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Freshwater streams are frequently fragmented by infrastructure that has the potential to alter stream fish assemblage structure. However, separating natural vs anthropogenically derived assemblage structuring mechanisms within fragmented riverscapes can be challenging. Riverscape concepts such as the river continuum concept (RCC), serial discontinuity concept (SDC), and network dynamics hypothesis (NDH) conceptualize the roles of natural and anthropogenic regulators of assemblage structure along longitudinal gradients in streams. Each of these theories approaches the influence of stream continuity and discontinuity differently, and their application to metacommunity ecology might identify natural vs anthropogenic drivers of assemblage structure. Over 3 y, we surveyed fish assemblages and habitat variables from 40 sites along the longitudinal dimension of White Creek, a headwater stream in College Station, Texas, USA, to test theory-based hypotheses regarding the structuring of fish metacommunities. To achieve this goal, we constructed asymmetric eigenvector maps (AEMs) that integrated aspects of the RCC, NDH, and SDC theories and used these AEMs to test 3 hypotheses: (H1) fish species richness increases longitudinally downstream, but fragmentation by road–stream crossings causes repeated disruptions to this increase, as predicted by the SDC; (H2) spatial contexts based on the SDC explain more variation in metacommunity structure compared with RCC, NDH, or a neutral model; and (H3) distinct fish assemblages exist within fragments of stream created by impassable road–stream crossings. Competing generalized additive models based on stream theories indicated the SDC was the top-ranked model for predicting longitudinal increase in species richness, supporting H1. Spatial variables from the theory-integrated AEMs explained more variation in assemblage structure relative to the neutral model (particularly for the SDC model), supporting H2. Assemblage clustering and ordination showed unique assemblage structure in 3 of the 4 fragments, providing partial support for H3. Our results advance the goal of bridging the gap between theory and conservation of stream fishes by indicating that integration of stream ecosystem theories provides insight to the origins of spatial processes that regulate assemblage structure. Moreover, our results highlight that management of fragmented stream ecosystems might benefit from perspectives that frame anthropogenic alterations within the context of the natural architecture of riverscapes. [ABSTRACT FROM AUTHOR]

Species are the most commonly used unit of biogeography research, and in many conservation schemes. For many faunal groups, taxonomy is in a constant state of flux, with new species being described, and our concept of existing species regularly being refined. Using the most diverse lineage of Australian lizards (460+ species), the skinks (Family Scincidae), we quantified the impacts of taxonomic changes over time on our understanding of species richness, endemism and beta diversity. We generated surfaces of species richness, endemism and beta diversity from four editions (1975, 1988, 2000, 2014) of an authoritative field guide to understand how taxonomic shifts, and enhanced biogeographic knowledge, influenced the inferred biogeographic patterns in Australian skinks. The number of recognized Australian skink species has increased 2.3‐fold since 1975. The Wet Tropics was the major hotspot for (mostly locally endemic) species additions. Hotspots of species richness and beta diversity remained broadly similar over time, but some important local hotspots shifted. Endemism hotspots were weakly associated with hotspots of species additions over time except in the Wet Tropics. The major shifts in biogeographic patterns, which were not associated with taxonomic changes, resulted from better knowledge of species distributions through time. We hypothesize that the effects of taxonomy on biogeographic patterns we found generalize across clades and regions—especially away from major research hotspots. We suggest an understanding of the impact of taxonomic changes on conservation priorities for particular regions and taxonomic groups is needed. [ABSTRACT FROM AUTHOR]

Insects are the most diverse group of organisms, but their large number of species and the lack of specialists to study them have made this group particularly vulnerable to the main limitations in biological diversity, such as the Wallacean deficit. This study will contribute to the geographical knowledge of an insect trophic guild that has been widely used as an indicator group, the Scarabaeoidea and Silphidae copro-necrophagous beetles, emphasizing their geographical distribution in two Mexican national parks (Iztaccíhuatl-Popocatepetl and La Malinche) and the intermediate region, which includes sky-island ecosystems in central Mexico. Geographic records of the 32 species that have been previously recorded in the study region were compiled and used to generate potential distribution models aiming to generate potential alpha (species richness) and beta (total beta diversity, nestedness and replacement) diversity maps. The greatest predicted species richness was found between 3,000 and 3,500 m a.s.l. in the study region. Potential species richness ranged from 2 to 24 species. Total beta diversity was low in the study region (mean 0.1), while nestedness was the most important component of beta diversity (0.8). The maximum alpha and beta diversity values were predicted outside the national parks. Consequently, we consider that the studied national parks are not able to protect completely the regional alpha and beta diversities by themselves. Implications for insect conservation: Our results show that the highest alfa and beta diversity values of copro-necrophagous beetles might occur outside the national parks, and a suitable way to protect them could be the Archipelago reserve model as an alternative to protect the regional diversity. [ABSTRACT FROM AUTHOR]

Non-destructive and more effective approaches are needed in the context of monitoring the biodiversity of fish. Accordingly, the emergence of environmental DNA (eDNA) technology provides a valuable and non-invasive means to evaluate fish community diversity in marine ecosystems. In this study, we used eDNA metabarcoding to investigate the species composition and diversity of fish communities in the Xiamen Sea to explore the feasibility of applying this technology toward the characterization of fish diversity in this region. A total of 98 fish species across 16 orders, 52 families, and 77 genera were identified. Most of these species have been previously reported in traditional fishery resource surveys conducted in the Xiamen Sea. Species with relatively high sequence abundance included Johnius belangerii (relative abundance 58.42%), Hemitrygon akajei (11.68%), Monacanthus chinensis (4.99%), Arius sinensis (3.24%), and Solea ovata (2.67%), with J. belangerii present across all 13 stations sampled. The α-diversity indices revealed that the highest levels of fish diversity and evenness were observed at station S4 in the western sea area, while station S7 located at the Jiulong River estuary exhibited the lowest levels. The β-diversity analysis revealed a significant similarity in fish community structure among certain geographically distant stations, such as S4–S6, S8–S10, and S12 and S13. The results of this study suggest that eDNA technology can be employed to detect the composition and diversity of fish species in the Xiamen Sea, holding significant potential for fish biodiversity monitoring and conservation. [ABSTRACT FROM AUTHOR]

Mammal species globally exhibit distribution patterns conditioned by environmental conditions and human impact. The Mediterranean basin provides an ideal system to study these effects due to its diverse climate, and habitat conditions. In this work, we aim to assess the impact of landscape heterogeneity and anthropization degree on terrestrial mammal diversity in this region. Accordingly, we deployed over 300 camera traps across 28 sites for 3 months. Detected mammal species (weighing more than 1kg) were classified as domestic carnivores, domestic ungulates, wild carnivores, wild ungulates, lagomorphs, and large rodents. Alpha and beta diversity were calculated for each group and all wild mammals. Simple linear regressions and multimodal analysis were conducted between mammal diversities and climate, environmental conditions, landscape heterogeneity, and anthropization degree variables. Redundancy analyses were performed to identify variables and species determining the mammalian community composition. Indexes measuring landscape heterogeneity, anthropization degree, and its 30‐year change did not correlate with mammal diversity. However, the difference in elevation within sites and domestic carnivore abundance showed a significant positive correlation with some of the diversity indexes. Nonetheless, rainfall and mean elevation factors generally showed the highest correlation with mammal diversity. Instead, a few influential species, including generalists and open‐habitat specialists, highlighted the importance of conserving open areas, as well as the importance of the Pyrenees region as a key habitat for certain species. Therefore, climatic variables emerged as the key determinants of mammal diversity, highlighting climate change as a potential threat to mammal diversity in this area. [ABSTRACT FROM AUTHOR]

In the present study, a new estimator (α*DMM) is proposed to measure species richness. Its' essential inputs are alfa (α) scale parameters of Margalef (DMG) and Menhinick (DMN) indices. To evaluate the performance of αDMM, both hypothetical and natural community datasets were used. The computations were performed using a spreadsheet program created for αDMM. The new proposed estimator is also integrated into the BİÇEB software. According to estimation results, αDMMseems to be a better form rather than DMG and DMN. Therefore it may be employed for comparing species richness of the natural communities. To better understand the performance of αDMM, further studies should be generated using various types of real ecological data. [ABSTRACT FROM AUTHOR]

