bluuebunny/crossref_metadata_2025_split huggingface dataset:
The role of polyreactive memory B cells in systemic lupus erythematosus
Authors: Fujio Keishi , Ushijima Toshiyuki , Okamura Tomohisa , Ota Mineto 
Published: November 2024

Abstract
In systemic lupus erythematosus (SLE), the production of autoantibodies is a crucial characteristic, and B cells play a significant role in its pathogenesis. B cells are the immune cells most associated with the genetic predispositions of SLE, and recent clinical studies showing that anti-CD19 chimeric antigen receptor (CAR)-T cell therapy induces drug-free remission have underscored the importance of B cells in SLE. Meanwhile, various B-cell subsets exist across different stages of differentiation, from naive B cells to plasma cells, and identifying the important subpopulations within SLE remains a critical future challenge. Years of B-cell repertoire analyses have revealed the importance of polyreactive B-cell receptors (BCRs) and autoantibodies that react to various self-antigens and microbial antigens. Particularly, memory B cells with polyreactive BCRs, which play a crucial role in biological defense during the fetal stage, are characteristically differentiated in SLE. Type I interferon-mediated expression of CXCL13 and IL-21 in CD4+ T cells is associated with the development of polyreactive memory B cells. The expansion of the polyreactive B-cell repertoire, vital for defending against infections such as viruses, may exert an intrinsic function in SLE.
Performance Characteristics of a Calculated Index Control Method for the phi Multianalyte Assay with Algorithmic Analysis
Authors: Ewaisha Radwa , Flieth Tifani L , Ness Karl M , Algeciras-Schimnich Alicia , Bornhorst Joshua A 
Published: November 2024

Abstract

Background
Multianalyte assays with algorithmic analysis (MAAAs), such as the Prostate Health Index (phi), are increasingly utilized for generating disease risk scores. Currently, imprecision and bias in phi are not directly monitored by quality control (QC) assessment of the index but rather by QC assessment of individual components. This may not be adequately controlling for imprecision and bias in the calculated multicomponent phi value itself.

Methods
Inter- and intra-assay phi precision was compared to precision of the individual component assays. QC measurements from total prostate-specific antigen (PSA), free PSA, and p2PSA were used to calculate a single calculated phi QC metric (PHIc). The frequency of QC failure of PHIc, relative to individual components QC by Westgard rules (13S and 22S), was determined. The effects of varying analyte component assay bias on the resulting PHIc metric were also examined.

Results
Average measured phi imprecision (6.7% CV) was higher than individual phi analyte component imprecision (3.9–4.5% CV) across 2 Beckman Coulter Unicel DxI 800 instruments. A retrospective examination of PHIc QC over 84 quality control determinations was concurrently carried out for both PHIc and component assay failure patterns, which were dependent on SDs utilized for Westgard evaluation. Finally, reinforcing nonlinear changes in PHIc were observed in select cases of introduced simulated bias of individual component measurements.

Conclusions
An additional calculated phi QC measure can be introduced to monitor MAAA precision/bias, and in principle calculated index controls may represent a complementary supplemental QC method that could be applied to other MAAA indices.
Effect of Hemolysis on Routine Blood Gas and Whole Blood Analytes
Authors: Agana Bernice A , Overton Brian , Florendo Katherine , Knezevic Claire E 
Published: November 2024

Abstract

Background
Hemolysis is a major pre-analytical concern for many laboratory analytes; however, instruments utilized for whole blood chemistries and blood gas measurements lack the ability to detect and measure the degree of hemolysis. This study evaluated the effect of hemolysis on 13 routine whole blood and blood gas analytes and compared visual assessments of hemolysis to measured hemolysis (H-index).

Methods
Remnant whole blood samples (n = 85) were split into 2 portions and aspirated through a syringe one or more times. To induce hemolysis, a needle was affixed to the end of the syringe to provide shear stress, and a mock procedure without syringe was used as a control. Samples were analyzed on a Radiometer ABL800 series instrument, centrifuged, and the H-index of the plasma portion was measured. Two medical technologists recorded a visual categorization of the specimens as slightly, moderately, or severely hemolyzed.

