bluuebunny/crossref_metadata_2025 huggingface dataset:
Experiences of People with Kidney Disease Following the Implementation of the Compassionate Mindful Resilience Programme: Qualitative Findings from the COSMIC Study
Authors: Wilson Anna , McKeaveney Clare , Carswell Claire , Atkinson Karen , Burton Stephanie , McVeigh Clare , Graham-Wisener Lisa , Jääskeläinen Erika , Johnston William , O’Rourke Daniel , Reid Joanne , Rej Soham , Walsh Ian , Noble Helen
Published: November 2023

Background: Kidney disease is a progressive, debilitating condition. Patients experience challenging physical and psychological symptoms and are at increased risk of anxiety, depression, and poor mental wellbeing. Access to specialist psychological or social support is limited, with inadequate provision of psychosocial support available across UK renal units. The COSMIC study (examining the acceptability and feasibility of the Compassionate Mindful Resilience programme for adult patients with chronic kidney disease) aimed to support a new service development project, in partnership with Kidney Care UK, by implementing the Compassionate Mindful Resilience (CMR) programme, developed by MindfulnessUK, and explore its feasibility for patients with stage 4 or 5 kidney disease and kidney transplant recipients. This paper reports on the qualitative exploratory work which examined the experiences of study participants, their adherence to practice, and the acceptability of the intervention. Method: Participants (n = 19) took part in semi-structured interviews, which were transcribed, coded, and thematically analysed. Results: Three themes (and nine subthemes) were reported: experiences of the CMR programme that facilitated subjective benefit, participants’ lived and shared experiences, and the practicalities of CMR programme participation. All participants reported that they found taking part in the CMR programme to be a beneficial experience. Conclusion: The CMR programme was found to be an acceptable intervention for people living with kidney disease and provided tools and techniques that support the mental health and wellbeing of this patient group. Further qualitative exploration into participant experience should be integrated within future trials of this intervention.
Characterization of the FLA Gene Family in Tomato (Solanum lycopersicum L.) and the Expression Analysis of SlFLAs in Response to Hormone and Abiotic Stresses
Authors: Yao Kangding , Yao Yandong , Ding Zhiqi , Pan Xuejuan , Zheng Yongqi , Huang Yi , Zhang Zhuohui , Li Ailing , Wang Chunlei , Li Changxia , Liao Weibiao
Published: November 2023

Fasciclin-like arabinogalactan proteins (FLAs), a subclass of arabinogalactan proteins (AGPs), participate in mediating plant growth, development, and response to abiotic stress. However, the characterization and function of FLAs in tomato are currently unknown. In this study, members of the tomato FLA family are characterized and analyzed in relation to their response to phytohormonal and abiotic stresses. The results show that a total of 24 FLA members were characterized in tomato. The structural domain analysis showed that these members have a high protein similarity. The expression profiles of different tissues indicated that the genes of most members of the tomato FLA gene family are highly expressed in roots, but to a lower extent in fruits. qRT-PCR analysis revealed that all 24 tomato FLA genes are responsive to ABA and MeJA. SlFLAs showed a positive response to salt and cold stress. SlFLA1, SlFLA12, and SlFLA14 are significantly induced under darkness. SlFLA1 and SlFLA3 are significantly induced under drought stress. This study provides a basis for a further understanding of the role of tomato FLA homologous genes in plant response to abiotic stress and lays the foundation for further research on the function of FLAs in tomato.
Comparative Computational Analysis of Spike Protein Structural Stability in SARS-CoV-2 Omicron Subvariants
Authors: Balupuri Anand , Kim Jeong-Min , Choi Kwang-Eun , No Jin Sun , Kim Il-Hwan , Rhee Jee Eun , Kim Eun-Jin , Kang Nam Sook
Published: November 2023

The continuous emergence of new severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants with multiple spike (S) protein mutations pose serious threats to current coronavirus disease 2019 (COVID-19) therapies. A comprehensive understanding of the structural stability of SARS-CoV-2 variants is vital for the development of effective therapeutic strategies as it can offer valuable insights into their potential impact on viral infectivity. S protein mediates a virus’ attachment to host cells by binding to angiotensin-converting enzyme 2 (ACE2) through its receptor-binding domain (RBD), and mutations in this protein can affect its stability and binding affinity. We analyzed S protein structural stability in various Omicron subvariants computationally. Notably, the S protein sequences analyzed in this work were obtained directly from our own sample collection. We evaluated the binding free energy between S protein and ACE2 in several complex forms. Additionally, we measured distances between the RBD of each chain in S protein to analyze conformational changes. Unlike most of the prior studies, we analyzed full-length S protein–ACE2 complexes instead of only RBD–ACE2 complexes. Omicron subvariants including BA.1, BA.2, BA.2.12.1, BA.4/BA.5, BA.2.75, BA.2.75_K147E, BA.4.6 and BA.4.6_N658S showed enhanced stability compared to wild type, potentially due to distinct S protein mutations. Among them, BA.2.75 and BA.4.6_N658S exhibited the highest and lowest level of stability, respectively.
Association of Germline Variation in Driver Genes with Breast Cancer Risk in Chilean Population
Authors: Morales-Pison Sebastián , Tapia Julio C. , Morales-González Sarai , Maldonado Edio , Acuña Mónica , Calaf Gloria M. , Jara Lilian
Published: November 2023