Montane oceanic islands possess unique geographic and ecological attributes, rendering them valuable for assessing patterns and drivers of alpha and beta taxonomic, functional, and phylogenetic diversity along elevational gradients. Such comparisons of diversity facets can provide insights into the mechanisms governing community assembly on islands. Herein, we aimed to characterize taxonomic, functional, and phylogenetic bryophyte diversity on Madeira Island within and across areas at varying elevations. We also assessed how these diversity facets for the alpha and beta components relate to ecological and anthropogenic factors. We estimated and compared alpha and beta taxonomic, functional, and phylogenetic diversity using 80 plots of 0.5 m × 0.5 m across the whole elevational gradient of the island. We compiled trait databases and supplemented them with our own observations. Phylogenetic information was sourced from the Moss and Liverwort Tree of Life. To assess the impact of ecological and anthropogenic factors on the three facets, we applied linear mixed‐effects models and generalized dissimilarity models to alpha‐ and beta‐diversity matrices, respectively. All facets of diversity exhibited strong correlations within both mosses and liverworts, indicating a substantial congruence when alpha and beta are analyzed separately. The bryophyte groups categorized by the growth form demonstrated contrasting patterns, aligning with their distinctive ecological requirements. While a mid‐elevation peak emerged as a common pattern across the three facets of alpha diversity, beta diversity often displayed the opposite trend. Although the relative influence of environmental factors varied depending on the diversity facet and bryophyte grouping considered, we found that alpha and beta diversity of bryophytes are more influenced by climatic factors and the predominant type of vegetation than by anthropogenic factors. In the current context of global change, these results should be interpreted with caution, but they point to the resilience of bryophytes to survive in relatively well‐preserved natural microhabitats within anthropogenic landscapes. In this study on Madeira Island, we investigated patterns and drivers of alpha and beta taxonomic, functional, and phylogenetic diversity along elevational gradients. We found that alpha and beta diversity of bryophytes are more strongly influenced by climatic factors and the predominant type of vegetation than by anthropogenic factors. [ABSTRACT FROM AUTHOR]

Reptiles are threatened by anthropogenic landscape transformation, largely due to agriculture. However, ecosystems nowadays constitute a matrix of fragmented landscapes. We analyzed a heterogeneous landscape's reptile taxonomic and functional diversity patterns across ten land cover/use types in Jalisco state, in west-central Mexico. At the alpha diversity level, we assessed the taxonomic diversity using q-order indices, and functional diversity with multidimensional indices (FRic, FDiv, and FEve) by land cover/use. We evaluated the differences in species composition among land cover/use types (beta diversity). We utilized multidimensional distance-based analyses (dbRDA) to evaluate the association between reptile diversity, habitat structure, and environmental variables. Species richness did not correlate with functional richness across land cover types overall, except for riparian habitat surrounded by crops (RH-C), which exhibited higher species richness and functional diversity. Secondary vegetation surrounded by temperate forest (SV-TF), riparian habitat surrounded by tropical dry forest (RH-TDF), and RH-C were the land cover/use types with the most functional groups. Herbaceous cover is crucial for preserving both reptile diversity facets in this landscape. These findings suggest that the availability of resources (e.g., riparian habitat and herbaceous cover) regardless of perturbation level could be more relevant for reptile diversity than the condition (tropical vs. temperate) due to the high plasticity and adaptation of the group. It is essential to recognize the ecological value of these habitats by adopting a holistic approach that values the intrinsic and ecological importance of reptile diversity. [ABSTRACT FROM AUTHOR]

Background: Biodiversity, crucial for understanding ecosystems, encompasses species richness, composition, and distribution. Ecological and environmental factors, such as habitat type, resource availability, and climate conditions, play pivotal roles in shaping species diversity within and among communities, categorized into alpha (within habitat), beta (between habitats), and gamma (total regional) diversity. Hummingbird communities are influenced by habitat, elevation, and seasonality, making them an ideal system for studying these diversities, shedding light on mutualistic community dynamics and conservation strategies. Methods: Over a year-long period, monthly surveys were conducted to record hummingbird species and their visited flowering plants across four habitat types (oak forest, juniper forest, pine forest, and xerophytic shrubland) in Tlaxcala, Mexico. Three locations per habitat type were selected based on conservation status and distance from urban areas. True diversity measures were used to assess alpha, beta, and gamma diversity of hummingbirds and their floral resources. Environmental factors such as altitude and bioclimatic variables were explored for their influence on beta diversity. Results: For flowering plants, gamma diversity encompassed 34 species, with oak forests exhibiting the highest richness, while xerophytic shrublands had the highest alpha diversity. In contrast, for hummingbirds, 11 species comprised the gamma diversity, with xerophytic shrublands having the highest richness and alpha diversity. Our data reveal high heterogeneity in species abundance among habitats. Notably, certain floral resources like Loeselia mexicana and Bouvardia ternifolia emerge as key species in multiple habitats, while hummingbirds such as Basilinna leucotis, Selasphorus platycercus, and Calothorax lucifer exhibit varying levels of abundance and habitat preferences. Beta diversity analyses unveil habitat-specific patterns, with species turnover predominantly driving dissimilarity in composition. Moreover, our study explores the relationships between these diversity components and environmental factors such as altitude and climate variables. Climate variables, in particular, emerge as significant contributors to dissimilarity in floral resource and hummingbird communities, highlighting the influence of environmental conditions on species distribution. Conclusions: Our results shed light on the complex dynamics of hummingbird-flower mutualistic communities within diverse habitats and underscore the importance of understanding how habitat-driven shifts impact alpha, beta, and gamma diversity. Such insights are crucial for conservation strategies aimed at preserving the delicate ecological relationships that underpin biodiversity in these communities. [ABSTRACT FROM AUTHOR]

Seed endophytes in maize, which facilitate the transmission of microorganisms from one plant generation to the next, may play a crucial role in plant protection and growth promotion. This study aimed to investigate the effects of various maize varieties on the communities of endophytic bacteria in seeds and germinating roots. This study utilized Illumina high-throughput sequencing technology to examine the structural and diversity differences of endophytic bacterial communities within seed maize (BY1507), silage maize (QQ446), and wild maize (Teosinte) in both seeds and germinating roots. The results showed that 416 bacterial genera were detected, with Pantoea, Lachnospiraceae, Pararhizobium, Enterobacteriaceae, Stenotrophomonas, and Pseudonocardia being the most prevalent (relative abundance > 10%) at the genus level. No significant difference was observed in diversity indices (Chao1, ACE, Shannon, and Simpson) of seed endophytes among BY1507, QQ446, and Teosinte. The Shannon and Simpson indices for the germinating root endophyte from the wild variety (Teosinte) were significantly higher than the domesticated varieties (BY1507 and QQ446). PCoA revealed a notable overlap in the endophytic bacterial communities from the seeds of BY1507, QQ446, and Teosinte. Yet, clustering patterns were found. Co-occurrence network analysis showed that BY1507, QQ446, and Teosinte share a notable proportion of shared endophytic bacteria (>30%) between the seeds and germinating roots. This investigation elucidates the characteristics of endophytic microbial communities of seeds and germinating roots with seed maize, silage maize, and wild maize, offering data for future research on the physiological ecological adaptation of these endophytic microbial communities. [ABSTRACT FROM AUTHOR]

