bluuebunny/crossref_metadata_2025_split huggingface dataset:
Single-cell resolved differentiation of pre-Kranz anatomy in maize leaf primordia
Authors: Yi Juan , Su Hong , Tian Shilong , Sedelnikova Olga , Chen Yonghe , Zhao Caiyao , Yang Jianzhao , Zhang Yijing , Zhu Xin-Guang , Langdale Jane A. , Wang Jia-Wei , Wang Peng 
Published: July 2024

SummaryTypical C4plants such as maize possess highly optimized Kranz-type leaf anatomy, whereby concentric wreaths of mesophyll and bundle sheath cells surround closely spaced veins. The veins and the cells that surround them are derived from the middle ground meristem (mGM) through processes that are as yet undefined. Here we distinguished the active zone of vascular development within early leaf primordia, and used comparative transcriptomics of sub-sectioned maize and rice primordia to identify cohorts of genes likely involved in early Kranz development. Leveraging single-nucleus RNA sequencing (snRNA-seq) we then explored the cell heterogeneity and developmental trajectories within single maize leaf primordia. Assisted byin situhybridization, cell clusters of mGM and procambium were identified, with candidate marker genes showing different yet inter-related expression patterns. Localization of the vascular markerZmSHR1was preceded by that ofZmEREB161andZmEREB114in terms of procambium initiation. Potential subclusters of bundle sheath cells and different layer of mesophyll cells were depicted from developing cells toward the tip of sub-sectioned maize primordia. Collectively our results identify potential mGM derived or procambium localized Kranz regulators and provide resources for investigating leaf vein development in maize and rice, at sub-primordium and single-cell resolution.
Taking a BREATH (Bayesian Reconstruction and Evolutionary Analysis of Transmission Histories) to simultaneously infer phylogenetic and transmission trees for partially sampled outbreaks
Authors: Colijn Caroline , Hall Matthew , Bouckaert Remco 
Published: July 2024

AbstractWe introduce and apply Bayesian Reconstruction and Evolutionary Analysis of Transmission Histories (BREATH), a method to simultaneously construct phylogenetic trees and transmission trees using sequence data for a person-to-person outbreak. BREATH’s transmission process that accounts for a flexible natural history of infection (including a latent period if desired) and a separate process for sampling. It allows for unsampled individuals and for individuals to have diverse within-host infections. BREATH also accounts for the fact that an outbreak may still be ongoing at the time of analysis, using a recurrent events approach to account for right truncation. We perform a simulation study to verify our implementation, and apply BREATH to a previously-described 13-year outbreak of tuber-culosis. We find that using a transmission process to inform the phylogenetic reconstruction results in better resolution of the phylogeny (in topology, branch length and tree height) and a more precise estimate of the time of origin of the outbreak. Considerable uncertainty remains about transmission events in the outbreak, but our reconstructed transmission network resolves two major waves of transmission consistent with the previously-described epidemiology, estimates the numbers of unsampled individuals, and describes some highprobability transmission pairs. An open source implementation of BREATH is available fromhttps://github.com/rbouckaert/transmissionas theBREATHpackage to BEAST 2.
Assessing the Relationship Between Cannabis Use and DKA Outcomes: Insights from a National Inpatient Sample Study
Authors: Randhawa Aastha , Jana Kundan , Sattar Moin 
Published: July 2024

