bluuebunny/crossref_metadata_2025 huggingface dataset:
Experimental Observations on Flow Characteristics around a Low-Aspect-Ratio Wall-Mounted Circular and Square Cylinder
Authors: Hajimirzaie Seyed M.
Published: January 2023

The mean wake structures of a cube (square cylinder) and circular cylinder of height-to-width aspect ratio 1.0, at a Reynolds number of 1.78 × 104 based on the obstacle width, were investigated experimentally. The boundary-layer thickness was 0.14 of the obstacle height. The study was performed using thermal anemometry and two-dimensional digital particle image velocimetry (DPIV). Streamwise structures observed in the mean wake for both cylinders included well-known tip- and horseshoe (HS)-,vortex pairs as well as additional structures akin to the base vortices. In addition to tip-, base-, and HS-vortices, in the near wake of the cube, two more counter-rotating pairs of streamwise structures, including upper and inboard vortices, were observed. The existence of base vortices formed in the near wake for both obstacles is a unique observation and has not been previously reported for such low-aspect-ratio obstacles in thin boundary-layers. A model of arch-vortex evolution was proposed, in which arch structures were deformed by the external shear-flow to explain the observed base-vortices in the cylinder wake. A weak dominant-frequency of St = f0D/U∞ = 0.114 was observed across the height for the cube, while no discernible spectral peaks were apparent in the wake of the cylinder. Cross-spectral analysis revealed the shedding to be symmetric (in-phase) arch-type for the cylinder and predominantly anti-symmetric (out-of-phase) Karman-type for the cube. The study makes fundamental contributions to the understanding of the flow-field surrounding low-aspect-ratio cylinders.
Flavour Profile of Traditional Dry Sausage Prepared with Partial Substitution of NaCl with KCl
Authors: Qin Li-Gang , Li Xiang-Ao , Huang Yu-Xiang , Li Yong-Jie , Chen Qian
Published: January 2023

The effects of partial substitution of NaCl with 0%, 20%, 30% and 40% KCl on the physical characteristics, bacterial community and flavour profile of traditional dry sausage were investigated in this study. With the increase in KCl substitution ratio, the moisture content, astringency, bitterness and umami increased significantly, and the saltiness gradually decreased (p < 0.05). The high-throughput sequencing results showed that the dry sausages with KCl substitution had relatively high abundances of Staphylococcus. For volatile compounds, increasing the KCl substitution ratio reduced the formation of aldehydes, ketones and some alcohols, but promoted the formation of acids and esters (p < 0.05). Sensory evaluation and partial least square regression analysis showed that the dry sausages with 20% and 30% KCl were similar in overall physical and microbial properties, flavour profiles and sensory attributes, and the sausages with 40% KCl were characterized by taste defects. Overall, partial substitution of NaCl with 30% KCl could ensure the acceptable flavour and sensory attributes of dry sausages.
A Proteomics Data Mining Strategy for the Identification of Quinoa Grain Proteins with Potential Immunonutritional Bioactivities
Authors: Galindo-Luján Rocío , Pont Laura , Sanz-Nebot Victoria , Benavente Fernando
Published: January 2023

Quinoa proteins are attracting global interest for their wide amino acid profile and as a promising source for the development of biomedical treatments, including those against immune-mediated diseases. However, information about the bioactivity of quinoa proteins is scarce. In this study, a quinoa grain proteome map obtained by label-free mass spectrometry-based shotgun proteomics was investigated for the identification of quinoa grain proteins with potential immunonutritional bioactivities, including those related to cancer. After carefully examining the sequence similarities of the 1211 identified quinoa grain proteins against already described bioactive proteins from other plant organisms, 71, 48, and 3 of them were classified as antimicrobial peptides (AMPs), oxidative stress induced peptides (OSIPs), and serine-type protease inhibitors (STPIs), respectively, suggesting their potential as immunomodulatory, anti-inflammatory, and anticancer agents. In addition, data interpretation using Venn diagrams, heat maps, and scatterplots revealed proteome similarities and differences with respect to the AMPs, OSIPs, and STPIs, and the most relevant bioactive proteins in the predominant commercial quinoa grains (i.e., black, red, white (from Peru), and royal (white from Bolivia)). The presented proteomics data mining strategy allows easy screening for potentially relevant quinoa grain proteins and commercial classes for immunonutrition, as a basis for future bioactivity testing.
Fermentative Production of Diacylglycerol by Endophytic Fungi Screened from Taxus chinensis var. mairei
Authors: Xu Wenqiang , Bi Haoran , Peng Hong , Yang Ling , He Hongwei , Fu Guiming , Liu Yuhuan , Wan Yin
Published: January 2023

