bluuebunny/crossref_metadata_2025 huggingface dataset:
Coexpression of Fungal Cell Wall-Modifying Enzymes Reveals Their Additive Impact on Arabidopsis Resistance to the Fungal Pathogen, Botrytis cinerea
Authors: Swaminathan Sivakumar , Reem Nathan T. , Lionetti Vincenzo , Zabotina Olga A.
Published: October 2021

The plant cell wall (CW) is an outer cell skeleton that plays an important role in plant growth and protection against both biotic and abiotic stresses. Signals and molecules produced during host–pathogen interactions have been proven to be involved in plant stress responses initiating signal pathways. Based on our previous research findings, the present study explored the possibility of additively or synergistically increasing plant stress resistance by stacking beneficial genes. In order to prove our hypothesis, we generated transgenic Arabidopsis plants constitutively overexpressing three different Aspergillus nidulans CW-modifying enzymes: a xylan acetylesterase, a rhamnogalacturonan acetylesterase and a feruloylesterase. The two acetylesterases were expressed either together or in combination with the feruloylesterase to study the effect of CW polysaccharide deacetylation and deferuloylation on Arabidopsis defense reactions against a fungal pathogen, Botrytis cinerea. The transgenic Arabidopsis plants expressing two acetylesterases together showed higher CW deacetylation and increased resistance to B. cinerea in comparison to wild-type (WT) Col-0 and plants expressing single acetylesterases. While the expression of feruloylesterase alone compromised plant resistance, coexpression of feruloylesterase together with either one of the two acetylesterases restored plant resistance to the pathogen. These CW modifications induced several defense-related genes in uninfected healthy plants, confirming their impact on plant resistance. These results demonstrated that coexpression of complementary CW-modifying enzymes in different combinations have an additive effect on plant stress response by constitutively priming the plant defense pathways. These findings might be useful for generating valuable crops with higher protections against biotic stresses.
Higher RET Gene Expression Levels Do Not Represent anAlternative RET Activation Mechanism in Medullary Thyroid Carcinoma
Authors: Mulè Chiara , Ciampi Raffaele , Ramone Teresa , Prete Alessandro , Matrone Antonio , Cappagli Virginia , Torregrossa Liborio , Basolo Fulvio , Elisei Rossella , Romei Cristina
Published: October 2021

This study was designed to investigate whether RET (rearranged during transfection) mRNA over-expression could be considered an alternative driver event for the development of medullary thyroid carcinoma (MTC), and if different RET isoforms could play a role in MTC tumorigenesis. Eighty-three MTC patients, whose mutational profile was previously identified by next-generation sequencing (NGS) IONS5, were included in this study. Expression analysis was performed by the quantitative reverse transcription-polymerase chain reaction technique. RET expression levels were found to be significantly higher in cases with RET somatic mutations than in cases that were negative for RET somatic mutations (p = 0.003) as well as in cases with a somatic mutation, either in RET or RAS than in cases negative for both these mutations (p = 0.01). All cases were positive for the RET51 isoform expression while only 72/83 (86.7%) were positive for RET9 isoform expression. A statistically significant higher expression of the RET51 isoform was found in cases positive for RET somatic mutation than in cases either positive for RAS mutation (p = 0.0006) or negative for both mutations (p = 0.001). According to our data, RET gene over-expression does not play a role in MTC tumorigenesis, neither as an entire gene or as an isoform. At variance, the RET gene, and in particular the RET51 isoform, is expressed higher in RET mutated cases. On the basis of these results we can hypothesize that the overexpression of RET, and in particular of RET51, could potentiate the transforming activity of mutated RET, making these cases more aggressive.
Hydrogen Sulphide Treatment Prevents Renal Ischemia-Reperfusion Injury by Inhibiting the Expression of ICAM-1 and NF-kB Concentration in Normotensive and Hypertensive Rats
Authors: Hashmi Syed , Rathore Hassaan , Sattar Munavvar , Johns Edward , Gan Chee-Yuen , Chia Tan , Ahmad Ashfaq
Published: October 2021

Our main objective was to investigate the effect of chronic administration of hydrogen sulphide donor (sodium hydrosulphide) on the expression of intercellular adhesion molecule-1 (ICAM-1) and concentration of nuclear factor-kappa B (NF-kB) in a renal ischemia-reperfusion injury (IRI) model of WKY and L-nitro-arginine-methyl-ester (L-NAME)-induced hypertensive rats. Sodium hydrosulphide (NaHS) was administered intraperitoneally (i.p.) for 35 days while cystathionine gamma lyase (CSE) inhibitor dL-propargylglycine (PAG) was administered at a single dose of 50 mg/kg. Animals were anesthetised using sodium pentobarbitone (60 mg/kg) and then prepared to induce renal ischemia by clamping the left renal artery for 30 min followed by 3 h of reperfusion. Pre-treatment with NaHS improved the renal functional parameters in both WKY and L-NAME-induced hypertensive rats along with reduction of blood pressure in hypertensive groups. Oxidative stress markers like malondialdehyde (MDA), total superoxide dismutase (T-SOD) and glutathione (GSH) were also improved by NaHS treatment following renal IRI. Levels of ICAM-1 and NF-kB concentration were reduced by chronic treatment with NaHS and increased by PAG administration after renal IRI in plasma and kidney. Treatment with NaHS improved tubular morphology and glomerulus hypertrophy. Pre-treatment with NaHS reduced the degree of renal IRI by potentiating its antioxidant and anti-inflammatory mechanism, as evidenced by decreased NF-kB concentration and downregulation of ICAM-1 expression.
Mechanisms of Immunothrombosis by SARS-CoV-2
Authors: Hernández-Huerta María Teresa , Pérez-Santiago Alma Dolores , Pérez-Campos Mayoral Laura , Sánchez Navarro Luis Manuel , Rodal Canales Francisco Javier , Majluf-Cruz Abraham , Matias-Cervantes Carlos Alberto , Pérez-Campos Mayoral Eduardo , Romero Díaz Carlos , Mayoral-Andrade Gabriel , Martínez Cruz Margarito , Luna Ángel Judith , Pérez-Campos Eduardo
Published: October 2021

