bluuebunny/crossref_metadata_2025 huggingface dataset:
Logical–Mathematical Foundations of a Graph Query Framework for Relational Learning
Authors: Almagro-Blanco Pedro , Sancho-Caparrini Fernando , Borrego-Díaz Joaquín
Published: November 2023

Relational learning has attracted much attention from the machine learning community in recent years, and many real-world applications have been successfully formulated as relational learning problems. In recent years, several relational learning algorithms have been introduced that follow a pattern-based approach. However, this type of learning model suffers from two fundamental problems: the computational complexity arising from relational queries and the lack of a robust and general framework to serve as the basis for relational learning methods. In this paper, we propose an efficient graph query framework that allows for cyclic queries in polynomial time and is ready to be used in pattern-based learning methods. This solution uses logical predicates instead of graph isomorphisms for query evaluation, reducing complexity and allowing for query refinement through atomic operations. The main differences between our method and other previous pattern-based graph query approaches are the ability to evaluate arbitrary subgraphs instead of nodes or complete graphs, the fact that it is based on mathematical formalization that allows the study of refinements and their complementarity, and the ability to detect cyclic patterns in polynomial time. Application examples show that the proposed framework allows learning relational classifiers to be efficient in generating data with high expressiveness capacities. Specifically, relational decision trees are learned from sets of tagged subnetworks that provide both classifiers and characteristic patterns for the identified classes.
Output Feedback Control Design for Switched Systems with Unmatched Uncertainties Based on the Switched Robust Integral Sliding Mode
Authors: Zhang Xiaoyu , Xiong Shuiping
Published: November 2023

This paper proposes an output feedback sliding-mode control design based on a switched robust integral sliding mode for switched systems with unmatched uncertainties. First, the control task based on the observer is given while the system state information cannot be measured directly. Then, the switched robust integral sliding mode is constructed on the space of the estimated state, while the parameters of the switched robust integral sliding mode are selected ensuring that the system state in the sliding mode is robustly and exponentially stable. Linear matrix inequality conditions for the stabilization switching rule and the common Lyapunov function criterion are achieved. Consequently, the corresponding sliding-mode controller is designed based on the state estimation and the switched robust integral sliding mode. Finally, the application simulation results in a one-link manipulator with the load change validate the effectiveness and feasibility.
nmPLS-Net: Segmenting Pulmonary Lobes Using nmODE
Authors: Dong Peizhi , Niu Hao , Yi Zhang , Xu Xiuyuan
Published: November 2023

Pulmonary lobe segmentation is vital for clinical diagnosis and treatment. Deep neural network-based pulmonary lobe segmentation methods have seen rapid development. However, there are challenges that remain, e.g., pulmonary fissures are always not clear or incomplete, especially in the complex situation of the trilobed right pulmonary, which leads to relatively poor results. To address this issue, this study proposes a novel method, called nmPLS-Net, to segment pulmonary lobes effectively using nmODE. Benefiting from its nonlinear and memory capacity, we construct an encoding network based on nmODE to extract features of the entire lung and dependencies between features. Then, we build a decoding network based on edge segmentation, which segments pulmonary lobes and focuses on effectively detecting pulmonary fissures. The experimental results on two datasets demonstrate that the proposed method achieves accurate pulmonary lobe segmentation.
Analysis of Excitement Caused by Colored Noise in a Thermokinetic Model
Authors: Ryashko Lev
Published: November 2023

In this paper, a thermokinetic model forced by colored noise is studied. We analyze the mechanisms of stochastic excitement of equilibrium modes under variation of correlation time and noise intensity. It is shown that the phenomenon of colored-noise-induced excitement is accompanied by stochastic P-bifurcations. The region of the correlation parameter in which resonance occurs is localized. To study the phenomenon of colored-noise-induced excitement, we develop the probabilistic analysis based on the confidence domains method.
Convergence of the Euler Method for Impulsive Neutral Delay Differential Equations
Authors: Sun Yang , Zhang Gui-Lai , Wang Zhi-Wei , Liu Tao
Published: November 2023

In this paper, we are concerned with a fixed stepsize Euler method for a class of linear impulsive neutral delay differential equations. By taking the partition nodes for the Euler scheme and employing the linear interpolation, we strictly prove the method is convergent of order one. Two examples illustrating the efficiency results are also presented.
Electric Fields at the Lipid Membrane Interface
Authors: Ermakov Yury
Published: November 2023

This review presents a comprehensive analysis of electric field distribution at the water–lipid membrane interface in the context of its relationship to various biochemical problems. The main attention is paid to the methodological aspects of bioelectrochemical techniques and quantitative analysis of electrical phenomena caused by the ionization and hydration of the membrane–water interface associated with the phase state of lipids. One of the objectives is to show the unique possibility of controlling changes in the structure of the lipid bilayer initiated by various membrane-active agents that results in electrostatic phenomena at the surface of lipid models of biomembranes—liposomes, planar lipid bilayer membranes (BLMs) and monolayers. A set of complicated experimental facts revealed in different years is analyzed here in order of increasing complexity: from the adsorption of biologically significant inorganic ions and phase rearrangements in the presence of multivalent cations to the adsorption and incorporation of pharmacologically significant compounds into the lipid bilayer, and formation of the layers of macromolecules of different types.
Influence of the Cell Type on the Physical Processes of the Mechanical Recycling of Automotive Lithium-Ion Batteries
Authors: Wilke Christian , Kaas Alexandra , Peuker Urs Alexander
Published: November 2023

