bluuebunny/crossref_metadata_2025_split huggingface dataset:
Taxonomic and molecular characterization of a new entomopathogenic nematode species, Heterorhabditis casmirica n. sp., and whole genome sequencing of its associated bacterial symbiont
Authors: Bhat Aashaq Hussain , Machado Ricardo A. R. , Abolafia Joaquín , Ruiz-Cuenca Alba N. , Askary Tarique Hassan , Ameen Fuad , Dass Wasim Muzamil 
Published: October 2023

Abstract
Background
Nematodes of the genus Heterorhabditis are important biocontrol agents as they form a lethal combination with their symbiotic Photorhabdus bacteria against agricultural insect pests. This study describes a new species of Heterorhabditis.

Methods
Six Heterorhabditis nematode populations were recovered from agricultural soils in Jammu and Kashmir, India. An initial examination using mitochondrial and nuclear genes showed that they belong to a new species. To describe this new species, a variety of analyses were conducted, including reconstructing phylogenetic relationships based on multiple genes, characterizing the nematodes at the morphological and morphometric levels, performing self-crossing and cross-hybridization experiments, and isolating and characterizing their symbiotic bacteria.

Results
The newly discovered species, Heterorhabditis casmirica n. sp., shares 94% mitochondrial cytochrome C oxidase subunit I gene (COI) sequence identity with Heterorhabditis bacteriophora and Heterorhabditis ruandica, and 93% with Heterorhabditis zacatecana. Morphologically, it differs from H. bacteriophora in its infective juvenile phasmids (present vs. inconspicuous) and bacterial pouch visibility in the ventricular portion of the intestine (invisible vs. visible); genital papilla 1 (GP1) position (at manubrium level vs. more anterior), and in its b ratio (body length/neck length), c ratio (tail length/bulb width), and D% [(excretory pore/neck length) × 100]. Other morphological differences include anterior end to the nerve ring distance (77–100 vs. 121–130 μm), V% [(anterior end of vulva/body length) × 100] (46–57 vs. 41–47) in hermaphroditic females; rectum size (slightly longer than the anal body diameter vs. about three times longer), phasmids (smaller vs. inconspicuous), body length (0.13–2.0 vs. 0.32–0.39 mm), body diameter (73–150 vs. 160–220 μm), anterior end to the excretory pore distance (135–157 vs. 174–214 μm), and demanian ratios in amphimictic females. Morphological differences with H. ruandica and H. zacatecana were also observed. Furthermore, H. casmirica n. sp. did not mate or produce fertile progeny with other Heterorhabditis nematodes reported from India. It was also discovered that H. casmirica n. sp. is associated with 'Photorhabdus laumondii subsp. clarkei symbiotic bacteria.

Conclusions
The discovery of H. casmirica n. sp. provides novel insights into the diversity and evolution of Heterorhabditis nematodes and their symbiotic bacteria. This new species adds to the catalog of entomopathogenic nematodes in India.

Graphical Abstract
Fatal eosinophilic myocarditis and submassive hepatic necrosis in lamotrigine induced DRESS syndrome
Authors: Doan Khanh Duy , Akinsanya Adeyinka , Kuhar Matthew , Mesa Hector 
Published: October 2023

AbstractDrug Reaction with Eosinophilia and Systemic Symptoms (DRESS) syndrome is a rare but severe and sometimes fatal adverse drug reaction that is known to occur with a number of antiepileptic drugs. It often follows a prolonged clinical course, which can worsen even after discontinuing the causative drug and administering steroid treatment. Failure to promptly identify the delayed involvement of vital organs, such as the heart and liver, may result in irreversible organ failure and death. We report a case of a presumed sudden death of a young woman who had a documented history of a protracted intermittent hypersensitivity reaction to lamotrigine. Postmortem examination revealed the presence of eosinophilic myocarditis and submassive hepatic necrosis diagnostic of fatal DRESS syndrome that progressed despite early discontinuation of the medication and improvement of dermatologic and hematologic symptoms following steroid therapy.
Translatome analysis of tuberous sclerosis complex 1 patient-derived neural progenitor cells reveals rapamycin-dependent and independent alterations
Authors: Aksoylu Inci S. , Martin Pauline , Robert Francis , Szkop Krzysztof J. , Redmond Nicholas E. , Bhattacharyya Srirupa , Wang Jennifer , Chen Shan , Beauchamp Roberta L. , Nobeli Irene , Pelletier Jerry , Larsson Ola , Ramesh Vijaya 
Published: October 2023