Cancer is a genomic disease, with driver mutations contributing to tumorigenesis. These potentially heritable variants influence risk and underlie familial breast cancer (BC). This study evaluated associations between BC risk and 13 SNPs in driver genes MAP3K1, SF3B1, SMAD4, ARID2, ATR, KMT2C, MAP3K13, NCOR1, and TBX3, in BRCA1/2-negative Chilean families. SNPs were genotyped using TaqMan Assay in 492 cases and 1285 controls. There were no associations between rs75704921:C>T (ARID2); rs2229032:A>C (ATR); rs3735156:C>G (KMT2C); rs2276738:G>C, rs2293906:C>T, rs4075943T:>A, rs13091808:C>T (MAP3K13); rs178831:G>A (NCOR1); or rs3759173:C>A (TBX3) and risk. The MAP3K1 rs832583 A allele (C/A+A/A) showed a protective effect in families with moderate BC history (OR = 0.7 [95% CI 0.5–0.9] p = 0.01). SF3B1 rs16865677-T (G/T+T/T) increased risk in sporadic early-onset BC (OR = 1.4 [95% CI 1.0–2.0] p = 0.01). SMAD4 rs3819122-C (A/C+C/C) increased risk in cases with moderate family history (OR = 2.0 [95% CI 1.3–2.9] p ≤ 0.0001) and sporadic cases diagnosed ≤50 years (OR = 1.6 [95% CI 1.1–2.2] p = 0.006). SMAD4 rs12456284:A>G increased BC risk in G-allele carriers (A/G + G/G) in cases with ≥2 BC/OC cases and early-onset cases (OR = 1.2 [95% CI 1.0–1.6] p = 0.04 and OR = 1.4 [95% CI 1.0–1.9] p = 0.03, respectively). Our study suggests that specific germline variants in driver genes MAP3K1, SF3B1, and SMAD4 contribute to BC risk in Chilean population.
CRISPR/Cas9 Landscape: Current State and Future Perspectives
Authors: Tyumentseva Marina , Tyumentsev Aleksandr , Akimkin Vasiliy
Published: November 2023

CRISPR (clustered regularly interspaced short palindromic repeats)/Cas9 is a unique genome editing tool that can be easily used in a wide range of applications, including functional genomics, transcriptomics, epigenetics, biotechnology, plant engineering, livestock breeding, gene therapy, diagnostics, and so on. This review is focused on the current CRISPR/Cas9 landscape, e.g., on Cas9 variants with improved properties, on Cas9-derived and fusion proteins, on Cas9 delivery methods, on pre-existing immunity against CRISPR/Cas9 proteins, anti-CRISPR proteins, and their possible roles in CRISPR/Cas9 function improvement. Moreover, this review presents a detailed outline of CRISPR/Cas9-based diagnostics and therapeutic approaches. Finally, the review addresses the future expansion of genome editors’ toolbox with Cas9 orthologs and other CRISPR/Cas proteins.
Study on Saccharide–Glucose Receptor Interactions with the Use of Surface Plasmon Resonance
Authors: Trzaskowski Maciej , Drozd Marcin , Ciach Tomasz
Published: November 2023

The aim of this study was to investigate the process of attachment of saccharide particles differing in degree of complexity to cell receptors responsible for transport of glucose across the cell membrane (GLUT proteins). This phenomenon is currently considered when designing modern medicines, e.g., peptide drugs to which glucose residues are attached, enabling drugs to cross the barrier of cell membranes and act inside cells. This study aims to help us understand the process of assimilation of polysaccharide nanoparticles by tumour cells. In this study, the interactions between simple saccharides (glucose and sucrose) and dextran nanoparticles with two species of GLUT proteins (GLUT1 and GLUT4) were measured using the surface plasmon resonance technique. We managed to observe the interactions of glucose and sucrose with both applied proteins. The lowest concentration that resulted in the detection of interaction was 4 mM of glucose on GLUT1. Nanoparticles were measured using the same proteins with a detection limit of 40 mM. These results indicate that polysaccharide nanoparticles interact with GLUT proteins. The measured strengths of interactions differ between proteins; thus, this study can suggest which protein is preferable when considering it as a mean of nanoparticle carrier transport.
Sphingosine-1-Phosphate Receptor 3 Induces Endothelial Barrier Loss via ADAM10-Mediated Vascular Endothelial-Cadherin Cleavage
Authors: Wu Jialin , Liang Ying , Fu Panfeng , Feng Anlin , Lu Qing , Unwalla Hoshang J. , Marciano David P. , Black Stephen M. , Wang Ting
Published: November 2023

