bluuebunny/crossref_metadata_2025 huggingface dataset:
Biocatalytic Screening of the Oxidative Potential of Fungi Cultivated on Plant-Based Resources
Authors: Kinner Alina , Lütz Stephan , Rosenthal Katrin
Published: August 2024

The environmental impacts of the postindustrial era, which rely on fossil fuels, have compelled a reconsideration of the future of energy and chemical industries. Fungi are a valuable resource for improving a circular economy through the enhanced valorization of biomass and plant waste. They harbor a great diversity of oxidative enzymes, especially in their secretome. Enzymatic breakdown of the plant cell wall complex and lignocellulosic biomass yields sugars for fermentation and biofuel production, as well as aromatic compounds from lignin that can serve as raw materials for the chemical industry. To harness the biocatalytic potential, it is essential to identify and explore wild-type fungi and their secretomes. This study successfully combined genome mining and activity screening to uncover the oxidative potential of a collection of underexploited ascomycetes and basidiomycetes. The heme peroxidase and laccase activities of four promising candidates, Bipolaris victoriae, Colletotrichum sublineola, Neofusicoccum parvum and Moesziomyces antarcticus, were investigated to gain a deeper insight into their enzyme secretion. Furthermore, a plant-based medium screening with the phytopathogen C. sublineola revealed that soybean meal is a beneficial component to trigger the production and secretion of enzymes that catalyze H2O2-dependent oxidations. These results demonstrate that understanding fungal secretomes and their enzymatic potential opens exciting avenues for sustainable biotechnological applications across various industries.
Enhancing Forensic Diagnostics: Structured Reporting of Post-Mortem CT versus Autopsy for Laryngohyoid Complex Fractures in Strangulation
Authors: Bucher Andreas M. , Koppold Adrian , Kettner Mattias , Kölzer Sarah , Dietz Julia , Frodl Eric , Surov Alexey , Pinto dos Santos Daniel , Vogl Thomas J. , Verhoff Marcel A. , Beeres Martin , Lux Constantin , Heinbuch Sara
Published: August 2024

Background: The purpose of this study was to establish a standardized structured workflow to compare findings from high-resolution, optimized reconstructions from post-mortem computed tomography (pmCT) with autopsy results in the detection of fractures of the laryngohyoid complex in strangulation victims. Method: Forty-two strangulation cases were selected, and pmCT scans of the laryngohyoid complex were obtained. Both pmCT scans and autopsy reports were analyzed using a structured template and compared using Cohen’s kappa coefficient (κ) and the McNemar test. The study also compared the prevalence of ossa sesamoidea and non-fusion of the major and minor horns of the hyoid bone between both diagnostic methods. Results: The detection of fractures showed a very good correlation between autopsy and pmCT results (κ = 0.905), with the McNemar test showing no statistically significant difference between the two methods. PmCT identified 28 sesamoid bones, 45 non-fusions of the major horns, and 47 non-fusions of the minor horns of the hyoid bone, compared to four, six, and zero, respectively, identified by autopsy (p < 0.0001). Conclusions: Autopsy and pmCT findings correlate well and can be used in a complementary manner. PmCT is superior to autopsy in identifying dislocations and detecting anatomical variations in the laryngohyoid complex, which can lead to misinterpretations during autopsy. Therefore, we do not advocate replacing autopsy with pmCT but propose using a structured workflow, including our standardized reporting template, for evaluating lesions in the laryngohyoid complex.
Constructing a Clinical Patient Similarity Network of Gastric Cancer
Authors: Zhang Rukui , Liu Zhaorui , Zhu Chaoyu , Cai Hui , Yin Kai , Zhong Fan , Liu Lei
Published: August 2024

Objectives: Clinical molecular genetic testing and molecular imaging dramatically increase the quantity of clinical data. Combined with the extensive application of electronic health records, a medical data ecosystem is forming, which calls for big-data-based medicine models. We tried to use big data analytics to search for similar patients in a cancer cohort, showing how to apply artificial intelligence (AI) algorithms to clinical data processing to obtain clinically significant results, with the ultimate goal of improving healthcare management. Methods: In order to overcome the weaknesses of most data processing algorithms that rely on expert labeling and annotation, we uniformly adopted one-hot encoding for all types of clinical data, calculating the Euclidean distance to measure patient similarity and subgrouping via an unsupervised learning model. Overall survival (OS) was investigated to assess the clinical validity and clinical relevance of the model. Results: We took gastric cancers (GCs) as an example to build a high-dimensional clinical patient similarity network (cPSN). When performing the survival analysis, we found that Cluster_2 had the longest survival rates, while Cluster_5 had the worst prognosis among all the subgroups. As patients in the same subgroup share some clinical characteristics, the clinical feature analysis found that Cluster_2 harbored more lower distal GCs than upper proximal GCs, shedding light on the debates. Conclusion: Overall, we constructed a cancer-specific cPSN with excellent interpretability and clinical significance, which would recapitulate patient similarity in the real-world. The constructed cPSN model is scalable, generalizable, and performs well for various data types.
Computational Modeling Study of the Molecular Basis of dNTP Selectivity in Human Terminal Deoxynucleotidyltransferase
Authors: Ukladov Egor O. , Tyugashev Timofey E. , Kuznetsov Nikita A.
Published: August 2024

