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22 pages, 1566 KB  
Article
Design and Control of Fractional-Order Systems Based on Fractal Operators
by Zhimo Jian, Chaoqian Luo and Yajun Yin
Fractal Fract. 2025, 9(8), 528; https://doi.org/10.3390/fractalfract9080528 - 13 Aug 2025
Cited by 1 | Viewed by 1023
Abstract
In recent years, we have abstracted physical fractal space from biological structures and movements within living organisms, revealing the profound intrinsic connections between fractional order time and fractional-dimensional space, and providing partial explanations for the sources and orders of fractional order. We have [...] Read more.
In recent years, we have abstracted physical fractal space from biological structures and movements within living organisms, revealing the profound intrinsic connections between fractional order time and fractional-dimensional space, and providing partial explanations for the sources and orders of fractional order. We have confirmed that the topological invariants of fractal cells, the order of physical components, and the mismatch of spatiotemporal order are important factors determining the fractional order of operators. This paper is a continuation of the previous work. Inspired by bone fractal operators, this article attempts to identify other factors that affect the order of operators. Specifically, the following contents are included: (1) originating from the bone fractal operators, we present the construction process of the “apparent half-order” system; (2) using the Schiessel–Blumen model as the comparative object, we analyze the origin and characteristics of the “γ-order” system; (3) using the continued fraction theory and operatorization thought as the link, we establish the design and control method for general fractional-order systems, and discuss the factors affecting the order of fractional-order operators. Full article
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23 pages, 7897 KB  
Article
Prestressed Concrete T-Beams Strengthened with Near-Surface Mounted Carbon-Fiber-Reinforced Polymer Rods Under Monotonic Loading: A Finite Element Analysis
by Laurencius Nugroho, Yanuar Haryanto, Hsuan-Teh Hu, Fu-Pei Hsiao, Gandjar Pamudji, Bagus Hario Setiadji, Chiao-Ning Hsu, Pu-Wen Weng and Chia-Chen Lin
Eng 2025, 6(2), 36; https://doi.org/10.3390/eng6020036 - 12 Feb 2025
Cited by 11 | Viewed by 2580
Abstract
Prestressed concrete structures, designed to enhance the compressive strength of concrete through internal pretension, are increasingly susceptible to serviceability issues caused by rising live loads, material degradation, and environmental impacts. Strengthening or retrofitting offers a practical and cost-effective alternative to full replacement. This [...] Read more.
Prestressed concrete structures, designed to enhance the compressive strength of concrete through internal pretension, are increasingly susceptible to serviceability issues caused by rising live loads, material degradation, and environmental impacts. Strengthening or retrofitting offers a practical and cost-effective alternative to full replacement. This study investigated the flexural strengthening of prestressed concrete T-beams in the negative moment region using near-surface mounted (NSM) carbon-fiber-reinforced polymer (CFRP) rods. Validation against experimental results from the literature demonstrated high accuracy, with an average numerical-to-experimental ultimate load ratio of 0.97 for reinforced concrete T-beams strengthened with NSM-CFRP rods, a negligible difference of 0.49% for prestressed concrete I-beams, and a minimal error of 1.30% for prestressed concrete slabs strengthened with CFRP laminates. Parametric studies examined the effects of CFRP rod embedment depths and initial prestressing levels. In certain cases, achieving the minimum embedment depth is not feasible due to design or construction constraints. The results showed that fully embedded CFRP rods increased the ultimate load by up to 14.02% for low prestressing levels and 16.36% for high levels, while half-embedded rods provided comparable improvements of 11.20% and 15.76%, respectively. These findings confirm the effectiveness of NSM-CFRP systems and highlight the potential of partial embedment as a practical solution in design-constrained scenarios. Full article
(This article belongs to the Special Issue Emerging Trends in Inorganic Composites for Structural Enhancement)
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26 pages, 643 KB  
Article
Re-Examination of the Effect of Pairing Gaps on Gamow–Teller Strength Distributions and β-Decay Rates
by Jameel-Un Nabi, Muhammad Riaz and Arslan Mehmood
Universe 2024, 10(3), 128; https://doi.org/10.3390/universe10030128 - 6 Mar 2024
Cited by 6 | Viewed by 1881
Abstract
β-decay is one of the key factors for understanding the r-process and evolution of massive stars. The Gamow–Teller (GT) transitions drive the β-decay process. We employ the proton–neutron quasiparticle random phase approximation (pn-QRPA) model to calculate terrestrial and stellar β [...] Read more.
