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About 30% of all bacterial proteins execute their function outside of the cytosol and must be inserted into or translocated across the cytoplasmic membrane. This requires efficient targeting systems that recognize N‐terminal signal sequences in client proteins and deliver them to protein transport complexes in the membrane. While the importance of these protein transport machineries for the spatial organization of the bacterial cell is well documented in multiple studies, the contribution of mRNA targeting and localized translation to protein transport is only beginning to emerge. mRNAs can exhibit diverse subcellular localizations in the bacterial cell and can accumulate at sites where new protein is required. This is frequently observed for mRNAs encoding membrane proteins, but the physiological importance of membrane enrichment of mRNAs and the consequences it has for the insertion of the encoded protein have not been explored in detail. Here, we briefly highlight some basic concepts of signal sequence‐based protein targeting and describe in more detail strategies that enable the monitoring of mRNA localization in bacterial cells and potential mechanisms that route mRNAs to particular positions within the cell. Finally, we summarize some recent developments that demonstrate that mRNA targeting and localized translation can sustain membrane protein insertion under stress conditions when the protein‐targeting machinery is compromised. Thus, mRNA targeting likely acts as a back‐up strategy and complements the canonical signal sequence‐based protein targeting. [ABSTRACT FROM AUTHOR]

Silicon epitaxy is an essential building block in the manufacturing of complementary metal‐oxide semiconductor (CMOS) devices. Accurate determination of epitaxial layer thickness is indispensable for a uniform and reproducible process. In this paper, we compare thickness values of the transition zone (TZ) in silicon epitaxial wafers obtained by two of Semilab's production‐compatible electrical and optical characterization techniques: Fourier‐transform infrared (FTIR) reflectometry and spreading resistance profiling (SRP). We demonstrate a high correlation between TZ thicknesses obtained from the optical modeling of FTIR reflectance spectra and SRP profiles. The dependence of TZ thickness change on the high‐temperature annealing steps is also examined. FTIR reflectometry thus offers a quick, contactless alternative for obtaining structural parameters of an epitaxial layer, and these values can be well matched to those given by SRP. [ABSTRACT FROM AUTHOR]

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In the current landscape of higher education, the quality of teaching plays a crucial role in supporting the comprehensive development of students. To ensure the effectiveness of the learning process, evaluating lecturers based on student opinions is an essential means of providing feedback and optimizing the learning experience. This paper focuses on constructing a lecturer ranking system, particularly in the context of a specific course through the evaluation process from students. Four different methods were employed to assess lecturers, including the PSI method, SRP method, RAM method, and PIV method. The evaluation results using these four methods were compared with each other and also with the traditional evaluation approach currently utilized in the educational institution. The achieved results demonstrate that the approach outlined in this paper is highly suitable for determining the rankings of lecturers when teaching individual courses. [ABSTRACT FROM AUTHOR]

Abstract The signal sequence played a crucial role in the efficacy of mRNA vaccines against virus pandemic by influencing antigen translation. However, limited research had been conducted to compare and analyze the specific mechanisms involved. In this study, a novel approach was introduced by substituting the signal sequence of the mRNA antigen to enhance its immune response. Computational simulations demonstrated that various signal peptides differed in their binding capacities with the signal recognition particle (SRP) 54 M subunit, which positively correlated with antigen translation efficiency. Our data revealed that the signal sequences of tPA and IL-6-modified receptor binding domain (RBD) mRNA vaccines sequentially led to higher antigen expression and elicited more robust humoral and cellular immune protection against the SARS-CoV-2 compared to the original signal sequence. By highlighting the importance of the signal sequence, this research provided a foundational and safe approach for ongoing modifications in signal sequence-antigen design, aiming to optimize the efficacy of mRNA vaccines.

