bluuebunny/crossref_metadata_2025_split huggingface dataset:
Association of overweight/obesity and insulin resistance with activation of circulating innate lymphoid cells in women after gestational diabetes mellitus
Authors: Sbierski-Kind Julia , Schlickeiser Stephan , Semeia Lorenzo , Harada Saori , Pappa Eleni , Cujar Javier Villamizar , Katschke Minh-Thuy , Gar Christina , Lechner Andreas , Birkenfeld Andreas L. , Ferrari Uta , Seissler Jochen 
Published: January 2025

AbstractIntroductionWomen with a history of gestational diabetes mellitus (GDM) are at high risk of developing prediabetes or type 2 diabetes later in life. Recent studies have highlighted the regulation and function of innate lymphoid cells (ILCs) in metabolic homeostasis. However, the multifactorial impact of both overweight/obesity and GDM on the immunological profile of circulating ILCs and the progression to prediabetes are not yet fully elucidated.MethodsBlood samples from 42 women with a history of insulin-treated GDM (GDMi), 33 women with a history of GDM without insulin treatment during pregnancy (GDM), and 45 women after a normoglycemic pregnancy (Ctrl) participating in the ongoing observational PPSDiab study were analyzed by flow cytometry for markers of ILC subsets at the baseline visit (3-16 months postpartum; Visit 1) and 5 years postpartum (58-66 months postpartum; Visit 3).ResultsDuring the first 5 years postpartum, 18 women of the GDMi group (42.8%), 10 women of the GDM group (30.3%), and 8 participants of the Ctrl group (17.8%) developed prediabetes, respectively. Total circulating type 1 innate lymphoid cells (ILC1s) and NK cell numbers as well as percent HLA-DR+ILC1s were increased in GDMi versus GDM and Ctrl women both at the baseline visit and the 5-year follow-up. Although ILC subsets at Visit 1 could not predict the progression from GDM to prediabetes, ILC2 frequency was associated with insulin sensitivity index (ISI), whereas percent HLA-DR+ILC1s were inversely correlated. Moreover, circulating leukocytes and total NK cells were associated with waist circumference and fat mass both at Visit 1 and Visit 3.DiscussionOur findings introduce human ILCs as a potential therapeutic target deserving further exploration.Trial registrationStudy ID 300-11.
Differentiated HIV Service Delivery vs Conventional Care: Tuberculosis Preventive Therapy Outcomes for People Living with HIV in Sub-Saharan Africa
Authors: Johnson Ann , Chimoyi Lucy , Charalambous Salome , Kawaza Nicole , Hoffmann Chris J , Davis J. Lucian , Chihota Violet 
Published: January 2025

AbstractIntroductionDifferentiated service delivery (DSD) models, which are mechanisms of HIV care that reduce provider visits and offer varied ART delivery methods, are scaling up across sub- Saharan Africa. It is unknown how the movement of patients to DSD models impacts services beyond ART, including the uptake and completion of tuberculosis preventive therapy (TPT).MethodsUsing the RE-AIM framework, we analyzed data from Opt4TPT, a longitudinal cohort study examining TPT delivery in South Africa and Zimbabwe. We constructed multivariate logistic regression models to evaluate the association of receiving ART from a DSD model with the proportion of participants who initiated and completed TPT, as measured by electronic medication boxes. We constructed a Cox proportional hazards model to assess the association between DSD models and time to TPT initiation.ResultsAmong 1193 participants, 276 received ART through a DSD model, while 917 used the conventional model. Overall, 1035 (87%) initiated TPT, including 242 (88%) in DSD models and 793 (86%) in conventional models. Receiving ART from a DSD model was not significantly associated (OR 1.11, 95% CI 0.74-1.67, p = 0.61) with TPT initiation. DSD models had a significantly longer mean time to initiation (6.5 vs. 2.7 days, p = 0.01). Of the 731 (71%) participants with MERM box data, 356 (49%) completed TPT. Bivariate analysis showed significantly higher odds of completing TPT among those in DSD models (OR 1.53, 95% CI 1.06- 2.21, p=0.024). This association was not significant in multivariate analysis after adjusting for demographic and clinical factors (OR 0.89, 95% CI 0.58-1.36, p=0.58).ConclusionsWe found high TPT uptake in DSD and conventional models of care, indicating that TPT delivery in DSD models is feasible. We found low TPT completion in both models of care, showing a need to focus on improving TPT completion overall.
Oral Contraceptive Use Is Associated with Significant Differences in MicroRNA Cargo of L1CAM-Associated Extracellular Vesicles
Authors: Lapato Dana M. , Frye Rebekah , Yakovlev Vasily , Roberson-Nay Roxann 
Published: January 2025

