bluuebunny/crossref_metadata_2025 huggingface dataset:
Influence of Saw Chain Type and Wood Species on the Mass Concentration of Airborne Wood Dust during Cross-Cutting
Authors: Dado Miroslav , Kučera Marián , Salva Jozef , Hnilica Richard , Hýrošová Tatiana
Published: November 2022

Chainsaw operation is associated with several hazards, including exposure to wood dust, a risk factor which requires serious attention due to health impacts such as respiratory disease. This study aims to investigate the effect of saw chain type and wood species on the mass concentration of airborne wood dust during chainsaw cross-cutting operations. Real-time inhalable and respirable dust measurements in the breathing zone of the chainsaw operator were carried out using a desktop aerosol monitor. Three types of cutter shape (semi chisel, full chisel, and chamfer chisel) and four types of wood species (oak, beech, spruce, and fir) were used in the experiments. The split-plot ANOVA results showed that both respirable and inhalable mass concentrations of wood dust were affected exclusively by wood species. No statistically significant differences were found among particular levels of cutter shape. The highest average mass concentrations of airborne dust were generated by the combination of oak wood and a full chisel cutter.
Photosynthetic Processes and Light Response Model Fitting of Quercus acutissima Carruth. and Quercus variabilis Bl. in the Changjiang River Delta, China
Authors: Ruan Cunxin , Hu Haibo , Cheng Can , Fang Pei , Jia Xichuan , Wu Zhaoming , Zhu Li
Published: November 2022

Plants have the capacity to fix CO2 through photosynthesis. To reveal the photosynthetic processes of Quercus acutissima Carruth. and Quercus variabilis Bl., their net photosynthetic rates were quantified during the early and peak growing seasons. To evaluate forest photosynthetic efficiencies, the photosynthetic light response curves of Q. acutissima and Q. variabilis were fitted by the rectangular hyperbola model (RHM), non-rectangular hyperbola model (NHM), and modified rectangular hyperbola model (Ye model). The results revealed the following: (1) All daily variation curves of the net photosynthetic rate, stomatal conductivity, and transpiration rate were single-peaked. The peak times of the Q. acutissima and Q. variabilis’ net photosynthetic rates appeared at 12:00 am during the early growing season and 10:00 am during the peak growing season. (2) The photosynthetic capacities of both Q. acutissima and Q. variabilis during peak growing seasons were higher than during the early growing season. (3) The net photosynthetic rate was found to be positively correlated with stomatal conductivity, the transpiration rate, and photosynthetically active radiation, and it was negatively correlated with the intercellular CO2 concentration. (4) The Ye model provided the best fit for the light response curves of Q. acutissima and Q. variabilis when compared with the rectangular hyperbola and nonrectangular hyperbola models. The photosynthetic performance of Q. acutissima was superior to that of Q. variabilis; thus, it can be employed as a priority tree species in carbon sink forests.
European Yield Model Exponential Decay Constant Modification for Glulam after Fire Exposure
Authors: Shakimon Mohd Nizam , Hassan Rohana , Malek Nor Jihan Abd , Zainal Azman , Awaludin Ali , Hamid Nor Hayati Abdul , Lum Wei Chen , Salit Mohd Sapuan
Published: November 2022

Many real-scale fire tests have been performed on timber connections to analyze the mechanical behavior of timber connections in previous years. However, little research focused on the bending performance of glued laminated (glulam) timber beam bolted connections after fire exposure. In this paper, the three-dimensional numerical model of the glulam timber beam bolted connections was developed and validated by experimental results. The model can simulate temperature evolution in the connections and their mechanical behavior. In the real-scale test, three (3) samples were prepared for a four-point bending test at normal temperature, while another three (3) samples were tested after exposure to a 30-min standard fire and cooled down to normal temperature. The results show the reduction of the load-carrying capacity before and after exposure to the standard fire by 23.9 kN (71.8%), 8.3 kN (26.1%), and 20.2 kN (47.6%) for bolt diameters of 12 mm, 16 mm, and 20 mm, respectively. The numerical model aims to conduct a parametric study and propose the modification of the exponential decay constant, k, for tropical glulam timber to predict the load-carrying capacity of the glulam timber beam bolted connections after exposure to standard fire.
A Systematic Literature Review on Applications of GAN-Synthesized Images for Brain MRI
Authors: Tavse Sampada , Varadarajan Vijayakumar , Bachute Mrinal , Gite Shilpa , Kotecha Ketan
Published: November 2022

With the advances in brain imaging, magnetic resonance imaging (MRI) is evolving as a popular radiological tool in clinical diagnosis. Deep learning (DL) methods can detect abnormalities in brain images without an extensive manual feature extraction process. Generative adversarial network (GAN)-synthesized images have many applications in this field besides augmentation, such as image translation, registration, super-resolution, denoising, motion correction, segmentation, reconstruction, and contrast enhancement. The existing literature was reviewed systematically to understand the role of GAN-synthesized dummy images in brain disease diagnosis. Web of Science and Scopus databases were extensively searched to find relevant studies from the last 6 years to write this systematic literature review (SLR). Predefined inclusion and exclusion criteria helped in filtering the search results. Data extraction is based on related research questions (RQ). This SLR identifies various loss functions used in the above applications and software to process brain MRIs. A comparative study of existing evaluation metrics for GAN-synthesized images helps choose the proper metric for an application. GAN-synthesized images will have a crucial role in the clinical sector in the coming years, and this paper gives a baseline for other researchers in the field.
Recursive Feature Elimination for Improving Learning Points on Hand-Sign Recognition
Authors: Chen Rung-Ching , Manongga William Eric , Dewi Christine
Published: November 2022