Results
Hemolysis had a modest effect on metabolites and most cooximetry components, with percent bias within ±5% at all levels of hemolysis. Methemoglobin exhibited a larger overall negative bias, up to 13.3%. The absolute pH bias was fairly consistent (within 0.1 pH units) across all levels of hemolysis. As expected, potassium displayed a significant positive bias with increasing hemolysis. Sodium and ionized calcium displayed overall linear trends with a significant negative bias.

Conclusions
Hemolysis can falsely increase or decrease certain blood gas analytes and lead to misinterpretation of results. Therefore, hemolysis detection capabilities are crucial for mitigating this effect and ensuring accurate results for patient care.
Antibacterial activity and mechanism of rose essential oil against Aeromonas veronii isolated from Northern snakehead (Channa argus)
Authors: Zhang Kai , Wang Xiaolei , Rong Hui , Yang Wenjing , Liang Xinxin , Liu Yunguo , Lin Xiangna , Sui Zhihai 
Published: November 2024

Abstract

Aims
To investigate and identify the antibacterial action and mechanism of rose essential oil (REO) against Aeromonas veronii isolated from Northern snakehead for the first time by the phenotypic and metabolic analysis.

Methods and results
The 2-fold broth microdilution and spread-plate method identified that the minimum inhibitory concentration and minimum bactericidal concentration of REO against A. veronii were 1.25 μl ml−1 and REO impaired the growth in a concentration-dependent manner, indicating that REO possessed a significant bacteriostatic activity. Electron microscopy and live-dead cell staining found that REO caused a severe disruption of cellular morphology and increased the membrane permeability. Additionally, REO treatment induced the leakage of intracellular biomolecules such as proteins and nucleic acids from the bacteria. Metabolomics analysis showed that compared with the control, the REO treatment group exhibited a total of 190 differential metabolites (118 down-regulated and 72 up-regulated), which involved in the main metabolic pathways such as biotin metabolism, arginine biosynthesis, glutathione metabolism, lysine degradation, and histidine metabolism and the TCA cycle. These results verified that REO disturbed the metabolic processes of A. veronii to achieve the bacteriostatic effect.

Conclusion
The rose essential oil exhibited the effective antibacterial activity against A. veronii via breaking the cellular structure, increasing the membrane permeation and disrupting the metabolic processes.
Linking national primary care electronic health records to individual records from the U.S. Census Bureau’s American Community Survey: evaluating the likelihood of linkage based on patient health
Authors: Limburg Aubrey , Gladish Nicole , Rehkopf David H , Phillips Robert L , Udalova Victoria 
Published: November 2024

Abstract

Objectives
To evaluate the likelihood of linking electronic health records (EHRs) to restricted individual-level American Community Survey (ACS) data based on patient health condition.

Materials and Methods
Electronic health records (2019-2021) are derived from a primary care registry collected by the American Board of Family Medicine. These data were assigned anonymized person-level identifiers (Protected Identification Keys [PIKs]) at the U.S. Census Bureau. These records were then linked to restricted individual-level data from the ACS (2005-2022). We used logistic regressions to evaluate match rates for patients with health conditions across a range of severity: hypertension, diabetes, and chronic kidney disease.

Results
Among more than 2.8 million patients, 99.2% were assigned person-level identifiers (PIKs). There were some differences in the odds of receiving an identifier in adjusted models for patients with hypertension (OR = 1.70, 95% CI: 1.63, 1.77) and diabetes (OR = 1.17, 95% CI: 1.13, 1.22), relative to those without. There were only small differences in the odds of matching to ACS in adjusted models for patients with hypertension (OR = 1.03, 95% CI: 1.03, 1.04), diabetes (OR = 1.02, 95% CI: 1.01, 1.03), and chronic kidney disease (OR = 1.05, 95% CI: 1.03, 1.06), relative to those without.

Discussion and Conclusion
Our work supports evidence-building across government consistent with the Foundations for Evidence-Based Policymaking Act of 2018 and the goal of leveraging data as a strategic asset. Given the high PIK and ACS match rates, with small differences based on health condition, our findings suggest the feasibility of enhancing the utility of EHR data for research focused on health.
Rapid Dual-Gene Detection of Burkholderia gladioli and Subspecies Cocovenenans in Fresh Noodles and Tremella Using CRISPR-Cas12a/Cas13a
Authors: Yao Xurong , Luo Mansi , Huang Jianzhao , Zhou Langjun , Zhang Binbin , Liang Zhisen , Li Xiuying 
Published: November 2024

Abstract

Background
Burkholderia gladioli pv. cocovenenans is a notable foodborne pathogen that poses a significant risk to food safety. Contaminated food requires distinct classification and treatment procedures for non-pathogenic B. gladioli and its pathogenic subspecies cocovenenans. Hence, establishing a rapid and sensitive detection method to distinguish them is necessary.