AbstractOral contraceptives (OCs) are approved for use after onset of menarche, which is well before brain maturation is complete. OC use may induce biochemical changes in the brain, especially during the neurobiologically dynamic adolescent/young adult years. MicroRNA cargo in L1CAM-associated extracellular vesicles was measured from serum samples collected from young women using the miRCURY LNA miRNA Focus PCR Panel (Qiagen) and validated using quantitative PCR. Linear regression and F-tests were applied to identify differentially expressed microRNAs by OC use (never versus current), and PANTHER pathway analysis was conducted on the gene targets of significantly differentially expressed microRNAs. Twelve microRNAs had significant differential expression variability by OC use (Bonferroni adjusted p < 0.002). Pathway analysis revealed that the 1254 unique genes targeted by the significant microRNAs were most enriched for the Gonadotropin-releasing hormone receptor pathway (FDR q = 5 × 10−7), which is associated with the release of gonadotropins, pubertal development, and reproduction. The results are consistent with the hypothesis that microRNA cargo in circulating extracellular vesicles may reflect brain-related biological activity and that OC use may influence extracellular vesicle cargo composition. The significant difference in expression variability may have implications for designing future studies, including power calculations.
Hip fracture rehabilitation in hospital and community settings: A rapid review of the evidence
Authors: Spencer Llinos Haf , Doungsong Kodchawan , Albustami Mohammed , Dorkenoo Shanaz , Edwards Rhiannon Tudor , Williams Nefyn 
Published: January 2025

AbstractBackgroundProxima; femoral or hip fracture is a common problem among older adults. With an increase in patients with hip fracture comes and increase in the number of patients who require post-surgery rehabilitation. Our aim was to review effectiveness of rehabilitation after hip fracture studies.MethodsFor this rapid review (RR) four databases, PubMed, PsycInfo, CINAHL and Cochrane Library, were searched for studies published between 1stJanuary 2017 and 15thMay 2023. The population were: people with hip fracture. Interventions: any hospital or community-based hip rehabilitation. Comparisons: improvements in function, and the outcomes were: physical function, quality of life and cost.FindingsSix studies were included in this RR which focussed on hip fracture rehabilitation programmes published since 2017. The studies were conducted in North America (USA), Europe (Germany, Austria, and Switzerland) and Asia (Hong Kong and China). Some randomised controlled trials and some cohort studies found beneficial effects of rehabilitation for older people who had undergone hip replacement treatments. The length of follow-up period ranged from 15 days to one year after surgery. Even though psychological distress, including loss of confidence and frustration, was the most important predictor of depression and anxiety in patients with hip fractures, only one study assessed anxiety and depression status of patients after surgery. It was not possible to combine the results in a meta-analysis as all the studies had different follow-up periods and used different outcome measures.InterpretationThe goal of achieving personalised rehabilitation treatment is possible and this concept of goal directed personalised rehabilitation should be developed and economically evaluated further. A strength of this review is that robust, recent, and relevant papers regarding rehabilitation following hip replacement were found and described. However, the main limitations were that none of the included studies conducted a cost-analysis of the intervention that they described, and no UK based study was included.
Functionally enriched human polymorphisms associate to species in the chronic wound microbiome
Authors: Gabrilska Rebecca A. , Omeir Khalid , Ancira Jacob , Miller Clint , Tipton Craig D. , Rumbaugh Kendra P. , Wolcott Joseph , Noe Ashley , Subasinghe Kumudu , Rowe Megan , Phillips Nicole , Phillips Caleb D. 
Published: January 2025