Background: The skin is inhabited by a variety of micro‐organisms, with bacteria representing the predominant taxon of the skin microbiome. In sheep, the skin bacterial community of healthy animals has been addressed in few studies, only with culture‐based methods or sequencing of cloned amplicons. Objectives: The objectives of this study were to determine the sheep skin bacterial community composition by using metabarcoding for a detailed characterisation and to determine the effect of body part, breed and environment. Materials and Methods: Overall, 267 samples were taken from 89 adult female sheep, belonging to three different breeds and kept on nine different farms in Switzerland. From every individual, one sample each was taken from belly, left ear and left leg and metabarcoding of the 16S rRNA V3–V4 hypervariable region was performed. Results: The main phyla identified were Actinobacteriota, Firmicutes, Proteobacteria and Bacteriodota. The alpha diversity as determined by Shannon's diversity index was significantly different between sheep from different farms. Beta diversity analysis by principal coordinate analysis (PCoA) showed clustering of the samples by farm and body site, while breed had only a marginal influence. A sparse partial least squares discriminant analysis (sPLS‐DA) revealed seven main groups of operational taxonomic units (OTUs) of which groups of OTUs were specific for some farms. Conclusions and Clinical Relevance: These findings indicate that environment has a larger influence on skin microbial variability than breed, although the sampled breeds, the most abundant ones in Switzerland, are phenotypically similar. Future studies on the sheep skin microbiome may lead to novel insights in skin diseases and prevention. [ABSTRACT FROM AUTHOR]

Urbanisation affects not only large ecosystems but also small ones, such as ponds, through changes in environmental parameters. It consequently impacts the biodiversity of all organisms, including zooplankton. However, disturbances due to urbanisation may have different levels of impact on ecosystems. We therefore aimed to determine how different degrees of disturbance and environmental parameters affect zooplankton species diversity and which zooplankton species could indicate the disturbance degree and water quality of tropical urban ponds. We recorded 63 species, namely, 46 species of rotifers and 17 species of cladocerans. The overall species diversity tended to decrease from the low to the high disturbance areas. The level of disturbance, temperature, salinity, phycocyanin and vegetation affected the zooplankton species composition. More common species were found in the low disturbance areas, and among the few species in the highly disturbed areas, the distribution was more specific. We therefore propose that rotifer and cladoceran species be used as bioindicators to indicate water quality and the degree of disturbance. Our study provides significant insights into the relationship between zooplankton and environmental factors in oriental tropical regions and presents a framework for identifying crucial species associated with levels of disturbance, particularly in the habitats of Oriental Asia. [ABSTRACT FROM AUTHOR]

Introduction: This study investigates the relationship between the gut microbiome and voluntary exercise, focusing on wheel running activity in a rat model. The gut microbiome plays a crucial role in host physiology, homeostasis, and behavior. Alterations in the gut microbiome have been linked to various pathological states and health conditions, including obesity. Methods: Given the strong association between physical inactivity and obesity development, our study aimed to identify microbiome factors associated with elevated levels of voluntary exercise. Male Sprague Dawley rats were used in the 4-week exercise paradigm in which voluntary wheel running behavior was monitored alongside weekly microbiome sampling from fecal pellets. Results: We observed individual differences in running activity among the cohort. Significant positive correlations in running distance were identified across the 4- week time course, suggesting that running activity ranking was largely preserved. Furthermore, earlier running activity emerged as a potential predictor for subsequent running behaviors. Analysis of gut microbiome revealed that alpha diversity was positively correlated with daily running distances, with significant differences in beta diversity observed between high and low running groups. Taxonomic analysis showed distinct abundance differences between running and sedentary conditions, particularly in the Ruminococcaceae and Peptostreptococcaceae families. Discussion: Our results suggest that the microbiome composition changes significantly early in exercise exposure, potentially influencing exercise behavior. Ruminococcaceae, particularly R. bromii, was identified as a significant contributor to exercise adaptation, while Peptostreptococcaceae was inversely related to running performance as well as alpha diversity. This study underscores the potential of the gut microbiome as a modulator of exercise behavior. Future research should focus on the biological mechanisms linking microbiome changes to exercise adaptation, with R. bromii and Peptostreptococcus as promising candidates for influencing exercise behaviors through future interventional studies. [ABSTRACT FROM AUTHOR]

Soil pH significantly impacts microbial activity and community assembly, which in turn determines the temperature sensitivity (Q10) of soil respiration. Due to the high soil acidification in China, it is necessary to understand how soil acidification impacts Q10. Here, the Q10 of soil respiration was examined in a long-term field experiment (1982–present) with different soil pH caused by fertilization management. In this experiment, we selected treatments with neutral pH: (1) no crops and fertilization (CK); (2) crops without fertilization (NF); low pH with (3) crops with chemical fertilization (NPK); and (4) crops with chemical fertilization combined with wheat straw incorporation (WS). Under natural soil temperature changes, we observed that soil acidification lowered the Q10 value of soil respiration. Considering only temperature changes, the Q10 of soil respiration was strongly associated with microbial community composition, alpha diversity, and soil ammonium nitrogen. Considering the interaction between soil pH and temperature, warming strengthened the negative effect of soil pH on the Q10 of soil respiration, and the pathway through which soil pH mediated Q10 included not only microbial community composition, alpha diversity, and biomass but also the soil's available phosphorus. This work enhanced our insights into the relationships between Q10, temperature, and soil pH by identifying important microbial properties and key soil environmental factors. [ABSTRACT FROM AUTHOR]

Islands and analogous insular habitats are found in several ecological contexts. With the exception of oceanic islands, however, the contribution of these insular habitats to regional biodiversity remains poorly investigated, especially in tropical regions. We investigated the understory spider assemblages in an Amazonian river archipelago to evaluate the contribution of fluvial islands to regional spider diversity.We collected spiders on 30 islands ranging from 1 to 1527 ha and at 23 sites in mainland habitats represented by continuous igapó flooded forests and terra firme forests. Spiders were collected by shaking the vegetation over a white sheet during a standardised time of 30 min.From 1404 adult individuals, we identified 290 spider species or morphospecies, with 150 species being recorded on the fluvial islands, 122 in the igapó flooded forests and 103 in the terra firme forests. Spider assemblages of fluvial islands exhibit lower alpha diversity and equitability compared with mainland habitats. The species composition of fluvial islands was significantly distinct from that of mainland habitats, even when compared with neighbouring igapó flooded forests. Several families and species of spider were significantly associated with a particular habitat, including 8 families and 10 species identified as indicators of fluvial islands.Fluvial islands effectively contribute to regional diversity since their spider fauna is not a mere impoverished subset of species from mainland habitats. Events that alter the flood pulse in Amazonian rivers (e.g., construction of hydroelectric dams) could threaten the unique biological assemblages of the floodplain habitats, especially the fluvial islands. [ABSTRACT FROM AUTHOR]

• We examined early life stress and stool microbiome in the general population. • We found no significant association between overall ELS and children's microbiome. • One stress domain – contextual risk – was associated with a less diverse microbiome. • Enriched pathways for this stressor included bacterial tryptophan biosynthesis. • Associations were partly mediated by diet factors and BMI. Early-life stress (ELS) has been robustly associated with a range of poor mental and physical health outcomes. Recent studies implicate the gut microbiome in stress-related mental, cardio-metabolic and immune health problems, but research on humans is scarce and thus far often based on small, selected samples, often using retrospective reports of ELS. We examined associations between ELS and the human gut microbiome in a large, population-based study of children. ELS was measured prospectively from birth to 10 years of age in 2,004 children from the Generation R Study. We studied overall ELS, as well as unique effects of five different ELS domains, including life events, contextual risk, parental risk, interpersonal risk, and direct victimization. Stool microbiome was assessed using 16S rRNA sequencing at age 10 years and data were analyzed at multiple levels (i.e. α- and β-diversity indices, individual genera and predicted functional pathways). In addition, we explored potential mediators of ELS-microbiome associations, including diet at age 8 and body mass index at 10 years. While no associations were observed between overall ELS (composite score of five domains) and the microbiome after multiple testing correction, contextual risk – a specific ELS domain related to socio-economic stress, including risk factors such as financial difficulties and low maternal education – was significantly associated with microbiome variability. This ELS domain was associated with lower α-diversity, with β-diversity, and with predicted functional pathways involved, amongst others, in tryptophan biosynthesis. These associations were in part mediated by overall diet quality, a pro-inflammatory diet, fiber intake, and body mass index (BMI). These results suggest that stress related to socio-economic adversity – but not overall early life stress – is associated with a less diverse microbiome in the general population, and that this association may in part be explained by poorer diet and higher BMI. Future research is needed to test causality and to establish whether modifiable factors such as diet could be used to mitigate the negative effects of socio-economic adversity on the microbiome and related health consequences. [ABSTRACT FROM AUTHOR]

