Search Results (3,235)

Bifidobacterium adolescentis is prevalent in the gastrointestinal tract of healthy humans, and significantly influences host health. Recent studies have predominantly investigated the probiotic characteristics of individual strains and their specific metabolic roles, whereas analyses at the population genome level have been limited to date. This study conducted a comparative genomics analysis of 543 B. adolescentis genomes to explore genetic background variations and functional gene differences across geographically diverse populations. The results revealed significant differences in genome size and GC content among populations from Asia, Europe, and North America (p < 0.05). The pan-gene exhibited an open structure, reflecting the substantial genetic diversity within B. adolescentis. Functional annotation demonstrated that B. adolescentis possesses numerous protein-coding genes and abundant carbohydrate-active enzymes (CAZys) implicated in carbohydrate degradation and transformation. Population-specific CAZys were identified, suggesting adaptive evolution driven by distinct regional dietary patterns. Full article

To investigate the spatiotemporal evolution characteristics and primary driving factors of Gross Primary Productivity (GPP) on the Qinghai-Tibet Plateau, we employed an enhanced MODIS-PSN model. Utilizing the fifth-generation global climate reanalysis dataset (ECMWF ERA5), we generated GPP remote sensing products by integrating six natural factors. Through correlation analysis and geographical detector modeling, we quantitatively analyzed the spatiotemporal dynamics and key drivers of vegetation GPP across the Qinghai-Tibet Plateau from 2001 to 2022. The results demonstrate that GPP changes across the Qinghai-Tibet Plateau display pronounced spatial heterogeneity. The humid northeastern and southeastern regions exhibit significantly positive change rates, primarily distributed across wetland and forest ecosystems, with a maximum mean annual change rate of 12.40 gC/m²/year. In contrast, the central and southern regions display a decreasing trend, with the minimum change rate reaching −1.61 gC/m²/year, predominantly concentrated in alpine grasslands and desert areas. Vegetation GPP on the Qinghai-Tibet Plateau shows significant correlations with temperature, vapor pressure deficit (VPD), evapotranspiration (ET), leaf area index (LAI), precipitation, and radiation. Among the factors analyzed, LAI demonstrates the strongest explanatory power for spatial variations in vegetation GPP across the Qinghai-Tibet Plateau. The dominant factors influencing vegetation GPP on the Qinghai-Tibet Plateau are LAI, ET, and precipitation. The pairwise interactions between these factors exhibit linear enhancement effects, demonstrating synergistic multifactor interactions. This study systematically analyzed the response mechanisms and variations of vegetation GPP to multiple driving factors across the Qinghai-Tibet Plateau from a spatial heterogeneity perspective. The findings provide both a critical theoretical framework and practical insights for better understanding ecosystem response dynamics and drought conditions on the plateau. Full article

Despite growing global momentum to reduce the number of children who never received a dose of any vaccine, i.e., zero-dose (ZD) children, persistent geographic and social inequities continue to undermine progress toward universal immunization coverage. In Madagascar, where routine vaccination coverage remains below 50% in most regions, the non-governmental organization Doctors for Madagascar and public sector partners are implementing the SOAMEVA program: a targeted community-based initiative to identify and reach ZD children in sixteen underserved districts in the country’s south. This paper outlines the equity-sensitive evaluation design developed to assess the implementation and impact of SOAMEVA. It presents a forward-looking evaluation framework that integrates both quantitative program monitoring and qualitative community insights. By focusing at the fokontany level—the smallest administrative unit in Madagascar—the evaluation captures small-scale variation in ZD prevalence and program reach, allowing for a detailed analysis of disparities often masked in aggregated data. Importantly, the evaluation includes structured feedback loops with community health workers and caregivers, surfacing local knowledge on barriers to immunization access and program adoption. It also tracks real-time adaptations to implementation strategy across diverse contexts, offering insight into how routine immunization programs can be made more responsive, sustainable, and equitable. We propose eight design principles for conducting equity-sensitive evaluation of immunization programs in similar fragile settings. Full article