Human terminal deoxynucleotidyl transferase (TdT) can catalyze template-independent DNA synthesis during the V(D)J recombination and DNA repair through nonhomologous end joining. The capacity for template-independent random addition of nucleotides to single-stranded DNA makes this polymerase useful in various molecular biological applications involving sequential stepwise synthesis of oligonucleotides using modified dNTP. Nonetheless, a serious limitation to the applications of this enzyme is strong selectivity of human TdT toward dNTPs in the order dGTP > dTTP ≈ dATP > dCTP. This study involved molecular dynamics to simulate a potential impact of amino acid substitutions on the enzyme’s selectivity toward dNTPs. It was found that the formation of stable hydrogen bonds between a nitrogenous base and amino acid residues at positions 395 and 456 is crucial for the preferences for dNTPs. A set of single-substitution and double-substitution mutants at these positions was analyzed by molecular dynamics simulations. The data revealed two TdT mutants—containing either substitution D395N or substitutions D395N+E456N—that possess substantially equalized selectivity toward various dNTPs as compared to the wild-type enzyme. These results will enable rational design of TdT-like enzymes with equalized dNTP selectivity for biotechnological applications.
Nano-Sized Graphene Oxide Attenuates Ovalbumin/Alum-Induced Skin Inflammation by Down-Regulating Th2 Immune Responses in Balb/c Mice
Authors: Park Hyun Jung , Lee Sung Won , Van Kaer Luc , Hong Suklyun , Hong Seokmann
Published: August 2024

Graphene oxide (GO), a carbon-based material with oxygen-containing functional groups, can be applied in biomedicine for drug delivery, cancer therapy, and tissue regeneration. We have previously shown that nanoscale-sized graphene oxide (NGO), an oxidized graphene derivative, exhibits effective anti-inflammatory activity in a murine model of sepsis mediated by T helper (Th)1-promoting cytokines such as IFNγ and TNFα. However, whether NGO influences Th2-induced skin inflammation remains unclear. To address this issue, we employed an ovalbumin (OVA) plus aluminum hydroxide (Alum)-induced Th2-mediated skin inflammation model in conjunction with OVA-specific DO11.10 T cell receptor transgenic Balb/c mice. In vivo NGO injection upon OVA/Alum sensitization down-regulated OVA-elicited antigen-specific Th2 cells and GATA3-expressing Th2-type regulatory T cells. Next, we examined the effect of NGO injection on OVA/Alum-induced atopic dermatitis (AD)-like skin inflammation. NGO-injected mice exhibited significantly decreased Th2 disease phenotypes (e.g., a lower clinical score, decreased epidermal thickness and Th2 cell differentiation, and fewer infiltrated mast cells and basophils in skin lesions) compared with vehicle-injected control mice. Overall, our results suggest that NGOs are promising therapeutic materials for treating allergic diseases such as AD.
Proteomics and Bioinformatics Identify Drug-Resistant-Related Genes with Prognostic Potential in Cholangiocarcinoma
Authors: Kerdkumthong Kankamol , Roytrakul Sittiruk , Songsurin Kawinnath , Pratummanee Kandawasri , Runsaeng Phanthipha , Obchoei Sumalee
Published: August 2024

Drug resistance is a major challenge in the treatment of advanced cholangiocarcinoma (CCA). Understanding the mechanisms of drug resistance can aid in identifying novel prognostic biomarkers and therapeutic targets to improve treatment efficacy. This study established 5-fluorouracil- (5-FU) and gemcitabine-resistant CCA cell lines, KKU-213FR and KKU-213GR, and utilized comparative proteomics to identify differentially expressed proteins in drug-resistant cells compared to parental cells. Additionally, bioinformatics analyses were conducted to explore the biological and clinical significance of key proteins. The drug-resistant phenotypes of KKU-213FR and KKU-213GR cell lines were confirmed. In addition, these cells demonstrated increased migration and invasion abilities. Proteomics analysis identified 81 differentially expressed proteins in drug-resistant cells, primarily related to binding functions, biological regulation, and metabolic processes. Protein–protein interaction analysis revealed a highly interconnected network involving MET, LAMB1, ITGA3, NOTCH2, CDH2, and NDRG1. siRNA-mediated knockdown of these genes in drug-resistant cell lines attenuated cell migration and cell invasion abilities and increased sensitivity to 5-FU and gemcitabine. The mRNA expression of these genes is upregulated in CCA patient samples and is associated with poor prognosis in gastrointestinal cancers. Furthermore, the functions of these proteins are closely related to the epithelial–mesenchymal transition (EMT) pathway. These findings elucidate the potential molecular mechanisms underlying drug resistance and tumor progression in CCA, providing insights into potential therapeutic targets.
Mechanism of Reactive Oxygen Species-Guided Immune Responses in Gouty Arthritis and Potential Therapeutic Targets
Authors: Zhang Sai , Li Daocheng , Fan Mingyuan , Yuan Jiushu , Xie Chunguang , Yuan Haipo , Xie Hongyan , Gao Hong
Published: August 2024

