bluuebunny/crossref_metadata_2025 huggingface dataset:
Cancer-Associated Fibroblast Diversity Shapes Tumor Metabolism in Pancreatic Cancer
Authors: Peiffer Raphaël , Boumahd Yasmine , Gullo Charlotte , Crake Rebekah , Letellier Elisabeth , Bellahcène Akeila , Peulen Olivier
Published: December 2022

Despite extensive research, the 5-year survival rate of pancreatic cancer (PDAC) patients remains at only 9%. Patients often show poor treatment response, due partly to a highly complex tumor microenvironment (TME). Cancer-associated fibroblast (CAF) heterogeneity is characteristic of the pancreatic TME, where several CAF subpopulations have been identified, such as myofibroblastic CAFs (myCAFs), inflammatory CAFs (iCAFs), and antigen presenting CAFs (apCAFs). In PDAC, cancer cells continuously adapt their metabolism (metabolic switch) to environmental changes in pH, oxygenation, and nutrient availability. Recent advances show that these environmental alterations are all heavily driven by stromal CAFs. CAFs and cancer cells exchange cytokines and metabolites, engaging in a tight bidirectional crosstalk, which promotes tumor aggressiveness and allows constant adaptation to external stress, such as chemotherapy. In this review, we summarize CAF diversity and CAF-mediated metabolic rewiring, in a PDAC-specific context. First, we recapitulate the most recently identified CAF subtypes, focusing on the cell of origin, activation mechanism, species-dependent markers, and functions. Next, we describe in detail the metabolic crosstalk between CAFs and tumor cells. Additionally, we elucidate how CAF-driven paracrine signaling, desmoplasia, and acidosis orchestrate cancer cell metabolism. Finally, we highlight how the CAF/cancer cell crosstalk could pave the way for new therapeutic strategies.
Impact of Infections in Patients Receiving Pembrolizumab-Based Therapies for Non-Small Cell Lung Cancer
Authors: Burns Ethan A. , Gee Kelly , Kieser Ryan B. , Xu Jiaqiong , Zhang Yuqi , Crenshaw Aubrey , Muhsen Ibrahim N. , Mylavarapu Charisma , Esmail Abdullah , Shah Shivan , Umoru Godsfavour , Sun Kai , Guerrero Carlo , Gong Zimu , Heyne Kirk , Singh Monisha , Zhang Jun , Bernicker Eric H. , Abdelrahim Maen
Published: December 2022

Background: Immune checkpoint inhibitor (ICI) therapy has significantly improved outcomes across a range of malignancies. While infections are a well-known contributor to morbidity and mortality amongst patients receiving systemic chemotherapy regimens, little is known about the impact of infections on patients receiving ICI therapy. This study aims to assess incidence, risk factors, and outcomes in patients who develop infections while on pembrolizumab-based therapies for non-small cell lung cancer (NSCLC). Methods: Patients receiving pembrolizumab for stage III/IV NSCLC from 1/1/2017-8/1/2021 across seven hospitals were identified. Incidence and type of infection were characterized. Covariates including baseline demographics, treatment information, treatment toxicities, and immunosuppressive use were collected and compared between infected and non-infected patients. Outcomes included the rate of infections, all-cause hospital admissions, median number of treatment cycles, overall survival (OS), and progression free survival (PFS). Univariable and multivariable analysis with reported odds ratio (OR) and 95% confidence intervals (CI) were utilized to evaluate infection risks. OS and PFS were analyzed by Kaplan–Meier analysis and tested by log-rank test. p-value < 0.05 was considered statistically significant. Results: There were 243 NSCLC patients that met the inclusion criteria. Of these, 111 (45.7%) had one documented infection, and 36 (14.8%) had two or more. Compared to non-infected patients, infected patients had significantly more all-cause Emergency Department (ED) [37 (33.3%) vs. 26 (19.7%), p = 0.016], hospital [87 (78.4%) vs. 53 (40.1%), p < 0.001], and ICU visits [26 (23.4%) vs. 5 (3.8%), p < 0.001], and had poorer median OS (11.53 [95% CI 6.4–16.7] vs. 21.03 [95% CI: 14.7–24.2] months, p = 0.033). On multivariable analysis, anti-infective therapy (OR 3.32, [95% CI: 1.26–8.76], p = 0.015) and ECOG of >1 (OR 5.79, [95% CI 1.72–19.47], p = 0.005) at ICI initiation conferred an increased risk for infections. At last evaluation, 74 (66.7%) infected and 70 (53.0%) non-infected patients died (p = 0.041). Conclusion: Infections occurred in nearly half of patients receiving pembrolizumab-based therapies for NSCLC. Infected patients had frequent hospitalizations, treatment delays, and poorer survival. ECOG status and anti-infective use at ICI initiation conferred a higher infection risk. Infection prevention and control strategies are needed to ameliorate the risk for infections in patients receiving ICIs.
Solvent-Free Mechanochemical Preparation of Metal-Organic Framework ZIF-67 Impregnated by Pt Nanoparticles for Water Purification
Authors: Afkhami-Ardekani Mahya , Naimi-Jamal Mohammad Reza , Doaee Samira , Rostamnia Sadegh
Published: December 2022

