Search Results (656)

Three novel Aeromonas phages vB_AerVS_332-Yuliya, vB_AerVM_332-Vera, and vB_AerVM_332-Igor and their host Aeromonas veronii CEMTC7594 were found in the same water + sediments sample collected in a freshwater pond. Complete genome sequencing indicated that vB_AerVS_332-Yuliya (43,584 bp) is a siphophage, whereas vB_AerVM_332-Vera (294,685 bp) and vB_AerVM_332-Igor (237,907 bp) are giant phages. The host strain can grow at temperatures from 5 °C to 37 °C with an optimum of 25–37 °C; siphophage vB_AerVS_332-Yuliya effectively reproduced at temperature ≤ 25 °C, the optimal temperature for giant phage vB_AerVM_332-Igor was 25 °C, and giant phage vB_AerVM_332-Vera infected host cells at 5–10 °C. The genomes of these phages differed significantly from known phages; their level of nucleotide identity and values of intergenomic similarity with the corresponding neighboring phages indicated that each of these phages is a member of a new genus/subfamily. Giant phage vB_AerVM_332-Vera is a member of the proposed Chimallinviridae family, which forms Cluster D of giant phages that possibly evolved from phages with shorter genomes. Giant phage vB_AerVM_332-Igor is part of Cluster E, the known members of which preserve the size of genomes. Phages from Cluster F, containing Aeromonas phages among others, show a gradual decrease and/or increase in genomes during evolution, which indicates different strategies for giant phages. Full article

Chronic kidney disease (CKD)-associated anemia is a global health concern and is linked to vascular and ocular complications. Hypoxia-inducible factor (HIF) stabilizers, or HIF prolyl hydroxylase inhibitors (PHIs), are promising candidates for the treatment of CKD-associated anemia. Since hypoxia and angiogenesis are involved in eye diseases, this study examined the effects of HIF-PHIs on metabolism and gene expression in retinal pigment epithelium (RPE) cells. Results revealed that PHIs differentially induced angiogenic (VEGFA, ANG) and glycolytic (PDK1, GLUT1) gene expression, with Roxadustat causing the strongest transcriptional changes. However, Roxadustat-induced angiogenic signals did not promote endothelial tube formation. Moreover, it did not induce oxidative stress, inflammation, or significant antioxidant gene responses in ARPE-19 cells. Roxadustat also reduced the inflammatory cytokine response to tumor necrosis factor-α, including IL-6, IL-8, and MCP-1, and did not exacerbate VEGF expression under high-glucose conditions. Overall, Roxadustat triggered complex gene expression changes without promoting inflammation or oxidative stress in RPE cells. Despite these findings, ophthalmologic monitoring is advised during PHI treatment in CKD patients receiving HIF-PHIs. Full article

The utilization of iron tailings in road construction poses significant environmental risks due to the complex release mechanisms of pollutants and varying regional conditions. This study integrates an exponential decay model with an instantaneous pollutant transport model, employing Monte Carlo simulations to assess risks and regional characteristics. Results show high Potential Hazard Indices (PHIs) for arsenic, manganese, barium, nickel, and lead, with PHI values between 4.2 and 22.7. Simulations indicate that manganese and nickel concentrations may exceed groundwater standards, particularly in humid areas. The study recommends controlling the iron tailings mixing ratio based on climate, suggesting limits of 35% in humid, 60% in semi-humid, and more lenient ratios in arid and semi-arid regions. It also underscores the need for improved risk assessment methodologies and region-specific management strategies at the national level. Full article

The rising incidence of microplastics (MPs) is a possible health risk to humans. The present study aims to analyze the presence of MPs in intravenous (IV) infusions and compare MP concentrations from multiple brands. The IV solutions of 29 medical devices (IV-MDs) from seven brands commercialized in Ecuador, Spain, and Italy have been selected under specific consideration to carry out the study. The detection of MPs has been quite obvious in almost all of the samples from brands in the mentioned countries. MP concentrations ranged from 9 to 20 MPs/L in glass containers to 166–299 MPs/L in plastic bags, with the majority of fragments (63%) on fibres (37%) and more than 60% of particles less than 100 µm. Nine different types of MPs were identified in this study. High clinical risk was indicated by markings with >200 MPs/L. Nevertheless, the medium polymeric danger index (PHI) was 1.7. According to these outcomes, IV infusion is a direct exposure to MPs that may have harmful medical repercussions. It is imperative that MPs’ limitations be included in pharmacopoeic monographs and in vivo toxicological and epidemiological studies. The present study aims to analyze the presence of MPs in IV-MDs and compare MP concentrations from multiple IV-MD brands. Full article