Gouty arthritis (GA) is an inflammatory disease caused by monosodium urate (MSU) crystals deposited in the joint tissues causing severe pain. The disease can recur frequently and tends to form tophus in the joints. Current therapeutic drugs for the acute phase of GA have many side effects and limitations, are unable to prevent recurrent GA attacks and tophus formation, and overall efficacy is unsatisfactory. Therefore, we need to advance research on the microscopic mechanism of GA and seek safer and more effective drugs through relevant targets to block the GA disease process. Current research shows that the pathogenesis of GA is closely related to NLRP3 inflammation, oxidative stress, MAPK, NET, autophagy, and Ferroptosis. However, after synthesizing and sorting out the above mechanisms, it is found that the presence of ROS is throughout almost the entire spectrum of micro-mechanisms of the gout disease process, which combines multiple immune responses to form a large network diagram of complex and tight connections involved in the GA disease process. Current studies have shown that inflammation, oxidative stress, cell necrosis, and pathological signs of GA in GA joint tissues can be effectively suppressed by modulating ROS network-related targets. In this article, on the one hand, we investigated the generative mechanism of ROS network generation and its association with GA. On the other hand, we explored the potential of related targets for the treatment of gout and the prevention of tophus formation, which can provide effective reference ideas for the development of highly effective drugs for the treatment of GA.
Extracellular Vesicles in Ovarian Cancer: From Chemoresistance Mediators to Therapeutic Vectors
Authors: Muttiah Barathan , Muhammad Fuad Nur Dina , Jaafar Faizul , Abdullah Nur Atiqah Haizum
Published: August 2024

Ovarian cancer (OC) remains the deadliest gynecological malignancy, with alarming projections indicating a 42% increase in new cases and a 51% rise in mortality by 2040. This review explores the challenges in OC treatment, focusing on chemoresistance mechanisms and the potential of extracellular vesicles (EVs) as drug delivery agents. Despite advancements in treatment strategies, including cytoreductive surgery, platinum-based chemotherapy, and targeted therapies, the high recurrence rate underscores the need for innovative approaches. Key resistance mechanisms include drug efflux, apoptosis disruption, enhanced DNA repair, cancer stem cells, immune evasion, and the complex tumor microenvironment. Cancer-associated fibroblasts and extracellular vesicles play crucial roles in modulating the tumor microenvironment and facilitating chemoresistance. EVs, naturally occurring nanovesicles, emerge as promising drug carriers due to their low toxicity, high biocompatibility, and inherent targeting capabilities. They have shown potential in delivering chemotherapeutics like doxorubicin, cisplatin, and paclitaxel, as well as natural compounds such as curcumin and berry anthocyanidins, enhancing therapeutic efficacy while reducing systemic toxicity in OC models. However, challenges such as low production yields, heterogeneity, rapid clearance, and inefficient drug loading methods need to be addressed for clinical application. Ongoing research aims to optimize EV production, loading efficiency, and targeting, paving the way for novel and more effective therapeutic strategies in OC treatment. Overcoming these obstacles is crucial to unlocking the full potential of EV-based therapies and improving outcomes for OC patients.
β-Adrenoceptor Agonists Attenuate Thrombin-Induced Impairment of Human Lung Endothelial Cell Barrier Function and Protect the Lung Vascular Barrier during Resuscitation from Hemorrhagic Shock
Authors: McGee Michelle Y. , Ogunsina Ololade , Boshra Sadia N. , Gao Xianlong , Majetschak Matthias
Published: August 2024

β-adrenoceptor (β-AR) agonists are known to antagonize thrombin-induced impairment (TII) of bovine and ovine lung endothelial barrier function. The effects of adrenoceptor agonists and other vasoactive agents on human lung microvascular endothelial cell (HULEC-5a) barrier function upon thrombin exposure have not been studied. Furthermore, it is unknown whether the in vitro effects of adrenoceptor agonists translate to lung protective effects in vivo. We observed that epinephrine, norepinephrine, and phenylephrine enhanced normal and prevented TII of HULEC-5a barrier function. Arginine vasopressin and angiotensin II were ineffective. α1B-, α2A/B-, and β1/2-ARs were detectable in HULEC-5a by RT-PCR. Propranolol but not doxazosin blocked the effects of all adrenoceptor agonists. Phenylephrine stimulated β2-AR-mediated Gαs activation with 13-fold lower potency than epinephrine. The EC50 to inhibit TII of HULEC-5a barrier function was 1.8 ± 1.9 nM for epinephrine and >100 nM for phenylephrine. After hemorrhagic shock and fluid resuscitation in rats, Evans blue extravasation into the lung increased threefold (p < 0.01 vs. sham). Single low-dose (1.8 μg/kg) epinephrine administration at the beginning of resuscitation had no effects on blood pressure and reduced Evans blue extravasation by 60% (p < 0.05 vs. vehicle). Our findings confirm the effects of β-adrenoceptor agonists in HULEC-5a and suggest that low-dose β-adrenoceptor agonist treatment protects lung vascular barrier function after traumatic hemorrhagic shock.
Principle Investigation and Method Standardization of Inhibition Zone Assay Based on Antimicrobial Peptides Extracted from Black Soldier Fly Larvae
Authors: Shen Wenyue , Xue Ranxia , Liu Yanxia , Sun Shibo , Chen Xi , Sun Dongye , Ouyang Han , Li Yuxin , Xu Jianqiang , Dong Xiaoying , Ji Fengyun , Xu Weiping
Published: August 2024

