bluuebunny/crossref_metadata_2025_split huggingface dataset:
Defining the impact of flavivirus envelope protein glycosylation on sensitivity to broadly neutralizing antibodies
Authors: Contreras Maya , Stuart Jackson B. , Levoir Lisa M. , Belmont Laura , Goo Leslie 
Published: June 2023

ABSTRACTAntibodies targeting the so-called envelope dimer epitope (EDE) cross-neutralize Zika virus (ZIKV) and all four dengue virus (DENV) serotypes and have thus inspired an epitope-focused vaccine design against these flaviviruses. There are two EDE antibody subclasses (EDE1, EDE2) distinguished by their dependence on viral envelope (E) proteinN-linked glycosylation at position N153 (DENV) or N154 (ZIKV) for binding. Here, we determined how E glycosylation affectsneutralizationby EDE and other broadly neutralizing antibodies. Consistent with structural studies, mutations abolishing the N153/N154 glycosylation site increased DENV and ZIKV sensitivity to neutralization by EDE1 antibodies. Surprisingly, these mutations also increased sensitivity to EDE2 antibodies although they occurred at predicted contact sites. Despite preserving the glycosylation site motif (N-X-S/T), substituting the threonine at ZIKV E residue 156 with a serine resulted in loss of glycan occupancy accompanied with increased neutralization sensitivity to EDE antibodies. For DENV, the presence of a serine instead of a threonine at E residue 155 retained glycan occupancy, but nonetheless increased sensitivity to EDE antibodies, in some cases to a similar extent as mutation at N153, which abolishes glycosylation. E glycosylation site mutations also increased ZIKV and DENV sensitivity to other broadly neutralizing antibodies, but had limited effects on ZIKV-or DENV-specific antibodies. Thus, E protein glycosylation is context-dependent and modulates the potency of broadly neutralizing antibodies in a manner not predicted by existing structures. Manipulating E protein glycosylation could be a novel strategy for engineering vaccine antigens to elicit antibodies that broadly neutralize ZIKV and DENV.IMPORTANCEAntibodies that can potently cross-neutralize Zika (ZIKV) and dengue (DENV) viruses are attractive to induce via vaccination to protect against these co-circulating flaviviruses. Structural studies have shown that viral envelope protein glycosylation is important for binding by one class of these so-called broadly neutralizing antibodies, but less is known about the determinants of neutralization. Here, we investigated how envelope protein glycosylation impacts broadly neutralizing antibody potency. By characterizing a panel of ZIKV and DENV variants encoding envelope protein glycosylation site mutations, we found that glycan occupancy was not always predicted by an intact N-X-S/T sequence motif. Moreover, envelope protein glycosylation status alters the neutralization potency of broadly neutralizing antibodies in a manner unexpected from their predicted binding mechanism as determined by existing structures. We highlight the complex role and determinants of envelope protein glycosylation that should be considered in the design of vaccine antigens to elicit broadly neutralizing antibodies.
GRAS1 non-coding RNA protects against DNA damage and cell death by binding and stabilizing NKAP
Authors: Su Tong , Trang Nhu , Zhu Jonathan , Kong Lingbo , Cheung Darin , Chou Vita , Ellis Lauren , Huang Calvin , Camden Nichelle , McHugh Colleen A. 
Published: June 2023