ABSTRACTDKA hospitalizations in the United States have risen across all age groups, with the highest rates observed in individuals under 45 years of age. While the ongoing decline in in-hospital DKA mortality is encouraging, further efforts are needed to identify at-risk populations. Cannabis is one of the most used recreational drugs in the world, and studies have shown that it may be related to an increased risk of DKA. While prior data assessed it impact on incidence on DKA, there exists a knowledge gap about its impact on in-patient outcomes of DKA. We designed a study aimed to investigate the impact of cannabis use on DKA outcomes using the National Inpatient Sample (NIS) dataset. Our study is a retrospective observational study, in which, we identified patient with DKA and divided them into two cohorts: those who use cannabis and those who don’t. After matching both the groups for age groups, medical conditions (e.g., AIDS, COPD, heart failure, hypertension, liver disease, malignancy), gender, obesity, smoking status, and race/ethnicity, the two groups were compared for the primary outcome of inpatient mortality and secondary outcomes including shock, acute kidney injury, acute coronary syndrome, ischemic stroke, acute respiratory failure, invasive mechanical ventilation, cardiac arrest. Contrary to prior studies showing increased overall mortality risk associated with cannabis use, out study does not show worse DKA outcomes in cannabis users. In fact, cannabis is associated with a statistically significant decrease in the odds of mortality in the matched cohort. While no conclusion regarding causative or protective effects could be drawn from this study, it helps explore unique demographic and clinical characteristics of populations, to identify at-risk populations for various outcomes of in-patient DKA admissions.
Real-time dynamic polygenic prediction for streaming data
Authors: Tubbs Justin D. , Chen Yu , Duan Rui , Huang Hailiang , Ge Tian 
Published: July 2024

AbstractPolygenic risk scores (PRSs) are promising tools for advancing precision medicine. However, existing PRS construction methods rely on static summary statistics derived from genome-wide association studies (GWASs), which are often updated at lengthy intervals. As genetic data and health outcomes are continuously being generated at an ever-increasing pace, the current PRS training and deployment paradigm is suboptimal in maximizing the prediction accuracy of PRSs for incoming patients in healthcare settings. Here, we introduce real-time PRS-CS (rtPRS-CS), which enables online, dynamic refinement and calibration of PRS as each new sample is collected, without the need to perform intermediate GWASs. Through extensive simulation studies, we evaluate the performance of rtPRS-CS across various genetic architectures and training sample sizes. Leveraging quantitative traits from the Mass General Brigham Biobank and UK Biobank, we show that rtPRS-CS can integrate massive streaming data to enhance PRS prediction over time. We further apply rtPRS-CS to 22 schizophrenia cohorts in 7 Asian regions, demonstrating the clinical utility of rtPRS-CS in dynamically predicting and stratifying disease risk across diverse genetic ancestries.
The Abelson kinase and the Nedd4-family E3 ligases co-regulate Notch trafficking to limit signaling
Authors: Miranda-Alban Julio , Sanchez-Luege Nicelio , Valbuena Fernando M. , Rangel Chyan , Rebay Ilaria 
Published: July 2024

AbstractPrecise output from the conserved Notch signaling pathway governs a plethora of cellular processes and developmental transitions. Unlike other pathways that use a cytoplasmic relay, the Notch cell surface receptor transduces signaling directly to the nucleus, with endocytic trafficking providing critical regulatory nodes. Here we report that the cytoplasmic tyrosine kinase Abelson (Abl) facilitates Notch internalization into late endosomes/multivesicular bodies (LEs), thereby limiting signaling output in both ligand-dependent and -independent contexts. Abl phosphorylates the PPxY motif within Notch, a molecular target for its degradation via Nedd4-family ubiquitin ligases. We show that Su(dx), a family member, mediates the Abl-directed LE regulation of Notch via the PPxY, while another family member, Nedd4Lo, contributes to Notch internalization into LEs through both PPxY-dependent and independent mechanisms. Our findings demonstrate how a network of post-translational modifiers converging at LEs cooperatively modulate Notch signaling to ensure the precision and robustness of its cellular and developmental functions.
Identification and characterization of collagen XXIII alpha 1 as a novel risk factor for eczema herpeticum
Authors: Chopra Shruti , Roesner Lennart M. , Döhner Katinka , Zeitvogel Jana , Traidl Stephan , Rodriguez Elke , Harder Inken , Lieb Wolfgang , Weidinger Stephan , Schulz Thomas F. , Sodeik Beate , Werfel Thomas 
Published: July 2024

