bluuebunny/crossref_metadata_2025 huggingface dataset:
Multi-scale analysis of the community structure of the Twitter discourse around the Italian general elections of September 2022
Authors: Federico Lorenzo , Mounim Ayoub , Caldarelli Guido , Riotta Gianni
Published: July 2024

We perform a multi-scale analysis of the geometric structure of the network of X (Twitter at the time of data collection) interactions surrounding the Italian snap general elections of September 25th 2022. We identify within it the communities related to the major Italian political parties and after it we analyse both the large-scale structure of interactions between different parties, showing that it resembles the coalitions formed in the run-up to the elections and the internal structure of each community. We observe that some parties have a very centralised communication with the major leaders clearly occupying the central role, while others have a more horizontal communication strategy, with many accounts playing an important role. We observe that this can be characterized by checking whether the network in the community has a strongly connected giant component or not.
Combined detection of serum EFNA1 and MMP13 as diagnostic biomarker for gastric cancer
Authors: Chu Ling-Yu , Wu Fang-Cai , Guo Hai-Peng , Xie Jian-Jun , Qu Qi-Qi , Li Xin-Hao , Xu Yi-Wei , Peng Yu-Hui , Qiu Bo
Published: July 2024

We previously identified that serum EFNA1 and MMP13 were potential biomarker for early detection of esophageal squamous cell carcinoma. In this study, our aim is to explore the diagnostic value of serum EFNA1 and MMP13 for gastric cancer. We used enzyme-linked immunosorbent assay (ELISA) to detect the expression levels of serum EFNA1 and MMP13 in 210 GCs and 223 normal controls. The diagnostic value of EFNA1 and MMP13 was evaluated in an independent cohorts of GC patients and normal controls (n = 238 and 195, respectively). Receiver operating characteristics were used to calculate diagnostic accuracy. In training and validation cohorts, serum EFNA1 and MMP13 levels in the GC groups were significantly higher than those in the normal controls (P < 0.001). The area under the curve (AUC) of the combined detection of serum EFNA1 and MMP13 for GC was improved (0.794), compared with single biomarker used. Similar results were observed in the validation cohort. Importantly, the combined measurement of serum EFNA1 and MMP13 to detect early-stage GC also had acceptable diagnostic accuracy in training and validation cohort. Combined detection of serum EFNA1 and MMP13 could help identify early-stage GC, suggesting that it may be a promising tool for the early detection of GC.
Synthesis and preliminary evaluation of novel PET probes for GSK-3 imaging
Authors: Gundam Surendra Reddy , Bansal Aditya , Kethamreddy Manasa , Ghatamaneni Sujala , Lowe Val J. , Murray Melissa E. , Pandey Mukesh K.
Published: July 2024

Non-invasive imaging of GSK-3 expression in the brain will help to understand the role of GSK-3 in disease pathology and progression. Herein, we report the radiosynthesis and evaluation of two novel isonicotinamide based 18F labeled PET probes, [18F]2 and [18F]6 for noninvasive imaging of GSK3. Among the developed PET probes, the in vitro blood–brain permeability coefficient of 2 (38 ± 20 × 10–6 cm/s, n = 3) was found to be better than 6 (8.75 ± 3.90 × 10–6 cm/s, n = 5). The reference compounds 2 and 6 showed nanomolar affinity towards GSK-3α and GSK-3β. PET probe [18F]2 showed higher stability (100%) in mouse and human serums compared to [18F]6 (67.01 ± 4.93%, n = 3) in mouse serum and 66.20 ± 6.38%, n = 3) in human serum at 120 min post incubation. The in vivo imaging and blocking studies were performed in wild-type mice only with [18F]2 due to its observed stability. [18F]2 showed a SUV of 0.92 ± 0.28 (n = 6) in mice brain as early as 5 min post-injection followed by gradual clearance over time.
Understanding the flexion-relaxation phenomenon in non-specific chronic low back pain patients throught immersive virtual reality feedback approach
Authors: Rose-Dulcina Kevin , Dubessy Margaux , Armand Stéphane , Genevay Stéphane
Published: July 2024

The flexion-relaxation phenomenon (FRP) is frequently absent among non-specific chronic low back pain (NSCLBP) patients. However, it is unknown whether this absence is intrinsic to their pathology or merely a consequence of reduced trunk flexion. Immersive virtual reality (IVR) can create a patient avatar whose range of motion can be modulated to differ from the real movement. The present study enrolled 15 NSCLBP patients and 15 asymptomatic participants with similar characteristics to disentangle the relationship between range of motion and the FRP in NSCLBP using IVR. Trunk kinematics and lumbar muscle electromyography were assessed. The IVR environment was combined with a motion capture system to create avatars that moved like each participant. The IVR display showed a closed room and a mirror reflecting the subject’s avatar with a target line to be reached by trunk flexion. The avatar’s trunk movements were modulated from reality, leading the participants to flex their trunk more than their voluntary maximum trunk flexion. Under IVR conditions, NSCLBP patients significantly increased their trunk flexion angle, which was coupled with a significant improvement in the FRP. The absence of the FRP among the NSCLBP population appeared to be primarily related to reduced trunk flexion.
Evaluation of the teratogenic potency of bulk zinc oxide and its nanoparticles on embryos of the freshwater snail, Helisoma duryi
Authors: Kandeil Manar A. , Eissa Samia H. , Salem Hoda K. , Hassan Sama S.
Published: July 2024

