bluuebunny/crossref_metadata_2025 huggingface dataset:
Assessing the Impact of Spatiotemporal Land Cover Changes on the Urban Heat Islands in Developing Cities with Landsat Data: A Case Study in Zhanjiang
Authors: Hu Yutian , Li Hongye , Amir Siddique Muhammad , Liu Dongyun
Published: November 2023

Land cover changes (LCCs) due to urbanization cause urban heat islands (UHIs), significantly affecting land surface temperature (LST) through spatiotemporal changes in compositions, parameters, and patterns. Land cover and LST have been studied in various cities; however, indicative research into heterogeneous LCC’s impact on LST in less-developed cities remains incomplete. This study analyzed new Landsat images of Zhanjiang, taken from 2004 to 2022, to determine the impact of three LCC indicators (compositions, parameters, and patterns) on LSTs. The urban thermal field variance index (UTFVI) was used to describe the distribution and variation in LST. We also quantified the cooling or warming benefits of various LCCs. The results indicate that the average temperature in the land urban heat island (SUHI) area rose to 30.6 °C. The average temperature of the SUHI was 3.32 °C higher than that of the non-SUHI area, showing the characteristic of shifting to counties and multi-core development. The LST increases by 0.37–0.67 °C with an increase of 0.1 in the normalized difference building index (NDBI), which is greater than the cooling benefit of the normalized difference of vegetation index (NDVI). The impact of landscape pattern indices on impervious surfaces and water is higher than that on vegetation and cropland, with a rising influence on impervious surfaces and a decreasing impact on water. The predominant cooling patches are vegetation and water, while large areas of impervious surface and cropland aggravate UHIs for industrial and agricultural activities. These findings are intended to guide future urban layouts and planning in less-developed cities, with thermal climate mitigation as a guiding principle.
Infinite Horizon Irregular Quadratic BSDE and Applications to Quadratic PDE and Epidemic Models with Singular Coefficients
Authors: Eddahbi Mhamed , Kebiri Omar , Sene Abou
Published: November 2023

In an infinite time horizon, we focused on examining the well-posedness of problems for a particular category of Backward Stochastic Differential Equations having quadratic growth (QBSDEs) with terminal conditions that are merely square integrable and generators that are measurable. Our approach employs a Zvonkin-type transformation in conjunction with the Itô–Krylov’s formula. We applied our findings to derive probabilistic representation of a particular set of Partial Differential Equations par have quadratic growth in the gradient (QPDEs) characterized by coefficients that are measurable and almost surely continuous. Additionally, we explored a stochastic control optimization problem related to an epidemic model, interpreting it as an infinite time horizon QBSDE with a measurable and integrable drifts.
Neural Plasticity in Tinnitus Mechanisms
Authors: Wallace Mark N. , Palmer Alan R.
Published: November 2023

Basic work into neuroplasticity mechanisms in both invertebrate and vertebrate brains, followed by the development of the first animal model of tinnitus, and coupled with clinical studies of tinnitus, meant that, by 1990, Jastreboff [...]
A New Insight into the Design Compressive Strength of Ultra-High Performance Concrete
Authors: Pourbaba Masoud , Chakraborty Rajesh , Pourbaba Majid , Belarbi Abdeldjelil , Yeon Jung
Published: November 2023

Compressive strength is one of the most critical mechanical properties of various types of concrete and is the main input variable for structural concrete design. Recently, with the advances in concrete technology, applications of fiber-reinforced concrete (FRC), including ultra-high performance concrete (UHPC), have grown rapidly. These new types of concrete are well known to exhibit superior mechanical characteristics such as compressive strength, fracture toughness, and durability compared to conventional concrete and thus are popularly used in urgent repair jobs where compressive strength is an important parameter to determine the required curing time until open to the public. Considering the importance of compressive strength in practice, this study aims to evaluate the effect of age and maturity on the compressive strength characteristics of three different types of concrete, namely UHPC with micro and macro steel fibers, FRC, and plain concrete, and to propose a new design strength criterion for UHPC. To this end, 180 concrete cube specimens were tested at 12 different ages between 3 and 126 days. The results indicated that irrespective of the type and presence of fibers, UHPC gained more than 90% of their ultimate compressive strength after only 21 days, while FRC and plain concrete specimens required a longer time (i.e., 28 days) to achieve 90% of their ultimate strength. Therefore, UHPC may adopt a 21-day compressive strength as a design input instead of a 28-day compressive strength commonly required for structural concrete specified by many codes of practice. Moreover, the obtained experimental results were compared with existing compressive strength predictive models in the codes of practice.
Molecular Alterations in Intraductal Carcinoma of the Prostate
Authors: Bernhardt Marit , Kristiansen Glen
Published: November 2023

Intraductal carcinoma of the prostate is most commonly associated with high-grade invasive prostate cancer. However, isolated IDC-P without adjacent cancer or high-grade cancer is also well known. Common genetic alterations present in IDC-P with adjacent high-grade prostate cancer are those described in high-grade tumors, such as PTEN loss (69–84%). In addition, the rate of LOH involving TP53 and RB1 is significantly higher. IDC-P is common in the TCGA molecular subset of SPOP mutant cancers, and the presence of SPOP mutations are more likely in IDC-P bearing tumors. IDC-P without adjacent high-grade cancers are by far less common. They are less likely to have PTEN loss (47%) and rarely harbor an ERG fusion (7%). Molecular alterations that may predispose a person to the development of IDC-P include the loss of BRCA2 and PTEN as well as mutations in SPOP. However, the causative nature of these genetic alterations is yet to be validated.
Increased Risk of Alzheimer’s Disease in Patients with Head and Neck Cancer
Authors: Lee Il Hwan , Yu Hyunjae , Ha Seung-Su , Yang Hee Gyu , Kim Dong-Kyu
Published: November 2023