In this study, the crystalline metal-organic framework (MOF) ZIF-67 was obtained using the solvent-free ball milling method, which is a fast, simple, and economical green method without the need to use solvents. Using the impregnation method, platinum metal ions were loaded in the MOF cavities. Various descriptive methods have been used to explain the prepared Pt@ZIF-67 compound, such as FTIR, BET, TEM, SEM, EDS, XRD, TGA, and ICP. Based on this, the results showed that Pt nanoparticles (0.26 atom%) were located inside the pores of ZIF-67. In addition, no evidence supports their accumulation on the MOF surface. The efficiency of Pt@ZIF-67 was approved in the reduction of toxic and harmful nitrophenol compounds in water. The results showed that the removal of 4-nitrophenol in aqueous medium was successfully achieved with 94.5% conversion in an optimal time of 5 min with the use of NaBH4, and catalyzed by Pt@ZIF-67. Additionally, the Pt@ZIF-67 was recoverable and successfully tested for five qtr runs, with reasonable efficiency.
Oxidative Stress and Lipid Accumulation Augments Cell Death in LDLR-Deficient RPE Cells and Ldlr−/− Mice
Authors: Sreekumar Parameswaran Gangadharan , Su Feng , Spee Christine , Araujo Eduardo , Nusinowitz Steven , Reddy Srinivasa T , Kannan Ram
Published: December 2022

Lipid peroxidation from oxidative stress is considered a major contributor to age-related macular degeneration (AMD). The retina is abundant with circulating low-density lipoproteins (LDL), which are taken up by LDL receptor (LDLR) in the RPE and Müller cells. The purpose of this study is to investigate the role of LDLR in the NaIO3-induced model of dry AMD. Confluent primary human RPE (hRPE) and LDLR-silenced ARPE-19 cells were stressed with 150 µM tert-butyl hydroperoxide (tBH) and caspase 3/7 activation was determined. WT and Ldlr−/− mice were administered NaIO3 (20 mg/kg) intravenously. On day 7, fundus imaging, OCT, ERG, and retinal thickness were measured. Histology, TUNEL, cleaved caspase 3 and lipid accumulation were assessed. Treatment of hRPE with tBH markedly decreased LDLR expression. Caspase 3/7 activation was significantly increased in LDLR-silenced ARPE-19 cells treated with tBH. In Ldlr−/− mice, NaIO3 administration resulted in significant (a) retinal thinning, (b) compromised photoreceptor function, (c) increased percentage of cleaved caspase 3 positive and apoptotic cells, and (d) increased lipid droplet accumulation in the RPE, Bruch membrane, choroid, and sclera, compared to WT mice. Our findings imply that LDLR loss leads to lipid accumulation and impaired retinal function, which may contribute to the development of AMD.
Regulation of HMGB1 Release in Health and Diseases
Authors: Wang Haichao
Published: December 2022

Almost a half century ago, a group of nuclear proteins were co-purified with histones from calf thymus and termed as “high mobility group” (HMG) proteins because of their relative rapid mobility on SDS-PAGE gels [...]
Megalin Orchestrates FcRn Endocytosis and Trafficking
Authors: Dahlke Eileen , Anan Yaman , Klie Lea Maximiliane , Hartkopf Ariane Elisabeth , Theilig Franziska
Published: December 2022

The neonatal Fc receptor (FcRn) is highly expressed in the renal proximal tubule and is important for the reclamation of albumin by cellular transcytosis to prevent its loss in the urine. The initial event of this transcellular transport mechanism is the endocytosis of albumin by the apical scavenger receptors megalin and cubilin. An interaction of megalin and FcRn was postulated, however, evidence is still missing. Similarly, the intracellular trafficking of FcRn remains unknown and shall be identified in our study. Using a Venus-based bimolecular fluorescence complementation system, we detected an interaction between megalin and FcRn in the endosomal compartment, which significantly increased with the induction of endocytosis using albumin or lactoglobulin as a ligand. The interaction between megalin and FcRn occurred at a neutral and acidic pH between the extracellular domains of both proteins. Amnionless, another transmembrane acceptor of cubilin, revealed no interaction with FcRn. With the induction of endocytosis by albumin or lactoglobulin, super resolution microscopy demonstrated a redistribution of megalin and FcRn into clathrin vesicles and early endosomes. This trafficking into clathrin vesicles was impaired in megalin-deficient cells upon albumin-induced endocytosis, supporting the role of megalin in FcRn redistribution. Our results indicate that megalin and FcRn specifically bind and interact within their extracellular domains. The availability of megalin is necessary for the redistribution of FcRn. Megalin, therefore, orchestrates FcRn endocytosis and intracellular trafficking as an early event intranscytosis.
Analysis of the Surface Stereometry of Alloyed Austenitic Steel after Fibre Laser Cutting using Confocal Microscopy
Authors: Krajewski Sławomir Janusz , Grochała Daniel , Tomków Jacek , Grzejda Rafał
Published: December 2022

The paper extends the concept of cut edge quality and examines the fibre laser cutting process. A Prima Power Platino Fiber Evo device with a reference speed (RS) of 3500 mm/min was used for laser cutting. In order to analyse the influence of the laser cutting speed on the cut edge quality of X5CrNi18-10 stainless steel sheets, macroscopic studies were conducted on a stereoscopic microscope and surface stereometry on a confocal microscope. The obtained results were analysed to evaluate 2D and 3D parameters. These parameters make it possible to determine the cut edge quality and the susceptibility to the application of protective coatings. It was observed that the value of the Sa parameter is the highest for a cutting speed equal to 130% of RS. The Sz parameter is similar, while the Sk, Spk and Svk parameters rise as the speed increases, which is a negative phenomenon. Comparative tests were also conducted for four specimens made at cutting speeds of 70%, 85%, 100% and 115% of RS, respectively. It was found that the laser cutting speed has a significant impact on the cut edge quality and that stainless steel can be cut while maintaining the technological regime at 115% of RS.
Sensitization to Corrosion of Austenitic Stainless Steels: Watch Straps Intended to Come into Direct and Prolonged Contact with Skin
Authors: Reclaru Lucien
Published: December 2022