Hand gestures and poses allow us to perform non-verbal communication. Sign language is becoming more important with the increase in the number of deaf and hard-of-hearing communities. However, learning to understand sign language is very difficult and also time consuming. Researchers are still trying to find a better way to understand sign language using the help of technology. The accuracy of most hand-sign detection methods still needs to be improved for real-life usage. In this study, Mediapipe is used for hand feature extraction. Mediapipe can extract 21 hand landmarks from a hand image. Hand-pose detection using hand landmarks is chosen since it reduces the interference from the image background and uses fewer parameters compared to traditional hand-sign classification using pixel-based features and CNN. The Recursive Feature Elimination (RFE) method, using a novel distance from the hand landmark to the palm centroid, is proposed for feature selection to improve the accuracy of digit hand-sign detection. We used three different datasets in this research to train models with a different number of features, including the original 21 features, 15 features, and 10 features. A fourth dataset was used to evaluate the performance of these trained models. The fourth dataset is not used to train any model. The result of this study shows that removing the non-essential hand landmarks can improve the accuracy of the models in detecting digit hand signs. Models trained using fewer features have higher accuracy than models trained using the original 21 features. The model trained with 10 features also shows better accuracy than other models trained using 21 features and 15 features.
SAUSA: Securing Access, Usage, and Storage of 3D Point CloudData by a Blockchain-Based Authentication Network
Authors: Xu Ronghua , Chen Yu , Chen Genshe , Blasch Erik
Published: November 2022

The rapid development of three-dimensional (3D) acquisition technology based on 3D sensors provides a large volume of data, which are often represented in the form of point clouds. Point cloud representation can preserve the original geometric information along with associated attributes in a 3D space. Therefore, it has been widely adopted in many scene-understanding-related applications such as virtual reality (VR) and autonomous driving. However, the massive amount of point cloud data aggregated from distributed 3D sensors also poses challenges for secure data collection, management, storage, and sharing. Thanks to the characteristics of decentralization and security, Blockchain has great potential to improve point cloud services and enhance security and privacy preservation. Inspired by the rationales behind the software-defined network (SDN) technology, this paper envisions SAUSA, a Blockchain-based authentication network that is capable of recording, tracking, and auditing the access, usage, and storage of 3D point cloud datasets in their life-cycle in a decentralized manner. SAUSA adopts an SDN-inspired point cloud service architecture, which allows for efficient data processing and delivery to satisfy diverse quality-of-service (QoS) requirements. A Blockchain-based authentication framework is proposed to ensure security and privacy preservation in point cloud data acquisition, storage, and analytics. Leveraging smart contracts for digitizing access control policies and point cloud data on the Blockchain, data owners have full control of their 3D sensors and point clouds. In addition, anyone can verify the authenticity and integrity of point clouds in use without relying on a third party. Moreover, SAUSA integrates a decentralized storage platform to store encrypted point clouds while recording references of raw data on the distributed ledger. Such a hybrid on-chain and off-chain storage strategy not only improves robustness and availability, but also ensures privacy preservation for sensitive information in point cloud applications. A proof-of-concept prototype is implemented and tested on a physical network. The experimental evaluation validates the feasibility and effectiveness of the proposed SAUSA solution.
NextDet: Efficient Sparse-to-Dense Object Detection with Attentive Feature Aggregation
Authors: Kalgaonkar Priyank , El-Sharkawy Mohamed
Published: November 2022

Object detection is a computer vision task of detecting instances of objects of a certain class, identifying types of objects, determining its location, and accurately labelling them in an input image or a video. The scope of the work presented within this paper proposes a modern object detection network called NextDet to efficiently detect objects of multiple classes which utilizes CondenseNeXt, an award-winning lightweight image classification convolutional neural network algorithm with reduced number of FLOPs and parameters as the backbone, to efficiently extract and aggregate image features at different granularities in addition to other novel and modified strategies such as attentive feature aggregation in the head, to perform object detection and draw bounding boxes around the detected objects. Extensive experiments and ablation tests, as outlined in this paper, are performed on Argoverse-HD and COCO datasets, which provide numerous temporarily sparse to dense annotated images, demonstrate that the proposed object detection algorithm with CondenseNeXt as the backbone result in an increase in mean Average Precision (mAP) performance and interpretability on Argoverse-HD’s monocular ego-vehicle camera captured scenarios by up to 17.39% as well as COCO’s large set of images of everyday scenes of real-world common objects by up to 14.62%.
The Application of Artificial Intelligence in Magnetic Hyperthermia Based Research
Authors: Osial Magdalena , Pregowska Agnieszka
Published: November 2022