Lithium-Ion Battery (LIB) manufacturers produce different cell formats (prismatic, cylindrical, pouch, etc.) with different casing materials (steel or aluminium) and cell chemistries (e.g., NMC, NCA, LFP, etc.) for application in electric vehicles. By law, these cells have to be recycled after their lifetime. This study investigates the influence of different cell types on the outcome of a standardized mechanical recycling process consisting of crushing, sieving and air classification. The aim of the study is to find out whether different cell types can be processed together or whether the recovery and product quality can be improved by processing them separately. Pouch cells require low energy consumption for crushing compared to cylindrical and prismatic cells. Steel as a casing material increases the energy requirement during crushing compared to aluminium. The particle size distribution of several product fractions varies significantly between the different cell types. During air classification, the separator, anode, and cathode show a similar separation behaviour and can be processed with the same settings, whereas for the separation of the casing metals, different settling velocities need to be applied depending on the casing material.
Bacteria Associated with Acute Oak Decline: Where Did They Come From? We Know Where They Go
Authors: Maddock Daniel , Brady Carrie , Denman Sandra , Arnold Dawn
Published: November 2023

Acute oak decline is a high-impact disease causing necrotic lesions on the trunk, crown thinning and the eventual death of oak. Four bacterial species are associated with the lesions—Brenneria goodwinii, Gibbsiella quercinecans, Rahnella victoriana and Lonsdalea Britannica—although an epi-/endophytic lifestyle has also been suggested for these bacteria. However, little is known about their environmental reservoirs or their pathway to endophytic colonisation. This work aimed to investigate the ability of the four AOD-associated bacterial species to survive for prolonged periods within rhizosphere soil, leaves and acorns in vitro, and to design an appropriate method for their recovery. This method was trialled on field samples related to healthy and symptomatic oaks. The in vitro study showed that the majority of these species could survive for at least six weeks within each sample type. Results from the field samples demonstrated that R. victoriana and G. quercinecans appear environmentally widespread, indicating multiple routes of endophytic colonisation might be plausible. B. goodwinii and L. britannica were only identified from acorns from healthy and symptomatic trees, indicating they may be inherited members of the endophytic seed microbiome and, despite their ability to survive outside of the host, their environmental occurrence is limited. Future research should focus on preventative measures targeting the abiotic factors of AOD, how endophytic bacteria shift to a pathogenic cycle and the identification of resilient seed stock that is less susceptible to AOD.
Prevalence of Diarrhoeagenic Escherichia coli among Children Aged between 0–36 Months in Peri-Urban Areas of Lusaka
Authors: Mwape Kapambwe , Bosomprah Samuel , Chibesa Kennedy , Silwamba Suwilanji , Luchen Charlie Chaluma , Sukwa Nsofwa , Mubanga Cynthia , Phiri Bernard , Chibuye Mwelwa , Liswaniso Fraser , Somwe Paul , Chilyabanyama Obvious , Chisenga Caroline Cleopatra , Muyoyeta Monde , Simuyandi Michelo , Barnard Tobias George , Chilengi Roma
Published: November 2023

Diarrhoea is a major contributor to childhood morbidity and mortality in developing countries, with diarrhoeagenic Escherichia coli being among the top aetiological agents. We sought to investigate the burden and describe the diarrhoeagenic E. coli pathotypes causing diarrhoea among children in peri-urban areas of Lusaka, Zambia. This was a facility-based surveillance study conducted over an 8-month period from 2020 to 2021. Stool samples were collected from children aged 0–3 years presenting with diarrhoea at five peri-urban health facilities in Lusaka. Stool samples were tested for diarrhoeagenic E. coli using the Novodiag bacterial GE+® panel, a platform utilising real-time PCR and microarray technology to detect bacterial pathogens. Of the 590 samples tested, diarrhoeagenic E. coli were detected in 471 (76.1%). The top three pathogens were enteropathogenic E. coli 45.4% (n = 268), enteroaggregative E. coli 39.5% (n = 233), and enterotoxigenic E. coli 29.7% (n = 176). Our results revealed that 50.1% of the diarrhoeagenic E. coli positive samples comprised multiple pathotypes of varying virulence gene combinations. Our study demonstrates a high prevalence of diarrhoeagenic E. coli in childhood diarrhoea and the early exposure (<12 months) of children to enteric pathogens. This calls for the early implementation of preventive interventions for paediatric diarrhoea.
Avirulent Isolates of Penicillium chrysogenum to Control the Blue Mold of Apple Caused by P. expansum
Authors: Bartholomew Holly P. , Luciano-Rosario Dianiris , Bradshaw Michael J. , Gaskins Verneta L. , Peng Hui , Fonseca Jorge M. , Jurick Wayne M.
Published: November 2023

Blue mold is an economically significant postharvest disease of pome fruit that is primarily caused by Penicillium expansum. To manage this disease and sustain product quality, novel decay intervention strategies are needed that also maintain long-term efficacy. Biocontrol organisms and natural products are promising tools for managing postharvest diseases. Here, two Penicillium chrysogenum isolates, 404 and 413, were investigated as potential biocontrol agents against P. expansum in apple. Notably, 404 and 413 were non-pathogenic in apple, yet they grew vigorously in vitro when compared to the highly aggressive P. expansum R19 and Pe21 isolates. Whole-genome sequencing and species-specific barcoding identified both strains as P. chrysogenum. Each P. chrysogenum strain was inoculated in apple with the subsequent co-inoculation of R19 or Pe21 simultaneously, 3, or 7 days after prior inoculation with 404 or 413. The co-inoculation of these isolates showed reduced decay incidence and severity, with the most significant reduction from the longer establishment of P. chrysogenum. In vitro growth showed no antagonism between species, further suggesting competitive niche colonization as the mode of action for decay reduction. Both P. chrysogenum isolates had incomplete patulin gene clusters but tolerated patulin treatment. Finally, hygromycin resistance was observed for both P. chrysogenum isolates, yet they are not multiresistant to apple postharvest fungicides. Overall, we demonstrate the translative potential of P. chrysogenum to serve as an effective biocontrol agent against blue mold decay in apples, pending practical optimization and formulation.
Therapeutic Effects of Zymomonas mobilis on Experimental DSS-Induced Colitis Mouse Model
Authors: Almo Manuela Maragno do , Sousa Isabel Garcia , Olinto Vitor Guimarães , Pinhate Sylvia Barbosa , Jivago José Luiz de Paula Rôlo , de Sousa Davi Emanuel Ribeiro , Castro Márcio Botelho de , Rubini Marciano Régis , Maranhão Andrea Queiroz , Brigido Marcelo Macedo
Published: November 2023