Bulk zinc oxide (ZnO-BPs) and its nanoparticles (ZnO-NPs) are frequently used in various products for humans. Helisoma duryi embryos can serve as effective model organisms for studying the toxicity of NPs. This study aimed to compare the teratogenic potency of ZnO-BPs and ZnO NPs in the embryonic stages of H. duryi to evaluate the utility of this snail as a bioindicator for ZnO-NPs in the aquatic environment. The mechanisms of teratogenesis were evaluated by determination of the LC50, studying the effect of sub-lethal concentrations of both ZnO forms on the embryos, and studying their enzyme activity, oxidative stress, and biochemical analysis. The SDS-PAGE electrophoresis was undertaken to assess the effect of ZnO-BPs and ZnO NPs on protein synthesis. The results revealed that the veliger stage of H. duryi is the specific stage for bulk and nano ZnO. ZnO-NPs proved to be more toxic to snails’ embryos than ZnO-BPs. Exposure to ZnO influences specific types of defects in development, which in the case of BPs are far less drastic than those caused by NPs. Thus, the toxicity of ZnO-NPs in embryonic development is due to their unique physicochemical properties. The observed malformations include mainly hydropic malformation, exogastrulation, monophthalmia, shell misshapen, and cell lyses. Almost all tested oxidative biomarkers significantly changed, revealing that ZnONPs display more oxidative stress than ZnO-BPs. Also, the low concentration of ZnO induces many disturbances in the organic substances of veliger larvae, such as a decrease in the total protein and total lipid levels and an increase in the glycogen level. The results indicated that ZnO-BPs increase the number of protein bands. Conversely, ZnO-NPs concealed one band from treated egg masses, which was found in the control group. Embryos of snail are an appropriate model to control freshwater snails. This study demonstrates that H. duryi embryos can serve as effective model organisms to study the toxicity of ZnO-NPs.
Portable and affordable cold air plasma source with optimized bactericidal effect
Authors: Klenivskyi Myron , Khun Josef , Thonová Laura , Vaňková Eva , Scholtz Vladimír
Published: July 2024

The paper reports a low-cost handheld source of a cold air plasma intended for biomedical applications that can be made by anyone (detailed technical information and a step-by-step guide for creating the NTP source are provided). The plasma source employs a 1.4 W corona discharge in the needle-to-cone electrode configuration and is an extremely simple device, consisting basically of two electrodes and a cheap power supply. To achieve the best bactericidal effect, the plasma source has been optimized on Escherichia coli. The bactericidal ability of the plasma source was further tested on a wide range of microorganisms: Staphylococcus aureus as a representative of gram-positive bacteria, Pseudomonas aeruginosa as gram-negative bacteria, Candida albicans as yeasts, Trichophyton interdigitale as microfungi, and Deinococcus radiodurans as a representative of extremophilic bacteria resistant to many DNA-damaging agents, including ultraviolet and ionizing radiation. The testing showed that the plasma source inactivates all the microorganisms tested in several minutes (up to 105–107 CFU depending on a microorganism), proving its effectiveness against a wide spectrum of pathogens, in particular microfungi, yeasts, gram-positive and gram-negative bacteria. Studies of long-lived reactive species such as ozone, nitrogen oxides, hydrogen peroxide, nitrite, and nitrate revealed a strong correlation between ozone and the bactericidal effect, indicating that the bactericidal effect should generally be attributed to reactive oxygen species. This is the first comprehensive study of the bactericidal effect of a corona discharge in air and the formation of long-lived reactive species by the discharge, depending on both the interelectrode distance and the discharge current.
Damage evolution law of multi-hole blasting igneous rock and quantitative evaluation model of damage degree based on fractal theory and clustering algorithm
Authors: Zhao Hongbin , Tu Shihao , Miao Kaijun , Tang Long , Ma Jieyang , Guo Benhuan
Published: July 2024

The geological phenomenon of igneous rock invading coal seam is widely distributed, which induces mining risk and affects efficient mining. The pre-splitting blasting method of igneous rock is feasible but difficult to implement accurately, resulting in unnecessary safety and environmental pollution risks. In this paper, the blasting model with penetrating structural plane and the multi-hole blasting model with different hole spacing were established based on the Riedel–Hiermaier–Thoma (RHT) damage constitutive to explore the stress wave propagation law under detonation. The damage cloud diagram and damage degree algorithm were used to quantitatively describe the spatio-temporal evolution of blasting damage. The results show that the explosion stress wave presents a significant reflection stretching effect under the action of the structural plane, which can effectively aggravate the presplitting blasting degree of the rock mass inside the structural plane. The damage range of rock mass is synchronously evolved with the change of blasting hole spacing. The blasting in the igneous rock intrusion area of the 21,914 working face is taken as an application example, and the damage degree of rock mass is reasonably evaluated by the box-counting dimension and K-means clustering method, which proves the effectiveness of the blasting scheme and provides reference value for the implementation of related blasting projects.
Diagnostic accuracy of artificial intelligence in detecting left ventricular hypertrophy by electrocardiograph: a systematic review and meta-analysis
Authors: Siranart Noppachai , Deepan Natee , Techasatian Witina , Phutinart Somkiat , Sowalertrat Walit , Kaewkanha Ponthakorn , Pajareya Patavee , Tokavanich Nithi , Prasitlumkum Narut , Chokesuwattanaskul Ronpichai
Published: July 2024

