bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic overlap between Alzheimer's disease and immune-mediated diseases: An atlas of shared genetic determinants and biological convergence
Authors: Fernandes Brisa , Enduru Nitesh , Fernandes Brisa , Bahrami Shahram , Dai Yulin , Andreassen Ole , Zhao Zhongming 
Published: September 2023

Abstract

The occurrence of immune disease comorbidities in Alzheimer’s disease (AD) has been observed in both epidemiological and molecular studies, suggesting a neuroinflammatory basis in AD. However, their shared genetic components have not been systematically studied. Here, we composed an atlas of the shared genetic associations between 11 immune-mediated diseases and AD by analyzing genome-wide association studies (GWAS) summary statistics. Our results unveiled a significant genetic overlap between AD and 11 individual immune-mediated diseases despite negligible genetic correlations, suggesting a complex shared genetic architecture distributed across the genome. The shared loci between AD and immune-mediated diseases implicated several genes, includingGRAMD1B,FUT2,ADAMTS4, HBEGF, WNT3, TSPAN14, DHODH, ABCB9andTNIP1, all of which are protein-coding genes and thus potential drug targets. Top biological pathways enriched with these identified shared genes were related to the immune system and cell adhesion. In addition,in silicosingle-cell analyses showed enrichment of immune and brain cells, including neurons and microglia. In summary, our results suggest a genetic relationship between AD and the 11 immune-mediated diseases, pinpointing the existence of a shared however non-causal genetic basis. These identified protein-coding genes have the potential to serve as a novel path to therapeutic interventions for both AD and immune-mediated diseases and their comorbidities.
Sirt6-mediated cell death associated with Sirt1 suppression in gastric cancer
Authors: Seo Ji Hyun , Ryu Somi , Cheon So Young , Lee Seong-Jun , Won Seong Jun , Yim Chae Dong , Lee Hyun-Jin , Hah Young-Sool , Park Jung Je 
Published: September 2023

Abstract

Background Gastric cancer, one of the leading causes of cancer-related death, is strongly associated with H. pylori infection, although other risk factors have been identified. The sirtuin (Sirt) family is involved in the tumorigenesis of gastric cancer, and sirtuins can have pro-tumorigenic or anti-tumorigenic effects. Methods After determining the overall survival rate of gastric cancer patients with or without Sirt6 expression was determined, the effect of Sirt6 upregulation was also tested using an in vivo xenograft mouse model. The regulation of Sirt6 and Sirt1, leading to the induction of MDM2 and reactive oxygen species (ROS), was mainly analyzed with western blot and immunofluorescence staining, and gastric cancer cell (SNU-638) death associated with these proteins were measured using flow cytometric analysis. Results Sirt6 overexpression lead to Sirt1 suppression of gastric cancer cell, resulted in a higher level of gastric cancer cell death in vitro and a reduced tumor volume in vivo. The ROS and MDM2 expression levels were upregulated by Sirt6 overexpression and/or Sirt1 suppression on western blot analysis. The upregulated ROS ultimately led to gastric cancer cell death on western blot and flow cytometric analysis. Conclusion We found that upregulation of Sirt6 suppressed Sirt1, and Sirt6- and Sirt1-induced gastric cancer cell death was mediated by ROS production. These findings highlight the potential of Sirt6 and Sirt1 as therapeutic targets in gastric cancer.
Temperature and transmission: novel estimates of the effects of temperature on the human malaria parasite, Plasmodium falciparum
Authors: Suh Eunho , Stopard Isaac , Lambert Ben , Waite Jessica , Dennington Nina , Churcher Thomas , Thomas Matthew 
Published: September 2023

Abstract
Malaria transmission is strongly influenced by traits such as mosquito life expectancy, vector competence, and the Extrinsic Incubation Period (EIP, which is the development time of the parasite inside the mosquito). Even though these traits are known to be shaped by environmental temperature and there is considerable concern that climate change could increase disease risk in certain areas, surprisingly these temperature dependencies are poorly characterized. Here, we use a mechanistic model fitted to novel experimental data to describe how Plasmodium falciparum infection of the African malaria vector, Anopheles gambiae, is modulated by temperature, including its influences on parasite establishment, conversion efficiency through parasite developmental stages, EIP and overall competence. We use these data, together with novel estimates of the survival of infected blood-fed mosquitoes, to explore the potential influence of temperature on transmission in four locations in Kenya, considering recent conditions and future climate change. Results provide insights into factors limiting transmission in cooler environments and indicate that increases in malaria transmission efficiency due to climate warming in areas like the Kenyan Highlands, might be less than previously predicted.
Effect of bimaxillary orthognathic surgery on acoustic analysis of vowels
Authors: Yaprak Gazi Kutalmış , KAPUKAYA Rana , Gencel Eyüphan 
Published: September 2023