Zymomonas mobilis, a Gram-negative bacteria observed in some popular beverages, is considered safe and has been studied for its potential therapeutic benefits. In this study, we explored its effects on the inflammatory process, tissue integrity, differential gene expression, and microbiota composition in an experimental dextran sulfate sodium (DSS)-induced colitis model in mice. As a result, Z. mobilis alleviated the symptoms caused by DSS administration, as indicated by reduced weight loss, disease activity index, a significant reduction in the colon weight/length ratio, and histopathological improvement. Also, Z. mobilis could restore the mucosal barrier as well as increase the expression of Muc3 and Ocln genes. An analysis of 16S rRNA sequences showed that Z. mobilis alters gut microbiota, increasing Akkermansia muciniphila abundance and decreasing Escherichia coli. Furthermore, Z. mobilis seems to be involved in potentiating a regulatory phenotype by inducing immunomodulatory genes like Tgfb, Il5, Il10, and Foxp3 and reducing the relative mRNA expression of proinflammatory cytokines TNF, Il6, and Il17. Our data suggest that Z. mobilis could alleviate disease progression and be considered a possible probiotic adjuvant for pathologies of the bowel.
Methanomethylophilus alvi gen. nov., sp. nov., a Novel Hydrogenotrophic Methyl-Reducing Methanogenic Archaea of the Order Methanomassiliicoccales Isolated from the Human Gut and Proposal of the Novel Family Methanomethylophilaceae fam. nov.
Authors: Borrel Guillaume , Fadhlaoui Khaled , Ben Hania Wajdi , Gaci Nadia , Pehau-Arnaudet Gérard , Chaudhary Prem Prashant , Vandekerckove Pascal , Ballet Nathalie , Alric Monique , O’Toole Paul William , Fardeau Marie-Laure , Ollivier Bernard , Brugère Jean-François
Published: November 2023

The methanogenic strain Mx-05T was isolated from the human fecal microbiome. A phylogenetic analysis based on the 16S rRNA gene and protein marker genes indicated that the strain is affiliated with the order Methanomassiliicoccales. It shares 86.9% 16S rRNA gene sequence identity with Methanomassiliicoccus luminyensis, the only member of this order previously isolated. The cells of Mx-05T were non-motile cocci, with a diameter range of 0.4–0.7 μm. They grew anaerobically and reduced methanol, monomethylamine, dimethylamine, and trimethylamine into methane, using H2 as an electron donor. H2/CO2, formate, ethanol, and acetate were not used as energy sources. The growth of Mx-05T required an unknown medium factor(s) provided by Eggerthella lenta and present in rumen fluid. Mx-05T grew between 30 °C and 40 °C (optimum 37 °C), over a pH range of 6.9–8.3 (optimum pH 7.5), and between 0.02 and 0.34 mol.L−1 NaCl (optimum 0.12 mol.L−1 NaCl). The genome is 1.67 Mbp with a G+C content of 55.5 mol%. Genome sequence annotation confirmed the absence of the methyl branch of the H4MPT Wood–Ljungdahl pathway, as described for other Methanomassiliicoccales members. Based on an average nucleotide identity analysis, we propose strain Mx-05T as being a novel representative of the order Methanomassiliicoccales, within the novel family Methanomethylophilaceae, for which the name Methanomethylophilus alvi gen. nov, sp. nov. is proposed. The type strain is Mx-05T (JCM 31474T).
Multidrug-Resistant Escherichia coli Isolate of Chinese Bovine Origin Carrying the blaCTX-M-55 Gene Located in IS26-Mediated Composite Translocatable Units
Authors: Wang Weiwei , Wei Xiaojuan , Arbab Safia , Wu Lingyu , Lu Ningning , Zhu Qiqi , Bai Yubin , Zhang Jiyu
Published: November 2023

Elevated detection rates of the blaCTX-M-55 gene in animals have been reported as a result of antibiotic misuse in clinics. To investigate the horizontal transfer mechanism of blaCTX-M-55 and its associated mobile genetic elements (MGEs), we isolated 318 nonrepetitive strains of Escherichia coli (E. coli) from bovine samples in Xinjiang and Gansu provinces, China. All E. coli strains were screened for the CTX-M-55 gene using PCR. The complete genomic data were sequenced using the PacBio triplet sequencing platform and corrected using the Illumina data platform. The genetic environment of the plasmids carrying the resistance blaCTX-M-55 gene was mapped using the software Easyfig2.2.3 for comparison. The results showed that all blaCTX-M-55-positive strains were resistant to multiple antibiotics. Five strains of Escherichia coli carry the blaCTX-M-55 gene, which is adjacent to other resistance genes and is located on the IncHI2-type plasmid. Four of the five blaCTX-M-55-harbor strains carried translocatable units (TUs). All the donor bacteria carrying the blaCTX-M-55 genes could transfer horizontally to the recipient (E. coli J53 Azr). This study demonstrates that the transmission of blaCTX-M-55 is localized on IS26-flanked composite transposons. The cotransmission and prevalence of blaCTX-M-55 with other MDR resistance genes on epidemic plasmids require enhanced monitoring and control.
Metabolome and Transcriptome Combinatory Profiling Reveals Fluconazole Resistance Mechanisms of Trichosporon asahii and the Role of Farnesol in Fluconazole Tolerance
Authors: Ma Xiaoping , Yang Wanling , Yang Aining , Chen Dong , Wang Chengdong , Ling Shanshan , Cao Sanjie , Zuo Zhicai , Wang Ya , Zhong Zhijun , Peng Guangneng , He Ming , Gu Yu
Published: November 2023