The development of nanomedicine involves complex nanomaterial research involving magnetic nanomaterials and their use in magnetic hyperthermia. The selection of the optimal treatment strategies is time-consuming, expensive, unpredictable, and not consistently effective. Delivering personalized therapy that obtains maximal efficiency and minimal side effects is highly important. Thus, Artificial Intelligence (AI) based algorithms provide the opportunity to overcome these crucial issues. In this paper, we briefly overview the significance of the combination of AI-based methods, particularly the Machine Learning (ML) technique, with magnetic hyperthermia. We considered recent publications, reports, protocols, and review papers from Scopus and Web of Science Core Collection databases, considering the PRISMA-S review methodology on applying magnetic nanocarriers in magnetic hyperthermia. An algorithmic performance comparison in terms of their types and accuracy, data availability taking into account their amount, types, and quality was also carried out. Literature shows AI support of these studies from the physicochemical evaluation of nanocarriers, drug development and release, resistance prediction, dosing optimization, the combination of drug selection, pharmacokinetic profile characterization, and outcome prediction to the heat generation estimation. The papers reviewed here clearly illustrate that AI-based solutions can be considered as an effective supporting tool in drug delivery, including optimization and behavior of nanocarriers, both in vitro and in vivo, as well as the delivery process. Moreover, the direction of future research, including the prediction of optimal experiments and data curation initiatives has been indicated.
Advances in Single-Cell Sequencing Technology and Its Application in Poultry Science
Authors: Liu Yong , Liang Shuangmin , Wang Bo , Zhao Jinbo , Zi Xiannian , Yan Shixiong , Dou Tengfei , Jia Junjing , Wang Kun , Ge Changrong
Published: November 2022

Single-cell sequencing (SCS) uses a single cell as the research material and involves three dimensions: genes, phenotypes and cell biological mechanisms. This type of research can locate target cells, analyze the dynamic changes in the target cells and the relationships between the cells, and pinpoint the molecular mechanism of cell formation. Currently, a common problem faced by animal husbandry scientists is how to apply existing science and technology to promote the production of high-quality livestock and poultry products and to breed livestock for disease resistance; this is also a bottleneck for the sustainable development of animal husbandry. In recent years, although SCS technology has been successfully applied in the fields of medicine and bioscience, its application in poultry science has been rarely reported. With the sustainable development of science and technology and the poultry industry, SCS technology has great potential in the application of poultry science (or animal husbandry). Therefore, it is necessary to review the innovation of SCS technology and its application in poultry science. This article summarizes the current main technical methods of SCS and its application in poultry, which can provide potential references for its future applications in precision breeding, disease prevention and control, immunity, and cell identification.
Transcriptomic Study of Spermatogenesis in the Testis of Hu Sheep and Tibetan Sheep
Authors: Fu Xiaoyu , Yang Yanan , Yan Zunqiang , Liu Miaomiao , Wang Xinrong
Published: November 2022

Numerous genes involved in male reproduction regulate testis development and spermatogenesis. In this study, the testis tissue transcriptome was used to identify candidate genes and key pathways associated with fecundity in sheep. Histological analysis of testis tissue using hematoxylin–eosin (HE) routine staining was performed for two sheep breeds. Overall, 466 differentially expressed genes (DEGs) were identified between Hu sheep (HS) and Tibetan sheep (TS) through RNA sequencing technology (RNA-Seq), including 226 upregulated and 240 downregulated genes. Functional analysis showed that several terms and pathways, such as “protein digestion and absorption”, “cAMP signaling pathway”, “focal adhesion”, and “p53 signaling pathway” were closely related to testis development and spermatogenesis. Several genes (including COL1A1, COL1A2, COL3A1, SOX9, BCL2, HDC, and GGT5) were significantly enriched in these terms and pathways and might affect the reproduction of sheep by regulating the migration of spermatogenic cells, apoptosis of spermatogenic cells, and secretion of sterol hormones via testicular interstitial cells. Our results provide a theoretical basis for better understanding the molecular mechanisms of reproduction in sheep.
The Identification of Large Rearrangements Involving Intron 2 of the CDH1 Gene in BRCA1/2 Negative and Breast Cancer Susceptibility
Authors: Ben Aissa-Haj Jihenne , Pinheiro Hugo , Cornelis François , Sebai Molka , Meseure Didier , Briaux Adrien , Berteaux Philippe , Lefol Cedric , Des Guetz Gaëtan , Trassard Martine , Stevens Denise , Vialard François , Bieche Ivan , Noguès Catherine , Tang Roseline , Oliveira Carla , Stoppat-Lyonnet Dominique , Lidereau Rosette , Rouleau Etienne
Published: November 2022