The DEAD-box RNA helicase Ded1 is an essential yeast protein involved in translation initiation that belongs to the DDX3 subfamily. The purified Ded1 protein is an ATP-dependent RNA-binding protein and an RNA-dependent ATPase, but it was previously found to lack substrate specificity and enzymatic regulation. Here we demonstrate through yeast genetics, yeast extract pull-down experiments, in situ localization, and in vitro biochemical approaches that Ded1 is associated with, and regulated by, the signal recognition particle (SRP), which is a universally conserved ribonucleoprotein complex required for the co-translational translocation of polypeptides into the endoplasmic reticulum lumen and membrane. Ded1 is physically associated with SRP components in vivo and in vitro. Ded1 is genetically linked with SRP proteins. Finally, the enzymatic activity of Ded1 is inhibited by SRP21 in the presence of SCR1 RNA. We propose a model where Ded1 actively participates in the translocation of proteins during translation. Our results provide a new understanding of the role of Ded1 during translation. [ABSTRACT FROM AUTHOR]

Cadmium (Cd) is a toxic heavy metal that causes nephrosis, including acute kidney injury. To prevent and treat acute kidney injury (AKI) following Cd exposure, a tripeptide, Ser-Arg-Pro (SRP), from Sipunculus nudus L. was employed, and its potential efficacy in AKI was assessed. Oral administration of SRP significantly alleviated Cd-induced kidney damage, leading to improved renal function and the attenuation of structural abnormalities. A network pharmacology analysis revealed the potential of SRP in renal protection by targeting various pathways, including mitogen-activated protein kinase (MAPK) signaling, inflammatory response, and apoptosis pathways. Mechanistic studies indicated that SRP achieves renal protection by inhibiting the activation of MAPK pathways (phosphorylation of p38, p56, ERK, and JNK) in the oxidative stress cascade, suppressing inflammatory responses (iNOS, Arg1, Cox2, TNF-α, IL-1β, and IL-6), and restoring altered apoptosis factors (caspase-9, caspase-3, Bax, and Bcl-2). Hence, SRP has the potential to be used as a therapeutic agent for the treatment of Cd-induced nephrotoxicity. [ABSTRACT FROM AUTHOR]

The signal sequence played a crucial role in the efficacy of mRNA vaccines against virus pandemic by influencing antigen translation. However, limited research had been conducted to compare and analyze the specific mechanisms involved. In this study, a novel approach was introduced by substituting the signal sequence of the mRNA antigen to enhance its immune response. Computational simulations demonstrated that various signal peptides differed in their binding capacities with the signal recognition particle (SRP) 54 M subunit, which positively correlated with antigen translation efficiency. Our data revealed that the signal sequences of tPA and IL-6-modified receptor binding domain (RBD) mRNA vaccines sequentially led to higher antigen expression and elicited more robust humoral and cellular immune protection against the SARS-CoV-2 compared to the original signal sequence. By highlighting the importance of the signal sequence, this research provided a foundational and safe approach for ongoing modifications in signal sequence-antigen design, aiming to optimize the efficacy of mRNA vaccines. [ABSTRACT FROM AUTHOR]

Root surface biomodification has been used to treat gingival recession and periodontitis. For example, to improve treatment efficacy of gingival recessions (GR), chemical preparation of the exposed root surface is advocated. The principle for this procedure is to remove the smear layer from the root surfaces, which leads to exposition of surface collagen fibers and improved healing. The aim of present article is to evaluate the importance of root surface biomodification after scaling and root planing (SRP) and a comparative review of various root conditioning agents. The review was written during the search for English-language literature in the Google Scholar and PubMed databases. 104 literary sources were identified during the literature review. After excluding publications that did not meet the inclusion search criteria, the total number of included articles has become 55. The instrumented root surface is always covered by a smear layer, containing remnants of dental calculus, contaminated root cementum, bacterial endotoxin and subgingival plaque after the scaling and root planning procedure. The root conditioning agents, described in this study, were found to be effective in the removal of the smear layer, able to produce uncovering and widening the dentin tubules, and unmasking the dentin collagen matrix. Within the limits of this study, the most frequently used conditioning agents are tetracycline, EDTA, and citric acid; among them Tetracycline HCL is the most reliable agent. [ABSTRACT FROM AUTHOR]