Mechanical ventilation (MV) is a life-supporting strategy employed in the Intensive Care Unit (ICU). However, MV-associated mechanical stress exacerbates existing lung inflammation in ICU patients, resulting in limited improvement in mortality and a condition known as Ventilator-Induced Lung Injury (VILI). Sphingosine-1-phosphate (S1P) is a circulating bioactive lipid that maintains endothelial integrity primarily through S1P receptor 1 (S1PR1). During VILI, mechanical stress upregulates endothelial S1PR3 levels. Unlike S1PR1, S1PR3 mediates endothelial barrier disruption through Rho-dependent pathways. However, the specific impact of elevated S1PR3 on lung endothelial function, apart from Rho activation, remains poorly understood. In this study, we investigated the effects of S1PR3 in endothelial pathobiology during VILI using an S1PR3 overexpression adenovirus. S1PR3 overexpression caused cytoskeleton rearrangement, formation of paracellular gaps, and a modified endothelial response towards S1P. It resulted in a shift from S1PR1-dependent barrier enhancement to S1PR3-dependent barrier disruption. Moreover, S1PR3 overexpression induced an ADAM10-dependent cleavage of Vascular Endothelial (VE)-cadherin, which hindered endothelial barrier recovery. S1PR3-induced cleavage of VE-cadherin was at least partially regulated by S1PR3-mediated NFκB activation. Additionally, we employed an S1PR3 inhibitor TY-52156 in a murine model of VILI. TY-52156 effectively attenuated VILI-induced increases in bronchoalveolar lavage cell counts and protein concentration, suppressed the release of pro-inflammatory cytokines, and inhibited lung inflammation as assessed via a histological evaluation. These findings confirm that mechanical stress associated with VILI increases S1PR3 levels, thereby altering the pulmonary endothelial response towards S1P and impairing barrier recovery. Inhibiting S1PR3 is validated as an effective therapeutic strategy for VILI.
Sex-Specific and Traumatic Brain Injury Effects on Dopamine Receptor Expression in the Hippocampus
Authors: Iannucci Jaclyn , O’Neill Katherine , Wang Xuehua , Mukherjee Sanjib , Wang Jun , Shapiro Lee A.
Published: November 2023

Traumatic brain injury (TBI) is a major health concern. Each year, over 50 million individuals worldwide suffer from TBI, and this leads to a number of acute and chronic health issues. These include affective and cognitive impairment, as well as an increased risk of alcohol and drug use. The dopaminergic system, a key component of reward circuitry, has been linked to alcohol and other substance use disorders, and previous research indicates that TBI can induce plasticity within this system. Understanding how TBI modifies the dopaminergic system may offer insights into the heightened substance use and reward-seeking behavior following TBI. The hippocampus, a critical component of the reward circuit, is responsible for encoding and integrating the spatial and salient aspects of rewarding stimuli. This study explored TBI-related changes in neuronal D2 receptor expression within the hippocampus, examining the hypothesis that sex differences exist in both baseline hippocampal D2 receptor expression and its response to TBI. Utilizing D2-expressing tdTomato transgenic male and female mice, we implemented either a sham injury or the lateral fluid percussion injury (FPI) model of TBI and subsequently performed a region-specific quantification of D2 expression in the hippocampus. The results show that male mice exhibit higher baseline hippocampal D2 expression compared to female mice. Additionally, there was a significant interaction effect between sex and injury on the expression of D2 in the hippocampus, particularly in regions of the dentate gyrus. Furthermore, TBI led to significant reductions in hippocampal D2 expression in male mice, while female mice remained mostly unaffected. These results suggest that hippocampal D2 expression varies between male and female mice, with the female dopaminergic system demonstrating less susceptibility to TBI-induced plasticity.
Group A Streptococcus Infection in Neonatal Population: A Systematic Review of The Literature
Authors: Sokou Rozeta , Filippatos Filippos , Daniil Vasiliki , Bikouli Efstathia-Danai , Tsantes Andreas G. , Piovani Daniele , Bonovas Stefanos , Iliodromiti Zoi , Boutsikou Theodora , Tsantes Argirios E. , Iacovidou Nicoletta , Konstantinidi Aikaterini
Published: November 2023

(1) Background: The importance of group A streptococcus (GAS) infection severity has been recognized in children and adults. However, to our knowledge, there have been no systematic reviews or pooled assessments of the incidence and outcome of invasive GAS (iGAS) disease in neonates, a potentially high-risk population. Therefore, we performed a systematic review of available data regarding the risk factors, clinical presentation, and outcome of GAS infection in neonates. (2) Methods: An electronic search of the existing literature was carried out during the period July 2023–September 2023 in the PubMed and Scopus databases, considering studies referring to GAS infection in the neonatal population. (3) Results: Overall, 39 studies met all the inclusion criteria and were included in this review, evaluating data from 194 neonates. Unfortunately, there were a lot of missing data among the retrieved studies. Our systematic review highlighted the presence of differences with regards to clinical presentation, infection sites, and outcome of GAS invasive disease between neonates with early-onset (EOS) or late-onset sepsis (LOS). Common characteristics of EOS included respiratory distress, rapid deterioration, and high mortality rate irrespective of the infection site, while rash, gastrointestinal tract symptoms, and fever appeared to be the most frequent symptoms/clinical signs and manifestations of LOS disease. The management of severe invasive iGAS disease consists mainly of specific antimicrobial treatment as well as supportive care with fluids and electrolyte supplementation, minimizing or counteracting the effects of toxins. Furthermore, a mortality rate of approximately 14% was recorded for iGAS disease in the total of all studies’ neonates. (4) Conclusions: Although iGAS is a rare entity of neonatal infections, the potential severity of the disease and the rapid deterioration requires the development of quick analysis methods for the detection of GAS allowing the prompt diagnosis and administration of the indicated antibiotic treatment. Furthermore, given the exceptional risk for both the pregnant woman and the neonate, it is very important to raise awareness and create easily accessible guidelines that could facilitate the prevention and management of maternal as well as the subsequent neonatal severe iGAS disease.
Pleural Uptake Patterns in F18Fluorodeoxyglucose-Positron Emission Tomography (FDG-PET) Scans Improve the Identification of Malignant Pleural Effusions
Authors: Cohen Samuel E. , Betancourt Jaime , Soo Hoo Guy W.
Published: November 2023