Abstract
Background
Tuberous sclerosis complex (TSC) is an inherited neurocutaneous disorder caused by mutations in the TSC1 or TSC2 genes, with patients often exhibiting neurodevelopmental (ND) manifestations termed TSC-associated neuropsychiatric disorders (TAND) including autism spectrum disorder (ASD) and intellectual disability. Hamartin (TSC1) and tuberin (TSC2) proteins form a complex inhibiting mechanistic target of rapamycin complex 1 (mTORC1) signaling. Loss of TSC1 or TSC2 activates mTORC1 that, among several targets, controls protein synthesis by inhibiting translational repressor eIF4E-binding proteins. Using TSC1 patient-derived neural progenitor cells (NPCs), we recently reported early ND phenotypic changes, including increased cell proliferation and altered neurite outgrowth in TSC1-null NPCs, which were unaffected by the mTORC1 inhibitor rapamycin.

Methods
Here, we used polysome profiling, which quantifies changes in mRNA abundance and translational efficiencies at a transcriptome-wide level, to compare CRISPR-edited TSC1-null with CRISPR-corrected TSC1-WT NPCs generated from one TSC donor (one clone/genotype). To assess the relevance of identified gene expression alterations, we performed polysome profiling in postmortem brains from ASD donors and age-matched controls. We further compared effects on translation of a subset of transcripts and rescue of early ND phenotypes in NPCs following inhibition of mTORC1 using the allosteric inhibitor rapamycin versus a third-generation bi-steric, mTORC1-selective inhibitor RMC-6272.

Results
Polysome profiling of NPCs revealed numerous TSC1-associated alterations in mRNA translation that were largely recapitulated in human ASD brains. Moreover, although rapamycin treatment partially reversed the TSC1-associated alterations in mRNA translation, most genes related to neural activity/synaptic regulation or ASD were rapamycin-insensitive. In contrast, treatment with RMC-6272 inhibited rapamycin-insensitive translation and reversed TSC1-associated early ND phenotypes including proliferation and neurite outgrowth that were unaffected by rapamycin.

Conclusions
Our work reveals ample mRNA translation alterations in TSC1 patient-derived NPCs that recapitulate mRNA translation in ASD brain samples. Further, suppression of TSC1-associated but rapamycin-insensitive translation and ND phenotypes by RMC-6272 unveils potential implications for more efficient targeting of mTORC1 as a superior treatment strategy for TAND.
Quantitative and clinical implications of the EARL2 versus EARL1 [18F]FDG PET-CT performance standards in head and neck squamous cell carcinoma
Authors: Cox Maurice C. , Jurcka Tijn , Arens Anne I. J. , van Rijk Maartje C. , Kaanders Johannes H. A. M. , van den Bosch Sven 
Published: October 2023

Abstract
Background
The EANM Research Ltd. (EARL) guidelines give recommendations for harmonization of [18F]FDG PET-CT image acquisition and reconstruction, aiming to ensure reproducibility of quantitative data between PET scanners. Recent technological advancements in PET-CT imaging resulted in an updated version of the EARL guidelines (EARL2). The aim of this study is to compare quantitative [18F]FDG uptake metrics of the primary tumor and lymph nodes in patients with head and neck squamous cell carcinoma (HNSCC) on EARL2 versus EARL1 reconstructed images and to describe clinical implications for nodal staging and treatment.

Methods
Forty-nine consecutive patients with HNSCC were included. For all, both EARL1 and EARL2 images were reconstructed from a singular [18F]FDG PET-CT scan. Primary tumors and non-necrotic lymph nodes ≥ 5 mm were delineated on CT-scan. In the quantitative analysis, maximum standardized uptake values (SUVmax) and standardized uptake ratios (SURmax, i.e., SUVmax normalized to cervical spinal cord uptake) were calculated for all lesions on EARL1 and EARL2 reconstructions. Metabolic tumor volume (MTV) and total lesion glycolysis were compared between EARL1 and EARL2 using different segmentation methods (adaptive threshold; SUV2.5/3.5/4.5; SUR2.5/3.5/4.5; MAX40%/50%). In the qualitative analysis, each lymph node was scored independently by two nuclear medicine physicians on both EARL1 and EARL2 images on different occasions using a 4-point scale.

Results
There was a significant increase in SUVmax (16.5%) and SURmax (9.6%) of primary tumor and lymph nodes on EARL2 versus EARL1 imaging (p < 0.001). The proportional difference of both SUVmax and SURmax between EARL2 and EARL1 decreased with increasing tumor volume (p < 0.001). Absolute differences in MTVs between both reconstructions were small (< 1.0 cm3), independent of the segmentation method. MTVs decreased on EARL2 using relative threshold methods (adaptive threshold; MAX40%/50%) and increased using static SUV or SUR thresholds. With visual scoring of lymph nodes 38% (11/29) of nodes with score 2 on EARL1 were upstaged to score 3 on EARL2, which resulted in an alteration of nodal stage in 18% (6/33) of the patients.