Patients with head and neck cancer (HNC) often experience cognitive impairment. However, the relationship between cancer and Alzheimer’s disease (AD) remains unclear. We aimed to elucidate the relationship between patients with HNC and their subsequent AD development. This retrospective study used data from a nationwide representative cohort sample, the Korean National Health Insurance Service Cohort. The cancer group was defined based on the presence of diagnostic codes for HNC (C00-C14 and C30-C32). After matching the independent variables with a propensity score of 4:1, a total of 2304 people without HNC and 576 with HNC were enrolled in this study. Hazard ratios (HRs) of AD incidence (per 1000 person-years) and 95% confidence intervals (CIs) in HNC patients were calculated. The incidence of AD was 14.92 in HNC patients and 9.77 in non-cancer patients. Additionally, the HNC group was found to have a higher risk of developing AD compared with the non-cancer group. Female and middle-aged HNC patients had a higher risk of developing AD events compared with other subgroups. Surprisingly, during the observation period, the risk of developing AD was relatively high within the first year after HNC diagnosis. In conclusion, our study suggests that HNC and AD are positively correlated.
Monitoring Metastatic Colorectal Cancer Progression According to Reactive Oxygen Metabolite Derivative Levels
Authors: Sawai Katsuji , Goi Takanori , Kimura Youhei , Koneri Kenji
Published: November 2023

Oxidative stress has been implicated in the development, proliferation, and metastasis of colorectal cancer, but few studies have considered how oxidative stress changes in relation to treatment response. In this study, we investigated whether the rate of change in reactive oxygen metabolite derivatives (d-ROM)—serum markers of oxidative stress—could predict treatment response in metastatic colorectal cancer. We enrolled 53 patients with metastatic colorectal cancer who were treated with 3 months of chemotherapy. We measured d-ROM levels and performed computed tomography before and after chemotherapy, and we examined the change in d-ROM levels for each anticancer treatment. Factors influencing the d-ROM ratio (post-treatment: pre-treatment levels) were examined using linear regression analysis. d-ROM levels decreased in patients showing a partial response (p < 0.001) and increased in those showing disease progression (p = 0.042). An increasing d-ROM ratio was associated with disease progression (regression coefficient: 0.416, 95% confidence interval: 0.279–0.555, p < 0.001). Our study indicates that d-ROM levels are useful markers of tumor progression and that the d-ROM ratio is useful for predicting treatment response in patients with metastatic colorectal cancer.
Efficacy of Total En Bloc Spondylectomy versus Stereotactic Ablative Radiotherapy for Single Spinal Metastasis
Authors: Kang Dong-Ho , Lee Wooseok , Chang Bong-Soon , Kim Hyoungmin , Chang Sam Yeol , Hong Seong Hwa , Kim Jin Ho , Son Hee Jung
Published: November 2023

To compare total en bloc spondylectomy (TES) with stereotactic ablative radiotherapy (SABR) for single spinal metastasis, we undertook a single center retrospective study. We identified patients who had undergone TES or SABR for a single spinal metastasis between 2000 and 2019. Medical records and images were reviewed for patient and tumor characteristics, and oncologic outcomes. Patients who received TES were matched to those who received SABR to compare local control and survival. A total of 89 patients were identified, of whom 20 and 69 received TES and SABR, respectively. A total of 38 matched patients were analyzed (19 TES and 19 SABR). The median follow-up period was 54.4 (TES) and 26.1 months (SABR) for matched patients. Two-year progression-free survival (PFS) and overall survival (OS) rates were 66.7% and 72.2% in the TES and 38.9% and 50.7% in the SABR group, respectively. At the final follow-up of the matched cohorts, no significant differences were noted in OS (p = 0.554), PFS (p = 0.345) or local progression (p = 0.133). The rate of major complications was higher in the TES than in the SABR group (21.1% vs. 10.5%, p = 0.660). These findings suggest that SABR leads to fewer complications compared to TES, while TES exhibits better mid-term control of metastatic tumors.
Unexpected Differences in the Speed of Non-Malignant versus Malignant Cell Migration Reveal Differential Basal Intracellular ATP Levels
Authors: Kim Bareun , Lopez Anthony T. , Thevarajan Indhujah , Osuna Maria F. , Mallavarapu Monica , Gao Boning , Osborne Jihan K.
Published: November 2023

Cellular locomotion is required for survival, fertility, proper embryonic development, regeneration, and wound healing. Cell migration is a major component of metastasis, which accounts for two-thirds of all solid tumor deaths. While many studies have demonstrated increased energy requirements, metabolic rates, and migration of cancer cells compared with normal cells, few have systematically compared normal and cancer cell migration as well as energy requirements side by side. Thus, we investigated how non-malignant and malignant cells migrate, utilizing several cell lines from the breast and lung. Initial screening was performed in an unbiased high-throughput manner for the ability to migrate/invade on collagen and/or Matrigel. We unexpectedly observed that all the non-malignant lung cells moved significantly faster than cells derived from lung tumors regardless of the growth media used. Given the paradigm-shifting nature of our discovery, we pursued the mechanisms that could be responsible. Neither mass, cell doubling, nor volume accounted for the individual speed and track length of the normal cells. Non-malignant cells had higher levels of intracellular ATP at premigratory-wound induction stages. Meanwhile, cancer cells also increased intracellular ATP at premigratory-wound induction, but not to the levels of the normal cells, indicating the possibility for further therapeutic investigation.
Treatment Outcomes of Proton Beam Therapy for Esophageal Squamous Cell Carcinoma at a Single Institute
Authors: Oh Eun Sang , Moon Sung Ho , Lee Youngjoo , Ahn Beung-Chul , Lee Jong Yeul , Suh Yang-Gun , Chung Joo-Hyun , Kim Moon Soo , Lee Jong Mog , Choi Jin-Ho , Kim Tae Hyun
Published: November 2023