Objective
In this study, we aimed to establish a method combining the CRISPR-Cas12a/Cas13a (Clustered regularly short palindromic repeats-CRISPR associated proteins 12a and 13a) dual system with recombinase-aided amplification for rapid, specific, and sensitive detection of non-pathogenic B. gladioli and pathogenic subspecies cocovenenans in food.

Methods
First, an RAA (Recombinase-aided amplification)-CRISPR-Cas12a/Cas13a method was developed, and its feasibility was assessed. Next, specificity was analyzed using 23 strains of B. gladioli and 5 non-target strains. Following this, sensitivity was evaluated by preparing gradient dilutions of B. gladioli pv. cocovenenans bacterial solutions. Finally, real food test samples, including fresh noodles and tremella artificially contaminated with B. gladioli pv. cocovenenans, were utilized for method validation and sensitivity comparison.

Results
The established RAA-CRISPR-Cas12a/Cas13a method exhibited high specificity and achieved 100% accuracy in detecting species B. gladioli and its subspecies cocovenenans. This rapid method could be finished within 45 min with a detection limit of 100 CFU/mL (Colony-forming units per millilter) for bacterial concentration. Additionally, it achieved detection limits of 102 CFU/g for fresh noodles and 103 CFU/g for tremella.

Conclusion
The rapid RAA-CRISPR-Cas12a/Cas13a method demonstrated high specificity and sensitivity in detecting and distinguishing species B. gladioli and subspecies cocovenenans in both food test samples and post-cultivation colonies.

Highlights
The RAA-CRISPR-Cas12a/Cas13a method presented in this study offers a novel molecular approach for the rapid, accurate, and sensitive detection of B. gladioli and its subspecies cocovenenans in foods.
Outcomes of single-incision-augmented core decompression using trochanteric autograft in osteonecrosis of femoral head—a mean 5-year follow-up study
Authors: Ansari Sajid , Gupta Kshitij , Bondarde Parshwanath , Madhusudan Ch Raja Bhaskar Venkatasai , Kalia R.B 
Published: November 2024

Abstract
Osteonecrosis of femoral head (ONFH) can be a debilitating disease, for which numerous salvage surgeries have been popularized to halt its progression. The aim of this study was to assess the clinical and radiological outcomes of a single-incision core decompression (CD) technique using trochanteric autograft in ONFH and to determine the prognostic factors of treatment success. Sixty-six hips (41 patients) of Association Research Circulation (ARCO) 1 and 2 ONFH undergoing CD were included in the study with a mean follow-up of 58 months. Treatment failure was taken as radiographic collapse and/or conversion to total hip arthroplasty (THA). The following clinical and radiological factors impacting outcomes were evaluated—symptom duration, etiology, age, sex and body mass index, ARCO grade, Japanese Investigation Committee grade, modified Kerboul angle, and bone marrow edema (BME) on magnetic resonance imaging. Twenty-one of the 66 hips (31.8%) had a radiological collapse by the last follow-up, and 6 hips (9%) required THA. Overall, significant improvement in Harris hip scores (60.18 versus 80.81, P-value = .012) and visual analog scale scores (7.3 versus 1.2, P-value = .025) were noted postoperatively with no surgical complications. Late presentation (&gt;3 months) (P-value = .001) and presence of BME (P = 0.0002) were significantly correlated with poor outcomes. The 5-year collapse-free rate was 68.2%, and 91% hips were arthroplasty free. Our single-incision CD technique using a trochanteric autograft yielded favorable outcomes for precollapse stages of nontraumatic ONFH at 5-year follow-up. Delayed presentation and presence of BME are poor prognostic factors. Adequate patient selection is for achieving a good survivorship and improvement in patient-reported outcomes.
Twenty-five years of integrated pest management in Nepali agriculture: lessons, gaps, and the way forward in the context of climate change
Authors: Adhikari Subodh , Bastola Rabin , GC Yubak Dhoj , Achhami Buddhi 
Published: November 2024