Diacylglycerol (DAG) production by microbial fermentation has broad development prospects. In the present study, five endophytic fungi which could accumulate DAG were screened from Taxus chinensis var. mairei by using potato dextrose agar plate and flask cultivation in potato dextrose broth culture medium. The strains were biologically identified based on morphological features and semi-quantitative PCR. The identification results indicated that the five strains belonged to different genera: Fusarium annulatum (F. annulatum, coded as MLP41), Trichoderma dorotheae (T. dorotheae, coded as MLG23), Colletotrichum aeschynomenes (C. aeschynomenes, coded as MLY23), Pestalotiopsis scoparia (P. scoparia, coded as MLY31W), and Penicillium cataractarum (P. cataractarum, coded as MLGP11). The crude lipids from the strains and their corresponding triacylglycerol, 1,2-DAG, and 1,3-DAG fractions separated via thin-layer chromatography were mainly composed of palmitic acid, stearic acid, oleic acid, and linoleic acid, which in total accounted for higher than 94% of the content. The effects of fermentation conditions on the DAG productivity were discussed, and the yields of DAG were determined based on the 1H NMR spectra of crude lipids. The highest total DAG yields of F. annulatum, T. dorotheae, C. aeschynomenes, P. scoparia, and P. cataractarum were 112.28, 126.42, 189.87, 105.61, and 135.56 mg/L, respectively. C. aeschynomenes had the strongest potential to produce DAG. The results showed that this may be a new promising route for the production of DAG via fermentation by specific endophytic fungi, such as C. aeschynomenes.
Ultrasound-Assisted Extraction of Bioactive Compounds from Cocoa Shell and Their Encapsulation in Gum Arabic and Maltodextrin: A Technology to Produce Functional Food Ingredients
Authors: Jafari Saeid , Karami Zohreh , Shiekh Khursheed Ahmad , Kijpatanasilp Isaya , Worobo Randy W. , Assatarakul Kitipong
Published: January 2023

In this study, the extraction of cocoa shell powder (CSP) was optimized, and the optimized extracts were spray-dried for encapsulation purposes. Temperature (45–65 °C), extraction time (30–60 min), and ethanol concentration (60–100%) were the extraction parameters. The response surface methodology analysis revealed that the model was significant (p ≤ 0.05) in interactions between all variables (total phenolic compound, total flavonoid content, and antioxidant activity as measured by 2,2-Diphenyl-1-picrylhydrazyl (DPPH) and ferric reducing antioxidant power (FRAP assays), with a lack of fit test for the model being insignificant (p > 0.05). Temperature (55 °C), time (45 min), and ethanol concentration (60%) were found to be the optimal extraction conditions. For spray-drying encapsulation, some quality metrics (e.g., water solubility, water activity) were insignificant (p > 0.05). The microcapsules were found to be spherical in shape using a scanning electron microscope. Thermogravimetric and differential thermogravimetric measurements of the microcapsules revealed nearly identical results. The gum arabic + maltodextrin microcapsule (GMM) showed potential antibacterial (zone of inhibition: 11.50 mm; lower minimum inhibitory concentration: 1.50 mg/mL) and antioxidant (DPPH: 1063 mM trolox/100g dry wt.) activities (p ≤ 0.05). In conclusion, the microcapsules in this study, particularly GMM, are promising antioxidant and antibacterial agents to be fortified as functional food ingredients for the production of nutraceutical foods with health-promoting properties.
Physicochemical Characteristics, Techno-Functionalities, and Amino Acid Profile of Prionoplus reticularis (Huhu) Larvae and Pupae Protein Extracts
Authors: Kavle Ruchita Rao , Nolan Patrick James , Bekhit Alaa El-Din Ahmed , Carne Alan , Morton James David , Agyei Dominic
Published: January 2023

The amino acid profile, techno-functionalities (foaming stability/capacity, emulsion stability/capacity, solubility, and coagulation), and physicochemical characteristics (colour, particle size, surface hydrophobicity, Fourier-transform infrared spectroscopy, and differential scanning calorimetry) of protein extracts (PE) obtained from Prionoplus reticularis (Huhu grub) larvae (HLPE) and pupae (HPPE) were investigated. Total essential amino acid contents of 386.7 and 411.7 mg/g protein were observed in HLPE and HPPE, respectively. The essential amino acid index (EAAI) was 3.3 and 3.4 for HLPE and HPPE, respectively, demonstrating their nutritional equivalence. A unique nitrogen-to-protein conversion constant, k, and the corresponding protein content of the extracts were 6.1 and 6.4 and 72.1% and 76.5%, respectively. HLPE (37.1 J/g) had a lower enthalpy than HPPE (54.1 J/g). HPPE (1% w/v) exhibited a foaming capacity of 50.7%, which was higher than that of HLPE (41.7%) at 150 min. The foaming stability was 75.3% for HLPE and 73.1% for HPPE after 120 min. Both protein extracts (1% w/v) had emulsifying capacities that were 96.8% stable after 60 min. Therefore, protein extracts from Huhu larvae and pupae are of a good nutritional quality (based on their EAAI) and have techno-functional properties, such as foaming and emulsification, that afford them potential for certain food technology applications.
Seafood Choice and Consumption Behavior: Assessing the Willingness to Pay for an Edible Sea Urchin
Authors: Petrontino Alessandro , Madau Fabio , Frem Michel , Fucilli Vincenzo , Bianchi Rossella , Campobasso Adele Annarita , Pulina Pietro , Bozzo Francesco
Published: January 2023

Consumers’ behavior towards sea urchin and preferences towards their origin certification and place of consumption may condition their market. In this context, the aim of this research was to elicit the preferences and perceptions of Italian sea urchin dishes using a discrete choice experiment (DCE) approach. A field survey of 453 respondents in Apulia (southern Italy) was conducted for this purpose. The DCE revealed that the origin certification of sea urchin provided Apulia’s consumers a high utility with a great pleasurable service in restaurants in which this species was served as a principal dish or seasoned with pasta or pizza. The DCE also showed that the consumption utility of sea urchin was related to a greater influence by place of purchase, place of consumption, technique of conservation, appearance, quality label, fishing zone, low price, male buyer, and, finally, medium and high incomes. Furthermore, Apulian consumers were willing to pay EUR 10.53/dish as an overall average for safe and certified sea urchin consumption. Given this, this research may promote the creation of a local sea urchin brand through the adoption of a market policy and a particular regulation related to the certification of origin, enhancing the competitiveness of this marine heritage species.
Toward Sourdough Microbiome Data: A Review of Science and Patents
Authors: Albagli Gabriel , Finotelli Priscilla V. , Ferreira Tatiana Felix , Amaral Priscilla F. F.
Published: January 2023

