bluuebunny/crossref_metadata_2025 huggingface dataset:
Deep Learning-Based Computer-Aided Classification of Amniotic Fluid Using Ultrasound Images from Saudi Arabia
Authors: Khan Irfan Ullah , Aslam Nida , Anis Fatima M. , Mirza Samiha , AlOwayed Alanoud , Aljuaid Reef M. , Bakr Razan M. , Qahtani Nourah Hasan Al
Published: October 2022

Amniotic Fluid (AF) refers to a protective liquid surrounding the fetus inside the amniotic sac, serving multiple purposes, and hence is a key indicator of fetal health. Determining the AF levels at an early stage helps to ascertain the maturation of lungs and gastrointestinal development, etc. Low AF entails the risk of premature birth, perinatal mortality, and thereby admission to intensive care unit (ICU). Moreover, AF level is also a critical factor in determining early deliveries. Hence, AF detection is a vital measurement required during early ultrasound (US), and its automation is essential. The detection of AF is usually a time-consuming process as it is patient specific. Furthermore, its measurement and accuracy are prone to errors as it heavily depends on the sonographer’s experience. However, automating this process by developing robust, precise, and effective methods for detection will be beneficial to the healthcare community. Therefore, in this paper, we utilized transfer learning models in order to classify the AF levels as normal or abnormal using the US images. The dataset used consisted of 166 US images of pregnant women, and initially the dataset was preprocessed before training the model. Five transfer learning models, namely, Xception, Densenet, InceptionResNet, MobileNet, and ResNet, were applied. The results showed that MobileNet achieved an overall accuracy of 0.94. Overall, the proposed study produces an effective result in successfully classifying the AF levels, thereby building automated, effective models reliant on transfer learning in order to aid sonographers in evaluating fetal health.
Detection and Classification of Human-Carrying Baggage Using DenseNet-161 and Fit One Cycle
Authors: Ramadan Mohamed K. , Youssif Aliaa A. A. , El-Behaidy Wessam H.
Published: October 2022

In recent decades, the crime rate has significantly increased. As a result, the automatic video monitoring system has become increasingly important for researchers in computer vision. A person’s baggage classification is essential in knowing who has abandoned baggage. This paper proposes a model for classifying humans carrying baggage. Two approaches are used for comparison using a deep learning technique. The first approach is based on categorizing human-containing image regions as either with or without baggage. The second approach classifies human-containing image regions based on the human position direction attribute. The proposed model is based on the pretrained DenseNet-161 architecture. It uses a "fit-one-cycle policy" strategy to reduce the training time and achieve better accuracy. The Fastai framework is used for implementation due to its super computational ability, simple workflow, and unique data cleansing functionalities. Our proposed model was experimentally validated, and the results show that the process is sufficiently precise, faster, and outperforms the existing methods. We achieved an accuracy of between 96% and 98.75% for the binary classification and 96.67% and 98.33% for the multi-class classification. For multi-class classification, the datasets, such as PETA, INRIA, ILIDS, and MSMT17, are re-annotated with one’s direction information about one’s stance to test the suggested approach’s efficacy.
Figs (Ficus carica L.) Used as Raw Material for Obtaining Alcoholic Fermented Beverages
Authors: Moisescu Emilia , Antoce Arina Oana
Published: October 2022

The fig tree is one of the oldest species cultivated by mankind. In spite of having high nutraceutical value and a pleasant taste, the fig is not a widely cultivated fruit. Furthermore, figs are extremely perishable, therefore they are usually sold as dried fruits rather than fresh. To harness this valuable fruit, other derived products should also be considered. For instance, the production of alcoholic beverages fermented from figs comes in response to the interest of producers to capitalize on these fruits in other ways than as fresh or dried fruit or jam. The present research focuses on the possibility of obtaining marketable fermented beverages made from three fig varieties cultivated in southwestern Romania. The aim of the study was to provide an optimized technological process for the production of alcoholic beverages fermented from fresh figs and to assess their quality and acceptability. The products were obtained in triplicate from each fig variety and their quality was assessed by determining their main chemical parameters, as well as their sensory properties. This research provided valuable information regarding the technological process to be applied for fig fermented beverages, processes which can still be further refined to better meet the consumer demand.
Apical Medium Flow Influences the Morphology and Physiology of Human Proximal Tubular Cells in a Microphysiological System
Authors: Specioso Gabriele , Bovard David , Zanetti Filippo , Maranzano Fabio , Merg Céline , Sandoz Antonin , Titz Bjoern , Dalcanale Federico , Hoeng Julia , Renggli Kasper , Suter-Dick Laura
Published: October 2022

There is a lack of physiologically relevant in vitro human kidney models for disease modelling and detecting drug-induced effects given the limited choice of cells and difficulty implementing quasi-physiological culture conditions. We investigated the influence of fluid shear stress on primary human renal proximal tubule epithelial cells (RPTECs) cultured in the micro-physiological Vitrofluid device. This system houses cells seeded on semipermeable membranes and can be connected to a regulable pump that enables controlled, unidirectional flow. After 7 days in culture, RPTECs maintained physiological characteristics such as barrier integrity, protein uptake ability, and expression of specific transporters (e.g., aquaporin-1). Exposure to constant apical side flow did not cause cytotoxicity, cell detachment, or intracellular reactive oxygen species accumulation. However, unidirectional flow profoundly affected cell morphology and led to primary cilia lengthening and alignment in the flow direction. The dynamic conditions also reduced cell proliferation, altered plasma membrane leakiness, increased cytokine secretion, and repressed histone deacetylase 6 and kidney injury molecule 1 expression. Cells under flow also remained susceptible to colistin-induced toxicity. Collectively, the results suggest that dynamic culture conditions in the Vitrofluid system promote a more differentiated phenotype in primary human RPTECs and represent an improved in vitro kidney model.
Prediction of the Ibuprofen Loading Capacity of MOFs by Machine Learning
Authors: Liu Xujie , Wang Yang , Yuan Jiongpeng , Li Xiaojing , Wu Siwei , Bao Ying , Feng Zhenzhen , Ou Feilong , He Yan
Published: October 2022

