bluuebunny/crossref_metadata_2025_split huggingface dataset:
The evolution and structure of snake venom phosphodiesterase (svPDE) highlight its importance in venom actions
Authors: Pan Cheng-Tsung , Lin Chien-Chu , Lin I-Jin , Chien Kun-Yi , Lin Yeong-Shin , Chang Hsiao-Han , Wu Wen-Guey 
Published: November 2022

AbstractFor decades, studies of snake venoms focused on the venom-ome-specific toxins (VSTs). VSTs are dominant soluble proteins believed to contribute to the main venomous effects and emerged into gene clusters for fast adaptation and diversification of snake venoms. However, the conserved minor venom components, such as snake venom phosphodiesterase (svPDE), remain largely unexplored. Here, we focus on svPDE by genomic and transcriptomic analysis across snake clades and demonstrate that soluble svPDE is co-opted from the ancestral membrane-attached ENPP3 (ectonucleotide pyrophosphatase/phosphodiesterase 3) gene by replacing the original 5’ exon with the exon encoding a signal peptide. Notably, the exons, promoters and transcription/translation starts have been replaced multiple times during snake evolution, suggesting the evolutionary necessity of svPDE. The structural and biochemical analyses also show that svPDE shares the similar functions with ENPP family, suggesting its perturbation to the purinergic signaling and insulin transduction in venomous effects.Significance StatementWe provided a case of the evolutionary co-option strategy in which the secretory svPDE, one of the minor venom components, is generated from the ancestral membrane-anchored ENPP3 gene by using an alternative 5’ exon. The first exon of the svPDE transcript encodes a signal peptide instead of the transmembrane domain of the ENPP3. Multiple replacement events of genomic elements during snake evolution maintain the expression of the svPDE transcripts, suggesting the crucial function of svPDE. Also, the structures and biochemical analyses indicate that svPDE reuse the original functions of ENPP3 in the bitten tissues and may interfere with normal cell signaling. Together, our study reveals the evolution of svPDE and suggests the importance of minor venom components.
Shear and hydrostatic stress regulate fetal heart valve remodeling through YAP-mediated mechanotransduction
Authors: Wang Mingkun , Lin Belle Yanyu , Sun Shuofei , Dai Charles , Long FeiFei , Butcher Jonathan T. 
Published: November 2022

AbstractClinically serious congenital heart valve defects arise from improper growth and remodeling of endocardial cushions into leaflets. Genetic mutations have been extensively studied but explain less than 20% of cases. Mechanical forces generated by beating hearts drive valve development, but how these forces collectively determine valve growth and remodeling remains incompletely understood. Here we decouple the influence of those forces on valve size and shape, and study the role of YAP pathway in determining the size and shape. The low oscillatory shear stress promotes YAP nuclear translocation in valvular endothelial cells (VEC), while the high unidirectional shear stress restricts YAP in cytoplasm. The hydrostatic compressive stress activated YAP in valvular interstitial cells (VIC), whereas the tensile stress deactivated YAP. YAP activation by small molecules promoted VIC proliferation and increased valve size. YAP inhibition suppressed the VIC proliferation and reduced valve size, but enhanced cell-cell adhesions between VEC thus maintaining an elongated shape. Finally, left atrial ligation was performed in chick embryonic hearts to manipulate the shear and hydrostatic stress in-vivo. The restricted flow in the left ventricle induced a globular and hypoplastic left atrioventricular (AV) valves with an inhibited YAP expression. By contrast, the right AV valves with sustained YAP expression grew and elongated normally. This study establishes a simple yet elegant mechanobiological system by which transduction of local stresses regulates valve growth and remodeling. This system guides leaflets to grow into proper sizes and shapes with the ventricular development, without the need of a genetically prescribed timing mechanism.Abstract Figure
Copy number footprints of platinum-based anticancer therapies
Authors: Gonzalez Santiago , Lopez-Bigas Nuria , Gonzalez-Perez Abel 
Published: November 2022