AbstractNon-coding RNA (ncRNA) gene products are involved in diverse biological processes including splicing, epigenetic regulation, gene expression, proliferation, and metabolism. The biological mechanisms by which ncRNAs contribute to cell survival remain poorly understood. We found that the Growth Regulator Antisense 1 (GRAS1) long non-coding RNA (lncRNA) transcript promotes growth in multiple human cell types by protecting against DNA damage. Knockdown of GRAS1 induced DNA damage and cell death, along with significant expression changes in DNA damage response, intrinsic apoptotic signaling, and cellular response to environmental stimulus genes. Extensive DNA damage occurred after GRAS1 knockdown, with numerous double strand breaks occurring in each cell. The number of cells undergoing apoptosis and with fragmented nuclei increased significantly after GRAS1 knockdown. We used RNA antisense purification and mass spectrometry (RAP-MS) to identify the NF-κB activating protein (NKAP) as a direct protein interaction partner of GRAS1 lncRNA. NKAP protein was degraded after GRAS1 knockdown, in a proteasome-dependent manner. Overexpression of GRAS1 or NKAP mitigated the DNA damage effects of GRAS1 knockdown. In summary, GRAS1 and NKAP directly interact to protect against DNA damage and cell death in multiple human cell lines.
Functionalized graphene-oxide grids enable high-resolution cryo-EM structures of the SNF2h-nucleosome complex without crosslinking
Authors: Chio Un Seng , Palovcak Eugene , Autzen Anton A. A. , Autzen Henriette E. , Muñoz Elise N. , Yu Zanlin , Wang Feng , Agard David A. , Armache Jean-Paul , Narlikar Geeta J. , Cheng Yifan 
Published: June 2023

AbstractSingle-particle cryo-EM is widely used to determine enzyme-nucleosome complex structures. However, cryo-EM sample preparation remains challenging and inconsistent due to complex denaturation at the air-water interface (AWI). To address this issue, we developed graphene-oxide-coated EM grids functionalized with either single-stranded DNA (ssDNA) or thiol-poly(acrylic acid-co-styrene) (TAASTY) co-polymer. These grids protect complexes between the chromatin remodeler SNF2h and nucleosomes from the AWI and facilitated collection of high-quality micrographs of intact SNF2h-nucleosome complexes in the absence of crosslinking. The data yields maps ranging from 2.3 to 3 Å in resolution. 3D variability analysis reveals nucleotide-state linked conformational changes in SNF2h bound to a nucleosome. In addition, the analysis provides structural evidence for asymmetric coordination between two SNF2h protomers acting on the same nucleosome. We envision these grids will enable similar detailed structural analyses for other enzyme-nucleosome complexes and possibly other protein-nucleic acid complexes in general.
Machine learning regression for estimating the cost range of building projects
Authors: Gurmu Argaw , Miri Mani Pourdadash 
Published: June 2023

Purpose
Several factors influence the costs of buildings. Thus, identifying the cost significant factors can assist to improve the accuracy of project cost forecasts during the planning phase. This paper aims to identify the cost significant parameters and explore the potential for improving the accuracy of cost forecasts for buildings using machine learning techniques and large data sets.

Design/methodology/approach
The Australian State of Victoria Building Authority data sets, which comprise various parameters such as cost of the buildings, materials used, gross floor areas (GFA) and type of buildings, have been used. Five different machine learning regression models, such as decision tree, linear regression, random forest, gradient boosting and k-nearest neighbor were used.

Findings
The findings of the study showed that among the chosen models, linear regression provided the worst outcome (r2 = 0.38) while decision tree (r2 = 0.66) and gradient boosting (r2 = 0.62) provided the best outcome. Among the analyzed features, the class of buildings explained about 34% of the variations, followed by GFA and walls, which both accounted for 26% of the variations.

Originality/value
The output of this research can provide important information regarding the factors that have major impacts on the costs of buildings in the Australian construction industry. The study revealed that the cost of buildings is highly influenced by their classes.
Is ethical human resource management effective for ethical voice? Role of moral efficacy and moral task complexity
Authors: Chen Silu , Liu Wenxing , Zhang Guanglei , Tian Chenling 
Published: June 2023