Technological prospecting was performed on documents related to sourdough microbiota using SCOPUS, Web of Science, Google Scholar, Espacenet and Patent Inspiration databases. Scientific articles and patents were analyzed based on three different perspectives: macro (year of publication, country, and institutions), meso (categorization as different taxonomies according to the subject evaluated), and micro (in-depth analysis of the main taxonomies, gathering the documents in subcategories). The main subject addressed in patents was the starter and product preparation, while 58.8% of the scientific publications focused on sourdough starter microbiota (identification and selection of microorganisms). Most patents were granted to companies (45.9%), followed by independent inventors (26.4%) and universities (21.8%). Sourdough products are in the spotlight when the subject is the bakery market; however, a closer integration between academia and industry is needed. Such a collaboration could generate a positive impact on the sourdough market in terms of innovation, providing a bread with a better nutritional and sensory quality for all consumers. Moreover, sourdough creates a new magnitude of flavor and texture in gastronomy, providing new functional products or increasing the quality of traditional ones.
Structural Characteristics, Rheological Properties, and Antioxidant and Anti-Glycosylation Activities of Pectin Polysaccharides from Arabica Coffee Husks
Authors: Li Zelin , Zhou Bin , Zheng Tingting , Zhao Chunyan , Gao Yan , Wu Wenjun , Fan Yingrun , Wang Xuefeng , Qiu Minghua , Fan Jiangping
Published: January 2023

As primary coffee by-products, Arabica coffee husks are largely discarded during coffee-drying, posing a serious environmental threat. However, coffee husks could be used as potential material for extracting pectin polysaccharides, with high bioactivities and excellent processing properties. Thus, the present study aimed to extract the pectin polysaccharide from Arabica coffee husk(s) (CHP). The CHP yield was calculated after vacuum freeze-drying, and its average molecular weight (Mw) was detected by gel permeation chromatography (GPC). The structural characteristics of CHP were determined by Fourier transform infrared spectroscopy (FT-IR), X-ray diffraction (XRD), proton nuclear magnetic resonance (1H NMR), and scanning electron microscopy (SEM). Additionally, the rheological and antioxidant properties of CHP and the inhibition capacities of advanced glycation end products (AGEs) with different concentrations were evaluated. The interaction mechanisms between galacturonic acid (GalA) and the AGE receptor were analyzed using molecular docking. The results demonstrated that the CHP yield was 19.13 ± 0.85%, and its Mw was 1.04 × 106 Da. The results of the structural characteristics results revealed that CHP was an amorphous and low-methoxyl pectic polysaccharide linked with an α-(1→6) glycosidic bond, and mainly composed of rhamnose (Rha, 2.55%), galacturonic acid (GalA, 45.01%), β-N-acetyl glucosamine (GlcNAc, 5.17%), glucose (Glc, 32.29%), galactose (Gal, 6.80%), xylose (Xyl, 0.76%), and arabinose (Ara, 7.42%). The surface microstructure of CHP was rough with cracks, and its aqueous belonged to non-Newtonian fluid with a higher elastic modulus (G′). Furthermore, the results of the antioxidant properties indicated that CHP possessed vigorous antioxidant activities in a dose manner, and the inhibition capacities of AGEs reached their highest of 66.0 ± 0.35% at 1.5 mg/mL of CHP. The molecular docking prediction demonstrated that GalA had a good affinity toward AGE receptors by −6.20 kcal/mol of binding energy. Overall, the study results provide a theoretical basis for broadening the application of CHP in the food industry.
Stability and Controllability Study for Mixed Integral Fractional Delay Dynamic Systems Endowed with Impulsive Effects on Time Scales
Authors: Hammad Hasanen A. , De la Sen Manuel
Published: January 2023

In this article, we investigate a novel class of mixed integral fractional delay dynamic systems with impulsive effects on time scales. Also, fixed-point techniques are applied to study the existence and uniqueness of a solution to the considered systems. Furthermore, sufficient conditions for Ulam–Hyers stability and controllability of the considered systems are established. It turns out that controllability is a very relevant property in dynamic systems and also in differential equations since, if controllability holds, then the solution of a system of differential equations also holds. Finally, an illustrative example of the obtained results is provided.
A Family of Transformed Difference Schemes for Nonlinear Time-Fractional Equations
Authors: Qin Hongyu , Chen Xiaoli , Zhou Boya
Published: January 2023

In this paper, we present a class of finite difference methods for numerically solving fractional differential equations. Such numerical schemes are developed based on the change in variable and piecewise interpolations. Error analysis of the numerical schemes is obtained by using a Grönwall-type inequality. Numerical examples are given to confirm the theoretical results.
Synthesis and Characteristics of a pH-Sensitive Sol-Gel Transition Colloid for Coal Fire Extinguishing
Authors: Wang Yiru , Zheng Qinglin , Su Hetao , Huang Zijun , Wang Gengyu
Published: January 2023

