bluuebunny/crossref_metadata_2025_split huggingface dataset:
Nucleotide-derived bacterial alarmones attenuate the induction of type-I interferon responses in a murine macrophage reporter cell line
Authors: Kilduff Ryan P , Purcell Erin B , Shollenberger Lisa M 
Published: January 2025

AbstractThe stringent response is a well-studied phenomenon in many bacterial systems and regulates resource-consuming activities such as transcription, translation, and replication. The stringent response is a well-conserved signaling framework, as are the nucleotide-derived signaling mediators, collectively referred to as (p)ppGpp or as alarmones. There is a wealth of research evaluating nucleotide-derived alarmone signaling in bacterial models, however, their potential to modulate innate immune signaling has not yet been evaluated. Several common pathogen-synthesized molecules, such as lipopolysaccharide (LPS) and cyclic-di-AMP (c-di-AMP), act as pathogen-associated molecular patterns (PAMPs), which are common patterns that alert the innate immune system of bacterial infection. The goal of this work is to elucidate the impact of (p)ppGpp on innate immune signaling. To explore this, RAW-Dual cells were incubated with guanosine tetraphosphate (ppGpp) and guanosine pentaphosphate (pppGpp), two well-studied nucleotide-derived alarmones found in many different pathogenic bacteria, as well as with GTP. Both ppGpp and pppGpp were able to significantly reduce the expression of secreted luciferase in RAW-Dual cells in a dose-dependent manner, indicating a reduction of the interferon-stimulated regulatory elements (ISREs). Neither alarmone impacted secreted embryonic alkaline phosphatase (SEAP) secretion, which reports for NF-kB activation. This is the first work to suggest that nucleotide-derived alarmones produced by bacteria may impact an arm of innate immunity responsible for type-I interferon secretion.Author SummaryMany different disease-causing bacteria use a similar signaling network to help them survive in environments with low resources; this network is called “the stringent response.” All bacteria that use this network also produce signaling molecules, called alarmones, that help coordinate their response to resource deprivation. Interestingly, the human immune system recognizes molecules that are made by many pathogens. As such, our team decided to evaluate whether these bacterially-produced alarmones are able to affect our immune system. We discovered, rather than stimulating our immune system, that high concentrations of these alarmone compounds are able to turn off an important arm of the immune system that is essential in combating viral infections. This suggests another mechanism that bacteria may use to hide from the immune system during infection. In addition, there are potential clinical uses for a molecule that is selectively turn off arms of the immune system, and these molecules may have potential as future anti-inflammatory drugs after further research is able to explore their mechanism of action.
Diet links gut chemistry with cancer risk in C57Bl/6 mice and human colorectal cancer patients
Authors: Cohen Ziv , Choi Jiahn , Peregrina Karina , Khan Saad , Wolfson Sarah , Sherman Cherrie , Augenlicht Leonard , Kelly Libusha 
Published: January 2025

Background & AimsWestern-style diets, characterized by higher fat and protein, and low micronutrient levels, promote the development of colorectal cancer (CRC). Here, we investigate the role of a Western diet on microbiome composition, sulfide production, and intestinal epithelial damage in pre-CRC mice, and validate taxonomic changes in a meta-analysis of human CRC patients.MethodsNWD1 is a purified Western-style diet that produces sporadic intestinal and colon tumors in wild-type C57BL/6 mice in the absence of genetic or carcinogen exposure. To determine how this diet influences cancer risk by shaping microbial composition and sulfide chemistry, mice were fed NWD1 or a purified control diet for 24 weeks. Microbiome composition, sulfide production, and intestinal stem cell mRNA expression were assessed. Observed microbiome changes were validated in a human CRC meta-analysis.ResultsFecal sulfide levels were tripled in NWD1-fed mice (P< 0.00001), concurrent with increased abundance of the sulfidogenicErysipelotrichaceaefamily. NWD1-fed mice had increased expression of mitochondrial sulfide oxidation genes in Lgr5hiintestinal stem cells, demonstrating an adaptive response to elevated sulfide. In a meta-analysis of human CRC studies, we observed thatErysipelotrichaceaewere associated with CRC, validating both canonical CRC microbes such asSolobacterium mooreiand highlighting the potential contribution of previously unrecognized, disease-associated microbes.ConclusionsOur analyses connect the risk factors of Western diet, sulfide, and epithelial damage in a pre-cancer mouse model to microbiome changes observed in human CRC patients and suggest that microbial signatures of CRC and gut ecosystem alteration may manifest long before disease development.
Histopathologic Evaluation and Single-Cell Spatial Transcriptomics of the Colon Reveal Cellular and Molecular Abnormalities Linked to J-Pouch Failure in Patients with Inflammatory Bowel Disease
Authors: Olivas Andrea D. , Ngai Paul Chak Mou , Schahrer Emily , Olortegui Kinga S. , Cursio John F. , Akiyama Shintaro , Chang Eugene B. , Shen Le , Umanskiy Konstantin , Rubin David T. , Zemmour David , Weber Christopher R. 
Published: January 2025