Metal-organic frameworks (MOFs) have been widely researched as drug delivery systems due to their intrinsic porous structures. Herein, machine learning (ML) technologies were applied for the screening of MOFs with high drug loading capacity. To achieve this, first, a comprehensive dataset was gathered, including 40 data points from more than 100 different publications. The organic linkers, metal ions, and the functional groups, as well as the surface area and the pore volume of the investigated MOFs, were chosen as the model’s inputs, and the output was the ibuprofen (IBU) loading capacity. Thereafter, various advanced and powerful machine learning algorithms, such as support vector regression (SVR), random forest (RF), adaptive boosting (AdaBoost), and categorical boosting (CatBoost), were employed to predict the ibuprofen loading capacity of MOFs. The coefficient of determination (R2) of 0.70, 0.72, 0.66, and 0.76 were obtained for the SVR, RF, AdaBoost, and CatBoost approaches, respectively. Among all the algorithms, CatBoost was the most reliable, exhibiting superior performance regarding the sparse matrices and categorical features. Shapley additive explanations (SHAP) analysis was employed to explore the impact of the eigenvalues of the model’s outputs. Our initial results indicate that this methodology is a well generalized, straightforward, and cost-effective method that can be applied not only for the prediction of IBU loading capacity, but also in many other biomaterials projects.
Effects of Shoe Midfoot Bending Stiffness on Multi-Segment Foot Kinematics and Ground Reaction Force during Heel-Toe Running
Authors: Ma Ruiya , Lam Wing-Kai , Ding Rui , Yang Fan , Qu Feng
Published: October 2022

We investigated how midfoot stiffness of running shoes influences foot segment kinematics and ground reaction force (GRF) during heel-toe running. Nineteen male rearfoot strike runners performed overground heel-toe running at 3.3 m/s when wearing shoes with different midfoot bending stiffnesses (low, medium, and high) in a randomized order. A synchronized motion capture system (200 Hz) and force plate (1000 Hz) were used to collect the foot-marker trajectories and GRF data. Foot kinematics, including rearfoot-lab, midfoot-rearfoot, forefoot-rearfoot, and forefoot-midfoot interactions, and kinetics, including GRF characteristics, were analyzed. Our results indicated that high midfoot stiffness shoes reduced the forefoot-rearfoot range of motion (mean ± SD; high stiffness, 7.8 ± 2.0°, low stiffness, 8.7 ± 2.1°; p < 0.05) and forefoot-midfoot range of motion (mean ± SD; high stiffness, 4.2 ± 1.1°, medium stiffness, 4.6 ± 0.9°; p < 0.05) in the frontal plane. No differences were found in the GRF characteristics among the shoe conditions. These findings suggest that an increase in midsole stiffness only in the midfoot region can reduce intersegmental foot medial-lateral movements during the stance phase of running. This may further decrease the tension of the foot muscles and tendons during prolonged exercises.
The Preliminary Results for Evaluating Cocoa Butter’s Hepatoprotective Effects against Lipid Accumulation and Inflammation in Adult Male Rats Chronically Fed Ethanol
Authors: Chang Hsiao-Yun , Chen Jiun-Rong , Chen Yi-Hsiu , Xiao Qian , Chen Ya-Ling , Yang Suh-Ching
Published: October 2022

The purpose of this study was to clarify the role of saturated fats from cocoa butter (plant source) compared with lard (animal source) on alcoholic liver damage in rats. Male Wistar rats were fed either a control diet (C) or an ethanol diet (E), and the dietary fats (corn oil, olive oil, and safflower oil) of these two diets were further replaced by lard (CL, EL) or cocoa butter (CC, EC). After 8-week feeding, plasma aspartate aminotransferase (AST) and alanine aminotransferase (ALT) activities, hepatic triglyceride (TG) levels, plasma intercellular adhesion molecular (ICAM)-1 levels, hepatic cytochrome P450 2E1 (CYP2E1) protein expression, and hepatic interleukin (IL)-1β significantly increased in the E group compared to the C group. In addition, hepatic histopathological scores of fatty changes, inflammatory cell infiltration, and degeneration and necrosis in the E group were significantly higher compared to those in the C group. However, fatty changes were significantly inhibited only in the EC group as well as hepatic inflammatory cell infiltration, degeneration, and necrosis being significantly lower in the EL and EC groups. Plasma ICAM-1 and hepatic tumor necrosis factor (TNF)-α, IL-1β, IL-6, and IL-10 levels were significantly lower in the EL and EC groups than those in the E group. Moreover, a correlation analysis showed that hepatic histopathological scores of degeneration and necrosis were significantly positively correlated with erythrocytic oleic acid (C18:1) and were negatively correlated with linoleic acid (C18:2). In conclusion, cocoa butter protected the liver against lipid accumulation and inflammation in rats chronically fed ethanol.
Real-World Effectiveness and Safety of SDZ-ADL (Adalimumab Biosimilar) in Patients with Psoriasis from the British Association of Dermatologists Biologic and Immunomodulators Register (BADBIR)
Authors: Puig Lluís , Shams Kave , Furlan Fabricio , Salvati Cristofer , Romero Elisa , Fan Jamie , Iversen Lars
Published: October 2022