Honey is a natural product of honeybees that has been consumed for centuries due to its nutritional value and potential health benefits. Recent scientific research has focused on its antioxidant capacity, which is linked to a variety of bioactive compounds such as phenolic acids, enzymes (e.g., glucose oxidase, catalase), flavonoids, ascorbic acid, carotenoids, amino acids, and proteins. Together, these components work synergistically to neutralize free radicals, regulate antioxidant enzyme activity, and reduce oxidative stress. This review decisively outlines the antioxidant effects of honey and presents compelling clinical and experimental evidence supporting its critical role in preventing diseases associated with oxidative stress. Honey stands out for its extensive health benefits, which include robust protection against cardiovascular issues, notable anticancer and anti-inflammatory effects, enhanced glycemic control in diabetes, immune modulation, neuroprotection, and effective wound healing. As a recognized functional food and dietary supplement, honey is essential for the prevention and adjunct treatment of chronic diseases. However, it faces challenges due to variations in composition linked to climatic conditions, geographical and floral sources, as well as hive management practices. The limited number of large-scale clinical trials further underscores the need for more research. Future studies must focus on elucidating honey’s antioxidant mechanisms, standardizing its bioactive compounds, and examining its synergistic effects with other natural antioxidants to fully harness its potential. Full article

Saffron (Crocus sativus L.) is a vegetatively propagated crop of high economic and cultural value, potentially affected by viral infections that may impact its productivity. Despite Iran’s dominance in global saffron production, knowledge of its virome remains limited. In this study, we conducted the first nationwide virome survey of saffron in Iran employing a high-throughput sequencing (HTS) approach on pooled samples obtained from eleven provinces in Iran and one location in Afghanistan. Members of three virus families were detected—Potyviridae (Potyvirus), Solemoviridae (Polerovirus), and Geminiviridae (Mastrevirus)—as well as one satellite from the family Alphasatellitidae (Clecrusatellite). A novel Potyvirus, tentatively named saffron Iran virus (SaIRV) and detected in three provinces, shares less than 68% nucleotide identity with known Potyvirus species, thus meeting the ICTV criteria for designation as a new species. Genetic diversity analyses revealed substantial intrapopulation SNP variation but no clear geographical clustering. Among the two wild Crocus species sampled, only Crocus speciosus harbored turnip mosaic virus. Virome network and phylogenetic analyses confirmed widespread viral circulation likely driven by corm-mediated propagation. Our findings highlight the need for targeted certification programs and biological characterization of key viruses to mitigate potential impacts on saffron yield and quality. Full article

Elucidating the coexistence mechanisms of rapidly diverging species has long been a challenge in evolutionary biology. Genome-wide polymorphic loci are expected to provide insights into the speciation processes of these closely related species. This study focused on seven Chinese sclerophyllous oaks, represented by Quercus spinosa, Quercus aquifolioides, Quercus rehderiana, Quercus guyavifolia, Quercus monimotricha, Quercus semecarpifolia, and Quercus senescens, employing 27,592 single-nucleotide polymorphisms to examine their phylogenetic relationships at the genomic level. Combined with genetic structure analysis, phylogenetic trees revealed that the genetic clustering of individuals was influenced by both geographic distance and ancestral genetic components. Furthermore, this study confirmed the existence of reticulate evolutionary relationships among the species. Frequent gene flow and introgression within the seven species were primarily responsible for the ambiguous interspecies boundaries, with hybridization serving as a major driver of reticulate evolution. Additionally, the seven species exhibited distinct differences in niche occupancy. By reconstructing the climatic adaptability of ancestral taxonomic units, we found that the climatic tolerance of each species displayed differential responses to 19 climatic factors. Consequently, ecological niche differentiation and variations in habitat adaptation contributed to the preservation of species boundaries. This study provides a comprehensive understanding of the speciation processes in rapidly diverging genera and underscores the significance of both genetic and ecological factors in the formation and maintenance of species boundaries. Full article

