bluuebunny/crossref_metadata_2025 huggingface dataset:
Effects of UVA on Flavonol Accumulation in Ginkgo biloba
Authors: Zhao Qun , Wang Zheng , Wang Gaiping , Cao Fuliang , Yang Xiaoming , Zhao Huiqin , Zhai Jinting
Published: May 2024

Ginkgo is an economic tree species with high medicinal value, and flavonols are its main medicinal components. This research was conducted to investigate the molecular mechanism underlying the influence of Ultraviolet A (UVA) treatment on the synthesis of ginkgo flavonols with the aim of increasing their content. Ginkgo full-sib hybrid offspring were used as test materials. The phenylalanine ammonialyase (PAL), cinnamate 4-hydroxylase (C4H), and 4-coumarate: CoA ligase (4CL) enzyme activities, as well as flavonol contents, were measured under the same intensity of white light (300 μmol·m−2·s−1) with the addition of 20, 40, and 60 μmol·m−2·s−1 UVA separately after 20 days of treatment. The control check (CK) and treatment with the highest flavonol content were chosen for transcriptome sequencing analysis. The results showed that the PAL, C4H, and 4CL enzyme activities, as well as the flavonol and totalflavonol glycoside contents, of ginkgo hybrid progeny differed significantly under different UVA treatments. They showed a tendency to increase and then decrease, reaching a maximum value under UVA-4 (40 μmol·m−2·s−1 ultraviolet UVA light intensity) treatment. Ribonucleic acid (RNA) sequencing revealed the presence of 4165 genes with differential expression, and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis revealed that the metabolic pathways commonly enriched across all four comparison groups included ‘phenylpropanoid biosynthesis’, while the pathways commonly enriched in green-leaf ginkgo UVA-4 treatment (TL), yellow-leaf ginkgo mutant CK treatment (CKY), and green-leaf ginkgo CK treatment (CKL) were related to ‘flavonoid biosynthesis’. Treatment with UVA light led to the increased expression of PAL and 4CL enzymes in the phenylpropanoid biosynthesis pathway, as well as increased expression of chalcone synthase (CHS), Flavanone 3-hydroxylase (F3H), and flavonol synthase (FLS) enzymes in the flavonoid biosynthesis pathway, thereby promoting the synthesis of ginkgo flavonols. In summary, the use of 40 μmol·m−2·s−1 UVA treatment for 20 days significantly increased the flavonol content and the expression of related enzyme genes in ginkgo hybrid offspring, enhancing ginkgo flavonoids and increasing the medicinal value of ginkgo.
Enhanced Learning and Memory in Patients with CRB1 Retinopathy
Authors: Wright Genevieve A. , Rodriguez-Martinez Ana Catalina , Conn Hanne , Matarin Mar , Thompson Pamela , Moore Anthony T. , Ba-Abbad Rola , Webster Andrew R. , Moosajee Mariya
Published: May 2024

Mutations in the CRB1 gene are associated with a diverse spectrum of retinopathies with phenotypic variability causing severe visual impairment. The CRB1 gene has a role in retinal development and is expressed in the cerebral cortex and hippocampus, but its role in cognition has not been described before. This study compares cognitive function in CRB1 retinopathy individuals with subjects with other retinopathies and the normal population. Methods: Neuropsychological tests of cognitive function were used to test individuals with CRB1 and non-CRB1 retinopathies and compare results with a standardised normative dataset. Results: CRB1 retinopathy subjects significantly outperformed those with non-CRB1 retinopathy in list learning tasks of immediate (p = 0.001) and delayed memory (p = 0.007), tests of semantic verbal fluency (p = 0.017), verbal IQ digit span subtest (p = 0.037), and estimation test of higher execution function (p = 0.020) but not in the remaining tests of cognitive function (p > 0.05). CRB1 retinopathy subjects scored significantly higher than the normal population in all areas of memory testing (p < 0.05) and overall verbal IQ tests (p = 0.0012). Non-CRB1 retinopathy subjects scored significantly higher than the normal population in story recall, verbal fluency, and overall verbal IQ tests (p = 0.0016). Conclusions: Subjects with CRB1 retinopathy may have enhanced cognitive function in areas of memory and learning. Further work is required to understand the role of CRB1 in cognition.
Prenatal Diagnosis of Cystic Fibrosis by Celocentesis
Authors: Giambona Antonino , Vinciguerra Margherita , Leto Filippo , Cassarà Filippo , Marchese Giuseppe , Cigna Valentina , Orlandi Emanuela , Mugavero Maria Elena , Cucinella Gaspare , Maggio Aurelio , Termini Lisa , Makrydimas George , D’Alcamo Elena , Picciotto Francesco
Published: May 2024

Celocentesis is a new sampling tool for prenatal diagnosis available from 7 weeks in case of couples at risk for genetic diseases. In this study, we reported the feasibility of earlier prenatal diagnosis by celocentesis in four cases of cystic fibrosis and one case of cystic fibrosis and β-thalassemia co-inherited in the same fetus. Celomic fluids were aspired from the celomic cavity between 8+2 and 9+3 weeks of gestation and fetal cells were picked up by micromanipulator. Maternal DNA contamination was tested and target regions of fetal DNA containing parental pathogenetic variants of CFTR and HBB genes were amplified and sequenced. Four of the five fetuses resulted as being affected by cystic fibrosis and, in all cases, the women decided to interrupt the pregnancy. In the other case, the fetus presented a healthy carrier of cystic fibrosis. The results were confirmed in three cases on placental tissue. In one case, no abortive tissue was obtained. In the last case, the woman refused the prenatal diagnosis to confirm the celocentesis data; the pregnancy is ongoing without complications. This procedure provides prenatal diagnosis of monogenic diseases at least four weeks earlier than traditional procedures, reducing the anxiety of patients and providing the option for medical termination of the affected fetus at 8–10 weeks of gestation, which is less traumatic and safer than surgical termination in the second trimester.
C2c: Predicting Micro-C from Hi-C
Authors: Zhu Hao , Liu Tong , Wang Zheng
Published: May 2024