SDZ-ADL is a biosimilar of reference adalimumab. Here, the safety and effectiveness data of SDZ-ADL from the British Association of Dermatologists Biologic and Immuno-modulators Register (BADBIR) are reported. In the safety set, data of SDZ-ADL were compared with conventional systemics data. In the effectiveness set, the effectiveness and quality-of-life of patients treated with SDZ-ADL as a first-time biologic, or who switched from a previous biologic to SDZ-ADL, were assessed using the Psoriasis Activity Severity Index (PASI) and Dermatology Life Quality Index (DLQI), respectively. A total of 565 (incidence rate (IR) per 1000 person-years 29.1, 95% CI 26.8–31.6) serious infections and 48 (IR 2.5, 95% CI 1.8–3.3) myocardial infarction events were reported in the conventional systemics cohort compared with four (IR 31.5, 95% CI 8.6–80.7) and one (IR 7.9, 95% CI 0.2–43.9) in the biologic cohort, respectively. One patient (0.7% (1/136)) reported injection-site pain in the biologic cohort. At 12 months, PASI ≤ 2 was achieved in 84.6% (11/13) and 76.9% (10/13) and DLQI 0/1 was achieved in 70% (7/10) and 75% (3/4) of patients in the biologic-naïve and biologic-switch cohorts, respectively. After one year of therapy, 82.7% (110/133) patients remained on SDZ-ADL. SDZ-ADL was well-tolerated and effective in patients with psoriasis.
N-Carbamylglutamate Improves Reproductive Performance and Alters Fecal Microbiota and Serum Metabolites of Primiparous Sows during Gestation after Fixed-Time Artificial Insemination
Authors: Feng Tao , Xiao Linli , Bai Jiahua , Ding Hongxiang , Pang Liyan , Song Yuqing , Qin Yusheng , Xu Xiaoling , Wang Jing , Liu Yan
Published: October 2022

N-carbamylglutamate (NCG) supplementation during gestation improves reproductive performance in sows after conventional artificial insemination. However, whether NCG can improve reproductive performance and change fecal microbiota and serum metabolite levels during pregnancy in sows after fixed-time artificial insemination (FTAI) remains unclear. Two hundred multiparous sows were assigned a diet from mating until farrowing: control (corn–soybean meal) or NCG supplementation (0.05% NCG). At days 30, 70, and 110 of gestation and after farrowing, maternal microbial diversity and serum metabolites were studied. Supplementation of NCG increased the number of piglets born alive and the litter weight (all p < 0.05) and altered the fetal microbial community during gestation. Some genera were particularly abundant at different time points during gestation and after farrowing, but none were commonly abundant across all four time points. Metabolic analysis revealed that NCG supplementation significantly increased the serum concentrations of NCG, ferulic acid, cinnamoylglycine, 3-phenyllactic acid, and gamma-glutamylglutamic acid in the NCG group compared with levels in the control group. Our results reveal that NCG supplementation during gestation improves reproductive performance in sows after FTAI, exerting both direct (increased serum NCG levels) and indirect effects (altered intestinal microbiome and serum metabolites) on sow reproduction and, ultimately, improving placental and fetal development.
The First Survival Score for Patients Aged ≥80 Years Irradiated for Brain Metastases
Authors: Rades Dirk , Delikanli Cansu , Schild Steven E. , Kristiansen Charlotte , Tvilsted Søren , Janssen Stefan
Published: October 2022

Survival scores facilitate personalized cancer treatment. Due to demographic changes, very elderly patients are more prevalent than in the past. A score was developed in 94 patients aged ≥ 80 years undergoing whole-brain radiotherapy for brain metastases. Dose fractionation, treatment period, age, sex, performance score (ECOG-PS), tumor type, count of lesions, metastases outside the brain, and interval tumor diagnosis to radiotherapy were retrospectively evaluated. Independent predictors of survival were used for the score. Based on individual scoring points obtained from 3-month survival rates, prognostic groups were designed. Additionally, the score was compared to an existing tool developed in patients ≥ 65 years. ECOG-PS, count of lesions, and extra-cranial metastases were independent prognostic factors. Three groups were created (7, 10, and 13–16 points) with 3-month survival of 6%, 25%, and 67% (p < 0.001), respectively. Positive predictive values (PPVs) regarding death ≤ 3 and survival ≥ 3 months were 94% and 67% (new score) vs. 96% and 48% (existing tool), respectively. PPVs for survival ≥1 and ≥2 months were 88% and 79% vs. 63% and 58%, respectively. Both tools were accurate in predicting death ≤2, ≤3, and ≤6 months. The new score was more precise regarding death ≤1 month and survival (all time periods) and appeared preferable. However, it still needs to be validated.
Neuromuscular Fatigue and Metabolic Stress during the 15 Minutes of Rest after Carrying Out a Bench Press Exercise Protocol
Authors: Hernández-Lougedo Juan , Heredia-Elvar Juan Ramón , Maicas-Pérez Luis , Cañuelo-Márquez Ana María , Rozalén-Bustín Manuel , de Jesús Franco Fernando , Garnacho-Castaño Manuel Vicente , García-Fernández Pablo , Maté-Muñoz José Luis
Published: October 2022

