bluuebunny/crossref_metadata_2025 huggingface dataset:
Shall the Wild Boar Pass? A Genetically Assessed Ecological Corridor in the Geneva Region
Authors: Kupferschmid Fanny Alexandra Laura , Crovadore Julien , Fischer Claude , Lefort François
Published: June 2022

Landscape fragmentation caused by road infrastructures represents a major threat to the genetic diversity of a region. The resulting genetic isolation between subpopulations may lead to consanguinity, and consequently to population collapse and extinction. However, the construction of wildlife crossings can help maintain connectivity. In the present paper, we evaluated the genetic spatial structuring of populations of wild boars (Sus scrofa) in three areas of the Geneva region connected by an ecological corridor. Those areas are cut off either by a highway that is crossed by a wildlife overpass or by an anthropized sector. Genetic profiling with 9 nuclear microsatellite markers yielded 61 single profiles, which allowed for clustering, parentage, and linkage disequilibrium analyses, uncovering the populations’ genetic structure. We also evaluated whether the genetic structure was affected by the sex of individuals. In our analyses, all individuals clustered into a single genetic group, suggesting that no structure limited significantly the gene flow in the region. However, a recent admixture indicated a potential increase in the gene flow between two of the subpopulations due to the wildlife overpass, while the other part of the ecological corridor was not or was only partially functional. Genetic distances between males were significantly higher than between females, although the role of sex remains unclear as to its influence on population genetics. Finally, in order to avoid a subregion becoming fully isolated, urbanization planning should consider this genetic evaluation and proceed with further monitoring, especially by focusing on species more sensitive to landscape fragmentation.
Spatial Suitability Evaluation of Livestock and Poultry Breeding: A Case Study in Wangkui County, Heilongjiang Province, China
Authors: Liu Bao-Ling , Li Gang , Yang Chun-Xue , Ma Jun , Zhao Yan , Yu Shao-Peng , Dong Jun , Guo Hong
Published: June 2022

With the development of animal husbandry, environmental pollution caused by livestock and poultry breeding (LPB) has become a major problem faced by environmental protection departments. In response to this problem, this study established a spatial suitability evaluation system for LPB. According to the particularity of the indicators, there is a nonlinear relationship after quantification and not all elements in the matrix presented by the indexes and evaluation units have an ‘order’ relationship. Therefore, this study selects a method of combining a self-organising map network. The Hasse diagram technique and geographic information system were used to evaluate the suitability of LPB. Practical application research was conducted in Wangkui County. Most regions of Wangkui County are unsuitable for LPB, accounting for 81.23% of the total area of the county. A small part of a suitable region (434.76 km2) was determined to be a potential site for LPB. According to the results of suitable breeding regions, 17 existing large-scale livestock and poultry farms (LPFs) with unreasonable distribution were optimised for space, which are located in an urban construction area. Spatial optimisation was performed using GIS buffer and overlay analyses, providing the best relocation plot for these 17 LPFs. The results provide a scientific basis for the utilisation of livestock manure and spatial layout planning for LPB.
Quantifying Raveling Using 3D Technology with Loss of Aggregates as a New Performance Indicator
Authors: Yu Pingzhou (Lucas) , Tsai Yichang (James)
Published: June 2022

Pavement raveling is one of the predominant distresses in the United States that impacts roadway safety and driver comfort on open-graded friction course (OGFC) pavements. Raveling specific treatments, such as fog seal and micro-milling the OGFC layer, can prolong pavement life and reduce resurfacing costs and environmental impact. However, with the current qualitative condition assessment methods (which rate pavements at Severity Levels 1–3 or as light, moderate, or severe), it is difficult to determine the optimal timing for these raveling treatments to be most effective. Therefore, there is an urgent need to develop a method to quantitatively evaluate the raveling condition. While 3D pavement technology provides opportunities for quantifying pavement raveling conditions using 3D pavement surface data, there are two main challenges for quantifying pavement raveling: (1) estimating a reference surface that represents the pavement without any raveling so that the actual pavement can be compared to the reference surface to quantify the raveling, and (2) obtaining pavement images with quantified raveling conditions (aggregate loss volume) for validation. This paper proposes a method with the loss of aggregate as a new performance indicator to automatically quantify raveling using 3D pavement surface data already collected by transportation agencies for pavement evaluation. The proposed method is validated using pavement images (with known aggregate loss) from simulated pavement mats fabricated in the lab and synthetic pavement images obtained by procedural generation. The proposed method consists of (1) 3D data acquisition; (2) pre-processing with (a) outlier removal and image smoothing, (b) two-sensor image stitching, and (c) range image rectification; (3) raveling detection using (a) region of interest selection, (b) reference surface estimation, (c) potential aggregate loss identification, and (d) noise removal; and (4) aggregate loss quantification. The validation results show a strong correlation (R = 0.99) between the computed aggregate loss and the expected aggregate loss. Better performance was observed with the proposed method than with other methods (such as the watershed method and the model fitting method). The proposed method provides a cost-effective means to quantify the loss of aggregates in support of quantitative raveling condition forecasting by leveraging 3D pavement data already collected by transportation agencies.
Spatiotemporal Variation and Driving Factors of Embodied Carbon in China-G7 Trade
Authors: Hu Yingying , Wu Wei
Published: June 2022

