bluuebunny/crossref_metadata_2025_split huggingface dataset:
Physical Realism of Simulation Training for Health Care in Low- and Middle-Income Countries—A Systematic Review
Authors: Issa Moussa , Furia Francis , Whaiba Abdallah , Meaney Peter A. , Shilkofski Nicole , Donoghue Aaron , Lockey Andrew ,   on behalf of the Society for Simulation in Healthcare
Published: January 2024

Abstract
This systematic review was conducted, according to PRISMA standards, to examine the impact of the level of physical realism of simulation training on clinical, educational, and procedural outcomes in low- and middle-income countries (LMICs) as defined by the World Bank. A search from January 1, 2011 to January 24, 2023 identified 2311 studies that met the inclusion criteria including 9 randomized (n = 627) and 2 case-controlled studies (n = 159). Due to the high risk of bias and inconsistency, the certainty of evidence was very low, and heterogeneity prevented any metaanalysis. We observed limited evidence for desirable effects in participant satisfaction and confidence, but no significant difference in skills acquisition and performance in the clinical practice environment. When considering the equivocal evidence and cost implications, we recommend the use of lower physical realism simulation training in LMIC settings. It is important to standardize outcomes and conduct more studies in lower income settings.
Isometric Yoga-Like Maneuvers Improve Adult Scoliosis
Authors: Fishman Loren M. 
Published: January 2024

Goal:
Assess therapeutic value of yoga for thoracic, lumbar, and thoracolumbar adult scoliosis, taught in office or via the internet in this nonrandomized control study.

Study Design:
One hundred thirty-three adults were recruited from our metropolitan clinic; 100 did the recommended poses (mean age: 63.1 years; SD: 14.7), the treatment group, and 26 did not (mean age: 64.5; SD: 12.7), the control group. Seven were lost to follow-up. One hundred two patients were treated in office, 24 over the internet. Curve change was evaluated and serial Cobb angles read by blinded radiologists and analyzed using Mann-Whitney U, paired t tests and χ2 test.

Results:
During the trial period, mean lumbar and thoracolumbar Cobb angle decreased from 37.5° (95% confidence interval [CI], 23.0-56.7) to 30.0° (95% CI, 15.2-39.8) in the treatment group and increased from 23.5° (95% CI, 19.4-37.0) to 26.0° (95% CI, 20.2-40.0) in the control group. One treatment group and 3 control group patients worsened 1 category in their curves; 36 treatment and 0 control group patients improved 1 category; and 2 treatment group patients improved 2 categories (P = .000). Combining thoracic and thoracolumbar and lumbar curves, compliant office patients' curves went from 32.4° to 24.1° in 11.7 months improving 0.28% overall or 0.7° per month or 2.4% per month. Compliant patients seen via the internet improved from 49.4° initially to 37.3° or 24.5% over 10.75 months or 1.1° per month or 2.0% per month. Six of 88 patients seen in the office were noncompliant. About 15 of 25 patients seen via the internet were noncompliant.

Conclusion:
The side plank, half-moon, and elevated side plank positions show promise for reversing adult scoliosis. Compared with office visits, telemedicine had lower compliance but comparable efficacy.
Exploring Physical and Cognitive Factors Impacting Life-Space Mobility in Community-Dwelling Older Adults
Authors: Shinohara Tomoyuki , Saida Kosuke , Miyata Kazuhiro , Higuchi Daisuke , Usuda Shigeru 
Published: January 2024

Aim:
To investigate the factors and impact strength affecting mobility in community-dwelling older adults using a general linear model that can adequately address the issue of variables' distribution for more robust results.

Methods:
This cross-sectional study involving 103 participants was conducted to identify the factors affecting the Life-Space Assessment scores using a general linear model based on the data imputed using the hot-deck method. A complete case analysis was performed as a sensitivity analysis.