Nine grades of steel from different European steelmakers, namely 304L, 316L, and 904L, were evaluated. The austenitic steels studied are used in the manufacture of watch straps. The evaluations have been carried out in accordance with the ASTM standards which specifically concern the forms of corrosion, pitting (G48-11, FeCl3), intergranular (A262-15, Strauss method) test and Tuccillo–Nielsen test. The polarization electrochemical test on link watch straps was implemented by the microelectrode technique. Stress corrosion has also been investigated in the assembly of laser welded pin and link. It should be noted that, despite the fact that the grade of steel is in conformity with the classification standards, we note that the corrosion behavior is very different from one steelmaker to another. There are parameters that can change the quality of steel such as the technology process, casting volume, deoxidizers’ addition, remelted steel process and traces of pollutants. In consequence, we observe an extensive dispersion of results concerning nickel release, according to the EN 1811 European legislation regarding the protection of the population’s health, specifically relating to skin contact. In conclusion, steels DIN 1.4441 (316L Med) and DIN 1.4539 (904L) present a very good resistance to the morphologies of pitting and crevice corrosion. The 316L and 304L steel grades, also known as DIN 1.4435, DIN 1.4404 and DIN 1.4306, display a major difference in pitting and crevice corrosion behavior.
Controlling the Layer Thickness of Zinc Oxide Photoanode and the Dye-Soaking Time for an Optimal-Efficiency Dye-Sensitized Solar Cell
Authors: Magiswaran Kaiswariah , Norizan Mohd Natashah , Mahmed Norsuria , Mohamad Ili Salwani , Idris Siti Norhafizah , Sabri Mohd Faizul Mohd , Amin Nowshad , Sandu Andrei Victor , Vizureanu Petrica , Nabiałek Marcin , Salleh Mohd Arif Anuar Mohd
Published: December 2022

Dye-sensitized solar cells (DSSCs) were developed by exploiting the photovoltaic effect to convert solar energy into electrical energy. The photoanode layer thickness significantly affects the semiconductor film’s ability to carry electronic charges, adsorb sensitizing dye molecules, and lower the recombination of photo-excited electrons injected into the semiconductor. This study investigated the dependence of the zinc oxide (ZnO) photoanode thin-film thickness and the film soaking time in N719 dye on the photocurrent–voltage characteristics. The ZnO photoanode was applied to glass using the doctor blade method. The thickness was varied by changing the scotch tape layers. The ZnO-based DSSC attained an efficiency of 2.77% with three-layered photoanodes soaked in the dye for three hours, compared to a maximum efficiency of 0.68% that was achieved with three cycles using the dip-coating method in other research. The layer thickness of the ZnO photoanode and its optimal adsorption time for the dye are important parameters that determine the efficiency of the DSSC. Therefore, this work provides important insights to further improve the performance of DSSCs.
The Oxidation Properties of a NiCrAlY Coating Fabricated by Arc Ion Plating
Authors: Huang Lei , Zhou Zhaohui , Yang Lanlan , Qiao Yanxin
Published: December 2022

The microstructures, phase compositions, and high-temperature oxidation behavior of a NiCrAlY coating fabricated by arc ion plating were investigated by scanning electron microscopy (SEM), energy dispersive spectrometer (EDS), atomic force microscope (AFM), and X-ray diffractometer (XRD). The results indicate that the NiCrAlY coating was covered by a protective Al2O3 scale with excellent oxidation resistance after oxidation at 1050 °C for 100 h; the β phase rich in Al in the as-deposited coating was transformed into a γ/γ’ phase; the interdiffusion zone (IDZ), secondary reaction zone (SRZ), and needle-like TCP phases were detected in the superalloy substrate beneath the coating.
Structure and Mechanical Properties of Porous TiNi Alloys with Ag Nanoparticles
Authors: Marchenko Ekaterina , Baigonakova Gulsharat , Larikov Viktor , Monogenov Aleksandr , Yasenchuk Yuri
Published: December 2022

The work studies the influence of the silver dopant (<0.5 at.%) on the structure and mechanical properties of porous TiNi alloys obtained by self-propagating high-temperature synthesis. These alloys are of high scientific and practical interest in medicine. The presence of silver in the TiNi alloy will ensure improved cytocompatibility and antibacterial properties. The TiNi porous alloys with 0.2 and 0.5 at.% Ag nanoparticles have multiphase composition. Quantitative X-ray diffraction analysis of the obtained alloys showed that an increase in the silver content is accompanied by a quantitative decrease in the austenite phase TiNi(B2) and an increase in the martensite phase TiNi(B19’), as well as in secondary phases Ti2Ni, Ti4Ni2O. Evenly distributed silver nanoparticles up to 10 nm were found in the surface layer by transmission electron microscopy. The results of the scanning electron microscopy showed that inclusions containing silver are located mainly in the zones of Ti2Ni peritectic crystallization. The mechanical characteristics were studied by means of compression tests and it was found that with an increase in the silver dopant, the elastic modulus and elastic limit decrease, but the maximum deformation to fracture increases significantly. It was found that with an increase in the volume fraction of silver, the plastic properties of the alloy increase. No dependency of the tensile strength on the amount of silver was found.
Conductivity Sum Rule in the Nearly Free Two-Dimensional Electron Gas in an Uniaxial Potential
Authors: Rukelj Zoran , Radić Danko
Published: December 2022