Automating candidate shortlisting is a non-trivial task that stands to benefit substantially from advances in artificial intelligence. We evaluate a suite of foundation models such as Llama 2, Llama 3, Mixtral, Gemma-2b, Gemma-7b, Phi-3 Small, Phi-3 Mini, Zephyr, and Mistral-7b for their ability to predict hiring outcomes in both zero-shot and few-shot settings. Using only features extracted from applicants’ submissions, these models, on average, achieved an AUC above 0.5 in zero-shot settings. Providing a few examples similar to the job applicants based on a nearest neighbor search improved the prediction rate marginally, indicating that the models perform competently even without task-specific fine-tuning. For Phi-3 Small and Mixtral, all reported performance metrics fell within the 95% confidence interval across evaluation strategies. Model outputs were interpreted quantitatively via post hoc explainability techniques and qualitatively through prompt engineering, revealing that decisions are largely attributable to knowledge acquired during pre-training. A task-specific MLP classifier trained solely on the provided dataset only outperformed the strongest foundation model (Zephyr in 5-shot setting) by approximately 3 percentage points on accuracy, but all the foundational models outperformed the baseline model by more than 15 percentage points on f1 and recall, underscoring the competitive strength of general-purpose language models in the hiring domain. Full article

Ultraviolet (UV) radiation can be used to inactivate microorganisms, with upper-room UV germicidal irradiation (UR-UVGI) representing a promising approach. This study investigated the inactivation of the airborne surrogate virus Phi6 by a UR-UVGI system based on light-emitting diodes (LEDs) in a realistic test setup. Two test scenarios were used, one with continuous Phi6 release, simulating a source located in the room and leading to a dynamic equilibrium, and the second simulating a situation in which the source has left the room and an exponential decay is evaluated. The “Incremental Evaluation Model” was adapted and used to evaluate the dynamic equilibrium measurement. At a position in the breathing direction 5 m away from the Phi6 source, the loss coefficient (air exchange rate) was 25 h⁻¹ in the first scenario and 30 h⁻¹ in the second. These results show that UR-UVGI systems can effectively inactivate microorganisms. However, at 1 m distance from the Phi6 source perpendicular to the breathing direction, only minimal inactivation was observed due to short-circuit airflow. At this position, the loss coefficient was <2 h⁻¹ in the first scenario and 17 h⁻¹ in the second scenario, indicating that short-circuit airflows can only be detected by dynamic equilibrium measurements. Full article

Background and Objectives: Bell’s palsy, characterized by acute idiopathic facial nerve paralysis, exhibits variable recovery outcomes influenced by treatment timing, modality, and patient comorbidities. This study aimed to compare the effectiveness of corticosteroid-based treatment (Ear, Nose, and Throat [ENT]), nerve blocks/physical therapy (Pain Medicine), and acupuncture/herbal medicine (Traditional Korean Medicine [KM]) and identify predictors of recovery and recurrence. This retrospective cohort study leverages South Korea’s pluralistic healthcare system, where patients choose specialties, to provide novel insights into departmental treatment outcomes. Materials and Methods: We analyzed 600 patients treated within 72 h of Bell’s palsy onset (2010–2024) at Wonkwang University Hospital, South Korea, using propensity score matching (PSM) (1:1:1) for age, sex, comorbidities, and initial House–Brackmann (HB) grade. The primary outcome was complete recovery (HB grade I) at 6 months; secondary outcomes included recovery time, recurrence, complications, and patient satisfaction. Multivariate logistic regression identified predictors. Results: The ENT group achieved the highest complete recovery rate (87.5%, phi = 0.18) versus Pain Medicine (74.0%) and KM (69.5%) (p < 0.001), with the shortest recovery time (4 weeks, Cohen’s d = 0.65 vs. KM). Synkinesis was lowest in the ENT group (6.0%). ENT treatment (OR: 1.75; 95% CI: 1.29–2.37) and early corticosteroid application (OR: 1.95; 95% CI: 1.42–2.68) predicted recovery. Hypertension (OR: 4.40), hyperlipidemia (OR: 8.20), and diabetes (OR: 1.40) increased recurrence risk. Subgroup analyses showed that ENT treatment was most effective for severe cases (HB grade IV: 90% recovery vs. 65% in KM, p < 0.01). Conclusions: Corticosteroid-based treatment (ENT) yielded superior recovery outcomes. Comorbidity management is critical for recurrence prevention. Early ENT referral and integrated care models are recommended to optimize outcomes in diverse healthcare settings. Full article