Conclusions
Using the EARL2 method for PET image reconstruction resulted in higher SUVmax and SURmax compared to EARL1, with nodal upstaging in a significant number of patients.
Comparative effectiveness and cost-effectiveness of cardioprotective glucose-lowering therapies for type 2 diabetes in Brazil: a Bayesian network model
Authors: Nogueira Ana Claudia Cavalcante , Barreto Joaquim , Moura Filipe A. , Luchiari Beatriz , Abuhab Abrão , Bonilha Isabella , Nadruz Wilson , Gaziano J. Michael , Gaziano Thomas , de Carvalho Luiz Sergio F. , Sposito Andrei C. ,   on behalf of the Brazilian Heart Study Group
Published: October 2023

Abstract
Background
The escalating prevalence of type 2 diabetes (T2DM) poses an unparalleled economic catastrophe to developing countries. Cardiovascular diseases remain the primary source of costs among individuals with T2DM, incurring expenses for medications, hospitalizations, and surgical interventions. Compelling evidence suggests that the risk of cardiovascular outcomes can be reduced by three classes of glucose-lowering therapies (GLT), including SGLT2i, GLP-1A, and pioglitazone. However, an evidence-based and cost-effective protocol is still unavailable for many countries. The objective of the current study is to compare the effectiveness and cost-effectiveness of GLT in individuals with T2DM in Brazil.

Methods
We employed Bayesian Networks to calculate the incremental cost-effectiveness ratios (ICER), expressed in international dollars (Int$) per disease-adjusted life years [DALYs] averted. To determine the effectiveness of GLT, we conducted a systematic review with network meta-analysis (NMA) to provide insights for our model. Additionally, we obtained cardiovascular outcome incidence data from two real-world cohorts comprising 851 and 1337 patients in primary and secondary prevention, respectively. Our cost analysis took into account the perspective of the Brazilian public health system, and all values were converted to Int$.

Results
In the NMA, SGLT2i [HR: 0.81 (95% CI 0.69–0.96)], GLP-1A [HR: 0.79 (95% CI 0.67–0.94)], and pioglitazone [HR: 0.73 (95% CI 0.59–0.91)] demonstrated reduced relative risks of non-fatal cardiovascular events. In the context of primary prevention, pioglitazone yielded 0.2339 DALYs averted, with an ICER of Int$7,082 (95% CI 4,521–10,770) per DALY averted when compared to standard care. SGLT2i and GLP-1A also increased effectiveness, resulting in 0.261 and 0.259 DALYs averted, respectively, but with higher ICERs of Int$12,061 (95% CI: 7,227–18,121) and Int$29,119 (95% CI: 23,811–35,367) per DALY averted. In the secondary prevention scenario, all three classes of treatments were deemed cost-effective at a maximum willingness-to-pay threshold of Int$26,700. Notably, pioglitazone consistently exhibited the highest probability of being cost-effective in both scenarios.

Conclusions
In Brazil, pioglitazone presented a higher probability of being cost-effective both in primary and secondary prevention, followed by SGLT2i and GLP-1A. Our findings support the use of cost-effectiveness models to build optimized and hierarchical therapeutic strategy in the management of T2DM.

Trial registration
CRD42020194415.
An improved wavelet threshold denoising approach for surface electromyography signal
Authors: Ouyang Chuanyun , Cai Liming , Liu Bin , Zhang Tianxiang 
Published: October 2023

Abstract
Background
The surface electromyography (sEMG) signal presents significant challenges for the dynamic analysis and subsequent examination of muscle movements due to its low signal energy, broad frequency distribution, and inherent noise interference. However, the conventional wavelet threshold filtering techniques for sEMG signals are plagued by the Gibbs-like phenomenon and an overall decrease in signal amplitude, leading to signal distortion.

Purpose
This article aims to establish an improved wavelet thresholding method that can filter various types of signals, with a particular emphasis on sEMG signals, by adjusting two independent factors. Hence, it generates the filtered signal with a higher signal-to-noise ratio (SNR), a lower mean square error (MSE), and better signal quality.

Results
After denoising Doppler and Heavysine signals, the filtered signal exhibits a higher SNR and lower MSE than the signal generated from traditional filtering algorithms. The filtered sEMG signal has a lower noise baseline while retaining the peak sEMG signal strength.