Results and Conclusions:
Three factors associated with life-space mobility were included in the model: walking speed, pain, and cognitive function.
Chromosomal-level genome assembly of the long-spined sea urchinDiadema setosum(Leske, 1778)
Authors:   Hong Kong Biodiversity Genomics Consortium,   Project Coordinator and Co-Principal Investigators, Hui Jerome H.L. , Chan Ting Fung , Chan Leo L. , Cheung Siu Gin , Cheang Chi Chiu , Fang James K.H. , Gaitan-Espitia Juan D. , Lau Stanley C.K. , Sung Yik Hei , Wong Chris K.C. , Yip Kevin Y.L. , Wei Yingying ,   DNA extraction, library preparation and sequencing, So Wai Lok ,   Genome assembly and gene model prediction, Nong Wenyan ,   Sample collector, animal culture and logistics, Chui Apple P.Y. , Fong Thomas H.W. , Yip Ho Yin 
Published: January 2024

AbstractThe long-spined sea urchinDiadema setosumis an algal and coral feeder widely distributed in the Indo-Pacific and can cause severe bioerosion on the reef community. Nevertheless, the lack of genomic information has hindered the study its ecology and evolution. Here, we report the chromosomal-level genome (885.8 Mb) of the long-spined sea urchinD. setosumusing a combination of PacBio long-read sequencing and Omni-C scaffolding technology. The assembled genome contained scaffold N50 length of 38.3 Mb, 98.1 % of BUSCO (Geno, metazoa_odb10) genes, and with 98.6% of the sequences anchored to 22 pseudo-molecules/chromosomes. A total of 27,478 genes including 23,030 protein-coding genes were annotated. The high-quality genome ofD. setosumpresented here provides a significant resource for further understanding on the ecological and evolutionary studies of this coral reef associated sea urchin.
Chronic disturbance of moist tropical forests favours deciduous over evergreen tree communities across a climate gradient in the Western Ghats
Authors: Biswas Nayantara , Sadekar Vishal , Biniwale Siddharth , Taneja Yukti , Osuri Anand M , Page Navendu , Suryawanshi Kulbhushansingh , Naniwadekar Rohit 
Published: January 2024

ABSTRACTIt is well established that climatic factors such as water stress and chronic anthropogenic disturbances such as biomass extraction influence tropical forest tree community structure, richness and composition. However, while the standalone effects of these two drivers on plant communities are well-studied, their interactive effects are not. Moist tropical forests in India’s Western Ghats face a dual threat from increasingly erratic precipitation (and consequent water stress), and an intensifying anthropogenic footprint. Here, we sampled 120 tree plots (0.05 ha each) across forests with varying histories of biomass extraction and a gradient in climate water deficit (CWD, a proxy for water stress) within a 15,000 km2landscape in the northern Western Ghats and examined whether and how disturbance history modulates relationships of tree community structure and composition with climate. As expected, tree species richness increased with decreasing water stress in less- and historically-disturbed forests but remained low in repeatedly-disturbed forests. The increase in evergreen species richness with decreasing water stress was far slower in repeatedly-disturbed forests than other categories, and the relative abundance of evergreens in the repeatedly-disturbed forests (25%) was half that in less-disturbed forests (50%) of comparable water stress in the driest parts. Overall, we show that disturbance can amplify threats from climate change to wet forest-associated evergreen tree species, many of which are threatened, while benefiting more widely distributed dry forest-associated deciduous species. In the northern Western Ghats, where much of the remaining forest cover is disturbed and dominated by deciduous tree species, the persistence of evergreen tree flora hinges on protecting existing evergreen forest patches from future disturbances and restoring locally appropriate evergreen species in secondary forests.
Co-occurrence Networks and Topological Analyses Revealed Microbiome Structures in Soybean Roots from a Louisiana Soybean Field Severely Damaged by Prolonged High Temperatures and Drought Stress
Authors: Gouli Sandeep , Majeed Aqsa , Liu Jinbao , Moseley David , Mukhtar M. Shahid , Ham Jong Hyun 
Published: January 2024