Background: The confirmation of malignant pleural effusions (MPE) requires an invasive procedure. Diagnosis can be difficult and may require repeated thoracentesis or biopsies. F18Fluorodeoxyglucose-Positron Emission Tomography (FDG-PET) can characterize the extent of malignant involvement in areas of increased uptake. Patterns of uptake in the pleura may be sufficient to obviate the need for further invasive procedures. Methods: This is a retrospective review of patients with confirmed malignancy and suspected MPE. Patients who underwent diagnostic thoracentesis with cytology and contemporaneous FDG-PET were identified for analysis. Some underwent confirmatory pleural biopsy. The uptake pattern on FDG-PET underwent blinded review and was categorized based on the pattern of uptake. Results: One hundred consecutive patients with confirmed malignancy, suspected MPE and corresponding FDG-PET scans were reviewed. MPE was confirmed in 70 patients with positive pleural fluid cytology or tissue pathology. Of the remaining patients, 15 had negative cytopathology, 14 had atypical cells and 1 had reactive cells. Positive uptake on FDG-PET was noted in 76 patients. The concordance of malignant histology and positive FDG-PET occurred in 58 of 76 patients (76%). Combining histologically confirmed MPE with atypical cytology, positive pleural FDG-PET uptake had a positive predictive value of 91% for MPE. An encasement pattern had a 100% PPV for malignancy. Conclusion: Positive FDG-PET pleural uptake represents an excellent method to identify MPE, especially in patients with an encasement pattern. This may eliminate the need for additional invasive procedures in some patients, even when initial pleural cytology is negative.
Chronic Obstructive Pulmonary Disease Overdiagnosis and Overtreatment: A Meta-Analysis
Authors: Fiore Matteo , Ricci Matteo , Rosso Annalisa , Flacco Maria Elena , Manzoli Lamberto
Published: November 2023

This meta-analysis of observational studies aimed at estimating the overall prevalence of overdiagnosis and overtreatment in subjects with a clinical diagnosis of Chronic Obstructive Pulmonary Disease (COPD). MedLine, Scopus, Embase and Cochrane databases were searched, and random-effect meta-analyses of proportions were stratified by spirometry criteria (Global Initiative for COPD (GOLD) or Lower Limit of Normal (LLN)), and setting (hospital or primary care). Forty-two studies were included. Combining the data from 39 datasets, including a total of 23,765 subjects, the pooled prevalence of COPD overdiagnosis, according to the GOLD definition, was 42.0% (95% Confidence Interval (CI): 37.3–46.8%). The pooled prevalence according to the LLN definition was 48.2% (40.6–55.9%). The overdiagnosis rate was higher in primary care than in hospital settings. Fourteen studies, including a total of 8183 individuals, were included in the meta-analysis estimating the prevalence of COPD overtreatment. The pooled rates of overtreatment according to GOLD and LLN definitions were 57.1% (40.9–72.6%) and 36.3% (17.8–57.2%), respectively. When spirometry is not used, a large proportion of patients are erroneously diagnosed with COPD. Approximately half of them are also incorrectly treated, with potential adverse effects and a massive inefficiency of resources allocation. Strategies to increase the compliance to current guidelines on COPD diagnosis are urgently needed.
Diffusion Restriction in the Splenium: A Comparative Study of Cytotoxic Lesions of the Corpus Callosum (CLOCCs) versus Lesions of Vascular Etiology
Authors: Stamm Brian , Lineback Christina M. , Tang Mengxuan , Jia Dan Tong , Chrenka Ella , Sorond Farzaneh A. , Sabayan Behnam
Published: November 2023

Cytotoxic lesions of the corpus callosum (CLOCCs) have broad differential diagnoses. Differentiating these lesions from lesions of vascular etiology is of high clinical significance. We compared the clinical and radiological characteristics and outcomes between vascular splenial lesions and CLOCCs in a retrospective cohort study. We examined the clinical and radiologic characteristics and outcomes in 155 patients with diffusion restriction in the splenium of the corpus callosum. Patients with lesions attributed to a vascular etiology (N = 124) were older (64.1 vs. 34.6 years old, p < 0.001) and had >1 vascular risk factor (91.1% vs. 45.2%, p < 0.001), higher LDL and A1c levels, and echocardiographic abnormalities (all p ≤ 0.05). CLOCCs (N = 31) more commonly had midline splenial involvement (p < 0.001) with only splenial diffusion restriction (p < 0.001), whereas vascular etiology lesions were more likely to have multifocal areas of diffusion restriction (p = 0.002). The rate of in-hospital mortality was significantly higher in patients with vascular etiology lesions (p = 0.04). Across vascular etiology lesions, cardio-embolism was the most frequent stroke mechanism (29.8%). Our study shows that corpus callosum diffusion restricted lesions of vascular etiology and CLOCCs are associated with different baseline, clinical, and radiological characteristics and outcomes. Accurately differentiating these lesions is important for appropriate treatment and secondary prevention.
Personalized Neuromodulation: A Novel Strategy for Improving Tinnitus Treatment
Authors: Jeon Seung Yeon , Choi Jung Ho , Kang Sun Seong , An Yong-Hwi , Shim Hyun Joon
Published: November 2023

