Browse Articles

Habitat suitability mapping and landscape connectivity analysis to predict African swine fever spread in wild boar populations: A focus on Northern Italy

African swine fever (ASF) is a highly contagious disease affecting wild and domestic pigs, characterised by severe haemorrhagic symptoms and high mortality rates. Originally confined to Sub-Saharan Africa, ASF virus genotype II has spread to Europe since 2014, mainly affecting Eastern Europe, and progressing through wild boar migrations and human action. In January 2022, the first case of ASF, due to genotype II, was reported in North-western Italy, in a wild boar carcass. Thereafter, numerous positive wild boars were identified, indicating an expanding wild epidemic, severely threatening Italian pig farming and trade. This study focused on the mapping of the suitable habitats for wild boars and their potential dispersal corridors in Northern Italy, using species distribution models and landscape connectivity analysis. The resulting maps identified areas with higher likelihood of wild boar presence, highlighting their preferential pathways crossing Northern Italy. The distribution of ASF positive wild boars along the major corridors predicted by the model suggests the obtained maps as valuable support to decision-makers to improve ASF surveillance and carcass early detection, aiming for eradication. The applied framework can be easily replicated in other regions and countries.

Genetic influence on choroidal vascularity index

Purpose To investigate the heritability of genetic influence on macular choroidal vascularity index (CVI). Methods Total choroidal area (TCA), luminal area (LA), and CVI was measured using horizontal scan of spectral-domain optical coherence tomography with enhanced depth imaging in the 373 healthy twin participants. Characteristics of the participants were investigated, including age, sex, axial length, hypertension, diabetes, drinking habits, and smoking status. Univariate and subsequent multivariate regression analyses were performed to evaluate the associations of these factors with TCA, LA, and CVI. Results Patients who were older and had a higher intraocular pressure, higher diastolic blood pressure, and lower pulse pressure showed associations with lower CVI (p<0.001, p = 0.014, p = 0.005, and p = 0.015, respectively). The covariate-adjusted heritability (±standard error) of the CVI was 0.716 ± 0.091, and the heritabilities of the TCA and LA were 0.691 ± 0.089 and 0.634 ± 0.100, respectively. Conclusion The TCA, LA, and CVI are highly heritable.

Correction: Attributable risk factors for asymptomatic malaria and anaemia and their association with cognitive and psychomotor functions in schoolchildren of north-eastern Tanzania

Relationship between secondary metabolites and ecological suitability zones for Eucommia ulmoides

The quality of Chinese medicinal materials is closely related to the types and contents of their secondary metabolites, while ecological adaptability influences the production of secondary metabolites. Therefore, identifying the relationship between ecological adaptability and secondary metabolites is important for enhancing the quality of Chinese medicinal materials. In this study, we collected 10-year-old Cortex Eucommiae (Eucommia ulmoides, EU) samples from 21 plots in eight provinces which are the primary production areas of EU in central China. We used the MaxEnt model to determine the ecological suitability zones for EU at the 21 sampling sites and classified them accordingly. The contents of six pharmacologically active secondary metabolites, including chlorogenic acid, aucubin, geniposidic acid, geniposide, pinoresinol monoglucoside, and pinoresinol diglucoside were measured in the EU bark. The results demonstrated significant variations in the content of the six secondary metabolites in EU bark among different sampling sites. Correlation analysis indicated a close relationship between the content of chlorogenic acid and aucubin in EU bark and the ecological suitability of their respective production areas. The total content of the six secondary metabolites also showed good consistency with the ecological suitability of the production areas. Exploratory factor analysis further revealed a strong consistency between the factor analysis comprehensive scores based on the content of major secondary metabolites and the types of suitability zones at the sample locations. The cluster analysis results demonstrated good consistency between clustering groups and ecological suitability zone groups, with higher consistency as the suitability level of the ecological zone increased. This indicated a significant impact of suitable ecological environments on the content of EU secondary metabolites.