China and G7 countries contribute 70% global GDP and 55% global carbon emissions. The carbon leakage between China and G7 is a crucial issue in achieving the synergetic emission abatement globally. The motivation of this study is to evaluate the embodied carbon transfer between China and G7 in the trade between 2000 and 2014, and investigate the driving factors that impact the embodied carbon trend. A multiregional input–output (MRIO) model based on the WIOD database is constructed, and a structural decomposition analysis (SDA) is employed. The results indicate that China plays the role of net exporter of embodied carbon in trade with G7, which mainly flows to the US (5825.67 Mt), Japan (3170.36 Mt) and Germany (1409.93 Mt). However, China’s embodied carbon exports to the G7 show an inverted U-shaped trend with a turning point after financial crisis, while the G7’s embodied carbon exports to China continue to rise. The conclusion is that to achieve the climate goal of carbon neutrality, it is not enough to rely solely on the low-carbon transition on the production side, the demand side should also be adjusted.
Does Rapid Urbanization Improve Green Water-Use Efficiency? Based on the Investigation of Guangdong Province, China
Authors: Zhou Qiuxia , Tong Changfeng
Published: June 2022

The green water-use efficiency considers the undesired output of water pollution discharge as well as desirable output, pursuing the unification of economic and ecological benefit. In recent years, China has been undergoing a process of rapid urbanization and a dramatic change in the water utilization pattern, while the water pollution discharge is becoming more obvious. Taking Guangdong Province as an example, the largest economy and urbanization pilot area, exploring the impact of different aspects of rapid urbanization on green water-use efficiency is of great significance for promoting new-type urbanization and green development. This study adopts the super efficiency slack-based model (SE-SBM) considering undesirable output to measure the green water-use efficiency of each city in Guangdong Province. On this basis, mixed panel, random panel, and fixed panel models are used to explore the relationship between industrial urbanization, population urbanization, land urbanization, social urbanization, and urban-rural integration on green water-use efficiency. The results reveal that Guangdong’s green water-use efficiency follows a low upward trend. The green water-use efficiency of the Pearl River Delta has improved rapidly, while other regions are maintained at a low level, so regional disparities are also widening. Industrial urbanization and land urbanization have a significant positive effect on green water-use efficiency, while social urbanization and urban-rural integration have a significant negative effect. The effect of population urbanization on the efficiency is not significant. The construction of new-type urbanization should be accelerated, the green transformation and upgrading of industries should be guided, and the urbanization of agricultural migrants should be promoted. It is necessary to rationally plan and utilize urban land resources and comprehensively improve urban functions and livability.
Maturity Model as a Driver for Circular Economy Transformation
Authors: Uhrenholt Jonas Nygaard , Kristensen Jesper Hemdrup , Rincón Maria Camila , Adamsen Sofie , Jensen Steffen Foldager , Waehrens Brian Vejrum
Published: June 2022

The movement of manufacturing organisations towards a circular economy sets the scene for extensive industrial change. This change is not simply a continuation of current business; instead, it brings up multiple questions concerning ways of thinking, modes of operation, and the very foundation of a business. Manufacturing organisations are experiencing uncertainty regarding how to address this transformation due to its multi-faceted nature. Maturity models are seen by some as a tool for assessing and guiding manufacturing organisations when it comes to complex and multi-faceted agendas, such as that of the circular economy (CE). Maturity models provide scaffolding in the form of presentation of a desired evolution path from which manufacturing organisations can define reasonable and desirable plans for engagement with the circular economy. This study adopts the cumulative capability perspective in developing a CE maturity reference model that explicates the circular transformation by noting six discrete maturity levels across six organisational dimensions: value creation, governance, people and skills, supply chain and partnership, operations and technology, and product and material. The progression of circular maturity is explained by the principles of expertise and the systems perspective. The explication of CE transformation across dimensions and levels provides a boundary object for organisations, i.e., a scaffolding for moving from its current zone of development to its proximal zone of development.
Singapore Soundscape Site Selection Survey (S5): Identification of Characteristic Soundscapes of Singapore via Weighted k-Means Clustering
Authors: Ooi Kenneth , Lam Bhan , Hong Joo-Young , Watcharasupat Karn N. , Ong Zhen-Ting , Gan Woon-Seng
Published: June 2022

The ecological validity of soundscape studies usually rests on the choice of soundscapes that are representative of the perceptual space under investigation. For example, a soundscape pleasantness study might investigate locations with soundscapes ranging from “pleasant” to “annoying”. The choice of soundscapes is typically researcher led, but a participant-led process can reduce selection bias and improve result reliability. Hence, we propose a robust participant-led method to pinpoint characteristic soundscapes possessing arbitrary perceptual attributes. We validate our method by identifying Singaporean soundscapes spanning the perceptual quadrants generated from the “Pleasantness” and “Eventfulness” axes of the ISO 12913-2 circumplex model of soundscape perception, as perceived by local experts. From memory and experience, 67 participants first selected locations corresponding to each perceptual quadrant in each major planning region of Singapore. We then performed weighted k-means clustering on the selected locations, with weights for each location derived from previous frequencies and durations spent in each location by each participant. Weights hence acted as proxies for participant confidence. In total, 62 locations were thereby identified as suitable locations with characteristic soundscapes for further research utilizing the ISO 12913-2 perceptual quadrants. Audio–visual recordings and acoustic characterization of the soundscapes will be made in a future study.
Lifetime and Dynamics of Natural Orbits around Titan
Authors: Ferreira Lucas , Sfair Rafael , Prado Antônio
Published: June 2022