Motivation: High-resolution Hi-C data, capable of detecting chromatin features below the level of Topologically Associating Domains (TADs), significantly enhance our understanding of gene regulation. Micro-C, a variant of Hi-C incorporating a micrococcal nuclease (MNase) digestion step to examine interactions between nucleosome pairs, has been developed to overcome the resolution limitations of Hi-C. However, Micro-C experiments pose greater technical challenges compared to Hi-C, owing to the need for precise MNase digestion control and higher-resolution sequencing. Therefore, developing computational methods to derive Micro-C data from existing Hi-C datasets could lead to better usage of a large amount of existing Hi-C data in the scientific community and cost savings. Results: We developed C2c (“high” or upper case C to “micro” or lower case c), a computational tool based on a residual neural network to learn the mapping between Hi-C and Micro-C contact matrices and then predict Micro-C contact matrices based on Hi-C contact matrices. Our evaluation results show that the predicted Micro-C contact matrices reveal more chromatin loops than the input Hi-C contact matrices, and more of the loops detected from predicted Micro-C match the promoter–enhancer interactions. Furthermore, we found that the mutual loops from real and predicted Micro-C better match the ChIA-PET data compared to Hi-C and real Micro-C loops, and the predicted Micro-C leads to more TAD-boundaries detected compared to the Hi-C data. The website URL of C2c can be found in the Data Availability Statement.
Presentation of Rare Phenotypes Associated with the FKBP10 Gene
Authors: Merkuryeva Elena S. , Markova Tatiana V. , Kenis Vladimir M. , Agranovich Olga E. , Dan Ivan M. , Kotalevskaya Yulia Y. , Shchagina Olga A. , Ryzhkova Oxana P. , Fomenko Sergei S. , Dadali Elena L. , Kutsev Sergey I.
Published: May 2024

Pathogenic variants in the FKBP10 gene lead to a spectrum of rare autosomal recessive phenotypes, including osteogenesis imperfecta (OI) Type XI, Bruck syndrome Type I (BS I), and the congenital arthrogryposis-like phenotype (AG), each with variable clinical manifestations that are crucial for diagnosis. This study analyzed the clinical-genetic characteristics of patients with these conditions, focusing on both known and newly identified FKBP10 variants. We examined data from 15 patients, presenting symptoms of OI and joint contractures. Diagnostic methods included genealogical analysis, clinical assessments, radiography, whole exome sequencing, and direct automated Sanger sequencing. We diagnosed 15 patients with phenotypes due to biallelic FKBP10 variants—4 with OI Type XI, 10 with BS I, and 1 with the AG-like phenotype—demonstrating polymorphism in disease severity. Ten pathogenic FKBP10 variants were identified, including three novel ones, c.1373C>T (p.Pro458Leu), c.21del (p.Pro7fs), and c.831_832insCG (p.Gly278Argfs), and a recurrent variant, c.831dup (p.Gly278Argfs). Variant c.1490G>A (p.Trp497Ter) was found in two unrelated patients, causing OI XI in one and BS I in the other. Additionally, two unrelated patients with BS I and epidermolysis bullosa shared identical homozygous FKBP10 and KRT14 variants. This observation illustrates the diversity of FKBP10-related pathology and the importance of considering the full spectrum of phenotypes in clinical diagnostics.
Concordant Gene Expression and Alternative Splicing Regulation under Abiotic Stresses in Arabidopsis
Authors: Abulfaraj Aala A. , Alshareef Sahar A.
Published: May 2024

The current investigation endeavors to identify differentially expressed alternatively spliced (DAS) genes that exhibit concordant expression with splicing factors (SFs) under diverse multifactorial abiotic stress combinations in Arabidopsis seedlings. SFs serve as the post-transcriptional mechanism governing the spatiotemporal dynamics of gene expression. The different stresses encompass variations in salt concentration, heat, intensive light, and their combinations. Clusters demonstrating consistent expression profiles were surveyed to pinpoint DAS/SF gene pairs exhibiting concordant expression. Through rigorous selection criteria, which incorporate alignment with documented gene functionalities and expression patterns observed in this study, four members of the serine/arginine-rich (SR) gene family were delineated as SFs concordantly expressed with six DAS genes. These regulated SF genes encompass cactin, SR1-like, SR30, and SC35-like. The identified concordantly expressed DAS genes encode diverse proteins such as the 26.5 kDa heat shock protein, chaperone protein DnaJ, potassium channel GORK, calcium-binding EF hand family protein, DEAD-box RNA helicase, and 1-aminocyclopropane-1-carboxylate synthase 6. Among the concordantly expressed DAS/SF gene pairs, SR30/DEAD-box RNA helicase, and SC35-like/1-aminocyclopropane-1-carboxylate synthase 6 emerge as promising candidates, necessitating further examinations to ascertain whether these SFs orchestrate splicing of the respective DAS genes. This study contributes to a deeper comprehension of the varied responses of the splicing machinery to abiotic stresses. Leveraging these DAS/SF associations shows promise for elucidating avenues for augmenting breeding programs aimed at fortifying cultivated plants against heat and intensive light stresses.
Prediction of Protein-DNA Interface Hot Spots Based on Empirical Mode Decomposition and Machine Learning
Authors: Fang Zirui , Li Zixuan , Li Ming , Yue Zhenyu , Li Ke
Published: May 2024