AbstractBackground and AimsTotal abdominal colectomy (TAC) with a staged ileal pouch-anal anastomosis (IPAA) is a common surgical treatment for ulcerative colitis (UC). However, a significant percentage of patients experience pouch failure, leading to morbidity. This retrospective case-control study identified histopathological features of the TAC specimen associated with pouch failure and investigated the molecular mechanisms of this susceptibility using single-cell spatial transcriptomics.MethodsWe analyzed a cohort of 417 patients who underwent IPAA between 2000-2010 at the University of Chicago Medical Center for up to 18 years. Histological examination of TAC specimens focused on disease activity, depth of inflammation, and specific features, including granulomas and deep ulcers. A subset of patients was profiled using single-cell spatial transcriptomics to map gene expression and immune cell interactions in relation to the risk of pouch failure.ResultsThe 18-year pouch failure risk was 23%, with post-procedure diagnosis of CD as a major risk factor (HR = 4.3, 95% CI: 2.3–8.1) as well as high-risk histologic features, including deep chronic inflammation (HR = 21, 95% CI: 11-41) and severe disease activity (HR = 14, 95% CI: 5.7-32) in TAC specimens. Spatial transcriptomics showed immune infiltration of T and myeloid cells, reduced myocyte-glial interactions, and cytokine signaling pathways such as IL-10, IL-1β, and type I/II interferons, associated with an increased risk of pouch failure.ConclusionHistological features and spatial molecular profiling are predictive of IPAA failure. These findings support the use of histologic evaluation and targeted molecular analysis of the TAC specimen to identify high-risk patients and improve IPAA outcomes.
Distinctive associations between plasma p-tau181 levels and hippocampal subfield volume across the Alzheimer’s disease continuum
Authors: Rich Adea , Oh Hwamee ,   Alzheimer’s Disease Neuroimaging Initiative
Published: January 2025

AbstractBackgroundPlasma p-tau181 is a promising diagnostic marker of Alzheimer’s disease (AD) pathology, reflecting amyloid accumulation, tau deposition, and downstream neurodegeneration that leads to cognitive impairment. However, the specificity of plasma p-tau181 to AD-related tau pathology remains unclear.ObjectiveTo assess whether plasma p-tau181 is differentially associated with volumetric changes in distinct hippocampal subfields and whether they mediate the relationship between plasma p-tau181 and cognition across the AD continuum.Methods213 participants with normal cognition (N=57), mild cognitive impairment (N=109), and AD (N=47) from the Alzheimer’s Disease Neuroimaging Initiative (ADNI) were included for cross-sectional analyses of hippocampal subfield volume that was quantified using the Automatic Segmentation of Hippocampal Subfields (ASHS) software. A subset (n=89) was evaluated for one-year longitudinal changes in hippocampal subfield volume.ResultsHigher plasma p-tau181 levels (pg/mL) were associated with decreased volumes in the CA1 and dentate gyrus, bilaterally, and right entorhinal cortex (ps< 0.05). Additionally, volumes of these subfields partially mediated the relationship between plasma p-tau181 and ADNI memory and executive function composite scores. Baseline plasma p-tau181, however, did not predict longitudinal atrophy of hippocampal subfields across diagnostic groups.ConclusionsPlasma p-tau181 is differentially associated with hippocampal subfields that are closely related to both age- and AD-related neurodegeneration. Elevated plasma p-tau181 levels may reflect tau accumulation, and volumetric changes in CA1 and DG may mediate the detrimental effect of tau pathology on cognition.
Agonistic interactions between slender mudskippers (Periophthalmus gracilis) in Singapore
Authors: Saleh Soroush , Yan Ying Tan Alyssa , Wei Jie Edmund Chow , Jun Chee Koi , Neville Sean , Johns Philip 
Published: January 2025