Several studies suggested the utility of artificial intelligence (AI) in screening left ventricular hypertrophy (LVH). We hence conducted systematic review and meta-analysis comparing diagnostic accuracy of AI to Sokolow–Lyon’s and Cornell’s criteria. Our aim was to provide a comprehensive overview of the newly developed AI tools for diagnosing LVH. We searched MEDLINE, EMBASE, and Cochrane databases for relevant studies until May 2023. Included were observational studies evaluating AI’s accuracy in LVH detection. The area under the receiver operating characteristic curves (ROC) and pooled sensitivities and specificities assessed AI’s performance against standard criteria. A total of 66,479 participants, with and without LVH, were included. Use of AI was associated with improved diagnostic accuracy with summary ROC (SROC) of 0.87. Sokolow–Lyon’s and Cornell’s criteria had lower accuracy (0.68 and 0.60). AI had sensitivity and specificity of 69% and 87%. In comparison, Sokolow–Lyon’s specificity was 92% with a sensitivity of 25%, while Cornell’s specificity was 94% with a sensitivity of 19%. This indicating its superior diagnostic accuracy of AI based algorithm in LVH detection. Our study demonstrates that AI-based methods for diagnosing LVH exhibit higher diagnostic accuracy compared to conventional criteria, with notable increases in sensitivity. These findings contribute to the validation of AI as a promising tool for LVH detection.
Mitigating drought-induced oxidative stress in wheat (Triticum aestivum L.) through foliar application of sulfhydryl thiourea
Authors: Ishfaq Nazia , Waraich Ejaz Ahmad , Ahmad Muhammad , Hussain Saddam , Zulfiqar Usman , Din Kaleem Ul , Haider Arslan , Yong Jean Wan Hong , Askri Syed Muhammad Hassan , Ali Hayssam M.
Published: July 2024

Drought stress is a major abiotic stress affecting the performance of wheat (Triticum aestivum L.). The current study evaluated the effects of drought on wheat phenology, physiology, and biochemistry; and assessed the effectiveness of foliar-applied sulfhydryl thiourea to mitigate drought-induced oxidative stress. The treatments were: wheat varieties; V1 = Punjab-2011, V2 = Galaxy-2013, V3 = Ujala-2016, and V4 = Anaaj-2017, drought stress; D1 = control (80% field capacity [FC]) and D2 = drought stress (40% FC), at  the reproductive stage, and sulfhydryl thiourea (S) applications; S0 = control-no thiourea and S1 = foliar thiourea application @ 500 mg L−1. Results of this study indicated that growth parameters, including height, dry weight, leaf area index (LAI), leaf area duration (LAD), crop growth rate (CGR), net assimilation rate (NAR) were decreased under drought stress-40% FC, as compared to control-80% FC. Drought stress reduced the photosynthetic efficiency, water potential, transpiration rates, stomatal conductances, and relative water contents by 18, 17, 26, 29, and 55% in wheat varieties as compared to control. In addition, foliar chlorophyll a, and b contents were also lowered under drought stress in all wheat varieties due to an increase in malondialdehyde and electrolyte leakage. Interestingly, thiourea applications restored wheat growth and yield attributes by improving the production and activities of proline, antioxidants, and osmolytes under normal and drought stress as compared to control. Thiourea applications improved the osmolyte defense in wheat varieties as peroxidase, superoxide dismutase, catalase, proline, glycine betaine, and total phenolic were increased by 13, 20, 12, 17, 23, and 52%; while reducing the electrolyte leakage and malondialdehyde content by 49 and 32% as compared to control. Among the wheat varieties, Anaaj-2017 showed better resilience towards drought stress and also gave better response towards thiourea application based on morpho-physiological, biochemical, and yield attributes as compared to Punjab-2011, Galaxy-2013, and Ujala-2016. Eta-square values showed that thiourea applications, drought stress, and wheat varieties were key contributors to most of the parameters measured. In conclusion, the sulfhydryl thiourea applications improved the morpho-physiology, biochemical, and yield attributes of wheat varieties, thereby mitigating the adverse effects of drought.  Moving forward, detailed studies pertaining to the molecular and genetic mechanisms under sulfhydryl thiourea-induced drought stress tolerance are warranted.
Better performance of deep learning pulmonary nodule detection using chest radiography with pixel level labels in reference to computed tomography: data quality matters
Authors: Kim Jae Yong , Ryu Wi-Sun , Kim Dongmin , Kim Eun Young
Published: July 2024

Labeling errors can significantly impact the performance of deep learning models used for screening chest radiographs. The deep learning model for detecting pulmonary nodules is particularly vulnerable to such errors, mainly because normal chest radiographs and those with nodules obscured by ribs appear similar. Thus, high-quality datasets referred to chest computed tomography (CT) are required to prevent the misclassification of nodular chest radiographs as normal. From this perspective, a deep learning strategy employing chest radiography data with pixel-level annotations referencing chest CT scans may improve nodule detection and localization compared to image-level labels. We trained models using a National Institute of Health chest radiograph-based labeling dataset and an AI-HUB CT-based labeling dataset, employing DenseNet architecture with squeeze-and-excitation blocks. We developed four models to assess whether CT versus chest radiography and pixel-level versus image-level labeling would improve the deep learning model’s performance to detect nodules. The models' performance was evaluated using two external validation datasets. The AI-HUB dataset with image-level labeling outperformed the NIH dataset (AUC 0.88 vs 0.71 and 0.78 vs.
0.73 in two external datasets, respectively; both p < 0.001). However, the AI-HUB data annotated at the pixel level produced the best model (AUC 0.91 and 0.86 in external datasets), and in terms of nodule localization, it significantly outperformed models trained with image-level annotation data, with a Dice coefficient ranging from 0.36 to 0.58. Our findings underscore the importance of accurately labeled data in developing reliable deep learning algorithms for nodule detection in chest radiography.
Seroprevalence of adeno-associated virus types 1, 2, 3, 4, 5, 6, 8, and 9 in a Basque cohort of healthy donors
Authors: Navarro-Oliveros Miguel , Vidaurrazaga Ander , Soares Guerra Gabriel , Castellana Donatello , Embade Nieves , Millet Oscar , Marigorta Urko M. , Abrescia Nicola G. A.
Published: July 2024