Protein-DNA complex interactivity plays a crucial role in biological activities such as gene expression, modification, replication and transcription. Understanding the physiological significance of protein-DNA binding interfacial hot spots, as well as the development of computational biology, depends on the precise identification of these regions. In this paper, a hot spot prediction method called EC-PDH is proposed. First, we extracted features of these hot spots’ solid solvent-accessible surface area (ASA) and secondary structure, and then the mean, variance, energy and autocorrelation function values of the first three intrinsic modal components (IMFs) of these conventional features were extracted as new features via the empirical modal decomposition algorithm (EMD). A total of 218 dimensional features were obtained. For feature selection, we used the maximum correlation minimum redundancy sequence forward selection method (mRMR-SFS) to obtain an optimal 11-dimensional-feature subset. To address the issue of data imbalance, we used the SMOTE-Tomek algorithm to balance positive and negative samples and finally used cat gradient boosting (CatBoost) to construct our hot spot prediction model for protein-DNA binding interfaces. Our method performs well on the test set, with AUC, MCC and F1 score values of 0.847, 0.543 and 0.772, respectively. After a comparative evaluation, EC-PDH outperforms the existing state-of-the-art methods in identifying hot spots.
Prevalence and Factors Associated with Impaired Maternal–Infant Bonding among Mothers Attending Young Child Clinic in Kampala, Uganda
Authors: Tukamushabe Phionah , Ngabirano Tom Denis , Okonya Joyce Nankumbi , Saftner Melissa A.
Published: May 2024

Impaired maternal–infant bonding can have a negative impact on the mother–infant relationship, affecting the social, emotional, and cognitive development of a child. In Uganda, there is a paucity of literature on impaired maternal–infant bonding. This quantitative, cross-sectional study aimed to determine the prevalence and factors associated with impaired maternal–infant bonding. Postnatal mothers (n = 422) attending the Young Child Clinic at Kawempe National Referral Hospital participated in the study. Maternal–infant bonding was measured using the Postpartum Bonding Questionnaire (PBQ). Participants with a score ≥ 13 on the PBQ were considered to have impaired maternal–infant bonding. The prevalence of impaired maternal–infant bonding among mothers was 45% (190/422). Logistic regression was used to determine factors associated with impaired maternal–infant bonding. Unmarried mothers (AOR = 2.05, 95% [CI = 1.03–4.09], p = 0.041), unplanned pregnancy (AOR = 5.19, 95% [CI = 3.07–8.82], p < 0.001), first-time mothers (AOR = 2.46, 95% [CI = 1.37–4.43], p = 0.003), female infant (AOR = 1.80, 95% [CI = 1.13–2.86], p = 0.013), mothers with no/low education levels (AOR = 2.29, 95% [CI = 1.05–4.50], p = 0.036), and those who delivered post term (AOR = 2.49, 95% [CI = 1.10–5.67], p = 0.028) were more likely to have impaired maternal–infant bonding. Nurses and midwives in postnatal care should include maternal–infant bonding within their client’s assessment and provide supportive mother-centered care. Interventions to improve maternal–infant bonding should be created and implemented in clinical practice.
Erk Inhibition as a Promising Therapeutic Strategy for High IL-8-Secreting and Low SPTAN1-Expressing Colorectal Cancer
Authors: Meier Clara , La Rocca Gianluca , Nawrot Virginia , Fißlthaler Beate , Overby Sarah J. , Hourfar Kai , Plotz Guido , Seidl Christian , Ziegler Paul , Wild Peter , Zeuzem Stefan , Brieger Jürgen , Jäger Elke , Battmann Achim , Brieger Angela
Published: May 2024

Tumor recurrence and drug resistance are responsible for poor prognosis in colorectal cancer (CRC). DNA mismatch repair (MMR) deficiency or elevated interleukin-8 (IL-8) levels are characteristics of CRCs, which have been independently correlated with treatment resistance to common therapies. We recently demonstrated significantly impaired therapeutical response and increased IL-8 release of CRC cell lines with reduced expression of MMR protein MLH1 as well as cytoskeletal non-erythrocytic spectrin alpha II (SPTAN1). In the present study, decreased intratumoral MLH1 and SPTAN1 expression in CRCs could be significantly correlated with enhanced serum IL-8. Furthermore, using stably reduced SPTAN1-expressing SW480, SW620 or HT-29 cell lines, the RAS-mediated RAF/MEK/ERK pathway was analyzed. Here, a close connection between low SPTAN1 expression, increased IL-8 secretion, enhanced extracellular-signal-regulated kinase (ERK) phosphorylation and a mesenchymal phenotype were detected. The inhibition of ERK by U0126 led to a significant reduction in IL-8 secretion, and the combination therapy of U0126 with FOLFOX optimizes the response of corresponding cancer cell lines. Therefore, we hypothesize that the combination therapy of FOLFOX and U0126 may have great potential to improve drug efficacy on this subgroup of CRCs, showing decreased MLH1 and SPTAN1 accompanied with high serum IL-8 in affected patients.
Exploring the DNA Methylation Profile of Genes Associated with Bladder Cancer in Bladder Tissue of Patients with Neurogenic Lower Urinary Tract Dysfunction
Authors: Koukourikis Periklis , Papaioannou Maria , Pervana Stavroula , Apostolidis Apostolos
Published: May 2024