Trichosporon asahii is a basidiomycete yeast that is pathogenic to humans and animals, and fluconazole-resistant strains have recently increased. Farnesol secreted by fungi is a factor that causes variations in fluconazole resistance; however, few studies have explored the underlying mechanisms. Therefore, this study aims to delineate the fluconazole resistance mechanisms of T. asahii and explore farnesol’s effects on these processes. A comparative metabolome–transcriptome analysis of untreated fluconazole-sensitive (YAN), fluconazole-resistant (PB) T. asahii strains, and 25 μM farnesol-treated strains (YAN-25 and PB-25, respectively) was performed. The membrane lipid-related genes and metabolites were upregulated in the PB vs. YAN and PB-25 vs. PB comparisons. Farnesol demonstrated strain-dependent mechanisms underlying fluconazole tolerance between the YAN and PB strains, and upregulated and downregulated efflux pumps in PB-25 and YAN-25 strains, respectively. Membrane lipid-related metabolites were highly correlated with transporter-coding genes. Fluconazole resistance in T. asahii was induced by membrane lipid bio-synthesis activation. Farnesol inhibited fluconazole resistance in the sensitive strain, but enhanced resistance in the resistant strain by upregulating efflux pump genes and membrane lipids. This study offers valuable insights into the mechanisms underlying fungal drug resistance and provides guidance for future research aimed at developing more potent antifungal drugs for clinical use.
Late Cryogenian Circum-Rodinia Syn-Subduction Extension: Insights from Highly Fractionated S-Type and A-Type Granitoids in the Northern Tarim Craton
Authors: Biedilihan Talifeng , Abuduxun Nijiati , Huang Peng , Gan Jingmin , Talati Yilidan’na
Published: November 2023

Late Cryogenian–Ediacaran magmatism represents the latest Precambrian tectonothermal event in the Tarim Craton. However, its geodynamic setting and geological significance are controversial. Here, we report the geochronology, whole-rock geochemistry, and Sr-Nd-Hf isotopic compositions of newly identified late Cryogenian A-type and highly fractionated S-type granites from two locations in the northern Tarim Craton. LA-ICP-MS zircon U-Pb analyses yield ages of 642 ± 7 Ma for a syenogranite and 643 ± 4.5 Ma for a mylonitized granite. The syenogranite is weakly peraluminous and shows an A-type granite affinity, as indicated by its high K2O + Na2O contents (8.35–8.64 wt.%), high field strength elements (Zr + Nb + Ce + Y = 435.8 − 463.4 × 10−6), Ga/Al ratios (2.79−2.83), and zircon saturation temperatures (829–844 °C). In contrast, the mylonitized granite contains Al-oversaturated minerals (e.g., garnet) and has high a differentiation index (DI = of 98.9–99.4), with lower zircon saturation temperatures (786–792 °C); the samples display high SiO2 contents (72.99–74.00 wt.%) and A/CNK values (1.16–1.17) and low Nb/Ta and Zr/Hf ratios and are enriched in Rb and depleted in Ba, Sr, which all point to a highly fractionated S-type granite affinity. The granites are characterized by elevated large-ion lithosphere elements (LILEs) and flat high-field-strength elements (HFSEs) patterns, with deep Nb and Ta troughs and pronounced negative Eu anomalies (Eu/Eu* = 0.17–0.38). They show apparently negative εNd(t) values (−10.1 to −9.8 and −6.8 to −7.9, respectively) and εHf(t) values (−9.66 to −1.77 and −33.5 to −1.3, respectively) with Paleoproterozoic crustal model ages, indicating that they were mainly generated by the partial melting of mature crustal materials with a minor contribution from a mantle-derived magmatic source. By integrating with previously published geological, sedimentological, and structural data, we suggest that the granites formed due to a high-temperature gradient in a syn-subduction extensional setting that was probably induced by northward slab rollback of the Paleo-Asian Oceanic lithosphere. Our new data highlight an upper-plate extension in the northern Tarim Craton that constitutes the northern periphery of the Rodinia supercontinent. The linear distribution of late Cryogenian magmatic rocks provides critical evidence for the orogen strike extension of the terminal suture between the Tarim Craton and southwestern Altaids.
Modification of Pillared Intercalated Montmorillonite Clay as Heterogeneous Pd Catalyst Supports
Authors: Sun Kailang , Liu Yonghong , Zhang Taojun , Zhou Jie , Chen Jinyang , Ren Xiaorong , Yang Zhen , Zeng Minfeng
Published: November 2023