β-decay is one of the key factors for understanding the r-process and evolution of massive stars. The Gamow–Teller (GT) transitions drive the β-decay process. We employ the proton–neutron quasiparticle random phase approximation (pn-QRPA) model to calculate terrestrial and stellar β-decay rates for 50 top-ranked nuclei possessing astrophysical significance according to a recent survey. The model parameters of the pn-QRPA model affect the predicted results of β-decay. The current study investigates the effect of nucleon–nucleon pairing gaps on charge-changing transitions and the associated β decay rates. Three different values of pairing gaps, namely TF, 3TF, and 5TF, were used in our investigation. It was concluded that both GT strength distributions and half-lives are sensitive to pairing gap values. The 3TF pairing gap scheme, in our chosen nuclear model, resulted in the best prediction with around 80% of the calculated half-lives within a factor 10 of the measured ones. The 3TF pairing scheme also led to the calculation of the biggest β-decay rates in stellar matter. Full article
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18 pages, 4553 KB  
Article
Application of Machine Learning Methods to Predict the Air Half-Lives of Persistent Organic Pollutants
by Ying Zhang, Liangxu Xie, Dawei Zhang, Xiaojun Xu and Lei Xu
Molecules 2023, 28(22), 7457; https://doi.org/10.3390/molecules28227457 - 7 Nov 2023
Cited by 3 | Viewed by 2353
Abstract
Persistent organic pollutants (POPs) are ubiquitous and bioaccumulative, posing potential and long-term threats to human health and the ecological environment. Quantitative structure–activity relationship (QSAR) studies play a guiding role in analyzing the toxicity and environmental fate of different organic pollutants. In the current [...] Read more.
Persistent organic pollutants (POPs) are ubiquitous and bioaccumulative, posing potential and long-term threats to human health and the ecological environment. Quantitative structure–activity relationship (QSAR) studies play a guiding role in analyzing the toxicity and environmental fate of different organic pollutants. In the current work, five molecular descriptors are utilized to construct QSAR models for predicting the mean and maximum air half-lives of POPs, including specifically the energy of the highest occupied molecular orbital (HOMO_Energy_DMol3), a component of the dipole moment along the z-axis (Dipole_Z), fragment contribution to SAscore (SAscore_Fragments), subgraph counts (SC_3_P), and structural information content (SIC). The QSAR models were achieved through the application of three machine learning methods: partial least squares (PLS), multiple linear regression (MLR), and genetic function approximation (GFA). The determination coefficients (R2) and relative errors (RE) for the mean air half-life of each model are 0.916 and 3.489% (PLS), 0.939 and 5.048% (MLR), 0.938 and 5.131% (GFA), respectively. Similarly, the determination coefficients (R2) and RE for the maximum air half-life of each model are 0.915 and 5.629% (PLS), 0.940 and 10.090% (MLR), 0.939 and 11.172% (GFA), respectively. Furthermore, the mechanisms that elucidate the significant factors impacting the air half-lives of POPs have been explored. The three regression models show good predictive and extrapolation abilities for POPs within the application domain. Full article
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17 pages, 1607 KB  
Article
Effects of Thiamethoxam and Fenvalerate Residue Levels on Light-Stable Isotopes of Leafy Vegetables
by Fang Qi, Xing Liu, Zhongsheng Deng, Yangyang Lu, Yijiao Chen, Hao Geng, Qicai Zhang, Qinxiong Rao and Weiguo Song
Foods 2023, 12(14), 2655; https://doi.org/10.3390/foods12142655 - 10 Jul 2023
Cited by 6 | Viewed by 2290
Abstract
Accurate identification of the rational and standardized use of pesticides is important for the sustainable development of agriculture while maintaining a high quality. The insecticides thiamethoxam and fenvalerate and the vegetables spinach, cabbage, and lettuce were used here as study objects. Descriptive analysis [...] Read more.