This study presents a robust numerical framework for evaluating the upper-bound ultimate bearing capacity of shallow foundations in cohesive and C-phi soils using a self-developed finite element method. The model incorporates multi-segment zero-thickness interface elements to accurately simulate soil discontinuities and progressive failure mechanisms, based on the Mohr–Coulomb failure criterion. In contrast to optimization-based methods such as discontinuity layout optimization (DLO) or traditional finite element limit analysis (FELA), the proposed approach uses predefined failure mechanisms to improve computational transparency and efficiency. A variety of geometric failure mechanisms are analyzed, including configurations with triangular, circular, and logarithmic spiral slip surfaces. Particular focus is given to the transition zone, which is discretized into multiple blocks to enhance accuracy and convergence. The method is developed for two-dimensional problems under the assumption of elastic deformable-plastic behavior and homogeneous isotropic soil, with limitations in automatically detecting failure mechanisms. The proposed approach is validated against classical theoretical solutions, demonstrating excellent agreement. For friction angles ranging from 0° to 40°, the computed bearing capacity factors N_c and N_q show minimal deviation from the analytical results, with errors as low as 0.04–0.19% and 0.12–2.43%, respectively. The findings confirm the method’s effectiveness in capturing complex failure behavior, providing a practical and accurate tool for geotechnical stability assessment and foundation design. Full article

Background/Objectives: Clostridioides difficile is a “One Health” pathogen and a cause of antibiotics-associated diarrhea and pseudomembranous colitis. Mobile genetic elements (MGEs) have been documented in the genomes of clinical C. difficile strains; however, the presence of MGEs in environmental strains remains poorly characterized. Thus, the present study was conducted with the objective of identifying the prevalence of MGEs, including mobilizable transposons (MTns), conjugative transposons (CTns), plasmids, and insertion sequences, in whole genome sequences (WGSs) of environmental C. difficile isolates. Methods: The analysis of MGEs was conducted using 166 WGSs obtained from C. difficile strains isolated from various environmental sources contaminated with feces. The MGEs were identified using bioinformatic tools. Results: A total of 48.2% (80/166) of the studied genomes were identified to harbor nine transposons, including Tn916, Tn6194-like, Tn5397, Tn6215, Tn4001, Tn6073, Tn6110, Tn6107, or Tn5801-like. The majority of MTns and CTns could be found within C. difficile sequence types ST11, ST3, and ST35. The results demonstrated close genetic relatedness among the studied genomes, the array of antimicrobial resistance (AMR) genes, such as tetM, ermB, and aac(6′)-aph(2″), and the presence of CTns. Furthermore, the analysis revealed that 24.7% (41/166) of the genome sequences of isolates were associated with various predominant plasmid groups, including pCD6, pCD-ECE4-6, pCD-WTSI1-4, pCDBI1, and pCd1_3, which belonged to 16 different sequence types. Furthermore, several plasmids were identified as harboring the prophage phiCDHM19. Conclusions: The results of the current study suggest that the identified plasmids are abundant and may encode functions that are relevant to C. difficile physiology. The genomes of C. difficile strains examined contain closely related CTns, suggesting that horizontal transfer of AMR is important in this species or other bacterial species. Further research is required to ascertain the effect of these genetic elements and their transferability on the biology of C. difficile. Full article