SARS-CoV-2 contains certain molecules that are related to the presence of immunothrombosis. Here, we review the pathogen and damage-associated molecular patterns. We also study the imbalance of different molecules participating in immunothrombosis, such as tissue factor, factors of the contact system, histones, and the role of cells, such as endothelial cells, platelets, and neutrophil extracellular traps. Regarding the pathogenetic mechanism, we discuss clinical trials, case-control studies, comparative and translational studies, and observational studies of regulatory or inhibitory molecules, more specifically, extracellular DNA and RNA, histones, sensors for RNA and DNA, as well as heparin and heparinoids. Overall, it appears that a network of cells and molecules identified in this axis is simultaneously but differentially affecting patients at different stages of COVID-19, and this is characterized by endothelial damage, microthrombosis, and inflammation.
Optimization of Neurite Tracing and Further Characterization of Human Monocyte-Derived-Neuronal-like Cells
Authors: Bellon Alfredo , Hasoglu Tuna , Peterson Mallory , Gao Katherine , Chen Michael , Blandin Elisabeta , Cortez-Resendiz Alonso , Clawson Gary A. , Hong Liyi Elliot
Published: October 2021

Deficits in neuronal structure are consistently associated with neurodevelopmental illnesses such as autism and schizophrenia. Nonetheless, the inability to access neurons from clinical patients has limited the study of early neurostructural changes directly in patients’ cells. This obstacle has been circumvented by differentiating stem cells into neurons, although the most used methodologies are time consuming. Therefore, we recently developed a relatively rapid (~20 days) protocol for transdifferentiating human circulating monocytes into neuronal-like cells. These monocyte-derived-neuronal-like cells (MDNCs) express several genes and proteins considered neuronal markers, such as MAP-2 and PSD-95. In addition, these cells conduct electrical activity. We have also previously shown that the structure of MDNCs is comparable with that of human developing neurons (HDNs) after 5 days in culture. Moreover, the neurostructure of MDNCs responds similarly to that of HDNs when exposed to colchicine and dopamine. In this manuscript, we expanded our characterization of MDNCs to include the expression of 12 neuronal genes, including tau. Following, we compared three different tracing approaches (two semi-automated and one automated) that enable tracing using photographs of live cells. This comparison is imperative for determining which neurite tracing method is more efficient in extracting neurostructural data from MDNCs and thus allowing researchers to take advantage of the faster yield provided by these neuronal-like cells. Surprisingly, it was one of the semi-automated methods that was the fastest, consisting of tracing only the longest primary and the longest secondary neurite. This tracing technique also detected more structural deficits. The only automated method tested, Volocity, detected MDNCs but failed to trace the entire neuritic length. Other advantages and disadvantages of the three tracing approaches are also presented and discussed.
An Evaluation of Useful Daylight Illuminance in an Office Room with a Light Shelf and Translucent Ceiling at 51° N
Authors: Brzezicki Marcin
Published: October 2021

The present study investigates the issue of computer-aided daylight evaluation in an office room with a light shelf and dropped translucent ceiling. In this type of room, daylight is admitted from two sources: (i) a standard window in the wall and (ii) via a light shelf and clerestory window, which illuminate the plenum located above the working space. The light from the plenum is transmitted through the translucent ceiling into the office room. The present study is based on data obtained through a computer-aided daylight simulation by DeLuminæ (DL-Light, ver. 11.0.9, and DL-Instant, ver. 6.1.4) software using the Radiance engine and real weather data for Wroclaw, Poland, at 51st lat. N. An office room of 12 × 6 m with different shading and daylight distribution scenarios was simulated (Variants 1–5). Next, the useful daylight illuminance (UDI (%)) for the range of 300–3000 lx and daylight glare probability (DGP) were calculated. To further optimize the daylighting scenarios, an adaptive shading system was simulated, which was activated when the illuminance value dropped below 300 lx. In the final variant, Variant 6, mean UDI300–3000 values were recorded to be above 80% for 95% of the area of the work plane. This allows the conclusion that a light shelf and translucent ceiling guide daylight deep into the room, improving uniformity and reducing glare when the standard window is covered by an adaptive shading system.
Radiation-Induced Fibrotic Tumor Microenvironment Regulates Anti-Tumor Immune Response
Authors: Nam Jae-Kyung , Kim Ji-Hee , Park Min-Sik , Kim Eun Ho , Kim Joon , Lee Yoon-Jin
Published: October 2021