Accurate identification of the rational and standardized use of pesticides is important for the sustainable development of agriculture while maintaining a high quality. The insecticides thiamethoxam and fenvalerate and the vegetables spinach, cabbage, and lettuce were used here as study objects. Descriptive analysis and primary reaction kinetic equations were used to analyze the changes in metabolic residues of the two insecticides after different numbers of application in three vegetables. The effects of pesticide residue levels on the δ13C, δ15N, δ2H, and δ18O values of vegetables were analyzed by one-way analysis of variance and correlation analysis. Partial least squares discriminant analysis (PLS-DA) was applied to build discrimination models of the vegetables with different pesticide residues based on stable isotopes. The results showed that the first degradation residues of thiamethoxam and fenvalerate in spinach, cabbage, and lettuce conformed to primary reaction kinetic equations, but the degradation half-lives were long, and accumulation occurred in the second application. The differences in the four stable isotope ratios in the control group of the three vegetables were statistically significant, and two-thirds of the stable isotope ratios in the three vegetables with different numbers of pesticide applications were significantly different. The δ13C and δ15N values of spinach, the δ13C, δ15N, and δ2H values of cabbage, and the δ13C, δ15N, δ2H, and δ18O values of lettuce were significantly correlated with different residues of thiamethoxam and/or fenvalerate applications. The control groups of the three vegetables, spinach-thiamethoxam-first, spinach-thiamethoxam-second, cabbage-thiamethoxam-second, cabbage-fenvalerate-first, and lettuce-thiamethoxam-first, were fully identified by PLS-DA models, while the identification models of other vegetables containing pesticide residues still need to be further improved. The results provide technical support for identifying the rational use of pesticides in vegetables and provide a reference method for guaranteeing the authenticity of green and organic vegetables. Full article
(This article belongs to the Section Food Quality and Safety)
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11 pages, 394 KB  
Article
Effectiveness of the Pfizer-BioNTech Vaccine against COVID-19-Associated Hospitalizations among Lebanese Adults ≥75 Years Old—Lebanon, April–May 2021
by Zeina Farah, Nadine Haddad, Hala Abou El Naja, Majd Saleh, Pamela Mrad and Nada Ghosn
Epidemiologia 2023, 4(2), 212-222; https://doi.org/10.3390/epidemiologia4020022 - 14 Jun 2023
Cited by 1 | Viewed by 2108
Abstract
In Lebanon, the nationwide vaccination against COVID-19 was launched in February 2021 using the Pfizer-BioNTech vaccine and prioritizing elderly people, persons with comorbidities, and healthcare workers. Our study aims to estimate the post-introduction vaccine effectiveness (VE) of the Pfizer-BioNTech vaccine in preventing COVID-19 [...] Read more.
In Lebanon, the nationwide vaccination against COVID-19 was launched in February 2021 using the Pfizer-BioNTech vaccine and prioritizing elderly people, persons with comorbidities, and healthcare workers. Our study aims to estimate the post-introduction vaccine effectiveness (VE) of the Pfizer-BioNTech vaccine in preventing COVID-19 hospitalizations among elderly people ≥75 years old in Lebanon. A case–control study design was used. Case patients were Lebanese, ≥75 years old, and hospitalized with positive PCR results during April–May 2021, and randomly selected from the database of the Epidemiological Surveillance Unit at the Ministry of Public Health (MOPH). Each case patient was matched by age and locality to two controls. The controls were hospitalized, non-COVID-19 patients, randomly selected from the MOPH hospital admission database. VE was calculated for fully (2 doses ≥14 days) and partially vaccinated (≥14 days of the first or within 14 days of the second dose) participants using multivariate logistic regression. A total of 345 case patients and 814 controls were recruited. Half were females, with a mean age of 83 years. A total of 14 case patients (5%) and 143 controls (22%) were fully vaccinated. A bivariate analysis showed a significant association with gender, month of confirmation/hospital admission, general health, chronic medical conditions, main income source, and living arrangement. After adjusting for a month of hospital admission and gender, the multivariate analysis yielded a VE of 82% (95% CI = 69–90%) against COVID-19-associated hospitalizations for those fully vaccinated and 53% (95% CI = 23–71%) for those partially vaccinated. Our study shows that the Pfizer-BioNTech vaccine is effective in reducing the risk for COVID-19-associated hospitalizations of Lebanese elderly people (≥75 years old). Additional studies are warranted to explore VE in reducing hospitalizations for younger age groups, as well as reducing COVID-19 infections. Full article
(This article belongs to the Special Issue Field Epidemiology Research in the Mediterranean Region)
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15 pages, 2630 KB  
Article
Formation, Structural Characterization, and Functional Properties of Corn Starch/Zeaxanthin Composites
by Songnan Li, Duo Feng, Enpeng Li and Robert G. Gilbert
Foods 2023, 12(10), 2076; https://doi.org/10.3390/foods12102076 - 22 May 2023
Cited by 11 | Viewed by 2916
Abstract
Zeaxanthin is a natural xanthophyll carotenoid and the main macular pigment that protects the macula from light-initiated oxidative damage, but it has poor stability and low bioavailability. Absorption of this active ingredient into starch granules as a carrier can be used to improve [...] Read more.