AbstractRecently, distinct mutational footprints observed in metastatic tumors, secondary malignancies and normal human tissues have been demonstrated to be caused by the exposure to several chemotherapeutic drugs. These characteristic mutations originate from specific lesions caused by these chemicals to the DNA of exposed cells. However, it is unknown whether the exposure to these chemotherapies leads to a specific footprint of larger chromosomal aberrations. Here, we address this question exploiting whole genome sequencing data of metastatic tumors obtained from patients exposed to different chemotherapeutic drugs. As a result, we discovered a specific copy number footprint across tumors from patients previously exposed to platinum-based therapies. This footprint is characterized by a significant increase in the number of chromosomal fragments of copy number 1-4 and size smaller than 10 Mb in exposed tumors with respect to their unexposed counterparts (median 14-387% greater across tumor types). The number of chromosomal fragments characteristic of the platinum-associated CN footprint increases significantly with the activity of the well known platinum-related footprint of single nucleotide variants across exposed tumors.
The increase of counterproductive work behaviour from organizational and individual level due to workplace conflict: a sequential moderated mediation model
Authors: Deng Jianwei , Hao Xueting , Yang Tianan 
Published: November 2022

Purpose
Based on affective events theory (AET), this study aims to construct a moderated sequential mediation model to explore the pathways of organizational climate on workplace conflict and subsequent counterproductive work behaviour (CWB).

Design/methodology/approach
This study collected data from 1,035 respondents in a large state-owned enterprise located in Beijing, China. And this study used Mplus 8.3 to test the model fit, then tested the eight hypotheses using Mplus 8.3 to verify the mediating effects of workplace conflict and psychological well-being and the moderating effect of emotional stability.

Findings
Results indicated that: organizational climate is more likely to produce individual-oriented CWB (CWB-I) under the mediating effect of workplace conflict and the chain mediation of workplace conflict and psychological well-being, and emotional stability moderates the relationship between workplace conflict and psychological well-being, workplace conflict and CWB-I, but it has no moderating effect on the relationship between workplace conflict and organizational-oriented CWB (CWB-O).

Originality/value
This study puts forward a relatively complete theoretical framework, expands the application scope of AET and sheds new light on the intervening process that explains how organizational climate influences CWB-I and CWB-O, which enriches the literature in the two fields.
Customized production based on trusted 3D printing services in the cloud context
Authors: Algunaid Khalil Mustafa Abdulkarem , Liu Jichang 
Published: November 2022

PurposeThis study aims to develop a system framework to organise, manage and evaluate 3D printing (3DP) services in the cloud and help users select the best service according to application requirements.Design/methodology/approachUsers can personalise their 3DP services based on their application requirements. The user is supplied with the performance capabilities and trust of all possible services. If the user is unable to select a service directly from the list of possible 3DP services, he/she can assign preference values for the application requirements to make a trade-off between the performance capabilities of services provided in terms of response time, manufacturing capabilities, lead time, cost and data integrity. After obtaining the finished product, the performance trust of the selected service are modified based on consumer feedback regarding their satisfaction. The accumulated input of a service's users is used to dynamically update its performance trust and is offered to new customers as a guide.FindingsAn industry case study is applied to verify the proposed methodology. The systematic order of the system framework demonstrated its efficiency in customising production based on trusted 3DP service providers.Originality/valueThe system upgraded the conventional 3DP service evaluation and selection approach. It considers the evaluation criteria of 3DP resources and the trust of service performance in the cloud context. The system favours 3DP cloud service providers. A registry tool is proposed to allow 3DP service providers to comprehensively define their services. By implementing a trust evaluation approach, 3DP service providers' trust are regularly updated based on their historical performances. In addition, a punishment mechanism is designed to motivate service providers to publish their true performance capabilities, therefore promoting a competitive environment and resulting in more reliable services.
Bird extinctions threaten to cause disproportionate reductions of functional diversity and uniqueness
Authors: Ali Jarome R. , Blonder Benjamin W. , Pigot Alex L. , Tobias Joseph A. 
Published: November 2022

Abstract

Human activities are driving rapid defaunation of Earth's ecosystems through increasing rates of extinction. However, the ecological consequences of species loss remain unclear, in part due to the limited availability of high‐resolution functional trait data.

