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10 pages, 3989 KiB  
Article
Fabrication of a Three-Dimensional Microfluidic System from Poly(methyl methacrylate) (PMMA) Using an Intermiscibility Vacuum Bonding Technique
by Shu-Cheng Li, Chao-Ching Chiang, Yi-Sung Tsai, Chien-Jui Chen and Tien-Hsi Lee
Micromachines 2024, 15(4), 454; https://doi.org/10.3390/mi15040454 (registering DOI) - 28 Mar 2024
Abstract
In this study, the fabrication of microfluidic chips through the bonding of poly (methyl methacrylate) (PMMA) boards featuring designed patterns to create a three-dimensional sandwich structure with embedded microchannels was explored. A key focus was optimization of the interface quality of bonded PMMA [...] Read more.
In this study, the fabrication of microfluidic chips through the bonding of poly (methyl methacrylate) (PMMA) boards featuring designed patterns to create a three-dimensional sandwich structure with embedded microchannels was explored. A key focus was optimization of the interface quality of bonded PMMA pairs by adjusting the solvent, such as such as acetone, alcohol, and their mixture. Annealing was conducted below 50 °C to leverage the advantages of low-temperature bonding. Because of the differences in the chemical reactivity of PMMA toward acetone, alcohol, and their combinations, the resulting defect densities at the bonding interfaces differed significantly under low-temperature annealing conditions. To achieve the optimal sealing integrity, bonding pressures of 30 N, 40 N, and 50 N were evaluated. The interface was analyzed through microstructural examination via optical microscopy and stress measurements were determined using digital photoelasticity, while the bonding strength was assessed through tensile testing. Full article
(This article belongs to the Section B:Biology and Biomedicine)
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21 pages, 709 KiB  
Article
Problematizing Child Maltreatment: Learning from New Zealand’s Policies
by Hamed Nazari, James C. Oleson and Irene De Haan
Soc. Sci. 2024, 13(4), 193; https://doi.org/10.3390/socsci13040193 (registering DOI) - 28 Mar 2024
Abstract
Since all policies address problems, they necessarily include implicit or explicit constructions of these problems. This paper explores how child maltreatment has been constructed in New Zealand’s child protection policies. It questions the underlying assumptions of this problem construction and seeks to shed [...] Read more.
Since all policies address problems, they necessarily include implicit or explicit constructions of these problems. This paper explores how child maltreatment has been constructed in New Zealand’s child protection policies. It questions the underlying assumptions of this problem construction and seeks to shed light on what has been omitted. Utilizing a qualitative content analysis of eight key policy documents, this study reveals the construction of child maltreatment has been dominated primarily by a child-centric, risk-focused approach. This approach assigns blame and shifts responsibilities onto parents and families. In addition, the vulnerability discourse and social investment approach underpinning this perspective have allowed important structural factors, such as poverty and inequality, to remain unaddressed. This paper also highlights the one-dimensional focus on the lower social class to control future liabilities. We suggest that the harm inflicted by corporations on children’s well-being is another form of child exploitation currently omitted from the problem construction. We suggest that child abuse should be defined and understood in policy as harm to children’s well-being and argue that the state should prevent and mitigate harm by addressing structural forces of the problem as well as protecting children against corporate harms. Full article
(This article belongs to the Section Social Policy and Welfare)
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16 pages, 1972 KiB  
Article
The Impact of Treadmill Training on Tissue Integrity, Axon Growth, and Astrocyte Modulation
by Tatyana Ageeva, Davran Sabirov, Albert Sufianov, Eldar Davletshin, Elizaveta Plotnikova, Rezeda Shigapova, Galina Sufianova, Anna Timofeeva, Yuri Chelyshev, Albert Rizvanov and Yana Mukhamedshina
Int. J. Mol. Sci. 2024, 25(7), 3772; https://doi.org/10.3390/ijms25073772 (registering DOI) - 28 Mar 2024
Abstract
Spinal cord injury (SCI) presents a complex challenge in neurorehabilitation, demanding innovative therapeutic strategies to facilitate functional recovery. This study investigates the effects of treadmill training on SCI recovery, emphasizing motor function enhancement, neural tissue preservation, and axonal growth. Our research, conducted on [...] Read more.
Spinal cord injury (SCI) presents a complex challenge in neurorehabilitation, demanding innovative therapeutic strategies to facilitate functional recovery. This study investigates the effects of treadmill training on SCI recovery, emphasizing motor function enhancement, neural tissue preservation, and axonal growth. Our research, conducted on a rat model, demonstrates that controlled treadmill exercises significantly improve motor functions post-SCI, as evidenced by improved scores on the Basso, Beattie, and Bresnahan (BBB) locomotor rating scale and enhanced electromyography readings. Notably, the training facilitates the preservation of spinal cord tissue, effectively reducing secondary damage and promoting the maintenance of neural fibers in the injured area. A key finding is the significant stimulation of axonal growth around the injury epicenter in trained rats, marked by increased growth-associated protein 43 (GAP43) expression. Despite these advancements, the study notes a limited impact of treadmill training on motoneuron adaptation and highlights minimal changes in the astrocyte and neuron–glial antigen 2 (NG2) response. This suggests that, while treadmill training is instrumental in functional improvements post-SCI, its influence on certain neural cell types and glial populations is constrained. Full article
(This article belongs to the Special Issue Molecular and Cellar Research of Spine and Spinal Cord Injury)
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11 pages, 4523 KiB  
Article
Association of Food Desert Residency and Preterm Birth in the United States
by Chanell O. Haley, Chelsea R. Singleton, Lily E. King, Lauren Dyer, Katherine P. Theall and Maeve Wallace
Int. J. Environ. Res. Public Health 2024, 21(4), 412; https://doi.org/10.3390/ijerph21040412 (registering DOI) - 28 Mar 2024
Abstract
Introduction: Food deserts are a major public health concern. Inadequate access to healthy food has been associated with poor nutrition and the development of dietary related chronic conditions. Objective: To determine the association between geographic access to nutritious food and preterm birth and [...] Read more.