Montmorillonite clay was modified by pillaring with AlMn oxides in different Al/Mn ratios and intercalation of two kinds of N-containing polymers (i.e., chitosan (CS) and polyvinyl pyrrolidinone (PVP)) chains. The modified pillared montmorillonite clay (PM) showed a rich two-dimensional layered porous structure with tunable parameters, such as large interlayer spacing, high specific area, and large porous volume. They were then used as supports for Pd nanoparticles. As applied in coupling reactions of aryl halides with terminal alkynes, Pd@CS/AlMn-PM showed better comprehensive catalytic performance than Pd@PVP/AlMn-PM. This was mainly attributed to its higher specific area, stronger chelation to Pd species, and better solvent resistance.
Comparative Antibacterial and Efflux Pump Inhibitory Activity of Isolated Nerolidol, Farnesol, and α-Bisabolol Sesquiterpenes and Their Liposomal Nanoformulations
Authors: Santana Jorge Ederson Gonçalves , Oliveira-Tintino Cícera Datiane de Morais , Gonçalves Alencar Gabriel , Siqueira Gustavo Miguel , Sampaio Alves Daniel , Moura Talysson Felismino , Tintino Saulo Relison , de Menezes Irwin Rose Alencar , Rodrigues João Pedro Viana , Gonçalves Vanessa Barbosa Pinheiro , Nicolete Roberto , Emran Talha Bin , Gonçalves Lima Clara Mariana , Ahmad Sheikh F. , Coutinho Henrique Douglas Melo , da Silva Teresinha Gonçalves
Published: November 2023

The efflux systems are considered important mechanisms of bacterial resistance due to their ability to extrude various antibiotics. Several naturally occurring compounds, such as sesquiterpenes, have demonstrated antibacterial activity and the ability to inhibit efflux pumps in resistant strains. Therefore, the objective of this research was to analyze the antibacterial and inhibitory activity of the efflux systems NorA, Tet(K), MsrA, and MepA by sesquiterpenes nerolidol, farnesol, and α-bisabolol, used either individually or in liposomal nanoformulation, against multi-resistant Staphylococcus aureus strains. The methodology consisted of in vitro testing of the ability of sesquiterpenes to reduce the Minimum Inhibitory Concentration (MIC) and enhance the action of antibiotics and ethidium bromide (EtBr) in broth microdilution assays. The following strains were used: S. aureus 1199B carrying the NorA efflux pump, resistant to norfloxacin; IS-58 strain carrying Tet(K), resistant to tetracyclines; RN4220 carrying MsrA, conferring resistance to erythromycin. For the EtBr fluorescence measurement test, K2068 carrying MepA was used. It was observed the individual sesquiterpenes exhibited better antibacterial activity as well as efflux pump inhibition. Farnesol showed the lowest MIC of 16.5 µg/mL against the S. aureus RN4220 strain. Isolated nerolidol stood out for reducing the MIC of EtBr to 5 µg/mL in the 1199B strain, yielding better results than the positive control CCCP, indicating strong evidence of NorA inhibition. The liposome formulations did not show promising results, except for liposome/farnesol, which reduced the MIC of EtBr against 1199B and RN4220. Further research is needed to evaluate the mechanisms of action involved in the inhibition of resistance mechanisms by the tested compounds.
Saline-Tolerant Pathogenic Acanthamoeba spp. Isolated from a Geothermal Power Plant
Authors: Ramírez-Flores Elizabeth , Bonilla-Lemus Patricia , Carrasco-Yépez María M. , Ramírez-Flores Miguel A. , Barrón-Graciano Karla A. , Rojas-Hernández Saúl , Reyes-Batlle María , Lorenzo-Morales Jacob
Published: November 2023

Few studies have been conducted in the cooling systems of power plants; they have focused on Naegleria fowleri, leaving a gap in the knowledge of other pathogenic free-living amoebae in this environment. The objective of this study was to determine the occurrence of saline-tolerant pathogenic Acanthamoeba in a geothermal power plant. The identification of isolated amoebae at genus level was carried out, observing their morphological characteristics; the determination of genotype and species of Acanthamoeba was performed via molecular biology (PCR). Water temperature ranged from 18 to 43 °C and conductivity from 4.0 × 104 to 8.7 × 104 μS/cm; this last value was greater than the seawater value. Only five amoeba genera were found. Acanthamoeba was in all the sampling sites, showing high saline tolerance. The high temperature, but mainly high conductivity, were the environmental conditions that determined the presence of pathogenic free-living amoebae in the hot water. All the strains of Acanthamoeba culbertsoni killed the mice, having a mortality of 40 to 100%. Acanthamoeba genotypes T10 and T5 were identified, T10 is rarely isolated from the environment, while T5 is more frequent. This is the first time that genotypes T5 and T10 have been reported in the environment in Mexico.
Efficacy of the Vaccine Candidate Based on the P0 Peptide against Dermacentor nitens and Ixodes ricinus Ticks
Authors: Rodríguez-Mallon Alina , Encinosa Guzmán Pedro E. , Bello Yamil , Domingos Ana , Antunes Sandra , Kopacek Petr , Santos Ana Sofia , Velez Rita , Perner Jan , Ledesma Bravo Frank L. , Frantova Helena , Erhart Jan , Rodríguez Rafmary , Fuentes Alier , Diago David , Joglar Marisdania , Méndez Luis , Estrada Mario Pablo
Published: November 2023