Zeaxanthin is a natural xanthophyll carotenoid and the main macular pigment that protects the macula from light-initiated oxidative damage, but it has poor stability and low bioavailability. Absorption of this active ingredient into starch granules as a carrier can be used to improve both zeaxanthin stability and controlled release. Optimization using three variables judged important for optimizing the system (reaction temperature of 65 °C, starch concentration of 6%, and reaction time of 2 h) was conducted for incorporation of zeaxanthin into corn starch granules, aiming for high zeaxanthin content (2.47 mg/g) and high encapsulation efficiency (74%). Polarized-light microscopy, X-ray diffraction, differential scanning calorimetry, and Fourier transform infrared spectroscopy showed that the process partially gelatinized corn starch; additionally, it showed the presence of corn starch/zeaxanthin composites, with the zeaxanthin successfully trapped in corn starch granules. The half-life time of zeaxanthin in corn starch/zeaxanthin composites increased to 43 days as compared with that of zeaxanthin alone (13 days). The composites show a rapid increase in zeaxanthin release with in vitro intestinal digestion, which is favorable for possible use in living systems. These findings could have application in designing effective starch-based carriers of this bioactive ingredient with enhanced storage stability and improved intestines-targeted controlled-release delivery. Full article
(This article belongs to the Section Nutraceuticals, Functional Foods, and Novel Foods)
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12 pages, 1469 KB  
Article
Incomplete HPV Vaccination among Individuals Aged 27–45 Years in the United States: A Mixed-Effect Analysis of Individual and Contextual Factors
by Victor Adekanmbi, Fangjian Guo, Christine D. Hsu, Yong Shan, Yong-Fang Kuo and Abbey B. Berenson
Vaccines 2023, 11(4), 820; https://doi.org/10.3390/vaccines11040820 - 10 Apr 2023
Cited by 7 | Viewed by 3489
Abstract
Background: In the United States, the human papillomavirus (HPV) vaccine is approved for use in individuals up to age 45. Individuals 15 years and older require three doses of the vaccine to complete the recommended dosing series. Incomplete HPV vaccination rates (i.e., one [...] Read more.