Abstract
Aim: Bimaxillary orthognathic double chin surgery is performed for therapeutic purposes in patients with occlusion disorders due to dentofacial deformity. We aimed to show the effect of this procedure on sound acoustics.Materials and Methods: The study was planned as retrospective and cross-sectional. Information about patients who applied to our center due to developmental malocclusion between 2018 and 2020 was examined. A total of 26 patients, 13 males and 13 females, who underwent orthognathic double jaw surgery after orthodontic treatment, were included in the study. Vowel (a,e,i,ı,o,ö,u,ü) recordings of the patients were analyzed before the surgery and at the 6th month after the surgery. Sound recordings were taken with the Audacity program (Open Source Software). The recordings were analyzed with the Praat acoustic analysis program. Before and after surgery for each letter; Fundamental frequency, Shimmer, Jitter and Harmony Noise Ratios were examined. Measurements taken before and after surgery were compared.Results: A decrease in fundamental frequency, jitter, shimmer and harmony noise values was detected. This can be interpreted as an increase in sound quality. A statistically significant change was detected in at least two parameters for each letter.Conclusion: Orthognathic double chin surgery performed due to dentofacial deformity provides an increase in the pronunciation of vowels and voice quality. To increase the reliability of the result, acoustic analysis was performed with multiple parameters.
Assessment of chemical and antimicrobial components of artworks attributed to the Costa Rican painter Fausto Pacheco
Authors: Herrera-Sancho Oscar , ROMERO Melania RIVERA , MEJIA Bianca VARELA , CAMPOS Lucia UGALDE , Jaikel-Víquez Daniela , Calderón-Mesén Paula , DELGADO Roberto MARIN , ALVARADO Keilyn URENA , GONZALEZ Alejandra ROJAS , Urcuyo Roberto , CAMPOS Mario CUBERO , Redondo-Solano Mauricio 
Published: September 2023

Abstract
The use of analytical techniques in cultural heritage research represents an amazing multidisciplinary collaboration. In heritage studies, it is important to pay attention to authenticating, dating, and determining the origin of works of art. Three watercolors were analyzed: Paisaje con árbol, Paisaje con casa campesina and El puente, belonging to the collection of the Central Bank of Costa Rica and attributed to the Costa Rican artist Fausto Pacheco Hernández. Employing multispectral imaging and innovative computational tools, we determined the state of conservation and biodeterioration of the works evaluated. By using spectroscopic techniques such as Fiber Optics Reflectance Spectroscopy, X-Ray Fluorescense, Raman and Scanning Electron Microscope-Energy Dispersive X-Ray we identified and compared different pigments in the artworks. By using a multidisciplinary process we determined the creative process of the artist. Based on our results, Paisaje con árbol was the most likely, of the three paintings, to be attributed to the artist, followed by Paisaje con casa campesina and lastly El puente. Finally, we studied the antibacterial and antifungal properties of two of the pigments identified in the paintings (ultramarine blue and yellow ochre). Both the bacterial and fungal isolates were more susceptible to the latter. These kind of studies help to increase the knowledge of the Costa Rican artist and his historical period, providing a better understanding of his creative techniques and palettes, in order to strengthen the database for future works.
Comprehensive allostatic load risk index is associated with increased frontal and left parietal white matter hyperintensities in mid-life cognitively healthy adults
Authors: Buller-Peralta Ingrid , Gregory Sarah , Low Audrey , Dounavi Maria-Eleni , Wells Katie , Ntailianis Georgios , Lawlor Brian , Naci Lorina , Koychev Ivan , Malhotra Paresh , O'Brien John T , Ritchie Craig W , Terrera Graciela Muniz 
Published: September 2023