Introduction: Food deserts are a major public health concern. Inadequate access to healthy food has been associated with poor nutrition and the development of dietary related chronic conditions. Objective: To determine the association between geographic access to nutritious food and preterm birth and whether gestational hypertension mediates this relationship. Methods: Food access data was retrieved from the U.S. Department of Agriculture Food Access Research Atlas (2019) and used to quantify the percentage of Census tracts within each county that were food deserts: low-income tracts with limited access to grocery stores, supermarkets, or other sources of healthy, nutritious foods. These data were merged with US birth records from 2018 to 2019 by using the maternal county of residence (n = 7,533,319). We fit crude and adjusted logistic regression models with generalized estimating equations to determine the association between living in a food desert and the odds of preterm birth. We conducted a secondary within-group analysis by stratifying the fully adjusted model by race for non-Hispanic White and non-Hispanic Black birthing people. Results: In the fully adjusted model, we found a dose–response relationship. As the prevalence of tract-level food deserts within counties increased, so did the likelihood of preterm birth (mid-range: odds ratio (OR) = 1.04, 95% confidence interval (C.I.) 1.01–1.07; high: OR = 1.07, 95% C.I. 1.03–1.11). Similar results were seen in the White–Black stratified models. However, a disparity remained as Black birthing people had the highest odds for preterm birth. Lastly, gestational hypertension appears to mediate the relationship between nutritious food access and preterm birth (natural indirect effect (NIE) = 1.01, 95% CI = 1.00, 1.01). Conclusion: It is salient, particularly for Black birthing people who experience high rates of adverse birth outcomes, that the role of food desert residency be explored within maternal and child health disparities. Full article
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17 pages, 9625 KiB  
Article
Extent and Sources of Heavy Metal Pollution from Discharging Rivers in the Bohai Region, China
by Ran Kang, Shanyu Zhou, Tingting Chen, Huiying Yin, Lulu Si, Caiyun Deng and Hermann Kaufmann
Water 2024, 16(7), 982; https://doi.org/10.3390/w16070982 (registering DOI) - 28 Mar 2024
Abstract
Studies have investigated heavy metal (HM) contamination in the Bohai Sea, but primarily in seawater and associated sediments, or in single rivers. For the first time, 31 major rivers discharging into the Bohai Sea were analyzed, along with 27 uniformly distributed coastal seawater [...] Read more.
Studies have investigated heavy metal (HM) contamination in the Bohai Sea, but primarily in seawater and associated sediments, or in single rivers. For the first time, 31 major rivers discharging into the Bohai Sea were analyzed, along with 27 uniformly distributed coastal seawater samples and selected invertebrates. The elements measured were As, Cd, Cr, Cu, Ni, Pb, V, and Zn. We calculated the ‘geo-accumulation index’, the ‘metal enrichment factor’, and the ‘contamination factor’, coupled with the ‘pollution load index’, and our findings suggested low-grade HM pollution, although two conspicuous associations of elements were found to stand out in particular: One is a combination of As, Cu, Cr, and V in seawater samples that may indicate pollution from intensive ship traffic. The other shows a significant pattern of Cr, Pb, and Zn in water samples from rivers discharging between Yantai and Weihai on the Shandong Peninsula at the south edge of the Bohai Sea. This is primarily a farming area, with a moderate share of industrial enterprises. Investigations including fertilizers and pesticides point to agricultural practices and textile printing/chrome tanneries as the causes of contamination. Overall, a significant decline was found in the HM load in the rivers, apart from those discharging into the Yellow Sea section. Full article
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24 pages, 1169 KiB  
Review
The RAGE Axis: A Relevant Inflammatory Hub in Human Diseases
by Armando Rojas, Cristian Lindner, Ivan Schneider, Ileana Gonzalez and Jaime Uribarri
Biomolecules 2024, 14(4), 412; https://doi.org/10.3390/biom14040412 (registering DOI) - 28 Mar 2024
Abstract
In 1992, a transcendental report suggested that the receptor of advanced glycation end-products (RAGE) functions as a cell surface receptor for a wide and diverse group of compounds, commonly referred to as advanced glycation end-products (AGEs), resulting from the non-enzymatic glycation of lipids [...] Read more.
In 1992, a transcendental report suggested that the receptor of advanced glycation end-products (RAGE) functions as a cell surface receptor for a wide and diverse group of compounds, commonly referred to as advanced glycation end-products (AGEs), resulting from the non-enzymatic glycation of lipids and proteins in response to hyperglycemia. The interaction of these compounds with RAGE represents an essential element in triggering the cellular response to proteins or lipids that become glycated. Although initially demonstrated for diabetes complications, a growing body of evidence clearly supports RAGE’s role in human diseases. Moreover, the recognizing capacities of this receptor have been extended to a plethora of structurally diverse ligands. As a result, it has been acknowledged as a pattern recognition receptor (PRR) and functionally categorized as the RAGE axis. The ligation to RAGE leads the initiation of a complex signaling cascade and thus triggering crucial cellular events in the pathophysiology of many human diseases. In the present review, we intend to summarize basic features of the RAGE axis biology as well as its contribution to some relevant human diseases such as metabolic diseases, neurodegenerative, cardiovascular, autoimmune, and chronic airways diseases, and cancer as a result of exposure to AGEs, as well as many other ligands. Full article
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12 pages, 2127 KiB  
Article
Antineoplastic Drug Synergy of Artesunate with Navitoclax in Models of High-Grade Serous Ovarian Cancer
by J. Robert McCorkle, Rebecca Ahn, Connie D. Cao, Kristen S. Hill, Charles S. Dietrich and Jill M. Kolesar
Cancers 2024, 16(7), 1321; https://doi.org/10.3390/cancers16071321 (registering DOI) - 28 Mar 2024
Abstract
Artesunate belongs to a class of medications derived from the sweet wormwood plant (Artemisia annua) known as artemisinins. Artesunate has traditionally been used as a frontline treatment for severe malaria but has also demonstrated antineoplastic activity against various malignancies, including ovarian [...] Read more.