Coal fires, most of which are triggered by the spontaneous combustion of coal, cause a huge waste of resources and release poisonous and harmful substances into the environment, seriously threatening the safety of industrial production. Gel flame retardant plays a core role in coal fire prevention and extinguishing. Most gel flame retardants used in coal fires possess good sealing and oxygen isolation properties, but it is difficult for them to flow deep into fire areas due to their low fluidity. Some fire extinguishing agents with good fluidity lack leak-blocking performance. In order to simultaneously improve the fluidity, leakage sealing, and oxygen isolation effects of coal fire extinguishing colloids, a novel, pH-sensitive, sol-gel transition colloid was prepared using low methoxyl pectin (LMP), calcium bentonite (Ca-Bt), sodium bentonite (Na-Bt), and water as the main components. When the initial sol-state colloid absorbed acid gas products from coal combustion, the pH value decreased and a large amount of Ca2+ in Ca-Bt precipitated, thus immediately growing calcium bridges with LMP molecules that formed a three-dimensional network structure for gelation. The optimum ratio of the new colloid was determined through X-ray diffraction, tube inversion, shock shear-temperature scanning, and genetic algorithm. By testing the fire extinguishing performance of the colloid, the findings proved that the product had good oxygen isolation performance, strong adhesion ability, high thermal stability, and strong inhibition effects on coal combustion.
Biomedical Applications of Thermosensitive Hydrogels for Controlled/Modulated Piroxicam Delivery
Authors: Ilić-Stojanović Snežana , Nikolić Ljubiša , Nikolić Vesna , Ristić Ivan , Cakić Suzana , Petrović Slobodan D.
Published: January 2023

The objectives of this study are the synthesis of thermosensitive poly(N-isopropylacrylamide-co-2-hydroxypropyl methacrylate), p(NiPAm-HPMet), hydrogels and the analysis of a drug-delivery system based on piroxicam, as a model drug, and synthesized hydrogels. A high pressure liquid chromatography method has been used in order to determine both qualitative and quantitative amounts of unreacted monomers and crosslinkers from polymerized hydrogels. Swelling kinetics and the order of a swelling process of the hydrogels have been analyzed at 10 and 40 °C. The copolymers’ thermal properties have been monitored by the differential scanning calorimetry (DSC) method. DSC termograms have shown that melting occurs in two temperature intervals (142.36–150.72 °C and 153.14–156.49 °C). A matrix system with incorporated piroxicam has been analyzed by using FTIR and SEM methods. Structural analysis has demonstrated that intermolecular non-covalent interactions have been built between side-groups of copolymer and loaded piroxicam. Morphology of p(NiPAm-HPMet) after drug incorporation indicates the piroxicam presence into the copolymer pores. Kinetic parameters of the piroxicam release from hydrogels at 37 °C and pH 7.4 indicate that the fluid transport mechanism corresponds to Fickian diffusion. As a result, formulation of thermosensitive p(NiPAm-HPMet) hydrogels with incorporated piroxicam could be of interest for further testing as a drug carrier for modulated and prolonged release, especially for topical administration.
Peanut AhmTERF1 Regulates Root Growth by Modulating Mitochondrial Abundance
Authors: Li Limei , Li Xiaoyun , Yang Chen , Li Ling
Published: January 2023

Mitochondria are responsible for energy generation, as well as key metabolic and signaling pathways, and thus affect the entire developmental process of plants as well as their responses to stress. In metazoans, mitochondrial transcription termination factors (mTERFs) are known to regulate mitochondrial transcription. mTERFs have also been discovered in plants, but only a few of these proteins have been explored for their biological functions. Here, we report a role in root growth for mitochondria-associated protein AhmTERF1 in peanut (Arachis hypogaea L.). Overexpressing AhmTERF1 significantly stimulated the growth of peanut hairy roots and transgenic Arabidopsis. Surprisingly, AhmTERF1 is predominantly expressed in the root meristem where it increases mitochondrial abundance. AhmTERF1 binding to mtDNA was enriched in the RRN18 and RRN26 regions, suggesting it is related to the accumulation of mitochondrial ribosomes. Peanut is one of the main oil crops and the important source of edible oil and AhmTERF1 likely affects agronomic traits related to root growth in different peanut cultivars. We propose that peanut AhmTERF1 is an important protein for root growth due to its role in regulating mitochondrial abundance.
Support Interval for Two-Sample Summary Data-Based Mendelian Randomization
Authors: Wang Kai
Published: January 2023

The summary-data-based Mendelian randomization (SMR) method is gaining popularity in estimating the causal effect of an exposure on an outcome. In practice, the instrument SNP is often selected from the genome-wide association study (GWAS) on the exposure but no correction is made for such selection in downstream analysis, leading to a biased estimate of the effect size and invalid inference. We address this issue by using the likelihood derived from the sampling distribution of the estimated SNP effects in the exposure GWAS and the outcome GWAS. This likelihood takes into account how the instrument SNPs are selected. Since the effective sample size is 1, the asymptotic theory does not apply. We use a support for a profile likelihood as an interval estimate of the causal effect. Simulation studies indicate that this support has robust coverage while the confidence interval implied by the SMR method has lower-than-nominal coverage. Furthermore, the variance of the two-stage least squares estimate of the causal effect is shown to be the same as the variance used for SMR for one-sample data when there is no selection.
Phenotype-Based Genetic Analysis Reveals Missing Heritability of KIF11-Related Retinopathy: Clinical and Genetic Findings
Authors: Chang Haoyu , Zhang Xin , Xu Ke , Li Nien , Xie Yue , Yan Weiyu , Li Yang
Published: January 2023