AbstractDrought stress has a significant impact on agricultural productivity, affecting key crops such as soybeans, the second most widely cultivated crop in the United States. We conducted endophytic and rhizospheric microbial diversity analyses in soybean plants cultivated during the 2023 growing season, amid extreme weather conditions of prolonged high temperatures and drought in Louisiana. Specifically, we collected surviving and non-surviving soybean plants from two plots of a Louisiana soybean field severely damaged from the extreme heat and drought condition in 2023. We did not observe any significant difference in the microbial diversity of rhizosphere between surviving and non-surviving plants. However, we found obvious differences in the structure of endophytic microbial community in root tissues between the two plant conditions. Especially, the bacterial genera of Proteobacteria,PseudomonasandPantoea, were predominant in the surviving root tissues, while the bacterial genusStreptomyceswas conspicuously dominant in the non-surviving (dead) root tissues. Co-occurrence patterns and network centrality analyses enabled us to discern the intricate characteristics of operational taxonomic units (OTUs) within endophytic and rhizospheric networks. Overall, this study advances our understanding of the intricate relationship between bacteria and plants under drought stress, paving the way for future research to investigate the importance of microbial diversity in drought affected regions such as Louisiana.
SLEDGe: Inference of ancient whole genome duplications using machine learning
Authors: Sutherland Brittany L. , Tiley George P. , Li Zheng , McKibben Michael TW , Barker Michael S. 
Published: January 2024

AbstractAncient whole-genome duplication--previous genome duplication events that have since been eroded via diploidization, are increasingly identified throughout eukaryotes. One of the constraints against large-scale studies of ancient eukaryotic WGD is the relatively large, high-quality datasets often needed to definitively establish ancient WGD events; alternatively, the more low-input method interpretation of genome-wide synonymous substitution rates (Ks plots) is prone to bias and inconsistency. We improve upon the shortcomings of the current Ks plot method by building a Ks plot simulator. This data-agnostic approach simulates common distributions found in Ks plots in the presence or absence of ancient WGD signatures. In conjunction with a machine-learning classifier, this approach can quickly assess the likelihood that transcriptomic and genomic data bear WGD signatures. On independently-generated synthetic data and real plant transcriptomic data, SLEDGE is capable of correctly identifying ancient WGD in 93-100% of samples. This approach can serve as a quick classification step in large-scale genomic analyses, identifying putative ancient polyploids for further study.
Decoration ofBurkholderiaHcp1 protein to virus-like particles as a vaccine delivery platform
Authors: Khakhum Nittaya , Baruch-Torres Noe , Stockton Jacob L. , Chapartegui-González Itziar , Badten Alexander J , Adam Awadalkareem , Wang Tian , Huerta-Saquero Alejandro , Yin Y. Whitney , Torres Alfredo G 
Published: January 2024

AbstractVirus-like particles (VLPs) are protein-based nanoparticles frequently used as carrier in conjugate vaccine platforms. VLPs have been used to display foreign antigens for vaccination and to deliver immunotherapeutic against diseases. Hemolysin-coregulated proteins 1 (Hcp1) is a protein component of theBurkholderiatype 6 secretion system which participates in intracellular invasion and dissemination. This protein has been reported as a protective antigen and is used in multiple vaccine candidates with various platforms against melioidosis, a severe infectious disease caused by the intracellular pathogenB. pseudomallei. In this study, we used P22 VLPs as a surface platform for decoration with Hcp1 using chemical conjugation. C57BL/6 mice were intranasally immunized with three doses of either PBS, VLPs or conjugated Hcp1-VLPs. Immunization with Hcp1-VLPs formulation induced Hcp1-specific-IgG, IgG1, IgG2cand IgA antibody responses. Furthermore, the serum from Hcp1-VLPs immunized mice enhanced the bacterial uptake and opsonophagocytosis by macrophages in the presence of complement. This study demonstrated an alternative strategy to develop a VLPs-based vaccine platform againstBurkholderiaspecies.
Comparative analysis of retroviral Gag-host cell interactions: focus on the nuclear interactome
Authors: Lambert Gregory S. , Rice Breanna L. , Maldonado Rebecca J. Kaddis , Chang Jordan , Parent Leslie J. 
Published: January 2024