Artesunate belongs to a class of medications derived from the sweet wormwood plant (Artemisia annua) known as artemisinins. Artesunate has traditionally been used as a frontline treatment for severe malaria but has also demonstrated antineoplastic activity against various malignancies, including ovarian cancer. Data suggest that artesunate exacerbates cellular oxidative stress, triggering apoptosis. In the current study, we investigated the ability of navitoclax, an inhibitor of the antiapoptotic Bcl-2 protein family, to enhance artesunate efficacy in ovarian cancer cells. Artesunate and navitoclax both demonstrated antiproliferative effects on 2D and 3D ovarian cancer cell models as single agents. Upon combination of navitoclax with artesunate, antineoplastic drug synergy was also observed in each of the 2D cell lines and ovarian tumor organoid models tested. Further investigation of this drug combination using intraperitoneal CAOV3 xenograft models in BALB/scid mice showed that the artesunate/navitoclax doublet was superior to single-agent artesunate and vehicle control treatment. However, it did not outperform single-agent navitoclax. With optimization, this drug combination could provide a new therapeutic option for ovarian cancer and warrants further preclinical investigation. Full article
(This article belongs to the Section Cancer Therapy)
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18 pages, 2513 KiB  
Article
Synergy between BRD9- and IKZF3-Targeting as a Therapeutic Strategy for Multiple Myeloma
by Basudev Chowdhury, Swati Garg, Wei Ni, Martin Sattler, Dana Sanchez, Chengcheng Meng, Taisei Akatsu, Richard Stone, William Forrester, Edmund Harrington, Sara J. Buhrlage, James D. Griffin and Ellen Weisberg
Cancers 2024, 16(7), 1319; https://doi.org/10.3390/cancers16071319 (registering DOI) - 28 Mar 2024
Abstract
Progress in the treatment of multiple myeloma (MM) has resulted in improvement in the survival rate for younger patients but not for patients >65. Thus, there is a need for more efficacious therapies. We and others have shown that bromodomain-containing protein 9 (BRD9), [...] Read more.
Progress in the treatment of multiple myeloma (MM) has resulted in improvement in the survival rate for younger patients but not for patients >65. Thus, there is a need for more efficacious therapies. We and others have shown that bromodomain-containing protein 9 (BRD9), a member of the non-canonical SWI/SNF chromatin remodeling complex, plays a role in MM cell survival, and targeting BRD9 selectively blocks MM cell proliferation and synergizes with IMiDs. We found that synergy in vitro is associated with the downregulation of MYC and Ikaros proteins, including IKZF3, and overexpression of IKZF3 or MYC could partially reverse synergy. RNA-seq analysis revealed synergy to be associated with the suppression of pathways associated with MYC and E2F target genes and pathways, including cell cycle, cell division, and DNA replication. Stimulated pathways included cell adhesion and immune and inflammatory response. Importantly, combining IMiD treatment and BRD9 targeting, which leads to the downregulation of MYC protein and upregulation of CRBN protein, was able to override IMiD resistance of cells exposed to iberdomide in long-term culture. Taken together, our results support the notion that combination therapy based on agents targeting BRD9 and IKZF3, two established dependencies in MM, represents a promising novel therapeutic strategy for MM and IMiD-resistant disease. Full article
(This article belongs to the Special Issue Signaling Pathways in Multiple Myeloma)
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38 pages, 1680 KiB  
Article
Commit-Level Software Change Intent Classification Using a Pre-Trained Transformer-Based Code Model
by Tja?a Heri?ko, Bo?tjan ?umak and Sa?o Karakati?
Mathematics 2024, 12(7), 1012; https://doi.org/10.3390/math12071012 (registering DOI) - 28 Mar 2024
Abstract
Software evolution is driven by changes made during software development and maintenance. While source control systems effectively manage these changes at the commit level, the intent behind them are often inadequately documented, making understanding their rationale challenging. Existing commit intent classification approaches, largely [...] Read more.
Software evolution is driven by changes made during software development and maintenance. While source control systems effectively manage these changes at the commit level, the intent behind them are often inadequately documented, making understanding their rationale challenging. Existing commit intent classification approaches, largely reliant on commit messages, only partially capture the underlying intent, predominantly due to the messages’ inadequate content and neglect of the semantic nuances in code changes. This paper presents a novel method for extracting semantic features from commits based on modifications in the source code, where each commit is represented by one or more fine-grained conjoint code changes, e.g., file-level or hunk-level changes. To address the unstructured nature of code, the method leverages a pre-trained transformer-based code model, further trained through task-adaptive pre-training and fine-tuning on the downstream task of intent classification. This fine-tuned task-adapted pre-trained code model is then utilized to embed fine-grained conjoint changes in a commit, which are aggregated into a unified commit-level vector representation. The proposed method was evaluated using two BERT-based code models, i.e., CodeBERT and GraphCodeBERT, and various aggregation techniques on data from open-source Java software projects. The results show that the proposed method can be used to effectively extract commit embeddings as features for commit intent classification and outperform current state-of-the-art methods of code commit representation for intent categorization in terms of software maintenance activities undertaken by commits. Full article
(This article belongs to the Special Issue AI-Augmented Software Engineering)
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39 pages, 1517 KiB  
Review
Shrimp Waste Upcycling: Unveiling the Potential of Polysaccharides, Proteins, Carotenoids, and Fatty Acids with Emphasis on Extraction Techniques and Bioactive Properties
by Nicola Rossi, Clara Grosso and Cristina Delerue-Matos
Mar. Drugs 2024, 22(4), 153; https://doi.org/10.3390/md22040153 (registering DOI) - 28 Mar 2024
Abstract
Shrimp processing generates substantial waste, which is rich in valuable components such as polysaccharides, proteins, carotenoids, and fatty acids. This review provides a comprehensive overview of the valorization of shrimp waste, mainly shrimp shells, focusing on extraction methods, bioactivities, and potential applications of [...] Read more.