Adeno-associated viruses (AAVs) are promising gene therapy vectors, but challenges arise when treating patients with preexisting neutralizing antibodies. Worldwide seroprevalence studies provide snapshots of existing immunity in diverse populations. Owing to the uniqueness of the Basque socio-geographical landscape, we investigated the seroprevalence of eight AAV serotypes in residents of the Basque Country. We found the highest seroprevalence of AAV3, and the lowest seroprevalence of AAV9. Additionally, less than 50% of the Basque population has neutralizing antibodies against AAV4, AAV6, and AAV9. Our findings provide insight into AAV infections in the Basque region, public health, and the development of AAV-based therapeutics.
Exploring the butyrate metabolism-related shared genes in metabolic associated steatohepatitis and ulcerative colitis
Authors: Deng Beiying , Liu Yinghui , Chen Ying , He Pengzhan , Ma Jingjing , Tan Zongbiao , Zhang Jixiang , Dong Weiguo
Published: July 2024

Metabolic-associated steatohepatitis (MASH) and ulcerative colitis (UC) exhibit a complex interconnection with immune dysfunction, dysbiosis of the gut microbiota, and activation of inflammatory pathways. This study aims to identify and validate critical butyrate metabolism-related shared genes between both UC and MASH. Clinical information and gene expression profiles were sourced from the Gene Expression Omnibus (GEO) database. Shared butyrate metabolism-related differentially expressed genes (sBM-DEGs) between UC and MASH were identified via various bioinformatics methods. Functional enrichment analysis was performed, and UC patients were categorized into subtypes using the consensus clustering algorithm based on sBM-DEGs. Key genes within sBM-DEGs were screened through Random Forest, Support Vector Machines-Recursive Feature Elimination, and Light Gradient Boosting. The diagnostic efficacy of these genes was evaluated using receiver operating characteristic (ROC) analysis on independent datasets. Additionally, the expression levels of characteristic genes were validated across multiple independent datasets and human specimens. Forty-nine shared DEGs between UC and MASH were identified, with enrichment analysis highlighting significant involvement in immune, inflammatory, and metabolic pathways. The intersection of butyrate metabolism-related genes with these DEGs produced 10 sBM-DEGs. These genes facilitated the identification of molecular subtypes of UC patients using an unsupervised clustering approach. ANXA5, CD44, and SLC16A1 were pinpointed as hub genes through machine learning algorithms and feature importance rankings. ROC analysis confirmed their diagnostic efficacy in UC and MASH across various datasets. Additionally, the expression levels of these three hub genes showed significant correlations with immune cells. These findings were validated across independent datasets and human specimens, corroborating the bioinformatics analysis results. Integrated bioinformatics identified three significant biomarkers, ANXA5, CD44, and SLC16A1, as DEGs linked to butyrate metabolism. These findings offer new insights into the role of butyrate metabolism in the pathogenesis of UC and MASH, suggesting its potential as a valuable diagnostic biomarker.
Cannabidiol effectively prevents oxidative stress and stabilizes hypoxia-inducible factor-1 alpha (HIF-1α) in an animal model of global hypoxia
Authors: Kletkiewicz Hanna , Wojciechowski Michał S. , Rogalska Justyna
Published: July 2024

Cannabidiol (CBD) is a non-psychotomimetic phytocannabinoid derived from Cannabis sativa. It has therapeutic effects in different paradigms of brain injury, acting as a neuroprotectant. As oxidative stress is a primary risk factor for brain damage after neonatal hypoxia, we tested the effect of CBD on oxidative status and non-protein-bound iron accumulation in the immature brain after hypoxia. Moreover, we tested whether cannabidiol affects the accumulation of hypoxia-inducible factor-1 alpha (HIF-1α) which plays a key role in the regulation of cellular adaptation to hypoxia and oxidative stress. We used 7-day-old mice randomly assigned to hypoxic or control groups. Immediately after hypoxia or control exposure, pups were randomly assigned to a vehicle or CBD treatment. 24 h later, they were decapitated and the brains were immediately removed and stored for further biochemical analyses. We found that CBD reduced lipid peroxidation and prevented antioxidant depletion. For the first time, we also demonstrated that CBD upregulated HIF-1α protein level. This study indicates that CBD may effective agent in attenuating the detrimental consequences of perinatal asphyxia.
Hyperosmotic sisomicin infusion: a mouse model for hearing loss
Authors: Maraslioglu-Sperber Ayse , Blanc Fabian , Heller Stefan , Benkafadar Nesrine
Published: July 2024