This study evaluated the efficacy of personalized neuromodulation, where treatment modalities are chosen based on the patient’s responses in a pilot trial. A total of 71 patients with tinnitus were divided into two groups: a personalized group and a randomized neuromodulation group. In the personalized group (n = 35), repetitive transcranial magnetic stimulation (rTMS) and transcranial direct-current stimulation (tDCS) were assessed in a pilot trial, and responsive modalities were administered to 16 patients, while the non-responders (n = 19) were randomly assigned to rTMS, tDCS, or combined modalities. Patients in the randomized group (n = 36) were randomly allocated to rTMS, tDCS, or combined modalities. The Tinnitus Handicap Inventory (THI) score improvement after 10 sessions of each neuromodulation was significantly greater in the personalized group than in the randomized group (p = 0.043), with no significant differences in tinnitus loudness, distress, or awareness. The treatment success rate was highest in the personalized responder subgroup (92.3%), and significantly greater than that in the non-responder subgroup (53.0%; p = 0.042) and the randomized group (56.7%; p = 0.033). Personalized neuromodulation, where the treatment modality is chosen based on the patient’s responses in a pilot trial, is an advantageous strategy for treating tinnitus.
Recent Progress of In Vitro 3D Culture of Male Germ Stem Cells
Authors: Wu Jiang , Kang Kai , Liu Siqi , Ma Yaodan , Yu Meng , Zhao Xin
Published: November 2023

Male germline stem cells (mGSCs), also known as spermatogonial stem cells (SSCs), are the fundamental seed cells of male animal reproductive physiology. However, environmental influences, drugs, and harmful substances often pose challenges to SSCs, such as population reduction and quality decline. With advancements in bioengineering technology and biomaterial technology, an increasing number of novel cell culture methods and techniques have been employed for studying the proliferation and differentiation of SSCs in vitro. This paper provides a review on recent progress in 3D culture techniques for SSCs in vitro; we summarize the microenvironment of SSCs and spermatocyte development, with a focus on scaffold-based culture methods and 3D printing cell culture techniques for SSCs. Additionally, decellularized testicular matrix (DTM) and other biological substrates are utilized through various combinations and approaches to construct an in vitro culture microenvironment suitable for SSC growth. Finally, we present some perspectives on current research trends and potential opportunities within three areas: the 3D printing niche environment, alternative options to DTM utilization, and advancement of the in vitro SSC culture technology system.
Modeling and Implementation of Probability-Based Underwater Docking Assessment Index
Authors: Chon Seung-Jae , Kim Joon-Young , Choi Hyeung-Sik , Kim Jong-Hwa
Published: November 2023

The goal of underwater docking is to safely insert an autonomous underwater vehicle (AUV) into the docking sleeve of a docking station (DS). However, AUVs frequently experience disturbances in their operating environment under motional constraints owing to their shapes, which can significantly impede successful docking missions. Therefore, it is essential to develop an assessment method and corresponding index representing feasibility. In this study, we suggest a new assessment method and a probability-based assessment index to assess the underwater docking process, considering aforementioned motional constraints. The assessment is made for both the position and heading angle of the AUV, with the results presented in probabilistic figures. These figures are used to estimate the assessment index, which represents the probability of successful docking. The final decision on whether to dock or not can be made based on this index. When the index exceeds a predefined threshold, it indicates that the current docking process is reliable, and the docking will be successful. The suggested assessment method and the index were validated through tests conducted in various underwater environments. The results show that the probability-based index estimated through the proposed method can be grounds for successful docking.
Experimental Study on Energy Dissipation Performance of SPA Shear Plate Metal Damper Based on Jacket Platform
Authors: Li Jiakang , Zhang Zhe , Wang Lu , Ma Zhe , Wang Wenyuan
Published: November 2023

Aiming at the problem of excessive vertical vibration caused by seismic primary waves in jacket structures located in seismic zones in China, a new type of shear plate metal damper with upper and lower elliptical openings (SPA) is proposed in this paper. The seismic model test is carried out to compare the shear plate metal damper with three traditional opening forms, central elliptical opening, single row opening, and double row opening, and the hysteretic curve, skeleton curve, and cyclic hysteretic energy dissipation capacity are analyzed. The results show that the energy dissipation performance of the new shear plate metal damper with upper and lower elliptical openings proposed in this paper is better than that of the other three types of dampers.
Comparative Study of the Co-Occurring Alternaria and Colletotrichum Species in the Production of Citrus Leaf Spot
Authors: Lei Mengying , Zhu Congyi , Li Luoye , Liu Jiangshan , Liu Jiashang , Huang Feng
Published: November 2023

Both of the two citrus diseases, Alternaria brown spot (ABS) and Anthracnose, caused by Alternaria and Colletotrichum spp., respectively, can produce leaf lesions which are hard to differentiate. These two diseases have been confused as causal agents of brown spot for over a decade in China. In this study, citrus leaves with or without brown spot were collected from Zhaoqing, Guangdong and Wanzhou, Chongqing, and were further used for the taxonomic and functional comparisons between the co-occurring Alternaria and Colletotrichum species. In the amplicon sequencing, the average relative abundance and the composition of Alternaria, but not Colletotrichum, increased (from 0.1 to 9.9, p = 0.059; and to 0.7, p < 0.05) and significantly altered (p < 0.01) with the brown spot in Zhaoqing and Wanzhou, respectively. Two representative isolates Alternaria sp. F12A and Colletotrichum sp. F12C, from the same brown spot, were proved with different virulence and host response activation to citrus leaves. F12A caused typical symptoms of brown spot with the average spot length expanded to 5 and 6.1 cm, and also altered the citrus global gene expression 48 and 72 h after inoculation. In addition, F12A enriched the expression of genes that were most frequently involved in plant defense. In comparison, F12C caused leaf spot limited to the wounded site, and its milder activation of host response recovered 72 h after inoculation. Our study indicates that the incidence of brown spot in China is caused by Alternaria species, and the ABS should be a fungal disease of major concern on citrus.
Using a Deep Learning Model to Address Interobserver Variability in the Evaluation of Ulcerative Colitis (UC) Severity
Authors: Kim Jeong-Heon , Choe A Reum , Park Yehyun , Song Eun-Mi , Byun Ju-Ran , Cho Min-Sun , Yoo Youngeun , Lee Rena , Kim Jin-Sung , Ahn So-Hyun , Jung Sung-Ae
Published: November 2023