Integrated distribution models (IDMs), in which datasets with different properties are analysed together, are becoming widely used to model species distributions and abundance in space and time. To date, the IDM literature has focused on technical and statistical issues, such as the precision of parameter estimates and mitigation of biases arising from unstructured data sources. However, IDMs have an unrealised potential to estimate ecological properties that could not be properly derived from the source datasets if analysed separately. We present a model that estimates community alpha diversity metrics by integrating one species‐level dataset of presence–absence records with a co‐located dataset of group‐level counts (i.e. lacking information about species identity). We illustrate the ability of community IDMs to capture the true alpha diversity through simulation studies and apply the model to data from the UK Pollinator Monitoring Scheme, to describe spatial variation in the diversity of solitary bees, bumblebees and hoverflies. The simulation and case studies showed that the proposed IDM produced more precise estimates of the community diversity than the single models, and the analysis of the real dataset further showed that the alpha diversity estimates from the IDM were averages of the single models. Our findings also revealed that IDMs had a higher prediction accuracy for all the insect groups in most cases, with this performance linked to the information provided by a data source into the IDM. [ABSTRACT FROM AUTHOR]

To investigate the gut-brain axis, we explored the relationships among mood disturbance (MD), diet quality (DQ), and fecal microbiota in free-living adults. A cross-sectional analysis was conducted with data from 75 healthy adults enrolled in two studies. Anthropometrics, 16s rRNA gene sequencing of fecal microbes, DQ as assessed by Healthy Eating Index-2015 (HEI), and MD determined by Profile of Mood States (POMS) were included. Alpha-diversity and DQ differences were explored between low (n = 37) and high MD (n = 38) groups. Spearman correlations were used to investigate relationships between alpha-diversity, DQ, and POMS subscales. Moderation analysis explored the effect of HEI score on the relationship between MD and alpha-diversity. Participants were mostly white (67%), 54.5 years old (±11.8), and overweight (28.5 ± 6.5 kg/m2). Shannon and Simpson indices indicate higher alpha-diversity in participants with low MD compared to high MD (p = 0.004 and p = 0.008, respectively). Simpson and Shannon indices were correlated with subscale of anger (rho = −0.303, p = 0.011; rho = −0.265, p = 0.027, respectively)and total MD (rho = −0.404, p = 0.001; rho = −0.357, p = 0.002, respectively). Refined grains were associated with fatigue and tension subscales (rho = 0.428, p < 0.001; rho = 0.302, p = 0.014, respectively). DQ did not significantly moderate the relationship between alpha-diversity and mood disturbance (F(7, 53) = 2.00, p = 0.072, R2 = 0.209). Shannon index was a significant predictor of MD (b = −4.39, t(53) = −2.55, p = 0.014), but total HEI score and the interaction (Shannon index*HEI score) were not significant. Greater bacterial diversity was associated with lower MD, and DQ was associated with various mood state subscales in this sample of adults. [ABSTRACT FROM AUTHOR]

Rapid warming at high latitudes triggers poleward shifts of species' distributions that impact marine biodiversity. In the open sea, the documented redistributions of fish lead to a borealization of Arctic fauna. A climate‐driven borealization and increased species diversity at high latitudes are also expected in coastal fish communities, but they have not been previously documented on a large, biogeographic scale. Here, we investigate the impact of temperature change over the last 25 years on fish communities along the coast of Norway. The study area, spanning different ecoclimatic zones between 62° and 71° N, harbors over 200 species of boreal and Arctic fish. Several of these fish species are harvested by coastal and indigenous communities, influencing settlement geography and livelihood. The long‐term data on coastal water temperatures and fish species were obtained from monitoring stations and scientific surveys. Water temperature measured at three fixed sampling stations distributed along the coast show increased temperatures during the study period. The fish species distribution and abundance data were obtained from the annually standardized scientific bottom trawl survey program. Fish species richness, which was highest in the south, increased with warming first in the south and then, gradually, further north, eventually affecting biodiversity in the whole study area. Fish community composition showed a distinct latitudinal pattern early in the study, with Arctic fish species confined to the north and boreal species dominating the south. The poleward shifts eventually eroded this zoogeographic pattern, resulting in more boreal fish species in the north and an increased homogenization of species composition along the Norwegian coast. The climate‐driven reorganization of fish communities affects coastal ecosystems that are exposed to fisheries, aquaculture, and other rapidly expanding human activities, stressing the urgent need for a climate adaptation of integrated coastal management. [ABSTRACT FROM AUTHOR]

Background and Aims In many systems, postfire vegetation recovery is characterized by temporal changes in plant species composition and richness. We attribute this to changes in resource availability with time since fire, with the magnitude of species turnover determined by the degree of resource limitation. Here, we test the hypothesis that postfire species turnover in South African fynbos heathland is powered by fire-modulated changes in nutrient availability, with the magnitude of turnover in nutrient-constrained fynbos being greater than in fertile renosterveld shrubland. We also test the hypothesis that floristic overlaps between fynbos and renosterveld are attributable to nutritional augmentation of fynbos soils immediately after fire. Methods We use vegetation survey data from two sites on the Cape Peninsula to compare changes in species richness and composition with time since fire. Key Results Fynbos communities display a clear decline in species richness with time since fire, whereas no such decline is apparent in renosterveld. In fynbos, declining species richness is associated with declines in the richness of plant families having high foliar concentrations of nitrogen, phosphorus and potassium and possessing attributes that are nutritionally costly. In contrast, families that dominate late-succession fynbos possess adaptations for the acquisition and retention of sparse nutrients. At the family level, recently burnt fynbos is compositionally more similar to renosterveld than is mature fynbos. Conclusions Our data suggest that nutritionally driven species turnover contributes significantly to fynbos community richness. We propose that the extremely low baseline fertility of fynbos soils serves to lengthen the nutritional resource axis along which species can differentiate and coexist, thereby providing the opportunity for low-nutrient extremophiles to coexist spatially with species adapted to more fertile soil. This mechanism has the potential to operate in any resource-constrained system in which episodic disturbance affects resource availability. [ABSTRACT FROM AUTHOR]

Despite great advances in the treatment of oncological diseases, the development of medical technologies to prevent or reduce complications of therapy, in particular, those associated with surgery and the introduction of antibiotics, remains relevant. The aim of this study is to evaluate the effectiveness of the use of autoprobiotics based on indigenous non-pathogenic strains of Enterococcus faecium and Enterococcus hirae as a personalized functional food product (PFFP) in the complex therapy of colorectal cancer (CRC) in the early postoperative period. A total of 36 patients diagnosed with CRC were enrolled in the study. Study group A comprised 24 CRC patients who received autoprobiotic therapy in the early postoperative period, while the control group C included 12 CRC patients without autoprobiotic therapy. Prior to surgery and between days 14 and 16 post-surgery, comprehensive evaluations were conducted on all patients, encompassing the following: stool and gastroenterological complaints analysis, examination of the gut microbiota (bacteriological study, quantitative polymerase chain reaction, metagenome analysis), and analysis of interleukins in the serum. Results: The use of autoprobiotics led to a decrease in dyspeptic complaints after surgery. It was also associated with the absence of postoperative complications, did not cause any side effects, and led to a decrease in the level of pro-inflammatory cytokines (IL-6 and IL-18) in the blood serum. The use of autoprobiotics led to positive changes in the structure of escherichia and enterococci populations, the elimination of Parvomonas micra and Fusobacterium nucleatum, and a decrease in the quantitative content of Clostridium perfringens and Akkermansia muciniphila. Metagenomic analysis (16S rRNA) revealed an increase in alpha diversity. Conclusion: The introduction of autoprobiotics in the postoperative period is a highly effective and safe approach in the complex treatment of CRC. Future studies will allow the discovery of additional fine mechanisms of autoprobiotic therapy and its impact on the digestive, immune, endocrine, and neural systems. [ABSTRACT FROM AUTHOR]