High linear energy transfer (LET) radiation, such as neutron radiation, is considered more effective for the treatment of cancer than low LET radiation, such as X-rays. We previously reported that X-ray irradiation induced endothelial-to-mesenchymal transition (EndMT) and profibrotic changes, which contributed to the radioresistance of tumors. However, this effect was attenuated in tumors of endothelial-specific Trp53-knockout mice. Herein, we report that compared to X-ray irradiation, neutron radiation therapy reduced collagen deposition and suppressed EndMT in tumors. In addition to the fewer fibrotic changes, more cluster of differentiation (CD8)-positive cytotoxic T cells were observed in neutron-irradiated regrowing tumors than in X-ray-irradiated tumors. Furthermore, lower programmed death-ligand 1 (PD-L1) expression was noted in the former. Endothelial-specific Trp53 deletion suppressed fibrotic changes within the tumor environment following both X-ray and neutron radiation therapy. In particular, the upregulation in PD-L1 expression after X-ray radiation therapy was significantly dampened. Our findings suggest that compared to low LET radiation therapy, high LET radiation therapy can efficiently suppress profibrotic changes and enhance the anti-tumor immune response, resulting in delayed tumor regrowth.
Evaluation of NAB2-STAT6 Fusion Variants and Other Molecular Alterations as Prognostic Biomarkers in a Case Series of 83 Solitary Fibrous Tumors
Authors: Salguero-Aranda Carmen , Martínez-Reguera Paula , Marcilla David , de Álava Enrique , Díaz-Martín Juan
Published: October 2021

Risk stratification of solitary fibrous tumor (SFT) patients based on clinicopathological features has limited efficacy, especially in predicting late relapse or metastasis. The hallmark alteration of SFT is the gene fusion NAB2-STAT6, whose prognostic value remains controversial. As biological knowledge of this entity has increased in recent years, new molecular alterations have emerged that could be helpful to refine current risk models. Here, we evaluated NAB2-STAT6 fusion variants and other molecular alterations in a series of 83 SFTs that are enriched in progressing cases. Gene fusion variants were identified by targeted RNA-seq in the whole series, whereas TERT promoter (pTERT) mutations were inspected by Sanger sequencing in a subset of 18 cases. Immunohistochemical assays were performed to assess BCOR and NTRK expression as well as P53 mutation status in 45, 44, and 44 cases, respectively. While confirming the associations of gene fusion variants with clinicopathological parameters, our results do not prove their prognostic value. Pan-TRK immunoexpresion correlated with recurrence/progression, P53 staining associated with higher mitotic counts, and pTERT mutations were enriched in cases with fatal outcome. An intriguing correlation was found for BCOR protein expression with gene fusion variants, size, and tumor location.
Future Perspective of Chemotherapy and Pharmacotherapy in Thymic Carcinoma
Authors: Kitadai Rui , Okuma Yusuke
Published: October 2021

Thymic carcinoma is a rare cancer that arises from thymic epithelial cells. Its nature and pathology differ from that of benign thymoma, presenting a poorer prognosis. If surgically resectable, surgery alone or surgery followed by chemoradiotherapy or radiotherapy is recommended by the National Comprehensive Cancer Network Guidelines. Metastatic and refractory thymic carcinomas require systemic pharmacotherapy. Combined carboplatin and paclitaxel, and cisplatin and anthracycline-based regimens have been shown a fair response rate and survival to provide a de facto standard of care when compared with other drugs employed as first-line chemotherapy. Cytotoxic agents have been pivotal for treating thymic carcinoma, as little is known regarding its tumorigenesis. In addition, genetic alterations, including driver mutations, which play an important role in treatments, have not yet been discovered. However, molecular pathways and biomarker studies assessing thymic epithelial tumors have been reported recently, resulting in the development of new agents, such as molecular targeted agents and immune checkpoint inhibitors. As treatment options are currently limited and the prognosis remains poor in metastases and recurrent thymic carcinoma, genetic alterations need to be assessed. In the present review, we focused on the current role of targeted therapies and immune checkpoint inhibitors in treating thymic carcinoma.
Precision Oncology of High-Grade Ovarian Cancer Defined through Targeted Sequencing
Authors: Wessman Sandra , Fuentes Beatriz , Törngren Therese , Kvist Anders , Kokaraki Georgia , Menkens Hanna , Hjerpe Elisabet , Santos Ythalo Hugo da Silva , Petta Tirzah , Borg Åke , Carlson Joseph
Published: October 2021

Background: We examined whether molecular characterization of high-grade epithelial ovarian cancer can inform the diagnosis and/or identify potential actionable targets. Methods: All of the consecutively sequenced high-grade ovarian tumours with consent between 2014 until 2019 were included. A total of 274 tumours underwent next generation sequencing using a targeted panel. Results: Patients with high-grade ovarian epithelial cancer were consented to prospective molecular characterization. Clinical information was extracted from their medical record. Tumour DNA was subjected to sequencing, and selected patients received PARP inhibitor therapy. Conclusions: Tumours from 274 women were sequenced, including high-grade serous carcinoma (n = 252), clear cell carcinoma (n = 4), carcinosarcoma (n = 9), endometrioid carcinoma (n = 3), undifferentiated carcinoma (n = 1), and mixed tumours (n = 5). Genomic profiling did not influence histologic diagnosis. Mutations were identified in TP53, BRCA1, BRCA2, as well as additional homologous recombination repair pathway genes BARD1, ATR, CHEK2, PALB2, RAD51D, RAD50, SLX4, FANCA, RAD51C, and RAD54L. In addition, mutations in PTEN and CDKN2A were identified. Several somatic mutations with implications for germline testing were identified, including RMI1, STK11, and CDH1. Germline testing identified 16 previously unknown BRCA1/2 carriers. Finally, 20 patients were treated with the PARP inhibitor olaparib based on the sequencing results.
Long-Term Follow-Up of Patients Receiving Neoadjuvant Treatment Modalties for Soft Tissue Sarcomas of the Extremities
Authors: Rauch Miriam , Agaimy Abbas , Semrau Sabine , Willner Alexander , Ott Oliver , Fietkau Rainer , Hohenberger Werner , Croner Roland S. , Grützmann Robert , Fechner Katja , Vassos Nikolaos
Published: October 2021