Investigating the miRNA-mRNA interactome of human trabecular meshwork cells treated with TGF-β1 provides insights into the pathogenesis of pseudoexfoliation glaucoma

Pseudoexfoliation glaucoma is a severe form of secondary open angle glaucoma and is associated with activation of the TGF-β pathway by TGF-β1. MicroRNAs (miRNAs) are small non-coding RNA species that are involved in regulation of mRNA expression and translation. To investigate what glaucomatous changes occur in the trabecular meshwork and how these changes may be regulated by miRNAs, we performed a bioinformatics analysis resulting in a miRNA-mRNA interactome. Primary human trabecular meshwork cells originating from normal donors were treated with TGF-β1 at 5 ng/mL for 24h; total RNA was extracted followed by RNA-Seq and miRNA-Seq. For both mRNA and miRNA species, differential expression was determined using a bioinformatics pipeline consisting of FastQC, STAR, FeatureCounts, edgeR (for miRNA) and DESeq2 (for mRNA). Putative mRNA-miRNA interactions between differentially expressed mRNA and miRNA species were determined using interaction databases miRWalk, miRTarBase, TarBase and TargetScan. To classify mRNA species by function and pathway, gene enrichment was performed using Enrichr. The resulting miRNA-mRNA interactome consisted of 1202 interactions. Some highly connected microRNAs were hsa-let-7e-5p, hsa-miR-20a-5p, hsa-miR-122-5p, and hsa-miR-29c-3p. Most differentially expressed genes were indicated to be regulated by miRNAs. The sub-interactomes of genes involved in specific pseudoexfoliation glaucoma related enrichment terms such as oxidative stress, unfolded protein response, signal molecules and ECM remodelling were determined. This is the first study to present a genome-wide microRNA-mRNA regulatory network for human trabecular meshwork cells treated with TGF-β1 and may serve to generate unbiased hypotheses about regulatory functions and mRNA targets of miRNAs in pseudoexfoliation glaucoma and may help to develop miRNA-based therapeutics.

Why fires spread quickly in modern cities — and how to slow them down

Hearing in categories and speech perception at the “cocktail party”

We aimed to test whether hearing speech in phonetic categories (as opposed to a continuous/gradient fashion) affords benefits to “cocktail party” speech perception. We measured speech perception performance (recognition, localization, and source monitoring) in a simulated 3D cocktail party environment. We manipulated task difficulty by varying the number of additional maskers presented at other spatial locations in the horizontal soundfield (1–4 talkers) and via forward vs. time-reversed maskers, the latter promoting a release from masking. In separate tasks, we measured isolated phoneme categorization using two-alternative forced choice (2AFC) and visual analog scaling (VAS) tasks designed to promote more/less categorical hearing and thus test putative links between categorization and real-world speech-in-noise skills. We first show cocktail party speech recognition accuracy and speed decline with additional competing talkers and amidst forward compared to reverse maskers. Dividing listeners into “discrete” vs. “continuous” categorizers based on their VAS labeling (i.e., whether responses were binary or continuous judgments), we then show the degree of release from masking experienced at the cocktail party is predicted by their degree of categoricity in phoneme labeling and not high-frequency audiometric thresholds; more discrete listeners make less effective use of time-reversal and show less release from masking than their gradient responding peers. Our results suggest a link between speech categorization skills and cocktail party processing, with a gradient (rather than discrete) listening strategy benefiting degraded speech perception. These findings suggest that less flexibility in binning sounds into categories may be one factor that contributes to figure-ground deficits.

Prevalence and genetic diversity of tick-borne encephalitis virus in ixodid ticks from specific regions of northwestern Russia

Russia is a country with a high incidence of tick-borne encephalitis (TBE). In northwestern regions of Russia, 110 TBE cases were registered in 2021. The largest numbers of TBE cases were registered in the Arkhangelsk region and St. Petersburg. TBEV seropositivity among healthy individuals, including the unvaccinated population in northwestern Russia, was found in 12.2% of studied samples, indicating active TBEV circulation. The prevalence of TBEV is 2.4% in the two tick species most common in northwestern regions of Russia, Ixodes ricinus and Ixodes persulcatus. However, there is still no comprehensive data on the molecular characterization and phylogenetic analysis of the circulating TBEV strains. The purpose of the study was to determine the prevalence of TBEV and to identify its subtypes in ixodid ticks collected in specific areas of northwestern Russian regions. Phylogenetic analysis of E protein sequences of ten obtained strains showed that they all belong to the Siberian subtype, which were clustered into two groups: the most numerous Baltic group, clusteron 3D; and the Vasilchenko group. However, some unique isolates may form new clusterons.