Background/Objectives: Neurodevelopmental disorders (NDDs) represent a clinically diverse group of conditions that affect brain development, often leading to varying degrees of functional impairment. Many NDDs, particularly syndromic forms, are caused by genetic mutations affecting critical cellular pathways. Ribosomopathies, a subgroup of NDDs, are linked to defects in ribosomal function, including those involving the synthesis of diphthamide, a post-translational modification of translation elongation factor 2 (eEF2). Loss-of-function (LoF) mutations in genes involved in diphthamide biosynthesis, such as DPH1, DPH2, and DPH5, result in developmental delay (DD), intellectual disability (ID), and multisystemic abnormalities. DPH5-related diphthamide deficiency syndrome has recently been reported as an ultrarare disorder linked to LoF mutations in DPH5, encoding a methyltransferase required for diphthamide synthesis. Methods: Clinical, neurological, and dysmorphological evaluations were performed by a multidisciplinary team. Brain MRI was acquired on a 3T scanner. Craniofacial abnormalities were assessed using the GestaltMatcher phenotyping tool. Whole exome sequencing (WES) was conducted on leukocyte-derived DNA with a trio-based approach. Bioinformatic analyses included variant annotation, filtering, and pathogenicity prediction using established databases and tools. Results: The affected subject carried a previously reported missense change, p.His260Arg, suggesting the occurrence of genotype–phenotype correlations and a hypomorphic behavior of the variant, likely explaining the overall milder phenotype compared to the previously reported patients with DPH5-related diphthamide deficiency syndrome. Conclusions: Overall, the co-occurrence of short stature, relative macrocephaly, congenital heart defects, variable DD/ID, minor skeletal and ectodermal features, and consistent craniofacial features suggests a differential diagnosis with Noonan syndrome and related phenotypes. Full article

Large language models (LLMs) are trained on huge datasets, which allow them to answer questions from various domains. However, their expertise is confined to the data that they were trained on. In order to specialize LLMs in niche domains like healthcare, various training methods can be employed. Two of these commonly known approaches are retrieval-augmented Generation and model fine-tuning. Five models—Llama-3.1-8B, Gemma-2-9B, Mistral-7B-Instruct, Qwen2.5-7B, and Phi-3.5-Mini-Instruct—were fine-tuned on healthcare data. These models were trained using three distinct approaches: retrieval-augmented generation (RAG) alone, fine-tuning (FT) alone, and a combination of both (FT+RAG) on the MedQuAD dataset, which covers a wide range of medical topics including disease symptoms, treatments, medications, and more. Our findings revealed that RAG and FT+RAG consistently outperformed FT alone across most models, particularly LLAMA and PHI. LLAMA and PHI excelled across multiple metrics, with LLAMA showing superior overall performance and PHI demonstrating strong RAG/FT+RAG capabilities. QWEN lagged behind in most metrics, while GEMMA and MISTRAL showed mixed results. Full article

Objectives: to assess the ability of high-performing open-weight large language models (LLMs) in extracting key radiological features from prostate MRI reports. Methods: Five LLMs (Llama3.3, DeepSeek-R1-Llama3.3, Phi4, Gemma-2, and Qwen2.5-14B) were used to analyze free-text MRI reports retrieved from clinical practice. Each LLM processed reports three times using specialized prompts to extract (1) dimensions, (2) volume and PSA density, and (3) lesion characteristics. An experienced radiologist manually annotated the dataset, defining entities (Exam) and sub-entities (Lesion, Dimension). Feature- and physician-level performance were then assessed. Results: 250 MRI exams reported by 7 radiologists were analyzed by the LLMs. Feature-level performances showed that DeepSeek-R1-Llama3.3 exhibited the highest average score (98.6% ± 2.1%), followed by Phi4 (98.1% ± 2.2%), Llama3.3 (98.0% ± 3.0%), Qwen2.5 (97.5% ± 3.9%), and Gemma2 (96.0% ± 3.4%). All models excelled in extracting PSA density (100%) and volume (≥98.4%), while lesions’ extraction showed greater variability (88.4–94.0%). LLMs’ performance varied among radiologists: Physician B’s reports yielded the highest mean score (99.9% ± 0.2%), while Physician C’s resulted in the lowest (94.4% ± 2.3%). Conclusions: LLMs showed promising results in automated feature-extraction from radiology reports, with DeepSeek-R1-Llama3.3 achieving the highest overall score. These models can improve clinical workflows by structuring unstructured medical text. However, a preliminary analysis of reporting styles is necessary to identify potential challenges and optimize prompt design to better align with individual physician reporting styles. This approach can further enhance the robustness and adaptability of LLM-driven clinical data extraction. Full article