E-cadherin, a CDH1 gene product, is a calcium-dependent cell–cell adhesion molecule playing a critical role in the establishment of epithelial architecture, maintenance of cell polarity, and differentiation. Germline pathogenic variants in the CDH1 gene are associated with hereditary diffuse gastric cancer (HDGC), and large rearrangements in the CDH1 gene are now being reported as well. Because CDH1 pathogenic variants could be associated with breast cancer (BC) susceptibility, CDH1 rearrangements could also impact it. The aim of our study is to identify rearrangements in the CDH1 gene in 148 BC cases with no BRCA1 and BRCA2 pathogenic variants. To do so, a zoom-in CGH array, covering the exonic, intronic, and flanking regions of the CDH1 gene, was used to screen our cohort. Intron 2 of the CDH1 gene was specifically targeted because it is largely reported to include several regulatory regions. As results, we detected one large rearrangement causing a premature stop in exon 3 of the CDH1 gene in a proband with a bilateral lobular breast carcinoma and a gastric carcinoma (GC). Two large rearrangements in the intron 2, a deletion and a duplication, were also reported only with BC cases without any familial history of GC. No germline rearrangements in the CDH1 coding region were detected in those families without GC and with a broad range of BC susceptibility. This study confirms the diversity of large rearrangements in the CDH1 gene. The rearrangements identified in intron 2 highlight the putative role of this intron in CDH1 regulation and alternative transcripts. Recurrent duplication copy number variations (CNV) are found in this region, and the deletion encompasses an alternative CDH1 transcript. Screening for large rearrangements in the CDH1 gene could be important for genetic testing of BC.
Comprehensive Analysis of Potential Prognostic Values of ANGPTLs in Colorectal Cancer
Authors: Zhang Yang , Yang Xuyang , Liu Sicheng , Zhuang Zixuan , Wei Mingtian , Deng Xiangbing , Wang Ziqiang
Published: November 2022

Colorectal cancer (CRC) is one of the most common malignant tumors in the world. CRC recurrence and metastasis cause poor prognosis. ANGPTLs (angiopoietin-like proteins) are a family of proteins that are widely involved in metabolic disease and tumorigenesis. The roles of ANGPTLs in CRC are still controversial and deserve further research. In this study, several databases were employed to explore the expression profiles, prognostic values, genetic alterations, potential biological function, and immune infiltration correlation of ANGPTLs in CRC. The expression of ANGPTL4 was significantly positively correlated with the stage of CRC. Therefore, cell and molecular experiments were further performed to explore the roles of ANGPTL4. Our results showed that the transcriptions of ANGPTLs in colon cancer and rectal cancer tissues were lower than those in normal tissues, but the protein expression varied among different ANGPTLs. In addition, the high expression of ANGPTLs led to a relatively poor oncological outcome. Specifically, the expression of ANGPTL4 is significantly positively correlated with the stage of CRC. Further investigation revealed that ANGPTLs are mainly involved in signal transduction and the regulation of transcription, while KEGG pathway analyses demonstrated pathways in cancer. Additionally, we also observed that ANGPTL4 could promote the proliferation and migration of CRC cells, and four specific small molecule compounds had potential ANGPTL4-binding capabilities, suggesting the clinical application of these small molecule compounds on CRC treatment. Our findings imply the prognostic values and potential therapeutic targets of ANGPTLs in CRC.
CsIAGLU Regulates the Angle of Leaf Petiole by Affecting Endogenous Content of Auxin in Cucumber (Cucumis sativus L.)
Authors: Chen Jiacai , Huang Yuxiang , Liu Xiaofeng , Chen Guangxin , Liu Liu , Cheng Zhihua , Song Weiyuan , Han Lijie , Wang Shaoyun , Wang Liming , Li Min , Zhang Xiaolan , Zhao Jianyu
Published: November 2022

The leaf angle is an important factor determining plant shoot architecture that may boost crop yield by increasing photosynthetic efficiency and facilitating high-density planting. Auxin is an important phytohormone involved in leaf angle regulation. Here, we identified two Single-Nucleotide Polymorphisms (SNPs) in the Indoleacetic Acid (IAA) glucosyltransferase gene CsIAGLU in 80 re-sequenced cucumber lines, of which the CsIAGLU717G,1234T is the dominant allele associated with a small leaf pedicle angle (LPA), whereas CsIAGLU717C,1234A is linked with a large LPA. CsIAGLU was highly expressed in leaves and petioles. In natural cucumber populations, the expression of CsIAGLU was negatively correlated with the LPA. The mutation of CsIAGLU induced by the CRISPR-Cas9 system resulted in elevated free IAA levels and enlarged cell expansion on the adaxial side of the petiole base, thus producing a greater LPA. Consistently, exogenous IAA treatment led to increased LPA and cell size. Therefore, our findings suggest that CsIAGLU functions as a negative regulator of LPA development via auxin-mediated cell expansion in cucumber, providing a valuable strategy for cucumber breeding with small LPAs.
Identification of the Genes Encoding B3 Domain-Containing Proteins Related to Vernalization of Beta vulgaris
Authors: Liang Naiguo , Cheng Dayou , Zhao Li , Lu Hedong , Xu Lei , Bi Yanhong
Published: November 2022

Vernalization is the process of exposure to low temperatures, which is crucial for the transition from vegetative to reproductive growth of plants. In this study, the global landscape vernalization-related mRNAs and long noncoding RNAs (lncRNAs) were identified in Beta vulgaris. A total of 22,159 differentially expressed mRNAs and 4418 differentially expressed lncRNAs were uncovered between the vernalized and nonvernalized samples. Various regulatory proteins, such as zinc finger CCCH domain-containing proteins, F-box proteins, flowering-time-related proteins FY and FPA, PHD finger protein EHD3 and B3 domain proteins were identified. Intriguingly, a novel vernalization-related lncRNA–mRNA target-gene co-expression regulatory network and the candidate vernalization genes, VRN1, VRN1-like, VAL1 and VAL2, encoding B3 domain-containing proteins were also unveiled. The results of this study pave the way for further illumination of the molecular mechanisms underlying the vernalization of B. vulgaris.
Assessment of Rare Genetic Variants to Identify Candidate Modifier Genes Underlying Neurological Manifestations in Neurofibromatosis 1 Patients
Authors: Tang Jie , Li Niu , Li Guoqiang , Wang Jian , Yu Tingting , Yao Ruen
Published: November 2022