Evolution of the Danube River’s islands on the Bulgaria-Romania border over the last century

The border line between Bulgaria and Romania was established a century ago on the Danube River’s thalweg, going around islands. Over time, islands migrated; to avoid conflicts, islands located on the border line are declared neutral territory by both countries and they exit from use. In this context, the paper aims to draw conclusions on the spatial dynamics of the Danube River’s sandy islands along the Bulgaria-Romania border. This approach is mostly a GIS work on various documents over the last century, with interpretations specific to fluvial geomorphology. Our paper showed patterns of evolution of islands. (i) The trajectory of half of the islands can be reconstituted over the last century (i.e., merging with each other and/or migrated). The trajectory of the other half of the islands can be redrawn over the last half of the century. The form and dimensions of islands did not statistically change at any time scale. (ii) At the scale of the last decades, we noticed the slow formation of bars by lee deposition due to sediment excess and then migration of alluvial bars until merging with an island or with the bank, followed by stabilization due to vegetation recruitment. (iii) Islands and their bars migrated on the countries’ border line, but their evolution is slow in time. Our paper invites national authorities to periodically inventory the geomorphological trajectory of islands and bars, but to transfer the decision-making process for stable islands at local scale in order to put them into green use with benefits for local communities.

Enablers and barriers to community pharmacists’ readiness to implement deprescribing of inappropriate medications for older adults in Qatar

There is paucity of studies focused on the enablers and barriers to community pharmacists’ readiness to deprescribe inappropriate medications for older adults in developing settings. The current study assessed the enablers and barriers to community pharmacists’ readiness to implement deprescribing of inappropriate medications for older adults. A cross-sectional survey of 252 community pharmacists was conducted in Qatar with a pre-tested 24-item questionnaire developed with the theory of domain framework. Information about perceived enablers and barriers were elicited with a 5-point Likert-type scale. The response rate was 79.4% (200/252). The majority of the community pharmacists were females (54.5%), within the age range of 20–40 years (88.0%), had BSc / BPharm as the highest educational qualification (70.5%), were full-time employee (97.0%). The top-ranked enablers of community pharmacists’ readiness to implement deprescribing were exposure to CPD on the use of deprescribing toolkits and algorithm (66%), interprofessional collaboration with physicians (60.5%) and shared electronic patient record (59.5%), and improved remuneration / re-imbursement 58%). The top-ranked barriers were lack of access to patient records (70.5%), ineffective collaboration with physicians (66.5%), lack of time due to heavy workload (65%), regulatory framework that limit expansion of clinical roles (51%) and intense focus on sales target (49%). The top-ranked enablers of community pharmacists’ readiness to implement deprescribing were exposure to CPD on the use of deprescribing toolkits and algorithm, interprofessional collaboration with physicians and shared electronic patient record. These findings bode well for the implementation of community pharmacists-led deprescribing of inappropriate medications for older adults in Qatar. However, a number of critical barriers were identified, and these will require institutional, regulatory and organizational interventions to improve readiness.