The control of ticks through vaccination offers a sustainable alternative to the use of chemicals that cause contamination and the selection of resistant tick strains. However, only a limited number of anti-tick vaccines have reached commercial realization. In this sense, an antigen effective against different tick species is a desirable target for developing such vaccines. A peptide derived from the tick P0 protein (pP0) conjugated to a carrier protein has been demonstrated to be effective against the Rhipicephalus microplus, Rhipicephalus sanguineus, and Amblyomma mixtum tick species. The aim of this work was to assess the efficacy of this peptide when conjugated to the Bm86 protein against Dermacentor nitens and Ixodes ricinus ticks. An RNAi experiment using P0 dsRNA from I. ricinus showed a dramatic reduction in the feeding of injected female ticks on guinea pigs. In the follow-up vaccination experiments, rabbits were immunized with the pP0-Bm86 conjugate and challenged simultaneously with larvae, nymphs, and the adults of I. ricinus ticks. In the same way, horses were immunized with the pP0-Bm86 conjugate and challenged with D. nitens larva. The pP0-Bm86 conjugate showed efficacies of 63% and 55% against I. ricinus and D. nitens ticks, respectively. These results, combined with previous reports of efficacy for this conjugate, show the promising potential for its development as a broad-spectrum anti-tick vaccine.
Design, Synthesis, Evaluation and Molecular Dynamics Simulation of Dengue Virus NS5-RdRp Inhibitors
Authors: Zong Keli , Li Wei , Xu Yijie , Zhao Xu , Cao Ruiyuan , Yan Hong , Li Xingzhou
Published: November 2023

Dengue virus (DENV) is a major mosquito-borne human pathogen in tropical countries; however, there are currently no targeted antiviral treatments for DENV infection. Compounds 27 and 29 have been reported to be allosteric inhibitors of DENV RdRp with potent inhibitory effects. In this study, the structures of compounds 27 and 29 were optimized using computer-aided drug design (CADD) approaches. Nine novel compounds were synthesized based on rational considerations, including molecular docking scores, free energy of binding to receptor proteins, predicted Absorption, Distribution, Metabolism, Excretion, and Toxicity (ADMET) parameters, structural diversity, and feasibility of synthesis. Subsequently, the anti-DENV activity was assessed. In the cytopathic effect (CPE) assay conducted on BHK-21 cells using the DENV2 NGC strain, both SW-b and SW-d demonstrated comparable or superior activity against DENV2, with IC50 values of 3.58 ± 0.29 μM and 23.94 ± 1.00 μM, respectively, compared to that of compound 27 (IC50 = 19.67 ± 1.12 μM). Importantly, both SW-b and SW-d exhibited low cytotoxicity, with CC50 values of 24.65 μmol and 133.70 μmol, respectively, resulting in selectivity indices of 6.89 and 5.58, respectively. Furthermore, when compared to the positive control compound 3′-dATP (IC50 = 30.09 ± 8.26 μM), SW-b and SW-d displayed superior inhibitory activity in an enzyme inhibitory assay, with IC50 values of 11.54 ± 1.30 μM and 13.54 ± 0.32 μM, respectively. Molecular dynamics (MD) simulations elucidated the mode of action of SW-b and SW-d, highlighting their ability to enhance π–π packing interactions between benzene rings and residue W795 in the S1 fragment, compared to compounds 27 and 29. Although the transacylsulphonamide fragment reduced the interaction between T794 and NH, it augmented the interaction between R729 and T794. In summary, our study underscores the potential of SW-b and SW-d as allosteric inhibitors targeting the DENV NS5 RdRp domain. However, further in vivo studies are warranted to assess their pharmacology and toxicity profiles.
Lensless Image Restoration Based on Multi-Stage Deep Neural Networks and Pix2pix Architecture
Authors: Liu Muyuan , Su Xiuqin , Yao Xiaopeng , Hao Wei , Zhu Wenhua
Published: November 2023

Lensless imaging represents a significant advancement in imaging technology, offering unique benefits over traditional optical systems due to its compact form factor, ideal for applications within the Internet of Things (IoT) ecosystem. Despite its potential, the intensive computational requirements of current lensless imaging reconstruction algorithms pose a challenge, often exceeding the resource constraints typical of IoT devices. To meet this challenge, a novel approach is introduced, merging multi-level image restoration with the pix2pix generative adversarial network architecture within the lensless imaging sphere. Building on the foundation provided by U-Net, a Multi-level Attention-based Lensless Image Restoration Network (MARN) is introduced to further augment the generator’s capabilities. In this methodology, images reconstructed through Tikhonov regularization are perceived as degraded images, forming the foundation for further refinement via the Pix2pix network. This process is enhanced by incorporating an attention-focused mechanism in the encoder--decoder structure and by implementing stage-wise supervised training within the deep convolutional network, contributing markedly to the improvement of the final image quality. Through detailed comparative evaluations, the superiority of the introduced method is affirmed, outperforming existing techniques and underscoring its suitability for addressing the computational challenges in lensless imaging within IoT environments. This method can produce excellent lensless image reconstructions when sufficient computational resources are available, and it consistently delivers optimal results across varying computational resource constraints. This algorithm enhances the applicability of lensless imaging in applications such as the Internet of Things, providing higher-quality image acquisition and processing capabilities for these domains.
Hybrid Bio-Nanocomposites by Integrating Nanoscale Au in Butterfly Scales Colored by Photonic Nanoarchitectures
Authors: Kertész Krisztián , Piszter Gábor , Beck Andrea , Horváth Anita , Nagy Gergely , Molnár György , Radnóczi György Zoltán , Horváth Zsolt Endre , Illés Levente , Biró László Péter
Published: November 2023