Global warming and anthropogenic climate change are projected to expand the geographic distribution and population abundance of ectothermic species and exacerbate the biological invasion of exotic species. DNA methylation, as a reversible epigenetic modification, could provide a putative link between the phenotypic plasticity of invasive species and environmental temperature variations. We assessed and interpreted the epigenetic mechanisms of invasive and indigenous species’ differential tolerance to thermal stress through the invasive species Bemisia tabaci Mediterranean (MED) and the indigenous species Bemisia tabaci AsiaII3. We examine their thermal tolerance following exposure to heat and cold stress. We found that MED exhibits higher thermal resistance than AsiaII3 under heat stress. The fluorescence-labeled methylation-sensitive amplified polymorphism (F-MSAP) results proved that the increased thermal tolerance in MED is closely related to DNA methylation changes, other than genetic variation. Furthermore, the quantitative real-time polymerase chain reaction (qRT-PCR) and Western blotting analysis of DNA methyltransferases (Dnmts) suggested that increased expression of Dnmt3 regulates the higher thermal tolerance of female MED adults. A mechanism is revealed whereby DNA methylation enhances thermal tolerance in invasive species. Our results show that the Dnmt-mediated regulation mechanism is particularly significant for understanding invasive species’ successful invasion and rapid adaptation under global warming, providing new potential targets for controlling invasive species worldwide. Full article

The Qinghai-Tibetan Plateau is one of the world’s most prominent biodiversity hotspots. Understanding the spatial patterns of ecological uniqueness in its plant communities is essential for uncovering the mechanisms of community assembly and informing effective conservation strategies. In this study, we analyzed data from 758 plots across 338 sites on the Qinghai-Tibetan Plateau. For each plot, the vegetation type was classified, and all plant species present, along with their respective abundance or coverage, were recorded in the database. To assess overall compositional variation, community β-diversity was quantified, while a plot-level approach was applied to determine the influence of local environmental conditions and community characteristics on ecological uniqueness. We used stepwise multiple regressions, variation partitioning, and structural equation modeling to identify the key drivers of spatial variation in ecological uniqueness. Our results show that (1) local contributions to β-diversity (LCBD) exhibit significant geographic variation—increasing with longitude, decreasing with latitude, and showing a unimodal trend along the elevational gradient; (2) shrubs and trees contribute more to β-diversity than herbaceous species, and LCBD is strongly linked to the proportion of rare species; and (3) community characteristics, including species richness and vegetation coverage, are the main direct drivers of ecological uniqueness, explaining 36.9% of the variance, whereas climate and soil properties exert indirect effects through their interactions. Structural equation modeling further reveals a coordinated influence of soil, climate, and community attributes on LCBD, primarily mediated through soil nutrient availability. These findings provide a theoretical basis for adaptive biodiversity management on the Qinghai-Tibetan Plateau and underscore the conservation value of regions with high ecological uniqueness. Full article

The geographical response of western North Pacific subtropical high (SH) to environmental conditions such as the El Niño-Southern Oscillation (ENSO) and global warming has been one of the main concerns with respect to extreme events induced by tropical convections. By considering observed outgoing longwave radiation (OLR) as the strength of subtropical high, this study attempts to further understand the geographical response of SH strength to ENSO and global warming. Here, “SH strength” is defined as the inhibition of regional convections under SH environment. A meridional seesaw pattern among SH strength anomalies is found at 130°–175° E. In addition, the La Niña environment with weaker convections at lower latitudes is characterized by farther westward expansion of SH but with a weaker strength. Conversely, the El Niño environment with stronger convections at lower latitudes leads to shrunken SH but with a greater strength. The influence of the seesaw mechanism appears to be modulated by global warming. The western North Pacific subtropical high strengthens overall under warming in both the La Niña and El Niño environments. This suggests that the weakening effect by drier tropics is largely offset by anomalous highs induced by a warming atmosphere. It is most remarkable that the highest SH strengths appear in a warmer El Niño environment. The finding implies that every new El Niño environment may experience the driest atmosphere ever in the subtropics under global warming. The value of this study lies in the fact that OLR effectively illustrates how the ENSO variation and global warming bring the zonally undulating strength of boreal-summer SH. Full article