While there is increasing recognition that social processes in cities like gentrification have ecological consequences, we lack nuanced understanding of the ways gentrification affects urban biodiversity. We analyzed a large camera trap dataset of mammals (>500 g) to evaluate how gentrification impacts species richness and community composition across 23 US cities. After controlling for the negative effect of impervious cover, gentrified parts of cities had the highest mammal species richness. Change in community composition was associated with gentrification in a few cities, which were mostly located along the West Coast. At the species level, roughly half (11 of 21 mammals) had higher occupancy in gentrified parts of a city, especially when impervious cover was low. Our results indicate that the impacts of gentrification extend to nonhuman animals, which provides further evidence that some aspects of nature in cities, such as wildlife, are chronically inaccessible to marginalized human populations. [ABSTRACT FROM AUTHOR]

In the Prepuneño del Monte District of the province of Jujuy extends the Quebrada de Humahuaca, declared World Heritage under the category of cultural landscape. Within the framework of the implementation of this figure, the inventories of species, particularly of arthropods and their relationship with the local plant formations along the altitudinal gradient of the Quebrada de Humahuaca, constitute basic information to complete the description of the fauna of the region. find conservation indicator taxa and interpret possible impacts of climate change. Therefore, the objectives of the study were to know the taxonomic composition of epigeal arthropods and analyze their diversity in an altitudinal and temporal gradient included in the Quebrada de Humahuaca. Four sites were selected, Tumbaya Grande (TG), Chucalezna (CH), Coraya (CO) and Tres Cruces (TC), in which arthropods were collected using pitfall traps, active for 48 h, in autumn, winter and spring of 2016 and summer of 2017. The abundance and richness of arthropod species/morphospecies, alpha, beta and gamma diversity, and their functional groups were analyzed. A total of 6426 arthropods were collected and 103 species/morphospecies were identified distributed in the classes Collembola, Insecta, Arachnida and Malacostraca. Abundances decreased with altitude, but richness decreased at intermediate altitudes and was high at the extremes of the gradient, due to the structure and composition of the vegetation. The warm and more humid periods, especially summer, favored the increase in the richness and abundance of arthropods, although there was greater dominance in winter compared to summer. Formicidae represented 75% of the total arthropods collected. The proportion of species shared between the sites was 14.6% of the total species recorded, while the exclusive were TG=25, CH=6, CO=5 and TC=13. The dominant functional group was the omnivore. [ABSTRACT FROM AUTHOR]

A new technique for assessing functional diversity is proposed, which is essentially a way to calculate Rao's quadratic entropy. In contrast to the original method of calculating entropy, the new method takes into account intraspecific variability and allows us to evaluate other useful aspects of functional diversity, such as functional richness, functional evenness, the uniqueness of each species, and the contributions to functional diversity of intraspecific variability of each species and each trait separately. However, due to the peculiarities of the calculation, the proposed technique can only be applicable for an absolute count of all organisms within the "island" community or when collecting material based on a fixed sampling effort. The article provides an example of the application of the proposed technique to real rodent trapping data. [ABSTRACT FROM AUTHOR]

BackgroundIt is well known that having maladaptive emotion regulation skills during childhood may predict mental health issues later in life, therefore, establishing links with gut microbiome could help develop gut-derived interventions directed at improving maladaptive emotion regulation skills during this critical developmental period. While differences in gut microbiome diversity and composition have been associated with several mental health problems in adults and in infants, the current study is the first one to examine whether the gut microbiome diversity and composition are related to emotional regulation abilities during early childhood.MethodIn the current cross-sectional study, mothers of seventy-three children aged 2–6 years completed several questionnaires assessing their child's and their own emotion regulation skills and mental health, provided a stool sample from their child (via at-home gut microbiome testing kits), and reported on their child's dietary intake.ResultsResults revealed that compared to children in the low maladaptive emotion regulation group, alpha diversity, relative abundance of butyrate-producing genera (Butyricicoccus and Odoribacter), and vitamin synthesis scores (Vitamins B2, B3, B6, and B9) were significantly lower in the high maladaptive emotion regulation group.DiscussionThese findings suggest that maladaptive emotion regulation skills link to gut microbiome alterations in early childhood, a crucial time of both brain and gut-immune development, hence, may open the way to the development of early novel (dietary or pre/probiotic) interventions.

Background: Endemism can originate from multiple biogeographic and evolutionary processes that promote the formation or persistence of species with restricted distributions (rare species). Understanding rare species’ distributions is a central question in biogeography and is crucial for biodiversity conservation. Questions: What are the rarest plant species in Mexico? How are they distributed? Under what risk categories should they be classified? Studied species: Vascular species considered rare in the flora of Mexico. Study site: Mexico. Methods: “Rare species” were defined as species endemic to Mexico whose distribution is restricted to a single 1 × 1° cell. We analyzed rare species’ distributions and proposed the risk category for each according to IUCN criteria. For some of the species distributed in the cell with the highest number of rare species, we compared the proposed category with published evaluations. Results: We identified 2,705 rare species. The richest cells in terms of rare species are in southern Mexico. Only 302 species had been previously evaluated under IUCN criteria. The remaining 2,403 qualify for the Near Threatened (NT) category or higher. The cell with the highest rare species richness, located in the Sierra Norte of Oaxaca, contained only 10 species with an existing IUCN risk category; for another 81 species, the categories of Vulnerable (VU), Endangered (EN) or Critically Endangered (CR) are indicated. Conclusions: Recognizing the rarity of these 2,705 species will increase attention on them, allowing more precise appraisal of their extinction risk and possible strategies for their conservation.

Earthworms represent a crucial taxon in soil ecosystems in terms of biomass and ecological functions. Knowledge of their diversity is growing, but the understanding of the ecological and evolutionary mechanisms underlying this diversity and its distribution patterns remains poorly understood. This is partly due to a lack of community data available on a large scale, particularly in the natural ecosystems of the most diverse tropical regions. Here we describe a large dataset containing records of 3555 georeferenced earthworm specimens, sampled in 125 one-hectare plots distributed in different habitats and localities across French Guiana. Each of these specimens was DNA barcoded targeting the cytochrome C Oxidase I subunit barcode region (COI), and these sequences were clustered into molecular operational taxonomic units (OTUs) that we used as species proxy to describe community taxonomic composition and diversity. Each community is associated in the dataset with climate and elevation data, and soil properties are also available for part of them. This dataset represents a unique opportunity for analyzing community diversity and phylogeographic patterns in neotropical rainforests.

The global temperature is continuously rising, and the impacts of nighttime warming (NW) and daytime warming (DW) on ecosystems have drawn widespread attention. However, most studies on the effects of daytime and nighttime warming on ecosystems have focused primarily on aboveground processes, but little is known about how they affect underground processes, particularly soil microorganisms. Therefore, we examined the effects of daytime and nighttime experimental warming (CK: control, DW: daytime warming, NW: nighttime warming, DW + NW: daily warming) on soil bacterial and fungal diversities at the Experimental Station of Zengcheng Forestry Science Research Institute in Guangdong, China. The results showed that, compared with the CK treatment, the NW rather than DW treatment significantly increased the abundance-based coverage estimator (ACE) diversity index of bacteria and fungi. Fungal beta diversity significantly differed between the DW and NW treatments, while there was no significant difference in bacterial beta diversity. Our research indicated that the NW treatment creates a more favourable microenvironment than the DW treatment, accelerating the mineralization of soil carbon, nitrogen, and phosphorus nutrients, which may be the reason for changes in microbial diversity. Our study provides important theoretical support and practical guidance for predicting the impact of global climate change on the diversity of microbial ecosystems.