Abstract
The Government of Nepal implemented a globally adopted integrated pest management (IPM) approach in the late 1990s to minimize the negative environmental effects of pesticides and keep pest damage below the economic injury level. Current farm management systems, land use patterns, heavy reliance on chemical pesticides, and climate change have exacerbated pest issues and negatively affected crop production, requiring a revisit and modification of IPM implementation for modern Nepali agriculture. In this paper, we aimed to critically assess the progress and gaps in implementing IPM over more than 25 years in Nepal. Our assessment shows that growers have been practicing a wide range of pest management tactics, such as adopting local cultivars, cultural control, biological control, behavioral and mechanical control, indigenous technology and knowledge, and mixed approaches. Despite these practices, dependencies on synthetic chemicals are continuously increasing, becoming a major tool of the current agricultural pest management toolbox. To reduce the dependence on synthetic chemicals and the subsequent negative effects of chemicals on the environment and nontarget organisms, we propose a multistep and ecosystem-centered IPM framework aiming to include multi-trophic interactions and abiotic factors in agroecosystems. To make Nepali agriculture pest-resilient and climate-smart, it is imperative to shift a paradigm in national agricultural policies and develop well-funded research and extension entities that coordinate federal, provincial, and local institutions across the country. The Government of Nepal should lead the effort in collaboration with universities and national and international researchers, private industries, and other stakeholders.
“What do you want to do?”: expertise tension and authority negotiation in emergency nurse–physician interactions
Authors: Woo DaJung , Miller Laura E , Lamsen Leonard N 
Published: November 2024

Abstract
Collaborative work represents a communicative context in which organizational actors navigate the blurring of knowledge and authority boundaries as they address complex problems. This article theorizes about expertise tension that arises when individuals with valuable insights lack corresponding authority to act, or vice versa. Using observations and interviews, we studied how physicians and nurses navigated this tension in problem-solving situations in a hospital emergency department. We found that nurses, who identified emergent problems, simultaneously asserted their situational authority and displayed a veneer of deference by asking physicians, “What do you want to do [in this situation]?” The question prompted one of three problem-solving activities (i.e., instruction by demand, reversed instruction, and collaborative improvisation) depending on the situation’s urgency and ambiguity. We discuss how nurses and physicians managed expertise tension without undermining their different claims to expertise and authority, highlighting the value of a communication-centered view in examining such dynamics.
Temporal summation of pain in sickle cell disease: comparison of adolescents and young adults with chronic vs. infrequent pain
Authors: Karlson Cynthia , Dickens Harrison , Williams-Kirkwood Wynette , Mascaro Megan , Jackson Erin , Carullo Veronica , McNaull Melissa , Morris Matthew C 
Published: November 2024

Abstract

Objective
This study examined the role of central sensitization in the experience of pain among adolescents and young adults with the most severe genotypes of sickle cell disease (SCD). We hypothesized that adolescents and young adults with chronic SCD pain would demonstrate a higher perceptual response to repeated stimulation of identical intensity (i.e., temporal summation of pain, TSP) compared to counterparts with infrequent pain. We also examined psychological risk factors that can impact pain sensitivity.

Methods
Patients ages 12–21 years, diagnosed with SCD type Hb SS or Hb S Beta0Thalasemia, who reported infrequent pain (≤2 pain days/month; n = 25) or met AAPT criteria for chronic SCD pain (n = 25) were enrolled. Patients were age- and sex-matched, with similar proportions receiving chronic blood transfusion and hydroxyurea. Patients completed static quantitative sensory testing (QST) and dynamic TSP testing to assess pain sensitivity. Patients and a caregiver completed demographic and psychological measures (depression, anxiety, pain interference, pain catastrophizing).

Results
Simple slope analysis revealed differentially elevated heat TSP among adolescents and young adults with chronic SCD pain (b = 3.14, p = .002) but not those with infrequent pain (b = 0.45, p = .61). Faster habituation was further observed for those with chronic compared to infrequent pain. Adolescents and young adults with chronic pain reported more frequent depression, anxiety, and pain interference symptoms; however, psychological symptoms and pain catastrophizing were not associated with QST or TSP (ps &gt;.17).