Background: In the United States, the human papillomavirus (HPV) vaccine is approved for use in individuals up to age 45. Individuals 15 years and older require three doses of the vaccine to complete the recommended dosing series. Incomplete HPV vaccination rates (i.e., one or two doses) among those over age 26, however, remain high. This study examined the independent effects of individual- and neighborhood-level factors on incomplete HPV vaccination rates in the United States (U.S.) among those aged 27–45 years. Methods: This retrospective cohort study used administrative data from Optum’s de-identified Clinformatics® Data Mart Database to identify individuals aged 27–45 years who received one or more doses of HPV vaccine between July 2019 and June 2022. Multilevel multivariable logistic regression models were applied to the data on 7662 individuals identified as being fully or partially vaccinated against HPV, nested within 3839 neighborhoods across the U.S. Results: Approximately half of the patients in this study (52.93%) were not completely vaccinated against HPV. After adjusting for all other covariates in the final model, being older than 30 years old decreased the odds of not completing the HPV vaccine series. Participants living in South-region neighborhoods of the U.S. had enhanced odds of not completing the vaccine series compared with those residing in Northeast-region neighborhoods (aOR 1.21; 95% CrI 1.03–1.42). There was significant clustering of incomplete HPV vaccination rates at the neighborhood level. Conclusions: This study revealed that individual- and neighborhood-level factors were associated with the risk of not completing the HPV vaccine series among individuals aged 27–45 years in the U.S. Interventions to improve HPV vaccination series completion rates for this age group should take into consideration both individual and contextual factors. Full article
(This article belongs to the Special Issue Focus on Human Papillomavirus Vaccines)
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22 pages, 10166 KB  
Article
Energy Savings in Buildings Based on Image Depth Sensors for Human Activity Recognition
by Omar Mata, Juana Isabel Méndez, Pedro Ponce, Therese Peffer, Alan Meier and Arturo Molina
Energies 2023, 16(3), 1078; https://doi.org/10.3390/en16031078 - 18 Jan 2023
Cited by 26 | Viewed by 3858
Abstract
A smart city is a city that binds together technology, society, and government to enable the existence of a smart economy, smart mobility, smart environment, smart living, smart people, and smart governance in order to reduce the environmental impact of cities and improve [...] Read more.
A smart city is a city that binds together technology, society, and government to enable the existence of a smart economy, smart mobility, smart environment, smart living, smart people, and smart governance in order to reduce the environmental impact of cities and improve life quality. The first step to achieve a fully connected smart city is to start with smaller modules such as smart homes and smart buildings with energy management systems. Buildings are responsible for a third of the total energy consumption; moreover, heating, ventilation, and air conditioning (HVAC) systems account for more than half of the residential energy consumption in the United States. Even though connected thermostats are widely available, they are not used as intended since most people do not have the expertise to control this device to reduce energy consumption. It is commonly set according to their thermal comfort needs; therefore, unnecessary energy consumption is often caused by wasteful behaviors and the estimated energy saving is not reached. Most studies in the thermal comfort domain to date have relied on simple activity diaries to estimate metabolic rate and fixed values of clothing parameters for strategies to set the connected thermostat’s setpoints because of the difficulty in tracking those variables. Therefore, this paper proposes a strategy to save energy by dynamically changing the setpoint of a connected thermostat by human activity recognition based on computer vision preserving the occupant’s thermal comfort. With the use of a depth sensor in conjunction with an RGB (Red–Green–Blue) camera, a methodology is proposed to eliminate the most common challenges in computer vision: background clutter, partial occlusion, changes in scale, viewpoint, lighting, and appearance on human detection. Moreover, a Recurrent Neural Network (RNN) is implemented for human activity recognition (HAR) because of its data’s sequential characteristics, in combination with physiological parameters identification to estimate a dynamic metabolic rate. Finally, a strategy for dynamic setpoints based on the metabolic rate, predicted mean vote (PMV) parameter and the air temperature is simulated using EnergyPlus™ to evaluate the energy consumption in comparison with the expected energy consumption with fixed value setpoints. This work contributes with a strategy to reduce energy consumption up to 15% in buildings with connected thermostats from the successful implementation of the proposed method. Full article
(This article belongs to the Special Issue Optimal Planning, Integration, and Control of Energy in Smart Cities)
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22 pages, 3178 KB  
Article
Pre-Omicron Vaccine Breakthrough Infection Induces Superior Cross-Neutralization against SARS-CoV-2 Omicron BA.1 Compared to Infection Alone
by Eveline Santos da Silva, Michel Kohnen, Georges Gilson, Therese Staub, Victor Arendt, Christiane Hilger, Jean-Yves Servais, Emilie Charpentier, Olivia Domingues, Chantal J. Snoeck, Markus Ollert, Carole Seguin-Devaux and Danielle Perez-Bercoff
Int. J. Mol. Sci. 2022, 23(14), 7675; https://doi.org/10.3390/ijms23147675 - 12 Jul 2022
Cited by 10 | Viewed by 4373
Abstract
SARS-CoV-2 variants raise concern because of their high transmissibility and their ability to evade neutralizing antibodies elicited by prior infection or by vaccination. Here, we compared the neutralizing abilities of sera from 70 unvaccinated COVID-19 patients infected before the emergence of variants of [...] Read more.