ABSTRACTChronic wounds are a burden to millions of patients and healthcare providers worldwide. With rising incidence and prevalence, there is an urgent need to address non-healing wounds with novel approaches. Impaired wound healing has been shown to be associated with wound microbiota, and multiple bacterial species are known to contribute to delays in closure. Recent evidence suggests human genetics may shape differences in composition of wound microbiomes, and unraveling this relationship has important implications for understanding wound bioburden and tailoring treatment. Here, a two-stage microbiome genome wide association study (mbGWAS; n=509) was used to test effects of human genetics on the relative abundances of bacterial species detected in chronic wounds using bacterial 16S rRNA gene sequencing. Sixteen species were significantly associated to 193 genetic loci distributed across 25 non-overlapping genomic regions. No locus was associated with more than one species, with heritability estimates per species ranging up to 20%. Functional analyses on genomic regions and species resulted in overrepresentation pertaining to pathways relevant to microbial infection and wound healing, suggesting that genetic and species interactions jointly influence the wound microenvironment. Species associated to host genetics in turn exhibited significant co-occurrence relationships with common wound pathogens includingStaphylococcus aureusandFinegoldia magna. Moreover, the overall genetic distance among patients was significantly related to differences in their overall wound microbiome composition. Identification of such genetic biomarkers reveals new mechanistic insight into patient-microbiome interactions and provides an avenue to identify predictive risk factors for diagnosis and management of chronic wounds.
Evaluation of Prostaglandin Receptor Agonists and Eupatilin in the Context of Nephronophthisis
Authors: Tata Alice , Rocha Guillaume , Hureaux Marguerite , Serafin Alice , Porée Esther , Menguy Lucie , Goudin Nicolas , Cagnard Nicolas , Gréau Lilian , Fila Marc , Briseno-Roa Luis , Annereau Jean-Philippe , Saunier Sophie , Benmerah Alexandre 
Published: January 2025

AbstractBackgroundPrimary cilia are sensory antennas that are present on the majority of quiescent vertebrate cells where they mediate key signaling during development and in response to environmental stimuli. Defects in primary cilia result in a group of heterogeneous inherited disorders with overlapping phenotypes, called ciliopathies. Nephronophthisis is an autosomal recessive tubulo-interstitial kidney ciliopathy with more than 25 identified genes calledNPHP. Presently, no treatment exists beyond supportive care and kidney transplant, underscoring the need for novel therapies.MethodsUsing a phenotypic screening approach in cultured cell lines, we previously identified prostaglandin analogues as candidate therapeutic molecules based on their ability to rescue ciliogenesis defects in kidney tubular cells fromNPHP1patients. Here, we have investigated the potential beneficial effects of ROCK inhibitors and Eupatilin, similarly identified by other groups in different NPHP contexts, in kidney cells fromNPHP1andIQCB1/NPHP5patients as well as in a zebrafishNPHPmutant line (traf3ip1/ift54).ResultsEupatilin partially rescuedNPHP1-associated ciliogenesis defects. Transcriptomic analyses pointed out that cell cycle progression was inhibited by Eupatilin, likely explaining its broad effects on cilia assembly. Interestingly, while ciliary defects also observed inNPHP5patient cells were rescued by both prostaglandins and Eupatilin, only prostaglandin analogues were able to reduce pronephric cysts size in the usednphpzebrafish model.ConclusionOur study indicates that these molecules can show beneficial effects across genetic contexts and shed light on their potential as therapeutic interventions for nephronophthisis.
Ribosomal protein phylogeography offers quantitative insights into the efficacy of genome-resolved surveys of microbial communities
Authors: Schechter Matthew S. , Trigodet Florian , Veseli Iva A. , Miller Samuel E. , Klein Matthew L. , Sever Metehan , Maignien Loïs , Delmont Tom O. , Light Samuel H. , Eren A. Murat 
Published: January 2025