The black soldier fly is a valuable resource insect capable of transforming organic waste while producing antimicrobial peptides (AMPs). The inhibition zone assay (IZA) is a method used to demonstrate the antimicrobial activity of AMPs. This study aimed to examine the experimental principles and establish a standardized IZA method. Results indicated that the AMPs extract consisted of proteins ranging in molecular weights from 0 to 40 kDa. The AMPs diffused radially on an agar plate through an Oxford cup. The diffusion radius was influenced by the concentration and volume of the AMPs but ultimately determined by the mass of the AMPs. The swabbing method was found to be effective for inoculating bacteria on the agar plate. Among the conditions tested, the plate nutrient concentration was the most sensitive factor for the IZA, followed by bacterial concentration and incubation time. Optimal conditions for the IZA included a nutrient plate of 0.5× TSA, a bacterial concentration of 106 CFU/mL, and an incubation time of 12 h, with oxytetracycline (OTC) at 0.01 mg/mL serving as the positive control. The antimicrobial-specific activity of AMPs could be standardized by the ratio of inhibition zone diameters between AMPs and OTC. These findings contribute to the standardization of the IZA method for profiling the antimicrobial activity of AMPs.
Pre-emptive Laparoscopic Colostomy Creation in Obstructing Locally Advanced Rectal and Anal Cancer Does Not Delay the Starting of Oncological Treatments
Authors: Taffurelli Giovanni , Montroni Isacco , Dileo Claudia , Boccaccino Alessandra , Ghignone Federico , Zattoni Davide , Frascaroli Giacomo , Ugolini Giampaolo
Published: August 2024

Background: Managing patients with obstructing rectal cancer is challenging due to the risks of gastrointestinal obstruction and perforation. This study evaluates the outcomes of pre-emptive laparoscopic colostomy creation in patients with locally advanced rectal and anal cancer to prevent symptoms and facilitate therapy initiation. Methods: This retrospective cohort study includes patients with locally advanced rectal or anal cancer assessed by our Colorectal Multidisciplinary Team from January 2017 to February 2024. Patients who underwent pre-emptive laparoscopic colostomy were compared to a control group of non-obstructing rectal cancer patients who started direct oncological treatment. The primary endpoint was the time from diagnosis to the initiation of oncological treatments. The secondary endpoints were the rate and timing of subsequent radical resection, surgical morbidity and hospital stay. A Weibull regression was used to evaluate the time differences between the groups. Results: There were 37 patients who received pre-emptive laparoscopic colostomy, compared to 207 control patients. The mean time from diagnosis to the start of neoadjuvant therapy was 38.3 ± 2.3 days. Despite higher rates of malnutrition and more advanced stages in the colostomy group, no significant differences were observed in the time to start therapy (p = 0.083) or time to radical resection (p = 0.187) between the groups. The laparoscopic procedure showed low rates of postoperative complications and acceptable lengths of stay. Discussion and Conclusions: Pre-emptive laparoscopic colostomy is a feasible approach for managing obstructing rectal or anal cancer. Treatment timelines were not extended compared to timelines for non-obstructing cases, despite differences in nutritional status and staging. Further prospective studies with larger cohorts are needed to validate these findings and refine treatment protocols for obstructing gastrointestinal malignancies.
A Monocentric Analysis of Implantable Ports in Cancer Treatment: Five-Year Efficacy and Safety Evaluation
Authors: Abou-Mrad Adel , Marano Luigi , Oviedo Rodolfo J.
Published: August 2024

Background: Daily clinical practice requires repeated and prolonged venous access for delivering chemotherapy, antibiotics, antivirals, parenteral nutrition, or blood transfusions. This study aimed to investigate the performance and the safety of totally implantable vascular access devices (TIVADs) over a 5-year follow-up period through a standardized well-trained surgical technique and patient management under local anesthesia. Methods: In a retrospective, observational, and monocentric study, 70 patients receiving POLYSITE® TIVADs for chemotherapy were included. The safety endpoints focused on the rate of perioperative, short-term, and long-term complications. The performance endpoints included vein identification for device insertion and procedural success rate. Results: The study demonstrated no perioperative or short-term complications related to the TIVADs. One (1.4%) complication related to device manipulation was identified as catheter flipping, which led to catheter adjustment 56 days post-placement. Moreover, one (1.4%) infection due to usage conditions was observed, leading to TIVAD removal 3 years and 4 months post-surgery. Catheter placement occurred in cephalic veins (71.4%), subclavian veins (20%), and internal jugular veins (8.6%). The procedural success rate was 100%. Overall, the implantable ports typically remained in place for an average of 22.4 months. Conclusions: This study confirmed the TIVADs’ performance and safety, underscored by low complication rates compared to published data, thereby emphasizing its potential and compelling significance for enhancing routine clinical practice using a standardized well-trained surgical technique and patient management.
Development and Characterization of Syngeneic Orthotopic Transplant Models of Obesity-Responsive Triple-Negative Breast Cancer in C57BL/6J Mice
Authors: Carson Meredith S. , Rädler Patrick D. , Albright Jody , VerHague Melissa , Rezeli Erika T. , Roth Daniel , French John E. , Perou Charles M. , Hursting Stephen D. , Coleman Michael F.
Published: August 2024