RNA molecule rejuvenates ageing mice by restoring old cells

Computational analysis of the effect of a binding protein (RbpA) on the dynamics of Mycobacterium tuberculosis RNA polymerase assembly

Background RNA polymerase-binding protein A (RbpA) is an actinomycetes-specific protein crucial for the growth and survival of the pathogen Mycobacterium tuberculosis. Its role is essential and influences the transcription and antibiotic responses. However, the regulatory mechanisms underlying RbpA-mediated transcription remain unknown. In this study, we employed various computational techniques to investigate the role of RbpA in the formation and dynamics of the RNA polymerase complex. Results Our analysis reveals significant structural rearrangements in RNA polymerase happen upon interaction with RbpA. Hotspot residues, crucial amino acids in the RbpA-mediated transcriptional regulation, were identified through our examination. The study elucidates the dynamic behavior within the complex, providing insights into the flexibility and functional dynamics of the RbpA-RNA polymerase interaction. Notably, potential allosteric mechanisms, involving the interface of subunits α1 and α2 were uncovered, shedding light on how RbpA modulates transcriptional activity. Conclusions Finally, potential ligands meant for the α1–α2 binding site were identified through virtual screening. The outcomes of our computational study serve as a foundation for experimental investigations into inhibitors targeting the RbpA-regulated dynamics in RNA polymerase. Overall, this research contributes valuable information for understanding the intricate regulatory networks of RbpA in the context of transcription and suggests potential avenues for the development of RbpA-targeted therapeutics.

Trump’s science advisers: how they could influence his second presidency

An efficient interpretable framework for unsupervised low, very low and extreme birth weight detection

Detecting low birth weight is crucial for early identification of at-risk pregnancies which are associated with significant neonatal and maternal morbidity and mortality risks. This study presents an efficient and interpretable framework for unsupervised detection of low, very low, and extreme birth weights. While traditional approaches to managing class imbalance require labeled data, our study explores the use of unsupervised learning to detect anomalies indicative of low birth weight scenarios. This method is particularly valuable in contexts where labeled data are scarce or labels for the anomaly class are not available, allowing for preliminary insights and detection that can inform further data labeling and more focused supervised learning efforts. We employed fourteen different anomaly detection algorithms and evaluated their performance using Area Under the Receiver Operating Characteristics (AUCROC) and Area Under the Precision-Recall Curve (AUCPR) metrics. Our experiments demonstrated that One Class Support Vector Machine (OCSVM) and Empirical-Cumulative-distribution-based Outlier Detection (ECOD) effectively identified anomalies across different birth weight categories. The OCSVM attained an AUCROC of 0.72 and an AUCPR of 0.0253 for extreme LBW detection, while the ECOD model showed competitive performance with an AUCPR of 0.045 for very low LBW cases. Additionally, a novel feature perturbation technique was introduced to enhance the interpretability of the anomaly detection models by providing insights into the relative importance of various prenatal features. The proposed interpretation methodology is validated by the clinician experts and reveals promise for early intervention strategies and improved neonatal care.

The effect of empathy on remote social connections via paired robots

A range of devices and technologies are available to mediate social connections between geographically distant people. Some of these methods exploit awareness information to enhance the connectedness of distant users. However, the effect of user traits on the experience of interpersonal communication through awareness systems remains unclear. In this study, we explored the relationship between user empathy and the experience of interpersonal communication mediated by a paired robot able to convey user awareness information. We conducted an experiment to facilitate communication among distant family members using the paired robot over the course of 1 week. Participants’ empathy level and their experience of the communication were assessed using questionnaires. The findings indicated that individuals with higher empathy can better interpret their partner’s situation and feelings from the awareness information.

Comprehensive analysis of ceRNA Networks in UCEC: Prognostic and therapeutic implications