Conclusion
The empirical evaluation results show that the quality of the signal processed by the new noise reduction algorithm is better than the traditional hard thresholding, soft thresholding, and Garrote thresholding methods. Moreover, the filtering performance on the sEMG signal is improved significantly, which enhances the accuracy and reliability of subsequent experimental analyses.
New inertial self-adaptive algorithms for the split common null-point problem: application to data classifications
Authors: Promkam Ratthaprom , Sunthrayuth Pongsakorn , Kesornprom Suparat , Tanprayoon Ekapak 
Published: October 2023

AbstractIn this paper, we propose two inertial algorithms with a new self-adaptive step size for approximating a solution of the split common null-point problem in the framework of Banach spaces. The step sizes are adaptively updated over each iteration by a simple process without the prior knowledge of the operator norm of the bounded linear operator. Under suitable conditions, we prove the weak-convergence results for the proposed algorithms inp-uniformly convex and uniformly smooth Banach spaces. Finally, we give several numerical results in both finite- and infinite-dimensional spaces to illustrate the efficiency and advantage of the proposed methods over some existing methods. Also, data classifications of heart diseases and diabetes mellitus are presented as the applications of our methods.
Adaptive neural-domain refinement for solving time-dependent differential equations
Authors: Schneidereit Toni , Breuß Michael 
Published: October 2023

AbstractA classic approach for solving differential equations with neural networks builds upon neural forms, which employ the differential equation with a discretisation of the solution domain. Making use of neural forms for time-dependent differential equations, one can apply the recently developed method of domain segmentation. That is, the domain may be split into several subdomains, on which the optimisation problem is solved.In classic adaptive numerical methods, the mesh as well as the domain may be refined or decomposed, in order to improve the accuracy. Also, the degree of approximation accuracy may be adapted. Therefore, it is desirable to transfer such important and successful strategies to the field of neural-network-based solutions. In the presented work, we propose a novel adaptive neural approach to meet this aim for solving time-dependent problems.To this end, each subdomain is reduced in size until the optimisation is resolved up to a predefined training accuracy. In addition, while the neural networks employed are by default small, we propose a means to adjust also the number of neurons in an adaptive way. We introduce conditions to automatically confirm the solution reliability and optimise computational parameters whenever it is necessary. Results are provided for several initial-value problems that illustrate important computational properties of the method.
SAM protects against alveolar septal cell apoptosis in autoimmune emphysema rats
Authors: Li Dan , Li Ben-xue , Zhang Ye , Li Xia , Li Jia-yi , Zhang Xiang-yan , Ye Xian-wei , Zhang Cheng 
Published: October 2023

Abstract
Background
Hypomethylation of the perforin gene promoter in CD4 + T cells, inflammation and oxidative stress, might be involved in alveolar septal cell apoptosis associated with emphysema in rats. This study aimed to investigate the effects of S-adenosylmethionine (SAM) on this kind of apoptosis in rats with autoimmune emphysema.

Methods
Twenty-four rats were randomly divided into three groups: a normal control group, a model group, and a SAM group. Pathological changes in lung tissues were observed, and the mean linear intercept (MLI) and mean alveolar number (MAN) were measured. The levels of anti-endothelial cell antibodies (AECA) in serum, alveolar septal cell apoptosis, perforin gene promotor methylation in CD4 + T cells in the spleen, and the levels of cytokines, malondialdehyde (MDA), and glutathione (GSH) and the activities of superoxide dismutase (SOD) and glutathione peroxidase (GSH-Px) in bronchoalveolar lavage fluid (BALF) were investigated.

Results
The MLI, apoptosis index (AI) of alveolar septal cells, levels of AECA in serum, and levels of tumour necrosis factor-α (TNF-α), matrix metalloproteinase-9 (MMP-9) and MDA in BALF were increased, while the MAN, methylation levels, and the activities of GSH, SOD and GSH-Px in BALF were decreased in the model group compared with those in the normal control group and the SAM group (all P < 0.05). The levels of interleukin-8 (IL-8) in BALF were greater in the model group than in the normal control group (P < 0.05).