Considering the growing interest in sending probes to the natural satellite Titan, our work aims to investigate and map natural orbits around this moon. For that, we use mathematical models with forces that have symmetry/asymmetry phenomena, depending on the force, applied to orbits around Titan. We evaluated the effects due to the gravitational attraction of the Saturn, together with the perturbative effects coming from the non-sphericity of Titan (the gravitational coefficient J2) and the effects of the atmospheric drag present in the natural satellite. Lifetime maps were generated for different initial configurations of the orbit of the probe, which were analyzed in different scenarios of orbital perturbations. The results showed the existence of orbits surviving at least 20 years and conditions with shorter times, but sufficient to carry out possible missions, including the important polar orbits. Furthermore, the investigation of the oscillation rate of the altitude of the probe, called coefficient Δ, proposed in this work, showed orbital conditions that result in more minor oscillations in the altitude of the spacecraft.
An Innovative Framework for Coincidental Correctness Impacting on Fault Localization
Authors: Cao Heling , Li Lei , Sun Yigui
Published: June 2022

An important research aspect of Spectrum-Based Fault Localization (SBFL) is the influence factors of the effectiveness of suspiciousness formulas from the perspective of symmetry. Coincidental correctness is one of the most important factors impacting the effectiveness of suspiciousness formulas. The influence of fault localization by coincidental correctness has attracted a large amount of research in the perspective of empirical study; however, it can hardly be considered as sufficiently comprehensive when there are a large number of the symmetrical suspiciousness formulas. Therefore, we first develop an innovative theoretical framework with function derivation investigating suspiciousness formulas impacted by coincidental correctness. We define three types of relations between formulas affected by coincidental correctness: namely, improved type, invariant type and uncertain type. We investigated 30 suspiciousness formulas using this framework and group them into three categories. Furthermore, we conduct an empirical study to verify the effectiveness of SBFL affected by coincidental correctness on four relatively large C programs. We proved that coincidental correctness has a positive effect on 23 out of these 30 formulas, no effect on 5 of them, and the effect on the remaining 2 of them depend on certain conditions. The experimental results show that the effectiveness of some suspiciousness formulas can be enhanced and that of some suspiciousness formulas remain unchanged.
Quantitative Chest CT Analysis to Measure Short-Term Sequelae of COVID-19 Pneumonia: A Monocentric Prospective Study
Authors: Lanza Ezio , Ammirabile Angela , Casana Maddalena , Pocaterra Daria , Tordato Federica Maria Pilar , Varisco Benedetta , Lisi Costanza , Messana Gaia , Balzarini Luca , Morelli Paola
Published: June 2022

(1) Background: Quantitative CT analysis (QCT) has demonstrated promising results in the prognosis prediction of patients affected by COVID-19. We implemented QCT not only at diagnosis but also at short-term follow-up, pairing it with a clinical examination in search of a correlation between residual respiratory symptoms and abnormal QCT results. (2) Methods: In this prospective monocentric trial performed during the “first wave” of the Italian pandemic, i.e., from March to May 2020, we aimed to test the relationship between %deltaCL (variation of %CL-compromised lung volume) and variations of symptoms-dyspnea, cough and chest pain-at follow-up clinical assessment after hospitalization. (3) Results: 282 patients (95 females, 34%) with a median age of 60 years (IQR, 51–69) were included. We reported a correlation between changing lung abnormalities measured by QCT, and residual symptoms at short-term follow up after COVID-19 pneumonia. Independently from age, a low percentage of surviving patients (1–4%) may present residual respiratory symptoms at approximately two months after discharge. QCT was able to quantify the extent of residual lung damage underlying such symptoms, as the reduction of both %PAL (poorly aerated lung) and %CL volumes was correlated to their disappearance. (4) Conclusions QCT may be used as an objective metric for the measurement of COVID-19 sequelae.
Pharmacokinetics and the Dermal Absorption of Bromochlorophene, a Cosmetic Preservative Ingredient, in Rats
Authors: Lee Yong-Jae , Kim Hyang-Yeon , Pham Quynh-Lien , Lee Jung-Dae , Kim Kyu-Bong
Published: June 2022