AbstractEczema herpeticum (EH) is a potentially life-threatening disseminated skin infection caused by herpes simplex virus (HSV) in a subset of patients with atopic dermatitis (AD). Genetic factors play a pivotal role in EH development. Herein, we identify a single nucleotide polymorphism (SNP) rs2973744 in the gene encoding collagen XXIII alpha 1 chain (Col23a1) as a novel genetic risk factor for EH using whole exome sequencing. EH-patient-derived primary keratinocytes carrying the SNP rs2973744 show elevatedCOL23A1mRNA and total protein levels as well as increased susceptibility to HSV-1. We discover that increasing Col23a1 levels enhances HSV-1 infection in human keratinocytes. The transcriptomic analysis unveils thatCOL23A1overexpression dampens keratinocyte immune responses, thereby elucidating the molecular mechanism underlying exacerbated HSV-1 susceptibility. Our findings report a novel potential screening marker and therapeutic target for EH and reveal Col23a1’s unexplored role in HSV-1 pathogenesis.
Site-specific DNA methylation in KCNJ11 promoter contributes to type 2 diabetes
Authors: Zhu Mengmeng , Huang Qiaoliang , Li Heng , Zhao Yujie , Guo Heming , Wang Tao , Liu Xiaodan , Huang Yun , Hu Ji , Fang Chen , Huang Jian 
Published: July 2024

AbstractAimsThis study explores the correlation between site-specific methylation levels of the KCNJ11 promoter and type 2 diabetes mellitus (T2DM), analyzing potential molecular mechanisms.MethodsThirty patients newly diagnosed with T2DM and 30 healthy controls were selected to determine the CpG methylation levels in the promoter region of the KCNJ11 gene using the bisulfite assay. The online software JASPAR was used to predict transcription factors binding to differentially methylated sites. Key transcription factors were further validated through quantitative PCR (q-PCR) and chromatin immunoprecipitation followed by PCR (ChIP-PCR).ResultsMethylation at multiple CpG sites within the KCNJ11 gene promoter was significantly reduced in newly diagnosed T2DM patients compared to healthy individuals. The methylation status of CpG-471, a site crucial for the binding of the transcription factor TCF12, emerged as potentially influential in T2DM pathogenesis. This reduction in methylation at CpG-471 may enhance TCF12 binding, thereby altering KCNJ11 expression.ConclusionHypomethylation of specific CpG sites in the promoter region of the KCNJ11 gene in patients with incipient T2DM potentially contributes to the disease’s pathogenesis. This hypomethylation enhances the transcriptional activity of TCF12, which binds to these sites, possibly influencing regulatory pathways involved in pancreatic beta-cell function.
Morph-linked variation in female pheromone signaling and male response in a polymorphic moth
Authors: De Pasqual Chiara , Selenius Eetu , Burdfield-Steel Emily , Mappes Johanna 
Published: July 2024

AbstractUnderstanding the maintenance of genetic variation in reproductive strategies and polymorphisms in the wild requires a comprehensive examination of the complex interactions between genetic basis, behavior, and environmental factors.We tested the association between three color genotypes and variation in female pheromone signaling and male antennal morphology in the wood tiger moth (Arctia plantaginis). These moths have genetically determined white (WW, Wy) and yellow (yy) hindwings that are linked to mating success and fitness, with heterozygotes (Wy) having an advantage. We hypothesized that attractiveness and reproductive success are correlated, with Wy females being more attractive than the other two genotypes which could contribute to maintaining the polymorphism.Female attractiveness was tested by baiting traps with females of the three color genotypes both in low-(i.e., field setup) and in high-population density (i.e., large enclosure setup). Male’s ability to reach females was correlated to their own color genotype and antennal morphology (length, area, and lamellae count).Contrary to our prediction, morph-related reproductive success and attractiveness were not correlated. Heavier Wy females attracted a lower proportion of males compared to WW and yy females. Specifically, an increase in weight corresponded to a decreased Wy but increased yy female attractiveness. yy females were generally more attractive than others likely due to earlier pheromone release. In males, lamellae count and genetic color morph were linked to the male’s ability to locate females. Furthermore, male traits affected their ability to reach females in a context-specific way. Males with denser antennae (i.e., higher lamellae count) and white males reached the females faster than yellows in the enclosure, while yellow males located females faster than whites in the field.Our results indicate that higher yy female attractiveness was likely affected by the combined effect of early pheromone release, female weight and higher population density. Males’ searching success was affected by morph-specific behavioral strategies and local population density. Ultimately, the combined effect of genotype-related pheromone signaling strategies of females together with environment-dependent male behavior affect male response and potentially contribute to maintaining variation in fitness-related traits.
Varying importance of postzygotic isolation in polyploid speciation? A survey of the triploid block strength, its causal mechanisms, and evolutionary consequences
Authors: Salony Susnata , Clo Josselin , Kolář Filip , Lafon Placette Clément 
Published: July 2024