Background: Velocity loss (VL) at 1 m·s−1 can help to determine neuromuscular fatigue after performing an exercise protocol. The aim of this study was to analyse muscle fatigue and metabolic stress during the 15 min that follow the execution of a bench press (BP) exercise protocol. Methods: Forty-four healthy male students of sports science performed two exercise sessions separated by one week of rest. In the first week, the participants carried out a test with progressive loads in the (BP) exercise until reaching the one-repetition maximum (1RM) in order to obtain the load–velocity relationship of each participant. In the second week, each participant conducted three BP exercise sets at an intensity of 70% of 1RM, determining this load through the mean propulsive velocity (MPV) obtained from the individual load–velocity relationship, with the participants performing the maximum number of repetitions (MNR) to muscle failure. Two minutes of rest were allocated between sets. MPV at 1 m·s−1 and blood lactate concentrations were recorded before executing the exercise and at minute 0, 5, 10 and 15 after performing the exercise protocol. Results: A two-factor repeated measures ANOVA was performed. MPV at 1 m·s−1 in minute 0 post-exercise was −33.3% (p < 0.05), whereas in minute 10 and 15 post-exercise, it was ≈−9% (p > 0.05). Regarding the blood lactate levels, significant differences were observed in all measurements before and after the exercise protocol (p < 0.001), obtaining ≈7 mmol·L−1 at minute 10 post-exercise and 4.3 mmol·L−1 after 15 min of recovery. Conclusions: MPV with medium or moderate loads shows a certain recovery from minute 10 of rest. However, the blood lactate levels are still high (>5 mmol·L−1). Therefore, although there seem to be certain conditions to reach a similar maximum MPV peak, the residual fatigue at the neuromuscular level and the non-recovery of metabolic homeostasis would hinder the reproduction of these protocols, both at the level of applied stimulus and from a methodological perspective, since a long recovery time would be required between sets and exercises.
Preliminary Data about Habitat Use of Subadult and Adult White Sharks (Carcharodon carcharias) in Eastern Australian Waters
Authors: Coxon Jessica , Butcher Paul , Spaet Julia , Rizzari Justin
Published: October 2022

In eastern Australia, white sharks (Carcharodon carcharias) are targeted in shark control programs, yet the movement of subadults and adults of the eastern Australasian population is poorly understood. To investigate horizontal and vertical movement and habitat use in this region, MiniPAT pop-up satellite archival tags were deployed on three larger white sharks (340–388 cm total length) between May 2021 and January 2022. All sharks moved away from the coast after release and displayed a preference for offshore habitats. The upper < 50 m of the water column and temperatures between 14–19 °C were favoured, with a diel pattern of vertical habitat use evident as deeper depths were occupied during the day and shallower depths at night. Horizontal movement consisted of north–south seasonality interspersed with periods of residency. Very little information is available for adult white sharks in eastern Australia and studies like this provide key baseline information for their life history. Importantly, the latitudinal range achieved by white sharks illuminate the necessity for multijurisdictional management to effectively mitigate human-shark interactions whilst supporting conservation efforts of the species.
Maximizing Cumulative Trypsin Activity with Calcium at Elevated Temperature for Enhanced Bottom-Up Proteome Analysis
Authors: Nickerson Jessica , Doucette Alan
Published: October 2022

Bottom-up proteomics relies on efficient trypsin digestion ahead of MS analysis. Prior studies have suggested digestion at elevated temperature to accelerate proteolysis, showing an increase in the number of MS-identified peptides. However, improved sequence coverage may be a consequence of partial digestion, as higher temperatures destabilize and degrade the enzyme, causing enhanced activity to be short-lived. Here, we use a spectroscopic (BAEE) assay to quantify calcium-stabilized trypsin activity over the complete time course of a digestion. At 47 °C, the addition of calcium contributes a 25-fold enhancement in trypsin stability. Higher temperatures show a net decrease in cumulative trypsin activity. Through bottom-up MS analysis of a yeast proteome extract, we demonstrate that a 1 h digestion at 47 °C with 10 mM Ca2+ provides a 29% increase in the total number of peptide identifications. Simultaneously, the quantitative proportion of peptides with 1 or more missed cleavage sites was diminished in the 47 °C digestion, supporting enhanced digestion efficiency with the 1 h protocol. Trypsin specificity also improves, as seen by a drop in the quantitative abundance of semi-tryptic peptides. Our enhanced digestion protocol improves throughput for bottom-up sample preparation and validates the approach as a robust, low-cost alternative to maximized protein digestion efficiency.
Characterization and Expression Analysis of Mollusk-like Growth Factor: A Secreted Protein Involved in Pacific Abalone Embryonic and Larval Development
Authors: Hanif Md Abu , Hossen Shaharior , Cho Yusin , Sukhan Zahid Parvez , Choi Cheol Young , Kho Kang Hee
Published: October 2022