Background: Neoadjuvant treatment modalities in soft tissue sarcoma (STS) of the extremities have become more popular in recent years, but because of the rarity and heterogeneity of STS, there are yet few studies on the long-term impact of neoadjuvant treatment modalities, especially in terms of neoadjuvant radiochemotherapy. Methods: The study enrolled 136 patients with primary STS of the extremities who underwent surgery with curative intent or neoadjuvant therapy, followed by surgery in a 15-year period. Neoadjuvant treatment consisted of radiotherapy (RT) with 60 Gy and in most cases simultaneous chemotherapy (CTx) with ifosfamide (1.5 g/m2/d, d1–5, q28) and doxorubicine (50 mg/m2/d, d3, q28). We investigated the clinical, (post)-operative and histopathological data and the oncological follow-up as well. The median follow-up period was 82 months (range 6–202). Results: A total of 136 patients (M:F = 73:63) with a mean age of 62 years (range; 21–93) was observed. Seventy-four patients (54.4%) received neoadjuvant therapy (NT), 62 patients (45.6%) received primary surgery (PS). When receiving NT, patients with high-risk STS had a lower risk to develop distant metastasis (p = 0.025). Age, histological type, tumor size and surgical margins (R0 vs. R1) had no influence on any survival rates. There was an association between NT and the occurrence of postoperative complications (p = 0.001). The 5-year local recurrence free survival (LRFS), metastasis free survival (MFS), disease free survival (DFS) and overall survival (OS) rate of the whole cohort was 89.9%, 77.0%, 70.6% and 72.6%; whereas the 5-year LRFS, MFS, DFS and OS rate was 90.5%, 67.2%, 64.1% and 62.8% for the NT group and 89.5%, 88.3%. 78.4% and 83.8% for the PS group. Conclusions: Multimodal treatment strategies in patients with STS of extremities lead to excellent oncological outcomes. Patients with high-risk STS had a significantly better MFS when receiving NT than patients with low-risk STS. NT was associated with a higher probability of postoperative but well-manageable complications.
Landscape of Immune-Related Markers and Potential Therapeutic Targets in Soft Tissue Sarcoma
Authors: Roszik Jason , Mustachio Lisa Maria , Livingston John A. , Groisberg Roman , Carmagnani Pestana Roberto , Subbiah Vivek , Conley Anthony P.
Published: October 2021

Soft tissue sarcomas, depending on the subtype and grade, frequently recur and become metastatic after localized treatment. There is now great interest in applying immunotherapy to sarcomas to immuno-profile the different subtypes and immune monitor for prognosis. Our group previously showed that key immunotherapy target genes are present in sarcomas. Here, we extend our findings by demonstrating that sarcomas with a relatively high mutational load are likely to be more sensitive to immunotherapy compared to sarcomas with a lower mutation load. We also show that sarcomas with a higher mutation load are associated with the expression of key immune-related genes. We found that CD8+ T cells are present in sarcoma subtypes and that PD-L2 is highly expressed. These findings further define potential mechanisms behind the immunotherapy response of specific sarcoma subtypes and can be used to develop more optimal treatments in the future.
Masaoka-Koga and TNM Staging System in Thymic Epithelial Tumors: Prognostic Comparison and the Role of the Number of Involved Structures
Authors: Chiappetta Marco , Lococo Filippo , Pogliani Luca , Sperduti Isabella , Tabacco Diomira , Bria Emilio , D’Argento Ettore , Massaccesi Mariangela , Boldrini Luca , Meacci Elisa , Porziella Venanzio , Nachira Dania , Congedo Maria Teresa , Margaritora Stefano
Published: October 2021

Background: The aim of this study was to evaluate the Masaoka–Koga and the tumor node metastases (TNM) staging system in thymic epithelial tumors (TET) considering possible improvements. Methods: We reviewed the data of 379 patients who underwent surgical resection for TET from 1 January 1985 to 1 January 2018, collecting and classifying the pathological report according to the Masaoka–Koga and the TMN system. The number of involved organs was also considered as a possible prognostic factor and integrated in the two staging systems to verify its impact. Results: Considering the Masaoka–Koga system, 5- and 10-year overall survival (5–10YOS) was 96.4% and 88.9% in stage I, 95% and 89.5% in stage II and 85.4% and 72.8% in stage III (p = 0.01), with overlapping in stage I and stage II curves. Considering the TNM system, 5–10YOS was 95.5% and 88.8% in T1, 84.8% and 70.7% in T2 and 88% and 76.3% in T3 (p = 0.02), with overlapping T2–T3 curves. Including the number of involved structures, in Masaoka–Koga stage III, patients with singular involved organs had a 100% and 76.6% vs. 87.7% 5–10YOS, which was 76.6% in patients with multiple organ infiltration. Considering the TNM, T3 patients with singular involved structures presented a 5–10YOS of 100% vs. 62.5% and 37.5% in patients with multiple organ involvement (p = 0.07). Conclusion: The two staging systems present limitations due to overlapping curves in early Masaoka–Koga stages and in advanced T stages for TNM. The addition of the number of involved organs seems to be a promising factor for the prognosis stratification in these patients.
Circulating microRNAs Correlate with Multiple Myeloma and Skeletal Osteolytic Lesions
Authors: Moura Sara Reis , Abreu Hugo , Cunha Carla , Ribeiro-Machado Cláudia , Oliveira Carla , Barbosa Mario Adolfo , Marques Herlander , Almeida Maria Inês
Published: October 2021