The cosmetic industry has flourished in recent years. Accordingly, the safety of cosmetic ingredients is increasing. Bromochlorophene (BCP) is a commonly used cosmetic preservative. To evaluate the effects of BCP exposure, in vitro dermal absorption and in vivo pharmacokinetic (PK) studies were conducted using gel and cream formulations. The Franz diffusion cell system and rat dorsal skin were used for tests according to the Korea Ministry of Food and Drug Safety guidelines for in vitro skin absorption methods. After the dermal application (1.13 mg/cm2) of BCP in the gel and cream formulations, liquid chromatography–mass spectrometry (LC–MS/MS) was used to evaluate the amount of BCP that remained unabsorbed on the skin (WASH), and that was present in the receptor fluid (RF), stratum corneum (SC), and (epi)dermis (SKIN). The total dermal absorption rate of BCP was 7.42 ± 0.74% for the gel formulation and 1.5 ± 0.9% for the cream formulation. Total recovery in an in vitro dermal absorption study was 109.12 ± 8.79% and 105.43 ± 11.07% for the gel and cream formulations, respectively. In vivo PK and dermal absorption studies of BCP were performed following the Organization for Economic Cooperation and Development guidelines 417 and 427, respectively. When intravenous (i.v.) pharmacokinetics was performed, BCP was dissolved in glycerol formal and injected into the tail vein (n = 3) of the rats at doses of 1 and 0.2 mg/kg. Dermal PK parameters were estimated by the application of the gel and cream formulations (2.34 mg/kg of BCP as an active ingredient) to the dorsal skin of the rats. Intravenous and dermal PK parameters were analyzed using a non-compartmental method. The dermal bioavailability of BCP was determined as 12.20 ± 2.63% and 4.65 ± 0.60% for the gel and cream formulations, respectively. The representative dermal absorption of BCP was evaluated to be 12.20 ± 2.63% based on the results of the in vivo PK study.
Lanthanides Toxicity in Zebrafish Embryos Are Correlated to Their Atomic Number
Authors: Lin Ying-Ting , Liu Rong-Xuan , Audira Gilbert , Suryanto Michael Edbert , Roldan Marri Jmelou M. , Lee Jiann-Shing , Ger Tzong-Rong , Hsiao Chung-Der
Published: June 2022

Rare earth elements (REEs) are critical metallic materials with a broad application in industry and biomedicine. The exponential increase in REEs utilization might elevate the toxicity to aquatic animals if they are released into the water due to uncareful handling. The specific objective of our study is to explore comprehensively the critical factor of a model Lanthanide complex electronic structures for the acute toxicity of REEs based on utilizing zebrafish as a model animal. Based on the 96 h LC50 test, we found that the majority of light REEs display lower LC50 values (4.19–25.17 ppm) than heavy REEs (10.30–41.83 ppm); indicating that they are atomic number dependent. Later, linear regression analyses further show that the average carbon charge on the aromatic ring (aromatic Cavg charge) can be the most significant electronic structural factor responsible for the Lanthanides’ toxicity in zebrafish embryos. Our results confirm a very strong correlation of LC50 to Lanthanide’s atomic numbers (r = 0.72), Milliken charge (r = 0.70), and aromatic Cavg charge (r = −0.85). This most significant correlation suggests a possible toxicity mechanism that the Lanthanide cation’s capability to stably bind to the aromatic ring on the residue of targeted proteins via a covalent chelating bond. Instead, the increasing ionic bond character can reduce REEs’ toxicity. In addition, Lanthanide toxicity was also evaluated by observing the disruption of photo motor response (PMR) activity in zebrafish embryos. Our study provides the first in vivo evidence to demonstrate the correlation between an atomic number of Lanthanide ions and the Lanthanide toxicity to zebrafish embryos.
Computer-Aided Analysis of West Sub-Saharan Africa Snakes Venom towards the Design of Epitope-Based Poly-Specific Antivenoms
Authors: Ros-Lucas Albert , Bigey Pascal , Chippaux Jean-Philippe , Gascón Joaquim , Alonso-Padilla Julio
Published: June 2022

Snakebite envenomation is a neglected tropical disease that causes over 100,000 deaths each year. The only effective treatment consists of antivenoms derived from animal sera, but these have been deemed with highly variable potency and are usually inaccessible and too costly for victims. The production of antivenoms by venom-independent techniques, such as the immunization with multi-epitope constructs, could circumvent those drawbacks. Herein, we present a knowledge-based pipeline to prioritize potential epitopes of therapeutic relevance from toxins of medically important snakes in West Sub-Saharan Africa. It is mainly based on sequence conservation and protein structural features. The ultimately selected 41 epitopes originate from 11 out of 16 snake species considered of highest medical importance in the region and 3 out of 10 of those considered as secondary medical importance. Echis ocellatus, responsible for the highest casualties in the area, would be covered by 12 different epitopes. Remarkably, this pipeline is versatile and customizable for the analysis of snake venom sequences from any other region of the world.
Topological Gauge Actions on the Lattice as Overlap Fermion Determinants
Authors: Karthik Nikhil , Narayanan Rajamani
Published: June 2022

Overlap fermion on the lattice has been shown to properly reproduce topological aspects of gauge fields. In this paper, we review the derivation of Overlap fermion formalism in a torus of three space-time dimensions. Using the formalism, we show how to use the Overlap fermion determinants in the massless and infinite mass limits to construct different continuum topological gauge actions, such as the level-k Chern–Simons action, “half-CS” term and the mixed Chern–Simons (BF) coupling, in a gauge-invariant lattice UV regulated manner. Taking special Abelian and non-Abelian background fields, we demonstrate numerically how the lattice formalism beautifully reproduces the continuum expectations, such as the flow of action under large gauge transformations.
Ultra Long Period Cepheids: Observation and Theory
Authors: Musella Ilaria
Published: June 2022