Losing either type of cochlear sensory hair cells leads to hearing impairment. Inner hair cells act as primary mechanoelectrical transducers, while outer hair cells enhance sound-induced vibrations within the organ of Corti. Established inner ear damage models, such as systemic administration of ototoxic aminoglycosides, yield inconsistent and variable hair cell death in mice. Overcoming this limitation, we developed a method involving surgical delivery of a hyperosmotic sisomicin solution into the posterior semicircular canal of adult mice. This procedure induced rapid and synchronous apoptotic demise of outer hair cells within 14 h, leading to irreversible hearing loss. The combination of sisomicin and hyperosmotic stress caused consistent and synergistic ototoxic damage. Inner hair cells remained until three days post-treatment, after which deterioration in structure and number was observed, culminating in a complete hair cell loss by day seven. This robust animal model provides a valuable tool for otoregenerative research, facilitating single-cell and omics-based studies toward exploring preclinical therapeutic strategies.
Antagonism of propofol anesthesia by alkyl-fluorobenzene derivatives
Authors: Plasencia Diana M. , Rodgers Liam H. , Knighton Alexys R. , Eckenhoff Roderic G. , White E. Railey
Published: July 2024

Despite their frequent use across many clinical settings, general anesthetics are medications with lethal side effects and no reversal agents. A fluorinated analogue of propofol has previously been shown to antagonize propofol anesthesia in tadpoles and zebrafish, but little further investigation of this class of molecules as anesthetic antagonists has been conducted. A 13-member library of alkyl-fluorobenzene derivatives was tested in an established behavioral model of anesthesia in zebrafish at 5 days post fertilization. These compounds were examined for their ability to antagonize propofol and two volatile anesthetics, as well as their interaction with the anesthetic-binding model protein apoferritin. Two compounds provided significant antagonism of propofol, and when combined, were synergistic, suggesting more than one antagonist sensitive target site. These compounds did not antagonize the volatile anesthetics, indicating some selectivity amongst general anesthetics. For the compounds with the most antagonistic potency, similarities in structure and binding to apoferritin may be suggestive of competitive antagonism; however, this was not supported by a Schild analysis. This is consistent with multiple targets contributing to general anesthesia, but whether these are physiologic antagonists or are antagonists at only some subset of the many anesthetic potential targets remains unclear, and will require additional investigation.
Study on the reduction of residual stress in laser cladding layers through groove texture
Authors: Zhao Changlong , Ma Chen , Du Weilong , Yu Zice , Zhang Zihao
Published: July 2024

In order to develop a method for the production of crack-free cladding layers, we combined surface texturing technology with laser cladding, establishing a multi-field coupled numerical simulation model. A separate investigation was conducted into the temperature, stress, and fluid fields in laser cladding processes with and without texturing, seeking optimal cladding parameters, and conducted experiments. The results of the numerical simulations indicate that pre-set texturing effectively reduces the temperature gradient during the cladding process, thereby making the thermal cycle curve smoother. The residual stresses in the X, Y, and Z directions are reduced by 34.84%, 3.94%, and 50.22%, respectively. The introduction of texturing reduces the internal flow velocity of the melt pool, preventing the occurrence of a double vortex effect. Experimental results show that the residual stresses in the X, Y, and Z directions of the predefined textured cladding layer are reduced by approximately 41%, 8%, and 47%, respectively, compared to the non-textured cladding layer. This effectively improves the surface roughness and internal grain size of the cladding layer, with no significant defects at the metallurgical bonding positions, providing a reference for future improvements in cladding layer quality.
Factors associated with neonatal sepsis among neonates admitted in Kibungo Referral Hospital, Rwanda
Authors: Niyoyita Jean Claude , Ndayisenga Jerome , Omolo Jared , Niyompano Hosee , Bimenyimana Pierre Celestin , Dzinamarira Tafadzwa , Nsekuye Olivier , Chavez Isabella , Hakizayezu François
Published: July 2024

More than one million neonatal deaths occur every year worldwide, of which 99% take place in low-income countries. In Rwanda, nearly 71% of neonatal deaths are preventable and among these, 10% are due to neonatal sepsis. Nevertheless, limited information exists on neonatal sepsis and its associated factors in Rwanda. The objectives of the study were to find prevalence and factors associated with neonatal sepsis among neonates admitted in Kibungo Referral Hospital, Ngoma District, Rwanda. We used a retrospective cross-sectional study design reviewing a subset of neonatal, maternal and laboratory records from Kibungo Hospital in 2017. Data were reviewed and collected from March to May, 2018. Logistic regression and odds ratios were calculated to identify the factors associated with neonatal sepsis at 95% CI, p < 0.05. Of the 972 total neonates’ medical records from 2017, we randomly selected 422 of which 12.8% (n = 54) had neonatal sepsis. When blood cultures were positive, 62% grew Klebsiella pneumoniae. Among neonates with sepsis, 38 (70%) recovered while 16 (30%) died. Neonatal sepsis was strongly associated with neonatal age less than or equal to three days (aOR: 2.769, 95% CI 1.312–5.843; p = 0.008); and gestational age less than 37 weeks (aOR: 4.149; CI 1.1878–9.167; p ≤ 0.001). Increased use of blood cultures including sensitivity testing, routine surface cultures of the neonatology and maternity wards facilities, and systematic ward cleaning are all important approaches to prevent and treat neonatal infections in additional to regular neonatal sepsis evaluations.
Genome assembly, comparative genomics, and identification of genes/pathways underlying plant growth-promoting traits of an actinobacterial strain, Amycolatopsis sp. (BCA-696)
Authors: Gandham Prasad , Vadla Nandini , Saji Angeo , Srinivas Vadlamudi , Ruperao Pradeep , Selvanayagam Sivasubramani , Saxena Rachit K. , Rathore Abhishek , Gopalakrishnan Subramaniam , Thakur Vivek
Published: July 2024