Abstract Montane oceanic islands possess unique geographic and ecological attributes, rendering them valuable for assessing patterns and drivers of alpha and beta taxonomic, functional, and phylogenetic diversity along elevational gradients. Such comparisons of diversity facets can provide insights into the mechanisms governing community assembly on islands. Herein, we aimed to characterize taxonomic, functional, and phylogenetic bryophyte diversity on Madeira Island within and across areas at varying elevations. We also assessed how these diversity facets for the alpha and beta components relate to ecological and anthropogenic factors. We estimated and compared alpha and beta taxonomic, functional, and phylogenetic diversity using 80 plots of 0.5 m × 0.5 m across the whole elevational gradient of the island. We compiled trait databases and supplemented them with our own observations. Phylogenetic information was sourced from the Moss and Liverwort Tree of Life. To assess the impact of ecological and anthropogenic factors on the three facets, we applied linear mixed‐effects models and generalized dissimilarity models to alpha‐ and beta‐diversity matrices, respectively. All facets of diversity exhibited strong correlations within both mosses and liverworts, indicating a substantial congruence when alpha and beta are analyzed separately. The bryophyte groups categorized by the growth form demonstrated contrasting patterns, aligning with their distinctive ecological requirements. While a mid‐elevation peak emerged as a common pattern across the three facets of alpha diversity, beta diversity often displayed the opposite trend. Although the relative influence of environmental factors varied depending on the diversity facet and bryophyte grouping considered, we found that alpha and beta diversity of bryophytes are more influenced by climatic factors and the predominant type of vegetation than by anthropogenic factors. In the current context of global change, these results should be interpreted with caution, but they point to the resilience of bryophytes to survive in relatively well‐preserved natural microhabitats within anthropogenic landscapes. In this study on Madeira Island, we investigated patterns and drivers of alpha and beta taxonomic, functional, and phylogenetic diversity along elevational gradients. We found that alpha and beta diversity of bryophytes are more strongly influenced by climatic factors and the predominant type of vegetation than by anthropogenic factors.

Background Biodiversity, crucial for understanding ecosystems, encompasses species richness, composition, and distribution. Ecological and environmental factors, such as habitat type, resource availability, and climate conditions, play pivotal roles in shaping species diversity within and among communities, categorized into alpha (within habitat), beta (between habitats), and gamma (total regional) diversity. Hummingbird communities are influenced by habitat, elevation, and seasonality, making them an ideal system for studying these diversities, shedding light on mutualistic community dynamics and conservation strategies. Methods Over a year-long period, monthly surveys were conducted to record hummingbird species and their visited flowering plants across four habitat types (oak forest, juniper forest, pine forest, and xerophytic shrubland) in Tlaxcala, Mexico. Three locations per habitat type were selected based on conservation status and distance from urban areas. True diversity measures were used to assess alpha, beta, and gamma diversity of hummingbirds and their floral resources. Environmental factors such as altitude and bioclimatic variables were explored for their influence on beta diversity. Results For flowering plants, gamma diversity encompassed 34 species, with oak forests exhibiting the highest richness, while xerophytic shrublands had the highest alpha diversity. In contrast, for hummingbirds, 11 species comprised the gamma diversity, with xerophytic shrublands having the highest richness and alpha diversity. Our data reveal high heterogeneity in species abundance among habitats. Notably, certain floral resources like Loeselia mexicana and Bouvardia ternifolia emerge as key species in multiple habitats, while hummingbirds such as Basilinna leucotis, Selasphorus platycercus, and Calothorax lucifer exhibit varying levels of abundance and habitat preferences. Beta diversity analyses unveil habitat-specific patterns, with species turnover predominantly driving dissimilarity in composition. Moreover, our study explores the relationships between these diversity components and environmental factors such as altitude and climate variables. Climate variables, in particular, emerge as significant contributors to dissimilarity in floral resource and hummingbird communities, highlighting the influence of environmental conditions on species distribution. Conclusions Our results shed light on the complex dynamics of hummingbird-flower mutualistic communities within diverse habitats and underscore the importance of understanding how habitat-driven shifts impact alpha, beta, and gamma diversity. Such insights are crucial for conservation strategies aimed at preserving the delicate ecological relationships that underpin biodiversity in these communities.

The human gut virome and its early life development are poorly understood. Prior studies have captured single-point assessments with the evolution of the infant virome remaining largely unexplored. We performed viral metagenomic sequencing on stool samples collected longitudinally from a cohort of 53 infants from age 2 weeks to 3 years (80.7 billion reads), and from their mothers (9.8 billion reads) to examine and compare viromes. The asymptomatic infant virome consisted of bacteriophages, nonhuman dietary/environmental viruses, and human-host viruses, predominantly picornaviruses. In contrast, human-host viruses were largely absent from the maternal virome. Previously undescribed, sequence-divergent vertebrate viruses were detected in the maternal but not infant virome. As infants aged, the phage component evolved to resemble the maternal virome, but by age 3, the human-host component remained dissimilar from the maternal virome. Thus, early life virome development is determined predominantly by dietary, infectious, and environmental factors rather than direct maternal acquisition.

BackgroundEmpirical field studies allow us to view how ecological and environmental processes shape the biodiversity of our planet, but collecting samples in situ creates inherent challenges. The majority of empirical vertebrate gut microbiome research compares multiple host species against abiotic and biotic factors, increasing the potential for confounding environmental variables. To minimize these confounding factors, we focus on a single species of passerine bird found throughout the geologically complex island of Sulawesi, Indonesia. We assessed the effects of two environmental factors, geographic Areas of Endemism (AOEs) and elevation, as well as host sex on the gut microbiota assemblages of the Sulawesi Babbler, Pellorneum celebense, from three different mountains across the island. Using cloacal swabs, high-throughput-amplicon sequencing, and multiple statistical models, we identified the core microbiome and determined the signal of these three factors on microbial composition.ResultsThe five most prevalent bacterial phyla within the gut microbiome of P. celebense were Proteobacteria (32.6%), Actinobacteria (25.2%), Firmicutes (22.1%), Bacteroidetes (8.7%), and Plantomycetes (2.6%). These results are similar to those identified in prior studies of passeriform microbiomes. Overall, microbiota diversity decreased as elevation increased, irrespective of sex or AOE. A single ASV of Clostridium was enriched in higher elevation samples, while lower elevation samples were enriched with the genera Perlucidibaca (Family Moraxellaceae), Lachnoclostridium (Family Lachnospiraceae), and an unidentified species in the Family Pseudonocardiaceae.ConclusionsWhile the core microbiota families recovered here are consistent with other passerine studies, the decreases in diversity as elevation increases has only been seen in non-avian hosts. Additionally, the increased abundance of Clostridium at high elevations suggests a potential microbial response to lower oxygen levels. This study emphasizes the importance of incorporating multiple statistical models and abiotic factors such as elevation in empirical microbiome research, and is the first to describe an avian gut microbiome from the island of Sulawesi.

The gut microbiota of dung beetles comprises bacteria, archaea, and fungi. Most studies have only considered the bacterial element and focused on differences between species reared in the lab. This study considered microorganisms from the gut of Trypocopris pyrenaeus and concentrated on differences among wild individuals of an alpine Italian population. We revealed remarkable interindividual variation in the taxonomic composition of microbiota. Core taxa were few, while individuals harboured many exclusive taxa. Therefore, considering only a few individuals to describe the microbiota of a species is not sufficient. The study also revealed that the nMDS ordination of individuals based on prokaryotes was different from that based on fungi, meaning that both groups should be considered in microbiota analyses and that one microbic group cannot be considered a surrogate of the other. We identified many functions potentially provided by the microbiota and found the taxonomic richness of prokaryotes to be positively correlated with their functional richness. The analysis of the functions potentially provided by these microorganisms confirmed that the gut microbiota, in addition to being essential for the health of their host, may also contribute to the effective functioning of the ecosystems of which dung beetles are part.