AbstractRetroviruses exploit a variety of host proteins to assemble and release virions from infected cells. To date, most studies that examined possible interacting partners of retroviral Gag proteins focused on host proteins that localize primarily to the cytoplasm or plasma membrane. Given the recent findings that several full-length Gag proteins localize to the nucleus, identifying the Gag-nuclear interactome has high potential for novel findings that reveal previously unknown host processes. In this study, we systematically compared nuclear factors identified in published HIV-1 proteomic studies which had used a variety of experimental approaches. In addition, to contribute to this body of knowledge, we report results from a mass spectrometry approach using affinity-tagged (His6) HIV-1 and RSV Gag proteins mixed with nuclear extracts. Taken together, the previous studies—as well as our own—identified potential binding partners of HIV-1 and RSV Gag involved in several nuclear processes, including transcription, splicing, RNA modification, and chromatin remodeling. Although a subset of host proteins interacted with both Gag proteins, there were also unique host proteins belonging to each interactome dataset. To validate one of the novel findings, we demonstrated the interaction of RSV Gag with a member of the Mediator complex, Med26, which is required for RNA polymerase II-mediated transcription. These results provide a strong premise for future functional studies to investigate roles for these nuclear host factors that may have shared functions in the biology of both retroviruses, as well as functions specific to RSV and HIV-1, given their distinctive hosts and molecular pathology.
Contrasting Phyllosphere Mycobiome in two Lycopodiaceae Plant Species: Unraveling Potential HupA-Producing Fungi and Fungal Interactions
Authors: Lin Liqun , Li Cheng , Chang Chiung-Chih , Du Ran , Ji Jiaojiao , Kuo Li-Yaung , Wang Li , Chen Ko-Hsuan 
Published: January 2024

AbstractBackgroundHuperzine A (HupA) is a natural lycopodium alkaloid renowned for its efficacy in treating neurodegenerative diseases such as Alzheimer’s disease. It specifically occurs in the Huperzioideae subfamily of Lycopodiaceae. Fungi associated with Huperzioideae species are potential contributors to HupA biosynthesis, offering promising prospects for HupA production. However, limited knowledge of fungal diversity in lycophytes, coupled with decreased HupA production over time of fungal strains, has impeded the discovery and applications of HupA-producing fungi. Here, we investigated huperzine concentrations and the mycobiome across various tissues of two Lycopodiaceae species,Huperzia asiatica(a HupA producer) andDiphasiastrum complanatum(a non-HupA producer). Our objectives across the tissues of the two species are to unveil the distribution of potential HupA-producing fungi and elucidate fungal interactions within the mycobiome, aiming to uncover the role of HupA-producing fungi and pinpoint their potential fungal facilitators.ResultsAmong the tissues,H. asiaticaexhibited the highest HupA concentration in apical shoots (360.27 μg/ml) whereasD. complanatumshowed no HupA presence in any tissue. We obtained 441 Amplicon Sequence Variants (ASVs) fromH. asiaticaand 497 ASVs fromD. complanatum. The fungal communities in bulbils and apical shoots ofH. asiaticawere low in diversity and dominated by Sordariomycetes, a fungal class harboring the majority of reported HupA-producing fungi. Integrating bioinformatics with published experimental reports, we identified 27 potential HupA-producing fungal ASVs, primarily inH. asiatica, with 12 ASVs identified as hubs in the fungal interaction network, underscoring their pivotal roles in mycobiome stability. Members of certain fungal genera, such asPenicillium,Trichoderma,Dioszegia,Exobasidium,LycoperdonandCladosporiumexhibited strong connections with the potential HupA producers inH. asiatica’s network rather than inD. complanatum’s, implying their prospects as fungal facilitators in enhancing HupA production.ConclusionsThis study advances our knowledge of fungal diversity in Lycopodiaceae and provides insights into the search for potential HupA-producing fungi and fungal facilitators. It highlights the importance of exploring young tissues, and emphasizes the ecological interactions that promote the fungi-mediated production of complex bioactive compounds, offering new directions for research in fungal ecology and secondary metabolite production.
A Bayesian Inference-based approach for extracting driving data with implicit intention
Authors: Huang Ping , Ding Haitao , Chen Hong , Zhang Jianwei , Sun Zhenjia 
Published: January 2024