The use of endoscopic images for the accurate assessment of ulcerative colitis (UC) severity is crucial to determining appropriate treatment. However, experts may interpret these images differently, leading to inconsistent diagnoses. This study aims to address the issue by introducing a standardization method based on deep learning. We collected 254 rectal endoscopic images from 115 patients with UC, and five experts in endoscopic image interpretation assigned classification labels based on the Ulcerative Colitis Endoscopic Index of Severity (UCEIS) scoring system. Interobserver variance analysis of the five experts yielded an intraclass correlation coefficient of 0.8431 for UCEIS scores and a kappa coefficient of 0.4916 when the UCEIS scores were transformed into UC severity measures. To establish a consensus, we created a model that considered only the images and labels on which more than half of the experts agreed. This consensus model achieved an accuracy of 0.94 when tested with 50 images. Compared with models trained from individual expert labels, the consensus model demonstrated the most reliable prediction results.
Increasing the Hydration Activity of Tricalcium Silicate by Adding Microdispersed Ettringite as a Nucleating Agent
Authors: Krivoborodov Yurii R. , Samchenko Svetlana V. , Korshunov Andrey V. , Kozlova Irina V. , Alpacky Dmitrii G.
Published: November 2023

Tricalcium silicate (C3S) as a binder material has a decisive influence on the processes of hardening and strength gain of cements and concretes. One of the promising directions is the introduction of dispersed additives into cement mixtures, which allow micro-level control of the composition of hydration products and change the dynamics of the structure formation of cement stone. In this paper, the effect of a microdisperse ettringite additive on the kinetics of the hydration and hardening process of tricalcium silicate was studied. It was shown that ettringite crystals selectively adsorb Ca2+ and OH− ions from a saturated solution of calcium hydroxide, which contributes to the formation of hydrosilicate nuclei on their surface during cement hydration. Hydration of C3S in the presence of ettringite proceeds more intensively; the addition of ettringite contributes to an increase in the content of calcium hydrosilicates in hydration products at the initial stage of the process. Addition of 10 wt.% ettringite to C3S reduces the induction period of the beginning of the main phase of heat release by around two times and increases the amount of heat released on the 1st day of hydration by 15% compared to the control sample. According to electron microscopy data, it was found that during the first hours of hydration of modified C3S, a significant number of nuclei of fibrous particles of calcium hydrosilicates with sizes of 0.2–2 microns were formed on the surface of ettringite crystals. According to the results of kinetic modeling of the setting process of cement pastes using the Avrami–Erofeyev model, it was shown that in the presence of the addition of microcrystals of ettringite, the setting rate is characterized by a slowdown in nucleation, whereas for a sample without an additive, this process proceeds with an acceleration of the formation of solid-phase nuclei. Based on the comparison of kinetic results and mechanical measurements, it is concluded that needle crystals of ettringite during C3S hydration and cement stone hardening are preformed centers for the growth of hydrosilicate nuclei, and they also act as a reinforcing filler, increasing the bending strength of modified samples. The results of the work can be used in practice in the development of methods for controlling the processes of hydration and hardening of cements, as well as for controllable structure formation of cement stone which is important in particular for 3D printing of building products and constructions.
Study on the Influence of Magnesite Tailings on the Expansion and Mechanical Properties of Mortar
Authors: Jiang Feifei , Zhou Juan , Mao Zhongyang , Chen Bi
Published: November 2023

To reduce the mining of high-grade magnesite and solve the environmental pollution caused by magnesite tailings, magnesite tailings were used to produce MgO expansion agent (MEA), and a detailed study of its performance was carried out in this study. Firstly, the effects of different calcination times on the calcination products, the specific surface area, and the activity of MEA were analyzed. Then, the MEA produced by calcinating at 950 °C for 1 h was taken as the research object, and the effects of its content on the expansion performance, compressive strength, and flexural strength of the mortar were studied. The results showed that the decomposition of magnesite tailings after high-temperature calcination produced MEA, and the longer the calcination time, the lower the activity. The calcined tailings could compensate for the shrinkage of the mortar, and the expansion increased with the increase in curing temperature. What is more, when the content was less than 8%, the hydration of MEA filled the pores and improved the compactness, so the strength of the mortar increased with the increase in the expansion agent content. When the dosage was greater than 8%, excessive expansion increased the porosity, causing harmful expansion of the mortar and damaging its integrity, leading to a decrease in strength. Fly ash reduced the expansion of mortar, and after adding 30% fly ash, the expansion decreased by 20.0–36.1%, and the ability to suppress expansion decreased with the increase in curing temperature.
Reconstruction-Based Adversarial Attack Detection in Vision-Based Autonomous Driving Systems
Authors: Hussain Manzoor , Hong Jang-Eui
Published: November 2023