DNA methylation is an epigenetic process that commonly occurs in genes’ promoters and results in the transcriptional silencing of genes. DNA methylation is a frequent event in bladder cancer, participating in tumor initiation and progression. Bladder cancer is a major health issue in patients suffering from neurogenic lower urinary tract dysfunction (NLUTD), although the pathogenetic mechanisms of the disease remain unclear. In this population, bladder cancer is characterized by aggressive histopathology, advanced stage during diagnosis, and high mortality rates. To assess the DNA methylation profiles of five genes’ promoters previously known to be associated with bladder cancer in bladder tissue of NLUTD patients, we conducted a prospective study recruiting NLUTD patients from the neuro-urology unit of a public teaching hospital. Cystoscopy combined with biopsy for bladder cancer screening was performed in all patients following written informed consent being obtained. Quantitative methylation-specific PCR was used to determine the methylation status of RASSF1, RARβ, DAPK, hTERT, and APC genes’ promoters in bladder tissue samples. Twenty-four patients suffering from mixed NLUTD etiology for a median duration of 10 (IQR: 12) years were recruited in this study. DNA hypermethylation was detected in at least one gene of the panel in all tissue samples. RAR-β was hypermethylated in 91.7% samples, RASSF and DAPK were hypermethylated in 83.3% samples, APC 37.5% samples, and TERT in none of the tissue samples. In 45.8% of the samples, three genes of the panel were hypermethylated, in 29.2% four genes were hypermethylated, and in 16.7% and in 8.3% of the samples, two and one gene were hypermethylated, respectively. The number of hypermethylated genes of the panel was significantly associated with recurrent UTIs (p = 0.0048). No other significant association was found between DNA hypermethylation or the number of hypermethylated genes and the clinical characteristics of the patients. Histopathological findings were normal in 8.3% of patients, while chronic inflammation was found in 83.3% of patients and squamous cell metaplasia in 16.7% of patients. In this study, we observed high rates of DNA hypermethylation of genes associated with bladder cancer in NLUTD patients, suggesting an epigenetic field effect and possible risk of bladder cancer development. Recurrent UTIs seem to be associated with increased DNA hypermethylation. Further research is needed to evaluate the impact of recurrent UTIs and chronic inflammation in DNA hypermethylation and bladder cancer etiopathogenesis in NLUTD patients.
Downregulation of hsa-miR-100-5p May Be a Protective Factor in the Early Stages of Nephropathy in Type 1 Diabetes Mellitus
Authors: Pinheiro Andrey Henrique Gama , Pereira Beatriz de Oliveira , Silva Lilian Souza D’Albuquerque , Melo Franciane T. Cunha de , Souza Ana Carolina C. Braga de , Leal Valéria S. Galvão , Figueiredo Priscila B. Barbosa de , Neto João F. Abrahão , Santos Marcia Costa dos , Queiroz Natércia Neves Marques de , Felício Karem Miléo , Ribeiro-dos-Santos Ândrea , Felício João Soares , Cavalcante Giovanna C.
Published: May 2024

Type 1 Diabetes Mellitus (T1DM) can generate severe complications, such as Diabetic Kidney Disease (DKD) or Diabetic Nephropathy (DN), with it emerging as the leading cause of terminal (end-stage) renal disease all over the world. For T1DM, the clinical evaluation of DKD uses markers like the Glomerular Filtration Rate (GFR) and the Urinary Albumin Excretion (UAE). However, early diagnosis of DKD is still a challenge. For this reason, investigating molecular markers, such as microRNAs (miRNAs), offers a promising perspective to an early diagnosis, highlighting the stability and the ability to reflect incipient molecular manifestations. Thus, here we investigated four miRNAs (hsa-let-7i-5p, hsa-miR-143-3p, hsa-miR-501-3p, and hsa-miR-100-5p) regarding nephropathy in patients with T1DM, considering the albuminuria (micro and macro) as a standard to evaluate the groups. As a result, we found a reduced expression of miR-100-5p in patients with MIC, indicating a protective role in nephropathy. Beyond that, expression levels between the groups (Non vs. UAE) were not significant when comparing the miRNAs miR-501-3p and miR-143-3p. Finally, miR-143-3p and miR-100-5p were linked to some target genes such as AKT1, MMP13, and IGF1R, that are connected to signal pathways and cellular metabolism.
Does Salmonella diarizonae 58:r:z53 Isolated from a Mallard Duck Pose a Threat to Human Health?
Authors: Wódz Karolina , Piechowicz Lidia , Tokarska-Pietrzak Ewa , Gawor Jan , Gromadka Robert , Bełkot Zbigniew , Strzałkowska Zuzanna , Wiśniewski Jan , Nowak Tomasz , Bogdan Janusz , Anusz Krzysztof , Pławińska-Czarnak Joanna
Published: May 2024

Salmonella diarizonae (IIIb) is frequently isolated from reptiles and less frequently from birds and mammals. However, its isolation from invasive human infections has not been widely reported. Migratory mallard ducks are excellent bioindicators of pathogen presence and pathogen antibiotic resistance (AMR). We present the first isolation from a mallard duck in central Europe of the antibiotic-resistant Salmonella enterica subsp. diarizonae with the unique antigenic pattern 58:r:z53 and report its whole-genome sequencing, serosequencing, and genotyping, which enabled the prediction of its pathogenicity and comparison with phenotypic AMR. The isolated strain was highly similar to S. diarizonae isolated from humans and food. Twenty-four AMR genes were detected, including those encoding aminoglycoside, fluoroquinolone, macrolide, carbapenem, tetracycline, cephalosporin, nitroimidazole, peptide antibiotic, and disinfecting agent/antiseptic resistance. Six Salmonella pathogenicity islands were found (SPI-1, SPI-2, SPI-3, SPI-5, SPI-9, and SPI-13). An iron transport system was detected in SPI-1 centisome C63PI. Plasmid profile analyses showed three to be present. Sequence mutations in the invA and invF genes were noted, which truncated and elongated the proteins, respectively. The strain also harbored genes encoding type-III secretion-system effector proteins and many virulence factors found in S. diarizonae associated with human infections. This study aims to elucidate the AMR and virulence genes in S. enterica subsp. diarizonae that may most seriously threaten human health.
Antioxidant Enzymes and Their Potential Use in Breast Cancer Treatment
Authors: Vilchis-Landeros María Magdalena , Vázquez-Meza Héctor , Vázquez-Carrada Melissa , Uribe-Ramírez Daniel , Matuz-Mares Deyamira
Published: May 2024