To address this, we assess how predicted extinctions will reshape avian functional diversity quantified using a multidimensional trait space, or morphospace, reflecting variation in eight key morphological traits closely linked to ecological function across 9943 (>99%) extant bird species.

We show that large regions of this morphospace are represented by very few species and, thus, vulnerable to species loss. We also find evidence that species at highest risk of extinction are both larger and functionally unique in terms of ecological trait dimensions unrelated to size, such as beak shape and wing shape.

Although raw patterns suggest a positive relationship between extinction risk and functional uniqueness, this is removed when accounting for phylogeny and body mass, indicating a dominant role for clade‐specific factors, including the combination of larger average body size and higher extinction risk in the non‐passerine clade.

Regardless of how a threat is related to uniqueness, we show using simulations that the loss of currently threatened bird species would result in a greater loss of morphological diversity than expected under random extinctions.

Our results suggest that ongoing declines of threatened bird species may drive a disproportionately large loss of morphological diversity, with potentially major consequences for ecosystem functioning.

Read the free Plain Language Summary for this article on the Journal blog.
Neuroprotective effects of a lead compound from coral via modulation of the orphan nuclear receptor Nurr1
Authors: Su Jian‐Wei , Yang Pei , Xing Mei‐Mei , Chen Bao , Xie Xia‐Hong , Ding Jian‐Hua , Lu Ming , Liu Yang , Guo Yue‐Wei , Hu Gang 
Published: November 2022

AbstractAimsTo screen coral‐derived compounds with neuroprotective activity and clarify the potential mechanism of lead compounds.MethodsThe lead compounds with neuroprotective effects were screened by H2O2 and 1‐methyl‐4‐phenyl‐1,2,3,6‐tetrahydropyridine (MPP+)‐induced cell damage models in SH‐SY5Y cells. CCK8 and LDH assays were used to detect cell viability. The anti‐apoptosis of lead compounds was evaluated by flow cytometry. JC‐1 and MitoSox assays were performed to examine the changes in mitochondrial membrane potential and mitochondrial ROS level. Survival of primary cortical and dopaminergic midbrain neurons was measured by MAP2 and TH immunoreactivities. The Caenorhabditis elegans (C. elegans) model was established to determine the effect of lead compounds on dopaminergic neurons and behavior changes.ResultsThree compounds (No. 63, 68, and 74), derived from marine corals, could markedly alleviate the cell damage and notably reverse the loss of worm dopaminergic neurons. Further investigation indicated that compound 63 could promote the expression of Nurr1 and inhibit neuronal apoptosis signaling pathways.ConclusionLead compounds from marine corals exerted significant neuroprotective effects， which indicated that coral might be a new and potential resource for screening and isolating novel natural compounds with neuroprotective effects. Furthermore, this study also provided a new strategy for the clinical treatment of neurodegenerative diseases such as Parkinson's disease.
Variability of phosphorus sorption properties in hydromorphic soils: Consequences for P losses in agricultural landscapes
Authors: Couic Ewan , Gruau Gérard , Gu Sen , Casquin Antoine 
Published: November 2022

AbstractIncreasing concerns over water eutrophication due to agricultural phosphorus (P) loss have led to the development of indicators to assess the risk of P release from agricultural soils. Recently, a logarithmic equation linking the degree of phosphorus saturation (DPS) to the simple water‐soluble P (WSP) content of soils has been proposed as a universal method to assess this risk based, however, mainly on the analysis of well‐drained soils. Here, we studied the P sorption properties and DPS values of 69 hydromorphic soils from cultivated and uncultivated wetland zones located in Brittany, Western France, to test whether the method could also apply to poorly‐drained soils. The bulk soil analysis showed that P contents of the studied hydromorphic soils were 30% to 80% higher than P contents normally found in Brittany soils, evidencing a possible P enrichment process. Adsorption isotherms revealed a surprisingly high variability in the P sorption properties as a function of the location of the soil (maximum P adsorption capacity ranging from 500 to 1850 mg kg−1), which is caused by variations in the phases controlling P sorption in soil (from clay to organic matter and/or iron and aluminium oxides, depending on the soil location). Distinct relationships between DPS and WSP values were also obtained depending on the location of the soils. The obtained DPS versus WSP relationships showed that the P saturation threshold above which the risk of dissolved P release increases markedly is 30% lower on average for hydromorphic soils than for well‐drained soils. Hydromorphic soils appear to be more at risk of releasing dissolved P at the same DPS values than well‐drained soils. The present study indicates an underestimation of the P release risk from hydromorphic soils by the existing method developed for well‐drained soils and calls for the development of specific risk assessment tools for hydromorphic soils, especially given on the strong spatial heterogeneity of their P sorption properties.Highlights
Wetlands soils in western France show high variability in their phosphorus properties.
There is a high‐risk of dissolved P losses from wetland soils to watercourses.
The risk can remain high even in soils that are currently not cultivated
Degree of phosphorus saturation method to assess dissolved P release risk could underestimate it.
“It's wicked hard to fight covert racism”: The case of microaggressions in science research organizations
Authors: Salmon Udeni 
Published: November 2022