PurposeThe purpose of this study was to examine the underlying mechanism as well as the boundary effect between employees' perceived ethical human resource management (HRM) and ethical voice based on social cognitive theory. The authors expect that employees who perceive ethical HRM could develop their moral reasoning and conduct through one of the cognitive processes (i.e. vicarious experience).Design/methodology/approachBased on structural equation modelling and hierarchical regression analysis, the authors conducted a questionnaire survey on 265 employees and their immediate supervisors from a manufacturing company in China.FindingsEmployees' perceived ethical HRM was positively related to ethical voice, and moral efficacy mediated this relationship. Moral task complexity not only moderated the relationship between employees' perceived ethical HRM and moral efficacy but also moderated the indirect effect of employees' perceived ethical HRM on ethical voice such that the impact was stronger when the moral task complexity level is higher and weaker when low.Practical implicationsThis research model provides a framework through which organisations can diagnose potential ethical issues with the implementation of ethical HRM, as well as increase employee awareness of ethical values and then enhance their moral efficacy. Moreover, organisations can benefit from combining interventions and practices that influence the task design.Originality/valueThis study fills research gap by examining the mechanisms that shape employees' ethical voice from the perspective of HRM through moral efficacy and demonstrates that higher levels of moral task complexity contribute to higher levels of moral efficacy and ethical voice.
Labour protection, social security contributions and corporate innovation: evidence from China
Authors: Wang Yuanfang , Tian He , Xu Yekun 
Published: June 2023

PurposeAs China shifts from a “human capital demographic dividend” to a “demographic dividend” as a source of economic growth, this paper examines the influence of social security system improvement on enterprises efforts to attract talent and enhance innovation ability.Design/methodology/approachThis study uses a sample of Chinese listed firms from 2008 to 2019 to analyse the influences of social security contributions on enterprise innovation, and the mediating effect of human capital accumulation. The OLS, DID test, placebo test, 2SLS are used to test the research questions.FindingsThe authors find a significant positive correlation between social security contributions and enterprise innovation because social security contributions improve the accumulation of human capital, helping enterprises to attract talent, which in turn has a positive impact on corporate innovation. The positive correlation between social security contributions and enterprise innovation is more significant in private enterprises, STAR Market and GEM listed companies and labour-intensive enterprises.Practical implicationsThese findings provide a theoretical basis for the formulation of relevant policies and the current reform of social security collection in China. The findings also have practical significance for the sustainable development of China's economy given its ageing population.Originality/valueThis study provides a new perspective, that is, from the perspective of human capital accumulation, to discuss the impact of social security contributions on enterprise innovation, and enriches the relevant literature on the economic consequences of social security contributions and the influencing factors of corporate innovation.
The role of restrictive covenants in Moody's and standard and Poor's debenture credit ratings
Authors: Simpson Marc , Grossmann Axel 
Published: June 2023

PurposeTo determine the effect that covenants have on the credit ratings assigned by the two major agencies.Design/methodology/approachThe authors examine 1,822 bond issues from 1991 to 2018, with a two-stage methodology to account for the endogeneity of the firms' choices and the ordinal nature of the ratings. The authors use Hendry's model selection method to find the best-fitting models from 37 control variables; the final models feature 20–24 orthogonalized variables, all significant at 5% and most at 1%.FindingsThe study’s results suggest that restrictive covenants positively affect ratings, particularly for bonds on the border of junk and investment grade. However, this effect appears to be decreasing with time, suggesting the financial crisis of 2008 has impacted ratings. Additionally, divergent covenant treatment leads to split ratings where the two agencies assign different levels of ratings on the same bonds. The study’s findings provide key insights into the factors that differentiate ratings given by each agency.Practical implicationsManagers must balance the perceived benefits of covenants against the costs, included lower credit ratings.Originality/valueNo other study has examined this issue controlling for both the ordinal nature of the ratings and the endogeneity in the decision to include specific covenants.
Earnings management in European real estate firms during crisis periods
Authors: Brannan Håkon Bergseng , Pjaaka Christian , Oust Are , Sønstebø Ole Jakob 
Published: June 2023