Dijkstra's algorithm (DA) is a very popular approach for finding the shortest route (SR) in the shortest route problem (SRP). The SRP becomes a challenging and complex problem in real life scenarios. The Fermatean neutrosophic set is a mathematical model that combines Fermatean sets with neutrosophic sets. It can handle the unclear, ambiguous, inconsistent, confusing, and uncertain information that comes from real-world problems. Decision-makers face difficulty accurately determining the precise membership (MG) and non membership levels due to the lack of appropriate data available. The FNS can handle this problem. In this study, we consider the interval FNS to describe the arc weight of a neutrosophic graph (NG). This SRP is called an interval Fermatean neutrosophic shortest route problem (IFNSRP). A modified DA is presented to solve this IFNSRP in an uncertain environment. The effectiveness of the presented method is illustrated with a numerical instance of a neutrosophic network. [ABSTRACT FROM AUTHOR]

The adoption of sustainable practices in decision making in supply chain operations among rice farmers and other stakeholders in Nigeria could be an effective tool to drive food security. The triple bottom line identifies the environmental, economic, and social dimensions of sustainability. These could be harnessed to improve the supply chain of locally produced rice, ultimately improving food security in the region. This paper adopts a quantitative method that uses 21 criteria from the three sustainability dimensions to measure rice stakeholders' decision-making activities against sustainable rice practices (SRPs) using a Fuzzy Analytical Hierarchy Process multi-criteria decision-making approach. The findings reveal that decisions with regard to water usage, supplier diversity, and a safe working environment were ranked high, while government intervention, quality assurance, transparency, and power usage ranked low. This implies that improved performance of other stakeholders across the rice value chain such as the government and extension officers would enhance productivity and drive food security in the region. [ABSTRACT FROM AUTHOR]

Aim: To evaluate the efficacy of ozonated water with NSPT compared with scaling and root planing (SRP) alone in treating chronic periodontitis. Settings and Design: The current study is a double-masked, randomized clinical trial. Methods and Material: A total of 30 patients aged 25 to 55 years were divided randomly into two groups having probing pocket depths of ≥ 5 mm. Full mouth SRP were performed in group 1 followed by additional sub-gingival irrigation of ozonated water in group 2. Assessment of plaque index (PI), gingival index (GI), probing pocket depth (PPD), and clinical attachment levels (CAL) was performed at baseline and six months. Microbiologic assessment with real-time polymerase chain reaction was performed for Dialister pneumosintes and Micromonas micros by collecting plaque samples. Statistical Analysis Used: The data were subjected to statistical analysis with IBM SPSS Software version 21. The results were presented under the headings of various parameters considered for this study. Results: The results revealed that there was a reduction in PI, GI, PD, CAL, and microbiologic parameters in both groups following SRP; the results were more significant in group 2 treated by sub-gingival irrigation with ozonated water, when compared with SRP alone in group 1. Also, it was noted that there was a statistically significant reduction of M. micros compared to D. pneumosintes in the ozone-treated group. Conclusions: The Subgingival irrigation of ozonated water in conjunction with SRP has beneficial effects in treating patients with chronic periodontitis. [ABSTRACT FROM AUTHOR]