Recently, proton beam therapy (PBT) has gathered attention for improving outcomes and reducing toxicities in various cancers; however, the evidence for esophageal squamous cell carcinoma (ESCC) is lacking. Our study retrospectively evaluated the outcomes of PBT for ESCC patients at a single institute. The patients treated with PBT between November 2015 and February 2022 were included in the study, excluding those with distant metastases or those that had undertaken prior treatment for esophageal cancer (EC). The 3 year overall survival (OS) and progression-free survival (PFS) rates were calculated based on stage grouping. The patterns of failure, salvage treatment outcomes, and toxicity profiles were analyzed. The median follow-up was 35.1 months, and 132 patients were analyzed. The 3 year OS and PFS rates for the stages I, II, and III disease cases were 81.0%, 62.9%, and 51.3%; and 70.6%, 71.8%, and 39.8%, respectively. Nineteen patients presented isolated local progression, ten patients underwent appropriate salvage procedures, and nine were successfully salvaged. One patient with isolated regional progression was also salvaged. No cases of grade ≥ 4 lymphopenia were observed. One patient had grade 4 pericardial effusion and esophageal fistula. For the patients with ESCC, PBT is an effective treatment in terms of the survival outcomes and toxicities.
Concordance between Three Homologous Recombination Deficiency (HRD) Assays in Patients with High-Grade Epithelial Ovarian Cancer
Authors: Fountzilas Elena , Papadopoulou Kyriaki , Chatzikonstantinou Thomas , Karakatsoulis Georgios , Constantoulakis Pantelis , Tsantikidi Aikaterini , Tsaousis Georgios , Karageorgopoulou Sofia , Koumarianou Anna , Mauri Davide , Ntavatzikos Anastasios , Saridaki Zacharenia , Petrakis Georgios , Fostira Florentia , Fountzilas George , Liontos Michalis
Published: November 2023

Our aim was to evaluate the concordance between the Myriad MyChoice and two alternative homologous recombination deficiency (HRD) assays (AmoyDx HRD Focus NGS Panel and OncoScan™) in patients with epithelial ovarian cancer (EOC). Tissue samples from 50 patients with newly diagnosed EOC and known Myriad MyChoice HRD status were included. DNA aliquots from tumor samples, previously evaluated with Myriad MyChoice and centrally reassessed, were distributed to laboratories to assess their HRD status using the two platforms, after being blinded for the Myriad MyChoice CDx HRD status. The primary endpoint was the concordance between Myriad MyChoice and each alternative assay. Tumor samples were evaluated with an AmoyDx® HRD Focus Panel (n = 50) and with OncoScan™ (n = 43). Both platforms provided results for all tumors. Analysis showed that correlation was high for the Myriad MyChoice GI score and AmoyDx® HRD Focus Panel (r = 0.79) or OncoScan™ (r = 0.87) (continuous variable). The overall percent agreement (OPA) between Myriad MyChoice GI status (categorical variable) and each alternative assay was 83.3% (68.6–93.3%) with AmoyDx and 77.5% (61.5–89.2%) with OncoScan™. The OPA in HRD status between Myriad MyChoice and AmoyDx was 88.6% (75.4–96.2). False-positive rates were 31.6% (6/19) for AmoyDx GI status and 31.9% (7/22) for OncoScan™, while false-negative rates were 0% (0/28, AmoyDx) and 11.1% (2/18, OncoScan™) compared with the Myriad MyChoice GI status. While substantial concordance between Myriad MyChoice and alternative assays was demonstrated, prospective validation of the analytical performance and clinical relevance of these assays is warranted.
CD4, CD20 and PD-L1 as Markers of Recurrence in Non-Muscle-Invasive Bladder Cancer
Authors: Semeniuk-Wojtaś Aleksandra , Modzelewska Magdalena , Poddębniak-Strama Karolina , Kołaczyńska Sylwia , Lubas Arkadiusz , Górnicka Barbara , Jakieła Anna , Stec Rafał
Published: November 2023

Introduction: A tumor microenvironment plays an important role in bladder cancer development and in treatment response. Purpose: The aim of the study was to assess how the components of the microenvironment affect tumor recurrence and to find the potential biomarkers for immunotherapy in NMIBC. Methods: The study group consisted of 55 patients with primary NMIBC. Immunohistochemistry was performed on sections of primary papillary urothelial carcinoma of the bladder. Cox proportional hazard multiple regression analysis was performed to characterize tumors with the highest probability of an unfavorable outcome. Results: Multivariate analysis confirmed that the CD4 (p = 0.001), CD20 (p = 0.008) and PD-L1 expressed on tumor cells (p = 0.01) were independently associated with the risk of recurrence of bladder cancer. Patients with weak CD4+ cell infiltration (<4.6%) and severe CD20+ infiltration (>10%) belong to the group with a lower risk of recurrence. The cancer in this group also frequently recurs after 12 months (p = 0.0005). Conclusions: The evaluation of CD4+ and CD20+ cells in the tumor microenvironment, in addition to PD-L1 on tumor cells, facilitates the determination of a group of patients with a low risk of recurrence.
Improved Drug-Response Prediction Model of APC Mutant Colon Cancer Patient-Derived Organoids for Precision Medicine
Authors: Shin Yong Jae , Jo Eun Hae , Oh Yunjeong , Kim Da Som , Hyun Seungyoon , Yu Ahran , Hong Hye Kyung , Cho Yong Beom
Published: November 2023