SARS-CoV-2 variants raise concern because of their high transmissibility and their ability to evade neutralizing antibodies elicited by prior infection or by vaccination. Here, we compared the neutralizing abilities of sera from 70 unvaccinated COVID-19 patients infected before the emergence of variants of concern (VOCs) and of 16 vaccine breakthrough infection (BTI) cases infected with Gamma or Delta against the ancestral B.1 strain, the Gamma, Delta and Omicron BA.1 VOCs using live virus. We further determined antibody levels against the Nucleocapsid (N) and full Spike proteins, the receptor-binding domain (RBD) and the N-terminal domain (NTD) of the Spike protein. Convalescent sera featured considerable variability in the neutralization of B.1 and in the cross-neutralization of different strains. Their neutralizing capacity moderately correlated with antibody levels against the Spike protein and the RBD. All but one convalescent serum failed to neutralize Omicron BA.1. Overall, convalescent sera from patients with moderate disease had higher antibody levels and displayed a higher neutralizing ability against all strains than patients with mild or severe forms of the disease. The sera from BTI cases fell into one of two categories: half the sera had a high neutralizing activity against the ancestral B.1 strain as well as against the infecting strain, while the other half had no or a very low neutralizing activity against all strains. Although antibody levels against the spike protein and the RBD were lower in BTI sera than in unvaccinated convalescent sera, most neutralizing sera also retained partial neutralizing activity against Omicron BA.1, suggestive of a better cross-neutralization and higher affinity of vaccine-elicited antibodies over virus-induced antibodies. Accordingly, the IC50: antibody level ratios were comparable for BTI and convalescent sera, but remained lower in the neutralizing convalescent sera from patients with moderate disease than in BTI sera. The neutralizing activity of BTI sera was strongly correlated with antibodies against the Spike protein and the RBD. Together, these findings highlight qualitative differences in antibody responses elicited by infection in vaccinated and unvaccinated individuals. They further indicate that breakthrough infection with a pre-Omicron variant boosts immunity and induces cross-neutralizing antibodies against different strains, including Omicron BA.1. Full article
(This article belongs to the Special Issue SARS-CoV-2 Variants, Antibodies and Vaccines)
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17 pages, 2976 KB  
Article
Evaluation of Recombinant Herpesvirus of Turkey Laryngotracheitis (rHVT-LT) Vaccine against Genotype VI Canadian Wild-Type Infectious Laryngotracheitis Virus (ILTV) Infection
by Catalina Barboza-Solis, Shahnas M. Najimudeen, Ana Perez-Contreras, Ahmed Ali, Tomy Joseph, Robin King, Madhu Ravi, Delores Peters, Kevin Fonseca, Carl A. Gagnon, Frank van der Meer and Mohamed Faizal Abdul-Careem
Vaccines 2021, 9(12), 1425; https://doi.org/10.3390/vaccines9121425 - 3 Dec 2021
Cited by 13 | Viewed by 4805
Abstract
In Alberta, infectious laryngotracheitis virus (ILTV) infection is endemic in backyard poultry flocks; however, outbreaks are only sporadically observed in commercial flocks. In addition to ILTV vaccine revertant strains, wild-type strains are among the most common causes of infectious laryngotracheitis (ILT). Given the [...] Read more.