Ultra Long Period Cepheids are becoming a very interesting and important topic thanks to the contribution that they can give to understanding the current tension existing between the early-universe and local Hubble constant measurements. These bright pulsating variables are observable up to cosmological distances (larger than 100 Mpc) allowing us, in principle, to measure the Hubble constant without the need for secondary indicators, thus reducing the possible systematic errors in the calibration of the extragalactic distance scale. The Ultra Long Period Cepheids also represent a useful tool for obtaining information on the star formation history of the host galaxy and a challenge for the evolutionary and pulsational models, particularly in the very metal poor regime. In this paper, the largest known ULP sample, consisting of 72 objects, including 10 new candidates, is analyzed to give an observational and theoretical overview of their role as distance indicators and of their evolutionary properties.
Inhibitors of Activin Receptor-like Kinase 5 Interfere with SARS-CoV-2 S-Protein Processing and Spike-Mediated Cell Fusion via Attenuation of Furin Expression
Authors: Mezger Maja C. , Conzelmann Carina , Weil Tatjana , von Maltitz Pascal , Albers Dan P. J. , Münch Jan , Stamminger Thomas , Schilling Eva-Maria
Published: June 2022

Screening of a protein kinase inhibitor library identified SB431542, targeting activin receptor-like kinase 5 (ALK5), as a compound interfering with SARS-CoV-2 replication. Since ALK5 is implicated in transforming growth factor β (TGF-β) signaling and regulation of the cellular endoprotease furin, we pursued this research to clarify the role of this protein kinase for SARS-CoV-2 infection. We show that TGF-β1 induces the expression of furin in a broad spectrum of cells including Huh-7 and Calu-3 that are permissive for SARS-CoV-2. The inhibition of ALK5 by incubation with SB431542 revealed a dose-dependent downregulation of both basal and TGF-β1 induced furin expression. Furthermore, we demonstrate that the ALK5 inhibitors SB431542 and Vactosertib negatively affect the proteolytic processing of the SARS-CoV-2 Spike protein and significantly reduce spike-mediated cell–cell fusion. This correlated with an inhibitory effect of ALK5 inhibition on the production of infectious SARS-CoV-2. Altogether, our study shows that interference with ALK5 signaling attenuates SARS-CoV-2 infectivity and cell–cell spread via downregulation of furin which is most pronounced upon TGF-β stimulation. Since a TGF-β dominated cytokine storm is a hallmark of severe COVID-19, ALK5 inhibitors undergoing clinical trials might represent a potential therapy option for COVID-19.
Isolation and Characterization of Lytic Proteus Virus 309
Authors: Aaron Joshua , van Zyl Leonardo J. , Dicks Leon M. T.
Published: June 2022

Proteus mirabilis is frequently associated with complicated urinary tract infections (UTIs) and is the main cause of catheter-associated urinary tract infections (CAUTIs). Treatment of such infections is complicated and challenging due to the biofilm forming abilities of P. mirabilis. If neglected or mistreated, infections may lead to life-threating conditions such as cystitis, pyelonephritis, kidney failure, and bacteremia that may progress to urosepsis. Treatment with antibiotics, especially in cases of recurring and persistent infections, leads to the development of resistant strains. Recent insights into phage therapy and using phages to coat catheters have been evaluated with many studies showing promising results. Here, we describe a highly lytic bacteriophage, Proteus_virus_309 (41,740 bp), isolated from a wastewater treatment facility in Cape Town, South Africa. According to guidelines of the International Committee on Taxonomy of Viruses (ICTV), bacteriophage 309 is a species within the genus Novosibovirus. Similar to most members of the genus, bacteriophage 309 is strain-specific and lyse P. mirabilis in less than 20 min.
Identification of Phage Receptor-Binding Protein Sequences with Hidden Markov Models and an Extreme Gradient Boosting Classifier
Authors: Boeckaerts Dimitri , Stock Michiel , De Baets Bernard , Briers Yves
Published: June 2022

Receptor-binding proteins (RBPs) of bacteriophages initiate the infection of their corresponding bacterial host and act as the primary determinant for host specificity. The ever-increasing amount of sequence data enables the development of predictive models for the automated identification of RBP sequences. However, the development of such models is challenged by the inconsistent or missing annotation of many phage proteins. Recently developed tools have started to bridge this gap but are not specifically focused on RBP sequences, for which many different annotations are available. We have developed two parallel approaches to alleviate the complex identification of RBP sequences in phage genomic data. The first combines known RBP-related hidden Markov models (HMMs) from the Pfam database with custom-built HMMs to identify phage RBPs based on protein domains. The second approach consists of training an extreme gradient boosting classifier that can accurately discriminate between RBPs and other phage proteins. We explained how these complementary approaches can reinforce each other in identifying RBP sequences. In addition, we benchmarked our methods against the recently developed PhANNs tool. Our best performing model reached a precision-recall area-under-the-curve of 93.8% and outperformed PhANNs on an independent test set, reaching an F1-score of 84.0% compared to 69.8%.
Exploring the Mumps Virus Glycoproteins: A Review
Authors: Frost Jasmine Rae , Shaikh Saba , Severini Alberto
Published: June 2022