We report an investigation of the conductivity sum rule in the two-dimensional system of free electrons in a weak uniaxial potential. The sum rule is defined through the integration of a real part of a multiband conductivity tensor and separates between the intraband and interband charge transport concentrations. It is shown how the relative direction of the electric field and the uniaxial potential defines the transport concentrations of the nearly free electron system and why the sum rule is obeyed.
Structural Determination of the Hexacoordinated [Zn(L)2]2+ Complex Isomer Type Using Solution-State NMR, DFT Calculations and X-ray Crystallography
Authors: Perić Berislav , Pantalon Juraj Natalija , Štefanić Zoran , Kirin Srećko I.
Published: December 2022

The isomerism of zinc complex [Zn(L)2]2+ with tridentate ligand L having acetamide and pyridine groups on each side of the central amino- nitrogen atom has been investigated by DFT calculations, liquid state NMR and single-crystal X-ray diffraction. DFT was used for obtaining the ensembles of low-energy conformers of L and [Zn(L)2]2+ and for the calculation of NMR parameters for all conformers. For all generated conformers of L and [Zn(L)2]2+, the Mean Absolute Error [MAE(conf)] was tested as a structural quality parameter and compared with MAE(Bolz) for Boltzmann weighted ensembles. The most populated conformers had MAE(conf) values below 0.1 and 1 ppm for 1H shifts and 13C shifts, respectively. For the [Zn(L)2]2+ complex, the mer- C2 symmetric isomer was the most stable, in accordance with the X-ray structure of [Zn(L)2]2[SiF6][BF4]2. The cancellation of the magnetic equivalence of some nuclei valid for free L, when coordinated to the Zn2+ cation, was theoretically explained by the correct averaging of NMR parameters in the calculation procedure.
Inflammation and Fibrosis in Patients with Non-Cirrhotic Hepatitis B Virus-Associated Hepatocellular Carcinoma: Impact on Prognosis after Hepatectomy and Mechanisms Involved
Authors: Li Yan , Zhao Jing-Fei , Zhang Jie , Zhan Guo-Hua , Li Yuan-Kuan , Huang Jun-Tao , Huang Xi , Xiang Bang-De
Published: December 2022

Background: We investigated whether the degree of inflammation and fibrosis in para-carcinoma tissue can predict prognosis of patients with non-cirrhotic hepatitis B virus (HBV)-associated hepatocellular carcinoma (HCC) after hepatectomy. We also explored the mechanisms through which inflammation and fibrosis might affect prognosis. Methods: Clinicopathological data were retrospectively analyzed from 293 patients with non-cirrhotic HBV-associated HCC who were treated at our institution by curative resection from 2012 to 2017. Based on the Scheuer score system, patients were classified into those showing mild or moderate-to-severe inflammation and fibrosis. Rates of overall and recurrence-free survival were compared between the groups using Kaplan–Meier curves, and survival predictors were identified using Cox regression. Using tumor and para-tumor tissues from independent samples of patients with non-cirrhotic HBV-associated HCC who were treated at our institution by curative resection from 2018 to 2019, we performed next-generation sequencing and time-of-flight cytometry (CyTOF) to examine the influence of inflammation and fibrosis on gene expression and immune cell infiltration. Results: In the analysis of the 293 patients, those with mild inflammation and fibrosis showed significantly better overall and recurrence-free survival than those with moderate-to-severe inflammation and fibrosis. Multivariate Cox regression confirmed that moderate-to-severe inflammation and fibrosis were independent risk factors for worse survival. RNA sequencing and CyTOF showed that more severe inflammation and fibrosis were associated with stronger invasion and migration by hepatocytes. In cancerous tissues, the biological processes of cell proliferation were upregulated, the signaling pathways promoting tumor growth were activated, the proportion of Th17 cells promoting tumor progression was increased, and CD8+ T cells expressed higher levels of PD-L1. In para-cancerous tissues, biological processes of immune response and cell chemotaxis were downregulated, and the proportion of tumor-killing immune cells was decreased. Conclusion: Worse inflammation and fibrosis in non-cirrhotic HBV-associated HCC is associated with worse prognosis, which may reflect more aggressive tumor behavior and an immunosuppressed, pro-metastatic tumor microenvironment.
Two New Uromunna Species (Isopoda: Asellota: Munnidae) from the Korean Peninsula and Their Phylogenetic Position within Munnoid Groups
Authors: Kim Jeongho , Kim Jaehyun , Lee Wonchoel , Karanovic Ivana
Published: December 2022

Two new Uromunna species, Uromunna mundongensis sp. n. and Uromunna jejuensis sp. n., are described from the Korean Peninsula, representing the first record of the genus in Korean waters. Genetic analyses using two mitochondrial (COI, Cytb) and one ribosomal (18S rRNA) gene allowed us to confirm high pair-wise interspecific differences with the establishment of reliable barcoding gaps of COI (19.9%) and 18S (0.4%) between the new species. Finally, the phylogenetic relationship between the Uromunna species as well as the position of the genus within the munnoid groups are reconstructed using 18S.
In Vivo Evaluation of the Effects of SMILE with Different Amounts of Stromal Ablation on Corneal Biomechanics by Optical Coherence Elastography
Authors: Zhu Yirui , Zhao Yanzhi , Zhang Yubao , Yang Hongwei , Shi Jiulin , Cai Hongling , Zhang Dong , Huang Guofu , He Xingdao , Wu Xiaoshan
Published: December 2022