Endometrial cancer (UCEC) is the most prevalent gynecological malignancy in high-income countries, and its incidence is rising globally. Although early-stage UCEC can be treated with surgery, advanced cases have a poor prognosis, highlighting the need for effective molecular biomarkers to improve diagnosis and prognosis. In this study, we analyzed mRNA and miRNA sequencing data from UCEC tissues and adjacent non-cancerous tissues from the TCGA database. Differential expression analysis was conducted using the DESeq2 package, identifying differentially expressed lncRNAs, miRNAs, and mRNAs (DElncRNAs, DEmiRNAs, and DEmRNAs). Key molecules were screened using LASSO regression, and a ceRNA network was constructed by predicting lncRNA-miRNA and miRNA-mRNA interaction, which were visualized with Cytoscape. Functional enrichment analysis elucidated the roles and mechanisms of the network. The prognostic potential of the identified RNAs was assessed through survival and Cox regression analyses, while methylation and immune infiltration analyses explored regulatory mechanisms and immune interactions. We identified a prognostic lncRNA-miRNA-mRNA ceRNA network in UCEC, centered on the CDKN2B-AS1-hsa-miR-497-5p-IGF2BP3 axis. Survival analyses confirmed the prognostic significance of this network, with univariate Cox regression demonstrating a strong association between its aberrant expression and overall prognosis in UCEC. However, multivariate Cox regression suggested that other clinical factors may modulate this relationship. Methylation analysis revealed low methylation levels of IGF2BP3, possibly contributing to its overexpression. Furthermore, immune infiltration studies highlighted significant correlations between CDKN2B-AS1, IGF2BP3, and multiple immune cell types, suggesting that this axis regulates the tumor immune microenvironment. These findings suggest that the CDKN2B-AS1-hsa-miR-497-5p-IGF2BP3 axis is a key regulatory element in UCEC and a potential therapeutic target.

Correction: Price tag of glaucoma care is minor compared with the total direct and indirect costs of glaucoma: Results from nationwide survey and register data

Prognostic value of immune biomarkers in melanoma loco-regional metastases

The prognosis for patients with melanoma loco-regional metastases is very heterogenous. Adjuvant PD-L1-inhibitors have improved clinical outcome for this patient group, but the prognostic impact of tumour PD-L1 expression and number of tumour infiltrating lymphocytes (TILs) is still largely unknown. Here, we investigated the impact on survival for CD3, CD8, FOXP3 and PD-L1 TIL counts and tumour PD-L1 expression in melanoma loco-regional metastases. In a patient series of loco-regional metastases from nodular melanomas (n = 78; n = 26 skin metastases, n = 52 lymph node metastases), expression of PD-L1 in tumour cells and the number of CD3, CD8, FOXP3 and PD-L1 positive TILs were determined by immunohistochemistry on tissue microarray (TMA) slides. Due to limited tumour tissue in the paraffin blocks, 67 of the 78 cases were included for tissue microarrays. Low FOXP3 TIL count and negative tumour PD-L1 expression (cut off 1%) were both significantly associated with reduced survival in lymph node metastases. Low FOXP3 TIL count was significantly associated with low CD8, CD3 and PD-L1 TIL counts. Negative tumour PD-L1 expression was significantly associated with low CD8 and PD-L1 TIL count, large lymph node metastasis tumour size and presence of necrosis in lymph node metastases. Our findings demonstrate for the first time the negative prognostic value of low FOXP3 TIL count and confirm a negative prognostic value of negative tumour PD-L1 expression in melanoma lymph node metastases.

Advancing ex vivo functional whole-organ prostate gland model for regeneration and drug screening

Estimating the trend of COVID-19 in Norway by combining multiple surveillance indicators

Estimating the trend of new infections was crucial for monitoring risk and for evaluating strategies and interventions during the COVID-19 pandemic. The pandemic revealed the utility of new data sources and highlighted challenges in interpreting surveillance indicators when changes in disease severity, testing practices or reporting occur. Our study aims to estimate the underlying trend in new COVID-19 infections by combining estimates of growth rates from all available surveillance indicators in Norway. We estimated growth rates by using a negative binomial regression method and aligned the growth rates in time to hospital admissions by maximising correlations. Using a meta-analysis framework, we calculated overall growth rates and reproduction numbers including assessments of the heterogeneity between indicators. We find that the estimated growth rates reached a maximum of 25% per day in March 2020, but afterwards they were between -10% and 10% per day. The correlations between the growth rates estimated from different indicators were between 0.5 and 1.0. Growth rates from indicators based on wastewater, panel and cohort data can give up to 14 days earlier signals of trends compared to hospital admissions, while indicators based on positive lab tests can give signals up to 7 days earlier. Combining estimates of growth rates from multiple surveillance indicators provides a useful description of the COVID-19 pandemic in Norway. This is a powerful technique for a holistic understanding of the trends of new COVID-19 infections and the technique can easily be adapted to new data sources and situations.