The purpose of this study was to detect the missing heritability of patients with KIF11-related retinopathy and to describe their clinical and genetic characteristics. We enrolled 10 individuals from 7 unrelated families harboring a pathogenic monoallelic variant in KIF11. All subjects underwent ophthalmic assessment and extraocular phenotype evaluations, as well as comprehensive molecular genetic analyses using next-generation sequencing. Minigene assays were performed to observe the effects of one novel deep intron variant (DIV) and one novel synonymous variant on pre-mRNA splicing. We detected 6 novel different disease-causing variants of KIF11 in the seven pedigrees. Co-segregation analysis and ultra-deep sequencing results indicated that 5 variants arose de novo in 5 families (71%). Functional validation revealed that the synonymous variant leads to an exon skip, while the DIV causes a pseudoexon (PE) inclusion. The patients presented with high variations in their phenotype, and two families exhibited incomplete penetrance. Ocular manifestations and characteristic facial features were observed in all patients, as well as microcephaly in seven patients, intellectual disability in five patients, and lymphedema in one patient. The key retinal features for KIF11-related retinopathy were retinal folds, tractional retinal detachment, and chorioretinal dysplasia. All seven probands had more severe visual detects than other affected family members. Our findings widen the genetic spectrum of KIF11 variants. DIV explained rare unresolved cases with KIF11-related retinopathy. The patients displayed a variable phenotype expressivity and incomplete penetrance, indicating the importance of genetic analysis for patients with KIF11-related retinopathy.
Spectrum of Genetic Variants in the Dystrophin Gene: A Single Centre Retrospective Analysis of 750 Duchenne and Becker Patients from Southern Italy
Authors: Viggiano Emanuela , Picillo Esther , Passamano Luigia , Onore Maria , Piluso Giulio , Scutifero Marianna , Torella Annalaura , Nigro Vincenzo , Politano Luisa
Published: January 2023

Dystrophinopathies are X-linked recessive muscle disorders caused by mutations in the dystrophin (DMD) gene that include deletions, duplications, and point mutations. Correct diagnosis is important for providing adequate patient care and family planning, especially at this time when mutation-specific therapies are available. We report a large single-centre study on the spectrum of DMD gene variants observed in 750 patients analyzed for suspected Duchenne (DMD) or Becker (BMD) muscular dystrophy, over the past 30 years, at the Cardiomyology and Medical Genetics of the University of Campania. We found 534 (71.21%) large deletions, 73 (9.73%) large duplications, and 112 (14.93%) point mutations, of which 44 (5.9%) were small ins/del causing frame-shifts, 57 (7.6%) nonsense mutations, 8 (1.1%) splice site and 3 (0.4%) intronic mutations, and 31 (4.13%) non mutations. Moreover, we report the prevalence of the different types of mutations in patients with DMD and BMD according to their decade of birth, from 1930 to 2020, and correlate the data to the different techniques used over the years. In the most recent decades, we observed an apparent increase in the prevalence of point mutations, probably due to the use of Next-Generation Sequencing (NGS). In conclusion, in southern Italy, deletions are the most frequent variation observed in DMD and BMD patients followed by point mutations and duplications, as elsewhere in the world. NGS was useful to identify point mutations in cases of strong suspicion of DMD/BMD negative on deletions/duplications analyses. In the era of personalized medicine and availability of new causative therapies, a collective effort is necessary to enable DMD and BMD patients to have timely genetic diagnoses and avoid late implementation of standard of care and late initiation of appropriate treatment.
Research Trends of Vitamin D Metabolism Gene Polymorphisms Based on a Bibliometric Investigation
Authors: Abouzid Mohamed , Karaźniewicz-Łada Marta , Abdelazeem Basel , Brašić James Robert
Published: January 2023

Vitamin D requires activation to show its pharmacological effect. While most studies investigate the association between vitamin D and disease, only a few focus on the impact of vitamin D metabolism gene polymorphisms (vitDMGPs). This bibliometric study aims to provide an overview of current publications on vitDMGPs (CYP27B1, CYP24A1, CYP2R1, CYP27A1, CYP2R1, DHCR7/NADSYN1), compare them across countries, affiliations, and journals, and inspect keywords, co-citations, and citation bursts to identify trends in this research field. CiteSpace© (version 6.1.R3, Chaomei Chen), Bibliometrix© (R version 4.1.3 library, K-Synth Srl, University of Naples Federico II, Naples, Italy), VOSviewer© (version 1.6.1, Nees Jan van Eck and Ludo Waltman, Leiden University, Leiden, Netherlands) and Microsoft® Excel 365 (Microsoft, Redmond, Washington, USA) classified and summarized Web of Science articles from 1998 to November 2022. We analyzed 2496 articles and built a timeline of co-citations and a bibliometric keywords co-occurrence map. The annual growth rate of vitDMGPs publications was 18.68%, and their relative research interest and published papers were increasing. The United States of America leads vitDMGPs research. The University of California System attained the highest quality of vitDMGPs research, followed by the American National Institutes of Health and Harvard University. The three productive journals on vitDMGPs papers are J. Steroid. Biochem. Mol. Biol., PLOS ONE, and J. Clin. Endocrinol. Metab. We highlighted that the vitDMGPs domain is relatively new, and many novel research opportunities are available, especially those related to studying single nucleotide polymorphisms or markers in a specific gene in the vitamin D metabolism cycle and their association with disease. Genome-wide association studies, genetic variants of vitDMGPs, and vitamin D and its role in cancer risk were the most popular studies. CYP24A1 and CYB27A1 were the most-studied genes in vitDMGPs. Insulin was the longest-trending studied hormone associated with vitDMGPs. Trending topics in this field relate to bile acid metabolism, transcriptome and gene expression, biomarkers, single nucleotide polymorphism, and fibroblast growth factor 23. We also expect an increase in original research papers investigating the association between vitDMGPs and coronavirus disease 2019, hypercalcemia, Smith–Lemli–Opitz syndrome, 27-hydroxycholesterol, and mendelian randomization. These findings will provide the foundations for innovations in the diagnosis and treatment of a vast spectrum of conditions.
Impact of Data and Study Characteristics on Microbiome Volatility Estimates
Authors: Park Daniel J. , Plantinga Anna M.
Published: January 2023