This paper presents a comprehensive synchronic and diachronic analysis of the Sino-Vietnamese negative prefixes bất (Chinese 不 bù), vô (無 wú), and phi (非 fēi), examining their historical development and modern usage in Vietnamese, with a comparative perspective on their Chinese equivalents. By investigating the interaction between these prefixes and Vietnamese sentential negators—such as the native chẳng and the Chinese-derived không—the study explores the evolution of negation in Vietnamese over several centuries. The research draws on a corpus of three bilingual Classical Chinese–Vietnamese translations of Confucius’s Analects from the 17th, 19th, and 21st centuries, two written in traditional Nôm script and one in the modern Quốc ngữ alphabet. This corpus provides valuable insights into linguistic shifts driven by language contact in Vietnam. The findings reveal that in the 17th century, the Sino-Vietnamese prefixes bất, vô, and phi were largely absent, with native chẳng dominating. By the 19th century, chẳng persisted, but không emerged as a sentential negator, and bất appeared, both reflecting Chinese forms and demonstrating innovative uses. In the 21st century, không became the dominant negator, with bất and vô seeing increased usage, reflecting broader trends of linguistic modernization. This study situates these changes within the broader context of 20th-century East Asian literacy expansion, where Japan played a pivotal role in disseminating modernized Chinese-based vocabulary. By examining the selective adaptation and integration of Sino-Vietnamese elements, this paper contributes to a deeper understanding of language contact, syntactic influence, and lexical innovation in the evolving Vietnamese lexicon. Full article

Prostate cancer remains a major global health challenge, ranking as the second most common malignancy in men worldwide. Advances in diagnostic and therapeutic strategies have transformed its management, enhancing patient outcomes and quality of life. This review highlights recent breakthroughs in imaging, including multiparametric MRI and PSMA-PET, which have improved cancer detection and staging. Biomarker-based diagnostics, such as PHI and 4K Score, offer precise risk stratification, reducing unnecessary biopsies. Innovations in treatment, including robotic-assisted surgery, novel hormone therapies, immunotherapy, and PARP inhibitors, are redefining care for localized and advanced prostate cancer. Artificial intelligence (AI) and machine learning (ML) are emerging as powerful tools to optimize diagnostics, risk prediction, and treatment personalization. Additionally, advances in radiation therapy, such as IMRT and SBRT, provide targeted and effective options for high-risk patients. While these innovations have significantly improved survival and minimized overtreatment, challenges remain in optimizing therapy sequencing and addressing disparities in care. The integration of AI, theranostics, and gene-editing technologies holds immense promise for the future of prostate cancer management. Full article

Pseudomonas aeruginosa is a gram-negative opportunistic pathogen that poses a significant threat due to its increasing multidrug resistance, particularly in clinical settings. This study aimed to isolate and characterize a novel bacteriophage, phiLCL12, from hospital wastewater and evaluate its potential in combination with antibiotics to combat P. aeruginosa infections and biofilm formation. Transmission electron microscopy revealed that phiLCL12 possesses a long contractile tail. The isolated phage exhibited a broad host range of 82.22% and could adsorb up to 98% of its target within 4 min. It was effective against multidrug-resistant strains at both high and low multiplicities of infection (MOIs) levels in lysis tests. Taxonomic classification was determined using PhaGCN2 and Whole genomic analysis, and the results identified phiLCL12 as a member of the Pbunavirus. In vitro experiments demonstrated that phiLCL12 significantly enhanced biofilm clearance and inhibited biofilm formation when combined with sub-inhibitory concentrations of imipenem. Furthermore, in vivo experiments using a zebrafish model showed that phage–antibiotic synergy (PAS) improved survival rate compared to antibiotic treatment alone. This study demonstrates that phiLCL12 is effective in both eradicating and preventing P. aeruginosa biofilm formation. The combination of phiLCL12 and imipenem provides a synergistic effect, significantly enhancing survival outcomes in a zebrafish model. These findings highlight the potential of phage–antibiotic synergy as a promising therapeutic strategy against biofilm-associated infections. Full article