The resurgence of mumps in vaccinated adult populations has raised concerns about possible waning vaccine immunity or a potential lack of protection to the circulating strain. A number of individual studies have investigated if there are amino acid variations between the circulating wild-type strains and vaccine strains. In these studies, the HN and F mumps surface glycoproteins have been of interest, because of their role in viral infection, and because the HN protein is the target of neutralizing antibodies. Here, we summarize the single nucleotide variants and their potential effect that have been identified between mumps genotypes in the HN and F proteins.
Design, Characterization, and Immune Augmentation of Docosahexaenoic Acid Nanovesicles as a Potential Delivery System for Recombinant HBsAg Protein
Authors: Bakkari Mohammed Ali , Moni Sivakumar S. , Alshammari Abdulrahman , Salawi Ahmad , Sultan Muhammad H. , Madkhali Osama A. , Alqahtani Saad S. , Alam Mohammad Firoz , Shaheen Emad Sayed , Elmobark Mohamed Eltaib
Published: June 2022

Recombinant HBsAg-loaded docosahexaenoic acid nanovesicles were successfully developed, lyophilized (LRPDNV) and characterized for their physico-chemical properties. The zetapotential (ZP) of LRPDNV was −60.4 ± 10.4 mV, and its polydispersity (PDI) was 0.201, with a % PDI of 74.8. The particle sizes of LRPDNV were 361.4 ± 48.24 z. d.nm and 298.8 ± 13.4 r.nm. The % mass (r.nm) of LRPDNV in a colloidal injectable system was 50, its mobility value was −3.417 µm cm/Vs, while the conductivity of the particles was 0.728 (mS/cm). Transmission electron microscopic (TEM) analysis showed smooth morphological characteristics of discrete spherical LRPDNV. Differential scanning calorimetry (DSC) and thermogravimetric analysis (TGA) of LRPDNV revealed that LRPDNV is thermostable. The X-ray diffraction (XRD) studies showed a discrete crystalline structure of LRPDNV at 2θ. Nuclear magnet resonance (NMR) studies (1H-NMR and 13C-NMR spectrum showed the discrete structure of LRPDNV. The immunogenicity study was performed by antibody induction technique. The anti-HBs IgG levels were elevated in Wistar rats; the antibody induction was observed more in the product (LRPDNV) treatment group when compared to the standard vaccine group. The level of antibodies on the 14th and 30th day was 6.3 ± 0.78 U/mL and 9.24 ± 1.76 U/mL in the treatment and standard vaccine groups, respectively. Furthermore, the antibody level on the 30th day in the treatment group was 26.66 ± 0.77 U/mL, and in the standard vaccine group, the antibody level was 23.94 ± 1.62 U/mL. The LRPDNV vaccine delivery method released HBsAg sustainably from the 14th to the 30th day. The results of this study indicate the successful formulation of DHA nanovesicles which have great potential as an adjuvant system for the delivery of recombinant HBsAg protein.
Adenovirus DNA Polymerase Loses Fidelity on a Stretch of Eleven Homocytidines during Pre-GMP Vaccine Preparation
Authors: Hannoun Zara , Wee Edmund G. , Crook Alison , Colloca Stefano , Di Marco Stefania , Hanke Tomáš
Published: June 2022

In this study, we invented and construct novel candidate HIV-1 vaccines. Through genetic and protein engineering, we unknowingly constructed an HIV-1-derived transgene with a homopolymeric run of 11 cytidines, which was inserted into an adenovirus vaccine vector. Here, we describe the virus rescue, three rounds of clonal purification and preparation of good manufacturing practise (GMP) starting material assessed for genetic stability in five additional virus passages. Throughout these steps, quality control assays indicated the presence of the transgene in the virus genome, expression of the correct transgene product and immunogenicity in mice. However, DNA sequencing of the transgene revealed additional cytidines inserted into the original 11-cytidine region, and the GMP manufacture had to be aborted. Subsequent analyses indicated that as little as 1/25th of the virus dose used for confirmation of protein expression (106 cells at a multiplicity of infection of 10) and murine immunogenicity (108 infectious units per animal) met the quality acceptance criteria. Similar frameshifts in the expressed proteins were reproduced in a one-reaction in vitro transcription/translation employing phage T7 polymerase and E. coli ribosomes. Thus, the most likely mechanism for addition of extra cytidines into the ChAdOx1.tHIVconsv6 genome is that the adenovirus DNA polymerase lost its fidelity on a stretch of 11 cytidines, which informs future adenovirus vaccine designs.
Positive Attribute Framing Increases COVID-19 Booster Vaccine Intention for Unfamiliar Vaccines
Authors: Barnes Kirsten , Colagiuri Ben
Published: June 2022

Positive framing has been proposed as an intervention to increase COVID-19 vaccination intentions. However, available research has examined fictitious or unfamiliar treatments. This pre-registered study (aspredicted#78369) compared the effect of standard negatively framed EU patient information leaflets (PILs), with new positively framed PILs, on booster intentions (measured pre- and post-intervention) for AstraZeneca, Pfizer, and Moderna COVID-19 vaccines. A representative sample of 1222 UK-based adults was randomised to one of six groups in a factorial design with framing (Positive vs. Negative) and vaccine familiarity (same (as previous), familiar, unfamiliar) as factors. The benefit of positive framing was hypothesised to be strongest for the least familiar vaccine (Moderna). Framing was moderated by familiarity, where only the unfamiliar vaccine showed a benefit of positive relative to negative Framing. Framing and familiarity also interacted with baseline Intention with the effect of framing on the unfamiliar vaccine especially pronounced at low baseline Intent. Conversely, standard negative framing appeared to increase intentions for familiar vaccines at low baseline intent. Findings provide important evidence that positive framing could improve vaccine uptake globally when switches or new developments require individuals to receive less familiar vaccines. Positive framing of familiar vaccines, however, should be treated with caution until better understood.
Facilitators and Barriers to Take up a COVID-19 Vaccine Booster Dose among Community-Dwelling Older Adults in Hong Kong: A Population-Based Random Telephone Survey
Authors: Wang Zixin , Fang Yuan , Yu Fuk-yuen , Chan Paul Shing-fong , Chen Siyu , Sun Fenghua
Published: June 2022