This work aims to depth-resolved quantitatively analyze the effect of different stromal ablation amounts on the corneal biomechanical properties during small incision lenticule extraction (SMILE) using optical coherence elastography (OCE). A 4.5-MHz ultrasonic transducer was used to excite elastic waves in the corneal tissue. The OCE system combined with the antisymmetric Lamb wave model was employed to achieve a high-resolution, high-sensitivity, and depth-resolved quantitative detection of the corneal Young’s modulus. Eighteen rabbits were randomly divided into three groups; each group had six rabbits. The first and second groups underwent -3D and -6D SMILE surgeries, and the third group was the control group, respectively. Young’s modulus of the corneal cap and residual stromal bed (RSB) were both increased after SMILE, which shared the stress under intraocular pressure (IOP). Furthermore, the Young’s modulus of both the corneal cap and RSB after 3D SMILE group were significantly lower than that in the -6D group, which indicated that the increases in the post-operative corneal Young’s modulus were positively correlated with the amount of stromal ablation. The OCE system for quantitative spatial characterization of corneal biomechanical properties can provide useful information on the extent of safe ablation for SMILE procedures.
Unusual Rapid Growth of Primary Splenic Diffuse Large B-Cell Lymphoma with Extensive Necrosis
Authors: Chen Yue-Ren , Wu Hwa-Koon , Chen Yang-Yuan
Published: December 2022

The primary splenic lymphoma is extremely uncommon with an incidence rate of <1% of all the lymphomas under the strict criteria for diagnosis expounded by Das Gupta et al. Clinical presentations of nonspecific symptoms are weight loss, weakness, fever, and left upper quadrant pain or discomfort due to enlarged spleen. Abdominal ultrasound and CT are the most widely used imaging modality for the assessment of lymphoma. The imaged features of splenic lymphoma are nonspecific; typical lymphoma presents as a diffusely enlarged spleen. The abdominal CT scan in our case showed a large cystic splenic mass measuring 14 cm without enhancement after contrast medium. Lymphoma is often described as an aggressive tumor because its rapid doubling time can quickly increase the size of a tumor. In our case, the tumor grew to more than 100 times its original size in 4 months. So, we present this unusual rapid growth of primary splenic lymphoma.
Three-Dimensional Analysis of Alveolar Bone Morphological Characteristics in Skeletal Class II Open Bite Malocclusion: A Cone-Beam Computed Tomography Study
Authors: Tang Yingying , Xu Jingfeng , Hu Yun , Huang Yumei , Liu Yang , Daraqel Baraa , Zheng Leilei
Published: December 2022

This cross-sectional research evaluated the morphological characteristics of alveolar bone in skeletal class II open-bite individuals compared to skeletal class II and class I non-open-bite individuals. A sample of 82 patients (all were in cervical vertebral stage 6) was divided into three groups (class II OB group, n = 29; class II NOB group, n = 29; class I NOB group, n = 24) according to bilateral molar relationship, ANB angle, and anterior overbite measured by cephalometric analysis. The evaluation was performed with specialized software (Mimics 21.0) and initial cone-beam computed tomography (CBCT) data. The alveolar bone height and thickness of the whole dentition area and alveolar crest level and root apex position of the incisors were measured with a series of appropriate CBCT images. One-way analysis of variance followed by the Tukey post hoc test and the Kruskall–Wallis test were performed for statistical comparisons. The class II open-bite group had increased alveolar bone height for the maxillary first molar and decreased alveolar bone height for mandibular molars compared to the class II non-open-bite group (p < 0.05 for both). Furthermore, there were significant negative correlations between the alveolar bone heights of the upper first and second molars (A6-height, A7-height) and overbite (both p < 0.01). The alveolar thicknesses of all measured teeth were generally reduced in the class II OB group.
University Academic Performance Development Prediction Based on TDA
Authors: Yu Daohua , Zhou Xin , Pan Yu , Niu Zhendong , Yuan Xu , Sun Huafei
Published: December 2022

With the rapid development of higher education, the evaluation of the academic growth potential of universities has received extensive attention from scholars and educational administrators. Although the number of papers on university academic evaluation is increasing, few scholars have conducted research on the changing trend of university academic performance. Because traditional statistical methods and deep learning techniques have proven to be incapable of handling short time series data well, this paper proposes to adopt topological data analysis (TDA) to extract specified features from short time series data and then construct the model for the prediction of trend of university academic performance. The performance of the proposed method is evaluated by experiments on a real-world university academic performance dataset. By comparing the prediction results given by the Markov chain as well as SVM on the original data and TDA statistics, respectively, we demonstrate that the data generated by TDA methods can help construct very discriminative models and have a great advantage over the traditional models. In addition, this paper gives the prediction results as a reference, which provides a new perspective for the development evaluation of the academic performance of colleges and universities.
Improvement of Stability in an Oscillating Water Column Wave Energy Using an Adaptive Intelligent Controller
Authors: Wang Zhaozhi , Wu Shemeng , Lu Kai-Hung
Published: December 2022