Abstract Background The gut microbiome undergoes primary ecological succession over the course of early life before achieving ecosystem stability around 3 years of age. These maturational patterns have been well-characterized for bacteria, but limited descriptions exist for other microbiota members, such as fungi. Further, our current understanding of the prevalence of different patterns of bacterial and fungal microbiome maturation and how inter-kingdom dynamics influence early-life microbiome establishment is limited. Results We examined individual shifts in bacterial and fungal alpha diversity from 3 to 12 months of age in 100 infants from the CHILD Cohort Study. We identified divergent patterns of gut bacterial or fungal microbiome maturation in over 40% of infants, which were characterized by differences in community composition, inter-kingdom dynamics, and microbe-derived metabolites in urine, suggestive of alterations in the timing of ecosystem transitions. Known microbiome-modifying factors, such as formula feeding and delivery by C-section, were associated with atypical bacterial, but not fungal, microbiome maturation patterns. Instead, fungal microbiome maturation was influenced by prenatal exposure to artificially sweetened beverages and the bacterial microbiome, emphasizing the importance of inter-kingdom dynamics in early-life colonization patterns. Conclusions These findings highlight the ecological and environmental factors underlying atypical patterns of microbiome maturation in infants, and the need to incorporate multi-kingdom and individual-level perspectives in microbiome research to improve our understandings of gut microbiome maturation patterns in early life and how they relate to host health. Video Abstract

ABSTRACTRepeated exposure to antibiotics and changes in the diet and environment shift the gut microbial diversity and composition, making the host susceptible to pathogenic infection. The emergence and ongoing spread of AMR pathogens is a challenging public health issue. Recent evidence showed that probiotics and prebiotics may play a role in decolonizing drug-resistant pathogens by enhancing the colonization resistance in the gut. This review aims to analyze available evidence from human-controlled trials to determine the effect size of probiotic interventions in decolonizing AMR pathogenic bacteria from the gut. We further studied the effects of prebiotics in human and animal studies. PubMed, Embase, Web of Science, Scopus, and CINAHL were used to collect articles. The random-effects model meta-analysis was used to pool the data. GRADE Pro and Cochrane collaboration tools were used to assess the bias and quality of evidence. Out of 1395 citations, 29 RCTs were eligible, involving 2871 subjects who underwent either probiotics or placebo treatment to decolonize AMR pathogens. The persistence of pathogenic bacteria after treatment was 22%(probiotics) and 30.8%(placebo). The pooled odds ratio was 0.59(95% CI:0.43–0.81), favoring probiotics with moderate certainty (p = 0.0001) and low heterogeneity (I2 = 49.2%, p = 0.0001). The funnel plot showed no asymmetry in the study distribution (Kendall’sTau = −1.06, p = 0.445). In subgroup, C. difficile showed the highest decolonization (82.4%) in probiotics group. Lactobacillus-based probiotics and Saccharomyces boulardii decolonize 71% and 77% of pathogens effectively. The types of probiotics (p

Seagrasses are important marine plants that provide a variety of ecosystem services, including food and shelter for marine life, and protection from coastal erosion. This study investigated the biodiversity (alpha and beta diversity) of seagrass in the Kepulauan Banyak Marine Nature Park, Indonesia, with a specific focus on eight sites. Alpha diversity was calculated using Shannon's index, Simpson's index, and Pielou evenness. Beta diversity was determined using Bray-Curtis dissimilarity and Jaccard dissimilarity allowing us to examine the variations in species composition among different sites. Principal coordinate analysis and Partial distance-based redundancy analysis was used to visualize and investigate the impact of constraint variables to the structure of the seagrass communities. Alpha diversity varied among the sites, with the highest alpha diversity found at the Orongan and Matahari site and the lowest at the Ujung Lolok and Balai sites. The dominant substrate type (mud or sand) was found to be a significant (P≤ 0.01) determinant of seagrass alpha diversity, with mud substrates supporting higher diversity than sand substrates. The relationship between alpha diversity and constrain variables was only significant with closest distance to forest lost and longitude variables. The analysis found that water pH, closest distance to forest lost, mean distance to tourism spots, and closest distance to settlement collectively explained a significant (P≤ 0.001) portion (88.48%) of the variation in beta diversity of seagrass across the sites. The results of this study can be used to develop management strategies for the conservation of seagrass meadows in the park. [ABSTRACT FROM AUTHOR]

Protected areas and their peripheries harbour biodiverse ecosystems which underpin ecosystem service provision to local communities. Understanding the relationship between the species contained within these ecosystems and the utilitarian services they provide is important. However, there is a shortage of quantitative methods for assessing species' utilitarian roles. We used a dendrogram-based method to quantify utilitarian diversity and an ordination method to determine co-occurrences in three sites at the periphery of Gonarezhou National Park, in Zimbabwe. The use categories for the plants were determined using household questionnaire surveys, and vegetation data was collected via standard plotless sampling techniques. There was higher plant diversity in the sites adjacent to the protected area, i.e. Malipati communal area (S = 45; Simpson's index = 0.7271) and Gonakudzingwa farms (S = 50; Simpson's index = 0.9351), with the lowest diversity recorded at the site far from the park, i.e. Chomupani communal area (S = 25; Simpson's index = 0.6305). Utilitarian diversity was also highest in the areas adjacent to the protected area, with Malipati and Gonakudzingwa having values of 22.2 and 21.4, respectively, while Chomupani attained 20.6. A principal component analysis ordination indicated which utilitarian species occurred in the same areas. Our results contribute to plant conservation by highlighting the utilitarian relationships of species at protected area peripheries. This allows planners and conservationists to set conservation priorities to avoid losing species that contribute the most to ecosystem service provision. [ABSTRACT FROM AUTHOR]

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The gut microbiota of dung beetles comprises bacteria, archaea, and fungi. Most studies have only considered the bacterial element and focused on differences between species reared in the lab. This study considered microorganisms from the gut of Trypocopris pyrenaeus and concentrated on differences among wild individuals of an alpine Italian population. We revealed remarkable interindividual variation in the taxonomic composition of microbiota. Core taxa were few, while individuals harboured many exclusive taxa. Therefore, considering only a few individuals to describe the microbiota of a species is not sufficient. The study also revealed that the nMDS ordination of individuals based on prokaryotes was different from that based on fungi, meaning that both groups should be considered in microbiota analyses and that one microbic group cannot be considered a surrogate of the other. We identified many functions potentially provided by the microbiota and found the taxonomic richness of prokaryotes to be positively correlated with their functional richness. The analysis of the functions potentially provided by these microorganisms confirmed that the gut microbiota, in addition to being essential for the health of their host, may also contribute to the effective functioning of the ecosystems of which dung beetles are part. [ABSTRACT FROM AUTHOR]

Background: Tobacco mosaic virus (TMV) is one famous plant virus responsible for substantial economic losses worldwide. However, the roles of bacterial communities in response to TMV in the tobacco rhizosphere remain unclear. Methods: We explored the soil physicochemical properties and bacterial community succession of the healthy (YTH) and diseased (YTD) plants with TMV infection by 16S rRNA gene sequencing and bioinformatics analysis. Results: We found that soil pH in the YTD group was significantly lower than in the YTH group, and the soil available nutrients were substantially higher. The bacterial community analysis found that the diversity and structure significantly differed post-TMV disease onset. With TMV inoculated, the alpha diversity of the bacterial community in the YTD was markedly higher than that in the YTH group at the early stage. However, the alpha diversity in the YTD group subsequently decreased to lower than in the YTH group. The early bacterial structure of healthy plants exhibited higher susceptibility to TMV infection, whereas, in the subsequent stages, there was an enrichment of beneficial bacterial (e.g., Ramlibacter, Sphingomonas, Streptomyces, and Niastella) and enhanced energy metabolism and nucleotide metabolism in bacteria. Conclusion: The initial soil bacterial community exhibited susceptibility to TMV infection, which might contribute to strengthening resistance of Tobacco to TMV. [ABSTRACT FROM AUTHOR]