AbstractThe intersection of race and gender discrimination has resulted in the pervasive under‐representation of women of color (WOC) in science careers, with research identifying that microaggressions are a key contributory factor to the imbalance. This study aims to compare individual experiences of microassaults, microinsults, and microinvalidations with institutional responses, thereby outlining the disconnects between the perspectives of minoritized scientists and those in positions of power. This paper draws on a constructivist paradigm to compare the experiences of women of color scientists with organizational representatives through 31 interviews conducted in science research organizations in the United Kingdom. The results find that organizational understandings of microaggressions differ substantially from those of WOC scientists. Furthermore, organizational responses favor policy‐based solutions that fail to address the slippery and deniable nature of microaggressions. The paper concludes that, contrary to the more prevalent popular diversity initiatives, a greater belief in the testimony of WOC scientists amplified by institutional responses that empower their identity as scientists would be more effective strategies to reduce the sense of shame and isolation caused by subtle forms of discrimination.
Application of Orem's theory‐based caring programs among chronically ill adults: A systematic review and dose–response meta‐analysis
Authors: Nasiri Morteza , Jafari Zohre , Rakhshan Mahnaz , Yarahmadi Fatemeh , Zonoori Sahar , Akbari Fakhridokht , Sadeghi Moghimi Elham , Amirmohseni Leila , Abbasi Mohammad , Keyvanloo Sharstanaki Sahar , Rezaei Masoud 
Published: November 2022

AbstractAimThis study aimed to clarify the value of caring programs developed according to Orem's Self‐Care Deficit Nursing Theory regarding quality of life and self‐care as the primary outcomes and self‐efficacy, anxiety, depression, and stress as the secondary outcomes among individuals aged 18–70 years with chronic diseases.BackgroundChronically ill patients need to receive appropriate self‐care training, counseling, and support. In this regard, the use of caring programs developed based on theories is highly suggested. Orem's Nursing Theory is the most well‐known theory that provides a structure to involve patients in their self‐care activities.IntroductionOrem's Nursing Theory has been increasingly applied to guide practice for patients with chronic health conditions. However, recent trials have reported conflicting findings on the value of its application.MethodsEight information sources (e.g., Web of Science Core Collection, PubMed, and Scopus) and the International Clinical Trials Registry Platform were searched up to 30 March 2022.ResultsA total of 46 studies and 11 study register entries were eligible. Orem's theory‐based interventions significantly improved the quality of life, self‐care, and self‐efficacy as well as significantly reduced anxiety and depression. However, the value of the interventions on stress was uncertain, as performing the meta‐analysis was not possible.DiscussionOrem's Nursing Theory can help nurses in different fields to dynamically and carefully evaluate patients’ self‐care ability and implement appropriate nursing measures tailored to their needs, interests, and problems. Considering the inconsistent evidence to support the empirical adequacy of this theory, high‐quality reviews are essential.ConclusionOrem's theory‐based programs had a favorable effect on taking care of adults with chronic diseases.ImplicationsThis study augments the previous reviews related to the applicability of Orem's Nursing Theory. Considering the undesirable evidence quality and the high between‐study heterogeneity, further well‐designed trials are required to draw an evidence‐based conclusion.
Annual Research Review: The impact of Covid‐19 on psychopathology in children and young people worldwide: systematic review of studies with pre‐ and within‐pandemic data
Authors: Newlove‐Delgado Tamsin , Russell Abigail Emma , Mathews Frances , Cross Lauren , Bryant Eleanor , Gudka Rebecca , Ukoumunne Obioha C. , Ford Tamsin J. 
Published: November 2022