AbstractThe increasing availability of microbial genomes is essential to gain insights into microbial ecology and evolution that can propel biotechnological and biomedical advances. Recent advances in genome recovery have significantly expanded the catalogue of microbial genomes from diverse habitats. However, the ability to explain how well a set of genomes account for the diversity in a given environment remains challenging for individual studies or biome-specific databases. Here we present EcoPhylo, a computational workflow to characterize the phylogeography of any gene family through integrated analyses of genomes and metagenomes, and our application of this approach to ribosomal proteins to quantify phylogeny-aware genome recovery rates across three biomes. Our findings show that genome recovery rates vary widely across taxa and biomes, and that single amplified genomes, metagenome-assembled genomes, and isolate genomes have non-uniform yet quantifiable representation of environmental microbes. EcoPhylo reveals highly resolved, reference-free, multi-domain phylogenies in conjunction with distribution patterns of individual clades across environments, providing a means to assess genome recovery in individual studies and benchmark biome-level genome collections.
Computational design of toehold switches in eukaryotes and prokaryotes for efficient post-transcriptional control
Authors: Landau Yehuda , Arbel Matan , Benarroch Daniel , Klein Jonathan Yoni , Moree Efi , Tuller Tamir 
Published: January 2025

AbstractThe potential to design RNA molecules implementing translational regulated synthetic networks in eukaryotic cells can be harnessed to ramp up the development of various applications in biotechnology, synthetic biology, agriculture and personalized precision therapeutics. In prokaryotes, RNA based translation activation Toehold switches were demonstrated to achieve high fold change in throughput of a desired expression gene in response to different levels of both exogenous and endogenous target trigger RNA molecules. However, low fold changes were reported for such switches applying similar design architecture for eukaryotes. We developed Triggate, a computational pipeline which implements different algorithms for the efficient design and generation of higher on/off ratio optimized toehold switches in prokaryotes and eukaryotes. We also present here a new design architecture for eukaryotic toehold switches which is leaner and simpler. Using our tool and new architecture we report results with a much higher on/off ratio (up to around 13) than achieved before for mRNA toehold switches for eukaryotes.Triggate is available as a web application athttp://www.cs.tau.ac.il/~tamirtul/Triggate.
Detection of Iron Protein Supercomplexes inPseudomonas aeruginosaby Native Metalloproteomics
Authors: Saito Mak A. , McIlvin Matthew R. 
Published: January 2025