AbstractMudskippers engage in frequent territorial interactions. Few studies of mudskipper agonistic behavioral sequences exist. The slender mudskipper (Periophthalmus gracilis) inhabits intertidal zones of mangrove forests across Southeast Asia. Here, we describe common behavioral sequences of winners and losers among unmanipulated, wild slender mudskipper interactions in Singapore. Winning mudskippers showed more approach behaviors than losers, such as “Crawl towards”, and more behaviors that may indicate aggression, such as “Pectoral wave”, “Flag”, and “Head up”. Losers showed more evasive behaviors, like “Jump” and “Crawl away”. We found evidence of agonistic behavioral matching. Larger mudskippers won contests more frequently than smaller mudskippers.
Spatial profiling of central nervous system cellular markers in murine breast cancer to brain metastases
Authors: Hogg Karen , Calder Grant , Droop Alastair , Yang Ming , Simon Anna , Hunt Mark J , Kaye Paul M , Whittington Miles , Chawla Sangeeta , Brackenbury William J 
Published: January 2025

AbstractBackgroundBrain metastasis occurs in approximately 16% of metastatic breast cancer patients, and incidence is increasing. Patients with breast cancer brain metastases frequently develop neurological problems including cognitive impairments and seizures. We previously demonstrated accumulation of activated microglia around the tumour site in a breast cancer brain metastasis model, which co-localised with spontaneously occurring local field potential events that resembled interictal epileptic discharges. However, the mechanisms underlying these spatially restricted effects on neuronal excitability are poorly understood.MethodsTo better understand the underlying cellular changes and potential mechanisms, we used digital spatial profiling of brain cell subtype-specific markers to chart the spatial organisation of neurons, oligodendrocytes, astrocytes, and microglia in relation to metastatic lesion site. We developed a novel chordline-based approach to analyse these spatial changes in biomarker distribution.ResultsSeveral protein markers associated with proliferation (Ki67), astrocytes (GFAP) and microglia (CD11b, IBA1, CD45, MSR1) were upregulated in the tumour compared to healthy contralateral brain parenchyma. In contrast, some neuroglial markers (MAP2, Neurofilament light, NeuN, S100B and TMEM119) were lower in the lesion compared to normal tissue.ConclusionsOverall, the protein marker changes in the lesion are indicative of neuronal cell loss and changes in the immune microenvironment of the metastatic lesion involving activated microglia, astrocytes and recruitment of peripheral immune cells. Such cellular changes may contribute to the changes in electrical activity resulting from brain metastases observed in mice and patients.
Ion-kinetic-energy sampling in a 22-pole trap using ring-electrode evaporation
Authors: Jiménez-Redondo Miguel , Gerlich Dieter , Caselli Paola , Jusko Pavol 
Published: January 2025

We present an experimental method for the characterization of the kinetic energies of ions confined in a 22-pole radio frequency trap by inducing a small potential barrier using the surrounding ring electrodes, allowing the selective extraction of ions. Energy sampling experiments have been performed on buffer-gas thermalized He+ ions at trap temperatures between 10 and 180 K, resulting in distinct extraction curves as a function of the potential barrier, and a differentiated behavior depending on the escape time from the trap. The experiments are complemented by Monte Carlo simulations of the ion trajectories inside the calculated trap potential and allow us to investigate the properties of the sampling method, the role of ion motion coupling, and the impact of residual buffer-gas collisions on the observed results. The technique has also been successfully applied to identify energetic H3+ ions produced in an exothermic reaction inside the trap. Upon calibration, this method can provide relative kinetic energy distributions or be used to filter the maximum desired kinetic energy of the ions inside the trap.