Presently, among the global ocean energy technologies, the most conventional one is the wave energy power generation device based on the oscillating water column (OWC) wave energy converter. Given the fluctuation and randomness of waves and the complexity of the current power grid, the dynamic response of grid connections must be considered. Furthermore, considering the characteristics of the wave energy converter, this paper proposed an adaptive intelligent controller (AIC) for the permanent magnet synchronous generator (PMSG) in an OWC. The proposed controller includes a grey predictor, a recurrent wavelet-based Elman neural network (RWENN), and an adaptive critical network (ACN) to improve the stability of OWC power generation. This scheme can increase the maximum power output and improve dynamic performance when a transient occurs under the operating conditions of random wave changes. The proposed AIC for the PMSG based on OWC has a faster response speed, a smaller overshoot, and better stability than the traditional PI controller. This further verifies the availability of the proposed control strategy.
Water Retention Potential in Novel Terrestrial Ecosystems Restored on Post-Mine Sites: A Review
Authors: Singh Pranav Dev , Klamerus-Iwan Anna , Pietrzykowski Marcin
Published: December 2022

Many activities are conducted with the view of reducing CO2 emission from fossil fuels, but mining extraction will continue to be important for energy sources, mineral and metal ores, and the general economy. This activity has negative environmental consequences such as habitat loss, water scarcity, and soil degradation in novel ecosystems. Additionally, climate change, drought, and desertification accelerate important problems with water retention. From one point of view, identifying and conserving critical regions for ecological sustainability are issues of fundamental importance, but on the other hand, post-mine sites could provide additional carbon sinks and improve regional water retention (WR). This review paper analyses different studies focusing on the impact of the reclamation of mining sites on the water retention properties of soil. Water retention in reclaimed mining soil (RMS) increased considerably after various restoration efforts were implemented. The amount of water holding capacity in RMS was mostly affected by reclamation methods, soil properties, soil biota, restoration duration, and vegetation type. The major conclusions from the analysis were that (i) the bulk density of reclaimed mining soil ranges from 1.35 to 1.50 g/cm3 and decreases with restoration duration; (ii) Soil fauna increases soil water storage capacity and plant litter and earthworms convert litter to fecal pellets, which increases water field capacity; and (iii) water holding capacity increases with duration of reclaimed sites and type of plants, i.e., afforestation and tree communities have higher WR than younger grasslands. Therefore, identification of the suitable reclamation method, restoration duration, vegetation type, and soil fauna are important factors for increasing water retention capacity at a regional scale.
Growth and Mortality of Hybrid Poplar Short Rotation Culture (AF8 Clone) in Response to Clostera anastomosis L. (Lepidoptera: Notodontidae) Defoliation
Authors: Lupaștean Daniela , Isaia Gabriela , Dănilă Iulian-Constantin , Coșofreț Cosmin , Scriban Ramona Elena , Duduman Mihai-Leonard
Published: December 2022

The increasing worldwide interest in renewable energy and carbon storage has led to the development of relatively fast solutions to obtain wood biomass. The cultivation of fast-growing tree species in short-rotation crops, such as hybrid poplar clones, is one such solution, at least in temperate areas. Sometimes these monocultures are affected by disturbing factors, including severe insect defoliation, with strong destructive effects. The impact of defoliation on the growth and productivity of poplar crops is often estimated in the context of artificial defoliation. There have been few studies in which the effect of defoliation was calculated after natural defoliation. Among defoliating insect species, Clostera anastomosis L. is one of the most important defoliators of young poplars. This species developed severe defoliation in a 4-year-old poplar clone AF8 crop, from the northeastern part of Romania, in the spring and summer of 2017. The study aimed to assess the impact of defoliation both on the growth and mortality of defoliated trees and the productivity of the affected crop. To reach this goal, the height and radial growth of 150 trees with different defoliation rates (50 non-defoliated, 50 partially defoliated, and 50 completely defoliated) were measured and the defoliation symptoms and mortality were also evaluated for 4780 poplars (10% of the analyzed population). The defoliation caused a significant decrease in the annual height growth (28.6% of the partially defoliated trees and 38.5% of the completely defoliated trees) and a severe decrease in the radial growth, between 82.2% and 90.4%, respectively, depending on the defoliation rate. These strong decreases led to a significant decline in tree-level biomass accumulation, approximately 74.8% for partially defoliated trees and 83.1% for completely defoliated trees, for the year of defoliation. As a result, the loss in total biomass (for the four years of the rotation) was between 28.1% and 34.6%, respectively, depending on the defoliation rate. Therefore, the total biomass loss was 5 t·ha−1, representing approximately 70% of the forecasted production for 2017 only (approximately 7 t·ha−1).
Tracking the Extent and Impacts of a Southern Pine Beetle (Dendroctonus frontalis) Outbreak in the Bienville National Forest
Authors: Crosby Michael K. , McConnell T. Eric , Holderieath Jason J. , Meeker James R. , Steiner Chris A. , Strom Brian L. , Johnson Crawford (Wood)
Published: December 2022

The Bienville National Forest (BNF) in central Mississippi experienced an outbreak of southern pine beetle (SPB) beginning in 2015 and continuing through 2019. To assess the extent of the outbreak and subsequent treatments of impacted areas, high-resolution imagery was obtained from various sources and interpreted to determine the feasibility of this imagery for detecting SPB spots and tracking their spread and treatments. A negative binomial regression model then described the relationship between spot detection, year, and status (i.e., infestation/treatment) and then incidence rate ratios were calculated. The peak active infestation acreage occurred in 2017 with treatment and mitigation measures peaking in 2018. In total, over 4450 hectares (ha) were treated through 2019 in the BNF. Overall, it is possible to discern small areas of active SPB infestation and treatments. If used as a monitoring method, consistently available high-resolution imagery (e.g., from a satellite) provides an effective means of detecting, evaluating, and tracking infestations and related treatments.
Managing Cone Formation and Leader Growth in Fraser Fir Christmas Tree Plantations with Plant Growth Regulators
Authors: Cregg Bert , Ellison-Smith Dana , Rouse Riley
Published: December 2022