Periodontitis is a polymicrobial disease, characterized by distinct pathogens which results in the destruction of periodontal tissues. Early identification of periodontal pathogens can aid in the rationale of conservative treatment approaches. Fluorescence in situ hybridization (FISH) is one of the rapid methods for easy identification of microbial pathogens. Nano biofusion (NBF)gel contains nanoparticles which are efficient in rapidly penetrating the cells possessing special property of substantivity, antimicrobial, and anti inflammatory activity. Chlorhexidine gel(CHX gel) has long been used in dentistry and exhibits bacteriostatic, bactericidal and anti-inflammatory properties. Hence present study aimed to compare clinical and microbiological effectiveness of locally delivered NBF gel and chlorhexidine gel as an adjunctive therapy to scaling and root planning (SRP) in the treatment of chronic periodontitis. Microbiological assessment was done suing Fluorescent In situ Hybridisation (FISH) technology to visualize, identify and quantitate Porphyromonas gingivalis (known Periodontal pathogen), Filifactor Alocis, Synergistes species (Novel pathogens). METHODOLOGY: The study sample consisted of 75 sites from Chronic periodontitis patients of both genders within the age group of 30-60 years. Study samples were divided into 3 treatment groups based on their inclusion and exclusion criteria as Group A, Group B and Group C. GROUP A comprised of 25 sites which received Full mouth scaling and root planing alone. GROUP B comprised of 25 sites which received Full mouth scaling and root planing followed by NBF gel application. GROUP C comprised of 25 sites which received full mouth scaling and root planing followed by CHX gel application. Patients in all the three groups were evaluated at baseline, 6 weeks, and 12 weeks interval and clinical parameters such as plaque index, Modified sulcular bleeding index(MSBI), Probing pocket depth(PPD) and clinical attachment level(CAL) were recorded. Subgingival samples were collected from 10 sites of each group(GROUP A, GROUP B, GROUP C) at baseline and after 6 weeks and the microbiological analysis were carried to visualize, identify and quantitate Porphyromonas gingivalis (known Periodontal pathogen), Filifactor Alocis, Synergistes species (Novel pathogens) from all the three groups using Fluorescent In situ Hybridisation (FISH) technology. RESULTS: In the present study, group B(SRP + NBF gel) and group C (SRP+CHX gel) showed progressive improvements in all the clinical and microbiological parameters on evaluated time periods. However group C (SRP+CHX) has Shown significantly higher improvement in reducing the bacterial count as compared to Group B(SRP+NBF gel) and Group A(SRP alone). In NBF gel, the NBF of propolis along withVitamin C and Vitamin E has brought about the tremendous improvement in periodontal health of the patients. Chlorhexidine (CHX) gluconate present in hexigel has both bacteriostatic abactericidal activity and also exhibits antiin flammatory properties. [ABSTRACT FROM AUTHOR]

Cadmium (Cd) is a toxic heavy metal that causes nephrosis, including acute kidney injury. To prevent and treat acute kidney injury (AKI) following Cd exposure, a tripeptide, Ser-Arg-Pro (SRP), from Sipunculus nudus L. was employed, and its potential efficacy in AKI was assessed. Oral administration of SRP significantly alleviated Cd-induced kidney damage, leading to improved renal function and the attenuation of structural abnormalities. A network pharmacology analysis revealed the potential of SRP in renal protection by targeting various pathways, including mitogen-activated protein kinase (MAPK) signaling, inflammatory response, and apoptosis pathways. Mechanistic studies indicated that SRP achieves renal protection by inhibiting the activation of MAPK pathways (phosphorylation of p38, p56, ERK, and JNK) in the oxidative stress cascade, suppressing inflammatory responses (iNOS, Arg1, Cox2, TNF-α, IL-1β, and IL-6), and restoring altered apoptosis factors (caspase-9, caspase-3, Bax, and Bcl-2). Hence, SRP has the potential to be used as a therapeutic agent for the treatment of Cd-induced nephrotoxicity.

The DEAD-box RNA helicase Ded1 is an essential yeast protein involved in translation initiation that belongs to the DDX3 subfamily. The purified Ded1 protein is an ATP-dependent RNA-binding protein and an RNA-dependent ATPase, but it was previously found to lack substrate specificity and enzymatic regulation. Here we demonstrate through yeast genetics, yeast extract pull-down experiments, in situ localization, and in vitro biochemical approaches that Ded1 is associated with, and regulated by, the signal recognition particle (SRP), which is a universally conserved ribonucleoprotein complex required for the co-translational translocation of polypeptides into the endoplasmic reticulum lumen and membrane. Ded1 is physically associated with SRP components in vivo and in vitro. Ded1 is genetically linked with SRP proteins. Finally, the enzymatic activity of Ded1 is inhibited by SRP21 in the presence of SCR1 RNA. We propose a model where Ded1 actively participates in the translocation of proteins during translation. Our results provide a new understanding of the role of Ded1 during translation.