Abstract
To date, there is a lack of universally agreed values to calculate an Allostatic Load (AL) index and a considerable heterogeneity of methods. In this study we propose a comprehensive algorithm that integrates several approaches and generate risk categories to assess associations between AL and brain structure deterioration. In a cohort of cognitively normal mid-life adults (n = 620, age 51.3 ± 5.48 years), we developed a comprehensive composite for AL scoring incorporating gender and age differences, high quartile approach, up-to-date clinical reference values, and current medications, enabling us to then categorize individuals as no-risk, low-risk, medium-risk and high-risk of AL. Compared to the empirical approach, the comprehensive composite showed better model fit criteria and a strong association with gender. AL categories were regressed against Magnetic Resonance Imaging brain volume and white matter hyperintensity (WMH) measurements. Higher AL risk categories were associated with increased total, periventricular, frontal, and left parietal WMH volumes. This suggests that sustained stress exposure enhances brain deterioration in mid-life adults, potentially accelerating later development of cognitive decline and dementia. Showing better model fit than the classical approaches, our comprehensive algorithm can provide a more accurate AL estimation to explore how stress exposure enhances age-related health decline.
Improving biomass and dendrobine-type totalalkaloid (DTTAs) production of Dendrobium nobile through combining Temporary Immersion Bioreactor system (TIBS) with Endophyte MD33 elicitation
Authors: Cao Yiwen , Qian XU , Yu Tuifan , Jia Qi , Chen Jishuang 
Published: September 2023

Abstract
Dendrobium nobile Lindl. (D.nobile) is a perennial herb of the orchid family and is commonly used in traditional Chinese medicine. Due to the scarcity of D.nobile resources, the market is facing a shortage. To meet market demand, enhance cultivation efficiency, and reduce costs, the temporary immersion bioreactor (TIBS) has been employed for cultivation. The optimal cultivation conditions for D.nobile tissue culture seedlings have been determined through experimental research. These conditions include a liquid medium consisting of 1/2 MS, 30 g/L sucrose, 80 g/L potato, 0.5 mg/L NAA, 60 g/L banana, and a pH of 6.0. The optimal inoculation volume of TIBS per canister was 220 D.nobile seedlings, and the optimal submergence frequency of TIBS was set at 5 min/8 h, and the optimal submergence time was set at 6 min/6 h. In addition, it was observed that its endophytic fungus MD33, had a significant impact on the dendrobine-type total alkaloid (DTTAs) content and plant growth. This study demonstrates that utilizing TIBS for cultivation and co-cultivating with endophytic fungus significantly increased the biomass and bioactivity of D.nobile tissue culture seedlings.
Plant miRNAs in the rhizosphere target microbial genes
Authors: Middleton Harriet , Monard Cécile , Daburon Virginie , Clostres Emmanuel , Dozois Jessica , Tremblay Julien , Yergeau Étienne , Amrani Abdelhak El 
Published: September 2023

Abstract
Background MicroRNAs (miRNAs) are small non-coding RNAs that control target gene expression, through sequence complementarity. Their roles in plants vary from regulating developmental processes to responding to abiotic and biotic stresses. Recently, small RNAs have been shown to play important roles in cross-kingdom communication, notably in plant-pathogen relationships. Plant miRNAs were even shown to regulate gene expression in the gut microbiota. Thus, we hypothesised that the same process happens in the rhizosphere which contributes to shaping plant-associated microbial communities.
Results To explore these questions, we performed small RNA sequencing in search of miRNAs in the rhizosphere of two evolutionarily distant plants, Arabidopsis thaliana and Brachypodium distachyon. This revealed the presence of specific and shared rhizospheric plant miRNAs, which were all absent in unplanted soils. A subset of these miRNAs were also detected inside rhizospheric bacteria, but were missing in bacteria from unplanted soils, suggesting bacterial uptake of surrounding plant miRNAs. Furthermore, an in silicoanalysis indicated potential targets of these rhizospheric miRNAs in plant-associated bacterial genomes. To examine the function of these miRNAs, A. thaliana mutants, affected in their miRNA and/or siRNA (small interfering RNA) biosynthesis, were grown. Their rhizospheric microbial communities were significantly disrupted in comparison with wild-type plants. Additionally, confronting synthetic rhizospheric miRNAs with bacterial cultures resulted in modulation of gene expression, suggesting a functional role of plant miRNAs in regulating microbial activity, in the rhizosphere.
Conclusions This work makes an important contribution to the field of rhizospheric plant-microbe interactions and offers some significant insights into the potential of plant miRNAs for microbiota engineering.
A loss-of-function variant in ZCWPW1 causes human male infertility with sperm head defect and high DNA fragmentation
Authors: Song Yuelin , Guo Juncen , Zhou Yanling , Wei Xingjian , Li Jianlan , Zhang Guohui , Wang Hongjing 
Published: September 2023