Shrimp processing generates substantial waste, which is rich in valuable components such as polysaccharides, proteins, carotenoids, and fatty acids. This review provides a comprehensive overview of the valorization of shrimp waste, mainly shrimp shells, focusing on extraction methods, bioactivities, and potential applications of these bioactive compounds. Various extraction techniques, including chemical extraction, microbial fermentation, enzyme-assisted extraction, microwave-assisted extraction, ultrasound-assisted extraction, and pressurized techniques are discussed, highlighting their efficacy in isolating polysaccharides, proteins, carotenoids, and fatty acids from shrimp waste. Additionally, the bioactivities associated with these compounds, such as antioxidant, antimicrobial, anti-inflammatory, and antitumor properties, among others, are elucidated, underscoring their potential in pharmaceutical, nutraceutical, and cosmeceutical applications. Furthermore, the review explores current and potential utilization avenues for these bioactive compounds, emphasizing the importance of sustainable resource management and circular economy principles in maximizing the value of shrimp waste. Overall, this review paper aims to provide insights into the multifaceted aspects of shrimp waste valorization, offering valuable information for researchers, industries, and policymakers interested in sustainable resource utilization and waste-management strategies. Full article
(This article belongs to the Special Issue Collagen and Bioactives from Marine By-Products)
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15 pages, 13778 KiB  
Article
Molecular Weights of Polyethyleneimine-Dependent Physicochemical Tuning of Gold Nanoparticles and FRET-Based Turn-On Sensing of Polymyxin B
by Atul Kumar Tiwari, Munesh Kumar Gupta, Ramovatar Meena, Prem C. Pandey and Roger J. Narayan
Sensors 2024, 24(7), 2169; https://doi.org/10.3390/s24072169 (registering DOI) - 28 Mar 2024
Abstract
Environmental monitoring and the detection of antibiotic contaminants require expensive and time-consuming techniques. To overcome these challenges, gold nanoparticle-mediated fluorometric “turn-on” detection of Polymyxin B (PMB) in an aqueous medium was undertaken. The molecular weight of polyethyleneimine (PEI)-dependent physicochemical tuning of gold nanoparticles [...] Read more.
Environmental monitoring and the detection of antibiotic contaminants require expensive and time-consuming techniques. To overcome these challenges, gold nanoparticle-mediated fluorometric “turn-on” detection of Polymyxin B (PMB) in an aqueous medium was undertaken. The molecular weight of polyethyleneimine (PEI)-dependent physicochemical tuning of gold nanoparticles (PEI@AuNPs) was achieved and employed for the same. The three variable molecular weights of branched polyethyleneimine (MW 750, 60, and 1.3 kDa) molecules controlled the nano-geometry of the gold nanoparticles along with enhanced stabilization at room temperature. The synthesized gold nanoparticles were characterized through various advanced techniques. The results revealed that polyethyleneimine-stabilized gold nanoparticles (PEI@AuNP-1-3) were 4.5, 7.0, and 52.5 nm in size with spherical shapes, and the zeta potential values were 29.9, 22.5, and 16.6 mV, respectively. Accordingly, the PEI@AuNPs probes demonstrated high sensitivity and selectivity, with a linear relationship curve over a concentration range of 1–6 μM for polymyxin B. The limit of detection (LOD) was calculated as 8.5 nM. This is the first unique report of gold nanoparticle nano-geometry-dependent FRET-based turn-on detection of PMB in an aqueous medium. We believe that this approach would offer a complementary strategy for the development of a highly sophisticated and advanced sensing system for PMB and act as a template for the development of new nanomaterial-based engineered sensors for rapid antibiotic detection in environmental as well as biological samples. Full article
(This article belongs to the Section Sensor Materials)
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23 pages, 10525 KiB  
Article
Ocean Satellite Data Fusion for High-Resolution Surface Current Maps
by Alisa Kugusheva, Hannah Bull, Evangelos Moschos, Artemis Ioannou, Briac Le Vu and Alexandre Stegner
Remote Sens. 2024, 16(7), 1182; https://doi.org/10.3390/rs16071182 (registering DOI) - 28 Mar 2024
Abstract
Real-time reconstruction of ocean surface currents is a challenge due to the complex, non-linear dynamics of the ocean, the small number of in situ measurements, and the spatio-temporal heterogeneity of satellite altimetry observations. To address this challenge, we introduce HIRES-CURRENTS-Net, an operational real-time [...] Read more.
Real-time reconstruction of ocean surface currents is a challenge due to the complex, non-linear dynamics of the ocean, the small number of in situ measurements, and the spatio-temporal heterogeneity of satellite altimetry observations. To address this challenge, we introduce HIRES-CURRENTS-Net, an operational real-time convolutional neural network (CNN) model for daily ocean current reconstruction. This study focuses on the Mediterranean Sea, a region where operational models have great difficulty predicting surface currents. Notably, our model showcases higher accuracy compared to commonly used alternative methods. HIRES-CURRENTS-Net integrates high-resolution measurements from the infrared or visible spectrum—high resolution Sea Surface Temperature (SST) or chlorophyll (CHL) images—in addition to the low-resolution Sea Surface Height (SSH) maps derived from satellite altimeters. In the first stage, we apply a transfer learning method which uses a high-resolution numerical model to pre-train our CNN model on simulated SSH and SST data with synthetic clouds. The observation of System Simulation Experiments (OSSEs) offers us a sufficient training dataset with reference surface currents at very high resolution, and a model trained on this data can then be applied to real data. In the second stage, to enhance the real-time operational performance of our model over previous methods, we fine-tune the CNN model on real satellite data using a novel pseudo-labeling strategy. We validate HIRES-CURRENTS-Net on real data from drifters and demonstrate that our data-driven approach proves effective for real-time sea surface current reconstruction with potential operational applications such as ship routing. Full article
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17 pages, 2365 KiB  
Article
Characterization of CD34+ Cells from Patients with Acute Myeloid Leukemia (AML) and Myelodysplastic Syndromes (MDS) Using a t-Distributed Stochastic Neighbor Embedding (t-SNE) Protocol
by Cathrin Nollmann, Wiebke Moskorz, Christian Wimmenauer, Paul S. J?ger, Ron P. Cadeddu, J?rg Timm, Thomas Heinzel and Rainer Haas
Cancers 2024, 16(7), 1320; https://doi.org/10.3390/cancers16071320 (registering DOI) - 28 Mar 2024
Abstract
Using multi-color flow cytometry analysis, we studied the immunophenotypical differences between leukemic cells from patients with AML/MDS and hematopoietic stem and progenitor cells (HSPCs) from patients in complete remission (CR) following their successful treatment. The panel of markers included CD34, CD38, CD45RA, CD123 [...] Read more.