Neurological phenotypes such as intellectual disability occur in almost half of patients with neurofibromatosis 1 (NF1). Current genotype–phenotype studies have failed to reveal the mechanism underlying this clinical variability. Despite the presence of pathogenic variants of NF1, modifier genes likely determine the occurrence and severity of neurological phenotypes. Exome sequencing data were used to identify genetic variants in 13 NF1 patients and 457 healthy controls, and this information was used to identify candidate modifier genes underlying neurological phenotypes based on an optimal sequence kernel association test. Thirty-six genes were identified as significant modifying factors in patients with neurological phenotypes and all are highly expressed in the nervous system. A review of the literature confirmed that 19 genes including CUL7, DPH1, and BCO1 are clearly associated with the alteration of neurological functioning and development. Our study revealed the enrichment of rare variants of 19 genes closely related to neurological development and functioning in NF1 patients with neurological phenotypes, indicating possible modifier genes and variants affecting neurodevelopment. Further studies on rare genetic variants of candidate modifier genes may help explain the clinical heterogeneity of NF1.
Effects of Tributyrin Supplementation on Liver Fat Deposition, Lipid Levels and Lipid Metabolism-Related Gene Expression in Broiler Chickens
Authors: Gu Tiantian , Duan Mingcai , Liu Jinyu , Chen Li , Tian Yong , Xu Wenwu , Zeng Tao , Lu Lizhi
Published: November 2022

The objective of this study was to investigate the effects of tributyrin supplementation on liver fat metabolism in broiler chickens. Two hundred and forty broilers were randomly allocated into two experimental groups (6 replicates per treatment; 20 chickens in each replicate): the control group (CN), which received a basal diet, and the tributyrin group (TB), which received a basal diet supplemented with 1 g/kg of tributyrin. The experimental period lasted 37 days. The results showed that in the liver, broilers supplemented with tributyrin had higher content of high-density lipoprotein cholesterol (HDL-C) (p < 0.05). Liver hepatic lipase (HL), lipoprotein lipase (LPL) and total lipid (TL) activity were significantly lower than in the TB group than that in the NC group. Meanwhile, the diet supplemented with tributyrin had more lipid droplets than the NC group, whereas the TB and NC groups showed no histological abnormalities in the liver. Furthermore, the mRNA expression levels of peroxisome proliferators-activated receptor α (PPARα), proliferators-activated receptor γ (PPARγ), fatty acid synthase (FAS), LPL and adipose triglyceride lipase (ATGL) in the liver were significantly upregulated in the TB group (p < 0.05), while those of the long-chain acyl-CoA-synthetase 1 (ACSL1) mRNA between the TB group and the NC group were not different (p > 0.05). These findings indicated that the diet supplemented with tributyrin could increase fat deposition appropriately by promoting fat synthesis without causing liver tissue damage, which demonstrated that tributyrin can be considered a valid feed additive for broiler chickens.
PAS Domain-Containing Chemoreceptors Influence the Signal Sensing and Intestinal Colonization of Vibrio cholerae
Authors: Shu Rundong , Yuan Chaoqun , Liu Bojun , Song Yang , Hou Leqi , Ren Panpan , Wang Hui , Cui Chunhong
Published: November 2022

Bacterial chemotaxis is the phenomenon in which bacteria migrate toward a more favorable niche in response to chemical cues in the environment. The methyl-accepting chemotaxis proteins (MCPs) are the principal sensory receptors of the bacterial chemotaxis system. Aerotaxis is a special form of chemotaxis in which oxygen serves as the signaling molecule; the process is dependent on the aerotaxis receptors (Aer) containing the Per-Arnt-Sim (PAS) domain. Over 40 MCPs are annotated on the genome of Vibrio cholerae; however, little is known about their functions. We investigated six MCPs containing the PAS domain in V. cholerae El Tor C6706, namely aer2, aer3, aer4, aer5, aer6, and aer7. Deletion analyses of each aer homolog gene indicated that these Aer receptors are involved in aerotaxis, chemotaxis, biofilm formation, and intestinal colonization. Swarming motility assay indicated that the aer2 gene was responsible for sensing the oxygen gradient independent of the other five homologs. When bile salts and mucin were used as chemoattractants, each Aer receptor influenced the chemotaxis differently. Biofilm formation was enhanced by overexpression of the aer6 and aer7 genes. Moreover, deletion of the aer2 gene resulted in better bacterial colonization of the mutant in adult mice; however, virulence gene expression was unaffected. These data suggest distinct roles for different Aer homologs in V. cholerae physiology.
The Influence of Structural Variants of the CES1 Gene on the Pharmacokinetics of Enalapril, Presumably Due to Linkage Disequilibrium with the Intronic rs2244613
Authors: Ikonnikova Anna , Kazakov Ruslan , Rodina Tatiana , Dmitriev Artem , Melnikov Evgeniy , Zasedatelev Alexander , Nasedkina Tatiana
Published: November 2022