According to the World Health Organization (WHO), breast cancer (BC) is the deadliest and the most common type of cancer worldwide in women. Several factors associated with BC exert their effects by modulating the state of stress. They can induce genetic mutations or alterations in cell growth, encouraging neoplastic development and the production of reactive oxygen species (ROS). ROS are able to activate many signal transduction pathways, producing an inflammatory environment that leads to the suppression of programmed cell death and the promotion of tumor proliferation, angiogenesis, and metastasis; these effects promote the development and progression of malignant neoplasms. However, cells have both non-enzymatic and enzymatic antioxidant systems that protect them by neutralizing the harmful effects of ROS. In this sense, antioxidant enzymes such as superoxide dismutase (SOD), catalase (CAT), glutathione peroxidase (GPx), glutathione reductase (GR), thioredoxin reductase (TrxR), and peroxiredoxin (Prx) protect the body from diseases caused by oxidative damage. In this review, we will discuss mechanisms through which some enzymatic antioxidants inhibit or promote carcinogenesis, as well as the new therapeutic proposals developed to complement traditional treatments.
Long Noncoding RNAs in Diet-Induced Metabolic Diseases
Authors: Brandt Annette , Kopp Florian
Published: May 2024

The prevalence of metabolic diseases, including type 2 diabetes and metabolic dysfunction-associated steatotic liver disease (MASLD), is steadily increasing. Although many risk factors, such as obesity, insulin resistance, or hyperlipidemia, as well as several metabolic gene programs that contribute to the development of metabolic diseases are known, the underlying molecular mechanisms of these processes are still not fully understood. In recent years, it has become evident that not only protein-coding genes, but also noncoding genes, including a class of noncoding transcripts referred to as long noncoding RNAs (lncRNAs), play key roles in diet-induced metabolic disorders. Here, we provide an overview of selected lncRNA genes whose direct involvement in the development of diet-induced metabolic dysfunctions has been experimentally demonstrated in suitable in vivo mouse models. We further summarize and discuss the associated molecular modes of action for each lncRNA in the respective metabolic disease context. This overview provides examples of lncRNAs with well-established functions in diet-induced metabolic diseases, highlighting the need for appropriate in vivo models and rigorous molecular analyses to assign clear biological functions to lncRNAs.
The ArgR-Regulated ADI Pathway Facilitates the Survival of Vibrio fluvialis under Acidic Conditions
Authors: Cheng Qian , Han Yu , Xiao Yue , Li Zhe , Qin Aiping , Ji Saisen , Kan Biao , Liang Weili
Published: May 2024

Vibrio fluvialis is an emerging foodborne pathogenic bacterium that can cause severe cholera-like diarrhea and various extraintestinal infections, posing challenges to public health and food safety worldwide. The arginine deiminase (ADI) pathway plays an important role in bacterial environmental adaptation and pathogenicity. However, the biological functions and regulatory mechanisms of the pathway in V. fluvialis remain unclear. In this study, we demonstrate that L-arginine upregulates the expression of the ADI gene cluster and promotes the growth of V. fluvialis. The ADI gene cluster, which we proved to be comprised of two operons, arcD and arcACB, significantly enhances the survival of V. fluvialis in acidic environments both in vitro (in culture medium and in macrophage) and in vivo (in mice). The mRNA level and reporter gene fusion analyses revealed that ArgR, a transcriptional factor, is necessary for the activation of both arcD and arcACB transcriptions. Bioinformatic analysis predicted the existence of multiple potential ArgR binding sites at the arcD and arcACB promoter regions that were further confirmed by electrophoretic mobility shift assay, DNase I footprinting, or point mutation analyses. Together, our study provides insights into the important role of the ArgR-ADI pathway in the survival of V. fluvialis under acidic conditions and the detailed molecular mechanism. These findings will deepen our understanding of how environmental changes and gene expression interact to facilitate bacterial adaptations and virulence.
Effects of miR-306 Perturbation on Life Parameters in the English Grain Aphid, Sitobion avenae (Homoptera: Aphididae)
Authors: Wu Linyuan , Wei Guohua , Yan Yi , Zhou Xuguo , Zhu Xun , Zhang Yunhui , Li Xiangrui
Published: May 2024

MicroRNAs (miRNA) play a vital role in insects’ growth and development and have significant potential value in pest control. Previously, we identified miR-306 from small RNA libraries within the English grain aphid, Sitobion avenae, a devasting insect pest for wheat. miR-306 not only involves in wing morphogenesis, but also is critically important for aphid survival. Its specific impacts on the life history traits, however, remain unclear. Here, we evaluate the impact of miR-306 perturbation on S. avenae populations using a two-sex life table approach. This comprehensive analysis revealed that miR-306 perturbation significantly prolongs the developmental stages (9.64% and 8.20%) and adult longevity of S. avenae, while decreasing pre-adult survival rate (41.45% and 38.74%) and slightly reducing average fecundity (5.80% and 13.05%). Overall, miR-306 perturbation negatively affects the life table parameters of the aphid population. The population prediction models show a significant decline in the aphid population 60 days post interference, compared to the control groups (98.14% and 97.76%). Our findings highlight the detrimental effects of miR-306 perturbation on S. avenae population growth and suggest potential candidate genes for the development of RNAi-based biopesticides targeted specifically at this pest species.
Identification of an FMNL2 Interactome by Quantitative Mass Spectrometry
Authors: Fox Sarah , Gaudreau-LaPierre Antoine , Reshke Ryan , Podinic Irina , Gibbings Derrick J. , Trinkle-Mulcahy Laura , Copeland John W.
Published: May 2024