Obesity is an established risk and progression factor for triple-negative breast cancer (TNBC), but preclinical studies to delineate the mechanisms underlying the obesity-TNBC link as well as strategies to break that link are constrained by the lack of tumor models syngeneic to obesity-prone mouse strains. C3(1)/SV40 T-antigen (C3-TAg) transgenic mice on an FVB genetic background develop tumors with molecular and pathologic features that closely resemble human TNBC, but FVB mice are resistant to diet-induced obesity (DIO). Herein, we sought to develop transplantable C3-TAg cell lines syngeneic to C57BL/6 mice, an inbred mouse strain that is sensitive to DIO. We backcrossed FVB-Tg(C3-1-TAg)cJeg/JegJ to C57BL/6 mice for ten generations, and spontaneous tumors from those mice were excised and used to generate four clonal cell lines (B6TAg1.02, B6TAg2.03, B6TAg2.10, and B6TAg2.51). We characterized the growth of the four cell lines in both lean and DIO C57BL/6J female mice and performed transcriptomic profiling. Each cell line was readily tumorigenic and had transcriptional profiles that clustered as claudin-low, yet markedly differed from each other in their rate of tumor progression and transcriptomic signatures for key metabolic, immune, and oncogenic signaling pathways. DIO accelerated tumor growth of orthotopically transplanted B6TAg1.02, B6TAg2.03, and B6TAg2.51 cells. Thus, the B6TAg cell lines described herein offer promising and diverse new models to augment the study of DIO-associated TNBC.
The Effects of Gynecological Tumor Irradiation on the Immune System
Authors: Romero Fernandez Jesus , Cordoba Largo Sofia , Benlloch Rodriguez Raquel , Gil Haro Beatriz
Published: August 2024

Radiobiology has evolved from a mechanistic model based on DNA damage and response factors into a more complex model that includes effects on the immune system and the tumor microenvironment (TME). Irradiation has an immunomodulatory effect that can manifest as increased anti-tumor immunity or immunosuppression. Irradiation promotes an inflammatory microenvironment through the release of pro-inflammatory cytokines and endothelial damage, which recruit immune system cells to the irradiated area. Radiation-induced immunogenic cell death (ICD), characterized by the release of damage-associated molecular patterns (DAMPs) and tumor antigens, triggers an anti-tumor immune response of both innate and adaptive immunity. Anti-tumor immunity can manifest at a distance from the irradiated area, a phenomenon known as the abscopal effect (AE), which involves dendritic cells and CD8+ T cells. Irradiation also produces an immunosuppressive effect mediated by tumor-associated macrophages (TAMs) and regulatory T lymphocytes (Tregs), which counterbalances the immunostimulatory effect. In this work, we review the mechanisms involved in the radiation-induced immune response, which support the combined treatment of RT and immunotherapy, focusing, where possible, on gynecologic cancer.
Critical Aluminum Etch Material Amount for Local Droplet-Etched Nanohole-Based GaAs Quantum Dots
Authors: Kruck Timo , Babin Hans Georg , Wieck Andreas D. , Ludwig Arne
Published: August 2024

Local droplet-etched-based GaAs quantum dots are promising candidates for high-quality single and entangled photon sources. They have excellent optical and spin properties thanks to their size, shape and nearly strain-free matrix integration. In this study, we investigate the onset of aluminum nanodroplet formation for the local droplet etching process. Using molecular beam epitaxy, we grew several local droplet-etched quantum dot samples with different arsenic beam equivalent pressures. In each sample, we varied the etch material amount using a gradient technique and filled the nanoholes with GaAs to form optically active quantum dots after overgrowth. We repeated the local droplet etching process without the filling process, enabling us to characterize surface nanoholes with atomic force microscopy and compare them with photoluminescence from the buried quantum dots. We found a linear dependency on the arsenic beam-equivalent pressures for a critical aluminum amount necessary for nanohole formation and analyzed shape, density and optical properties close to this transition.
Diversity Begets Diversity: Structural Heterogeneity Determines Fine-Scale Epiphyte Community Structure in a Temperate Rainforest
Authors: Hamilton Kaela M. , Woods Carrie L.
Published: August 2024

A foundational concept in ecology is the positive relationship between habitat heterogeneity and species diversity. Epiphytes demonstrate microhabitat specialization to particular areas within a tree; thus, epiphyte communities are potentially influenced by the structural heterogeneity of host trees. We evaluated the relationship between structural features of Acer macrophyllum and epiphyte distributions and abundance in a temperate rainforest in Washington, USA. Epiphytes and structural features of three Acer macrophyllum trees were systematically surveyed using the point-intercept method from the base to the crown and on three branches for each tree. Rarefied species richness increased with structural richness. Species richness along the trunk differed significantly among types of structural features (i.e., broken branches, burls, holes, rivets, branches, and trunks); broken branches had the highest species richness and branches had the lowest, followed by trunks. Rarefied species richness increased with height and peaked at 12 m, but the relationship between structural diversity and height was not significant. The species that occurred on branches were different to those that occurred on trunks, and species composition varied significantly among trunk features. The high structural diversity in northern temperate rainforest trees influenced the fine-scale distribution of nonvascular epiphytes and may explain their coexistence in tree crowns.
Long-Term Monitoring of European Brown Hare (Lepus europaeus) Population in the Slovak Danubian Lowland
Authors: Vizzarri Francesco , Slamecka Jaroslav , Sladecek Tomas , Jurcik Rastislav , Ondruska Lubomir , Schultz Peter
Published: August 2024