The perception system is a safety-critical component that directly impacts the overall safety of autonomous driving systems (ADSs). It is imperative to ensure the robustness of the deep-learning model used in the perception system. However, studies have shown that these models are highly vulnerable to the adversarial perturbation of input data. The existing works mainly focused on studying the impact of these adversarial attacks on classification rather than regression models. Therefore, this paper first introduces two generalized methods for perturbation-based attacks: (1) We used naturally occurring noises to create perturbations in the input data. (2) We introduce a modified square, HopSkipJump, and decision-based/boundary attack to attack the regression models used in ADSs. Then, we propose a deep-autoencoder-based adversarial attack detector. In addition to offline evaluation metrics (e.g., F1 score and precision, etc.), we introduce an online evaluation framework to evaluate the robustness of the model under attack. The framework considers the reconstruction loss of the deep autoencoder that validates the robustness of the models under attack in an end-to-end fashion at runtime. Our experimental results showed that the proposed adversarial attack detector could detect square, HopSkipJump, and decision-based/boundary attacks with a true positive rate (TPR) of 93%.
Chaos Meets Cryptography: Developing an S-Box Design with the Rössler Attractor
Authors: Corona-Bermúdez Erendira , Chimal-Eguía Juan Carlos , Corona-Bermúdez Uriel , Rivero-Ángeles Mario Eduardo
Published: November 2023

The volume of data transmitted over networks has significantly increased in recent years. For that reason, safeguarding the privacy, authenticity, and confidentiality of specific data is imperative, necessitating a type of encryption; symmetric encryption, known for its computational efficiency, is ideal for securing extensive datasets. A principal component within symmetric key algorithms is the substitution box (S-box), which creates confusion between plaintext and ciphertext, enhancing the security of the process. This paper proposes a fashion method to create chaotic S-boxes using the Rössler attractor as a chaotic process and the Rijndael S-box as a permutation box. The proposed S-boxes are evaluated with bijectivity, non-linearity (NL), strict avalanche criterion (SAC), bit independence criterion (BIC), linear approximation probability (LAP), and differential uniformity (DU). The analyses show that the proposed method helps generate a high-resistance S-box to well-known attacks and high efficiency, executing in short computational time.
Variable Selection for Length-Biased and Interval-Censored Failure Time Data
Authors: Feng Fan , Cheng Guanghui , Sun Jianguo
Published: November 2023

Length-biased failure time data occur often in various biomedical fields, including clinical trials, epidemiological cohort studies and genome-wide association studies, and their analyses have been attracting a surge of interest. In practical applications, because one may collect a large number of candidate covariates for the failure event of interest, variable selection becomes a useful tool to identify the important risk factors and enhance the estimation accuracy. In this paper, we consider Cox’s proportional hazards model and develop a penalized variable selection technique with various popular penalty functions for length-biased data, in which the failure event of interest suffers from interval censoring. Specifically, a computationally stable and reliable penalized expectation-maximization algorithm via two-stage data augmentation is developed to overcome the challenge in maximizing the intractable penalized likelihood. We establish the oracle property of the proposed method and present some simulation results, suggesting that the proposed method outperforms the traditional variable selection method based on the conditional likelihood. The proposed method is then applied to a set of real data arising from the Prostate, Lung, Colorectal and Ovarian cancer screening trial. The analysis results show that African Americans and having immediate family members with prostate cancer significantly increase the risk of developing prostate cancer, while having diabetes exhibited a significantly lower risk of developing prostate cancer.
Effect of the Si Content on the Dry and Wet Sliding Wear Behavior of the Developed Ti-15Mo-(0-2) Si Alloys for Biomedical Applications
Authors: El-Sayed Seleman Mohamed M. , Ataya Sabbah , Aly Hayam A. , Haldar Barun , Alsaleh Naser A. , Ahmed Mohamed M. Z. , Bakkar Ashraf , Ibrahim Khaled M.
Published: November 2023

The durability of a metallic biomaterial to withstand weight loss is a key factor in determining its service life and performance. Therefore, it is essential to create biomaterials with high wear resistance to ensure the biomaterial has a long service life. Thus, this study aims to explore the dry and wet sliding wear characteristics of the developed Ti-15Mo-xSi as-cast alloys (where x equals 0, 0.5, 1, 1.5, and 2 wt.%) in order to assess the impact of the Si addition on the microstructure, mechanical properties, and wear resistance and to consider them for biomedical applications. The wear experiments were conducted using a pin-on-desk wear testing machine at a load of 20 N and a sliding distance of 1000 m with and without applying simulated body fluid (SBF). Different techniques were utilized in the evaluation of the developed Ti-15Mo-xSi alloys. The results showed that significant grain refining was attained with the Si addition. The hardness, compressive strength, and wear resistance of the Ti-15Mo-xSi as-cast alloys increased with the increase in Si content. The Ti-15Mo-2Si as-cast alloy exhibited the highest dry and wet wear resistance of all the Ti-15Mo-xSi alloys. The worn surfaces were investigated, the roughness and main features were reported, and the wear mechanisms were also discussed.
Ceramides during Pregnancy and Obstetrical Adverse Outcomes
Authors: Lantzanaki Maria , Vavilis Theofanis , Harizopoulou Vikentia C. , Bili Helen , Goulis Dimitrios G. , Vavilis Dimitrios
Published: November 2023