Growth factors are mostly secreted proteins that play key roles in an organism’s biophysical processes through binding to specific receptors on the cell surface. The mollusk-like growth factor (MLGF) is a novel cell signaling protein in the adenosine deaminase-related growth factor (ADGF) subfamily. In this study, the MLGF gene was cloned and characterized from the digestive gland tissue of Pacific abalone and designated as Hdh-MLGF. The transcribed full-length sequence of Hdh-MLGF was 1829 bp long with a 1566 bp open reading frame (ORF) encoding 521 amino acids. The deduced amino acid sequence contained a putative signal peptide and two conserved adenosine deaminase domains responsible for regulating molecular function. Fluorescence in situ hybridization localized Hdh-MLGF in the submucosa layer of digestive tubules in the digestive gland. The mRNA expression analysis indicated that Hdh-MLGF expression was restricted to the digestive gland in the adult Pacific abalone. However, Hdh-MLGF mRNA expressions were observed in all stages of embryonic and larval development, suggesting Hdh-MLGF might be involved in the Pacific abalone embryonic and larval development. This is the first study describing Hdh-MLGF and its involvement in the Pacific abalone embryonic and larval development.
Eccentric Training in Pulmonary Rehabilitation of Post-COVID-19 Patients: An Alternative for Improving the Functional Capacity, Inflammation, and Oxidative Stress
Authors: Contreras-Briceño Felipe , Espinosa-Ramírez Maximiliano , Rozenberg Dmitry , Reid W. Darlene
Published: October 2022

The purpose of this narrative review is to highlight the oxidative stress induced in COVID-19 patients (SARS-CoV-2 infection), describe longstanding functional impairments, and provide the pathophysiologic rationale that supports aerobic eccentric (ECC) exercise as a novel alternative to conventional concentric (CONC) exercise for post-COVID-19 patients. Patients who recovered from moderate-to-severe COVID-19 respiratory distress demonstrate long–term functional impairment. During the acute phase, SARS-CoV-2 induces the generation of reactive oxygen species that can be amplified to a “cytokine storm”. The resultant inflammatory and oxidative stress process causes organ damage, particularly in the respiratory system, with the lungs as the tissues most susceptible to injury. The acute illness often requires a long-term hospital stay and consequent sarcopenia. Upon discharge, muscle weakness compounded by limited lung and cardiac function is often accompanied by dyspnea, myalgia, anxiety, depression, and sleep disturbance. Consequently, these patients could benefit from pulmonary rehabilitation (PR), with exercise as a critical intervention (including sessions of strength and endurance or aerobic exercises). Unfortunately, conventional CONC exercises induce significant cardiopulmonary stress and increase inflammatory and oxidative stress (OS) when performed at moderate/high intensity, which can exacerbate debilitating dyspnoea and muscle fatigue post-COVID-19. Eccentric training (ECC) is a well–tolerated alternative that improves muscle mass while mitigating cardiopulmonary stress in patients with COPD and other chronic diseases. Similar benefits could be realized in post-COVID-19 patients. Consequently, these patients could benefit from PR with exercise as a critical intervention.
Carbon Footprint Management by Agricultural Practices
Authors: Ozlu Ekrem , Arriaga Francisco Javier , Bilen Serdar , Gozukara Gafur , Babur Emre
Published: October 2022

Global attention to climate change issues, especially air temperature changes, has drastically increased over the last half-century. Along with population growth, greater surface temperature, and higher greenhouse gas (GHG) emissions, there are growing concerns for ecosystem sustainability and other human existence on earth. The contribution of agriculture to GHG emissions indicates a level of 18% of total GHGs, mainly from carbon dioxide (CO2), methane (CH4), and nitrous oxide (N2O). Thus, minimizing the effects of climate change by reducing GHG emissions is crucial and can be accomplished by truly understanding the carbon footprint (CF) phenomenon. Therefore, the purposes of this study were to improve understanding of CF alteration due to agricultural management and fertility practices. CF is a popular concept in agro-environmental sciences due to its role in the environmental impact assessments related to alternative solutions and global climate change. Soil moisture content, soil temperature, porosity, and water-filled pore space are some of the soil properties directly related to GHG emissions. These properties raise the role of soil structure and soil health in the CF approach. These properties and GHG emissions are also affected by different land-use changes, soil types, and agricultural management practices. Soil management practices globally have the potential to alter atmospheric GHG emissions. Therefore, the relations between photosynthesis and GHG emissions as impacted by agricultural management practices, especially focusing on soil and related systems, must be considered. We conclude that environmental factors, land use, and agricultural practices should be considered in the management of CF when maximizing crop productivity.
Combined Treatment with KV Channel Inhibitor 4-Aminopyridine and either γ-Cystathionine Lyase Inhibitor β-Cyanoalanine or Epinephrine Restores Blood Pressure, and Improves Survival in the Wistar Rat Model of Anaphylactic Shock
Authors: Bellou Abdelouahab , Sennoun Nacira , Aburawi Elhadi H. , Jayaraj Richard L. , Alper Seth L. , Alfaki Ibrahim Abdallah , Yasin Javed , Sekar Subramanian , Shafiuallah Mohamed , Al-Salam Suhail , Nemmar Abderrahim , Kazzam Elsadig , Mertes Paul Michel , Al-Hammadi Suleiman
Published: October 2022