Formin Homology Proteins (Formins) are a highly conserved family of cytoskeletal regulatory proteins that participate in a diverse range of cellular processes. FMNL2 is a member of the Diaphanous-Related Formin sub-group, and previous reports suggest FMNL2’s role in filopodia assembly, force generation at lamellipodia, subcellular trafficking, cell–cell junction assembly, and focal adhesion formation. How FMNL2 is recruited to these sites of action is not well understood. To shed light on how FMNL2 activity is partitioned between subcellular locations, we used biotin proximity labeling and proteomic analysis to identify an FMNL2 interactome. The interactome identified known and new FMNL2 interacting proteins with functions related to previously described FMNL2 activities. In addition, our interactome predicts a novel connection between FMNL2 and extracellular vesicle assembly. We show directly that FMNL2 protein is present in exosomes.
Prolonged Response to Afatinib and Crizotinib in a Rare Case of EGFR-, HER2-, MET- and ROS1-Alterated Lung Adenocarcinoma
Authors: Plomer Eva , Früh Martin , Lauber Arno , Demmer Izadora , Jochum Wolfram , Koster Kira-Lee
Published: May 2024

We present the case of a 70-year-old never-smoking female patient with epidermal growth factor receptor (EGFR) p.L858R-mutated metastatic non-small cell lung cancer (NSCLC). After three months of first-line treatment with erlotinib, progression occurred and platinum/pemetrexed was initiated, followed by a response for more than two years. After the progression, the molecular testing of a vertebral metastasis revealed a ROS proto-oncogene 1 (ROS1) translocation and a human epidermal growth factor receptor 2 (HER2) p.S310F mutation, in addition to the known EGFR p.L858R mutation. Crizotinib then led to a durable response of 17 months. The molecular retesting of the tumour cells obtained from the recurrent pleural effusion revealed the absence of the ROS1 translocation, whereas the EGFR and HER2 mutations were still present. Afatinib was added to the crizotinib, and the combination treatment resulted in another durable response of more than two years. The patient died more than 7 years after the initial diagnosis of metastatic NSCLC. This case demonstrates that the repeated molecular testing of metastatic NSCLC may identify new druggable genomic alterations that can impact the patient management and improve the patient outcome.
Advancing Medical Assistance: Developing an Effective Hungarian-Language Medical Chatbot with Artificial Intelligence
Authors: Simon Barbara , Hartveg Ádám , Dénes-Fazakas Lehel , Eigner György , Szilágyi László
Published: May 2024

In recent times, the prevalence of chatbot technology has notably increased, particularly in the realm of medical assistants. However, there is a noticeable absence of medical chatbots that cater to the Hungarian language. Consequently, Hungarian-speaking people currently lack access to an automated system capable of providing assistance with their health-related inquiries or issues. Our research aims to establish a competent medical chatbot assistant that is accessible through both a website and a mobile app. It is crucial to highlight that the project’s objective extends beyond mere linguistic localization; our goal is to develop an official and effectively functioning Hungarian chatbot. The assistant’s task is to answer medical questions, provide health advice, and inform users about health problems and treatments. The chatbot should be able to recognize and interpret user-provided text input and offer accurate and relevant responses using specific algorithms. In our work, we put a lot of emphasis on having steady input so that it can detect all the diseases that the patient is dealing with. Our database consisted of sentences and phrases that a user would type into a chatbot. We assigned health problems to these and then assigned the categories to the corresponding cure. Within the research, we developed a website and mobile app, so that users can easily use the assistant. The app plays a particularly important role for users because it allows them to use the assistant anytime and anywhere, taking advantage of the portability of mobile devices. At the current stage of our research, the precision and validation accuracy of the system is greater than 90%, according to the selected test methods.
Relationship between Image Quality and Reproducibility of Surgical Images in 3D Digital Surgery
Authors: Sakanishi Yoshihito , Usui-Ouchi Ayumi , Morita Shuu , Sakuma Toshiro , Ebihara Nobuyuki
Published: May 2024

Objectives: Ophthalmic three-dimensional (3D) digital surgery can reproduce high-definition surgical images; however, 3D digital surgery is limited by recording capacities. We examined the relationship between the minimum image quality required to reproduce surgical images and recording capacity. Methods: Patients who underwent simultaneous vitrectomy and cataract surgery by the same surgeon using a 3D digital surgery system at Juntendo University Urayasu Hospital between February and October 2021 were evaluated. Various quality (Q) and frame rate (FR) settings were used for each case. Four vitreous surgeons evaluated the reproducibility of recorded images of macular manipulation for epiretinal membrane (ERM) and macular hole (MH) cases and those of peripheral retinal manipulation for rhegmatogenous retinal detachment (RRD) cases. The video bitrate and minimum settings required to reproduce surgical images and factors affecting surgical image reproducibility were examined. Results: A total of 129 eyes of 129 patients were observed. The minimum image quality required to reproduce surgical images was 11.67 Mbps. The Q and FR for periretinal processing and Q for macular manipulation affected surgical image reproducibility (p = 0.025, p = 0.019, and p = 0.07, respectively). The minimum recording settings required to obtain highly reproducible images were Q = 3 and FR = 40. The total file size for vitrectomy video recordings with these settings was as compact as 3.17 GB for 28 min. Conclusions: During 3D digital surgery, highly reproducible surgical images can be obtained with a small storage capacity using settings of at least Q = 3 and FR = 40.
Safety of Antiandrogens for the Treatment of Female Androgenetic Alopecia with Respect to Gynecologic Malignancies
Authors: Seyed Jafari S Morteza , Heidemeyer Kristine , Hunger Robert E. , de Viragh Pierre A.
Published: May 2024