The draft genome sequence of an agriculturally important actinobacterial species Amycolatopsis sp. BCA-696 was developed and characterized in this study. Amycolatopsis BCA-696 is known for its biocontrol properties against charcoal rot and also for plant growth-promotion (PGP) in several crop species. The next-generation sequencing (NGS)-based draft genome of Amycolatopsis sp. BCA-696 comprised of ~ 9.05 Mb linear chromosome with 68.75% GC content. In total, 8716 protein-coding sequences and 61 RNA-coding sequences were predicted in the genome. This newly developed genome sequence has been also characterized for biosynthetic gene clusters (BGCs) and biosynthetic pathways. Furthermore, we have also reported that the Amycolatopsis sp. BCA-696 produces the glycopeptide antibiotic vancomycin that inhibits the growth of pathogenic gram-positive bacteria. A comparative analysis of the BCA-696 genome with publicly available closely related genomes of 14 strains of Amycolatopsis has also been conducted. The comparative analysis has identified a total of 4733 core and 466 unique orthologous genes present in the BCA-696 genome The unique genes present in BCA-696 was enriched with antibiotic biosynthesis and resistance functions. Genome assembly of the BCA-696 has also provided genes involved in key pathways related to PGP and biocontrol traits such as siderophores, chitinase, and cellulase production.
Classification of osteoarthritic and healthy cartilage using deep learning with Raman spectra
Authors: Kok Yong En , Crisford Anna , Parkes Andrew , Venkateswaran Seshasailam , Oreffo Richard , Mahajan Sumeet , Pound Michael
Published: July 2024

Raman spectroscopy is a rapid method for analysing the molecular composition of biological material. However, noise contamination in the spectral data necessitates careful pre-processing prior to analysis. Here we propose an end-to-end Convolutional Neural Network to automatically learn an optimal combination of pre-processing strategies, for the classification of Raman spectra of superficial and deep layers of cartilage harvested from 45 Osteoarthritis and 19 Osteoporosis (Healthy controls) patients. Using 6-fold cross-validation, the Multi-Convolutional Neural Network achieves comparable or improved classification accuracy against the best-performing Convolutional Neural Network applied to either the raw or pre-processed spectra. We utilised Integrated Gradients to identify the contributing features (Raman signatures) in the network decision process, showing they are biologically relevant. Using these features, we compared Artificial Neural Networks, Decision Trees and Support Vector Machines for the feature selection task. Results show that training on fewer than 3 and 300 features, respectively, for the disease classification and layer assignment task provide performance comparable to the best-performing CNN-based network applied to the full dataset. Our approach, incorporating multi-channel input and Integrated Gradients, can potentially facilitate the clinical translation of Raman spectroscopy-based diagnosis without the need for laborious manual pre-processing and feature selection.
Docking analysis of phenolic acid and flavonoids with selected TAS2R receptors and in vitro experiment
Authors: Szczepaniak Oskar , Jokiel Maria , Stuper-Szablewska Kinga , Kobus-Cisowska Joanna
Published: July 2024

Cornelian cherry fruits contain a wide range of phenolic acids, flavonoids, and other secondary metabolites. Selected flavonoids may inhibit the perceiving of bitterness, however, the full mechanism with all TAS2R bitter taste receptors is not known. The aim of the study was to determine the inhibitory effect of Cornus mas phenolics against the bitterness receptors TAS2R13 and TAS2R3 through functional in vitro assays and coupling studies. The overall effect was validated by analysing the inhibition of the receptors activity in cells treated with tested cornelian cherry extracts. The strength of interaction with both TAS2R receptors varied between studied compounds with different binding affinity. Most compounds bonded with the TAS2R3 receptor through a long-distant hydrophobic interaction with Trp89A and π–π orbital overlapping—between phenolic and tryptophane aromatic rings. For TAS2R13 observed were various mechanisms of interaction with the compounds. Nonetheless, naringin and quercetin had most similar binding affinity to chloroquine and denatonium—the model agonists for the receptor.
HIV-1 diversity and pre-treatment drug resistance in the era of integrase inhibitor among newly diagnosed ART-naïve adult patients in Luanda, Angola
Authors: Sebastião Cruz S. , Abecasis Ana B. , Jandondo Domingos , Sebastião Joana M. K. , Vigário João , Comandante Felícia , Pingarilho Marta , Pocongo Bárbara , Cassinela Edson , Gonçalves Fátima , Gomes Perpétua , Giovanetti Marta , Francisco Ngiambudulu M. , Sacomboio Euclides , Brito Miguel , Neto de Vasconcelos Jocelyne , Morais Joana , Pimentel Victor
Published: July 2024