PurposeIn periods of economic distress, expectations for businesses change and there is a heightened need for reporting quality. This study investigates the impact of crises on earnings management in the real estate sector.Design/methodology/approachThe data consisted of financial statements from 2005 to 2021 from real estate firms listed on 10 European stock exchanges. Estimated discretionary accruals from four standard accruals models were used as a proxy for earnings management, using cross-sectional industry and firm fixed effects models. The authors examined earnings management during three crises: the financial crisis (2008–2009), the debt crisis (2011–2012) and the COVID-19 pandemic (2020–2021).FindingsThe results showed less earnings management during the COVID-19 crisis and more earnings management during the financial crisis, though with slightly weaker evidence. The authors did not find significant evidence of earnings management related to the debt crisis. These results suggest that stakeholders in the real estate sector should be extra vigilant in crisis periods.Originality/valueThis study is the first to investigate earnings management in European real estate firms, focusing on the impact of crises.
Organizational sustainability and TQM practices in hospitality industry: employee-employer perception
Authors: Olaleye Banji Rildwan , Abdurrashid Ibrahim , Mustapha Bojuwon 
Published: June 2023

PurposePractitioners and academics have recently put a lot of emphasis on studying and improving how likely an organization will be successful in the long run. A company's capacity to thrive, excel and gain a competitive edge in today's market is increasingly dependent on the company's ability to adopt and successfully execute sustainable practices. The aim of this paper is to take a critical look at the relationship between total quality management (TQM) practices and business sustainability in the hospitality industry, with a focus on the hospitality sector; to evaluate the role of perceived organizational support (POS) and sustainable behavior in promoting long-term success and to make some suggestions for how these practices could be put into place.Design/methodology/approachThe data used were randomly collected from 361 hotel employees, covering both the five-star and four-star hotels. Descriptive and inferential statistics were employed to analyze the data. With the use of partial least squares structural equation modeling (PLS-SEM), the heuristic model was tested.FindingsThe results show that putting TQM practices into place leads to better company performance, higher productivity and steady growth for the business. In addition, empirical studies show that the link between sustainable behavior in TQM implementation and a sustainable company is strong, especially when coming to better governance and sustainability related to employees.Research limitations/implicationsThis paper offers guidelines for gauging employee's opinions of an organization's long-term viability. A two-factor model has been used to measure the sustainability of an organization and possible factors that can aid effective implementation of TQM practices have been suggested.Originality/valueThere is increasing recognition of the organizational support for successful TQM implementation, while yearning toward sustainability. Within the context of the hospitality industry, no previous research has empirically examined the synergistic moderating effect of POS and sustainable behavior on the relationship between TQM and sustainability.
Huoxue Jiedu Recipe represses mitochondrial fission to alleviate submandibular gland inflammation in Sjögren's syndrome
Authors: Xu Jiangxi , Shen Zhengdong , Du Yun , Zhang Shai , Xi Yajing , Zhang Yuting , Wang Dan , Zhu Yuelan 
Published: June 2023

AbstractSjögren's syndrome (SS) is the second most common autoimmune rheumatism. Huoxue Jiedu Recipe (HXJDR) is a kind of traditional Chinese medicine with a variety of pharmacological functions; however, its biological function in SS has not been studied yet. Peripheral blood mononuclear cells (PBMCs) and serum samples were isolated from healthy controls and patients with SS. NOD/Ltj mice were used for developing the SS mouse model. The levels of inflammatory cytokines and NOD‐like receptor family pyrin domain containing 3 (NLRP3) inflammasome–related markers as well as dynamin‐related protein 1 (Drp1) were determined by ELISA, quantitative real‐time PCR, and western blot analysis, respectively. Hematoxylin and eosin and TUNEL staining detected the pathological damage. A transmission electron microscope was used to observe the mitochondrial microstructure. Inflammatory cytokines IL‐18, IL‐1β, B‐cell activating factor (BAFF), BAFF‐receptor (BAFF‐R), IL‐6, and TNF‐α in serum samples and NLRP3 inflammasome–related makers (NLRP3, cysteinyl aspartate–specific proteinase 1 [caspase‐1], apoptosis‐associated speck‐like protein containing a caspase‐1 recruitment domain [ASC], IL‐1β) in PBMCs were greatly upregulated in patients with SS. Furthermore, cytoplasmic phosphorylation of Drp1 and mitochondrial Drp1 level were significantly increased in PBMCs, while mitochondrial swelling and fuzzy inner ridge were observed in PBMCs of patients with SS, suggesting increased mitochondrial fission. Compared with control mice, SS mice showed decreased salivary flow rate, increased submandibular gland index, and more severe inflammatory infiltration and damage as well as mitochondrial fission in submandibular gland tissues. After HXJDR administration, these effects were significantly reversed. HXJDR treatment could alleviate the inflammatory infiltration and pathological damage in submandibular glands of SS mice by inhibiting Drp‐1–dependent mitochondrial fission.
Small‐scale habitat complexity preserves ecosystem services on coral reefs
Authors: Beese Chelsey M. , Mumby Peter J. , Rogers Alice 
Published: June 2023

