interactive Network Branding (INB) as an emergent process where the corporate identity and reputation of a small- and medium-sized enterprise (SME) are created through interpersonal interaction. The INB process is socially constructed through interaction between individual people who act on behalf of their companies in business relationships and networks.Design/methodology/approachThe study is conceptual. Drawing on corporate branding literature, IMP research and empirical studies as well as short illustrative cases from SME contexts, the paper provides a conceptual description of INB and its sub-processes. Corporate branding literature offers conceptual understanding of corporate identity and reputation; the recent IMP-based studies offer an overview of current thinking within the paradigm, and the empirical studies and case examples from SMEs show the validity of the interpersonal approach for the INB.FindingsThe paper provides an enhanced understanding of INB in which interpersonal interaction lead to the creation of a corporate brand – as an integral part of the companies’ networking process. Three types of interpersonal interactions are distinguished: internal, external, and boundary spanning, the latter occurring at the borderline of the company and its environment. A process model of INB is proposed that specify the role of various interactions for the emerging process.Research limitations/implicationsSince the paper is conceptual, further research is needed to study the INB process empirically and in more depth in different SME contexts and through differing interaction perspectives.Practical implicationsManagerial implications denote the crucial role of individuals in performing INB. Through interpersonal interactions, SMEs are able to create their identity and reputation, i.e. a strong corporate brand, and thereby to influence their network position.Originality/valueThis paper is one of the first attempts to link the IMP network approach with corporate branding literature, while focusing on the interpersonal interactions. The study builds bridges between these two distant but important research paradigms and contributes to each by developing a process perspective on corporate branding in business networks. This new approach to corporate branding seen through business interactions offers unique conceptual and managerial implications.