Published by the American Physical Society
2025
Fermi-liquid behavior of nonaltermagnetic
RuO2
Authors: Wenzel Maxim , Uykur Ece , Rößler Sahana , Schmidt Marcus , Janson Oleg , Tiwari Achyut , Dressel Martin , Tsirlin Alexander A. 
Published: January 2025

The presence of magnetism in potentially altermagnetic RuO2 has been a subject of intense debate. Using broadband infrared spectroscopy combined with density-functional band-structure calculations, we show that the optical conductivity of RuO2, the bulk probe of its electronic structure, is best described by a nonmagnetic model. The sharp Pauli edge demonstrates the presence of a Dirac nodal line lying 45 meV below the Fermi level. An excellent match between the experimental and plasma frequencies underpins the weakness of electronic correlations. The intraband part of the optical conductivity indicates Fermi-liquid behavior with two distinct scattering rates below 150 K. Fermi-liquid theory also accounts for the temperature-dependent magnetic susceptibility of RuO2 and allows a consistent description of this material as a paramagnetic metal.

Published by the American Physical Society
2025
Measuring organisational legitimacy in Haute Cuisine restaurants: perceptions of customers, experts and news media
Authors: Dönmez Semiha Deniz , Blanco-González Alicia 
Published: January 2025

PurposeLegitimacy is the perceived appropriateness of an organisation to a social system in terms of values, norms and definitions. This research analyses how customer reviews, news media and experts’ opinions influence the legitimacy perception of high-end restaurants. The aim is to understand how collective evaluators’ opinions impact the individual legitimacy perception, linking the micro and macro levels of legitimacy. This study measures and analyses the relationships and impacts of individual (customers) and collective (experts and news media) judgments to rationalise these differences in legitimacy perceptions.Design/methodology/approachThis research was conducted through a combined analysis of the reviews published in news media, online customer review platforms and experts’ publications. This study elaborates a theoretical model using partial least squares structural equation modelling analysing 246 Michelin-starred restaurants in Spain.FindingsOur findings indicate that individual legitimacy judgments are impacted by news media but not by experts. On the contrary, experts’ evaluations positively impact news media’s evaluations. The individual legitimacy perception of the Haute Cuisine restaurant is influenced by the collective judgments of news media.Originality/valueThe novelty of this research states the application of the multi-level legitimacy theory to analyse the relationship between news media, online customer reviews and expert evaluations, thus the individual and collective legitimacy perceptions of Haute Cuisine restaurants. Additionally, this study adds to legitimacy theory by revealing the relationships of legitimacy judgments on micro and macro levels and analysing which and how audiences perceive organisational legitimacy.
Unified integration approach for bridging BIM model to 3D construction printing and scale prototyping
Authors: Sangiorgio Valentino , Floris Ignazio , Duran Dayan 
Published: January 2025

Purpose
This work aims to develop a multi-step approach for the unified integration of 3D construction printing (3DCP) and building information modeling (BIM), allowing users to easily and automatically outline the instructions for 3D printing of buildings starting from BIM model and ensuring the wide spread of this new technology in Civil Engineering sector.

Design/methodology/approach
The proposed methodology exploits Revit for 3D modeling and BIM, using Dynamo as a programming interface for generating G-code.

Findings
The paper demonstrates how the proposed methodology can extract information from a BIM model to support building construction using digital fabrication techniques. This code guides the printer’s movements and operations, specifying the path, speed, layers and essential parameters to construct concrete structures layer by layer. It transforms digital designs into precise and efficient physical structures.

Practical implications
This work allows overcoming some of the current limitations associated with bridging BIM models to 3D construction printing. The proposed approach integrates BIM and 3DCP. If the model undergoes changes in the BIM model, the proposed system allows for automatic updates in the 3D printing files. Furthermore, the possibility offered by the proposed methodology to test the G-code on a scaled model allows for the correction of any errors before printing on a large-scale machine.