The mechanism of anaphylactic shock (AS) remains incompletely understood. The potassium channel blocker 4-aminopyridine (4-AP), the inhibitors of cystathionine γ-lyase (ICSE), dl-propargylglycine (DPG) or β-cyanoalanine (BCA), and the nitric oxide (NO) synthase produce vasoconstriction and could be an alternative for the treatment of AS. The aim of this study was to demonstrate the ability of L-NAME, ICSE alone or in combination with 4-AP to restore blood pressure (BP) and improve survival in ovalbumin (OVA) rats AS. Experimental groups included non-sensitized Wistar rats (n = 6); AS (n = 6); AS (n = 10 per group) treated i.v. with 4-AP (AS+4-AP), epinephrine (AS+EPI), AS+DPG, AS+BCA, or with L-NAME (AS+L-NAME); or AS treated with drug combinations 4-AP+DPG, 4-AP+BCA, 4-AP+L-NAME, or 4-AP+EPI. AS was induced by i.v. OVA (1 mg). Treatments were administered i.v. one minute after AS induction. Mean arterial BP (MAP), heart rate (HR), and survival were monitored for 60 min. Plasma levels of histamine, prostaglandin E2 (PGE2) and F2 (PGF2α), leukotriene B4 and C4, angiotensin II, vasopressin, oxidative stress markers, pH, HCO3, PaO2, PaCO2, and K+ were measured. OVA induced severe hypotension and all AS rats died. Moreover, 4-AP, 4-AP+EPI, or 4-AP+BCA normalized both MAP and HR and increased survival. All sensitized rats treated with 4-AP alone or with 4-AP+BCA survived. The time-integrated MAP “area under the curve” was significantly higher after combined 4-AP treatment with ICSE. Metabolic acidosis was not rescued and NO, ICSE, and Kv inhibitors differentially alter oxidative stress and plasma levels of anaphylactic mediators. The AS-induced reduction of serum angiotensin II levels was prevented by 4-AP treatment alone or in combination with other drugs. Further, 4-AP treatment combined with EPI or with BCA also increased serum PGF2α, whereas only the 4-AP+EPI combination increased serum LTB4. Serum vasopressin and angiotensin II levels were increased by 4-AP treatment alone or in combination with other drugs. Moreover, 4-AP alone and in combination with inhibition of cystathionine γ-lyase or EPI normalizes BP, increases serum vasoconstrictor levels, and improves survival in the Wistar rat model of AS. These findings suggest possible investigative treatment pathways for research into epinephrine-refractory anaphylactic shock in patients.
Characterization of Porcine Monocyte-Derived Macrophages Cultured in Serum-Reduced Medium
Authors: Štěpánová Hana , Kavanová Lenka , Levá Lenka , Vícenová Monika , Šťastný Kamil , Faldyna Martin
Published: October 2022

The aim of this study was to establish a cell culture system for the generation of porcine monocyte-derived macrophages (MDMs) under reduced-serum conditions. Cultures based on either the Nu-Serum™ Growth Medium Supplement (NUS) or a conventional fetal bovine serum (FBS) were compared, which included the assessment of FBS from two different providers (FBS1 and FBS2). The data obtained confirmed the significant impact of culture conditions on in vitro-generated MDMs. The MDMs cultured under reduced-serum conditions showed increased levels of IL-1β and CD86 mRNA and a proinflammatory cytokine profile, characterized by the increased mRNA expression of IL-23p19, CXCL10, and CCL5. Phagocytic and respiratory burst activities were not adversely affected. Surprisingly, the difference between the two FBSs was much more pronounced than the effect of the reduced-serum supplement. The FBS1 culture conditions gave rise to macrophages with higher surface levels of CD14, CD16, and CD163, a lower CD80 mRNA expression, and an increased induction of IL-10 gene expression. In contrast, none of these trends were observed in macrophage cultures supplemented with FBS2. Instead, the FBS2 culture showed increased levels of IL-1b and CD86 mRNA. In conclusion, reduced-serum culture is a useful tool for in vitro porcine MDM generation, in line with the current research trend of reducing FBS use in biological research.
Two Novel Lasiodiplodia Species from Blighted Stems of Acer truncatum and Cotinus coggygria in China
Authors: Qiao Guanghang , Zhao Juan , Liu Juanjuan , Tan Xiaoqian , Qin Wentao
Published: October 2022

The Lasiodiplodia are major pathogens or endophytes living on a wide range of plant hosts in tropical and subtropical regions, which can cause stem canker, shoot blight, and rotting of fruits and roots. During an exploration of the stem diseases on Acer truncatum and Cotinus coggygria in northern China, two novel species of Lasiodiplodia, L. acerina G.H. Qiao & W.T. Qin and L. cotini G.H. Qiao & W.T. Qin, were discovered based on integrated studies of the morphological characteristics and phylogenetic analyses of the internal transcribed spacer region (ITS), translation elongation factor 1-α (TEF1-α), beta-tubulin (TUB2) and RNA polymerase II subunit b genes (RPB2). Lasiodiplodia acerina is a sister taxon of L. henannica and distinguishable by smaller paraphysis and larger conidiomata. Lasiodiplodia cotini is closely related to L. citricola but differs in the sequence data and the size of paraphyses. Distinctions between the two novel species and their close relatives were compared and discussed in details. This study updates the knowledge of species diversity of the genus Lasiodiplodia. Furthermore, this is the first report of Lasiodiplodia associated with blighted stems of A. truncatum and C. coggygria in China.
Application of Multigene Panels Testing for Hereditary Cancer Syndromes
Authors: Bilyalov Airat , Nikolaev Sergey , Shigapova Leila , Khatkov Igor , Danishevich Anastasia , Zhukova Ludmila , Smolin Sergei , Titova Marina , Lisica Tatyana , Bodunova Natalia , Shagimardanova Elena , Gusev Oleg
Published: October 2022

