bluuebunny/crossref_metadata_2025_split huggingface dataset:
Surface interfacial analysis of simulant high level nuclear waste glass dissolved in synthetic cement solutions
Authors: Corkhill Claire L. , Mann Colleen , Eskelsen Jeremy R. , Leonard Donovan N. , Mottram Lucy M. , Stennett Martin C. , Ayling Jennifer M. S. , Thorpe Clare L. , Cole Max R. , Nicholas Sarah , Tappero Ryan , Pierce Eric M. 
Published: August 2022

AbstractThe corrosion mechanisms and kinetics of a Mg-rich alkali aluminoborosilicate glass simulating UK high-level waste (CaZn28) were investigated upon dissolution in synthetic cement solutions. Dissolution varied as a function the different pH and alkali/alkaline earth content of each cement solution. High resolution microscopy and spectroscopy techniques ascertained the nature of the interface between the glass and the cement solutions. TEM-EDS revealed alkali- and alkaline earth-rich silica gels, into which K, Ca and Mg were incorporated. TEM-SAED, combined with synchrotron micro-focus XRD, identified the ubiquitous precipitation of the Mg-aluminate layered double hydroxide phase, meixnerite (Mg6Al2(OH)18·4H2O), in addition to goethite (FeOOH) and crystalline silica. The C-S-H phase, tobermorite (Ca5Si6O16(OH)2·4H2O), was identified in the most Ca-rich solution only. These data give insight to the role of alkali/alkaline earth-rich solutions in the dissolution or radioactive waste glasses, of importance to the final disposition in a geological disposal facility.
Erythroid lineage-specific lentiviral RNAi vectors suitable for molecular functional studies and therapeutic applications
Authors: Bagchi Abhirup , Devaraju Nivedhitha , Chambayil Karthik , Rajendiran Vignesh , Venkatesan Vigneshwaran , Sayed Nilofer , Pai Aswin Anand , Nath Aneesha , David Ernest , Nakamura Yukio , Balasubramanian Poonkuzhali , Srivastava Alok , Thangavel Saravanabhavan , Mohankumar Kumarasamypet M. , Velayudhan Shaji R. 
Published: August 2022

AbstractNumerous genes exert multifaceted roles in hematopoiesis. Therefore, we generated novel lineage-specific RNA interference (RNAi) lentiviral vectors, H23B-Ery-Lin-shRNA and H234B-Ery-Lin-shRNA, to probe the functions of these genes in erythroid cells without affecting other hematopoietic lineages. The lineage specificity of these vectors was confirmed by transducing multiple hematopoietic cells to express a fluorescent protein. Unlike the previously reported erythroid lineage RNAi vector, our vectors were designed for cloning the short hairpin RNAs (shRNAs) for any gene, and they also provide superior knockdown of the target gene expression with a single shRNA integration per cell. High-level lineage-specific downregulation of BCL11A and ZBTB7A, two well-characterized transcriptional repressors of HBG in adult erythroid cells, was achieved with substantial induction of fetal hemoglobin with a single-copy lentiviral vector integration. Transduction of primary healthy donor CD34+ cells with these vectors resulted in >80% reduction in the target protein levels and up to 40% elevation in the γ-chain levels in the differentiated erythroid cells. Xenotransplantation of the human CD34+ cells transduced with H23B-Ery-Lin-shBCL11A LV in immunocompromised mice showed ~ 60% reduction in BCL11A protein expression with ~ 40% elevation of γ-chain levels in the erythroid cells derived from the transduced CD34+ cells. Overall, the novel erythroid lineage-specific lentiviral RNAi vectors described in this study provide a high-level knockdown of target gene expression in the erythroid cells, making them suitable for their use in gene therapy for hemoglobinopathies. Additionally, the design of these vectors also makes them ideal for high-throughput RNAi screening for studying normal and pathological erythropoiesis.
PTPRD and CNTNAP2 as markers of tumor aggressiveness in oligodendrogliomas
Authors: Rautajoki Kirsi J. , Jaatinen Serafiina , Tiihonen Aliisa M. , Annala Matti , Vuorinen Elisa M. , Kivinen Anni , Rauhala Minna J. , Maass Kendra K. , Pajtler Kristian W. , Yli-Harja Olli , Helén Pauli , Haapasalo Joonas , Haapasalo Hannu , Zhang Wei , Nykter Matti 
Published: August 2022