Multiple myeloma (MM) is the second most frequent hematological disease and can cause skeletal osteolytic lesions. This study aims to evaluate the expression of circulating microRNAs (miRNAs) in MM patients and to correlate those levels with clinicopathological features, including bone lesions. A panel of miRNAs associated with MM onset and progression, or with bone remodeling, was analyzed in the plasma of 82 subjects (47 MM patients; 35 healthy controls). Results show that miR-16-5p, miR-20a-5p, and miR-21-5p are differently expressed between MM patients and healthy controls. Receiver operating characteristic analyses indicate that their combined expression has potential as a molecular marker (Area Under the Curve, AUC of 0.8249). Furthermore, significant correlations were found between the analyzed miRNAs and disease stage, treatment, β2 microglobulin, serum albumin and creatinine levels, but not with calcium levels or genetic alterations. In this cohort, 65.96% of MM patients had bone lesions, the majority of which were in the vertebrae. Additionally, miR-29c-3p was decreased in patients with osteolytic lesions compared with patients without bone disease. Interestingly, circulating levels of miR-29b-3p correlated with cervical and thoracic vertebral lesions, while miR-195-5p correlated with thoracic lesions. Our findings suggest circulating miRNAs can be promising biomarkers for MM diagnosis and that their levels correlate with myeloma bone disease and osteolytic lesions.
Underground Upgrading of the Heavy Crude Oil in Content-Saturated Sandstone with Aquathermolysis in the Presence of an Iron Based Catalyst
Authors: Sitnov Sergey A. , Mukhamatdinov Irek I. , Feoktistov Dmitry A. , Onishchenko Yaroslav V. , Sudakov Vladislav A. , Amerkhanov Marat I. , Vakhin Alexey V.
Published: October 2021

Increasing the efficiency of thermal recovery methods is an important and relevant task. This study is devoted to reducing heavy components (resins and asphaltenes) and quality improvement of heavy oil by catalytic hydrothermal treatment. The object of this study is a bituminous sandstone sample from the Ashal’cha reservoir. The catalytic (iron tallate) hydrothermal simulation was carried out under reservoir conditions (200 °C, 30 bar). The composition and physicochemical characteristics of the products were studied using elemental and SARA analysis, MALDI, GC-MS, FT-IR. Moreover, the extracted rock is analyzed in XRD and DSA (Drop Shape Analyzer). The introduction of catalyst in combination with a hydrogen donor reduces the content of resins by 22.0%wt. with an increase in the share of saturated hydrocarbons by 27%wt. The destructive hydrogenation leads to a decrease in the sulfur content of upgrading products. This is crucial for the oil reservoirs of the Tatarstan Republic, as their crude oils are characterized by high sulfur content. According to the wettability data, the hydrophilicity of the rock surface increases due to inhibition of the coke formation after the introduction of the catalytic complex. Thus, the oil recovery factor can be increased due to the alteration of the oil-wetting properties of reservoir rocks.
The Effect of Transition Metal Substitution in the Perovskite-Type Oxides on the Physicochemical Properties and the Catalytic Performance in Diesel Soot Oxidation
Authors: Yafarova Liliya V. , Mamontov Grigory V. , Chislova Irina V. , Silyukov Oleg I. , Zvereva Irina A.
Published: October 2021

The paper is focused on the Fe for Co substitution effect on the redox and catalytic properties in the perovskite structure of GdFeO3. The solid oxides with the composition GdFe1−xCoxO3 (x = 0; 0.2; 0.5; 0.8; 1) were obtained by the sol-gel method and characterized by various methods: X-ray diffraction (XRD), temperature-programmed reduction (H2-TPR), N2 sorption, temperature-programmed desorption of oxygen (TPD-O2), simultaneous thermal analysis (STA), and X-ray photoelectron spectroscopy (XPS). The H2-TPR results showed that an increase in the cobalt content in the GdFe1−xCoxO3 (x = 0; 0.2; 0.5; 0.8; 1) leads to a decrease in the reduction temperature. Using the TPD-O2 and STA methods, the lattice oxygen mobility is increasing in the course of the substitution of Fe for Co. Thus, the Fe substitution in the perovskite leads to an improvement in the oxygen reaction ability. Experiments on the soot oxidation reveal that catalytic oxidation ability increases in the series: GdFe0.5Co0.5O3 ˂ GdFe0.2Co0.8O3 ˂ GdCoO3, which is in good correlation with the increasing oxygen mobility according to H2-TPR, TPD-O2, and STA results. The soot oxidation over GdFeO3 and GdFe0.8Co0.2O3 is not in this range due to the impurities of iron oxides and higher specific surface area.
Preharvest Application of Hexanal as a Surface Treatment Improved the Storage Life and Quality of Mango Fruits
Authors: Preethi Palpandian , Soorianathasundaram Kadambavanasundaram , Sadasakthi Athipathi , Subramanian Kizhaeral Sevathapandian , Vijay Rakesh Reddy Sanikommu , Paliyath Gopinadhan , Subramanian Jayasankar
Published: October 2021