The surveillance of drug resistance in the HIV-1 naïve population remains critical to optimizing the effectiveness of antiretroviral therapy (ART), mainly in the era of integrase strand transfer inhibitor (INSTI) regimens. Currently, there is no data regarding resistance to INSTI in Angola since Dolutegravir-DTG was included in the first-line ART regimen. Herein, we investigated the HIV-1 genetic diversity and pretreatment drug resistance (PDR) profile against nucleoside/tide reverse transcriptase inhibitors (NRTIs), non-nucleoside reverse transcriptase inhibitors (NNRTIs), protease inhibitors (PIs), and INSTIs, using a next-generation sequencing (NGS) approach with MinION, established to track and survey DRMs in Angola. This was a cross-sectional study comprising 48 newly HIV-diagnosed patients from Luanda, Angola, screened between March 2022 and May 2023. PR, RT, and IN fragments were sequenced for drug resistance and molecular transmission cluster analysis. A total of 45 out of the 48 plasma samples were successfully sequenced. Of these, 10/45 (22.2%) presented PDR to PIs/NRTIs/NNRTIs. Major mutations for NRTIs (2.2%), NNRTIs (20%), PIs (2.2%), and accessory mutations against INSTIs (13.3%) were detected. No major mutations against INSTIs were detected. M41L (2%) and I85V (2%) mutations were detected for NRTI and PI, respectively. K103N (7%), Y181C (7%), and K101E (7%) mutations were frequently observed in NNRTI. The L74M (9%) accessory mutation was frequently observed in the INSTI class. HIV-1 pure subtypes C (33%), F1 (17%), G (15%), A1 (10%), H (6%), and D (4%), CRF01_AG (4%) were observed, while about 10% were recombinant strains. About 31% of detected HIV-1C sequences were in clusters, suggesting small-scale local transmission chains. No major mutations against integrase inhibitors were detected, supporting the continued use of INSTI in the country. Further studies assessing the HIV-1 epidemiology in the era of INSTI-based ART regimens are needed in Angola.
Impact of a mindfulness-based intervention on well-being and mental health of elementary school children: results from a randomized cluster trial
Authors: Malboeuf-Hurtubise Catherine , Taylor Geneviève , Lambert Danika , Paradis Pier-Olivier , Léger-Goodes Terra , Mageau Geneviève A. , Labbé Gabrielle , Smith Jonathan , Joussemet Mireille
Published: July 2024

Prevention programs, such as mindfulness-based interventions (MBIs), are often implemented in schools to prevent psychological disorders from emerging in children and to support their mental health. This study used a randomized cluster design to evaluate the impact of a MBI, called Mission Méditation, on the well-being and the mental health of elementary school children’s. 13 classrooms of an elementary school were randomly allocated to the experimental condition (7 classrooms, n = 127 students) or the waitlist control condition (6 classrooms, n = 104 students). Participants in the experimental condition received a 10-week MBI. Regression analyses revealed significant differences between conditions for inattention. Participants in the MBI condition reported no change in pre- to post-intervention, whereas participants in the control condition reported pre- to post-intervention increases. Results also showed significant differences in perceived competence. Participants in the MBI condition reported a non-significant decrease in perceive competence, whereas participants in the control condition reported significantly higher perceive competence scores from pre- to post-intervention. Results do not indicate that the MBI had a significant impact on participant’s well-being and mental health. This suggests that MBIs may not have an added value when compared to other preventive interventions geared towards well-being and mental health promotion in school settings.
Association between composite dietary antioxidant index and hyperlipidemia: a cross-sectional study from NHANES (2005–2020)
Authors: Zhao Minli , Zhang Danwei , Zhang Qiuping , Lin Yuan , Cao Hua
Published: July 2024

The association between the composite dietary antioxidant index (CDAI) and hyperlipidemia remains unclear. Therefore, this study aimed to investigate the relationship between CDAI and hyperlipidemia. The data used in this study were obtained from the National Health and Nutrition Examination Survey (NHANES) dataset spanning from 2005 to 2020. Based on 24-h dietary recall interviews, the CDAI was calculated using the intake of six dietary antioxidants. Univariate and multivariate logistic regression models were employed to investigate the relationship between CDAI and the occurrence of hyperlipidemia. Additionally, restricted cubic spline (RCS) analysis was utilized to investigate potential non-linear relationships between the CDAI and risk of hyperlipidemia. The final analysis included 30,788 adults in the United States, among whom 25,525 (82.91%) were diagnosed with hyperlipidemia. A significant negative correlation was observed between the CDAI and hyperlipidemia in the unadjusted (Odds ratio [OR] 0.97 [95% CI 0.96, 0.98]) and multi-variable adjusted (OR 0.98 [95% CI 0.97, 0.99]) models. When the CDAI values were analyzed as a categorical variable, individuals in the highest quartile (OR 0.82 [95% CI 0.73, 0.92]) exhibited a nearly one fifth decreased risk of hyperlipidemia compared to those in the lowest quartile. Additionally, RCS analysis revealed a linear relationship between CDAI and hyperlipidemia (P for nonlinearity = 0.124). The results remained consistent across subgroups except for individuals under the age of 60 or those with diabetes mellitus. There was a significant negative correlation between the CDAI and risk of hyperlipidemia, indicating that maintaining an optimal CDAI level could effectively reduce the incidence of hyperlipidemia.
Research on high-speed classification and location algorithm for logistics parcels based on a monocular camera
Authors: Lu Zhehao , Dai Ning , Hu Xudong , Xu Kaixin , Yuan Yanhong
Published: July 2024

The rapid development of the logistics industry has driven innovations in parcel sorting technology, among which the swift and precise positioning and classification of parcels have become key to enhancing the performance of logistics systems. This study aims to address the limitations of traditional light curtain positioning methods in logistics sorting workshops amidst high-speed upgrades. This paper proposes a high-speed classification and location algorithm for logistics parcels utilizing a monocular camera. The algorithm combines traditional visual processing methods with an enhanced version of the lightweight YOLOv5 object detection algorithm, achieving high-speed, high-precision parcel positioning. Through the adjustment of the network structure and the incorporation of new feature extraction modules and ECIOU loss functions, the model’s robustness and detection accuracy have been significantly improved. Experimental results demonstrate that this model exhibits outstanding performance on a customized logistics parcel dataset, notably enhancing the model's parameter efficiency and computational speed, thereby offering an effective solution for industrial applications in high-speed logistics supply.
Removal of contaminants of emerging concern by Wolffia arrhiza and Lemna minor depending on the process conditions, pollutants concentration, and matrix type
Authors: Kotowska Urszula , Piekutin Janina , Polińska Weronika , Kotowski Adam
Published: July 2024