Colorectal cancer is the third most common cancer in the world, with an annual incidence of 2 million cases. The success of first-line chemotherapy plays a crucial role in determining the disease outcome. Therefore, there is an increasing demand for precision medicine to predict drug responses and optimize chemotherapy in order to increase patient survival and reduce the related side effects. Patient-derived organoids have become a popular in vitro screening model for drug-response prediction for precision medicine. However, there is no established correlation between oxaliplatin and drug-response prediction. Here, we suggest that organoid culture conditions can increase resistance to oxaliplatin during drug screening, and we developed a modified medium condition to address this issue. Notably, while previous studies have shown that survivin is a mechanism for drug resistance, our study observed consistent survivin expression irrespective of the culture conditions and oxaliplatin treatment. However, clusterin induced apoptosis inhibition and cell survival, demonstrating a significant correlation with drug resistance. This study’s findings are expected to contribute to increasing the accuracy of drug-response prediction in patient-derived APC mutant colorectal cancer organoids, thereby providing reliable precision medicine and improving patient survival rates.
Validation of a Gene Expression Approach for the Cytological Diagnosis of Epithelioid and Biphasic Pleural Mesothelioma on a Consecutive Series
Authors: Bruno Rossella , Poma Anello Marcello , Alì Greta , Proietti Agnese , Ribechini Alessandro , Chella Antonio , Fontanini Gabriella
Published: November 2023

Cytological diagnosis of pleural mesothelioma (PM) is controversial, even using ancillary markers (BAP1, MTAP and CDKN2A). Here, we aimed to prospectively validate a previously developed 117-gene expression panel for the differential cytological diagnosis of epithelioid, biphasic PM and mesothelial hyperplasia. Seventy-seven pleural effusions were classified using the 117-gene expression levels (NanoString system). Sixty-eight cases were also screened for ancillary markers. The performance of both gene panel and ancillary markers was evaluated using ROC metrics. A score using the top consistently deregulated genes between epithelioid and biphasic PM was built to subtype malignant effusions. The panel alone reached a diagnostic accuracy (0.89) comparable to the best marker combination (BAP1 plus MTAP: 0.88). Ancillary tests missed 8 PMs, 7 of which were correctly classified by the panel. The score built by averaging the expression levels of MSLN, CLDN15 and CFB showed an accuracy of 0.80 in subtyping epithelioid and biphasic effusions. The 117-gene panel is effective for PM cytological diagnosis of epithelioid and biphasic PM. This tool can be complementary to ancillary markers, reducing invasive procedures and allowing an earlier diagnosis. Finally, the possibility to subtype PM on effusions strengthens the panel’s role in PM diagnosis and management.
Semaphorin 6 Family—An Important Yet Overlooked Group of Signaling Proteins Involved in Cancerogenesis
Authors: Wagner Wiktor , Ochman Błażej , Wagner Waldemar
Published: November 2023

According to recent evidence, some groups of semaphorins (SEMAs) have been associated with cancer progression. These proteins are able to modulate the cellular signaling of particular receptor tyrosine kinases (RTKs) via the stimulation of SEMA-specific coreceptors, namely plexins (plexin-A, -B, -C, -D) and neuropilins (Np1, Np2), which share common domains with RTKs, leading to the coactivation of the latter receptors. MET, ERBB2, VEGFR2, PFGFR, and EGFR, among others, represent acknowledged targets of semaphorins that are often associated with tumor progression or poor prognosis. In particular, higher expression of SEMA6 family proteins in cancer cells and stromal cells of the cancer niche is often associated with enhanced tumor angiogenesis, metastasis, and resistance to anticancer therapy. Notably, high SEMA6 expression in malignant tumor cells such as melanoma, pleural mesothelioma, gastric cancer, lung adenocarcinoma, and glioblastoma may serve as a prognostic biomarker of tumor progression. To date, very few studies have focused on the mechanisms of transmembrane SEMA6-driven tumor progression and its underlying interplay with RTKs within the tumor microenvironment. This review presents the growing evidence in the literature on the complex and shaping role of SEMA6 family proteins in cancer responsiveness to environmental stimuli.
Fibroblasts as Playmakers of Cancer Progression: Current Knowledge and Future Perspectives
Authors: Ishii Kenichiro
Published: November 2023

This series of six articles (four original articles and two reviews) is presented by international leaders in stromal biology in the tumor microenvironment [...]
Unraveling the Cave: A Seventy-Year Journey into the Caveolar Network, Cellular Signaling, and Human Disease
Authors: D’Alessio Alessio
Published: November 2023

In the mid-1950s, a groundbreaking discovery revealed the fascinating presence of caveolae, referred to as flask-shaped invaginations of the plasma membrane, sparking renewed excitement in the field of cell biology. Caveolae are small, flask-shaped invaginations in the cell membrane that play crucial roles in diverse cellular processes, including endocytosis, lipid homeostasis, and signal transduction. The structural stability and functionality of these specialized membrane microdomains are attributed to the coordinated activity of scaffolding proteins, including caveolins and cavins. While caveolae and caveolins have been long appreciated for their integral roles in cellular physiology, the accumulating scientific evidence throughout the years reaffirms their association with a broad spectrum of human disorders. This review article aims to offer a thorough account of the historical advancements in caveolae research, spanning from their initial discovery to the recognition of caveolin family proteins and their intricate contributions to cellular functions. Furthermore, it will examine the consequences of a dysfunctional caveolar network in the development of human diseases.
Animal Models for the Study of Keratoconus
Authors: Hadvina Rachel , Estes Amy , Liu Yutao
Published: November 2023