In many European countries over the last few decades, arable fields dominate agricultural landscapes, leading to very intensive land-use practices. This seems to be the main cause of population declines for numerous farmland species, including the European brown hare (Lepus europaeus Pallas, 1778). The Research Institute for Animal Production (National Agricultural and Food Centre—NPPC, Luzianky, Slovakia) has been engaged in a long monitoring project (a project currently running), collecting certain indicators of brown hare population dynamics during hunting season from 1987 to 2023 in the Slovak Danubian Lowland. In the same macro-area (Čiližská Radvaň and Lehnice), a study was conducted on the influence of permanent semi-natural vegetation in relation to recruitment, population density and production. The entire monitored period was aggregated into 5-year intervals (for a total of seven time intervals), with the aim of analyzing the brown hare population dynamics. Spring hare density in the Danubian Lowland is currently 20.8 hares/km2, with harvests of 4.6 hares/km2. During the monitoring period, bag animals have been examined following the regular hunting operations for the purpose of age determination (weight of eye lenses), sex ratio and productivity. There was a large positive effect of set-aside with special mixtures created for hares in large-scale farmed agrarian landscapes on brown hare density, bag and recruitment. In-model hunting grounds with such set-asides increased the spring stock by 25%, bag by 100% and recruitment by 20%. This study reveals that the management of European brown hare is not sustainable in the Slovak Danubian Lowland, and the population is decreasing. This is proven through the decline in harvest brown hares and by population dynamic parameters. Our data suggest that improvements in the habitat quality of arable landscapes by the adoption of permanent semi-natural vegetation may be more effective in the increase in the brown hare population.
A Mission Planning Method for Long-Endurance Unmanned Aerial Vehicles: Integrating Heterogeneous Ground Control Resource Allocation
Authors: Li Kai , Zhu Cheng , Pan Xiaogang , Xu Long , Liu Kai
Published: August 2024

Long-endurance unmanned aerial vehicles (LE-UAVs) are extensively used due to their vast coverage and significant payload capacities. However, their limited autonomous intelligence necessitates the intervention of ground control resources (GCRs), which include one or more operators, during mission execution. The performance of these missions is notably affected by the varying effectiveness of different GCRs and their fatigue levels. Current research on multi-UAV mission planning inadequately addresses these critical factors. To tackle this practical issue, we present an integrated optimization problem for multi-LE-UAV mission planning combined with heterogeneous GCR allocation. This problem extends traditional multi-UAV cooperative mission planning by incorporating GCR allocation decisions. The coupling of mission planning decisions with GCR allocation decisions increases the dimensionality of the decision space, rendering the problem more complex. By analyzing the problem’s characteristics, we develop a mixed-integer linear programming model. To effectively solve this problem, we propose a bilevel programming algorithm based on a hybrid genetic algorithm framework. Numerical experiments demonstrate that our proposed algorithm effectively solves the problem, outperforming the advanced optimization toolkit CPLEX. Remarkably, for larger-scale instances, our algorithm achieves superior solutions within 10 s compared with CPLEX’s 2 h runtime.
Optimizing Low-Temperature Three-Circuit Evaporative Cooling System for an Electric Motor by Using Refrigerants
Authors: Konovalov Dmytro , Tolstorebrov Ignat , Iwamoto Yuhiro , Kobalava Halina , Lamb Jacob Joseph , Eikevik Trygve Magne
Published: August 2024

This article presents modeling results and a comprehensive analysis of evaporative cooling systems designed for electric motors using the refrigerants R744 (trans-critical), R134a, R600a, and R290. This study aims to determine the most suitable refrigerant for use in a cooling system, optimize the system design, and calculate the maximum achievable motor power while adhering to specified temperature constraints. The modeling was validated by an experimental setup, which had the cooling system’s configuration featuring three circuits for motor housing, stator, and rotor cooling, respectively. The modeling of an evaporative system was used to present the cooling efficiency under varying loads and external temperature conditions. Mathematical modeling encompasses complex algorithms to simulate heat transfer phenomena, accounting for fluid dynamics and refrigeration cycle dynamics. The analyses revealed trends in winding temperature, rotor temperature, air temperature inside the motor, heat transfer coefficient, coefficient of performance (COP), and motor power across different operating conditions while using different cooling refrigerants. The maximal heat transfer coefficients were calculated for all the refrigerants for winding temperatures in the range from 32 to 82 °C, while air temperature and rotor temperatures were between 42 and 105 °C and 76 and 185 °C, respectively. Lowering the evaporation temperature of the coolant to −35 °C resulted in a significant decrease in the winding temperature to 15 °C, air temperature to 38 °C, and maximum rotor temperature to 118 °C at a motor power of 90 kW. Refrigerant R744 emerged as a promising option, offering high heat transfer coefficients and achieving high motor power within temperature limits. At the same time, the COP was lower when compared with other working fluids because of the high ambient temperature on the gas cooler side.
Effect of Exhaust Gas Recirculation on Combustion Characteristics of Ultra-Low-Sulfur Diesel in Conventional and PPCI Regimes for a High-Compression-Ratio Engine
Authors: Srivatsa Charu Vikram , Alam Shah Saud , Spickler Bailey , Depcik Christopher
Published: August 2024