AbstractOligodendrogliomas are typically associated with the most favorable prognosis among diffuse gliomas. However, many of the tumors progress, eventually leading to patient death. To characterize the changes associated with oligodendroglioma recurrence and progression, we analyzed two recurrent oligodendroglioma tumors upon diagnosis and after tumor relapse based on whole-genome and RNA sequencing. Relapsed tumors were diagnosed as glioblastomas with an oligodendroglioma component before the World Health Organization classification update in 2016. Both patients died within 12 months after relapse. One patient carried an inactivating POLE mutation leading to a clearly hypermutated progressed tumor. Strikingly, both relapsed tumors carried focal chromosomal rearrangements in PTPRD and CNTNAP2 genes with associated decreased gene expression. TP53 mutation was also detected in both patients after tumor relapse. In The Cancer Genome Atlas (TCGA) diffuse glioma cohort, PTPRD and CNTNAP2 expression decreased by tumor grade in oligodendrogliomas and PTPRD expression also in IDH-mutant astrocytomas. Low expression of the genes was associated with poor overall survival. Our analysis provides information about aggressive oligodendrogliomas with worse prognosis and suggests that PTPRD and CNTNAP2 expression could represent an informative marker for their stratification.
Visuo-spatial attention deficit in children with reading difficulties
Authors: Franceschini Sandro , Bertoni Sara , Puccio Giovanna , Gori Simone , Termine Cristiano , Facoetti Andrea 
Published: August 2022

AbstractAlthough developmental reading disorders (developmental dyslexia) have been mainly associated with auditory-phonological deficits, recent longitudinal and training studies have shown a possible causal role of visuo-attentional skills in reading acquisition. Indeed, visuo-attentional mechanisms could be involved in the orthographic processing of the letter string and the graphemic parsing that precede the grapheme-to-phoneme mapping. Here, we used a simple paper-and-pencil task composed of three labyrinths to measure visuo-spatial attention in a large sample of primary school children (n = 398). In comparison to visual search tasks requiring visual working memory, our labyrinth task mainly measures distributed and focused visuo-spatial attention, also controlling for sensorimotor learning. Compared to typical readers (n = 340), children with reading difficulties (n = 58) showed clear visuo-spatial attention impairments that appear not linked to motor coordination and procedural learning skills implicated in this paper and pencil task. Since visual attention is dysfunctional in about 40% of the children with reading difficulties, an efficient reading remediation program should integrate both auditory-phonological and visuo-attentional interventions.
Estimation of model accuracy by a unique set of features and tree-based regressor
Authors: Bitton Mor , Keasar Chen 
Published: August 2022

AbstractComputationally generated models of protein structures bridge the gap between the practically negligible price tag of sequencing and the high cost of experimental structure determination. By providing a low-cost (and often free) partial alternative to experimentally determined structures, these models help biologists design and interpret their experiments. Obviously, the more accurate the models the more useful they are. However, methods for protein structure prediction generate many structural models of various qualities, necessitating means for the estimation of their accuracy. In this work we present MESHI_consensus, a new method for the estimation of model accuracy. The method uses a tree-based regressor and a set of structural, target-based, and consensus-based features. The new method achieved high performance in the EMA (Estimation of Model Accuracy) track of the recent CASP14 community-wide experiment (https://predictioncenter.org/casp14/index.cgi). The tertiary structure prediction track of that experiment revealed an unprecedented leap in prediction performance by a single prediction group/method, namely AlphaFold2. This achievement would inevitably have a profound impact on the field of protein structure prediction, including the accuracy estimation sub-task. We conclude this manuscript with some speculations regarding the future role of accuracy estimation in a new era of accurate protein structure prediction.
A non-randomized, open-label study of the safety and effectiveness of a novel non-pneumatic compression device (NPCD) for lower limb lymphedema
Authors: Rockson Stanley G. , Karaca-Mandic Pinar , Nguyen Michelle , Shadduck Kristin , Gingerich Phyllis , Campione Elizabeth , Hetrrick Heather 
Published: August 2022