Keratoconus (KC) is characterized by localized, central thinning and cone-like protrusion of the cornea. Its precise etiology remains undetermined, although both genetic and environmental factors are known to contribute to disease susceptibility. Due to KC’s complex nature, there is currently no ideal animal model to represent both the corneal phenotype and underlying pathophysiology. Attempts to establish a KC model have involved mice, rats, and rabbits, with some additional novel animals suggested. Genetic animal models have only been attempted in mice. Similarly, spontaneously occurring animal models for KC have only been discovered in mice. Models generated using chemical or environmental treatments have been attempted in mice, rats, and rabbits. Among several methods used to induce KC in animals, ultraviolet radiation exposure and treatment with collagenase are some of the most prevalent. There is a clear need for an experimental model animal to elucidate the underlying mechanisms behind the development and progression of keratoconus. An appropriate animal model could also aid in the development of treatments to slow or arrest the disorder.
Altered Regulation of the Glucose Transporter GLUT3 in PRDX1 Null Cells Caused Hypersensitivity to Arsenite
Authors: Ali Reem , Alhaj Sulaiman Abdallah , Memon Bushra , Pradhan Singdhendubala , Algethami Mashael , Aouida Mustapha , McKay Gordon , Madhusudan Srinivasan , Abdelalim Essam M. , Ramotar Dindial
Published: November 2023

Targeting tumour metabolism through glucose transporters is an attractive approach. However, the role these transporters play through interaction with other signalling proteins is not yet defined. The glucose transporter SLC2A3 (GLUT3) is a member of the solute carrier transporter proteins. GLUT3 has a high affinity for D-glucose and regulates glucose uptake in the neurons, as well as other tissues. Herein, we show that GLUT3 is involved in the uptake of arsenite, and its level is regulated by peroxiredoxin 1 (PRDX1). In the absence of PRDX1, GLUT3 mRNA and protein expression levels are low, but they are increased upon arsenite treatment, correlating with an increased uptake of glucose. The downregulation of GLUT3 by siRNA or deletion of the gene by CRISPR cas-9 confers resistance to arsenite. Additionally, the overexpression of GLUT3 sensitises the cells to arsenite. We further show that GLUT3 interacts with PRDX1, and it forms nuclear foci, which are redistributed upon arsenite exposure, as revealed by immunofluorescence analysis. We propose that GLUT3 plays a role in mediating the uptake of arsenite into cells, and its homeostatic and redox states are tightly regulated by PRDX1. As such, GLUT3 and PRDX1 are likely to be novel targets for arsenite-based cancer therapy.
Characterization of Three Somatic Mutations in the 3′UTR of RRAS2 and Their Inverse Correlation with Lymphocytosis in Chronic Lymphocytic Leukemia
Authors: Lacuna Marta , Hortal Alejandro M. , Cifuentes Claudia , Gonzalo Tania , Alcoceba Miguel , Bastos Miguel , Bustelo Xosé R. , González Marcos , Alarcón Balbino
Published: November 2023

Chronic lymphocytic leukemia (CLL) is a hematologic malignancy characterized by progressive accumulation of a rare population of CD5+ B-lymphocytes in peripheral blood, bone marrow, and lymphoid tissues. CLL exhibits remarkable clinical heterogeneity, with some patients presenting with indolent disease and others progressing rapidly to aggressive CLL. The significant heterogeneity of CLL underscores the importance of identifying novel prognostic markers. Recently, the RAS-related gene RRAS2 has emerged as both a driver oncogene and a potential marker for CLL progression, with higher RRAS2 expression associated with poorer disease prognosis. Although missense somatic mutations in the coding sequence of RRAS2 have not been described in CLL, this study reports the frequent detection of three somatic mutations in the 3′ untranslated region (3′UTR) affecting positions +26, +53, and +180 downstream of the stop codon in the mRNA. An inverse relationship was observed between these three somatic mutations and RRAS2 mRNA expression, which correlated with lower blood lymphocytosis. These findings highlight the importance of RRAS2 overexpression in CLL development and prognosis and point to somatic mutations in its 3′UTR as novel mechanistic clues. Our results may contribute to the development of targeted therapeutic strategies and improved risk stratification for CLL patients.
Dynamics of Fibril Collagen Remodeling by Tumor Cells: A Model of Tumor-Associated Collagen Signatures
Authors: Poonja Sharan , Forero Pinto Ana , Lloyd Mark C. , Damaghi Mehdi , Rejniak Katarzyna A.
Published: November 2023