In Alberta, infectious laryngotracheitis virus (ILTV) infection is endemic in backyard poultry flocks; however, outbreaks are only sporadically observed in commercial flocks. In addition to ILTV vaccine revertant strains, wild-type strains are among the most common causes of infectious laryngotracheitis (ILT). Given the surge in live attenuated vaccine-related outbreaks, the goal of this study was to assess the efficacy of a recombinant herpesvirus of turkey (rHVT-LT) vaccine against a genotype VI Canadian wild-type ILTV infection. One-day-old specific pathogen-free (SPF) White Leghorn chickens were vaccinated with the rHVT-LT vaccine or mock vaccinated. At three weeks of age, half of the vaccinated and the mock-vaccinated animals were challenged. Throughout the experiment, weights were recorded, and feather tips, cloacal and oropharyngeal swabs were collected for ILTV genome quantification. Blood was collected to isolate peripheral blood mononuclear cells (PBMC) and quantify CD4+ and CD8+ T cells. At 14 dpi, the chickens were euthanized, and respiratory tissues were collected to quantify genome loads and histological examination. Results showed that the vaccine failed to decrease the clinical signs at 6 days post-infection. However, it was able to significantly reduce ILTV shedding through the oropharyngeal route. Overall, rHVT-LT produced a partial protection against genotype VI ILTV infection. Full article
(This article belongs to the Special Issue Poultry Vaccines)
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17 pages, 1792 KB  
Article
Two-Dimensional Gel Electrophoresis to Study the Activity of Type IIA Topoisomerases on Plasmid Replication Intermediates
by Jorge Cebrián, Victor Martínez, Pablo Hernández, Dora B. Krimer, María-José Fernández-Nestosa and Jorge B. Schvartzman
Biology 2021, 10(11), 1195; https://doi.org/10.3390/biology10111195 - 17 Nov 2021
Cited by 3 | Viewed by 5261
Abstract
DNA topoisomerases are the enzymes that regulate DNA topology in all living cells. Since the discovery and purification of ω (omega), when the first were topoisomerase identified, the function of many topoisomerases has been examined. However, their ability to relax supercoiling and unlink [...] Read more.
DNA topoisomerases are the enzymes that regulate DNA topology in all living cells. Since the discovery and purification of ω (omega), when the first were topoisomerase identified, the function of many topoisomerases has been examined. However, their ability to relax supercoiling and unlink the pre-catenanes of partially replicated molecules has received little attention. Here, we used two-dimensional agarose gel electrophoresis to test the function of three type II DNA topoisomerases in vitro: the prokaryotic DNA gyrase, topoisomerase IV and the human topoisomerase 2α. We examined the proficiency of these topoisomerases on a partially replicated bacterial plasmid: pBR-TerE@AatII, with an unidirectional replicating fork, stalled when approximately half of the plasmid had been replicated in vivo. DNA was isolated from two strains of Escherichia coli: DH5αF’ and parE10. These experiments allowed us to assess, for the first time, the efficiency of the topoisomerases examined to resolve supercoiling and pre-catenanes in partially replicated molecules and fully replicated catenanes formed in vivo. The results obtained revealed the preferential functions and also some redundancy in the abilities of these DNA topoisomerases in vitro. Full article
(This article belongs to the Section Genetics and Genomics)
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10 pages, 799 KB  
Article
Role of dipA and pilD in Francisella tularensis Susceptibility to Resazurin
by Kendall Souder, Emma J. Beatty, Siena C. McGovern, Michael Whaby, Emily Young, Jacob Pancake, Daron Weekley, Justin Rice, Donald A. Primerano, James Denvir, Joseph Horzempa and Deanna M. Schmitt
Antibiotics 2021, 10(8), 992; https://doi.org/10.3390/antibiotics10080992 - 17 Aug 2021
Cited by 4 | Viewed by 3420
Abstract
The phenoxazine dye resazurin exhibits bactericidal activity against the Gram-negative pathogens Francisella tularensis and Neisseria gonorrhoeae. One resazurin derivative, resorufin pentyl ether, significantly reduces vaginal colonization by Neisseria gonorrhoeae in a mouse model of infection. The narrow spectrum of bacteria susceptible to [...] Read more.