The most common type of alopecia in women is female androgenetic alopecia (FAGA), characterized by progressive hair loss in a patterned distribution. Many oral therapies, including spironolactone (an aldosterone antagonist), androgen receptor blockers (e.g., flutamide/bicalutamide), 5-alpha-reductase inhibitors (e.g., finasteride/dutasteride), and oral contraceptives, target the mechanism of androgen conversion and binding to its respective receptor and therefore could be administered for the treatment of FAGA. Despite significant advances in the oral treatment of FAGA, its management in patients with a history of gynecological malignancies, the most common cancers in women worldwide, may still be a concern. In this review, we focus on the safety of antiandrogens for the treatment of FAGA patients. For this purpose, a targeted literature review was conducted on PubMed, utilizing the relevant search terms. To sum up, spironolactone seems to be safe for the systemic treatment of FAGA, even in high-risk populations. However, a general uncertainty remains regarding the safety of other medications in patients with a history of gynecologic malignancies, and further studies are needed to evaluate their long-term safety in patients with FAGA and risk factors to establish an optimal risk assessment and treatment selection protocol.
Peak-Season Price Adjustments in Shared Accommodation: The Role of Platform-Certified Signals and User-Generated Signals
Authors: Wang Xiangyu , Liu Yipeng , Li Shengli , Wang Haoyu
Published: May 2024

This study investigates the factors influencing landlords’ price adjustments during peak seasons on accommodation-sharing platforms, focusing on the role of platform-certified and user-generated signals. Utilizing a comprehensive dataset of 11,795 observations from a leading Chinese accommodation-sharing platform, we employ binary logit models to investigate how these signals affect landlords’ pricing strategies during “festival” and “weekend” peak times. Our analysis reveals that both platform-certified signals (such as “Preferred House” badges) and user-generated signals (such as customer satisfaction ratings) significantly increase the probability and magnitude of price adjustments during both festival and weekend peak seasons. Specifically, houses with a “Preferred” status are up to 28 times more likely to have price hikes during weekends compared to non-preferred ones. Further analysis reveals that higher levels of landlord professionalism, measured by the number of properties managed, amplifies the impact of user-generated signals on both the probability and magnitude of price adjustments. However, as the level of professionalism increases, this effect diminishes, indicating that highly professional landlords may have less flexibility to adjust prices due to already-high baseline rates. Interestingly, landlord professionalism did not significantly influence the impact of platform-certified signals on price adjustments, suggesting that the influence of such signals remains consistent across different levels of landlord professionalism. These results underscore the significant roles that both types of signals and landlord professionalism play in shaping pricing strategies, offering valuable insights for platform management and policy formulation aimed at enhancing consumer trust and competitive dynamics in the sharing economy.
The Impact of Peri-Implant Diseases on the General Status of Patients with Cardiovascular Diseases: A Literature Review
Authors: Hofer Ana Maria , Dadarlat-Pop Alexandra , Mester Alexandru , Nasui Bogdana Adriana , Popa Monica , Picos Andrei
Published: May 2024

Background and Objectives: The aim of this study is to connect peri-implantitis to cardiovascular diseases, following the association found between periodontitis and cardiovascular conditions in recent years. Materials and Methods: PubMed, Scopus, Web of Science online databases were searched up to June 2023, with the exclusion criteria being research written in a language other than English. The MeSH search items were as follows: [“peri-implant health OR peri-implantitis OR peri-implant mucositis OR peri-implant disease”] AND [“cardiovascular diseases”]. Patient/population (P), intervention (I), comparison (C), outcome (O) framework questions were followed to identify the clinical evidence for the systematic review. Only clinical studies that used a control group to compare the relationship between cardiovascular diseases and peri-implantitis were selected. Results: A total of 118 studies were identified through electronic search of the keywords. After removing duplicates, there were 76 records to be screened. Upon exclusion of ineligible titles and abstracts, 27 studies remained for evaluation. Finally, 23 studies were excluded for not meeting the inclusion criteria, leaving 4 studies to be included in the qualitative analyses. Conclusions: This study found there is a linear association between mucosal/gingival inflammation and carotid intima–media thickness test (c-IMT) values. Peri-implant mucosal inflammation could be a contributor to the vascular disease burden of an individual; further specific clinical studies should be performed in order to demonstrate this connection.
Methyl 6-Benzyl-3-Hydroxy-3,6-Dimethyl-1,2-Dioxane-4-Carboxylate
Authors: Benech Alexandre , Khoumeri Omar , Curti Christophe , Vanelle Patrice
Published: May 2024