Research was carried out on the removal of a group of six contaminants of emerging concern: bisphenol A, N,N-diethyl-m-toluamide, diethylstilbestrol, triclosan, estrone and estradiol from the water matrix during contact with small floating macrophytes Wolffia arrhiza and Lemna minor. The optimal conditions for the process, such as pH, light exposure per day, and plant mass, were determined using the design of experiments chemometric approach based on central composite design. Experiments conducted under the designated optimal conditions showed that after 7 days, the removal efficiency equals 88–98% in the case of W. arrhiza and 87–97% in the case of L. minor, while after 14 days of the experiment, these values are 93–99.6% and 89–98%, respectively. The primary mechanism responsible for removing CECs is the plant uptake, with the mean uptake rate constant equal to 0.299 day−1 and 0.277 day−1 for W. arrhiza and L. minor, respectively. Experiments conducted using municipal wastewater as a sample matrix showed that the treatment efficiency remains high (the average values 84% and 75%; in the case of raw wastewater, 93% and 89%, and in the case of treated wastewater, for W. arrhiza and L. minor, respectively). Landfill leachate significantly reduces plants' ability to remove pollutants (the average removal efficiency equals 59% and 56%, for W. arrhiza and L. minor, respectively).
Exploration of effective biomarkers for venous thrombosis embolism in Behçet’s disease based on comprehensive bioinformatics analysis
Authors: Liu Chunjiang , Wang Yuan , Wu Zhifeng , Tang Xiaoqi , Wang Guohua , Wang Jiajia
Published: July 2024

Behçet’s disease (BD) is a multifaceted autoimmune disorder affecting multiple organ systems. Vascular complications, such as venous thromboembolism (VTE), are highly prevalent, affecting around 50% of individuals diagnosed with BD. This study aimed to identify potential biomarkers for VTE in BD patients. Three microarray datasets (GSE209567, GSE48000, GSE19151) were retrieved for analysis. Differentially expressed genes (DEGs) associated with VTE in BD were identified using the Limma package and weighted gene co-expression network analysis (WGCNA). Subsequently, potential diagnostic genes were explored through protein–protein interaction (PPI) network analysis and machine learning algorithms. A receiver operating characteristic (ROC) curve and a nomogram were constructed to evaluate the diagnostic performance for VTE in BD patients. Furthermore, immune cell infiltration analyses and single-sample gene set enrichment analysis (ssGSEA) were performed to investigate potential underlying mechanisms. Finally, the efficacy of listed drugs was assessed based on the identified signature genes. The limma package and WGCNA identified 117 DEGs related to VTE in BD. A PPI network analysis then selected 23 candidate hub genes. Four DEGs (E2F1, GATA3, HDAC5, and MSH2) were identified by intersecting gene sets from three machine learning algorithms. ROC analysis and nomogram construction demonstrated high diagnostic accuracy for these four genes (AUC: 0.816, 95% CI: 0.723–0.909). Immune cell infiltration analysis revealed a positive correlation between dysregulated immune cells and the four hub genes. ssGSEA provided insights into potential mechanisms underlying VTE development and progression in BD patients. Additionally, therapeutic agent screening identified potential drugs targeting the four hub genes. This study employed a systematic approach to identify four potential hub genes (E2F1, GATA3, HDAC5, and MSH2) and construct a nomogram for VTE diagnosis in BD. Immune cell infiltration analysis revealed dysregulation, suggesting potential macrophage involvement in VTE development. ssGSEA provided insights into potential mechanisms underlying BD-induced VTE, and potential therapeutic agents were identified.
Optimizing germination conditions of Ghaf seed using ZnO nanoparticle priming through Taguchi method analysis
Authors: Francis Dali V. , Subhan Abdul , I. Mourad Abdel-Hamid , K. Abdalla Abdelmoneim , F. R. Ahmed Zienab
Published: July 2024

Ghaf, a resilient tree in arid environments, plays a critical role in ecological restoration, desertification mitigation, and cultural heritage preservation. However, the seeds’ inherent challenges, notably their hard outer coating restricting germination, emphasize the pressing need for innovative strategies. This work aimed to investigate the optimization of Ghaf seed germination process through seed priming with ZnO nanoparticles treatment (duration (t), concentration (c), temperature (T), and agitation (a), employing the Taguchi method for efficient experimental design. Furthermore, the study includes Analysis of Variance (ANOVA), analysis for the regression model to assess the significance of predictor variables and their interactions, thereby strengthening the statistical validity of our optimization approach. Notably, it revealed that concentration is a pivotal influencer in optimization of Ghaf seed germination. The results showed that the concentration of ZnO nanoparticles has no linear relation with any other parameters. To verify the outcomes, validation tests were performed utilizing the predicted optimal parameters. The observed low error ratio, falling within the range of 1 to 6%, confirmed the success of the Taguchi methodology in identifying optimal levels of the factors chosen. Significantly, ZnO-primed seeds showcased a remarkable enhancement in Ghaf seed germination, increasing from 15 to 88%. This study introduces a novel approach utilizing ZnO nanoparticle treatment optimized through the Taguchi method, significantly enhancing seed germination rates of Ghaf seeds and offering a promising avenue for sustainable agricultural practices in arid environments.