The human microbiome is a dynamic community of bacteria, viruses, fungi, and other microorganisms. Both the composition of the microbiome (the microbes that are present and their relative abundances) and the temporal variability of the microbiome (the magnitude of changes in their composition across time, called volatility) has been associated with human health. However, the effect of unbalanced sampling intervals and differential read depth on the estimates of microbiome volatility has not been thoroughly assessed. Using four publicly available gut and vaginal microbiome time series, we subsampled the datasets to several sampling intervals and read depths and then compared additive, multiplicative, centered log ratio (CLR)-based, qualitative, and distance-based measures of microbiome volatility between the conditions. We find that longer sampling intervals are associated with larger quantitative measures of change (particularly for common taxa), but not with qualitative measures of change or distance-based volatility quantification. A lower sequencing read depth is associated with smaller multiplicative, CLR-based, and qualitative measures of change (particularly for less common taxa). Strategic subsampling may serve as a useful sensitivity analysis in unbalanced longitudinal studies investigating clinical associations with microbiome volatility.
Transcriptome Analysis of CYP450 Family Members in Fritillaria cirrhosa D. Don and Profiling of Key CYP450s Related to Isosteroidal Alkaloid Biosynthesis
Authors: Li Rui , Xiao Maotao , Li Jian , Zhao Qi , Wang Mingcheng , Zhu Ziwei
Published: January 2023

Fritillaria cirrhosa D. Don (known as Chuan-Bei-Mu in Chinese) can synthesize isosteroidal alkaloids (ISA) with excellent medicinal value, and its bulb has become an indispensable ingredient in many patented drugs. Members of the cytochrome P450 (CYP450) gene superfamily have been shown to play essential roles in regulating steroidal alkaloids biosynthesis. However, little information is available on the P450s in F. cirrhosa. Here, we performed full-length transcriptome analysis and discovered 48 CYP450 genes belonging to 10 clans, 25 families, and 46 subfamilies. By combining phylogenetic trees, gene expression, and key F. cirrhosa ISA content analysis, we presumably identify seven FcCYP candidate genes, which may be hydroxylases active at the C-22, C-23, or C-26 positions in the late stages of ISA biosynthesis. The transcript expression levels of seven FcCYP candidate genes were positively correlated with the accumulation of three major alkaloids in bulbs of different ages. These data suggest that the candidate genes are most likely to be associated with ISA biosynthesis. Finally, the subcellular localization prediction of FcCYPs and transient expression analysis within Nicotiana benthamiana showed that the FcCYPs were mainly localized in the chloroplast. This study presents a systematic analysis of the CYP450 gene family in F. cirrhosa and provides a foundation for further functional characterization of the CYPs involved in ISA biosynthesis.
Evolutionary Landscape of SOX Genes to Inform Genotype-to-Phenotype Relationships
Authors: Underwood Adam , Rasicci Daniel T , Hinds David , Mitchell Jackson T , Zieba Jacob K , Mills Joshua , Arnold Nicholas E , Cook Taylor W , Moustaqil Mehdi , Gambin Yann , Sierecki Emma , Fontaine Frank , Vanderweele Sophie , Das Akansha S , Cvammen William , Sirpilla Olivia , Soehnlen Xavier , Bricker Kristen , Alokaili Maram , Green Morgan , Heeringa Sadie , Wilstermann Amy M , Freeland Thomas M. , Qutob Dinah , Milsted Amy , Jauch Ralf , Triche Timothy J , Krawczyk Connie M , Bupp Caleb P , Rajasekaran Surender , Francois Mathias , Prokop Jeremy W.
Published: January 2023

The SOX transcription factor family is pivotal in controlling aspects of development. To identify genotype–phenotype relationships of SOX proteins, we performed a non-biased study of SOX using 1890 open-reading frame and 6667 amino acid sequences in combination with structural dynamics to interpret 3999 gnomAD, 485 ClinVar, 1174 Geno2MP, and 4313 COSMIC human variants. We identified, within the HMG (High Mobility Group)- box, twenty-seven amino acids with changes in multiple SOX proteins annotated to clinical pathologies. These sites were screened through Geno2MP medical phenotypes, revealing novel SOX15 R104G associated with musculature abnormality and SOX8 R159G with intellectual disability. Within gnomAD, SOX18 E137K (rs201931544), found within the HMG box of ~0.8% of Latinx individuals, is associated with seizures and neurological complications, potentially through blood–brain barrier alterations. A total of 56 highly conserved variants were found at sites outside the HMG-box, including several within the SOX2 HMG-box-flanking region with neurological associations, several in the SOX9 dimerization region associated with Campomelic Dysplasia, SOX14 K88R (rs199932938) flanking the HMG box associated with cardiovascular complications within European populations, and SOX7 A379V (rs143587868) within an SOXF conserved far C-terminal domain heterozygous in 0.716% of African individuals with associated eye phenotypes. This SOX data compilation builds a robust genotype-to-phenotype association for a gene family through more robust ortholog data integration.
Parvalbumin: A Major Fish Allergen and a Forensically Relevant Marker
Authors: Mukherjee Subham , Horka Petra , Zdenkova Kamila , Cermakova Eliska
Published: January 2023