Conclusion
Current results demonstrate that a well-established, prognostic, QST risk marker (i.e., TSP) may distinguish chronic from infrequent pain subgroups of adolescents and young adults with SCD.
Transition to Enteral Triazole Antifungal Therapy for Pediatric Invasive Candidiasis: Secondary Analysis of a Multicenter Cohort Study Conducted by the Pediatric Fungal Network
Authors: Bucayu Robert F T , Boge Craig L K , Yildirim Inci , Avilés-Robles Martha , Vora Surabhi B , Berman David M , Sharma Tanvi S , Sung Lillian , Castagnola Elio , Palazzi Debra L , Danziger-Isakov Lara , Yin Dwight E , Roilides Emmanuel , Maron Gabriela , Tribble Alison C , Soler-Palacin Pere , López-Medina Eduardo , Romero José , Belani Kiran , Arrieta Antonio C , Carlesse Fabianne , Nolt Dawn , Halasa Natasha , Dulek Daniel , Rajan Sujatha , Muller William J , Ardura Monica I , Pong Alice , Gonzalez Blanca E , Salvatore Christine M , Huppler Anna R , Aftandilian Catherine , Abzug Mark J , Chakrabarti Arunaloke , Green Michael , Lutsar Irja , Knackstedt Elizabeth D , Johnson Sarah K , Steinbach William J , Fisher Brian T , Wattier Rachel L 
Published: November 2024

Abstract
Of 319 children with invasive candidiasis, 67 (21%) transitioned from intravenous to enteral antifungal therapy. Eight (12%) transitioned back to intravenous antifungal therapy, one due to perceived treatment failure defined by clinical progression or worsening. Global treatment response at study completion was successful in 66 participants who transitioned to enteral therapy.
SNAP25 as a prognostic marker in transcriptome analysis of meningioma
Authors: Ge Yu , Zhang Tao 
Published: November 2024

Abstract

Background
Meningiomas are the most common intracranial tumors and their diagnosis relies mostly on neuroimaging and histology. However, the histology grades cannot predict the outcome exactly and some meningiomas tend to recur after resection of even benign tumors. Therefore, it is necessary to explore prognostic and diagnostic molecular targets.

Methods
Differential expression analysis between meningiomas and meninges was performed based on the merged data of GSE43290 and GSE84263. Next, we performed gene set enrichment analysis (GSEA), immune cell infiltration analysis, protein-protein interaction analysis, and survival analysis using public data. The expression level of Synaptosome-associated-protein-25kDa (SNAP25) was verified by reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) and Western blotting in meningioma tissues.

Results
There were 263 upregulated and 592 downregulated genes identified in meningiomas by differential expression analysis. GSEA results revealed that meningiomas were negatively related to the pathway of soluble N-ethylmaleimide sensitive factor attachment protein receptor interactions in vascular transport and chemokine signaling. SNAP25 was characterized as a hub gene and downregulated in meningiomas. The Kaplan-Meier plot indicated that high expression of SNAP25 is a favorable factor.

Conclusion
SNAP25 was downregulated and identified as a potential prognostic marker in meningioma.
Microbial decomposer for crop residue management in rice–wheat cropping system
Authors: Lamba Shubham , Gill Ranvir Singh 
Published: November 2024

Abstract
Crop residue management is vital in the rice–wheat cropping system, influencing soil health and crop productivity. This study examined the effects of organic and inorganic fertilizers and microbial decomposers on rice growth and yield. We evaluated seven treatments: 100% recommended dose fertilizer (RDF); 50% residue + 50% RDF; 50% residue + 50% RDF + Pusa decomposer; 50% residue + 50% green manuring (GM)/green leaf manuring (GLM); 50% residue + 50% GM/GLM + Pusa decomposer; residue @ 2.5 tons per acre + Pusa decomposer; residue @ 2.5 tons per acre + no Pusa decomposer; and absolute control. Results indicate that integrating organic and inorganic fertilizers with microbial decomposers positively affects rice growth and yield parameters. While adding microbial decomposer to RDF did not consistently enhance rice yield, it improved soil enzymatic properties. This suggests that the effectiveness of microbial decomposers may vary based on specific soil and crop conditions. Therefore, microbial decomposers present a promising approach to boost soil health and fertility. Further research is needed to optimize conditions for their use and systematically assess their impact on crop yields