Background: Approximately 5–10% of all cancers are associated with hereditary cancer predisposition syndromes (HCPS). Early identification of HCPS is facilitated by widespread use of next-generation sequencing (NGS) and brings significant benefits to both the patient and their relatives. This study aims to evaluate the landscape of genetic variants in patients with personal and/or family history of cancer using NGS-based multigene panel testing. Materials and Methods: The study cohort included 1117 probands from Russia: 1060 (94.9%) patients with clinical signs of HCPS and 57 (5.1%) healthy individuals with family history of cancer. NGS analysis of 76 HCPS genes was performed using a custom Roche NimbleGen enrichment panel. Results: Pathogenic/likely pathogenic variants were identified in 378 of 1117 individuals (33.8%). The predominant number (59.8%) of genetic variants was identified in BRCA1/BRCA2 genes. CHEK2 was the second most commonly altered gene with a total of 28 (7.4%) variants, and 124 (32.8%) genetic variants were found in other 35 cancer-associated genes with variable penetrance. Conclusions: Multigene panel testing allows for a differential diagnosis and identification of high-risk group for oncological diseases. Our results demonstrate that inclusion of non-coding gene regions into HCPS gene panels is highly important for the identification of rare spliceogenic variants with high penetrance.
Estimating the Prognosis of Low-Grade Glioma with Gene Attention Using Multi-Omics and Multi-Modal Schemes
Authors: Choi Sanghyuk Roy , Lee Minhyeok
Published: October 2022

The prognosis estimation of low-grade glioma (LGG) patients with deep learning models using gene expression data has been extensively studied in recent years. However, the deep learning models used in these studies do not utilize the latest deep learning techniques, such as residual learning and ensemble learning. To address this limitation, in this study, a deep learning model using multi-omics and multi-modal schemes, namely the Multi-Prognosis Estimation Network (Multi-PEN), is proposed. When using Multi-PEN, gene attention layers are employed for each datatype, including mRNA and miRNA, thereby allowing us to identify prognostic genes. Additionally, recent developments in deep learning, such as residual learning and layer normalization, are utilized. As a result, Multi-PEN demonstrates competitive performance compared to conventional models for prognosis estimation. Furthermore, the most significant prognostic mRNA and miRNA were identified using the attention layers in Multi-PEN. For instance, MYBL1 was identified as the most significant prognostic mRNA. Such a result accords with the findings in existing studies that have demonstrated that MYBL1 regulates cell survival, proliferation, and differentiation. Additionally, hsa-mir-421 was identified as the most significant prognostic miRNA, and it has been extensively reported that hsa-mir-421 is highly associated with various cancers. These results indicate that the estimations of Multi-PEN are valid and reliable and showcase Multi-PEN’s capacity to present hypotheses regarding prognostic mRNAs and miRNAs.
Quorum Sensing in ESKAPE Bugs: A Target for Combating Antimicrobial Resistance and Bacterial Virulence
Authors: Santajit Sirijan , Sookrung Nitat , Indrawattana Nitaya
Published: October 2022

A clique of Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, and Enterobacter spp. (ESKAPE) bugs is the utmost causative agent responsible for multidrug resistance in hospital settings. These microorganisms employ a type of cell–cell communication termed ‘quorum sensing (QS) system’ to mediate population density and synchronously control the genes that modulate drug resistance and pathogenic behaviors. In this article, we focused on the present understanding of the prevailing QS system in ESKAPE pathogens. Basically, the QS component consisted of an autoinducer synthase, a ligand (e.g., acyl homoserine lactones/peptide hormones), and a transcriptional regulator. QS mediated expression of the bacterial capsule, iron acquisition, adherence factors, synthesis of lipopolysaccharide, poly-N-acetylglucosamine (PNAG) biosynthesis, motility, as well as biofilm development allow bacteria to promote an antimicrobial-resistant population that can escape the action of traditional drugs and endorse a divergent virulence production. The increasing prevalence of these harmful threats to infection control, as well as the urgent need for effective antimicrobial strategies to combat them, serve to highlight the important anti-QS strategies developed to address the difficulty of treating microorganisms.
Ecosystem Services and Linkages of Naturally Managed Monotheca buxifolia (Falc.) A. DC. Forests with Local Communities across Contiguous Mountainous Ranges in Pakistan
Authors: Ali Fayaz , Khan Nasrullah , Rahmonov Oimahmad
Published: October 2022

The local community of the Suleiman and Hindukush mountain systems in Pakistan has largely depended on the natural resources of the environment since ancient times. The ecosystem of these regions is under huge pressure due to a lack of awareness and the uncontrolled interference of communal, commercial, security, political, and ecological conditions. The present study was designed to illuminate the link between mountain society and the consumption of the benefits from Monotheca phytocoenoses using the ecosystem services concept from the sphere of the socio-ecological system to cultural relations. The use of this approach is very important due to the visible role and dominant status of Monotheca vegetation within the ecological system of the region. M. buxifolia is strongly connected with both local and cultural traditions and is counted as a key species, particularly for high-mountain inhabitants. We report that Monotheca phytocoenoses provide several services including shelter, food, fodder, medicines, and wood, etc., to the indigenous community and is highly valued in the local culture because of the poor economic condition of the society. The concept of this cultural keystone species is crucial for understanding ecosystem services and must be considered for the protection and conservation of these habitats. The results of field and social studies have shown that the stable maintenance of Monotheca phytocoenosis forests ensures the existence of key species as the most important providers of ecosystem services, e.g., provisioning, regulation, maintenance and cultural services, indicating the close relations between society and the protection of mountain areas. According to the results obtained, the mountains community of the studied area believes that tree species like M. buxifolia, F. palmata, O. ferruginea, P. granatum, A. modesta, J. regia, etc., are the key components contributing to the function of both the mountain ecosystem and communities’ well-being. This approach will be extremely useful for ensuring an inclusive management of the socio-ecological system of the Hindukush and Suleiman Mountain ranges of Pakistan.
Cholinesterase Deficiency Syndrome—A Pitfall in the Use of Butyrylcholinesterase as a Biomarker for Wilson’s Disease
Authors: Arslan Max , Novak Max , Rosenthal Dietmar , Hartmann Christian J. , Albrecht Philipp , Samadzadeh Sara , Hefter Harald
Published: October 2022