Parvalbumins (PVALBs) are low molecular weight calcium-binding proteins. In addition to their role in many biological processes, PVALBs play an important role in regulating Ca2+ switching in muscles with fast-twitch fibres in addition to their role in many biological processes. The PVALB gene family is divided into two gene types, alpha (α) and beta (β), with the β gene further divided into two gene types, beta1 (β1) and beta2 (β2), carrying traces of whole genome duplication. A large variety of commonly consumed fish species contain PVALB proteins which are known to cause fish allergies. More than 95% of all fish-induced food allergies are caused by PVALB proteins. The authentication of fish species has become increasingly important as the seafood industry continues to grow and the growth brings with it many cases of food fraud. Since the PVALB gene plays an important role in the initiation of allergic reactions, it has been used for decades to develop alternate assays for fish identification. A brief review of the significance of the fish PVALB genes is presented in this article, which covers evolutionary diversity, allergic properties, and potential use as a forensic marker.
The Potential of ANK1 to Predict Parkinson’s Disease
Authors: Xue Jinsong , Li Fan , Dai Peng
Published: January 2023

The main cause of Parkinson’s disease (PD) remains unknown and the pathologic changes in the brain limit rapid diagnosis. Herein, differentially expressed genes (DEGs) in the Gene Expression Omnibus (GEO) database (GSE8397 and GSE22491) were assessed using linear models for microarray analysis (limma). Ankyrin 1 (ANK1) was the only common gene differentially down-regulated in lateral substantia nigra (LSN), medial substantia nigra (MSN) and blood. Additionally, DEGs between high ANK1 and low ANK1 in GSE99039 were picked out and then uploaded to the Database for Annotation, Visualization and Integrated Discovery (DAVID) for gene ontology (GO) functional annotation analysis. GO analysis displayed that these DEGs were mainly enriched in oxygen transport, myeloid cell development and gas transport (biological process (BP)); hemoglobin complex, haptoglobin–hemoglobin complex and cortical cytoskeleton (cellular component (CC)); and oxygen transporter activity, haptoglobin binding and oxygen binding (molecular function (MF)). Receiver operating characteristic (ROC) curve analysis showed ANK1 had good diagnostic accuracy and increased the area under the curve (AUC) value when combined with other biomarkers. Consistently, intraperitoneal injection of 1-methyl-4-phenyl-1,2,3,6-tetrahydropy-ridi-ne (MPTP) in C57BL/6J mice reduced ANK1 mRNA expression in both substantia nigra and blood compared to the control group. Thus, ANK1 may serve as a candidate biomarker for PD diagnosis.
The Mitochondrial Genomes of Two Parasitoid Wasps Protapanteles immunis and Parapanteles hyposidrae (Hymenoptera: Braconidae) with Phylogenetic Implications and Novel Gene Rearrangements
Authors: Xiao Dandan , Wang Ziqi , Zhu Jiachen , Zhou Xiaogui , Tang Pu , Chen Xuexin
Published: January 2023

Parapanteles hypsidrae (Wilkinson, 1928) and Protapanteles immunis (Haliday, 1834) are the most important parasitic wasps of Ectropis grisescens Warren and Ectropis obliqua (Prout). We sequenced and annotated the mitochondrial genomes of Pa. hyposidrae and Pr. immunis, which are 17,063 bp and 16,397 bp in length, respectively, and possess 37 mitochondrial genes. We discovered two novel types of gene rearrangement, the local inversion of nad4L in Pa. hyposidrae and the remote inversion of the block cox3-nad3-nad5-nad4 in Pr. immunis, within the mitogenomes of Braconidae. The phylogenetic analysis supported the subfamily Microgastrinae is a monophyletic group, but the tribes Apantelini and Cotesiini within this subfamily are paraphyletic groups.
Prevalence and Risk Factors of Neuropsychiatric Symptoms in Institutionalized Patients with Parkinson’s Disease in Taiwan: A Nationwide Observational Study
Authors: Chang Yang-Pei , Chien Ching-Fang , Hsieh Sun-Wung , Huang Ling-Chun , Lin Chung-Fen , Hsu Chih-Cheng , Yang Yuan-Han
Published: January 2023

Neuropsychiatric symptoms (NPSs) are known to be frequent in Parkinson’s disease (PD) with great impacts on the quality of life, but reports about the prevalence in institutions are few. Our aim was to investigate the prevalence of and risk factors for NPSs in institutionalized patients with PD in Taiwan. The National Health Research Institute executed a cross-sectional, community-based, observational study on residential long-term care service institutions. The diagnosis of PD was determined by physicians with the estimated Hoehn and Yahr stage of PD according to the EQ-5D-5L questionnaire. A total of 370 patients with PD (80.1 ± 9.94 years old, 55.1% females) were included, and 139 (37.6%) had more than one NPS in the prior 3 months. The top three NPSs were nighttime behavior (65 (17.6%)), depression (53 (14.3%)), and fear/anxiety (49 (13.2%)). There were no differences between those with NPS and those without NPS in terms of age, gender, education, Mini-Mental State Examination, or Hoehn and Yahr stage. However, multivariate logistic regression analysis showed that genitourinary disease (odds ratio (OR) = 3.13; 95% confidence interval (95%CI) = 1.77–5.51) and psychiatric disorders (OR = 5.18; 95%CI = 3.09–8.69) may be associated with increased risk of NPSs. Increased physical restraint was observed in residents with advanced PD. Genitourinary disease and psychiatric disorders appear to increase the risk of NPSs in institutionalized residents with PD.
Psychological Skills Training for Athletes in Sports: Web of Science Bibliometric Analysis
Authors: Park Inchon , Jeon Jonghwan
Published: January 2023