Abstract
Background
In about one-third of cases, the genetic causes of asthenozoospermia are unknown. The more causative genes related to human male infertility should be further explored. The essential role of ZCWPW1 in mouse male fertility has been established and the role of ZCWPW1 in human reproduction need further investigation to verify.
Methods
Whole-exome sequencing was conducted to identify causative genes in the infertile man. The phenotype of the asthenozoospermia was determined by Papanicolaou staining, immunofluorescence staining and electron microscope. In-vitro experiments, western blot and in-silicon analysis were applied to assess the pathogenicity of the identified variant. Additionally, we examined the influence of the variant on the DNA fragmentation and DNA repair capability by Sperm Chromatin Dispersion and Neutral Comet Assay.
Results
The spermatozoa of the proband exhibited low quantity, head defects in semen examination, papanicolaou staining and electron microscope. Whole-exome sequencing and sanger sequencing found the proband carried a homozygous ZCWPW1 variant (c.1064C > T, p. P355L). Immunofluorescence analysis showed that a significant decrease of ZCWPW1 expression in proband’s sperm. The obvious declined expression of ZCWPW1 with the mutation was validated in HEK293T. Furthermore, Sperm Chromatin Dispersion assay revealed the proband’s spermatozoa had high DNA fragmentation. After treated by hydroxyurea, MUT-ZCWPW1 transfected cells and empty vector transfected cells had higher level of γ-H2AX and tail DNA than WT-ZCWPW1 transfected cells.
Conclusions
It is the first report that a novel homozygous missense mutation in ZCWPW1 caused human male infertility with sperm head defect and high DNA fragmentation. This finding enriches the gene variant spectrum and etiology of asthenozoospermia.
Topology optimization introducing manual intervention
Authors: Wei Peng , Liu Jinjia , Li Xueping , Su Cheng 
Published: September 2023

Abstract
Topology optimization is an iterative process driven by algorithms from initial to final design, which can provide novel structural forms and is typically used to provide conceptual design. However, in real-life structural design, the intentions of designers, including requirements, specifications and various constraints that are difficult to modelling, are unable to directly introduced to the topology optimization algorithms. Therefore, it often takes a lot of time and even repeated iterations to modify the results of topology optimization, thereby extending the design process and increasing design costs. For this issue, in order to endow designers with the ability to modify intermediate results during iterations and integrate human design intentions with algorithms, this paper proposes a method called Manual Intervention. Our purpose is to provide a pause option for topology optimization process then modify the optimization intermediate results based on the expression of topology shapes (density, level set function, etc.), which is the literal explanation for manual intervention. An interactive interface based on radial basis function parameterized level set method was written on the MATLAB GUIDE platform. We have implemented a design method for interaction between manual intervention and algorithm meanwhile provided a simple case of maximizing stiffness. Furthermore extending the implement to SIMP. The final result shows that this method can effectively handle design requirements which are relatively complex and difficult to express through algorithms to integrate them into the design results. Its method has important potential and provides new ideas for future topology optimization design.
Unveiling the Gut and Flesh Microbiome Signature and Diversity of the Bangladesh National Fish Hilsa (Tenualosa ilisha)
Authors: Hoque M. Nazmul , Kawser A. Q.M. Robiul , Rahman M. Shaminur , Sakif Tahsin Islam , Islam Tofazzal 
Published: September 2023