Plasmonic metallic nanoparticles, like Au, can be used to tune the optical properties of photonic nanoarchitectures occurring in butterfly wing scales possessing structural color. The effect of the nanoscale Au depends on the location and the amount deposited in the chitin-based photonic nanoarchitecture. The following three types of Au introduction methods were compared regarding the structural and optical properties of the resulting hybrid bio-nanocomposites: (i) growth of Au nanoparticles inside the nanopores of butterfly wing scales by a light-induced in situ chemical reduction of HAuCl4 in aqueous solution containing sodium citrate, as a new procedure we have developed, (ii) drop-drying of the aqueous Au sol formed during procedure (i) in the bulk liquid phase, and (iii) physical vapor deposition of Au thin film onto the butterfly wing. We investigated all three methods at two different Au concentrations on the wings of laboratory-bred blue-colored male Polyommatus icarus butterflies and characterized the optical properties of the resulting hybrid bio-nanocomposites. We found that the drop-drying and the in situ growth produced comparable redshift in the spectral position of the reflectance maximum associated with the chitin-based photonic nanoarchitecture in the wing scales, while the 5 nm or 15 nm thick Au layers vacuum deposited onto the butterfly wing behaved like an optical filter, without inducing spectral shift. The in situ growth in the photonic nanoarchitecture under intense illumination produced uniform Au nanoparticles located in the pores of the biological template, which is more advantageous for further applications. An additional benefit of this method is that the Au nanoparticles do not aggregate on drying, like in the case of drop-drying of preformed Au nanoparticles from the citrate-stabilized sol.
Geometric Representation of Vector Vortex Beams: The Total Angular Momentum-Conserving Poincaré Sphere and Its Braid Clusters
Authors: Yu Wangke , Pi Hailong , Taylor Marika , Yan Jize
Published: November 2023

This paper presents the total angular momentum-conserving Poincaré sphere (TAM-C PS), which offers a novel framework for efficiently characterizing a wide range of vector vortex beams. Unlike other types of Poincaré spheres, the TAM-C PS achieves a better balance between generality and validity, while also providing clearer physical interpretation. By linking the poles of different spheres, the study also introduces two distinct categories of TAM-C PS braid clusters, enabling the representation of various Poincaré spheres within a unified framework. The Poincaré spheres include classical, higher-order, hybrid-order, Poincaré sphere with orbital angular momentum, and TAM-C PS. This is the first clear and unified approach to express multiple Poincaré spheres within a single framework. The TAM-C PS and its braid cluster can be employed to guide the creation of targeted vector vortex light beams, offer a geometric description of optical field evolution, and calculate the geometric phase of optical cyclic evolution.
Multivariate Analysis among Marker Compounds, Environmental Factors, and Fruit Quality of Schisandra chinensis at Different Locations in South Korea
Authors: Lee Dong Hwan , Kim Young-Ki , Son Yonghwan , Park Gwang Hun , Kwon Hae-Yun , Park Youngki , Park Eung-Jun , Lee Sun-Young , Kim Hyun-Jun
Published: November 2023

This study aimed to investigate the correlation among the contents of marker compounds, growth characteristics, and environmental factors of Schisandra chinensis fruits across South Korea. The fruits were collected from 36 cultivation sites in 28 regions across the country. We investigated nine growth characteristics, twelve soil physicochemical properties, eight meteorological data, and three marker compounds in this study. We optimized and validated an optimized method for quantifying marker compounds using UPLC and performed correlation analysis among the contents of marker compounds, growth characteristics, and environmental factors. The UPLC-UV method for analyzing marker compounds was validated by measuring linearity, LOD, LOQ, precision, and accuracy. The marker compounds were negatively correlated with the fruit size and sugar contents, and growth characteristics were negatively correlated with some physicochemical properties of the soil. The results of this study can be used as basic data for the standard cultural practices and quality control of S. chinensis fruits.
The Small Auxin-Up RNA SAUR10 Is Involved in the Promotion of Seedling Growth in Rice
Authors: Huang Xiaolong , Lu Zhanhua , Zhai Lisheng , Li Na , Yan Huiqing
Published: November 2023

Small auxin-up-regulated RNAs (SAURs) are genes rapidly activated in response to auxin hormones, significantly affecting plant growth and development. However, there is limited information available about the specific functions of SAURs in rice due to the presence of extensive redundant genes. In this study, we found that OsSAUR10 contains a conserved downstream element in its 3′ untranslated region that causes its transcripts to be unstable, ultimately leading to the immediate degradation of the mRNA in rice. In our investigation, we discovered that OsSAUR10 is located in the plasma membrane, and its expression is regulated in a tissue-specific, developmental, and hormone-dependent manner. Additionally, we created ossaur10 mutants using the CRISPR/Cas9 method, which resulted in various developmental defects such as dwarfism, narrow internodes, reduced tillers, and lower yield. Moreover, histological observation comparing wild-type and two ossaur10 mutants revealed that OsSAUR10 was responsible for cell elongation. However, overexpression of OsSAUR10 resulted in similar phenotypes to the wild-type. Our research also indicated that OsSAUR10 plays a role in regulating the expression of two groups of genes involved in auxin biosynthesis (OsYUCCAs) and auxin polar transport (OsPINs) in rice. Thus, our findings suggest that OsSAUR10 acts as a positive plant growth regulator by contributing to auxin biosynthesis and polar transport.
Genome-Wide Identification of the NRT1 Family Members and Their Expression under Low-Nitrate Conditions in Chinese Cabbage (Brassica rapa L. ssp. pekinensis)
Authors: Zhang Yihui , Ritonga Faujiah Nurhasanah , Zhang Shu , Wang Fengde , Li Jingjuan , Gao Jianwei
Published: November 2023