AbstractLower extremity lymphedema (LEL) can result in detriments to quality of life (QOL) and impose a significant economic burden on patients and payers. A common component of treatment is pneumatic compression, which requires patients to remain immobile. We investigated a novel non-pneumatic compression device (NPCD) that allows patients to remain active during compression treatment, to see if it reduces swelling and improves QOL. We conducted a non-randomized, open-label, 12-week pilot study of adult patients with primary or secondary unilateral LEL, and measured changes in limb edema and QOL using the Lymphedema Quality of Life Questionnaire (LYMQOL). Twenty-four subjects were enrolled; the majority were female (17) with secondary lymphedema (21). Eighteen completed the study. Statistically significant improvements were observed in overall QOL, aggregated LYMQOL total score, and three of four LYMQOL subscales (Function, Appearance, Mood). The fourth (Symptoms) trended toward significant improvement (p = 0.06). The average reduction in affected limb edema was 39.4%. The novel NPCD produced statistically significant improvements in QOL, functioning, and edema volume of patients with LEL. Innovations in devices to manage LEL can be effective while allowing patients to maintain mobility and physical activity during treatment.
Hygienic assessment of fish handling practices along production and supply chain and its public health implications in Central Oromia, Ethiopia
Authors: Bedane Tesfaye D. , Agga Getahun E. , Gutema Fanta D. 
Published: August 2022

AbstractFishborne diseases are among the major causes of morbidity and mortality worldwide. Contamination of the aquatic ecosystem and unhygienic handling practices along the fish supply chain can lead to a contaminated fish. Consumption of raw or under cooked fish and fish products is a major source of fishborne infections in humans. Despite reports of fish contamination with foodborne pathogens in Ethiopia, information regarding the hygienic status of fish handling practices is limited. We assessed fish hygienic handling practices at production sites and along the fish supply chain in three towns in east Shewa zone of Oromia. Data were collected using a semi-structured questionnaire interviews and personal observations. The study consisted of purposively selected respondents comprising of 50 fishermen, 10 retailers, 20 food establishments serving fish, and 120 consumers. Descriptive statistics and Chi-square test were used to present the proportion of various actors along the fish production and supply chain and to compare the proportions of observations among the different categories respectively. We observed that the lakes were accessible to animals and exposed to chemical and microbial contaminations through rainwater run-off. Fish were processed under unhygienic practices like washing of filleted fish with lake water, indiscriminate processing at unhygienic landing sites, use of a single knife for processing all fish with infrequent washing and with no disinfection in between. Majority (70%; n = 10) of the retailers and all the food establishments transported fish in vehicles with no cold chain facilities. Good hygienic practices we observed were the use of refrigerators for storage in all retailers and 70% (n = 20) of the food establishments; 30% of retailers used vehicles with a cold chain facility for the transportation of fish. Over three-fourths (77%; n = 120) of the consumers preferred consuming raw fish; 80% of them lacked the knowledge of fishborne diseases. The study revealed a wide range of unhygienic handling practices along fish production and supply chain; lack of infrastructure for post-harvest fish handling and processing, lack of appropriate transportation facilities and presence of knowledge gaps regarding fish borne diseases.
Prediction of sex-determination mechanisms in avian primordial germ cells using RNA-seq analysis
Authors: Ichikawa Kennosuke , Nakamura Yoshiaki , Bono Hidemasa , Ezaki Ryo , Matsuzaki Mei , Horiuchi Hiroyuki 
Published: August 2022