AbstractPseudomonas aeruginosais a major contributor to infections in humans and is widely distributed in the environment. It is capable of aerobic and anaerobic growth, providing adaptability to environmental changes and in confronting immune responses. We applied high-throughput native 2-dimensional metalloproteomics toP. aeruginosaunder oxic and anoxic conditions. Clear changes were observed in response to low O2, including inducing the denitrification pathway and a variety of metal responsive proteins. The iron metalloproteome revealed four major iron peaks comprised of proteins with similar or synergistic functions: 1) respiratory and metabolic enzymes, 2) oxidative stress response enzymes, 3) DNA synthesis and nitrogen assimilation enzymes, and 4) denitrification enzymes and related copper enzymes. Three ferritins were observed in the metalloproteome and were coordinating with iron peaks 1 and 3. A number of metalloenzymes were more abundant at low oxygen, including: alkylhydroperoxide reductase C to deactivate organic radicals caused by denitrification, all three classes of ribonucleotide reductases, ferritin (increasing in ratio relative to bacterioferritin), and numerous denitrification enzymes. Superoxide dismutase and homogentisate 1,2-dioxygenase were more abundant at high oxygen. The four Fe peaks contained multiple iron metalloproteins of varying size, implying the presence cytosolic super protein complexes with related functions and dedicated iron storage. This also implies a cellular organization at the protein complex level optimized for metal trafficking and priotization. Together these results provide insight into the cytosol metallome and its response to oxygen and demonstrate the emerging capabilities of metalloproteomic methods in understanding metal use and protein-protein interactions in biological systems.Graphical AbstractThe iron metalloproteome ofPseudomonas aeruginosawas examined using native (non-denaturing) 2- dimensional chromatographic separation coupled to elemental and proteomic mass spectrometries. Four major iron peaks were observed that corresponded to multi-protein complexes associated with respiratory, antioxidant, DNA production, and denitrification functions, and associated iron storage and supply. The results demonstrate the complex adaptations this microbe has regarding iron homeostasis and trafficking.
Impact of buyer and competition pressure on supplier manufacturing automation implementation and workforce upskilling: the moderating role of top management support
Authors: Uddin Mohammed Belal , Jayaram Jayanth 
Published: January 2025

PurposeThis study examines the impact of buyer pressure and competition pressure on supplier manufacturing automation (MA) implementation and the influence of supplier MA implementation on workforce upskilling. This study also investigates the moderating role of top management support on the association between buyer pressure-supplier MA implementation, competition pressure-supplier MA implementation and supplier MA implementation workforce upskilling.Design/methodology/approachGrounded in stakeholder theory and a resource-based view, this study uses structural equation modeling and hierarchical regression analysis to test the hypotheses. A close-ended questionnaire was used to collect data from 201 readymade garment firms in Bangladesh.FindingsResults indicate that buyer and competition pressure influence supplier MA implementation. Supplier MA implementation provides opportunities to enhance workforce skill levels. Additionally, firms with top management support deal better with buyers and competition pressures on MA implementation. However, top management support does not boost workforce skill levels as influenced by MA implementation.Originality/valueTo the authors’ knowledge, ours is the first investigation linking buyer pressure and competition pressures to supplier MA implementation. Supplier MA implementation influencing workforce upskilling is also a novel aspect of this investigation. This study found a moderating effect of top management support on the association between buyer pressure-supplier MA implementation and competition pressure-supplier MA implementation. Moreover, stakeholder theory has been extended by including competitors and top management as crucial stakeholders. This study also contributed to the resource-based view by categorizing MA implementation as a capability and workforce upskilling as a resource.
Retirement status change, social support and life satisfaction among older adults: differences by household income level
Authors: Lim HanNa , Lee Jae Min , Fan Lu 
Published: January 2025

PurposeThis study examines the relationship between changes in retirement status and social support and their associations with the life satisfaction of older adults, with a focus on potential differences across income levels.Design/methodology/approachWe analyzed various work-retirement pathways using retirement status data from two waves (2016 and 2018) of the biennial Health and Retirement Study. We examined the relationship between these pathways and life satisfaction, incorporating social support from close relationships, including those with a spouse or partner, children, immediate family members and friends. A subgroup analysis was performed based on household income levels.FindingsThe study found that completely or partially retired individuals reported higher life satisfaction than those who continued working. Those who had returned to work also experienced higher life satisfaction, particularly among the low-income group. Among the middle-income group, individuals transitioning toward retirement reported greater life satisfaction than those still working. Across all subgroups, closeness with a spouse or partner and having close friends were positively related to life satisfaction. However, a lack of close relationships with immediate family members was linked to lower life satisfaction in the low- and middle-income groups, though this was not found in the high-income group.Originality/valueThese findings have theoretical, policy, and practical implications for older populations, mainly retirees or those nearing retirement. The study suggests strategies to assist older adults in navigating diverse retirement pathways, such as fostering strong social connections and offering flexible or phased retirement programs to ease the transition.