Using multi-color flow cytometry analysis, we studied the immunophenotypical differences between leukemic cells from patients with AML/MDS and hematopoietic stem and progenitor cells (HSPCs) from patients in complete remission (CR) following their successful treatment. The panel of markers included CD34, CD38, CD45RA, CD123 as representatives for a hierarchical hematopoietic stem and progenitor cell (HSPC) classification as well as programmed death ligand 1 (PD-L1). Rather than restricting the evaluation on a 2- or 3-dimensional analysis, we applied a t-distributed stochastic neighbor embedding (t-SNE) approach to obtain deeper insight and segregation between leukemic cells and normal HPSCs. For that purpose, we created a t-SNE map, which resulted in the visualization of 27 cell clusters based on their similarity concerning the composition and intensity of antigen expression. Two of these clusters were “leukemia-related” containing a great proportion of CD34+/CD38 hematopoietic stem cells (HSCs) or CD34+ cells with a strong co-expression of CD45RA/CD123, respectively. CD34+ cells within the latter cluster were also highly positive for PD-L1 reflecting their immunosuppressive capacity. Beyond this proof of principle study, the inclusion of additional markers will be helpful to refine the differentiation between normal HSPCs and leukemic cells, particularly in the context of minimal disease detection and antigen-targeted therapeutic interventions. Furthermore, we suggest a protocol for the assignment of new cell ensembles in quantitative terms, via a numerical value, the Pearson coefficient, based on a similarity comparison of the t-SNE pattern with a reference. Full article
(This article belongs to the Topic AI in Medical Imaging and Image Processing)
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17 pages, 4054 KiB  
Article
Experimental Investigation on the Effects of Mineral Water Composition on the Leaching of Cement-Based Materials
by Alienor Pouyanne, Sonia Boudache, Beno?t Hilloulin, Ahmed Loukili and Emmanuel Roziere
Materials 2024, 17(7), 1548; https://doi.org/10.3390/ma17071548 (registering DOI) - 28 Mar 2024
Abstract
The common phenomenon observed for concrete in aggressive water is leaching, which involves the dissolution of cement hydration products. Many studies have focused on leaching in demineralised water or acid attacks, but mineral water still deserves further investigation. In most standards, the aggressiveness [...] Read more.
The common phenomenon observed for concrete in aggressive water is leaching, which involves the dissolution of cement hydration products. Many studies have focused on leaching in demineralised water or acid attacks, but mineral water still deserves further investigation. In most standards, the aggressiveness of a given water body is determined by its pH and not its composition. The effect of the calcium content of the water on degradation is yet to be determined. In this paper, the leaching of Portland cement-based mortar was induced by two types of drinking water with different calcium contents and buffer capacity in controlled conditions. The Langelier saturation index (LSI) was used to describe water aggressiveness based on the calco-carbonic equilibrium. The studied waters had the same pH but LSIs of +0.5 and −1.0 corresponding to scaling with respect to aggressive water; demineralised water was used as a reference. Microstructural damage was checked by TGA and X-ray microtomography. Macroscopic measurements were used to monitor global degradation. The soft water caused a 53% deeper deterioration of the mortar sample than the hard water. Soft water-induced leaching was found to be similar yet slower to leaching via demineralised water (with a mass loss of −2.01% and −2.16% after 200 days, respectively). In contrast, hard water induced strongly time-dependent leaching, and the damage was located close to the surface. The roughness of leached specimens was 18% higher in hard water than in soft water. The formation of calcite on the sample surface not only affects the leaching rate by creating a protective surface layer, but it could also act as a calcium ion pump. Full article
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17 pages, 2819 KiB  
Article
Selective Genotyping and Phenotyping for Optimization of Genomic Prediction Models for Populations with Different Diversity
by Marina ?eran, Vuk ?or?evi?, Jegor Miladinovi?, Marjana Vasiljevi?, Vojin ?uki?, Predrag Ran?elovi? and Simona Ja?imovi?
Plants 2024, 13(7), 975; https://doi.org/10.3390/plants13070975 (registering DOI) - 28 Mar 2024
Abstract
To overcome the different challenges to food security caused by a growing population and climate change, soybean (Glycine max (L.) Merr.) breeders are creating novel cultivars that have the potential to improve productivity while maintaining environmental sustainability. Genomic selection (GS) is an [...] Read more.