Ceramides are a group of sphingolipids located in the external plasma membrane layer and act as messengers in cellular pathways such as inflammatory processes and apoptosis. Plasma ceramides are biomarkers of cardiovascular disease, type 2 diabetes mellitus, Alzheimer’s disease, various autoimmune conditions and cancer. During pregnancy, ceramides play an important role as stress mediators, especially during implantation, delivery and lactation. Based on the current literature, plasma ceramides could be potential biomarkers of obstetrical adverse outcomes, although their role in metabolic pathways under such conditions remains unclear. This review aims to present current studies that examine the role of ceramides during pregnancy and obstetrical adverse outcomes, such as pre-eclampsia, gestational diabetes mellitus and other complications.
Genomic Island-Encoded Diguanylate Cyclase from Vibrio alginolyticus Regulates Biofilm Formation and Motility in Pseudoalteromonas
Authors: Cai Tongxuan , Tang Huan , Du Xiaofei , Wang Weiquan , Tang Kaihao , Wang Xiaoxue , Liu Dong , Wang Pengxia
Published: November 2023

Many bacteria use the second messenger c-di-GMP to regulate exopolysaccharide production, biofilm formation, motility, virulence, and other phenotypes. The c-di-GMP level is controlled by the complex network of diguanylate cyclases (DGCs) and phosphodiesterases (PDEs) that synthesize and degrade c-di-GMP. In addition to chromosomally encoded DGCs, increasing numbers of DGCs were found to be located on mobile genetic elements. Whether these mobile genetic element-encoded DGCs can modulate the physiological phenotypes in recipient bacteria after horizontal gene transfer should be investigated. In our previous study, a genomic island encoding three DGC proteins (Dgc137, Dgc139, and Dgc140) was characterized in Vibrio alginolyticus isolated from the gastric cavity of the coral Galaxea fascicularis. Here, the effect of the three DGCs in four Pseudoalteromonas strains isolated from coral Galaxea fascicularis and other marine environments was explored. The results showed that when dgc137 is present rather than the three DGC genes, it obviously modulates biofilm formation and bacterial motility in these Pseudoalteromonas strains. Our findings implied that mobile genetic element-encoded DGC could regulate the physiological status of neighboring bacteria in a microbial community by modulating the c-di-GMP level after horizontal gene transfer.
Bacillus subtilis RBT-7/32 and Bacillus licheniformis RBT-11/17 as New Promising Strains for Use in Probiotic Feed Additives
Authors: Yaderets Vera , Karpova Nataliya , Glagoleva Elena , Shibaeva Alexandra , Dzhavakhiya Vakhtang
Published: November 2023

The normal functioning of a gastrointestinal microflora in poultry and livestock is of significant importance, since its imbalance negatively influences an organism’s functions. In this study, the UV mutagenesis and selection were used to obtain two Bacillus strains possessing antagonistic activity towards Escherichia coli and Staphylococcus aureus, and their potential as a probiotic feed additive was evaluated. Compared to the parental strains, the ability of B. subtilis RBT-7/32 and B. licheniformis RBT-11/17 strains to suppress E. coli increased by 77 and 63%, respectively; the corresponding ability of these strains to suppress S. aureus increased by 80 and 79%, respectively. RBT-11/17 could not utilize microcrystalline cellulose and carboxymethyl cellulose, whereas cellulolytic activity of RBT-7/32 was doubled compared to the initial strain. The amylolytic activity of new strains was increased by 40%. Cultivation of strains on media containing soybean, pea, and corn meal did not provide any difference in the biomass production compared to the control. The heating of a water suspension of a dried biomass of the strains for 10–20 min at 80 and 100 °C or incubation in water solutions of citric, ascorbic, acetic, and formic acids (pH 3.0) for 3 and 24 h at 40 °C did not provide any negative influence on the spore survivability. Both strains were evaluated for their resistance to a number of veterinary antibiotics. Thus, RBT-7/32 and RBT-11/17 strains have good prospects for use in feed additives.
The Role of Gut Microbiota-Derived Lithocholic Acid, Deoxycholic Acid and Their Derivatives on the Function and Differentiation of Immune Cells
Authors: Kiriyama Yoshimitsu , Nochi Hiromi
Published: November 2023

A wide variety and large number of bacterial species live in the gut, forming the gut microbiota. Gut microbiota not only coexist harmoniously with their hosts, but they also induce significant effects on each other. The composition of the gut microbiota can be changed due to environmental factors such as diet and antibiotic intake. In contrast, alterations in the composition of the gut microbiota have been reported in a variety of diseases, including intestinal, allergic, and autoimmune diseases and cancer. The gut microbiota metabolize exogenous dietary components ingested from outside the body to produce short-chain fatty acids (SCFAs) and amino acid metabolites. Unlike SCFAs and amino acid metabolites, the source of bile acids (BAs) produced by the gut microbiota is endogenous BAs from the liver. The gut microbiota metabolize BAs to generate secondary bile acids, such as lithocholic acid (LCA), deoxycholic acid (DCA), and their derivatives, which have recently been shown to play important roles in immune cells. This review focuses on current knowledge of the role of LCA, DCA, and their derivatives on immune cells.
Reflections on Seven Years as Editor-in-Chief for Minerals
Authors: Sylvester Paul
Published: November 2023

I was appointed Editor-in-Chief of Minerals (ISSN 2075-163X) on June 1, 2016, by Dr [...]