Assembly Patterns Research Articles

Crystal organisation and material properties of Chama and Glycymeris myostraca and shells

Movement of bivalve hard and soft tissue requires muscular action. Despite diverse bivalve lifestyles and living environments, the myostracum, a specific hard tissue formed where muscles attach to the shell, appears similar in structure for species of many bivalve orders.We investigated myostracal and non-myostracal, valve, microstructure, texture and material properties of Chamidae and Glycymerididae species with electron-backscatter-diffraction, laser-confocal and backscatter electron imaging and nanoindentation testing. Chamidae and Glycymerididae follow different lifestyles and live in distinct environments. Chamidae are cemented to substrate and live in wave-swept, shallow, waters. Glycymerididae dwell in calm water and burrow into sandy/muddy sediment.We found that myostracal aragonite of all investigated species has a crystal assembly pattern that reflects crystal growth through growth competition. Aragonite is extensively twinned in the myostracum and non-myostracal, valve, layers, not in the calcitic ornamentation. For myostracal aragonite, we found cyclic twinning, for non-myostracal aragonite the twinning was polysynthetic or polycyclic. We show how twinning and crystallographic texture are transmitted between myostracal and non-myostracal, valve, layers. Relative to non-biological aragonite, myostracal and non-myostracal, valve, indentation elastic modulus is reduced by 10–15 % and 15–20 %, respectively; myostracal and valve hardness is increased by 15–20 % and 5–10 %, respectively. Comparing modulus and hardness between aragonitic microstructures, we found that, relative to other microstructures, myostracal modulus is increased by 5 % and myostracal hardness by 15 %. Hence, the myostracal material shows a unique and specific microstructure, texture, modulus, and hardness that might be necessary for muscle attachment to enable the lifestyle-controlled requirements posed onto the organism.

Seasonal dynamics and habitat preferences of juvenile fish assemblages in the Wanquan Estuary, South China: Implications for conservation and management

Tropical estuaries encompass diverse habitats, which are crucial for supporting juvenile fish by providing nurseries, refuges, and migration routes. In the present study, we investigated the seasonal and spatial dynamics of juvenile fish assemblages in the Wanquan Estuary, Hainan Island, China, examining variations during the wet and dry seasons across four types of habitats. Our research aimed to test the hypotheses: (1) the wet season supports a greater abundance and species richness of juvenile fish compared to the dry season, and (2) juvenile fish showed varying habitat preferences across seasons. We recorded a total of 3617 individuals belonging to 33 families, 50 genera, and 78 taxa. Our findings revealed significant seasonal fluctuations in the assemblage structure, with peak abundance during the wet season in August, primarily consisting of diadromous species. A notable shift towards marine species was observed in March. Spatially, juvenile fish exhibited significant habitat preferences, with a strong preference for sand substrates for most species. Contrary to common expectations, mangrove fringe habitats were not identified as the primary nursery grounds for juvenile fish. Instead, our study highlights the importance of habitat diversity and connectivity in enhancing nursery functions. Water temperature and salinity were the key drivers influencing the seasonal and temporal patterns of juvenile fish assemblages in the Wanquan River estuary The pronounced temporal dynamics of these assemblages, driven by seasonal environmental alterations affecting water variations and habitat connectivity, were more significant than spatial differences. The findings emphasize the need for focused connectivity of various habitats to support the conservation of diverse fish communities in tropical estuarine ecosystems.

Isoforms of terminal selector Mamo control axon guidance during adult Drosophila memory center construction via Semaphorin-1a

In animals undergoing metamorphosis, the appearance of the nervous system is coincidently transformed by the morphogenesis of neurons. Such morphogenic alterations are exemplified in three types of intrinsic neurons in the Drosophila memory center. In contrast to the well-characterized remodeling of γ neurons, the morphogenesis of α/β and α’/β′ neurons has not been adequately explored. Here, we show that mamo, a BTB-zinc finger transcription factor that acts as a terminal selector for α’/β′ neurons, controls the formation of the correct axonal pattern of α’/β′ neurons. Intriguingly, specific Mamo isoforms are preferentially expressed in α’/β′ neurons to regulate the expression of axon guidance molecule Semaphorin-1a. This action directs proper axon guidance in α’/β′ neurons, which is also crucial for wiring of α’/β’ neurons with downstream neurons. Taken together, our results provide molecular insights into how neurons establish correct axonal patterns in circuitry assembly during adult memory center construction.