To overcome the different challenges to food security caused by a growing population and climate change, soybean (Glycine max (L.) Merr.) breeders are creating novel cultivars that have the potential to improve productivity while maintaining environmental sustainability. Genomic selection (GS) is an advanced approach that may accelerate the rate of genetic gain in breeding using genome-wide molecular markers. The accuracy of genomic selection can be affected by trait architecture and heritability, marker density, linkage disequilibrium, statistical models, and training set. The selection of a minimal and optimal marker set with high prediction accuracy can lower genotyping costs, computational time, and multicollinearity. Selective phenotyping could reduce the number of genotypes tested in the field while preserving the genetic diversity of the initial population. This study aimed to evaluate different methods of selective genotyping and phenotyping on the accuracy of genomic prediction for soybean yield. The evaluation was performed on three populations: recombinant inbred lines, multifamily diverse lines, and germplasm collection. Strategies adopted for marker selection were as follows: SNP (single nucleotide polymorphism) pruning, estimation of marker effects, randomly selected markers, and genome-wide association study. Reduction of the number of genotypes was performed by selecting a core set from the initial population based on marker data, yet maintaining the original population’s genetic diversity. Prediction ability using all markers and genotypes was different among examined populations. The subsets obtained by the model-based strategy can be considered the most suitable for marker selection for all populations. The selective phenotyping based on makers in all cases had higher values of prediction ability compared to minimal values of prediction ability of multiple cycles of random selection, with the highest values of prediction obtained using AN approach and 75% population size. The obtained results indicate that selective genotyping and phenotyping hold great potential and can be integrated as tools for improving or retaining selection accuracy by reducing genotyping or phenotyping costs for genomic selection. Full article
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13 pages, 3545 KiB  
Article
The Optimization of the Steam-Heat-Treated Process of Rattan (Calamus Simplicifolius) Based on the Response Surface Analysis and Its Chemical Changes
by Minmin Xu, Zhihui Wang, Zhenrui Li, Zhenbing Sun, Lili Shang, Genlin Tian, Jianfeng Ma and Xing’e Liu
Forests 2024, 15(4), 615; https://doi.org/10.3390/f15040615 (registering DOI) - 28 Mar 2024
Abstract
The objective of this study is to investigate the impacts of steam heat treatment parameters (e.g., temperature, time, and pressure) on the impact toughness of rattan (Calamus Simplicifolius). The Box–Behnken design response surface analysis was employed to optimize the steam heat [...] Read more.
The objective of this study is to investigate the impacts of steam heat treatment parameters (e.g., temperature, time, and pressure) on the impact toughness of rattan (Calamus Simplicifolius). The Box–Behnken design response surface analysis was employed to optimize the steam heat treatment parameters. Impact toughness was selected as the evaluation index, with single-factor tests conducted as a baseline for comparison. Changes in chemical composition, cellulose crystallinity, and pyrolysis properties were analyzed using X-ray diffraction (XRD), Fourier transform infrared (FTIR) spectra, Thermogravimetry–Fourier transform infrared (TG-FTIR) spectra, and wet-chemistry methods for both untreated control samples and the heat-treated samples. The results show that a 1 h steam heat treatment at 160 °C under 0.1 MPa pressure has the optimal process parameters for the rattan. The achieved impact toughness value closely matches the predicted value at 71.29 kJ/m2. After the steam heat treatment, hemicellulose and cellulose contents decrease, whereas relative lignin content increases significantly, leading to improved toughness characteristics in Calamus Simplicifolius samples. The TG results indicate that maximum weight loss occurs at temperatures of 352 °C, 354 °C, and 361 °C, respectively, for three different samples. This suggests that the thermal stability is enhanced as a result of the heat treatment. These findings will help optimize the heat treatments of the rattan material. Full article
(This article belongs to the Section Wood Science and Forest Products)
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15 pages, 10685 KiB  
Article
Dysregulated Glucuronidation of Bilirubin Exacerbates Liver Inflammation and Fibrosis in Schistosomiasis Japonica through the NF-κB Signaling Pathway
by Qingkai Xue, Yuyan Wang, Yiyun Liu, Haiyong Hua, Xiangyu Zhou, Yongliang Xu, Ying Zhang, Chunrong Xiong, Xinjian Liu, Kun Yang and Yuzheng Huang
Pathogens 2024, 13(4), 287; https://doi.org/10.3390/pathogens13040287 (registering DOI) - 28 Mar 2024
Abstract
Hepatic fibrosis is an important pathological manifestation of chronic schistosome infection. Patients with advanced schistosomiasis show varying degrees of abnormalities in liver fibrosis indicators and bilirubin metabolism. However, the relationship between hepatic fibrosis in schistosomiasis and dysregulated bilirubin metabolism remains unclear. In this [...] Read more.
Hepatic fibrosis is an important pathological manifestation of chronic schistosome infection. Patients with advanced schistosomiasis show varying degrees of abnormalities in liver fibrosis indicators and bilirubin metabolism. However, the relationship between hepatic fibrosis in schistosomiasis and dysregulated bilirubin metabolism remains unclear. In this study, we observed a positive correlation between total bilirubin levels and the levels of ALT, AST, LN, and CIV in patients with advanced schistosomiasis. Additionally, we established mouse models at different time points following S. japonicum infection. As the infection time increased, liver fibrosis escalated, while liver UGT1A1 consistently exhibited a low expression, indicating impaired glucuronidation of bilirubin metabolism in mice. In vitro experiments suggested that SEA may be a key inhibitor of hepatic UGT1A1 expression after schistosome infection. Furthermore, a high concentration of bilirubin activated the NF-κB signaling pathway in L-O2 cells in vitro. These findings suggested that the dysregulated glucuronidation of bilirubin caused by S. japonicum infection may play a significant role in schistosomiasis liver fibrosis through the NF-κB signaling pathway. Full article
(This article belongs to the Special Issue Schistosomiasis—Where Are We and Where Do We Want to Go?)
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27 pages, 1241 KiB  
Article
Computational Ensemble Gene Co-Expression Networks for the Analysis of Cancer Biomarkers
by Julia Figueroa-Martínez, Dulcenombre M. Saz-Navarro, Aurelio López-Fernández, Domingo S. Rodríguez-Baena and Francisco A. Gómez-Vela
Informatics 2024, 11(2), 14; https://doi.org/10.3390/informatics11020014 (registering DOI) - 28 Mar 2024
Abstract
Gene networks have become a powerful tool for the comprehensive examination of gene expression patterns. Thanks to these networks generated by means of inference algorithms, it is possible to study different biological processes and even identify new biomarkers for such diseases. These biomarkers [...] Read more.