Conclusions
SAM protects against alveolar septal cell apoptosis, airway inflammation and oxidative stress in rats with autoimmune emphysema possibly by partly reversing the hypomethylation of the perforin gene promoter in CD4 + T cells.
Crosstalk between autophagy and insulin resistance: evidence from different tissues
Authors: Sadeghi Asie , Niknam Maryam , Momeni-Moghaddam Mohammad Amin , Shabani Maryam , Aria Hamid , Bastin Alireza , Teimouri Maryam , Meshkani Reza , Akbari Hamed 
Published: October 2023

AbstractInsulin is a critical hormone that promotes energy storage in various tissues, as well as anabolic functions. Insulin resistance significantly reduces these responses, resulting in pathological conditions, such as obesity and type 2 diabetes mellitus (T2DM). The management of insulin resistance requires better knowledge of its pathophysiological mechanisms to prevent secondary complications, such as cardiovascular diseases (CVDs). Recent evidence regarding the etiological mechanisms behind insulin resistance emphasizes the role of energy imbalance and neurohormonal dysregulation, both of which are closely regulated by autophagy. Autophagy is a conserved process that maintains homeostasis in cells. Accordingly, autophagy abnormalities have been linked to a variety of metabolic disorders, including insulin resistance, T2DM, obesity, and CVDs. Thus, there may be a link between autophagy and insulin resistance. Therefore, the interaction between autophagy and insulin function will be examined in this review, particularly in insulin-responsive tissues, such as adipose tissue, liver, and skeletal muscle.
A novel serum calprotectin (MRP8/14) particle-enhanced immuno-turbidimetric assay (sCAL turbo) helps to differentiate systemic juvenile idiopathic arthritis from other diseases in routine clinical laboratory settings
Authors: Foell Dirk , Saers Melanie , Park Carolin , Brix Ninna , Glerup Mia , Kessel Christoph , Wittkowski Helmut , Hinze Claas , Berntson Lillemor , Fasth Anders , Myrup Charlotte , Nordal Ellen , Rygg Marite , Hasle Henrik , Albertsen Birgitte Klug , Herlin Troels , Holzinger Dirk , Niederberger Christian , Schlüter Bernhard 
Published: October 2023

AbstractBackgroundDifferential diagnosis in children with signs of unprovoked inflammation can be challenging. In particular, differentiating systemic juvenile idiopathic arthritis (SJIA) from other diagnoses is difficult. We have recently validated the complex of myeloid-related proteins 8/14 (MRP8/14, also known as S100A8/A9 complex or serum calprotectin) as a helpful biomarker supporting the diagnosis of SJIA. The results were subsequently confirmed with a commercial ELISA. However, further optimization of the analytical technology is important to ensure its feasibility for large-scale use in routine laboratory settings.MethodsTo evaluate the accuracy in identifying children with SJIA, the performance of a particle-enhanced immuno-turbidimetric assay for serum calprotectin (sCAL turbo) on an automated laboratory instrument was analyzed. Samples from 615 children were available with the diagnoses SJIA (n = 99), non-systemic JIA (n = 169), infections (n = 51), other inflammatory diseases (n = 126), and acute lymphoblastic leukemia (ALL,n = 147). In addition, samples from 23 healthy controls were included.ResultsThe sCAL turbo assay correlated well with the MRP8/14 ELISA used in previous validation studies (r = 0.99,p < 0.001). It could reliably differentiate SJIA from all other diagnoses with significant accuracy (cutoff at 10,500 ng/ml, sensitivity 84%, specificity 94%, ROC area under curve 0.960,p < 0.001).ConclusionsSerum calprotectin analyses are a helpful tool supporting the diagnosis of SJIA in children with prolonged fever or inflammatory disease. Here, we show that an immuno-turbidimetric assay for detection of serum calprotectin on an automated laboratory instrument can be implemented in clinical laboratory settings to facilitate its use as a diagnostic routine test in clinical practice.
An evaluation of Substance Painter and Mari as visualisation methods using the Piraeus Lion and its runic inscriptions as a case study
Authors: Potter Rich , Rönnlund Robin , Wallensten Jenny 
Published: October 2023

Abstract
This paper explores the effectiveness in the use of texture painting software packages, which are more commonly used in the film and game industries, as a method for detecting and recording carvings on non-planar surfaces. This new approach is demonstrated through a case study of the Piraeus Lion, a sculpture in Venice which has documented engravings that are subtle and have proven difficult to fully recorded and interpret using traditional approaches. Through the creation of a new digital documentation of the Piraeus Lion using Structure from Motion, the model was processed using existing methods and other experimental visualisation techniques. The outputs from these were then compared to the those from two software, Substance Painter and Mari. These software packages helped to visualise the carvings and showed that the method has potential for a wide range of uses, both within epigraphy and other fields of study relating to carvings on stone including rock art and runology. The presented method is intended to be used alongside existing digital and analogue methods as a tool for annotating, evaluating, and discovering new carvings in their original context. In particular, Substance Painter offers a repeatable, easy to use, and intuitive solution to creating easily distributable visualisations and annotated models.