A COVID-19 vaccine booster dose is effective and safe for older adults. This study investigated facilitators and barriers to take up a COVID-19 vaccine booster dose among older adults in Hong Kong. Participants were Chinese-speaking community-dwelling adults aged ≥65 years. Telephone numbers were randomly selected from up-to-date telephone directories. A total of 395 participants completed the telephone interview. Logistic regression models were fitted. Among the participants, 31.6% received a COVID-19 vaccine booster dose. After adjustment for significant background characteristics, positive attitudes toward the booster dose, perceiving significant others would support them to receive the booster dose, and less uncertainty regarding the choice of the booster dose was associated with higher uptake of a COVID-19 vaccine booster dose. Concerns about poorer responses to the booster dose due to older age and the presence of chronic conditions were negatively associated with the dependent variable. In addition, the belief that governmental promotional materials could address their concern and were helpful for them to make decisions was associated with a higher COVID-19 vaccine booster dose uptake. Improving booster dose health promotion materials, modifying perceptions, involving significant others and reducing uncertainty are potentially useful strategies to improve COVID-19 vaccine booster dose uptake among older adults.
BNT162b2 Booster Vaccination Induced Immunity against SARS-CoV-2 Variants among Hemodialysis Patients
Authors: Herman-Edelstein Michal , Ben-Dor Naomi , Agur Timna , Guetta Tali , Raiter Annat , Meisel Eshcar , Alkeesh Weaam , Ori Yaacov , Rozen-Zvi Benaya , Zingerman Boris
Published: June 2022

Background: The emergence of new SARS-CoV-2 variants, which evade immunity, has raised the urgent need for multiple vaccine booster doses for vulnerable populations. In this study, we aimed to estimate the BNT162b2 booster effectiveness against the spread of coronavirus variants in a hemodialysis population. Methods: We compared humoral and cell-mediated immunity in 100 dialysis patients and 66 age-matched volunteers, before and 2–3 weeks following the first booster vaccine dose. Participants were assessed for anti-spike (RBD) antibody titer, neutralizing antibodies against B.1.617.2 (Delta) and B.1.1.529 (Omicron) variants, spike-specific T-cell responses by FACS and infection outbreak after the first and second booster. Results: Anti-spike antibody titer was significantly increased following the booster, with reduced humoral and cellular response in the dialysis patients. Neutralizing antibody levels increased significantly after the booster dose, with an inferior effect (≤2 fold) against Omicron compared with the Delta variant. Furthermore, CD4+ and CD8+ T-cell activation by Delta spike protein was preserved in 70% of PBMCs from the dialysis patients. A second booster dose tended to reduce breakthrough infections in the dialysis patients. Conclusions: Until the release of an updated vaccine, BNT162b2 booster doses will improve the humoral and cell-mediated immunity against variants. These findings support the importance of repetitive booster doses for hemodialysis patients.
Pneumococcal Carriage in Infants Post-PCV10 Introduction in Pakistan: Results from Serial Cross-Sectional Surveys
Authors: Shahid Shahira , Khan Amala , Nisar Muhammad Imran , Khalid Farah , Qazi Muhammad Farrukh , Ahmed Sheraz , Kabir Furqan , Hotwani Aneeta , Muneer Sahrish , Ali Syed Asad , Whitney Cynthia G. , Zaidi Anita K. M. , Jehan Fyezah
Published: June 2022

The 10-valent pneumococcal vaccine was introduced in Pakistan’s Expanded Program on Immunization (EPI) in 2013 as a 3 + 0 schedule without catchup. We conducted three annual cross-sectional surveys from 2014–2016 to measure vaccine-type (VT) carriage in infants from a rural part of Pakistan. Nasopharyngeal specimens were collected by random sampling of infants from two union councils of Matiari. Samples were then transported to the Infectious Disease Research Laboratory (IDRL) at the Aga Khan University within 6–8 h of collection. Serotypes were established using sequential multiplex PCR. Of the 665 children enrolled across three surveys, 547 were culture-positive for pneumococcus. VT carriage decreased from 21.8% in 2014 to 12.7% in 2016 (p-value for trend <0.001). Those who were not vaccinated or partially vaccinated were found to be at higher risk of carrying a VT serotype ((aOR 2.53, 95% CI 1.39, 4.63 for non-vaccinated) and (aOR 3.35, 95% CI 1.82, 6.16 for partially vaccinated)). On the other hand, being enrolled in the most recent survey was negatively associated with VT carriage (aOR 0.51, 95% CI 0.28, 0.93). We found that PCV10 was effective in decreasing the carriage of vaccine-type serotypes in Pakistani infants.
Flu and COVID-19 Vaccination: What Happens to the Flu Shot When the Campaigns Overlap? Experience from a Large Italian Research Hospital
Authors: Pascucci Domenico , Nurchis Mario Cesare , Lontano Alberto , Marziali Eleonora , Vetrugno Giuseppe , Cambieri Andrea , Moscato Umberto , Di Pilla Andrea , Damiani Gianfranco , Laurenti Patrizia
Published: June 2022