Nitrate transporters (NRTs) actively take up and transform nitrate (N) to form a large family with many members and distinct functions in plant growth and development. However, few studies have identified them in the context of low nitrate concentrations in Chinese cabbage (Brassica rapa L. ssp. Pekinensis), an important vegetable in China. This study focuses on the identification and analysis of the nitrate transporter 1 (NRT1) gene family as well as various aspects, including its phylogenic distribution, chromosomal position, gene structure, conserved motifs, and duplication pattern. Using bioinformatics methods, we identified and analyzed 84 BrNRT1 genes distributed on ten chromosomes. Furthermore, we conducted an analysis of the expression profile of the NRT1 gene in various tissues of Chinese cabbage exposed to varying nitrate concentrations. A phylogenetic analysis revealed that BrNRT1s members are distributed in six distinct groups. Based on an analysis of gene structure and conserved motifs, it can be inferred that BrNRT1 exhibits a generally conserved structural pattern. The promoters of BrNRT1 were discovered to contain moosefs (MFS) elements, suggesting their potential role in the regulation of NO3− transport across the cell membrane in Chinese cabbage. A transcriptome study and a subsequent RT-qPCR analysis revealed that the expression patterns of some BrNRT1 genes were distinct to specific tissues. This observation implies these genes may contribute to nitrate uptake and transport in various tissues or organs. The results offer fundamental insights into investigating the NRT1 gene family in Chinese cabbage. These results provide basic information for future research on the functional characterization of NRT1 genes in Chinese cabbage and the elucidation of the molecular mechanisms underlying low nitrogen tolerance in Chinese cabbage.
Arabidopsis MYB21 Negatively Regulates KTN1 to Fine-Tune the Filament Elongation
Authors: Wang Yanan , Shi Lei , Feng Wutao , Fu Ying , Li Changjiang
Published: November 2023

The growth process of the stamen filament is crucial for plant reproduction. However, the molecular mechanisms underlying the regulation of filament growth remain largely unclear. Our study has identified that MYB21 is involved in the regulation of filament growth in Arabidopsis. In comparison to the wild type, the cell length of the filaments is notably reduced in the myb21 mutant. Moreover, we found that KTN1, which encodes a microtubule-severing enzyme, is significantly upregulated in the myb21 mutant. Additionally, yeast one-hybrid assays demonstrated that MYB21 can bind to the promoter region of KTN1, suggesting that MYB21 might directly regulate the expression of KTN1. Finally, transcriptional activity experiments showed that MYB21 is capable of suppressing the driving activity of the KTN1 promoter. This study indicates that the MYB21-KTN1 module may play a precise regulatory role in the growth of Arabidopsis filament cells.
Exploring the Deoxy-D-xylulose-5-phosphate Synthase Gene Family in Tomato (Solanum lycopersicum)
Authors: Di Xueni , Rodriguez-Concepcion Manuel
Published: November 2023

Isoprenoids are a wide family of metabolites including high-value chemicals, flavors, pigments, and drugs. Isoprenoids are particularly abundant and diverse in plants. The methyl-D-erythritol 4-phosphate (MEP) pathway produces the universal isoprenoid precursors isopentenyl diphosphate and dimethylallyl diphosphate in plant plastids for the downstream production of monoterpenes, diterpenes, and photosynthesis-related isoprenoids such as carotenoids, chlorophylls, tocopherols, phylloquinone, and plastoquinone. The enzyme deoxy-D-xylulose 5-phosphate synthase (DXS) is the first and main rate-determining enzyme of the MEP pathway. In tomato (Solanum lycopersicum), a plant with an active isoprenoid metabolism in several tissues, three genes encode DXS-like proteins (SlDXS1 to 3). Here, we show that the expression patterns of the three genes suggest distinct physiological roles without excluding that they might function together in some tissues. We also confirm that SlDXS1 and 2 are true DXS enzymes, whereas SlDXS3 lacks DXS activity. We further show that SlDXS1 and 2 co-localize in plastidial speckles and that they can be immunoprecipitated together, suggesting that they might form heterodimers in vivo in at least some tissues. These results provide novel insights for the biotechnological use of DXS isoforms in metabolic engineering strategies to up-regulate the MEP pathway flux.
Polycarbosilane/Divinylbenzene-Modified Magnesium Hydroxide to Enhance the Flame Retardancy of Ethylene–Vinyl Acetate Copolymer
Authors: Li Siyuan , Wang Chunfeng , Wang Guodong , Wang Yongliang , Han Zhidong
Published: November 2023

The thermal decomposition product of magnesium hydroxide (MH) is magnesium oxide (MgO), which serves as the foundational material for fireproof layer construction in the condensed phase. However, the weak interaction force between particles of MgO generated by thermal decomposition leads to the insufficient strength and poor adhesion ability of the fireproof layer. The fireproof layer was easily damaged and detached in this study, resulting in the low flame-retardant efficiency of MH. In this work, polycarbosilane (PCS) and divinyl benzene (DVB) were used to modify MH, and EVA/MH/PCS/DVB composites were made via melt blending. The flame-retardant properties of EVA/MH/PCS/DVB were evaluated using the limiting oxygen index (LOI), vertical combustion (UL-94), and a cone calorimeter (CONE). The thermal stability of the composites and flame retardants was analyzed using a thermogravimetric analyzer. The char layer structure was observed and analyzed using scanning electron microscopy (SEM) and X-ray photoelectron spectroscopy (XPS), respectively. The results indicate that the LOI of the EVA/MH/PCS/DVB with 50 wt.% flame retardants in total was as high as 65.1, which increased by 160% in comparison with EVA/MH. Furthermore, the total smoke production (TSP) of the EVA/MH/PCS/DVB composite decreased by 22.7% compared to EVA/MH/PCS; the thermal stability of the MH/PCS/DVB and EVA/MH/PCS/DVB improved to some extent; and the compact residual char after the combustion of EVA/MH/PCS/DVB had fewer cracks due to the adhesive effect induced by PCS/DVB.