The phenoxazine dye resazurin exhibits bactericidal activity against the Gram-negative pathogens Francisella tularensis and Neisseria gonorrhoeae. One resazurin derivative, resorufin pentyl ether, significantly reduces vaginal colonization by Neisseria gonorrhoeae in a mouse model of infection. The narrow spectrum of bacteria susceptible to resazurin and its derivatives suggests these compounds have a novel mode of action. To identify potential targets of resazurin and mechanisms of resistance, we isolated mutants of F. tularensis subsp. holarctica live vaccine strain (LVS) exhibiting reduced susceptibility to resazurin and performed whole genome sequencing. The genes pilD (FTL_0959) and dipA (FTL_1306) were mutated in half of the 46 resazurin-resistant (RZR) strains sequenced. Complementation of select RZR LVS isolates with wild-type dipA or pilD partially restored sensitivity to resazurin. To further characterize the role of dipA and pilD in resazurin susceptibility, a dipA deletion mutant, ΔdipA, and pilD disruption mutant, FTL_0959d, were generated. Both mutants were less sensitive to killing by resazurin compared to wild-type LVS with phenotypes similar to the spontaneous resazurin-resistant mutants. This study identified a novel role for two genes dipA and pilD in F. tularensis susceptibility to resazurin. Full article
(This article belongs to the Special Issue Genomic Analysis of Antibiotics Resistance in Pathogens)
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7 pages, 4086 KB  
Case Report
Caudal Regression Syndrome
by Ranjit I. Kylat and Mohammad Bader
Children 2020, 7(11), 211; https://doi.org/10.3390/children7110211 - 4 Nov 2020
Cited by 26 | Viewed by 21125
Abstract
Caudal Regression Syndrome (CRS) or Caudal dysgenesis syndrome (CDS) is characterized by maldevelopment of the caudal half of the body with variable involvement of the gastrointestinal, genitourinary, skeletal, and nervous systems. CRS affects 1–3 newborn infants per 100,000 live births. The prevalence in [...] Read more.
Caudal Regression Syndrome (CRS) or Caudal dysgenesis syndrome (CDS) is characterized by maldevelopment of the caudal half of the body with variable involvement of the gastrointestinal, genitourinary, skeletal, and nervous systems. CRS affects 1–3 newborn infants per 100,000 live births. The prevalence in infants of diabetic mothers is reported at 1 in 350 live births which includes all the variants. A related condition is sirenomelia sequence or mermaid syndrome or symmelia and is characterized by fusion of the legs and a variable combination of the other abnormalities. The Currarino triad is a related anomaly that includes anorectal atresia, coccygeal and partial sacral agenesis, and a pre-sacral lesion such as anterior meningocele, lipoma or dermoid cyst. A multidisciplinary management approach is needed that includes rehabilitative services, and patients need a staged surgical approach. Full article
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11 pages, 1769 KB  
Article
The Minimal Effect of Linker Length for Fatty Acid Conjugation to a Small Protein on the Serum Half-Life Extension
by Jinhwan Cho, Junyong Park, Giyoong Tae, Mi Sun Jin and Inchan Kwon
Biomedicines 2020, 8(5), 96; https://doi.org/10.3390/biomedicines8050096 - 26 Apr 2020
Cited by 7 | Viewed by 5060
Abstract
Conjugation of serum albumin or one of its ligands (such as fatty acid) has been an effective strategy to prolong the serum half-lives of drugs via neonatal Fc receptor (FcRn)–mediated recycling of albumin. So far, fatty acid (FA) has been effective in prolonging [...] Read more.
Conjugation of serum albumin or one of its ligands (such as fatty acid) has been an effective strategy to prolong the serum half-lives of drugs via neonatal Fc receptor (FcRn)–mediated recycling of albumin. So far, fatty acid (FA) has been effective in prolonging the serum half-lives for therapeutic peptides and small proteins, but not for large therapeutic proteins. Very recently, it was reported a large protein conjugated to FA competes with the binding of FcRn with serum albumin, leading to limited serum half-life extension, because primary FA binding sites in serum albumin partially overlap with FcRn binding sites. In order to prevent such competition, longer linkers between FA and the large proteins were required. Herein, we hypothesized that small proteins do not cause substantial competition for FcRn binding to albumin, resulting in the extended serum half-life. Using a small protein (28 kDa), we investigated whether the intramolecular distance in FA-protein conjugate affects the FcRn binding with albumin and serum half-life using linkers with varying lengths. Unlike with the FA-conjugated large protein, all FA-conjugated small proteins with different linkers exhibited comparable the FcRn binding to albumin and extended serum half-life. Full article
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