Low temperature combustion (LTC) mitigates the nitrogen oxide (NOx) and particulate matter (PM) trade-off in conventional compression ignition engines. Significant research on LTC using partially premixed charge compression ignition (PPCI) has typically reduced the compression ratio of the engine to control combustion phasing and lower peak temperatures. This study investigates LTC using PPCI with a high-compression-ratio (=21.2) engine by varying fuel injection timing (FIT) from 12.5° to 30.0° before top dead center (BTDC) while modulating EGR (0%, 7%, 14%, and 25%). Advancing FIT led to a gradual rise in the equivalence ratio of the mixture, in-cylinder pressure, temperature, and rate of heat release due to energy losses associated with ignition occurring before the end of the compression stroke. PPCI was successfully achieved with minimal performance impact using a combination of FIT advancements in the presence of high rates of EGR. Specifically, fuel injected at 25.0° BTDC and 25% EGR reduced PM emissions by 59% and total hydrocarbons by 25% compared with conventional FIT (12.5°) without EGR. Moreover, carbon monoxide and NOx emissions were comparable across set points. As a result, PPCI using high compression ratios is possible and can lead to greater thermal efficiencies while reducing emissions.
Lessons Learned from the Process of Water Injection Management in Impactful Onshore and Offshore Carbonate Reservoirs
Authors: Du Xuejia , Thakur Ganesh C.
Published: August 2024

This paper presents a comprehensive analysis of water injection management practices for complex and impactful onshore and offshore carbonate reservoirs. It delves into the fundamental aspects of waterflooding design, surveillance techniques, and monitoring methods tailored for the unique challenges posed by carbonate formations. Two case studies from the Permian Basin in Texas and two from Lula Field offshore Brazil and Agbami Field offshore Nigeria are examined considering scientific principles into practice to provide insights into best practices, lessons learned, and strategies to maximize the benefits derived from real noteworthy waterflood operations. The paper underscores the significance of rigorous reservoir characterization, including understanding reservoir architecture, heterogeneities, fracture networks, fluid communication pathways, and rock–fluid interactions. It emphasizes the crucial role of integrated multidisciplinary teams involving geologists, reservoir engineers, production engineers, and field operators in ensuring successful waterflood design, implementation, and optimization. Through the case studies, the paper highlights the importance of designing pattern configurations, well placements, and injection/production strategies to the specific reservoir characteristics, continually optimizing these elements based on surveillance data. It also stresses the necessity of comprehensive data acquisition, advanced analytics, numerical simulations, and frequent model updates for effective reservoir management and decision-making. The paper is impactful in terms of the lessons learned from the actual case studies, and how can these be implemented in actual field projects. Different case studies documented in the paper provide the challenges facing them and how different authors have addressed their problems in unique ways. The paper distills the information and important findings from a variety of case studies and provides succinct information that is of immense value as a reference. Important findings of these case studies are connected using creativity and are innovative as they introduce unique techniques and establish successful ideas to create new value in terms of maximizing oil recovery. Most importantly, this paper explores the application of innovative technologies, such as intelligent completions, 4D seismic monitoring, and water–alternating gas (WAG) injection, which can significantly improve waterflood performance in complex carbonate reservoirs. In summary, the paper provides a thorough understanding of the factors contributing to the success and failure of waterfloods in carbonate reservoirs through case studies based on factually and technically sound operations. It documents guidelines for optimizing waterflood performance and reducing or eliminating the potential for failures, reinforcing positive results in these challenging yet invaluable hydrocarbon resources.
Dynamic Changes in Endogenous Substances in Flowering Organs of Camellia drupifera during the Flowering Stage
Authors: Liu Zhen , Tao Jialu , Ma Chunhua , Wen Mengling , Xi Ruchun , Deng Xiaomei
Published: August 2024

Camellia drupifera is an important woody oil plant in South China, renowned for its seed oil that is rich in unsaturated fatty acids and possesses significant antioxidant, anti-cancer, and immune-enhancing properties. The low fruit-setting rate of C. drupifera is influenced by multiple factors, including flowering stage climate, flowering habits, pollination biology, soil conditions, and self-incompatibility. Among these, large-scale pure forest plantations are the primary cause of the low fruit-setting rate. Although previous studies have explored the impact of self-incompatibility on fruit-setting in C. drupifera, research on the dynamic changes of endogenous substances during the flowering stage in pure forest environments remains limited. Research findings indicate that tannase activity is relatively high in the pistils of C. drupifera, creating a favorable environment for pollen tube growth. Plant hormones such as indole-3-acetic acid (IAA), cytokinin (CTK), gibberellin (GA), and ethylene (ETH) regulate the development and aging of floral organs through complex interactions. Specifically, high levels of IAA in the pistil promote pollen tube growth, while changes in ETH and ABA are closely related to the aging of floral organs. Under oxidative stress conditions, high levels of H2O2 in the pistil may contribute to self-incompatibility. The activity of superoxide dismutase (SOD) in the floral organs during the flowering stage is significantly higher compared to peroxidase (POD) and catalase (CAT), highlighting the critical role of SOD in regulating oxidative stress during this stage. This study provides new insights into the changes in endogenous substances in the floral organs of C. drupifera during the flowering stage. It offers theoretical references for understanding its sexual reproduction process and for the application of plant growth regulators to improve fruit setting.
Exogenous Salicylic Acid Alleviates Physiological Stress in Salix matsudana Seedlings and Increases 2,4-Dinitrophenol Removal
Authors: Wu Chen , Zhang Liudong , Fu Yikang , Fu Guilong , Fu Degang , Li Hui , Su Shuai , Xie Huicheng , Tian Hui , Wang Ruijiang , Li Kun
Published: August 2024