Variants in the CES1 gene encoding carboxylesterase 1 may affect the metabolism of enalapril to the active metabolite enalaprilat. It was shown that the A allele of rs71647871 and the C allele of rs2244613 led to a decrease in plasma enalaprilat concentrations. This study aimed to estimate the effect of structural haplotypes of CES1 containing the pseudogene CES1P1, or a hybrid of the gene and the pseudogene CES1A2, on the pharmacokinetics of enalapril. We included 286 Caucasian patients with arterial hypertension treated with enalapril. Genotyping was performed using real-time PCR and long-range PCR. Peak and trough plasma enalaprilat concentrations were lower in carriers of CES1A2. The studied haplotypes were in linkage disequilibrium with rs2244613: generally, the A allele was in the haplotype containing the CES1P1, and the C allele was in the haplotype with the CES1A2. Thus, carriers of CES1A2 have reduced CES1 activity against enalapril. Linkage disequilibrium of the haplotype containing the CES1P1 or CES1A2 with rs2244613 should be taken into account when genotyping the CES1 gene.
Characterising Mitochondrial Capture in an Iberian Shrew
Authors: Kunerth Henry D. , Tapisso Joaquim T. , Valente Raul , Mathias Maria da Luz , Alves Paulo C. , Searle Jeremy B. , Vega Rodrigo , Paupério Joana
Published: November 2022

Mitochondrial introgression raises questions of biogeography and of the extent of reproductive isolation and natural selection. Previous phylogenetic work on the Sorex araneus complex revealed apparent mitonuclear discordance in Iberian shrews, indicating past hybridisation of Sorex granarius and the Carlit chromosomal race of S. araneus, enabling introgression of the S. araneus mitochondrial genome into S. granarius. To further study this, we genetically typed 61 Sorex araneus/coronatus/granarius from localities in Portugal, Spain, France, and Andorra at mitochondrial, autosomal, and sex-linked loci and combined our data with the previously published sequences. Our data are consistent with earlier data indicating that S. coronatus and S. granarius are the most closely related of the three species, confirming that S. granarius from the Central System mountain range in Spain captured the mitochondrial genome from a population of S. araneus. This mitochondrial capture event can be explained by invoking a biogeographical scenario whereby S. araneus was in contact with S. granarius during the Younger Dryas in central Iberia, despite the two species currently having disjunct distributions. We discuss whether selection favoured S. granarius with an introgressed mitochondrial genome. Our data also suggest recent hybridisation and introgression between S. coronatus and S. granarius, as well as between S. araneus and S. coronatus.
Plastid Phylogenomics of Paeonia and the Evolution of Ten Flower Types in Tree Peony
Authors: Li Wen , Huang Xin-Cheng , Wang Yi-Lei , Zhang Rui-Ju , Shi Dong-Yan , Li Teng-Fei , Zhou Guang-Can , Xue Jia-Yu
Published: November 2022

Paeonia suffruticosa Andr., a member of Paeoniaceae, is native to China. In its 1600 years’ cultivation, more than 2000 cultivars for different purposes (ornamental, medicinal and oil use) have been inbred. However, there are still some controversies regarding the provenance of tree peony cultivars and the phylogenetic relationships between and within different cultivar groups. In this study, plastid genome sequencing was performed on 10 representative tree peony cultivars corresponding to 10 different flower types. Structure and comparative analyses of the plastid genomes showed that the total lengths of the chloroplast genome of the 10 cultivars ranged from 152,153 to 152,385 bp and encoded 84–88 protein-coding genes, 8 rRNAs and 31–40 tRNAs. The number of simple sequence repeats and interspersed repeat sequences of the 10 cultivars ranged from 65–68 and 40–42, respectively. Plastid phylogenetic relationships of Paeonia species/cultivars were reconstructed incorporating data from our newly sequenced plastid genomes and 15 published species, and results showed that subsect. Vaginatae was the closest relative to the central plains cultivar group with robust support, and that it may be involved in the formation of the group. Paeonia ostii was recovered as a successive sister group to this lineage. Additionally, eleven morphological characteristics of flowers were mapped to the phylogenetic skeleton to reconstruct the evolutionary trajectory of flower architecture in Paeoniaceae.
An Investigation of the Etiologies of Non-Immune Hydrops Fetalis in the Era of Next-Generation Sequence—A Single Center Experience
Authors: Wei Xing , Yang Yingjun , Zhou Jia , Zhou Xinyao , Xiong Shiyi , Chen Jianping , Zhou Fenhe , Zou Gang , Sun Luming
Published: November 2022