Abstract
Fish microbiome science is progressing fast, but it is mostly restricted to farmed or laboratory fish species compared to natural or marine fish populations. The aim of this study was to unveil the gut and flesh microbiome signature and diversity of the anadromous fish, Tenualosa ilisha (hilsa), the national fish of Bangladesh. We analysed 18 samples including 15 gut (intestinal contents) and three flesh samples from 18 individual hilsa fishes collected from three major habitats (e.g., freshwater, brackish water and marine water) of hilsa in Bangladesh through 16S rRNA (V3 – V4 region) gene sequencing-based metagenomics. A total of 325 operational taxonomic units (OTUs) including 67 and 258 in flesh and gut samples, respectively were identified. The observed OTUs were represented by six phyla, nine classes, 19 orders, 26 families and 40 genera of bacteria. Our findings revealed substantial taxonomic variability between sample categories (i.e., gut and flesh; p = 0.0127; Kruskal Wallis test), and habitats (freshwater, brackish water, and marine water; (p = 0.007; Kruskal Wallis test) of the hilsa fishes, indicated by their higher degree of shared microbiota. Of the identified genera, Vagococcus, Morganella, Enterobacter, Plesiomonas, Shigella, Clostridium, Klebsiella, Serratia, Aeromonas, Macrococcus, Staphylococcus, Proteus, Hafnia etc. were the major bacterial genera detected in hilsa fish. Importantly, we detected six genera such as Sinobaca, Synechococcus, Gemmata, Serinicoccus, Saccharopolyspora, and Paulinella seem to be specific to the hilsa fishes. Our data provided evidence for the existence of both unique and shared bacteriomes with probiotics potentials in the gut and flesh of hilsa fishes, which might be taken into consideration for undertaking future microbiome study in this economically important fish species.
“Evaluating Quality of Life in Pediatric Palliative Care: A Cross-Sectional Analysis of Children’s and Parents’ Perspectives”.
Authors: Toro-Pérez Daniel , Limonero Joaquin T. , Guillen Montserrat , Bolancé Catalina , Vilarrubí Sergi Navarro , Camprodon-Rosanas Ester 
Published: September 2023

Abstract
The patient's perspective is an essential component of understanding the individual experience of suffering in children with palliative needs, but it is a perspective that is often overlooked. Purpose: the aim of this study was to compare the perception of quality of life (QoL) of children with life-limiting and life-threatening conditions expressed by the children themselves and their parents. Methods: Through a cross-sectional study, the responses of 44 parent-child dyads were obtained and the analysis was performed with the statistics based on Student's t distribution and non-parametric tests. Results: Children value QoL more positively (mean = 6.95, SD = 1.85) than their parents (mean = 5.39, SD = 2.43). This difference exists even if we consider sociodemographic and disease variables. The presence of exacerbated symptoms is the situation in which both parents (mean=3.70; SD=1.95) and children (mean=5.60; SD=1.17) evaluate QoL more negatively. Conclusions: Children have a more optimistic view than their parents When the child is the one who reports a lower QoL score than their parent, we should be carefully monitored. The voice of the child and that of the family members can be collected to create a "family voice" and can be complementary.
Poly(N-vinyl caprolactam-co-maleic anhydride)-grafted cotton gauze with antimicrobial properties for their potential use as wound dressings
Authors: Carrillo-Rodríguez J. C. , Betancourt-Galindo R. , Meléndez-Ortiz H. Ivan , Puente-Urbina B. , Espinosa-Neira R. , Ledezma A. 
Published: September 2023

Abstract
Medical cotton gauzes were modified by grafting poly(N-vinylcaprolactam-co-maleic anhydride) (gauze-g-(PVCL-co-MA)) through free radical polymerization to prepare a novel wound dressing with antimicrobial and drug delivery capabilities. Several gauze-g-(PVCL-co-MA) were synthesized, each with distinct grafting percentages. For characterization, the selected percentages were 23, 40, and 100%, designated as VMG1, VMG2, and VMG3, respectively. Polymer grafting was verified using methods such as Fourier Transform Infrared Spectroscopy (FT-IR), Thermogravimetric analysis (TGA), Scanning Electronic Microscopy (SEM), and swelling studies. The grafted cotton gauzes were loaded with vancomycin and tested as drug-eluting systems, exhibited considerable loading capacity and over 80% release. The antibacterial activity was evaluated against S. aureus (ATCC 29213) according to the Japanese Industrial Standard JIS Z 2801 method. They showed growth inhibition for this microorganism. Moreover, they showed good biocompatibility for the 1132SK and SaOS-2 cell lines. These results suggest that the gauze-g-(PVCL-co-MA) could be used as antimicrobial and drug-eluting wound dressings in the biomedical field.