AbstractIn birds, sex is determined through cell-autonomous mechanisms and various factors, such as the dosage of DMRT1. While the sex-determination mechanism in gonads is well known, the mechanism in germ cells remains unclear. In this study, we explored the gene expression profiles of male and female primordial germ cells (PGCs) during embryogenesis in chickens to predict the mechanism underlying sex determination. Male and female PGCs were isolated from blood and gonads with a purity > 96% using flow cytometry and analyzed using RNA-seq. Prior to settlement in the gonads, female circulating PGCs (cPGCs) obtained from blood displayed sex-biased expression. Gonadal PGCs (gPGCs) also exhibited sex-biased expression, and the number of female-biased genes detected was higher than that of male-biased genes. The female-biased genes in gPGCs were enriched in some metabolic processes. To reveal the mechanisms underlying the transcriptional regulation of female-biased genes in gPGCs, we performed stimulation tests. Retinoic acid stimulation of cultured gPGCs derived from male embryos resulted in the upregulation of several female-biased genes. Overall, our results suggest that sex determination in avian PGCs involves aspects of both cell-autonomous and somatic-cell regulation. Moreover, it appears that sex determination occurs earlier in females than in males.
The effect of reinforcement on the mechanical properties of veneered wood fiber/polypropylene composites assembled with chlorinated polypropylene
Authors: Liu Yinan , Chen Feng , Ni Xiaohui , Xia Xinghua 
Published: August 2022

AbstractWood fiber/polypropylene (WF/PP) composites are environmentally friendly materials with high dimensional stability and mechanical properties. However, the applications of WF/PP composites are limited by an unattractive surface texture. In this study, the WF/PP composites were decorated with poplar wood veneer using chlorinated polypropylene (CPP) as a hot melt adhesive, the bonding strength is over 1.18 MPa. Surface bonding strength tests and scanning electron microscopy (SEM) were performed to analyze the quality of the CPP bonding layer. The physical and mechanical properties of the veneered WF/PP boards and unveneered controls were examined to determine the effects of reinforcement. The result shows that after veneered the tension strength and modulus of the whole composite board were increased over 30% and 10%; the flexural strength and modulus were increased over 10% and 20%. Low-velocity impact testing was performed to determine the impact resistance properties of the composites. Higher ratios of wood fiber in the WF/PP composite led to a higher surface bonding strength, which was evident in the SEM images. Wood veneer decoration increased the mechanical strength of the whole composite board. A tighter bond along the CPP layer would provide additional reinforcement of the veneered composite’s mechanical properties.
Transcriptome analysis of halophyte Nitraria tangutorum reveals multiple mechanisms to enhance salt resistance
Authors: Wang Lirong , Du Meng , Wang Bo , Duan Huirong , Zhang Benyin , Wang Dong , Li Yi , Wang Jiuli 
Published: August 2022

AbstractAs a typical halophyte, Nitraria tangutorum Bobr. has attracted the interest of many researchers with the excellent salt tolerance. Elucidation of the mechanism of N. tangutorum salinity tolerance will facilitate the genetic improvement of productive plants faced with salinity. To reveal the molecular response to gradually accumulated salt stress in N. tangutorum, RNA-sequencing and analysis of gradually accumulated NaCl treated samples and control samples were performed, and a total of 1419 differentially expressed genes were identified, including 949 down-regulated genes and 470 up-regulated genes. Detailed analysis uncovered that the catabolism of organic compounds mainly based on oxidative phosphorylation genes was up-regulated. Additionally, various antioxidant genes, especially anthocyanin-related genes, were found to help N. tangutorum remove reactive oxygen species. Moreover, the Mitogen activated protein kinase signaling pathway and other signaling pathways co-regulated various salt tolerance activities. Additionally, intracellular ion homeostasis was maintained via regulation of osmotic regulator-related genes, cutin-related genes, and cell elongation-related genes to retain cellular water and reduce ion concentration. In particularly, simultaneous up-regulation in cytoskeleton-related genes, cell wall-related genes, and auxin-related genes, provided evidence of important role of cell expansion in plant salt tolerance. In conclusion, complex regulatory mechanisms modulated by multiple genes might contribute to the salt tolerance by N. tangutorum.
Predictors of psychological stress and behavioural diversity among captive red panda in Indian zoos and their implications for global captive management
Authors: Sohel Khan Aamer , Lea Stephen E. G. , Chand Piar , Rai Upashna , Baskaran Nagarajan 
Published: August 2022