A family is described as having two recessively inherited metabolic diseases and three differently affected children. During the explantation of a drain tube grommet under general anesthesia, a prolonged resuscitation and wake-up period occurred in the key case when he was 8 years old. This led to a family screening for butyrylcholinesterase deficiency, which was confirmed not only in the key case but also in his 5-year-old sister; it was not confirmed in his 10-year-old brother. However, the key case not only had reduced serum levels of BCHE, but also elevated liver enzyme levels, which are atypical for BCHE deficiency. After the exclusion of viral and autoimmune hepatitis, Wilson’s disease (WD) was eventually diagnosed and also confirmed in his elder brother, but not in his sister. This family is presented to highlight an extremely rare WD-patient in whom a low serum level of BCHE did not occur because of WD but because of BCHE deficiency.
Peripheral Neutrophil-to-Lymphocyte Ratio in Bronchiectasis: A Marker of Disease Severity
Authors: Martinez-García Miguel Ángel , Olveira Casilda , Girón Rosa , García-Clemente Marta , Máiz-Carro Luis , Sibila Oriol , Golpe Rafael , Méndez Raúl , Rodríguez Hermosa Juan Luis , Barreiro Esther , Prados Concepción , Rodríguez López Juan , de la Rosa David
Published: October 2022

Most patients with bronchiectasis have a predominantly neutrophilic inflammatory profile, although other cells such as lymphocytes (as controllers of bronchial inflammation) and eosinophils also play a significant pathophysiological role. Easy-to-interpret blood biomarkers with a discriminative capacity for severity or prognosis are needed. The objective of this study was to assess whether the peripheral neutrophil-to-lymphocyte ratio (NLR) is associated with different outcomes of severity in bronchiectasis. A total of 1369 patients with bronchiectasis from the Spanish Registry of Bronchiectasis were included. To compare groups, the sample was divided into increasing quartiles of NLR ratio. Correlations between quantitative variables were established using Pearson’s P test. A simple linear regression (with the value of exacerbations as a quantitative variable) was used to determine the independent relationship between the number and severity of exacerbations and the NLR ratio. The area under the curve (AUC)-ROC was used to determine the predictive capacity of the NLR for severe bronchiectasis, according to the different multidimensional scores. Mean age: 69 (15) years (66.3% of women). The mean NLR was 2.92 (2.03). A higher NLR was associated with more severe bronchiectasis (with an especially significant discriminative power for severe forms) according to the commonly used scores (FACED, E-FACED and BSI), as well as with poorer quality of life (SGRQ), more comorbidities (Charlson index), infection by pathogenic microorganisms, and greater application of treatment. Furthermore, the NLR correlated better with severity scores than other parameters of systemic inflammation. Finally, it was an independent predictor of the incident number and severity of exacerbations. In conclusion, the NLR is an inexpensive and easy-to-measure marker of systemic inflammation for determining severity and predicting exacerbations (especially the most severe) in patients with bronchiectasis.
Performance of Serum Angiotensin-Converting Enzyme in Diagnosing Sarcoidosis and Predicting the Active Status of Sarcoidosis: A Meta-Analysis
Authors: Hu Xueru , Zou Li , Wang Shuyan , Zeng Tingting , Li Ping , Shen Yongchun , Chen Lei
Published: October 2022

The usefulness of serum angiotensin-converting enzyme (sACE) for diagnosing sarcoidosis and determining the active status of sarcoidosis has been reported with varying outcomes. On the basis of the majority of published data, we conducted a meta-analysis to calculate the overall predictive accuracy of sACE in sarcoidosis disease and the active status of sarcoidosis. The inclusion of related research listed in Web of Science, PubMed, Scopus, and other literature databases was assessed. SROC curves were generated to characterize the overall test results after data on sensitivity, specificity, positive likelihood ratio (PLR), negative likelihood ratio (NLR), and diagnostic odds ratio (DOR) were combined. Publication bias was identified using Deeks’ funnel plot. Thirty-five publications with 8645 subjects met the inclusion criteria. The following are summary estimates of sACE diagnostic performance for sarcoidosis: sensitivity, 60% (95% confidence interval (CI), 52–68%); specificity, 93% (95% CI, 88–96%); PLR, 8.4 (95% CI, 5.3–13.3); NLR, 0.43 (95% CI, 0.36–0.52); and DOR, 19 (95% CI, 12–31). The area under the SROC curve (AUC) was 0.84 (95% CI, 0.80–0.87). Summary estimates for predicting the active status of sarcoidosis were as follows: sensitivity, 0.76 (95% CI, 0.61–0.87); specificity, 0.80 (95% CI, 0.64–0.90); PLR, 3.9 (95% CI, 2.1–7.3); NLR, 0.29 (95% CI, 0.17–0.49); and DOR, 13 (95% CI, 6–31). The AUC was 0.85 (95% CI, 0.82–0.88). There was no evidence of publication bias. Our meta-analysis suggests that measuring the sACE may assist in the diagnosis of sarcoidosis and predicting the active status of sarcoidosis, but the interpretation of the sACE results should be with caution. Future studies should validate our results.