Combined environmental pressure induces unique assembly patterns of micro-plastisphere biofilm microbial communities in constructed wetlands

The characteristics and dynamics of micro-plastisphere biofilm on the surface of microplastics (MPs) within artificial ecosystems, such as constructed wetlands (CWs), remain unclear, despite these ecosystems’ potential to serve as sinks for MPs. This study investigates the dynamic evolution of micro-plastisphere biofilm in CWs, utilizing simulated wastewater containing sulfamethoxazole and humic acid, through physicochemical characterization and metagenomic analysis. Two different types of commercial plastics, including non-degradable polyethylene and degradable polylactic acid, were shredded into MPs and studied. The findings reveal that the types, shape and incubation time of MPs, along with humic acid content in wastewater, affected the quantity and quality of biofilms, such as the biofilm composition, spatial structure and microbial communities. After just 15 days into incubation, numerous microbials were observed on MP samples, with increases in biofilms content and enhanced humification of extracellular polymeric substances over time. Additionally, microbial communities on polylactic acid MPs, or those incubated for longer time, exhibit higher diversity, connectivity and stability, along with reduced vulnerability. Conversely, biofilms on polyethylene MPs were thicker, with higher potential for greenhouse gas emission and increased risk of antibiotic resistance genes. The addition of humic acid demonstrated opposite effects on biofilms across environmental interfaces, possibly due to its dual potential to produce light-induced free radicals and serve as a carbon source. Binning analysis further uncovered a unique assembly pattern of nutrients cycle genes and antibiotic resistance genes, significantly correlated within micro-plastisphere microbial communities, under the combined stress of nutrition and sulfamethoxazole. These results emphasize the shaping of micro-plastisphere biofilm characteristics by unique environmental conditions in artificial ecosystems, and the need to understand how DOM and other pollutants covary with MP pollution.

Metropolitan pressures: Significant biodiversity declines and strong filtering of functional traits in fish assemblages

Accelerating global urbanization is leading to drastic losses and restructuring of biodiversity. Although it is crucial to understand urban impacts on biodiversity to develop mitigation strategies, there is a dearth of knowledge on the functional structure of fish assemblages spanning the entire city-scale spectrum of urbanization intensity. Here, using environmental DNA sampled from 109 water sites in Beijing, we investigated the taxonomic and functional diversity patterns of fish assemblages across the city and uncovered community-, trait-, and species-level responses to various environmental stressors. By ranking sampling sites into three disturbance levels according to water physiochemical and landcover conditions, we found that both native and non-native fish taxonomic and functional α-diversity decreased significantly with elevating disturbance, as strong disturbance led to the disappearance of many species. However, the quantitative taxonomic and functional β-diversity components of native and non-native fish showed distinct patterns; assemblage turnover dominated native fish β-diversity and decreased with increasing disturbance, whereas species/trait richness differences dominated non-native fish β-diversity and increased with disturbance intensity particularly in lotic waters. RLQ and fourth-corner analyses revealed that fish size, fecundity, diet, and reproductive behaviors were significantly correlated with water quality, with pollution-tolerant, larger-sized native and omnivorous non-native fishes being urban winners, which indicates strong trait-dependent environmental filtering. Potential ecological indicator species were identified based on the sensitivity of fish responses to pollution loads; these were mostly small native species, and many have bivalve-dependent reproduction. Our results demonstrate that, along with native fish assemblage simplification and homogenization, urban stressors exert profound impacts on community trait composition, highlighting the need to consider both biodiversity loss and functional reorganization in combating disturbance of aquatic ecosystems under global urbanization. Furthermore, correlations between cropland cover and water nutrient level suggested that the management of agricultural runoff might be critically important for safeguarding urban water quality.