Early cone formation is a consistent issue in Fraser fir Christmas tree plantations in the eastern United States. Growers must remove cones by hand, resulting in significant labor costs, as cones degrade the aesthetic value of Christmas trees. In this study, we conducted two series of experiments in collaboration with several Christmas tree farms to determine the effectiveness of applying plant growth regulators (PGRs), specifically GA-inhibitors, in reducing cone formation and shoot growth in Fraser fir. In the first experiments we investigated the effectiveness of paclobutrazol, applied as a soil injection or as a foliar spray in reducing cone formation. The highest rate of soil application (300 mL of paclobutrazol per tree) reduced cumulative coning by approximately 38%. Leader growth control of soil applied paclobutrazol increased with application rate. In the second set of experiments, we compared four GA-inhibitors (paclobutrazol, chlormequat chloride, uniconazole-p, daminozide) applied as foliar sprays on coning and leader growth. Overall, paclobutrazol was the most effective compound for reducing coning and shoot growth. The results confirm earlier findings that application of GA-inhibitors can reduce, but not eliminate, coning. Likewise, PGR application can reduce shoot growth and possibly increase tree density but will not eliminate the need for shearing.
Cobrançosa Table Olive Fermentation as per the Portuguese Traditional Method, Using Potentially Probiotic Lactiplantibacillus pentosus i106 upon Alternative Inoculation Strategies
Authors: Coimbra-Gomes Joana , Reis Patrícia J. M. , Tavares Tânia G. , Silva Afonso A. , Mendes Eulália , Casal Susana , Malcata Francisco Xavier , Macedo Angela C.
Published: December 2022

Spontaneous fermentation of table olives, as per a traditional Mediterranean process, is still performed empirically; hence, final product quality is somewhat unpredictable. Our main goal was to validate an endogenous (potentially probiotic) lactic acid bacterium strain in Cobrançosa table olives as a vector for a more standardized process, further adding commercial value to the olives themselves. The traditional Portuguese fermentation process typically consists of two stages: sweetening, when olives are periodically washed with spring water to different proportions, and salting, when water is no longer changed, but salt is gradually added to the brine, up to 7–10% (w/w). Lactiplantibacillus pentosus i106 was inoculated as follows: (plan A) 2020/21 harvest, with 0, 3, 5, and 7% (w/v) NaCl, without sweetening; (plan B) 2020/21 harvest, with 5 and 7% (w/v) NaCl, during salting and sweetening; and (plan C) 2019/20 harvest, with 5% (w/v) salt, and sweetening and salting. Microbiological, physical, and biochemical evolutions were monitored for 8 months, and final nutritional and sensory features were duly assessed. Compared to the control, lactic acid bacteria (LAB) predominated over yeasts only if deliberately inoculated; however strain viability was hindered above 5% (w/w) NaCl, and LAB inhibited enterobacteria. Degradation of (bitter) oleuropein to hydroxytyrosol and verbascoside was faster upon inoculation. Color-changing olives from the 2020/21 harvest exhibited higher fat content and lower water content compared to green ones (2019/20 harvest), and different salt levels and inoculation moments produced distinct sensory properties. The best protocol was plan C, in terms of overall eating quality; hence, the addition of Lpb. pentosus i106 provides benefits as a supplementary additive (or adjunct culture), rather than a starter culture.
Modeling and Control of a Soft Robotic Arm Based on a Fractional Order Control Approach
Authors: Relaño Carlos , Muñoz Jorge , Monje Concepción A. , Martínez Santiago , González Daniel
Published: December 2022

Controlling soft robots is a significant challenge due to the nonlinear elastic nature of the soft materials that conform their structure. This paper studies the identification and control problems of a novel two-degrees-of-freedom, tendon-actuated, soft robotic arm. A decoupled identification approach is presented; later, a fractional order control strategy is proposed and tested experimentally, in comparison with PI solutions. The simulation and experimental results show the goodness of the modeling and control approaches discussed.
Severe COVID-19 May Impact Hepatic Fibrosis /Hepatic Stellate Cells Activation as Indicated by a Pathway and Population Genetic Study
Authors: Moya Leire , Farashi Samaneh , Suravajhala Prashanth , Janaththani Panchadsaram , Batra Jyotsna
Published: December 2022

Coronavirus disease 19 (COVID-19) has affected over 112 million people and killed more than 2.5 million worldwide. When the pandemic was declared, Spain and Italy accounted for 29% of the total COVID-19 related deaths in Europe, while most infected patients did not present severe illness. We hypothesised that shared genomic characteristics, distinct from the rest of Europe, could be a contributor factor to a poor prognosis in these two populations. To identify pathways related to COVID-19 severity, we shortlisted 437 candidate genes associated with host viral intake and immune evasion from SARS-like viruses. From these, 21 were associated specifically with clinically aggressive COVID-19. To determine the potential mechanism of viral infections, we performed signalling pathway analysis with either the full list (n = 437) or the subset group (n = 21) of genes. Four pathways were significantly associated with the full gene list (Caveolar-mediated Endocytosis and the MSP-RON Signalling) or with the aggressive gene list (Hepatic Fibrosis/Hepatic Stellate Cell (HSC) Activation and the Communication between Innate and Adaptive Immune Cells). Single nucleotide polymorphisms (SNPs) from the ±1 Mb window of all genes related to these four pathways were retrieved from the dbSNP database. We then performed Principal Component analysis for these SNPs in individuals from the 1000 Genomes of European ancestry. Only the Hepatic Fibrosis/HSC Activation pathway showed population-specific segregation. The Spanish and Italian populations clustered together and away from the rest of the European ancestries, with the first segregating further from the rest. Additional in silico analysis identified potential genetic markers and clinically actionable therapeutic targets in this pathway, that may explain the severe disease.
Identification and Functional Analysis of CAD Gene Family in Pomegranate (Punica granatum)
Authors: Hu Lei , Zhang Xuan , Ni Huihui , Yuan Fangyu , Zhang Shuiming
Published: December 2022