AbstractAt high elevations, biodiversity is at elevated risk from extinctions due to rapid environmental changes. In the most of its range in Himalayas, the red panda, an endangered species, is struggling to survive in the wild, and a global captive breeding programme has been launched to conserve the species. Because captivity can have negative impacts on animals, reducing the chance of successful reintroduction, we investigated the predictors of stereotyped behaviour and behavioural diversity of red panda (n = 26), and the effect of stereotypy on their behavioural diversity in three Indian zoos. Multivariate analysis showed that stereotypy increased with density of logs on the ground, age and higher among pandas in zoo 3 compared to zoo 2, but decreased with number of nests, sociality, tree density and tree height used. Similarly, behavioural diversity increased with log density, but decreased among pandas in zoo 2 compared to zoo 1, during summer compared to winter, and also with ambient temperature, stereotypy, tree density, and tree height used. The relationship between stereotypy and behavioural diversity was negative, but not significant. Provision of a greater density of trees was associated with higher levels of daytime inactivity. Findings from this study have global relevance, as the captive red panda experiences similar welfare issues around the world, and our data provide empirical support for some existing guidelines for red panda husbandry.
Reliability and accuracy of dental MRI for measuring root canal length of incisors and canines: a clinical pilot study
Authors: Zidan Mousa , Schwindling Franz S. , Juerchott Alexander , Mente Johannes , Nittka Mathias , Hosseini Zahra , Heiland Sabine , Bendszus Martin , Hilgenfeld Tim 
Published: August 2022

AbstractTo evaluate whether high-resolution, non-contrast-enhanced dental MRI (dMRI) can reliably and accurately measure the canal length of incisors and canines compared with cone-beam computed tomography (CBCT). Three-Tesla dMRI was performed in 31 participants (mean age: 50.1 ± 14.2 years) with CBCT data. In total, 67 teeth were included (28 from the upper jaw and 39 from the lower jaw; 25 central incisors, 22 lateral incisors, and 20 canines). CBCT and dMRI datasets were reconstructed to visualize the root canal pathway in a single slice in the vestibulo-oral (V-O) and mesio-distal (M-D) direction. Root canal length was measured twice by two radiologists using dMRI and CBCT. Data were statistically analyzed by calculating intraclass correlation coefficients (ICCs) and performing Bland–Altman analysis. The reliability of dMRI measurements was excellent and comparable to that of CBCT measurements (intra-rater I/intra-rater II/inter-rater was 0.990/0.965/0.951 for dMRI vs. 0.990/0.994/0.992 for CBCT in the M-D direction and 0.991/0.956/0.967 for dMRI vs. 0.998/0.994/0.996 for CBCT in the V-O direction). According to Bland–Altman analysis, the mean (95% confidence interval) underestimation of root canal lengths was 0.67 mm (− 1.22 to 2.57) for dMRI and 0.87 mm (− 0.29 to 2.04) for CBCT in the M-D direction/V-O direction. In 92.5% of cases, dMRI measurements of canal length had an accuracy within 0–2 mm. Visualization and measurement of canal length in vivo using dMRI is feasible. The reliability of dMRI measurements was high and comparable to that of CBCT measurements. However, the spatial and temporal resolution of dMRI is lower than that of CBCT, which means dMRI measurements are less accurate than CBCT measurements. This means dMRI is currently unsuitable for measuring canal length in clinical practice.
Genomic data is missing for many highly invasive species, restricting our preparedness for escalating incursion rates
Authors: Matheson Paige , McGaughran Angela 
Published: August 2022

AbstractBiological invasions drive environmental change, potentially threatening native biodiversity, human health, and global economies. Population genomics is an increasingly popular tool in invasion biology, improving accuracy and providing new insights into the genetic factors that underpin invasion success compared to research based on a small number of genetic loci. We examine the extent to which population genomic resources, including reference genomes, have been used or are available for invasive species research. We find that 82% of species on the International Union for Conservation of Nature “100 Worst Invasive Alien Species” list have been studied using some form of population genetic data, but just 32% of these species have been studied using population genomic data. Further, 55% of the list’s species lack a reference genome. With incursion rates escalating globally, understanding how genome-driven processes facilitate invasion is critical, but despite a promising trend of increasing uptake, “invasion genomics” is still in its infancy. We discuss how population genomic data can enhance our understanding of biological invasion and inform proactive detection and management of invasive species, and we call for more research that specifically targets this area.