Originality/value
The novelty of the proposed approach is threefold: i) A new unified integration methodology for BIM and 3D construction printing is defined; ii) An example of a 3D printed building unit is modeled with BIM, incorporating various discipline models such as Architecture, Structure, and Mechanical, Electrical, Plumbing (MEP) systems; iii) The proposed approach allows for testing the G-code at scale before printing with a full-scale machine.
How to sustain a competent and committed aging workforce: The age-differential effects of development human resource practices
Authors: Yue Lin-Yang , Huang Wei-De 
Published: January 2025

PurposeThis paper aims to reveal the nonlinear moderating effect of age on the inverted U-shaped relationship between perceived development human resource practices (DHRPs) and work-related learning with affective commitment being the mediator.Design/methodology/approachRegression models combined with the bootstrap method and multigroup analysis, and two-wave survey data from 780 Chinese employees were used to test hypotheses.FindingsThe results revealed that perceived DHRPs related to affective commitment in an inverted U pattern and affective commitment further related to work-related learning positively, which resulted in an inverted U-shaped relationship between perceived DHRPs and work-related learning. Age moderated the nature of the relationships between perceived DHRPs and both the outcomes, such that they were related negatively among younger employees but inverted U-shaped among older employees.Originality/valueThis study reveals inverted U-shaped rather than linear relationships between perceived DHRPs and employee outcomes and shows that age moderates the nature instead of the strength of the relationships.
Understanding the emerging success factors gap of accounting information systems in developing countries – a systematic literature review
Authors: Sultana Reajmin , Alam Mohammad Zahedul , Hasan Najmul 
Published: January 2025

PurposeWhile the adoption of accounting information systems (AIS) is crucial in developing countries owing to the rapidly changing business environment, the emerging factors in its successful implementation continue to be inconsistent. This systematic literature review (SLR) aims to understand the emerging factors of underlying successful AIS implementation, with a specific focus on developing countries.Design/methodology/approachA total of 70 empirical studies from 2017 to 2024 were analysed using an SLR technique. Studies including the search term “accounting information systems” OR “AIS” AND “developing countries” in their titles, keywords or abstracts were retrieved from five digital databases. The articles were analysed and synthesised using thematic analysis.FindingsThe findings revealed six key themes: (1) AIS literacy, (2) automation in AIS, (3) cloud-based AIS, (4) cultural factors, (5) environmental factors and (6) mobile accessibility and 25 subthemes.Practical implicationsA comprehensive understanding of these gaps will enable academics, policymakers and AIS professionals to make well-informed decisions and enhance the efficacy and efficiency of AIS operations.Originality/valueThe thematic analysis highlights the theoretical gaps and exposes areas where the connection between factors may be inadequate to indicate future study avenues.
Identifying categories of patient-driven health services innovation: insights from Taiwan’s health services sector
Authors: Yang Chen-Wei 
Published: January 2025

PurposeThis study aims to build a typology of patient-driven health services innovation (PDHSI) and propose their relationships with healthcare quality.Design/methodology/approachGuided by value co-creation theory (VCC), this study adopted in-depth interviews and focus groups to collect qualitative data in Taiwan’s health services sector. The collected data were analyzed using manual thematic analysis, following the standard procedures for transcribing, encoding and identifying themes. This approach allowed for a comprehensive identification of unique types of PDHSI.FindingsThis study found four types of PDHSI. They are Human-Computer Interaction Mode (HCIM), Online Social Network Mode (OSNM), Co-created Decision-Making Mode (CDM) and Channel Complementarity Mode (CCM). This study defines these typologies and explains their fundamental properties, key outcomes and important determinants. Finally, through qualitative analysis, four propositions on the relationship between health services innovation and health service quality are put forward.Practical implicationsBy constructing a patient-driven typology of health services innovation, this study helps medical institutions understand the strategic behavior of the doctor–patient relationship, to improve the quality of medical service and contribute to patient education and consulting practice.Originality/valueThis study contributes to the theoretical understanding of PDHSI by identifying and categorizing the types of such innovations. It provides a comprehensive typology that is useful for both academic research and practical application in healthcare management. This typology offers new insights into the roles of patients in co-creating healthcare services, addressing a gap in the existing literature regarding PDHSI and supporting the development of patient-centered approaches to healthcare.