PurposeThe growing availability of naturalistic driving datasets (NDDs) presents a valuable opportunity to develop various models for autonomous driving. However, while current NDDs include data on vehicles with and without intended driving behavior changes, they do not explicitly demonstrate a type of data on vehicles that intend to change their driving behavior but do not execute the behaviors because of safety, efficiency, or other factors. This missing data is essential for autonomous driving decisions. This study aims to extract the driving data with implicit intentions to support the development of decision-making models.Design/methodology/approachAccording to Bayesian inference, drivers who have the same intended changes likely share similar influencing factors and states. Building on this principle, this study proposes an approach to extract data on vehicles that intended to execute specific behaviors but failed to do so. This is achieved by computing driving similarities between the candidate vehicles and benchmark vehicles with incorporation of the standard similarity metrics, which takes into account information on the surrounding vehicles' location topology and individual vehicle motion states. By doing so, the method enables a more comprehensive analysis of driving behavior and intention.FindingsThe proposed method is verified on the Next Generation SIMulation dataset (NGSim), which confirms its ability to reveal similarities between vehicles executing similar behaviors during the decision-making process in nature. The approach is also validated using simulated data, achieving an accuracy of 96.3 per cent in recognizing vehicles with specific driving behavior intentions that are not executed.Originality/valueThis study provides an innovative approach to extract driving data with implicit intentions and offers strong support to develop data-driven decision-making models for autonomous driving. With the support of this approach, the development of autonomous vehicles can capture more real driving experience from human drivers moving towards a safer and more efficient future.
ID-SF-Fusion: a cooperative model of intent detection and slot filling for natural language understanding
Authors: Zhu Meng , Xu Xiaolong 
Published: January 2024

PurposeIntent detection (ID) and slot filling (SF) are two important tasks in natural language understanding. ID is to identify the main intent of a paragraph of text. The goal of SF is to extract the information that is important to the intent from the input sentence. However, most of the existing methods use sentence-level intention recognition, which has the risk of error propagation, and the relationship between intention recognition and SF is not explicitly modeled. Aiming at this problem, this paper proposes a collaborative model of ID and SF for intelligent spoken language understanding called ID-SF-Fusion.Design/methodology/approachID-SF-Fusion uses Bidirectional Encoder Representation from Transformers (BERT) and Bidirectional Long Short-Term Memory (BiLSTM) to extract effective word embedding and context vectors containing the whole sentence information respectively. Fusion layer is used to provide intent–slot fusion information for SF task. In this way, the relationship between ID and SF task is fully explicitly modeled. This layer takes the result of ID and slot context vectors as input to obtain the fusion information which contains both ID result and slot information. Meanwhile, to further reduce error propagation, we use word-level ID for the ID-SF-Fusion model. Finally, two tasks of ID and SF are realized by joint optimization training.FindingsWe conducted experiments on two public datasets, Airline Travel Information Systems (ATIS) and Snips. The results show that the Intent ACC score and Slot F1 score of ID-SF-Fusion on ATIS and Snips are 98.0 per cent and 95.8 per cent, respectively, and the two indicators on Snips dataset are 98.6 per cent and 96.7 per cent, respectively. These models are superior to slot-gated, SF-ID NetWork, stack-Prop and other models. In addition, ablation experiments were performed to further analyze and discuss the proposed model.Originality/valueThis paper uses word-level intent recognition and introduces intent information into the SF process, which is a significant improvement on both data sets.
Determinants of engagement with and of stakeholders in CSR decision-making: a stakeholder perspective
Authors: Ghezal Rim 
Published: January 2024

Purpose
This study aims to explore the determinants of engagement with and of stakeholders in corporate social responsibility (CSR) decision-making.

Design/methodology/approach
Using stakeholder theory, this study is mainly based on business ethics and CSR literature to develop a model depicting social and organizational contextual factors for engagement in the context of CSR decision-making.

Findings
This study identifies nine antecedents for engagement with and of stakeholders in CSR decision-making. Based on stakeholder perspective, the author explores how engagement constructs are influenced at both social and organizational levels by the determinants stakeholder pressure, stakeholder roles, stakeholder resources, stakeholder relationships, stakeholder management, two-way communication, procedural justice, interactional justice and stakeholder proactive strategy.

Practical implications
This study provides insights for companies regarding the determinants underlying engagement to reflect its importance in the context of CSR decision-making.

Social implications
A better understanding of the determinants of engagement is critical because engagement contributes to achieving “win-win” solutions that ensure increased stakeholder satisfaction.

Originality/value
To the best of the author’s knowledge, this paper is one of the first to explore the determinants of engagement with and of stakeholders in CSR decision-making at both social and organizational levels by referring to stakeholder theory.