Mango is a highly preferred seasonal tropical fruit with a maximum shelf-life of five to seven days. Hexanal is a plant volatile compound assayed in green tissues and showing significance in enhancing storage life and fruit quality attributes by preserving membrane integrity. This experiment explored the effect of the pre-harvest application of an aqueous hexanal composition (active ingredient: 0.02% hexanal) in altering the post-harvest storage behavior of four mango cultivars. The pre-harvest application of the hexanal formulation to the fruit surface twice before the harvest date drastically slowed down the physiological loss in weight by 70% to 80%, and reduced the ethylene evolution rate by two to three folds, respectively. The pre-harvest hexanal formulation spray combined with post-harvest cold storage prominently improved the storage life along with the total soluble solids, total sugars, ascorbic acid and carotenoid content compared to untreated fruits stored in ambient conditions. Though ripening coincides with the increased activity of enzymes, the hexanal formulation spray acts predominantly in bringing down the activities of fruit softening enzymes viz. pectinmethlyesterase (43%) and polygalacturonases (37%), and antioxidant enzymes viz. peroxidase (67%) and catalase (45%), respectively.
Backbone Conformation Shifts in X-ray Structures of Human Acetylcholinesterase upon Covalent Organophosphate Inhibition
Authors: Luedtke Stephanie , Bojo Celine , Li Yunshen , Luna Emilio , Pomar Bianca , Radić Zoran
Published: October 2021

Conformations of Cα backbones in X-ray structures of most organophosphate (OP)-inhibited human acetylcholinesterases (hAChEs) have been previously shown to be similar to that of the native hAChE. One of the exceptions is the structure of the diethylphosphoryl-hAChE conjugate, where stabilization of a large ethoxy group into the acyl pocket (AP) of hAChE-triggered notable loop distortions and consequential dissociation of the hAChE homodimer. Recently, six X-ray structures of hAChE conjugated with large OP nerve agents of the A-type, Novichoks, have been deposited to PDB. In this study we analyzed backbone conformation shifts in those structures, as well as in OP-hAChE conjugates formed by Paraoxon, Soman, Tabun, and VX. A Java-based pairwise alpha carbon comparison tool (PACCT 3) was used for analysis. Surprisingly, despite the snug fit of large substituents on phosphorus, inside Novichok-conjugated hAChEs only minor conformational changes were detected in their backbones. Small magnitudes of observed changes were due to a 1.2–2.4 Å shift of the entire conjugated OP away from the AP. It thus appears that the small AP of AChEs can accommodate, without distortion, substituents of the size of ethoxy or butyryl groups, provided that conjugated OP is “pulled” away from the AP. This observation has practical consequences in the structure-based design of nucleophilic reactivation antidotes as well as in the definition of the AChE specificity that relies on the size of its AP.
Omental Macrophagic “Crown-like Structures” Are Associated with Poor Prognosis in Advanced-Stage Serous Ovarian Cancer
Authors: Liang Yu-Ling , Lin Chang-Ni , Tsai Hsing-Fen , Wu Pei-Ying , Lin Sheng-Hsiang , Hong Tse-Ming , Hsu Keng-Fu
Published: October 2021

The tumor microenvironment is a well-recognized framework in which immune cells present in the tumor microenvironment promote or inhibit cancer formation and development. A crown-like structure (CLS) has been reported as a dying or dead adipocyte surrounded by a ‘crown’ of macrophages within adipose tissue, which is a histologic hallmark of the inflammatory process in this tissue. CLSs have also been found to be related to formation, progression and prognosis of some types of cancer. However, the presence of CLSs in the omentum of advanced-stage high-grade serous ovarian carcinoma (HGSOC) has not been thoroughly investigated. By using CD68, a pan-macrophage marker, and CD163, an M2-like polarization macrophage marker, immunohistochemistry (IHC) was performed to identify tumor-associated macrophages (TAMs) and CLSs. This retrospective study analyzed 116 patients with advanced-stage HGSOC who received complete treatment and had available clinical data from July 2008 through December 2016 at National Cheng Kung University Hospital (NCKUH) (Tainan, Taiwan). Based on multivariate Cox regression analysis, patients with omental CD68+ CLSs had poor OS (median survival: 24 vs. 38 months, p = 0.001, hazard ratio (HR): 2.26, 95% confidence interval (CI): 1.41–3.61); patients with omental CD163+ CLSs also had poor OS (median survival: 22 vs. 36 months, HR: 2.14, 95%CI: 1.33–3.44, p = 0.002). Additionally, patients with omental CD68+ or CD163+ CLSs showed poor PFS (median survival: 11 vs. 15 months, HR: 2.28, 95%CI: 1.43–3.64, p = 0.001; median survival: 11 vs. 15 months, HR: 2.17, 95%CI: 1.35–3.47, respectively, p = 0.001). Conversely, the density of CD68+ or CD163+ TAMs in ovarian tumors was not associated with patient prognosis in advanced-stage HGSOC in our cohort. In conclusion, we, for the first time, demonstrate that the presence of omental CLSs is associated with poor prognosis in advanced-stage HGSOC.
Is a High Abundance of Spring Diatoms in the Photic Zone of Lake Baikal in July 2019 Due to an Upwelling Event?
Authors: Grachev Mikhail , Bukin Yurij , Blinov Vadim , Khlystov Oleg , Firsova Alena , Bashenkhaeva Maria , Kamshilo Oxana , Titova Lubov , Bairamova Elvira , Bedoshvili Yekaterina , Sakirko Maria , Zakharova Yulia
Published: October 2021

A high abundance of planktonic microalgae is typically thought to be related to their ‘bloom’, that is, to active population growth. Diatom blooms in the photic zone of Lake Baikal generally occur during hydrological spring (April–June); when the summer arrives and the surface water temperature increases, diatoms are replaced by other microalgae. In July 2019, we found a concentration of the diatom Fragilaria radians at a station in South Baikal that was extremely high for that season. This species generally blooms in spring, but in spring (May) of 2019, this alga was nearly absent from the phytoplankton population. Microscopic analysis of the sample taken in July 2019 revealed that the cells were in a dormant stage. The species composition of microalgae in phytoplankton samples from May 2018 and July 2019 was similar. According to the temperature profile analysis, a summer upwelling event from a depth of ca. 100 m occurred in 2019. We hypothesised that this event caused the resuspension of microalgae, including Fragilaria radians, which were deposited on the slopes of the lake in 2018. Hence, the high abundance is not always a ‘bloom’ or an active growth.
Factors Influencing Concordance of PD-L1 Expression between Biopsies and Cytological Specimens in Non-Small Cell Lung Cancer
Authors: Mansour Mohammed S. I. , Hejny Kim , Johansson Felicia , Mufti Joudy , Vidis Ante , Mager Ulrich , Dejmek Annika , Seidal Tomas , Brunnström Hans
Published: October 2021