Widespread species may exhibit considerable genetic variation among populations due to their extensive distribution ranges, and may even give rise to new species in remote areas. Integrative species delimitation via multiple types can provide a robust framework for accurate species identification and rapid discovery of cryptic diversity. The subgenus Tliponius (Hemiptera: Coreidae: Homoeocerus) has several species and three broadly distributed species across China. In this study, we selected as many geographical sample sites of widely distributed species as possible and conducted species identification based on integrated taxonomy of morphological, mitochondrial and SNP data for 28 individuals within Tliponius. Our results revealed a cryptic lineage previously subsumed under the polytypic H. unipunctatus in Yunnan Province and described as Homoeocerus (Tliponius) dianensis Liang, Li & Bu sp. nov. The presence of seven distinct species within Tliponius was supported by species delimitation and divided into two clades: (H. dilatatus + (H. marginellus + (H. unipunctatus + H. dianensis sp. nov.))) and (H. yunnanensis + (H. laevilineus + H. marginiventris). Based on our findings, extensive sampling of widespread species is highly important for the accuracy of species delimitation and the discovery of cryptic species. Full article

The spectral variation hypothesis (SVH) posits that the complexity of spectral information in remote sensing imagery can serve as a proxy for regional biodiversity. However, the relationship between spectral diversity (SD) and biodiversity differs for different environmental conditions. Previous SVH studies often overlooked these differences. We utilized species data from field surveys in Inner Mongolia and drone-derived multispectral imagery to establish a quantitative relationship between SD and biodiversity. A geographically weighted regression (GWR) model was used to describe the SD–biodiversity relationship and map the biodiversity indices in different experimental areas in Inner Mongolia, China. Spatial autocorrelation analysis revealed that both SD and biodiversity indices exhibited strong and statistically significant spatial autocorrelation in their distribution patterns. Among all spectral diversity indices, the convex hull area exhibited the best model fit with the Margalef richness index (Margalef), the coefficient of variation showed the strongest predictive performance for species richness (Richness), and the convex hull volume provided the highest explanatory power for Shannon diversity (Shannon). Predictions for Shannon achieved the lowest relative root mean square error (RRMSE = 0.17), indicating the highest predictive accuracy, whereas Richness exhibited systematic underestimation with a higher RRMSE (0.23). Compared to the commonly used linear regression model in SVH studies, the GWR model exhibited a 4.7- to 26.5-fold improvement in goodness-of-fit. Despite the relatively low R² value (≤0.59), the model yields biodiversity predictions that are broadly aligned with field observations. Our approach explicitly considers the spatial heterogeneity of the SD–biodiversity relationship. The GWR model had significantly higher fitting accuracy than the linear regression model, indicating its potential for remote sensing-based biodiversity assessments. Full article

Background: Population persistence for organisms to survive in a world with a rapidly changing climate will require either dispersal to suitable areas, evolutionary adaptation to altered conditions and/or sufficient phenotypic plasticity to withstand it. Given the slow growth and geographically isolated populations of many tree species, there is a high likelihood of local adaption or the acclimation of functional traits in these populations across the UK. Objectives: Given the slow growth and often isolated populations of Tilia cordata (lime tree), we hypothesised that there is a high likelihood of local adaptation or the acclimation of metabolic traits in these populations across the UK. Our aim was to test if the functional metabolomic traits of Tilia cordata (lime tree), collected in situ from natural populations, varied within and between populations and to compare this to neutral allele variation in the population. Methods: We used a metabolic fingerprinting approach to obtain a snapshot of the metabolic status of leaves collected from T. cordata from six populations across the UK. Environmental metadata, longer-term functional traits (specific leaf area) and neutral allelic variation in the population were also measured to assess the plastic capacity and local adaptation of the species. Results: The metabolic fingerprints derived from leaf material collected and fixed in situ from individuals in six populations of T. cordata across its UK range were similar, despite contrasting environmental conditions during sampling. Neutral allele frequencies showed almost no significant group structure, indicating low differentiation between populations. The specific leaf area did vary between sites. Conclusions: The low metabolic variation between UK populations of T. cordata despite contrasting environmental conditions during sampling indicates high levels of phenotypic plasticity. Full article