Purpose: Septoplasty and rhinoplasty are common otolaryngological procedures, often combined as septorhinoplasty (SRP), offering aesthetic and functional benefits. These surgeries are believed to potentially risk postoperative infections due to natural bacterial flora in the nares. This study evaluates the effectiveness of prophylactic antibiotics in reducing post-surgical infection complications., Materials and Methods: A systematic review was conducted using PubMed, Cochrane, and Web of Science, adhering to PRISMA guidelines, focusing on antibiotic use in septoplasty, rhinoplasty, and SRP. The study included randomized control trials, single/double-blind studies, retrospective chart reviews, and prospective cohort studies, excluding pediatric, non-human research, or studies with inaccessible data. Postoperative infection rates were analyzed utilizing R software as a form of Statistic., Results: From 697 articles, 15 studies were chosen for meta-analysis, involving 2225 patients, with 1274 receiving prophylactic antibiotics and 951 as controls. The meta-analysis indicated an odds ratio of 0.65 (95 % CI: [0.23, 1.89]), showing no significant protective effect of prophylactic antibiotics., Discussion: The study found no significant infection rate reduction with prophylactic antibiotic use. Notable were inconsistencies in study designs, antibiotic administration timing, and varied surgical practices. Antibiotic use risks were considered. Study limitations include potential biases and the retrospective nature of many studies., Conclusions: This review and meta-analysis found no substantial evidence supporting prophylactic antibiotics' effectiveness in reducing postoperative infection rates in septoplasty, rhinoplasty, and SRP, indicating a need to reevaluate practices and develop evidence-based guidelines. Future research should focus on comprehensive, randomized control studies, covering both preoperative and postoperative stages., Competing Interests: Declaration of competing interest None., (Copyright © 2024 Elsevier Inc. All rights reserved.)

Proton implantation offers a versatile means to introduce in-depth structural modifications into crystalline targets. Remarkable effects on the electrical properties of silicon, including n-type doping and charge carrier lifetime reduction, have been reported and find application in silicon-based power device engineering. Characterisation of these implants implies quantitative determination of hydrogen and Secondary Ion Mass Spectrometry (SIMS) stands for the most effective analytical tool to accomplish this task. However, successful SIMS depth profiling of low dose deep proton implants requires careful optimisation of operating conditions, and implementation of SIMS for implant process control purposes remains challenging. In this study, n-type silicon substrates are implanted with 400–1200 keV protons, at low to medium doses, in the form of single and multi-energy implants. Precise SIMS hydrogen depth profiling exceeding 20 μm in depth with limits of detection (LOD) down to 3e16 cm−3 in optimised operating conditions is demonstrated. The utility of SIMS as metrology tool for proton implant analysis is then examined through practical applications such as ion implanting system monitoring and coupling with Spreading Resistance Profiling (SRP) for doping monitoring purposes. [ABSTRACT FROM AUTHOR]

Immune-mediated necrotizing myopathy (IMNM) represents a rare category of inflammatory myopathies characterized by more severe and rapid progression of symmetrical proximal muscle weakness. It is also marked by notably elevated serum muscle enzyme levels and distinct histological features, setting it apart from other types of myositis. Moreover, acute chronic lung respiratory dysfunction is a major comorbidity of great concern. We herein present two cases of IMNM associated with anti-signal recognition particle antibodies complicated by acute respiratory distress syndrome., Competing Interests: The authors have declared that no competing interests exist., (Copyright © 2024, Fang et al.)

Although RNA molecules are synthesized via transcription, little is known about the general impact of cotranscriptional folding in vivo. We present different computational approaches for the simulation of changing structure ensembles during transcription, including interpretations with respect to experimental data from literature. Specifically, we analyze different mutations of the E. coli SRP RNA, which has been studied comparatively well in previous literature, yet the details of which specific metastable structures form as well as when they form are still under debate. Here, we combine thermodynamic and kinetic, deterministic, and stochastic models with automated and visual inspection of those systems to derive the most likely scenario of which substructures form at which point during transcription. The simulations do not only provide explanations for present experimental observations but also suggest previously unnoticed conformations that may be verified through future experimental studies., (© 2024. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.)