(1) Background: Numerous etiologies may lead to non-immune hydrops fetalis (NIHF). However, the causes remain unclear in half of NIHF cases following current standard assessment. The application of prenatal chromosomal microarray analysis (CMA) and exome sequencing (ES) can improve the identification of the etiologies. This study aimed to investigate the etiologies of NIHF in the era of next-generation sequence (NGS) following a unified prenatal work-up flow for diagnosis. (2) Methods: A retrospective analysis was conducted on NIHF cases that were collected prospectively to explore the underlying etiologies according to a unified prenatal diagnosis work-up flow at Shanghai First Maternity and Infant Hospital between Jan 2016 and Dec 2019. The medical records for all NIHF cases were reviewed, and the causes of NIHF were classified as confirmed (diagnostic), suspected, or unknown. (3) Results: Prenatal and postnatal medical records for a total of 145 NIHF cases were reviewed, 48.3% (70/145) of the cases were identified to be with confirmed etiologies, and 10.3% (15/145) with suspected etiologies. Among 85 cases with confirmed or suspected etiologies, 44.7% were diagnosed with genetic disorders, 20% with chylothorax/chyloascites diagnosed postnatally, 12.9% with fetal structural anomalies, 12.9% with fetal anemia, 7% (6 cases) with fetal arrhythmia, and 2.3% (2 cases) with placenta chorioangioma. In cases with genetic disorders, 8 aneuploidies were detected by CMA, and 30 cases had single-gene disorders identified by ES (29/30) or targeted gene panel (1/30). There were still 41.4% cases (60/145) with unknown causes after this unified prenatal diagnostic work-up flow. (4) Conclusions: In the era of NGS, the causes of NIHF were identified in 58.6% of cases, with genetic disorders being the most common ones. NGS is helpful in determining the genetic etiology of NIHF when CMA results cannot explain NIHF, but 41.4% of cases were still with unknown causes under the unified prenatal diagnostic work-up flow in this single-center study.
Plastidial Phosphoglucomutase (pPGM) Overexpression Increases the Starch Content of Transgenic Sweet Potato Storage Roots
Authors: Wang Yannan , Zhang Huan , Li Yan , Zhang Qian , Liu Qingchang , Zhai Hong , Zhao Ning , Yang Yufeng , He Shaozhen
Published: November 2022

Sweet potato (Ipomoea batatas), an important root crop, has storage roots rich in starch that are edible and serve as a raw material in bioenergy production. Increasing the storage-root starch contents is a key sweet potato breeding goal. Phosphoglucomutase (PGM) is the catalytic enzyme for the interconversion of glucose-6-phosphate and glucose-1-phosphate, precursors in the plant starch synthetic pathway. Plant PGMs have plastidial and cytosolic isoforms, based on their subcellular localization. Here, IbpPGM, containing 22 exons and 21 introns, was cloned from the sweet potato line Xu 781. This gene was highly expressed in the storage roots and leaves, and its expression was induced by exogenous sucrose treatments. The mature IbpPGM protein was successfully expressed in Escherichia coli when a 73-aa chloroplastic transit peptide detected in the N-terminus was excised. The subcellular localization confirmed that IbpPGM was localized to the chloroplasts. The low-starch sweet potato cultivar Lizixiang IbpPGM-overexpression lines showed significantly increased starch, glucose, and fructose levels but a decreased sucrose level. Additionally, the expression levels of the starch synthetic pathway genes in the storage roots were up-regulated to different extents. Thus, IbpPGM significantly increased the starch content of the sweet potato storage roots, which makes it a candidate gene for the genetic engineering of the sweet potato.
Meaning Making as a Lifebuoy in Dementia Caregiving: Predicting Depression from a Generation Perspective Using a Fuzzy-Set Qualitative Comparative Analysis
Authors: Lou Vivian Weiqun , Cheng Clio Yuen Man , Yu Doris Sau Fung , Wong Daniel Fu Keung , Lai Daniel W. L. , Chong Alice Ming Lin , Chen Shuangzhou , Chou Kee Lee
Published: November 2022

Depressive symptomatology is associated with caregiver burden and poor health outcomes among dementia caregivers. Scholars called for a paradigm shift to focus on positive aspects of caregiving, in particular, meaning making during the caregiving journey. This study draws on the meaning making model and a generation perspective to predict depression among dementia caregivers from two generations, including Baby Boomers who were born between 1946 and 1964 and Generation X who were born between 1965 and 1980, using a configuration approach. Data was collected in a two-wave longitudinal design, from December 2019 to March 2021 in Hong Kong. A fuzzy-set qualitative comparative analysis resulted in six configurations with an overall solution consistency and overall solution coverage of 0.867 and 0.488, respectively. These configurations consist of a different combination of conditions that predict high depressive symptomatology among dementia caregivers in two generations. Specifically, generation is related to five out of six configurations. This study is the first to predict depression among dementia caregivers using a meaning making model from a generation perspective. It advances the understanding of factors contributing to high depressive symptomatology among dementia caregivers from two generations, thus contributing to the future development of generation-responsive assessments, interventions, and policies.
Efficacy of a Mobile App-Based Coaching Program for Addiction Prevention among Apprentices: A Cluster-Randomized Controlled Trial
Authors: Haug Severin , Boumparis Nikolaos , Wenger Andreas , Schaub Michael Patrick , Paz Castro Raquel
Published: November 2022