This paper creates a global similarity network between city-level dialects of English in order to determine whether external factors like the amount of population contact or language contact influence dialect similarity. While previous computational work has focused on external influences that contribute to phonological or lexical similarity, this paper focuses on grammatical variation as operationalized in computational construction grammar. Social media data was used to create comparable English corpora from 256 cities across 13 countries. Each sample is represented using the type frequency of various constructions. These frequency representations are then used to calculate pairwise similarities between city-level dialects; a prediction-based evaluation shows that these similarity values are highly accurate. Linguistic similarity is then compared with four external factors: (i) the amount of air travel between cities, a proxy for population contact, (ii) the difference in the linguistic landscapes of each city, a proxy for language contact, (iii) the geographic distance between cities, and (iv) the presence of political boundaries separating cities. The results show that, while all these factors are significant, the best model relies on language contact and geographic distance. Full article

For effective groundwater resource management, it is essential to model the dynamic behaviour of aquifers in response to rainfall. Here, a methodological approach using a recurrent neural network, specifically a Long Short-Term Memory (LSTM) network, is used to model groundwater levels of the shallow porous aquifer in Southern Italy. This aquifer is recharged by local rainfall, which exhibits minimal variation across the catchment in terms of volume and temporal distribution. To gain a deeper understanding of the complex interactions between precipitation and groundwater levels within the aquifer, we used water level data from six wells. Although these wells were not directly correlated in terms of individual measurements, they were geographically located within the same shallow aquifer and exhibited a similar hydrogeological response. The trained model uses two variables, rainfall and groundwater levels, which are usually easily available. This approach allowed the model, during the training phase, to capture the general relationships and common dynamics present across the different time series of wells. This methodology was employed despite the geographical distinctions between the wells within the aquifer and the variable duration of their observed time series (ranging from 27 to 45 years). The results obtained were significant: the global model, trained with the simultaneous integration of data from all six wells, not only led to superior performance metrics but also highlighted its remarkable generalization capability in representing the hydrogeological system. Full article

Background: Pneumococcal disease is a significant health burden, particularly among older adults and individuals with chronic conditions. Sequential pneumococcal vaccination (PCV13 followed by PPSV23) has been recommended in Italy since 2017 for its demonstrated efficacy, safety, and cost-effectiveness in preventing invasive pneumococcal disease (IPD). Nevertheless, limited data are available on the sequential pneumococcal vaccination coverage in Italy. This study aimed to evaluate the coverage and trends of sequential pneumococcal vaccination among individuals who turned 65 years old within the Viterbo Local Health Authority between 2018 and 2023. Methods: A retrospective cohort study was conducted using data from the Regional Vaccination Registry (AVR), a comprehensive digital vaccination dataset. Vaccination coverage was calculated based on individuals completing the sequential pneumococcal vaccination within two years after turning 65 years old. Trends as well as subgroup variations based on sex, citizenship, district of residence, and municipality size were analyzed. Results: Among 27,657 individuals who turned 65 years of age during the study period, only 2.32% completed the sequential pneumococcal vaccination. Coverage increased steadily from 2018 (0.60%) to a peak in 2020 (3.27%), followed by a plateau and a decline in 2023 (2.53%). Coverage varied across demographic and geographic subgroups: females (2.58%) had higher coverage than males (2.04%), Italian citizens (2.45%) exceeded foreign residents (0.64%), and residents in District C (3.03%) led over District A (1.08%). Smaller municipalities (≤10,000 inhabitants) showed higher coverage (2.52%) than larger ones (1.98%). Conclusions: Adherence to sequential pneumococcal vaccination has been very low throughout the considered study period. This is highly relevant information to consider in the view of new available pneumococcal vaccines for immunization of the elderly. Furthermore, geographic and demographic differences highlight the need for targeted public health interventions. Full article