PD-L1 expression assessed by immunohistochemical staining is used for the selection of immunotherapy in non-small cell lung cancer (NSCLC). Appropriate validation of PD-L1 expression in cytology specimens is important as cytology is often the only diagnostic material in NSCLC. In a previous study comprising two different cohorts of paired biopsies and cytological specimens, we found a fairly good cyto-histological correlation of PD-L1 expression in one, whereas only a moderate correlation was found in the other cohort. Therefore, that cohort with additional new cases was now further investigated for the impact of preanalytical factors on PD-L1 concordance in paired biopsies and cytological specimens. A total of 100 formalin-fixed paraffin-embedded cell blocks from 19 pleural effusions (PE), 17 bronchial brushes (BB), and 64 bronchoalveolar lavage (BAL) and concurrent matched biopsies from 80 bronchial biopsies and 20 transthoracic core biopsies from NSCLC patients were stained using the PD-L1 28-8 assay. Using the cutoffs ≥1%, ≥5%, ≥10%, and ≥50% positive tumour cells, the overall agreement between histology and cytology was 77–85% (κ 0.51–0.70) depending on the applied cutoff value. The concordance was better for BALs (κ 0.53–0.81) and BBs (κ 0.55–0.85) than for PEs (κ −0.16–0.48), while no difference was seen for different types of biopsies or histological tumour type. A high number of tumour cells (>500) in biopsies was associated with better concordance at the ≥50% cutoff. In conclusion, the study results suggest that PEs may be less suitable for evaluation of PD-L1 due to limited cyto-histological concordance, while a high amount of tumour cells in biopsies may be favourable when regarding cyto-histological PD-L1 concordance.
Radial Basis Function for Breast Lesion Detection from MammoWave Clinical Data
Authors: Rana Soumya Prakash , Dey Maitreyee , Loretoni Riccardo , Duranti Michele , Sani Lorenzo , Vispa Alessandro , Ghavami Mohammad , Dudley Sandra , Tiberi Gianluigi
Published: October 2021

Recently, a novel microwave apparatus for breast lesion detection (MammoWave), uniquely able to function in air with 2 antennas rotating in the azimuth plane and operating within the band 1–9 GHz has been developed. Machine learning (ML) has been implemented to understand information from the frequency spectrum collected through MammoWave in response to the stimulus, segregating breasts with and without lesions. The study comprises 61 breasts (from 35 patients), each one with the correspondent output of the radiologist’s conclusion (i.e., gold standard) obtained from echography and/or mammography and/or MRI, plus pathology or 1-year clinical follow-up when required. The MammoWave examinations are performed, recording the frequency spectrum, where the magnitudes show substantial discrepancy and reveals dissimilar behaviours when reflected from tissues with/without lesions. Principal component analysis is implemented to extract the unique quantitative response from the frequency response for automated breast lesion identification, engaging the support vector machine (SVM) with a radial basis function kernel. In-vivo feasibility validation (now ended) of MammoWave was approved in 2015 by the Ethical Committee of Umbria, Italy (N. 6845/15/AV/DM of 14 October 2015, N. 10352/17/NCAV of 16 March 2017, N 13203/18/NCAV of 17 April 2018). Here, we used a set of 35 patients. According to the radiologists conclusions, 25 breasts without lesions and 36 breasts with lesions underwent a MammoWave examination. The proposed SVM model achieved the accuracy, sensitivity, and specificity of 91%, 84.40%, and 97.20%. The proposed ML augmented MammoWave can identify breast lesions with high accuracy.
An Adaptive Deblurring Vehicle Detection Method for High-Speed Moving Drones: Resistance to Shake
Authors: Liu Yan , Wang Jingwen , Qiu Tiantian , Qi Wenting
Published: October 2021

Vehicle detection is an essential part of an intelligent traffic system, which is an important research field in drone application. Because unmanned aerial vehicles (UAVs) are rarely configured with stable camera platforms, aerial images are easily blurred. There is a challenge for detectors to accurately locate vehicles in blurred images in the target detection process. To improve the detection performance of blurred images, an end-to-end adaptive vehicle detection algorithm (DCNet) for drones is proposed in this article. First, the clarity evaluation module is used to determine adaptively whether the input image is a blurred image using improved information entropy. An improved GAN called Drone-GAN is proposed to enhance the vehicle features of blurred images. Extensive experiments were performed, the results of which show that the proposed method can detect both blurred and clear images well in poor environments (complex illumination and occlusion). The detector proposed achieves larger gains compared with SOTA detectors. The proposed method can enhance the vehicle feature details in blurred images effectively and improve the detection accuracy of blurred aerial images, which shows good performance with regard to resistance to shake.
Anharmonic Effects on the Thermodynamic Properties of Quartz from First Principles Calculations
Authors: Murri Mara , Prencipe Mauro
Published: October 2021