Many solid tumors are characterized by a dense extracellular matrix (ECM) composed of various ECM fibril proteins. These proteins provide structural support and a biological context for the residing cells. The reciprocal interactions between growing and migrating tumor cells and the surrounding stroma result in dynamic changes in the ECM architecture and its properties. With the use of advanced imaging techniques, several specific patterns in the collagen surrounding the breast tumor have been identified in both tumor murine models and clinical histology images. These tumor-associated collagen signatures (TACS) include loosely organized fibrils far from the tumor and fibrils aligned either parallel or perpendicular to tumor colonies. They are correlated with tumor behavior, such as benign growth or invasive migration. However, it is not fully understood how one specific fibril pattern can be dynamically remodeled to form another alignment. Here, we present a novel multi-cellular lattice-free (MultiCell-LF) agent-based model of ECM that, in contrast to static histology images, can simulate dynamic changes between TACSs. This model allowed us to identify the rules of cell–ECM physical interplay and feedback that guided the emergence and transition among various TACSs.
The Static and Dynamic Behavior of Steel Storage Tanks over Different Types of Clay Soil
Authors: Salem Tarek N. , El-Zohairy Ayman , Abdelbaset Ahmed M.
Published: November 2023

Steel storage tanks are widely used in different fields. Most of these tanks contain hazardous materials, which may lead to disasters and environmental damage for any design errors. There are many reasons which cause the failure of these tanks such as excessive base plate settlement, shear failure of soil, liquid sloshing, and buckling of the tank shell. In this study, five models of above-ground steel storage tanks resting over different types of clay soils (medium-stiff clay, stiff clay, and very stiff clay soils) are analyzed using the finite element program ADINA under the effect of static and dynamic loading. The soil underneath the tank is truly simulated using a 3D solid (porous media) element and the used material model is the Cam-clay soil model. The fluid in the tank is modeled depending on the Navier–Stokes fluid equation. Moreover, the earthquake record used in this analysis is the horizontal component of the Loma Prieta Earthquake. The analyzed tanks are circular steel tanks with the same height (10 m) and different diameters (ranging from 15 m to 40 m). The soil under the tanks has a noticeable effect on the dynamic behavior of the studied tanks. The tanks resting over the medium-stiff clay (the weakest soil) give a lower permanent settlement after the earthquake because of its low elastic modulus which leads to the absorption of the earthquake waves in comparison to the other types of soil. There are 29.6% and 35.6% increases in the peak dynamic stresses under the tanks in the cases of stiff clay and very stiff clay soils, respectively. The maximum values of the dynamic vertical stresses occur at a time around 13.02 s, which is close to the peak ground acceleration of the earthquake.
Wear Evolution on PVD Coated Cutting Tool Flank and Rake Explained Considering Stress, Strain and Strain-Rate Dependent Material Properties
Authors: Bouzakis Antonios , Skordaris Georgios , Bouzakis Emmanouil , Bouzakis Konstantinos-Dionysios , Tsakalidis Dimitrios
Published: November 2023

Impact loads developed on a tool cutting edge when milling into a workpiece material are prevailing metrics for explaining coating fatigue failure and the subsequent tool-wear evolution. For predicting related stress and strain fields in the compound coating-substrate, stress, strain, and strain-rate, dependent material properties are required. The attainment of such data is briefly described in the paper. Considering these data, the occurring strains in the cutting edge at various entry impact durations, i.e., strain rates, were calculated and compared with fatigue-critical strains. In this way, the wear phenomena causing the coating failure on the flank and rake during milling were clarified. The attained results were also correlated to corresponding ones in turning, where the dynamic loads of the cutting edge are comparably negligible. The conducted investigations showed that the fatigue-critical strains strongly diminish, when the relevant strain rates increase; thus, leading to a remarkable tool-life reduction. This happens, because the increase of the strain-rate restricts the time for the dislocations movements; thus, regions with stress concentrations occur, deteriorating the material ductility, increasing its brittleness, and diminishing the fatigue critical strains. In cutting operations, where the coating fatigue is the main wear factor, the tool-life can be predicted considering these phenomena. In the paper, relevant experimental analytical procedures are introduced.
Preparation of g-C3N4/Bismuth Iodide/Tourmaline Composites and Their Photodegradation Performance of Amaranthine
Authors: Li Junsheng , Li Jiahui , Jiang Liming , Xu Meiyan , Xia Zhi , Tan Chong , Wang Yuyang , Zuo Jinlong
Published: November 2023

In this study, g-C3N4/BiOI/tourmaline composites were synthesized by loading BiOI and tourmaline on g-C3N4 nanofilms using g-C3N4, BiOI, and tourmaline as raw materials, aiming to optimize the photocatalytic degradation of amaranth red dye wastewater (AR). Single-factor experiments were conducted to optimize the degradation process. The findings indicate that a degradation rate of 95.88% can be achieved for AR within 150 min of light exposure, given a g-C3N4/BiOI/tourmaline dosage of 1 g/L, an initial pH level of 3 for the AR, and an initial AR concentration of 10 mg/L. Upon repeating the experiment for five cycles, the composite exhibited 83.10% activity, demonstrating its stability. Various analytical techniques were employed for material characterization: X-ray diffractometry (XRD) to ascertain the crystalline structure, field-emission scanning electron microscopy (FESEM) to evaluate morphology, X-ray photoelectron spectroscopy (XPS) for elemental analysis, ultraviolet–visible diffuse reflectance spectroscopy (UV-vis DRS) for optical properties, and photoluminescence (PL) spectroscopy to analyze the recombination of excited electrons and holes. Free radical masking experiments further elucidated the photocatalytic mechanism, revealing that the primary active species in the degradation process is the superoxide anion (O2−). This research offers a novel approach to address the limitations of n-type metal-free semiconductor photocatalysts.
Effect of Substrate Bias on the Microstructure and Properties of Non-Equimolar (AlCrSiTiZr)N Films with Different Cr/Zr Ratios Deposited Using Reactive Direct Current Magnetron Sputtering
Authors: Peng Hao-En , Lee Ching-Yin , Chang Hsin-Yi , Yeh Jien-Wei
Published: November 2023