[Objective] Cinnamyl alcohol dehydrogenase (CAD) is a key enzyme in lignin biosynthesis. The aim of this study was to identify CAD gene family members in pomegranate and its expression correlation with seed hardness. [Methods] Based on the reported CAD sequence of Arabidopsis, the CAD gene family of pomegranate was identified by homologous comparison, and then phylogenetic, molecular characterization, and expression profile analysis were performed. [Results] Pomegranate CAD gene family has 25 members, distributed on seven chromosomes of pomegranate. All pomegranate CAD proteins have similar physical and chemical properties. We divide the family into four groups based on evolutionary relationships. The member of group I, called bona fide CAD, was involved in lignin synthesis. Most of the members of group II were involved in stress resistance. The functions of groups III and IV need to be explored. We found four duplicated modes (whole genome duplication or segmental (WGD), tandem duplication (TD), dispersed duplication (DSD), proximal duplication (PD) in this family; TD (36%) had the largest number of them. We predicted that 20 cis-acting elements were involved in lignin synthesis, stress resistance, and response to various hormones. Gene expression profiles further demonstrated that the PgCAD gene family had multiple functions. [Conclusions] Pomegranate CAD gene family is involved in lignin synthesis of hard-seeded cultivar Hongyushizi and Baiyushizi, but its role in seed hardness of soft-seeded cultivar Tunisia needs to be further studied.
Identifying Associations between DCE-MRI Radiomic Features and Expression Heterogeneity of Hallmark Pathways in Breast Cancer: A Multi-Center Radiogenomic Study
Authors: Ming Wenlong , Zhu Yanhui , Li Fuyu , Bai Yunfei , Gu Wanjun , Liu Yun , Sun Xiao , Liu Xiaoan , Liu Hongde
Published: December 2022

Background: To investigate the relationship between dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) radiomic features and the expression activity of hallmark pathways and to develop prediction models of pathway-level heterogeneity for breast cancer (BC) patients. Methods: Two radiogenomic cohorts were analyzed (n = 246). Tumor regions were segmented semiautomatically, and 174 imaging features were extracted. Gene set enrichment analysis (GSEA) and gene set variation analysis (GSVA) were performed to identify significant imaging-pathway associations. Random forest regression was used to predict pathway enrichment scores. Five-fold cross-validation and grid search were used to determine the optimal preprocessing operation and hyperparameters. Results: We identified 43 pathways, and 101 radiomic features were significantly related in the discovery cohort (p-value < 0.05). The imaging features of the tumor shape and mid-to-late post-contrast stages showed more transcriptional connections. Ten pathways relevant to functions such as cell cycle showed a high correlation with imaging in both cohorts. The prediction model for the mTORC1 signaling pathway achieved the best performance with the mean absolute errors (MAEs) of 27.29 and 28.61% in internal and external test sets, respectively. Conclusions: The DCE-MRI features were associated with hallmark activities and may improve individualized medicine for BC by noninvasively predicting pathway-level heterogeneity.
Sex Differences in the Association between Risk of Anterior Cruciate Ligament Rupture and COL5A1 Polymorphisms in Elite Footballers
Authors: Rodas Gil , Cáceres Alejandro , Ferrer Eva , Balagué-Dobón Laura , Osaba Lourdes , Lucia Alejandro , González Juan R.
Published: December 2022

Background: Single-nucleotide polymorphisms (SNPs) in collagen genes are predisposing factors for anterior cruciate ligament (ACL) rupture. Although these events are more frequent in females, the sex-specific risk of reported SNPs has not been evaluated. Purpose: We aimed to assess the sex-specific risk of historic non-contact ACL rupture considering candidate SNPs in genes previously associated with muscle, tendon, ligament and ACL injury in elite footballers. Study Design: This was a cohort genetic association study. Methods: Forty-six (twenty-four females) footballers playing for the first team of FC Barcelona (Spain) during the 2020–21 season were included in the study. We evaluated the association between a history of non-contact ACL rupture before July 2022 and 108 selected SNPs, stratified by sex. SNPs with nominally significant associations in one sex were then tested for their interactions with sex on ACL. Results: Seven female (29%) and one male (4%) participants had experienced non-contact ACL rupture during their professional football career before the last date of observation. We found a significant association between the rs13946 C/C genotype and ACL injury in women footballers (p = 0.017). No significant associations were found in male footballers. The interaction between rs13946 and sex was significant (p = 0.027). We found that the C-allele of rs13946 was exclusive to one haplotype of five SNPs spanning COL5A1. Conclusions: The present study suggests the role of SNPs in genes encoding for collagens as female risk factors for ACL injury in football players. Clinical Relevance: The genetic profiling of athletes at high risk of ACL rupture can contribute to sex-specific strategies for injury prevention in footballers.
Special Issue “Feature Papers in Population and Evolutionary Genetics and Genomics”
Authors: Kyrgiafini Maria-Anna , Mamuris Zissis
Published: December 2022

Theodosius Dobzhansky famously wrote in 1973 that “nothing in biology makes sense except in the light of evolution” [...]