The simple chemistry and structure of quartz together with its abundance in nature and its piezoelectric properties make convenient its employment for several applications, from engineering to Earth sciences. For these purposes, the quartz equations of state, thermoelastic and thermodynamic properties have been studied since decades. Alpha quartz is stable up to 2.5 GPa at room temperature where it converts to coesite, and at ambient pressure up to 847 K where it transforms to the beta phase. In particular, the displacive phase transition at 847 K at ambient pressure is driven by intrinsic anharmonicity effects (soft-mode phase transition) and its precise mechanism is difficult to be investigated experimentally. Therefore, we studied these anharmonic effects by means of ab initio calculations in the framework of the statistical thermodynamics approach. We determined the principal thermodynamic quantities accounting for the intrinsic anharmonicity and compared them against experimental data. Our results up to 700 K show a very good agreement with experiments. The same procedures and algorithms illustrated here can also be applied to determine the thermodynamic properties of other crystalline phases possibly affected by intrinsic anharmonic effects, that could partially invalidate the standard quasi-harmonic approach.
The Statistical Foundations of Entropy
Authors: Jizba Petr , Korbel Jan
Published: October 2021

During the last few decades, the notion of entropy has become omnipresent in many scientific disciplines, ranging from traditional applications in statistical physics and chemistry, information theory, and statistical estimation to more recent applications in biology, astrophysics, geology, financial markets, or social networks [...]
Entropy Method for Decision-Making: Uncertainty Cycles in Tourism Demand
Authors: Ruiz Reina Miguel Ángel
Published: October 2021

A new methodology is presented for measuring, classifying and predicting the cycles of uncertainty that occur in temporary decision-making in the tourist accommodation market (apartments and hotels). Special attention is paid to the role of entropy and cycles in the process under the Adaptive Markets Hypothesis. The work scheme analyses random cycles from time to time, and in the frequency domain, the linear and nonlinear causality relationships between variables are studied. The period analysed is from January 2005 to December 2018; the following empirical results stand out: (1) On longer scales, the periodicity of the uncertainty of decision-making is between 6 and 12 months, respectively, for all the nationalities described. (2) The elasticity of demand for tourist apartments is approximately 1% due to changes in demand for tourist hotels. (3) The elasticity of the uncertainty factor is highly correlated with the country of origin of tourists visiting Spain. For example, it has been empirically shown that increases of 1% in uncertainty cause increases in the demand for apartments of 2.12% (worldwide), 3.05% (UK), 1.91% (Germany), 1.78% (France), 7.21% (Ireland), 3.61% (The Netherlands) respectively. This modelling has an explanatory capacity of 99% in all the models analysed.
Justifying Born’s Rule Pα = |Ψα|2 Using Deterministic Chaos, Decoherence, and the de Broglie–Bohm Quantum Theory
Authors: Drezet Aurélien
Published: October 2021

In this work, we derive Born’s rule from the pilot-wave theory of de Broglie and Bohm. Based on a toy model involving a particle coupled to an environment made of “qubits” (i.e., Bohmian pointers), we show that entanglement together with deterministic chaos leads to a fast relaxation from any statistical distribution ρ(x) of finding a particle at point x to the Born probability law |Ψ(x)|2. Our model is discussed in the context of Boltzmann’s kinetic theory, and we demonstrate a kind of H theorem for the relaxation to the quantum equilibrium regime.
Novel Method of Coupling Coefficient Estimation Based on the Bifurcation Phenomena in Inductive Power Transfer
Authors: Košík Michal , Scher Aaron D. , Lettl Jiří
Published: October 2021

Inductive power transfer (IPT) applications, such as stationary charging of electric vehicles (EVs), at least moderate coupling between the coils to achieve high efficiency, but the coefficient k typically varies between of 0.1 to 0.4, depending on the displacement of the coils according to SAE J2954. Thus, accurate and reliable methods for estimation of k are required for positioning of the EV to achieve optimal alignment with the charging pad. Additionally, in IPT, numerous control strategies are available for regulating output power and optimizing system efficiency that require an accurate estimate of the mutual inductance or k. However, existing estimation methods tend to require detailed a-priori information of a large number of circuit parameters, or they need measurement of currents or voltages in both primary and secondary sides. This paper presents a preliminary evaluation of a novel, primary-side method to estimate k, which is based solely on the frequency response of the input phase while operating the system in bifurcation. The method does not require any additional measurements of the system parameters. The theoretical background of the method is presented together with the description of the measurement procedure. The method is experimentally verified and compared with two currently used estimation methods. According to the presented experimental evaluation, the proposed method estimates k with an error of 3.62% with respect to the reference over the evaluated range of 0.08 to 0.36. In addition, we demonstrate that the presented method is resilient to detuning.
Selective Disinfection Based on Directional Ultraviolet Irradiation and Artificial Intelligence
Authors: Zierdt Ben , Shi Taichu , DeGroat Thomas , Furman Sam , Papas Nicholas , Smoot Zachary , Zhang Hong , Wu Ben
Published: October 2021

Ultraviolet disinfection has been proven to be effective for surface sanitation. Traditional ultraviolet disinfection systems generate omnidirectional radiation, which introduces safety concerns regarding human exposure. Large scale disinfection must be performed without humans present, which limits the time efficiency of disinfection. We propose and experimentally demonstrate a targeted ultraviolet disinfection system using a combination of robotics, lasers, and deep learning. The system uses a laser-galvo and a camera mounted on a two-axis gimbal running a custom deep learning algorithm. This allows ultraviolet radiation to be applied to any surface in the room where it is mounted, and the algorithm ensures that the laser targets the desired surfaces avoids others such as humans. Both the laser-galvo and the deep learning algorithm were tested for targeted disinfection.