AbstractThe triploid block, primarily caused by endosperm developmental issues, is known as a significant barrier to interploidy hybridization among flowering plants and thereby, polyploid speciation. However, its strength varies across taxa, with some instances of leakiness, questioning its universal role as a barrier. We conducted a literature survey to explore the causes of the variation in the strength of triploid block across angiosperms. We particularly assessed the impact of interploidy cross direction, types of endosperm development, endosperm persistence at seed maturity, and ploidy divergence. None of these factors had a significant impact on triploid seed viability, likely due to limited data and inconsistencies in estimation methods across the literature. In addition, triploid seed viability in experimental crosses was sometimes correlated to the occurrence of triploid hybrids in nature, sometimes not, suggesting a mixed role of the triploid block in shaping interspecies gene flow. Altogether, our study highlights the need for unified approaches in future studies on the triploid block to advance our understanding of its variation and evolutionary implications.
Interplay between charge and spin noise in the near-surface theory of decoherence and relaxation of
C3v
symmetry qutrit spin-1 centers
Authors: Candido Denis R. , Flatté Michael E. 
Published: July 2024

Decoherence and relaxation of solid-state defect qutrits near a crystal surface, where they are commonly used as quantum sensors, originate from charge and magnetic field noise. A complete theory requires a formalism for decoherence and relaxation that includes all Hamiltonian terms allowed by the defect's point-group symmetry. This formalism, presented here for the C3v symmetry of a spin-1 defect in a diamond, silicon carbide, or similar host, relies on a Lindblad dynamical equation and clarifies the relative contributions of charge and spin noise to relaxation and decoherence, along with their dependence on the defect spin's depth and resonant frequencies. The calculations agree with the experimental measurements of Sangtawesin [], and corroborate the importance of charge noise.

Published by the American Physical Society
2024
Digital competence of students in higher education: an assessment framework in Vietnam
Authors: Pham Tra Lam , Dau Thi Kim Thoa 
Published: July 2024

PurposeThis study investigates the digital competence (DC) of undergraduate students, considering three key dimensions: use of Information and Communication Technologies (ICT) resources, knowledge about ICT resources, and attitude towards ICT. We also examined the relationship between these aspects in order to build a DC assessment framework.Design/methodology/approachA structured questionnaire was administered to students from several universities in Vietnam in order to assess their DC. A PLS analysis was conducted based on data from 551 valid responses.FindingsStatistical analyses showed that the DC of students was quite low. The findings certify that knowledge of ICT resources is a total intermediate variable in the impact of attitude towards ICT on the use of ICT resources by students.Practical implicationsOur findings provide important implications for policymakers and teachers' insights for authorities, universities, and scholars to develop strategies for DC of students in higher education.Originality/valueThis study is the first to explore the DC assessment framework for students in higher education in an emerging market, Vietnam.
Using predictive methods to assess observation and measure importance
Authors: Briggs William M. 
Published: July 2024

PurposeThis study aims to find suitable replacements for hypothesis testing and variable-importance measures.Design/methodology/approachThis study explores under-used predictive methods.FindingsThe study's hypothesis testing can and should be replaced by predictive methods. It is the only way to know if models have any value.Originality/valueThis is the first time predictive methods have been used to demonstrate measure and variable importance. Hypothesis testing can never prove the goodness of models. Only predictive methods can.
Business continuity management: trends, structures and future issues
Authors: Widianti Tri , Dinaseviani Anggini , Ayundyahrini Meilinda , Sumaedi Sik , Rakhmawati Tri , Astrini Nidya Judhi , Bakti I Gede Mahatma Yuda , Damayanti Sih , Yarmen Medi , Jati Rahmi Kartika , Yaman Aris , Pandin Marlina , Hidayat Mauludin , Prihanto Igif Gimin , Gunawan Hendy , Mahmudi Mahmudi 
Published: July 2024