Abstract

Coral reef habitat quality is declining in many locations because of heatwaves (coral bleaching) and other disturbances. Reef‐building corals provide refuge from predation, so declining complexity restricts the transfer of energy to upper trophic levels.

We use a size‐based ecosystem model to test systematically the effects of refuge at specific sizes and the impacts of distributions of refuges that vary in size. Outcomes are assessed in terms of ecosystem service provision.

Simulations indicate that refuge sheltering fish between 5 and 10 cm in length enhances fish biomass and fisheries productivity, for example, increasing herbivore biomass by up to 80%.

We identify and present a range of refuge profiles that can theoretically improve ecosystem service provision by as much as sixfold. Profiles where refuge availability decreases with increasing fish size consistently outrank other designs.

Synthesis and application: These results highlight how critical small‐scale refuge is for coral reefs, and how we might design artificial reefs to maximise service provision.
Your phrases matter: Third waves in research approaches and new contexts for formulaic language
Authors: Davis Boyd H. , Troutman‐Jordan Meredith , Maclagan Margaret 
Published: June 2023

AbstractBackgroundThis study reports on new contexts in which formulaic language has been used in the years since 2013 when the last synthesis was carried out. The background presents an old but still useful definition and lists themes under which research was arranged in 2013 and which continue to be used.AimsThis study has a particular emphasis on the relevance of formulaic language to people living with dementia.MethodsSection 3, identifying new directions, reviews new ‘third waves’ of research priorities in several fields in which formulaic sequences play a major role, including sociolinguistic variation, corpus‐based and corpus‐driven analyses, pragmatics, human‐computer interaction, and psycholinguistics, all of which are relevant to speech‐language therapists. Section 4, outreach and expansions, illustrates new contributions from cognitively impaired person‐to‐person exchanges in online environments, recent examinations of infant‐ and pet‐directed speech incorporating formulaic language, and online graphic explorations such as emojis. Section 5 focuses on growth of research in theoretical and clinical applications by Van Lancker Sidtis, as illustrated by references to her recent work.Main ContributionThe paper's main contribution is to summarize the work on formulaic language over the last 10 years, to indicate its continued importance and relevance in ordinary conversation, and especially in allowing people living with dementia to continue to interact with others.ConclusionThe paper concludes by suggesting that more focus be placed on the analysis of formulaic language with an emphasis on its relevance for speech‐language therapists and other clinicians.WHAT THIS PAPER ADDSWhat is already known on the subject
Research has been growing since the late 1970s and early 1980s on non‐propositional language (as opposed at that time to the Chomskyan paradigm) and especially on lexical bundles, idioms, second language acquisition and multiword expressions. Studies beginning with Hughlings Jackson (1874) have been annotated through early 2012 (Wray, 2013).What this study adds
This study examines ‘third waves’ in pragmatics, sociolinguistics and areas of neurology and speech perception contributing to what Van Lancker Sidtis (2021) calls the third wave of acceptance of the range and depth of formulaic sequences in ordinary or familiar language.What are the clinical implications of this work?
Conversations with pet robots or web‐based composition with emojis are but two of the developing areas built on formulaic sequences currently being used for communication interventions with persons living with dementia or other major neurocognitive disorder. Overviews of major contributions in theory and social contexts by Wray (2020, 2021) and theoretical and cognitive applications by Van Lancker Sidtis (2021) detail new areas for the study of formulaic sequences and their contributions to a range of neurocognitive disorders.