BackgroundThe high volume and pace of research has posed challenges to researchers, policymakers and practitioners wanting to understand the overall impact of the pandemic on children and young people's mental health. We aimed to search for and review the evidence from epidemiological studies to answer the question: how has mental health changed in the general population of children and young people?MethodsFour databases (Medline, CINAHL, EMBASE and PsychINFO) were searched in October 2021, with searches updated in February 2022. We aimed to identify studies of children or adolescents with a mean age of 18 years or younger at baseline, that reported change on a validated mental health measure from prepandemic to during the pandemic. Abstracts and full texts were double‐screened against inclusion criteria and quality assessed using a risk of bias tool. Studies were narratively synthesised, and meta‐analyses were performed where studies were sufficiently similar.Results6917 records were identified, and 51 studies included in the review. Only four studies had a rating of high quality. Studies were highly diverse in terms of design, setting, timing in relation to the pandemic, population, length of follow‐up and choice of measure. Methodological heterogeneity limited the potential to conduct meta‐analyses across studies. Whilst the evidence suggested a slight deterioration on some measures, overall, the findings were mixed, with no clear pattern emerging.ConclusionsOur findings highlight the need for a more harmonised approach to research in this field. Despite the sometimes‐inconsistent results of our included studies, the evidence supports existing concerns about the impact of Covid‐19 on children's mental health and on services for this group, given that even small changes can have a significant impact on provision at population level. Children and young people must be prioritised in pandemic recovery, and explicitly considered in planning for any future pandemic response.
Postoperative delirium after transcatheter aortic valve replacement: An updated systematic review and meta‐analysis
Authors: Ma Xiaoteng , Chu Huijun , Han Kangning , Shao Qiaoyu , Yu Yi , Jia Shuo , Wang Dunliang , Wang Zhijian , Zhou Yujie 
Published: November 2022

AbstractAimsTo perform an updated systematic review and meta‐analysis of postoperative delirium (POD) after transcatheter aortic valve replacement (TAVR).MethodsWe conducted a systematic literature search of PubMed, Embase, and Cochrane Library databases from the time of the first human TAVR procedure in 2002 until December 24, 2021, which was supplemented by manual searches of bibliographies. Data were collected on incidence rates, risk factors, and/or associated mortality of POD after TAVR. Pooled analyses were conducted using random effects models to yield mean differences, odds ratios, hazard ratios, and risk ratios, with 95% confidence intervals.ResultsA total of 70 articles (69 studies) comprising 413,389 patients were included. The study heterogeneity was substantial. The pooled mean incidence of POD after TAVR in all included studies was 9.8% (95% CI: 8.7%–11.0%), whereas that in studies using validated tools to assess for delirium at least once a day for at least 2 consecutive days after TAVR was 20.7% (95% CI: 17.8%–23.7%). According to the level of evidence and results of meta‐analysis, independent preoperative risk factors with a high level of evidence included increased age, male sex, prior stroke or transient ischemic attack, atrial fibrillation/flutter, weight loss, electrolyte abnormality, and impaired Instrumental Activities of Daily Living; intraoperative risk factors included non‐transfemoral access and general anesthesia; and acute kidney injury was a postoperative risk factor. POD after TAVR was associated with significantly increased mortality (pooled unadjusted RR: 2.20, 95% CI: 1.79–2.71; pooled adjusted RR: 1.62, 95% CI: 1.25–2.10), particularly long‐term mortality (pooled unadjusted HR: 2.84, 95% CI: 1.91–4.23; pooled adjusted HR: 1.88, 95% CI: 1.30–2.73).ConclusionsPOD after TAVR is common and is associated with an increased risk of mortality. Accurate identification of risk factors for POD after TAVR and implementation of preventive measures are critical to improve prognosis.