Psychological Skill Training (PST) for optimal performance in sports has received extensive attention from athletes, coaches, and experts, and numerous studies have been conducted, but despite this interest, it has not been the subject of any bibliographic analysis. The analysis covered 405 articles and reviews that were located in the Thomson Reuters Web of Science (Core CollectionTM) between 1992 and 2021. These papers were published by 1048 authors from 543 different universities across 54 countries in 107 different journals. The fundamental bibliometric calculations and co-word networks were completed. As a result, the following thematic elements were grouped into four clusters: (1) PST for stress, mental toughness, and coping, (2) PST for anxiety, motivation, self-confidence, and self-efficacy, (3) PST for flow and mindfulness, and (4) PST for emotions. From the results of this study, it was confirmed that the topic of PST is converging toward the best performance, with various approaches, such as stress management, anxiety control, and coping as techniques for PST. Furthermore, mindfulness and positive psychology studies emphasize athletes’ quality of life, so coaches and experts should pay more attention to improving athletes’ quality of life in future research.
Development of a Scale of Nurses’ Competency in Anticipatory Grief Counseling for Caregivers of Patients with Terminal Cancer
Authors: Hsiao Chia-Chi , Hsieh Suh-Ing , Kao Chen-Yi , Chu Tsui-Ping
Published: January 2023

Anticipatory grief leads to a highly stressful and conflicting experience among caregivers of patients with terminal cancer. Nurses lack the competency to assess and manage the caregivers’ psychological problems, which in turn affects the caregivers’ quality of life. A scale assessing the anticipatory grief counseling competency among nurses is unavailable. In this study, an Anticipatory Grief Counseling Competency Scale (AGCCS) was developed for nurses. The Scale (AGCCS) was translated into Chinese and then revised. Psychometric testing of the scale was conducted on 252 nurses who participated in the care of patients with terminal cancer at a regional teaching hospital in Southern Taiwan. The data were analyzed using descriptive statistics, reliability, and Pearson’s correlation, and principal component analysis and analysis of variance were performed. Item- and scale-content validity indexes were 0.99 and 0.93, respectively. The Cronbach α of internal consistency was 0.981. The final 53-item AGCCS had five factors, which accounted for 70.81% of the total variance. The Pearson correlation coefficients of these factors ranged between 0.406 and 0.880 (p < 0.001). The AGCCS can be used to evaluate the aforementioned competency for improving caregivers’ quality of care. It can also facilitate in-service education planning and evaluation.
Systematic Review of Penetrating Cardiac Injury by a Firearm: Forensic Implications
Authors: Sessa Francesco , Cocimano Giuseppe , Esposito Massimiliano , Zuccarello Pietro , Scoto Edmondo , Mazzeo Pietro , Salerno Monica
Published: January 2023

Penetrating injuries of the heart, named penetrating cardiac injury (PCI), may cause hemorrhagic shock as well as cardiac tamponade, leading to death if not treated immediately. This systematic review aims to highlight the main aspects of penetrating cardiac injuries after firearm wounds. The cases of 39 subjects (age 37.05 + 15.4) were selected (6 fatal cases). Specifically, 4/39 cases involved subjects under 18 y.o.; analyzing the entrance wound, in 30/39 cases it was located in the anterior chest, 4/39 in the posterior chest, 3/39 in the shoulder/axilla area, 1/39 in the neck, and 1/39 in the pelvis (gluteus). The exit wound was found in only 3/39 cases. Several factors may influence the prognosis: firstly, prompt intervention represents a crucial point, then considering the complications related to PCI, the most important are myocardial infarction, and projectile migration with embolization. The mortality rate is related to: (1) area and severity of the heart injury; (2) duration of transport and intervention; (3) contemporary lesion to other organ/s; (4) the quantity of blood lost; (5) and presence/absence of cardiac tamponade. Based on these findings, a correct approach in the management of PCI may be considered important from a forensic point of view, both as regards to medical liability and from the trial perspective.
Theban Glass Traditions in the 1st Millennium BCE, Greece: New LA-ICP-MS Data and Their Archaeological Implications
Authors: Oikonomou Artemios , Kaparou Maria , Šelih Vid S. , van Elteren Johannes T. , Zacharias Nikolaos , Chenery Simon , Henderson Julian
Published: January 2023

Thebes, located in Boeotia in central Greece, is archaeologically and historically attested to have been an important centre ever since the Early Bronze Age. Regularly sustained glass working, testified by numerous finds in burial and settlement contexts, must have taken place since the Mycenaean times. In the current study, 35 samples of glass beads (30) and vessels (5), dating roughly from the 7th to 1st cent. BCE (Archaic to the Hellenistic/Early Roman era) are the subject of research. The aim was to assess some technological aspects of the assemblage, provide a chemical fingerprint for it and suggest a likely provenance, in an attempt to discuss issues of glass consumption and trade at a given era and culture. A combination of quasi-destructive techniques was applied, namely LA-ICP-MS and SEM-EDS for the identification of the major, minor and trace element composition. The results have provided evidence for different technological choices, reflected in the choice of raw materials and different origins are suggested for the subgroups identified in the course of the study.