Background: Addictive behaviors such as tobacco/e-cigarette smoking, at-risk alcohol consumption, cannabis use or compulsive internet use are common among apprentices. ready4life is a mobile app-based preventive intervention program for apprentices that promotes life skills and reduces risky behavior. The present study tested the efficacy of ready4life for addiction prevention among apprentices in Switzerland within a controlled trial. Methods: Two-arm, cluster-randomized controlled trial including assessments at baseline and follow-up after 6 months. Participants of the intervention group received coaching by a conversational agent for 16 weeks. The main outcome measure was a composite score for addictive behaviors, which included (1) at-risk drinking, (2) tobacco/e-cigarette smoking, (3) cannabis use and (4) problematic internet use. Results: A total of 2275 students from 159 vocational school classes in Switzerland, were invited for study participation. Of these, 1351 (59.4%) students with a mean age of 17.3 years and a male proportion of 56.6% provided informed consent to participate. The follow up assessment at month 6 was completed by 962 (71.2%) study participants. The results concerning the primary outcome showed a stronger decrease of addictive behaviors between baseline and follow up in the intervention group compared to the control group. In particular, significant effects were observed for at-risk drinking and problematic Internet use, while no significant effects were observed for tobacco/e-cigarette smoking and cannabis use. Conclusions: The majority of apprentices invited for program participation within vocational schools participated in the ready4life program for addiction prevention. The mobile app-based coaching was effective in reducing risk behaviors such as at-risk drinking and problematic Internet use in a group of adolescents who have an especially high risk of engaging in addictive activities.
Experiences of Hope after Treatment of Hepatitis C Infection—A Qualitative Study
Authors: Sælør Knut Tore , Carlsen Siv-Elin Leirvaag , Fadnes Lars Thore , Lorås Lennart
Published: November 2022

The aim of this study was to explore the experiences of hope people had after undergoing treatment for a hepatitis C virus infection (HCV). Between October 2019 and May 2020, 19 one-on-one interviews were conducted with people who inject drugs and had undergone HCV treatment. All participants had completed treatment and were documented as being virus-free. Data were audio recorded and then transcribed verbatim and analysed; a method inspired by reflexive thematic analysis. Those interviewed conveyed rich and nuanced descriptions of experiences of a life with HCV. Through the course of the analysis we developed four themes. The themes were formulated as metaphors aimed at capturing commonalities about how the participants seemed to “turn their gaze” after receiving HCV treatment: (1) turning their gaze backward; (2) turning their gaze inwards; (3) turning their gaze toward others and (4) turning their gaze forward. Participants’ descriptions of their experiences relating to HCV were somewhat gloomy, and HCV treatment seemed to inspire hope and a brighter outlook on several areas of life.
Psychotic Disorders in the Course of SARS-CoV-2 Infection or Uncomplicated Amantadine Treatment?—Case Report
Authors: Tatar Dominika , Świerzy Krzysztof , Błachut Michał , Badura Brzoza Karina
Published: November 2022

The mental health impact of SARS-CoV-2 infection is currently the subject of intense research. Mental disorders in the course of coronavirus infection are non-specific. They most often have a sudden onset and short-term course and resolve spontaneously or after the administration of low doses of antipsychotic drugs. At the same time, attempts have been made to develop recommendations for COVID-19 therapy. Single reports suggest the effectiveness of amantadine in the treatment. The mechanism of action of the drug in this case is not known; it is expected that amantadine, by reducing the expression of the cathepsin L gene, may interfere with SARS-CoV-2 replication. In addition, this drug stimulates dopaminergic transmission, which may result in numerous side effects, often of a neuropsychological nature, the most common of which are visual hallucinations. Therefore, it is extremely difficult to unequivocally diagnose the cause of mental disorders among patients with SARS-CoV-2 infection who took amatatide for off-label treatment. A clear assessment of whether the psychological symptoms in this group of patients are the primary or secondary clinical manifestation of the infection or a complication of amantadine treatment is difficult. In this context, we attempted to describe a case of a patient with psychotic symptoms who was confirmed with SARS-CoV-2 infection and treated with amantadine.
Simulating and Forecasting the COVID-19 Spread in a U.S. Metropolitan Region with a Spatial SEIR Model
Authors: Hatami Faizeh , Chen Shi , Paul Rajib , Thill Jean-Claude
Published: November 2022

The global COVID-19 pandemic has taken a heavy toll on health, social, and economic costs since the end of 2019. Predicting the spread of a pandemic is essential to developing effective intervention policies. Since the beginning of this pandemic, many models have been developed to predict its pathways. However, the majority of these models assume homogeneous dynamics over the geographic space, while the pandemic exhibits substantial spatial heterogeneity. In addition, spatial interaction among territorial entities and variations in their magnitude impact the pandemic dynamics. In this study, we used a spatial extension of the SEIR-type epidemiological model to simulate and predict the 4-week number of COVID-19 cases in the Charlotte–Concord–Gastonia Metropolitan Statistical Area (MSA), USA. We incorporated a variety of covariates, including mobility, pharmaceutical, and non-pharmaceutical interventions, demographics, and weather data to improve the model’s predictive performance. We predicted the number of COVID-19 cases for up to four weeks in the 10 counties of the studied MSA simultaneously over the time period 29 March 2020 to 13 March 2021, and compared the results with the reported number of cases using the root-mean-squared error (RMSE) metric. Our results highlight the importance of spatial heterogeneity and spatial interactions among locations in COVID-19 pandemic modeling.