2,4-dinitrophenol (2,4-DNP) is a new kind of pollutant that is highly toxic and difficult to be biodegraded. In this study, the feasibility of using exogenous growth regulator salicylic acid (SA) to improve the purification ability of Salix matsudana (S. matsudana) seedlings to 2,4-DNP stress was investigated by a hydroponic simulation experiment. The main research results are as follows: (1) After adding exogenous SA, a high concentration of SA (1000 mg·L−1) inhibited the photosynthetic process and the normal physiological process of the chlorophyll fluorescence system of S. matsudana seedlings to a certain extent. When adding a low concentration of SA (10 mg·L−1) to treat S. matsudana seedlings, all exogenous treatment groups could alleviate the stress of 2,4-DNP on the photosynthetic system and chlorophyll fluorescence system of S. matsudana seedlings, and 10 mg·L−1 SA (DNP + S1) was the best. (2) The addition of exogenous SA could alleviate the damage of 2,4-DNP to S. matsudana seedlings by enhancing the activity of its antioxidant enzymes to remove excess reactive oxygen species (ROS) in the body and reducing the level of membrane lipid peroxidation and the size of membrane damage. The treatment with 10 mg·L−1 SA had the best effect. (3) Exogenous low concentration of SA (10 mg·L−1) could alleviate the decline of biomass index of S. matsudana seedlings under 2,4-DNP stress, but a high concentration of SA (1000 mg·L−1) could not alleviate the 2,4-DNP toxicity of S. matsudana seedlings leaves. Exogenous SA could effectively alleviate the growth damage caused by 2,4-DNP stress on S. matsudana seedlings and increase the tolerance threshold range of S. matsudana seedlings to 2,4-DNP (8.81–33.78 mg·L−1). (4) Exogenous addition of SA could increase the removal percentage of 2,4-DNP in Salix matsudana seedlings. Among them, the removal percentage of Salix matsudana was the highest at 10 mg·L−1 SA, which was 1.46 times (5 days) and 1.19 times (10 days) higher than that of the DNP treatment group, respectively. Overall, when SA reached 10 mg·L−1, the photosynthetic productivity of S. matsudana was the highest, and S. matsudana had the best purification effect on 2,4-DNP in wastewater.
Harnessing Fermentation by Bacillus and Lactic Acid Bacteria for Enhanced Texture, Flavor, and Nutritional Value in Plant-Based Matrices
Authors: Fernández-Varela Raquel , Hansen Anders Holmgaard , Svendsen Birgit Albrecht , Moghadam Elahe Ghanei , Bas Arzu , Kračun Stjepan Krešimir , Harlé Olivier , Poulsen Vera Kuzina
Published: August 2024

This article explores the transformative potential of fermentation in elevating the quality of plant-based matrices to match the desirable attributes of traditional dairy and meat products. As the demand for sustainable products without animal welfare issues increases, fermentation has emerged as a key process to enhance the organoleptic properties and nutritional content of plant-based analogs. This study explores the effect of fermentation when applied to legume matrices, focusing on the resulting texture, flavor, and nutritional value. A selection of Bacillus subtilis, lactic acid bacteria (LAB) strains, and combinations thereof showed potential for improving the aforementioned organoleptic and nutritional characteristics of fermented plant bases. In four different legume-derived matrices, fermentation improved texture, degraded undesirable plant carbohydrates, and removed off-flavor compounds, while producing desirable dairy-associated compounds. The degradation of the undesirable beany off-flavor-causing compound hexanal appears to be a universal phenomenon, as every tested strain as well as their combinations exhibited the capability to decrease the hexanal content, albeit with varying efficiency. Some LAB strains were found to be capable of producing carotenoids and might hence have the potential for tailoring fermented plant-based matrices for specific applications, such as yellow cheese or red meat analogs.
Elasmobranch Mark–Recapture Experiment off the Balearic Islands: Insight into Scyliorhinus canicula Growth, Mobility, and Population Size
Authors: Ferragut-Perello Francesca , Sánchez-Zulueta Paula , Ramírez-Amaro Sergio , Farriols Maria Teresa , Pasini Noemi , Guijarro Beatriz , Rodríguez-Cabello Cristina , Ordines Francesc
Published: August 2024

Despite the high diversity of elasmobranch fishes in the Balearic Islands, knowledge of their biology and population dynamics is still scarce. A recent mark-and-recapture experiment off the Balearic Islands tagged 3738 individuals of 23 shark and batoid species during MEDITS and CANAL bottom trawl scientific surveys from June 2021 to August 2023. Retrieval was reported for the sharks Scyliorhinus canicula and Mustelus mustelus, revealing relatively small home ranges for these species (0.2–38.5 km and 7.8–15.3 km for S. canicula and M. mustelus, respectively). Recapture efficiency was higher from scientific surveys than from commercial catches, highlighting potential challenges in collaboration with fishermen and recapture reports. Density estimates obtained from the MEDITS bottom trawl survey suggest a much larger population for S. canicula than estimates from the mark–recapture data, indicating MEDITS density estimates for this species may be overestimated due to its scavenger behavior perhaps favoring individuals searching for discards aggregated in the fishing grounds. This study emphasizes the importance of monitoring, collaborative efforts, and improved reporting mechanisms to enhance our understanding of elasmobranch populations and provide support for sustainable management of these vulnerable marine species.