To reduce the cost of tools operated in extreme environments, we developed films with excellent corrosion/oxidation resistance. Two high-entropy nitride films, (AlCrSi0.3TiZr)N and (AlCr1.5Si0.3TiZr0.5)N, were deposited using reactive DC magnetron sputtering under different substrate biases. The films exhibited a maximum hardness of 32.5 GPa ((AlCrSi0.3TiZr)N) and 35.3 GPa ((AlCr1.5Si0.3TiZr0.5)N) when deposited at −150 V, corresponding to 27 and 142% increases compared to those deposited at 0 V. This indicates that the bias strengthened (AlCr1.5Si0.3TiZr0.5)N (higher Cr/Zr ratio) more significantly. The enhancement of the mechanical properties was highly correlated with the interstitial point defects and densification of the film microstructures. The corrosion resistance of the films deposited on 6061 Al alloy substrate under different biases was tested in 0.1 M H2SO4. (AlCrSi0.3TiZr)N and (AlCr1.5Si0.3TiZr0.5)N displayed the lowest corrosion currents of 0.75 and 0.19 μA/cm2 when deposited at −100 and −150 V, respectively. These values are two orders of magnitude lower than that of the uncoated substrate. The (AlCr1.5Si0.3TiZr0.5)N film showed better oxidation resistance than the (AlCrSi0.3TiZr)N film and remained partially oxidized after heat treatment at 1000 °C. The (AlCr1.5Si0.3TiZr0.5)N film deposited at −150 V exhibits excellent mechanical properties and corrosion/oxidation resistances, making it suitable for protecting tools operating in harsh environments.
Does COVID-19 Really Exacerbate Urticaria? A Survey of 166 Patients in China
Authors: Yang Qian , Zou Zihao , Cao Wei , Shi Yunzhou , Xiao Xianjun , Chen Sijue , Li Ying
Published: November 2023

The COVID-19 pandemic significantly disrupted global healthcare systems. The impacts of SARS-CoV-2 infection on urticaria and its management are unknown. This study aimed to collect information about patients with urticaria infected with SARS-CoV-2 and to investigate the impact of SARS-CoV-2 infection on urticaria severity, course, and treatment to better support recovery. This was a questionnaire-based study of patients with urticaria infected with SARS-CoV-2. Changes in urticaria severity (measured with the urticaria activity score (UAS)), course, and treatment were assessed before, during, and after SARS-CoV-2 infection. The mean (±SD) UAS scores were 5.17 ± 1.67, 4.23 ± 1.98, and 4.37 ± 1.93 before, during, and after SARS-CoV-2 infection, respectively (F = 8.839, p < 0.01). The median (IQR) wheal score was 0.464 (0.464, 0.763), 0.464 (0.138, 0.763), and 0.464 (0.138, 0.763) before, during, and after infection, respectively (Kruskal–Wallis H-test, H = 12.230, p = 0.02). The median (IQR) pruritus score was 0.695 (0.395, 0.695), 0.394 (0.123, 0.695), and 0.394 (0.123, 0.695) before, during, and after infection, respectively (Kruskal–Wallis H-test, H = 21.001, p < 0.01). Within the limitations of a questionnaire study, urticaria appears to improve during SARS-CoV-2 infection and worsens slightly after recovery, and the frequency of Western medicine use increases.
Liquid Crystals for Luminescent Concentrators: A Review
Authors: Surampudi Atchutananda , Zhang Guanxiong , Singh Ravinder , Faulkner Grahame , O’Brien Dominic C. , Booth Martin J. , Morris Stephen M.
Published: November 2023

Luminescent optical concentrators are thin films containing fluorescent dyes that enable light collection over a wide field of view without the need to track the path of the Sun. However, a disadvantage when using luminescent concentrators is that the performance is often impeded by surface losses through these films. Liquid-crystal (LC) hosts are attractive for luminescent concentrators, as they impart, at the very least, an orientational ordering to the transition dipole moment of the dyes dispersed within these films. This enables the directivity of both the absorption and emission and can reduce surface losses by, for example, adopting the homeotropic alignment of the LC director. This article reviews the developments and applications of LCs to luminescent optical concentrators and describes the strategies that have been introduced to further combat losses by decoupling the absorption and emission processes through Förster energy transfer, the approaches employed to enhance the chemical structures of the dyes, and the methods of using alternative LC phases and external configurations. The review presents a comprehensive summary of the material combinations and the techniques that have been considered in the development of LC-based concentrator films and concludes with a discussion about the future perspectives for these exciting optical concentrators.
Radiation Damage on Selenomethionine-Substituted Single-Domain Substrate-Binding Protein
Authors: Nam Ki Hyun
Published: November 2023

Radiation damage is an inherent challenge in macromolecular crystallography (MX). This diminishes the diffraction quality and also compromises the accuracy of the crystal structure. Investigating the impact of radiation damage on the crystal quality and structure can offer valuable insights into the structural interpretation and data collection strategy. Selenomethionine (SeMet, Mse) is an amino acid that exists in nature and contains a high-Z atom, i.e., selenium (Se), which is sensitive to radiation damage; however, little is known regarding the radiation damage of this amino acid. To better understand the radiation damage that affects SeMet, we investigated the radiation damage to a SeMet-substituted substrate-binding protein from Rhodothermus marinus. As the X-ray dose increased, the quality of the data statistics deteriorated. In particular, an increase in the X-ray dose increased the negative Fo-Fc electron density map near the Se atom of the Mse residue, while no negative Fo-Fc electron density map was observed in the other atoms (O, C, and N). Radiation damage increased the absolute B-factor value of the Se atom in the Mse residue, which was higher than that of the other atoms. This indicates that Se is more sensitive to radiation damage than other atoms. These results will contribute to advancing our knowledge of the radiation damage that can occur in MX.
Superdense Hexagonal BP and AlP with Quartz Topology: Crystal Chemistry and DFT Study
Authors: Solozhenko Vladimir L. , Matar Samir F.
Published: November 2023