PurposeThis study assesses the current landscape of business continuity management (BCM) research while exploring research trends, structures and delineating potential future directions.Design/methodology/approachA comprehensive bibliometric analysis was conducted on 360 articles from the Scopus and Web of Science databases using Biblioshiny software. A meta-synthesis was employed to aggregate and synthesize findings from the bibliometric results.FindingsThe results demonstrate a notable increase in publication numbers since the onset of the pandemic, reaching a peak in 2022 with a total of 342 articles. A collaborative bond among scholars transcends geographical boundaries and national affiliations. The analytical results propose avenues for future research, addressing crucial areas such as the integration of business continuity management systems (BCMS), the development of BCM frameworks and a comparative analysis of business impact analysis (BIA) frameworks through pertinent theories.Research limitations/implicationsThe study contributes theoretical and practical implications, serving as a valuable resource for academics and practitioners seeking to deepen their understanding of BCM’s role in business recovery and preserving organizational continuity in the face of disruptions.Originality/valueThis study pioneers a comprehensive approach by integrating bibliometric analysis and qualitative meta-synthesis, providing a consolidated overview of BCM research. Additionally, it presents future research proposals in this area.
How does servitization promote value added in construction industry? The moderating role of R&D innovation
Authors: Li Huimin , Zhao Zhichao , Cao Yongchao , Su Limin , Zhao Jing , Zhang Yafei 
Published: July 2024

PurposeServitization and research and development (R&D) innovation provide new developmental opportunities for transformation in the construction industry. This study aims to explore the transformative impact of servitization and R&D innovation on the value added of the construction industry, offering new insights into industry transformation and growth.Design/methodology/approachThis study utilizes panel data from Chinese listed construction companies from 2014 to 2022 to empirically investigate the relationship among servitization, R&D innovation and value added in the construction industry. The data analysis is augmented by incorporating text mining techniques to rigorously investigate the interplay among servitization, R&D innovation and the value added within the construction industry.FindingsThe research findings indicate that the impact of servitization on value added follows a positive U-shaped relationship, while the influence of R&D innovation on value added exhibits an inverted U-shaped relationship. Additionally, innovation investment plays a negative moderating role in the relationship between servitization and value added.Originality/valueThis study reveals a fresh perspective on how construction companies can leverage servitization as a strategic pathway for transformation and competitive advantage. The research also lays a theoretical groundwork for future innovation investment strategies in the construction industry, emphasizing the need for a balanced approach to innovation investments to maximize value added.
Influence of residential physical environments on occupant experience: considering the moderating effects of indoor plants and climate zones
Authors: Xu Leiqing , Zhang Zhubai 
Published: July 2024

PurposeHome is a place/system/product that becomes increasingly occupied with various tasks used to be performed in workplaces. However, the knowledge of the relationship between residential physical environments and occupant experience is limited, especially when considering the effect of indoor plants (IPs) and climate zones. To address the gap, this study conducted a questionnaire survey in three cities across different regions in China.Design/methodology/approachBased on User Experience and Customer Satisfaction Index theory, following the research paradigm, a total of 627 valid samples were collected and analyzed in a stepwise statistical analysis, including descriptive statistics, reliability and validity test, correlation test and region comparison, then the model of PROCESS was adopted to examine the hypotheses that are given based on the former studies.FindingsThe results showed that residential physical environments have a significant effect on occupant satisfaction (OS) in all regions, as well as OS on occupant performance. However, regional differences were found that OS is a complete mediator in the Middle region, while a partial mediator in the North and South. A slight moderating effect of IPs was also found in the region of South. Nevertheless, both the number of plants and plant types have a significant moderating effect on the mechanism.Originality/valueBesides combining two theories and confirming the mechanism in the residential physical environment, it is also the first study to consider the moderating effects of IPs and climate zones, providing potential empirical support for not only design and management stages but also facing global challenges of working at home and climate changes.