Background: The gut microbiome undergoes primary ecological succession over the course of early life before achieving ecosystem stability around 3 years of age. These maturational patterns have been well-characterized for bacteria, but limited descriptions exist for other microbiota members, such as fungi. Further, our current understanding of the prevalence of different patterns of bacterial and fungal microbiome maturation and how inter-kingdom dynamics influence early-life microbiome establishment is limited. Results: We examined individual shifts in bacterial and fungal alpha diversity from 3 to 12 months of age in 100 infants from the CHILD Cohort Study. We identified divergent patterns of gut bacterial or fungal microbiome maturation in over 40% of infants, which were characterized by differences in community composition, inter-kingdom dynamics, and microbe-derived metabolites in urine, suggestive of alterations in the timing of ecosystem transitions. Known microbiome-modifying factors, such as formula feeding and delivery by C-section, were associated with atypical bacterial, but not fungal, microbiome maturation patterns. Instead, fungal microbiome maturation was influenced by prenatal exposure to artificially sweetened beverages and the bacterial microbiome, emphasizing the importance of inter-kingdom dynamics in early-life colonization patterns. Conclusions: These findings highlight the ecological and environmental factors underlying atypical patterns of microbiome maturation in infants, and the need to incorporate multi-kingdom and individual-level perspectives in microbiome research to improve our understandings of gut microbiome maturation patterns in early life and how they relate to host health. 5AtmDGbifCkZAT-p1B-BuF Video Abstract [ABSTRACT FROM AUTHOR]

Spatial heterogeneity of biodiversity is linked to environmental gradients across landscapes. In forest vegetation, trees essentially affect the forest understorey flora, not only by forming the microecological conditions but also by their competitiveness. Here, we investigate the changes in taxonomic diversity along the altitudinal gradient in forests dominated by the strongly competitive, European beech (Fagus sylvatica), considering different ecological drivers important for vegetation diversity. The response of plant species diversity to changing characteristics is mostly non-linear or has an increasing trend. This reflects the specific environments of the studied region of Western Carpathians (Central Europe), where a high variability of geological substrates and the occurrence of base-rich rocks at higher altitudes increase species diversity. The beech cover, the geological substrate and the orography were found to be the most significant factors determining the diversity patterns. The increasing trend towards higher altitudes is significant on carbonate bedrock regardless of any other studied factors. The geological conditions multiply the number of species almost twice on carbonates compared to the communities on silicates. The Veľká Fatra Mts and Slovenský raj Mts are the plant diversity hotspots of beech forests in the Western Carpathians. [ABSTRACT FROM AUTHOR]

Global environmental changes drive biodiversity loss and community compositional change. Yet whether and how both factors simultaneously impact biomass dynamics in natural ecosystems remains elusive, especially considering their multidimensional effects (e.g., taxonomic, functional, and phylogenetic) over spatial scales. To fill this knowledge gap, we generated an experimental spatial gradient using circular quadrats that vary in radius (2–30 m) in a subtropical forest on Dinghushan Mountain, China. Within each quadrat over 10 years, we calculated the changes in aboveground biomass (i.e., net Δbiomass), biodiversity (i.e., Δbiodiversity for richness, Shannon diversity, functional, phylogenetic), and community composition (i.e., β-diversity for taxonomic, functional, phylogenetic). Based on multi-model inference, we determined the most parsimonious relationships of Δbiomass as a function of Δbiodiversity and β-diversity and then quantified their standardized coefficients in response to the spatial gradient. Our results showed that Δbiomass, Δbiodiversity, and β-diversity decreased with quadrat size; the former at an accelerating rate and the latter at decelerating rates. While Δbiomass as a function of Δbiodiversity and β-diversity had low occurrences across the gradient, Δbiomass was strongly related to the change in functional dispersion (i.e., ΔFDis) and taxonomic β-diversity at larger spatial scales. Our results suggest scale-dependent influences of biodiversity loss and community compositional change on biomass dynamics in natural ecosystems. Further, our results highlight that multiple dimensions of biodiversity should be considered when predicting biomass dynamics at large spatial scales. [ABSTRACT FROM AUTHOR]

The Amazon forests are under threat from multiple human land uses, but the effect of the different types of land uses on environmental heterogeneity and the α- and β-diversity of aquatic insects remains unclear. We studied how habitat features of streams and aquatic insect diversity in the orders Ephemeroptera, Plecoptera, and Trichoptera (hereafter, EPT) responded to different land uses in the Brazilian Amazon. By sampling and analyzing EPT community data from 83 streams distributed in multiple land uses and land covers, we found that the impact of forest conversion was mixed. Despite contiguous and fragmented forest streams presenting similar environmental conditions, they differed in insect diversity metrics. α-diversity was highest in contiguous forest streams and EPT β-diversity was higher in streams surrounded by livestock farming and primary oil palm plantations. The association between land use and habitat degradation may not be so direct, mainly when streams are inserted into or surrounded by forest fragments. This has important implications because politicians and policymakers often regard forest fragments as degraded landscapes, to justify their conversion to other land uses. Our study shows that forest fragments must be protected and restored to reduce the risks of degrading the ecological condition of Amazonian streams. [ABSTRACT FROM AUTHOR]

The present study evaluates the potential of airborne hyperspectral and space-borne multispectral satellite datasets to determine alpha (α) and beta (β) diversity combining in-situ floristic composition in tropical deciduous forests (TDFs) of Mudumalai Tiger Reserve (MTR), India. 43 forest plots (each of 0.04 ha) were sampled to record the species diversity in MTR. The very high-resolution AVIRIS-NG hyperspectral images and temporal Sentinel-2 multispectral images were used to extract spectral variables by associating each field plot with corresponding pixels of the satellite images. A high positive correlation of field-based α-diversity (Shannon-Wiener diversity index (H′)) with AVIRIS-NG based α-diversity (R2: 0.83 (2016); R2: 0.82 (2018)) was observed compared to Sentinel-2 based α-diversity (R2: 0.50 to 0.63) with high correlation during post-monsoon (R2: 0.63). Principal coordinate analysis of AVIRIS-NG based β-diversity signifies a low diversity (H′: <1.00) in the eastern parts (0.13% of MTR) in contrast to moderate (H′: 1.00 to 2.00; 13.39% of MTR) to high diversity (H′ >2.00; 86.49% of MTR) in the remaining parts of MTR. The study highlights the application of high spectral-spatial AVIRIS-NG images for precise tree diversity mapping and the high temporal-spatial Sentinel-2 satellite images for assessing the phenological variations of the forest species. The integration of high spatial-hyperspectral and temporal multispectral satellite datasets with field-based observations for fine-scale tree species diversity mapping at geographical and temporal scales is the novelty of the study that may effectively contribute in devising effective forest management plans for biodiversity conservation. [ABSTRACT FROM AUTHOR]

Purpose: Astragalus-cultivated soils are enriched in arbuscular mycorrhizal fungi (AMF); however, the community changes of AMF between years in stragalus-cultivated soils are still unclear. Methods: To illustrate this, using high-throughput amplicon sequencing and quantitative real-time PCR, we analyzed the AMF communities of the abandoned farmlands and interannual astragalus-cultivated soils for 1-, 2-, 3-, and 4-years, including community composition, dominant, core, specific and significantly fluctuating AMF, co-occurrence network, alpha diversity, and beta diversity. Results: A total of 74 OTUs were classified into one phylum, Glomeromycota; one class, Glomeromycetes; four orders; four families; and six genera. The 2-year soil had the highest number of reads among the interannual soils. Only one OTU was shared among all interannual soils. The treatments significantly affected the Ace, Shannoneven, and Shannon estimators of the communities. The 2-year soil had the highest richness, evenness, and diversity among all interannual soils and was the closest to the abandoned farmland in terms of alpha diversity. Glomus of the family Glomeraceae was the dominant genus present in all treatments, and the composition of the dominant genus in interannual soils was different. Both Glomus and Diversispora were the core AMF in interannual soils, and specific AMF existed in different interannual soils. Glomus is a genus that exhibits significant interannual variation. The interannual time significantly affected the network connectivity. The results of the principal coordinate analysis showed that the community composition of the interannual soils was close to each other and separated from the abandoned farmland, and that the interannual time significantly affected the community composition. Conclusion: Among the interannual soils, the 2-year soil may be more suitable for A. sinensis seedling rotation. [ABSTRACT FROM AUTHOR]