Gene networks have become a powerful tool for the comprehensive examination of gene expression patterns. Thanks to these networks generated by means of inference algorithms, it is possible to study different biological processes and even identify new biomarkers for such diseases. These biomarkers are essential for the discovery of new treatments for genetic diseases such as cancer. In this work, we introduce an algorithm for genetic network inference based on an ensemble method that improves the robustness of the results by combining two main steps: first, the evaluation of the relationship between pairs of genes using three different co-expression measures, and, subsequently, a voting strategy. The utility of this approach was demonstrated by applying it to a human dataset encompassing breast and prostate cancer-associated stromal cells. Two gene networks were computed using microarray data, one for breast cancer and one for prostate cancer. The results obtained revealed, on the one hand, distinct stromal cell behaviors in breast and prostate cancer and, on the other hand, a list of potential biomarkers for both diseases. In the case of breast tumor, ST6GAL2, RIPOR3, COL5A1, and DEPDC7 were found, and in the case of prostate tumor, the genes were GATA6-AS1, ARFGEF3, PRR15L, and APBA2. These results demonstrate the usefulness of the ensemble method in the field of biomarker discovery. Full article
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19 pages, 7951 KiB  
Article
Population Variation and Phylogeography of Cherry Blossom (Prunus conradinae) in China
by Jingjing Dong, Xiangui Yi, Xianrong Wang, Meng Li, Xiangzhen Chen, Shucheng Gao, Wenyi Fu, Siyu Qian, Xinglin Zeng and Yingke Yun
Plants 2024, 13(7), 974; https://doi.org/10.3390/plants13070974 (registering DOI) - 28 Mar 2024
Abstract
Prunus conradinae (subgenus Cerasus, Rosaceae) is a significant germplasm resource of wild cherry blossom in China. To ensure the comprehensiveness of this study, we used a large sample size (12 populations comprising 244 individuals) which involved the fresh leaves of P. conradinae [...] Read more.
Prunus conradinae (subgenus Cerasus, Rosaceae) is a significant germplasm resource of wild cherry blossom in China. To ensure the comprehensiveness of this study, we used a large sample size (12 populations comprising 244 individuals) which involved the fresh leaves of P. conradinae in Eastern, Central, and Southwestern China. We combined morphological and molecular evidence (three chloroplast DNA (cpDNA) sequences and one nuclear DNA (nr DNA) sequence) to examine the population of P. conradinae variation and differentiation. Our results revealed that Central, East, and Southwest China are important regions for the conservation of P. conradinae to ensure adequate germplasm resources in the future. We also found support for a new variant, P. conradinae var. rubrum. We observed high genetic diversity within P. conradinae (haplotype diversity [Hd] = 0.830; ribotype diversity [Rd] = 0.798), with novel genetic variation and a distinct genealogical structure among populations. There was genetic variation among populations and phylogeographic structure among populations and three geographical groups (Central, East, and Southwest China). The genetic differentiation coefficient was the lowest in the Southwest region and the gene exchange was obvious, while the differentiation was obvious in Central China. In the three geographic groups, we identified two distinct lineages: an East China lineage (Central China and East China) and a Southwest China lineage ((Central China and Southwest China) and East China). These two lineages originated approximately 4.38 million years ago (Mya) in the early Pliocene due to geographic isolation. P. conradinae expanded from Central China to East China at 3.32 Mya (95% HPD: 1.12–5.17 Mya) in the Pliocene. The population of P. conradinae spread from East China to Southwest China, and the differentiation time was 2.17 Mya (95% (HPD: 0.47–4.54 Mya), suggesting that the population of P. conradinae differentiated first in Central and East China. The population of P. conradinae experienced differentiation from Central China to Southwest China around 1.10 Mya (95% HPD: 0.11–2.85 Mya) during the early Pleistocene of the Quaternary period. The southeastern region of East China, near Mount Wuyi, likely serves as a refuge for P. conradinae. This study establishes a theoretical foundation for the classification, identification, conservation, and exploitation of germplasm resources of P. conradinae. Full article
(This article belongs to the Special Issue Origin and Evolution of the East Asian Flora (EAF))
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15 pages, 14650 KiB  
Article
Study on Process Mineralogy of the Combined Copper Oxide Ore in Tibet and Acid Leaching Behavior with Calcium Fluoride
by Zujiang Pan, Cuo Jian, Zaihua Peng, Xinzhuang Fu, Rui He, Tong Yue and Wei Sun
Minerals 2024, 14(4), 352; https://doi.org/10.3390/min14040352 (registering DOI) - 28 Mar 2024
Abstract
The Yulong copper deposit in Tibet is a typical porphyry copper deposit, with about 30 million tons of copper oxide ore in the surface layer. However, more than 40% of the copper resources are in a combination state, resulting in an extraction efficiency [...] Read more.