Influenza represents a threat to global health and health care workers (HCWs) have an increased risk of contracting the influenza virus in the workplace. The COVID-19 pandemic has brought back the importance of influenza vaccination, as the influenza virus can circulate together with SARS-CoV-2. The aim of this report is to describe the actual flu vaccination coverage among healthcare workers of a research hospital and the trend changes, with respect to the past flu vaccination campaigns, in light of the present pandemic and COVID-19 vaccination. A Pearson’s χ2 test was used to test the correlation of flu vaccination coverage, across all professional categories, between the last two years. A linear regression model was adopted to predict the total vaccination coverage of this year. A statistically significant decrease (p < 0.01) was observed in vaccination coverage among all the professional categories with a 50% reduction in vaccination trends between the last two years. Analyzing the data from the previous six flu vaccination campaigns, the expected value, according to the linear regression model, was estimated to be 38.5% while the observed value was 24%. The decrease in vaccination coverage may be due to the fear of the pandemic situation and especially to the uncertainty related to the consequences of a concurrent administration which may overload the immune system or may be more reactogenic. The COVID-19 pandemic represents an opportunity to promote and support large-scale influenza vaccination among HCWs through structured programs, adequate funding, and tailored communication strategies.
Diagnosis of Basin Eco-Hydrological Variation Based on Index Sensitivity of Similar Years: A Case Study in the Hanjiang River Basin
Authors: Li Zhe , Cai Siyu , Lei Xiaohui , Wang Lingmin
Published: June 2022

The variation of hydrological conditions in the basin affects the original stable state of the basin, and the change of eco-hydrological conditions also plays a decisive role in the stability of the basin. In this manuscript, Indicators of Hydrologic Alteration (IHA) was used to diagnose watershed variation from the eco-hydrological perspective, and a new diagnostic method was proposed in the current study, which was the extraction method of the most relevant eco-hydrological indicators based on a similar year sensitive index and the diagnosis method of variation period. This method used the sensitivity of statistical characteristics between similar years to provide the basis for the selection of the most ecologically-relevant hydrogeological indicators (ERHIs), then selected the strong variation indicators from the most relevant eco-hydrological indicators, and finally used the strong variation indicators to diagnose the watershed variation. The runoff data (1960 to 2020) in the Ankang gauging station of the Hanjiang River were analyzed, and the results showed that the indicators of high variation were the average duration index of low discharge in a year and the minimum discharge index of one day in a year. The variation period was from 1973 to 1986. It was concluded that the diagnosis results from the perspective of eco-hydrology were consistent with the actual hydrological situation changes, and this method had certain reliability.
Modeling of Water Distribution System Based on Ten-Minute Accuracy Remote Smart Demand Meters
Authors: Song Ruiping , Liu Xinyue , Zhu Bo , Guo Shuai
Published: June 2022

In the process of water distribution system modeling, nodal demands have been deemed to be the most significant input parameters causing uncertainties. Conventionally, users of the same type are assigned the same demand pattern, which does not reflect the variability in demand patterns. In Hefei City, a lot of remote smart demand meters were installed in recent years, providing real-time water consumption data for different water user sites. In this study, the water consumption data based on 10 min accuracy were collected and used in the established EPANET model of the study area. A 48 h simulation, including workdays and weekends, was carried out, and each node’s base demand and demand pattern were accurately calculated according to the remote data. The results show that the accuracy of the model has met the modeling criteria (less than 2 m for all pressure monitoring points), and there is no need to calibrate the nodal demand. The established offline hydraulic model can better reflect the water consumption characteristics of each type of user and has revealed the significant influence of secondary water supply systems.
Reclaimed Water Reuse for Groundwater Recharge: A Review of Hot Spots and Hot Moments in the Hyporheic Zone
Authors: Li Yu , Liu Mingzhu , Wu Xiong
Published: June 2022

As an alternative resource, reclaimed water is rich in the various nutrients and organic matter that may irreparably endanger groundwater quality through the recharging process. During groundwater recharge with reclaimed water, hot spots and hot moments (HSHMs) in the hyporheic zones, located at the groundwater–reclaimed water interface, play vital roles in cycling and processing energy, carbon, and nutrients, drawing increasing concern in the fields of biogeochemistry, environmental chemistry, and pollution treatment and prevention engineering. This paper aims to review these recent advances and the current state of knowledge of HSHMs in the hyporheic zone with regard to groundwater recharge using reclaimed water, including the generation mechanisms, temporal and spatial characteristics, influencing factors, and identification indicators and methods of HSHMs in the materials cycle. Finally, the development prospects of HSHMs are discussed. It is hoped that this review will lead to a clearer understanding of the processes controlling water flow and pollutant flux, and that further management and control of HSHMs can be achieved, resulting in the development of a more accurate and safer approach to groundwater recharge with reclaimed water.