Plasmodium falciparum is a fast-evolving parasite responsible for the fatal disease malaria, making it crucial to renew our therapeutic arsenal. Modulating the artemisinin’s endoperoxide pharmacophore is a promising route to synthesizing new antimalarial derivatives. For the first step of our 20 mmol scale synthesis, catalyzed by manganese (III) acetylacetonate, we applied the conditions previously described in the literature to one of our low-yielding asymmetrically disubstituted alkenes, (2-methylallyl)benzene. Under conditions designed for alkyl derivatives, manganese (II) and (III) acetate catalyzed its peroxycyclization with methyl 3-oxobutanoate to a 1,2-dioxane ring in the presence of oxygen from air at room temperature with a 36% yield, while an oxygen atmosphere, as described in the literature, decreased the yield to 7%. Finally, under conditions designed for aryl derivatives, the yield was reduced to 30%, showing that methylallyl derivatives have an intermediate reactivity that needs further optimization to produce 1,2-dioxane ring by manganese catalyzation in good yields. This work characterizes the product obtained and discusses the most suitable reaction conditions.
Merits and Demerits of Machine Learning of Ferroelectric, Flexoelectric, and Electrolytic Properties of Ceramic Materials
Authors: Yasui Kyuichi
Published: May 2024

In the present review, the merits and demerits of machine learning (ML) in materials science are discussed, compared with first principles calculations (PDE (partial differential equations) model) and physical or phenomenological ODE (ordinary differential equations) model calculations. ML is basically a fitting procedure of pre-existing (experimental) data as a function of various factors called descriptors. If excellent descriptors can be selected and the training data contain negligible error, the predictive power of a ML model is relatively high. However, it is currently very difficult for a ML model to predict experimental results beyond the parameter space of the training experimental data. For example, it is pointed out that all-dislocation-ceramics, which could be a new type of solid electrolyte filled with appropriate dislocations for high ionic conductivity without dendrite formation, could not be predicted by ML. The merits and demerits of first principles calculations and physical or phenomenological ODE model calculations are also discussed with some examples of the flexoelectric effect, dielectric constant, and ionic conductivity in solid electrolytes.
Improving Sag Resistance in Geopolymer Coatings Using Diatomite Filler: Effects on Rheological Properties and Early Hydration
Authors: Hu Yuan , Jin Zuquan , Pang Bo , Du Zhantao , Li Xiangxiang , Huang Yuxin
Published: May 2024

The reduction in the rheological parameters and dissolution rate of precursors in geopolymer coatings during early hydration significantly contributes to sagging. This study aims to improve the sag resistance of these coatings by incorporating diatomite filler. Rheological testing was conducted to assess the impact of diatomite and its concentration on the yield stress, plastic viscosity, and thixotropy of the geopolymer coatings. The results indicated that diatomite’s large specific surface area and high reactivity have a significant influence on the rheological parameters and early dissolution rate of precursors. With a diatomite concentration of 1.1%, the coating exhibited a yield stress of 2.749 Pa and a plastic viscosity of 0.921 Pa·s, maintaining stability, homogeneity, and no sagging at a thickness of 600 μm. Furthermore, the highly active SiO2 in diatomite participates in the secondary hydration reaction of the geopolymer materials led to the formation of substantial C-(A)-S-H gel. This gel enhances internal interconnectivity within the coating, thereby improving its rheological and mechanical properties.
Research on Evolution of Relevant Defects in Heavily Mg-Doped GaN by H Ion Implantation Followed by Thermal Annealing
Authors: Jiang Zonglin , Yan Dan , Zhang Ning , Wang Junxi , Wei Xuecheng
Published: May 2024

This study focuses on the heavily Mg-doped GaN in which the passivation effect of hydrogen and the compensation effect of nitrogen vacancies (VN) impede its further development. To investigate those two factors, H ion implantation followed by thermal annealing was performed on the material. The evolution of relevant defects (H and VN) was revealed, and their distinct behaviors during thermal annealing were compared between different atmospheres (N2/NH3). The concentration of H and its associated yellow luminescence (YL) band intensity decrease as the thermal annealing temperature rises, regardless of the atmosphere being N2 or NH3. However, during thermal annealing in NH3, the decrease in H concentration is notably faster compared to N2. Furthermore, a distinct trend is observed in the behavior of the blue luminescence (BL) band under N2 and NH3. Through a comprehensive analysis of surface properties, we deduce that the decomposition of NH3 during thermal annealing not only promotes the out-diffusion of H ions from the material, but also facilitates the repair of VN on the surface of heavily Mg-doped GaN. This research could provide crucial insights into the post-growth process of heavily Mg-doped GaN.
Bead-Containing Superhydrophobic Nanofiber Membrane for Membrane Distillation
Authors: Talukder Md Eman , Talukder Md. Romon , Pervez Md. Nahid , Song Hongchen , Naddeo Vincenzo
Published: May 2024

This study introduces an innovative approach to enhancing membrane distillation (MD) performance by developing bead-containing superhydrophobic sulfonated polyethersulfone (SPES) nanofibers with S-MWCNTs. By leveraging SPES’s inherent hydrophobicity and thermal stability, combined with a nanostructured fibrous configuration, we engineered beads designed to optimize the MD process for water purification applications. Here, oxidized hydrophobic S-MWCNTs were dispersed in a SPES solution at concentrations of 0.5% and 1.0% by weight. These bead membranes are fabricated using a novel electrospinning technique, followed by a post-treatment with the hydrophobic polyfluorinated grafting agent to augment nanofiber membrane surface properties, thereby achieving superhydrophobicity with a water contact angle (WCA) of 145 ± 2° and a higher surface roughness of 512 nm. The enhanced membrane demonstrated a water flux of 87.3 Lm−2 h−1 and achieved nearly 99% salt rejection efficiency at room temperature, using a 3 wt% sodium chloride (NaCl) solution as the feed. The results highlight the potential of superhydrophobic SPES nanofiber beads in revolutionizing MD technology, offering a scalable, efficient, and robust membrane for salt rejection.