The Yulong copper deposit in Tibet is a typical porphyry copper deposit, with about 30 million tons of copper oxide ore in the surface layer. However, more than 40% of the copper resources are in a combination state, resulting in an extraction efficiency of only 50% for copper via the hydrometallurgical process. In this study, the process mineralogy of the combined copper oxide ore was systematically investigated and a calcium fluoride-enhanced leaching process is proposed to increase the leaching efficiency of the combined copper ore. The process mineralogy of the combined copper oxide ore was analyzed using various testing techniques, including chemical analysis, X-ray diffraction, and a process mineralogy parameter testing system (Mineral Liberation Analysis). The results revealed that limonite accounted for 86.12% of the sample, and 63.51% of the copper resource existed in the form of combined copper oxide in limonite. However, it is difficult for the uniformly distributed combined copper oxide in limonite to sufficiently make contact with sulfuric acid, which is the leaching agent, resulting in low copper leaching efficiency. The enhanced leaching behavior of the combined copper oxide ores was also investigated, thereby determining effective and economical enhanced leaching conditions. Under optimal conditions, at a grinding fineness ratio of −0.074 mm (accounting for 85%), liquid-solid ratio of 4:1, sulfuric acid concentration of 50 g/L, temperature of 30 °C, CaF2 dosage of 1% of the ore mass, and leaching time of 4 h, the copper leaching efficiency increased to 60.57%, which was 7.34% higher than that of atmospheric pressure leaching. Finally, the enhanced leaching slag was analyzed using an electron probe microanalyzer. It indicated that fluorine ions can erode the combined copper oxide ore and facilitate the diffusion of hydrogen ions inside the limonite, thereby achieving a strengthening effect. Full article
(This article belongs to the Section Mineral Processing and Extractive Metallurgy)
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22 pages, 1533 KiB  
Article
Effects of a Physical Training Program on Cognitive and Physical Performance and Health-Related Variables in Professional esports Players: A Pilot Study
by Manuel Sanz-Matesanz, Luis Manuel Martínez-Aranda and Gemma María Gea-García
Appl. Sci. 2024, 14(7), 2845; https://doi.org/10.3390/app14072845 (registering DOI) - 28 Mar 2024
Abstract
The present study focused on the effects of a physical training program on physical- and psychological-related variables in professional esports players. Five professional League of Legends (LOL) players belonging to the highest national category participated in this study. Data were obtained before and [...] Read more.
The present study focused on the effects of a physical training program on physical- and psychological-related variables in professional esports players. Five professional League of Legends (LOL) players belonging to the highest national category participated in this study. Data were obtained before and after a 5 h virtual training session (acute), as well as before and after an 8-week intervention period, focused on decreasing the impact of fatigue on players’ health and performance. The results showed that a complete virtual training session influences their performance, decreasing jump height and joint mobility (p < 0.01), as well as increasing perceived physical and cognitive exertion by 76.9% (p < 0.01) and 166.67% on the “Rating of Fatigue” scale (p = 0.002). Moreover, the intervention was able to reduce the impact of fatigue (30.8% and 43.3% reduction in cognitive and overall fatigue, respectively, p < 0.05), improving, at the same time, the amount of muscle mass by 2%, jumping ability by 9.8% to 21%, and strength levels in various exercises by 63% to 173% (p < 0.01). The implementation of a physical training program is capable of reducing the players’ fatigue perception, improving their physical conditioning and health status, and decreasing the injury risk. Full article
(This article belongs to the Special Issue Human Performance and Health in Sports)
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12 pages, 1396 KiB  
Article
Bio-Inoculation of Tomato (Solanum lycopersicum L.) and Jalapeño Pepper (Capsicum annuum L.) with Enterobacter sp. DBA51 Increases Growth and Yields under Open-Field Conditions
by John Paul Délano-Frier, Alberto Flores-Olivas and José Humberto Valenzuela-Soto
Agronomy 2024, 14(4), 702; https://doi.org/10.3390/agronomy14040702 (registering DOI) - 28 Mar 2024
Abstract
The rhizobacterium Enterobacter sp. DBA51 (DBA51), isolated from the semi-desert in Coahuila, Mexico, was previously found to increase the vegetative growth of tomato and tobacco plants cultivated under greenhouse conditions. The present report describes the results obtained from two independent open-field experiments performed [...] Read more.
The rhizobacterium Enterobacter sp. DBA51 (DBA51), isolated from the semi-desert in Coahuila, Mexico, was previously found to increase the vegetative growth of tomato and tobacco plants cultivated under greenhouse conditions. The present report describes the results obtained from two independent open-field experiments performed with tomato and jalapeño pepper commercial crops inoculated with DBA51. Additionally, plants inoculated with Bacillus subtilis LPM1 (LPM1) and uninoculated plants were included as positive and negative controls, respectively. DBA51 and LPM1 significantly promoted growth at vegetative stages in the tomato plants; this effect was evident in the stem diameter (DBA51 with p < 0.0001 and LPM1 with p < 0.0001) and height (DBA51 with p < 0.0001 and LPM1 with p < 0.0001) of the tomato plants. However, no differences were detected in the jalapeño pepper plants. Additionally, DBA51 and LPM1 treatments increased tomato fruit production by 80% and 31%, respectively, compared to uninoculated plants. A similar increase in yield was recorded in DBA51- and LPM1-treated jalapeño pepper plants, which was 75% and 56% higher than uninoculated controls, respectively. These results strongly recommend the potential use of DBA51 as a biofertilizer in horticultural crops. Full article
(This article belongs to the Section Agricultural Biosystem and Biological Engineering)
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20 pages, 27313 KiB  
Article
A Digital Twin for Assessing the Remaining Useful Life of Offshore Wind Turbine Structures
by Rafael Pacheco-Blazquez, Julio Garcia-Espinosa, Daniel Di Capua and Andres Pastor Sanchez
J. Mar. Sci. Eng. 2024, 12(4), 573; https://doi.org/10.3390/jmse12040573 (registering DOI) - 28 Mar 2024
Abstract
This paper delves into the application of digital twin monitoring techniques for enhancing offshore floating wind turbine performance, with a detailed case study that uses open-source digital twin software. We explore the practical implementation of digital twins and their efficacy in optimizing operations [...] Read more.
This paper delves into the application of digital twin monitoring techniques for enhancing offshore floating wind turbine performance, with a detailed case study that uses open-source digital twin software. We explore the practical implementation of digital twins and their efficacy in optimizing operations and predictive maintenance, focusing on controlling the real-time structural state of composite wind turbine structures and forecasting the remaining useful life by tracking the fatigue state in the structure. Our findings emphasize digital twins’ potential as a valuable tool for renewable energy, driving efficiency and sustainability in offshore floating wind installations. These aspects, along with the aforementioned simulations, whether in real-time or forecasted, reduce costly and unnecessary inspections and scheduled maintenance. Full article
(This article belongs to the Special Issue Ocean Digital Twins)
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