The superdense hexagonal phosphides BP and AlP, whose structures are formed by distorted tetrahedra and characterized by quartz-derived (qtz) topology, were predicted from crystal chemistry and first principles as potential high-pressure phases. From full geometry structure relaxations and ground state energy calculations based on quantum density functional theory (DFT), qtz BP and AlP were found to be less cohesive than the corresponding cubic zinc-blende (zb) phases with diamond-like (dia) topology, but were confirmed to be mechanically (elastic constants) and dynamically (phonons) stable. From the energy–volume equations of state, qtz phases were found to be energetically favorable at small volumes (high pressures), with zb-to-qtz transition pressures of 144 GPa for BP and 28 GPa for AlP. According to the electronic band structures and the site projected density of states, both phosphides exhibit larger band gaps of the zinc-blende phases compared to the qtz phases; the smaller values for the latter result from the smaller volumes per formula unit, leading to increased covalence.
Multi-Locus Sequence Analysis Reveals the Genetic Diversity and Population Differentiation of Candidatus Liberibacter Asiaticus in China
Authors: You Ping , Bao Minli , Amir Muhammad Bilal , Zhou Jun , Yang Jin , Fang Shujie , Yi Long
Published: November 2023

Huanglongbing (HLB) is a devastating citrus disease caused by Candidatus Liberibacter asiaticus (CLas). Since its initial outbreak in Guangdong Province, China, it has spread to 10 provinces and caused significant economic losses. Hence, assessing CLas genetic diversity and demographic history is crucial for HLB epidemic prevention and control. In this study, we collected 500 leaf samples of CLas-infected plants from 10 provinces. We performed multi-loci sequence analysis on four gene fragments (omp, DnaA, GroEL, and SDE1) to explore the genetic differentiation and diversity of CLas in China. Our results indicated low nucleotide diversity (0.00005 ± 0.00001) in CLas, with the absence of significant systematic geographic structure in its distribution. Molecular variance analysis revealed predominant (81.7%) genetic variations within the population, with a minor variation (18.3%) occurring between populations as well as Yunnan provinces. In the Fujian population, significant gene exchange occurred with the other nine populations. Significant negative values in Tajima’s D and Fu’s FS neutrality tests indicated historical population expansions. The nucleotide mismatch distribution curve exhibits a single peak pattern, further supporting the expansion events. Our findings hold potential for advancing epidemiological research and providing suggestions for effective strategies to mitigate the spread of CLas and control HLB.
Trophic Partitioning among Three Mesopredatory Shark Species Inhabiting the Northwestern Adriatic Sea
Authors: Finotto Licia , Berto Daniela , Rampazzo Federico , Raicevich Saša , Bonanomi Sara , Mazzoldi Carlotta
Published: November 2023

While the general diet of Mediterranean elasmobranchs has been widely studied, little is known about food partitioning and competition among sympatric species, despite these being important forces structuring marine communities. Using stomach content and stable isotope analyses, we investigated diet and trophic levels and evaluated the diet overlap and partitioning of Scyliorhinus canicula, Mustelus mustelus, and M. punctulatus in the northwestern Adriatic Sea. These shark species were confirmed as opportunistic mesopredators, but significant differences in their diets emerged. The two bentho-demersal Mustelus species had a larger trophic overlap with S. canicula than between each other. Given the pronounced morphological similarity of these two Mustelus species, this is likely a strategy to limit competition. The strictly benthic S. canicula showed a more varied diet compared to the other species. Stable isotope analysis highlighted that despite the smaller size and overlapping diets, S. canicula occupied a slightly higher trophic level. A better characterization of the trophic role of these species in the food web of the basin can be obtained from these data. At an ecosystem level, this information is essential to evaluate the possible consequences of the decline or recovery of the population of these exploited species.
Understanding Plant Diversity from Ecological and Evolutionary Perspectives
Authors: Meng Hong-Hu , Song Yi-Gang
Published: November 2023

Nowadays, we are living in a world that is benefiting from biodiversity, although environmental change is dramatic and biodiversity has been influenced by climate changes and human activities [...]
Comparative Analysis of Various Hyperelastic Models and Element Types for Finite Element Analysis
Authors: Lin Po-Sen , Le Roux de Bretagne Olivier , Grasso Marzio , Brighton James , StLeger-Harris Chris , Carless Owen
Published: November 2023

This study aims to evaluate the precision of nine distinct hyperelastic models using experimental data sourced from the existing literature. These models rely on parameters obtained through curve-fitting functions. The complexity in finite element models of elastomers arises due to their nonlinear, incompressible behaviour. To achieve accurate representations, it is imperative to employ sophisticated hyperelastic models and appropriate element types and formulations. Prior published work has primarily focused on the comparison between the fitting models and the experimental data. Instead, in this study, the results obtained from finite element analysis are compared against the original data to assess the impact of element formulation, strain range, and mesh type on the ability to accurately predict the response of elastomers over a wide range of strain values. This comparison confirms that the element formulation and strain range can significantly influence result accuracy, yielding different responses in various strain ranges also because of the limitation with the curve fitting tools.