Rainfall seasonality shapes microbial assembly and niche characteristics in Yunnan Plateau lakes, China

Microorganisms are crucial components of freshwater ecosystems. Understanding the microbial community assembly processes and niche characteristics in freshwater ecosystems, which are poorly understood, is crucial for evaluating microbial ecological roles. The Yunnan Plateau lakes in China represent a freshwater ecosystem that is experiencing eutrophication due to anthropogenic activities. Here, variation in the assembly and niche characteristics of both prokaryotic and microeukaryotic communities was explored in Yunnan Plateau lakes across two seasons (dry season and rainy season) to determine the impacts of rainfall and environmental conditions on the microbial community and niche. The results showed that the environmental heterogeneity of the lakes decreased in the rainy season compared to the dry season. The microbial (bacterial and microeukaryotic) α-diversity significantly decreased during the rainy season. Deterministic processes were found to dominate microbial community assembly in both seasons. β-Diversity decomposition analysis revealed that microbial community compositional dissimilarities were dominated by species replacement processes. The co-occurrence networks indicated reduced species complexity for microbes and a destabilized network for prokaryotes prior to rainfall, while the opposite was found for microeukaryotes following rainfall. Microbial niche breadth decreased significantly in the rainy season. In addition, lower prokaryotic niche overlap, but greater microeukaryotic niche overlap, was observed after rainfall. Rainfall and environmental conditions significantly affected the microbial community assembly and niche characteristics. It can be concluded that rainfall and external pollutant input during the seasonal transition alter the lake environment, thereby regulating the microbial community and niche in these lakes. Our findings offer new insight into microbiota assembly and niche patterns in plateau lakes, further deepening the understanding of freshwater ecosystem functioning.

Diversity, habitat and activity patterns of mesocarnivore assemblages in an Afrotropical protected forest savannah mosaic of Central Cameroon

AbstractLittle is known about the diversity and ecology of mesocarnivores in the Mpem and Djim National Parks in central Cameroon. Therefore, we undertook a rapid assessment using camera traps from September 2021 to December 2021. The main objective of our study was to collect data on the diversity, abundance and relative frequency of mesocarnivores per habitat type and their activity period using camera traps with a distance sampling method. In 1700 trap nights, we recorded 53 events of seven mesocarnivores, all belonging to the family of Viveridae, Herpesdidae and Felidae which yield 3.12 mesocarnivores per 100 days. The black‐legged mongoose (Bdeogale nigripes, Pucheran, 1855) exhibited the highest capture rate (CR, 0.88). The long‐nosed mongoose (Xenogale naso, Winton, 1901) was found in all habitats class and was the more active mesocarnivore. The Shannon‐Weaver diversity index (H) showed a high diversity of species in the community with high diversity in the near primary forest. We obtained a lower dominance of one species over the other, a lower richness and a more even distribution of species between habitats. Our results suggest a possible spatio‐temporal niche partitioning between the species recorded, with blotched genet (Genetta maculata, Gray, 1830), showing no clear peak of activity. However, the rarefaction curve indicates that the effort expended was insufficient, suggesting that additional sampling is required to obtain a reasonable estimate of species richness within our community. The activity patterns of the recorded mesocarnivores were generally similar to those reported elsewhere but suggest some behavioural flexibility. Although all these species are listed as Least Concern by the IUCN, the low number of recorded events may indicate that mesocarnivores may be threatened in this area if effective conservation strategies are not implemented.

Different diversity patterns of butterfly and moth assemblages between deciduous and evergreen broad-leaf forests

In this study, we compared the diversity and abundance of two groups of Lepidopteran insects—butterflies and moths—across deciduous (DBL) and evergreen broad-leaved (EBL) tree communities in warm temperate forests. Over three years (from 2018 to 2020) at the Wando Arboretum, we used transect and point methods to sample butterflies and light traps to sample moths. Our findings revealed that the total estimated species richness was higher in EBL compared to DBL. Non-metric multidimensional scaling (NMDS) analysis confirmed distinct moth assemblages between the two tree communities, while butterfly assemblages did not exhibit such separation. The seasonal diversity patterns of butterflies in both forests differed significantly, whereas those of moths exhibited a similar trend with a peak in June. Beta diversity components indicated high turnover rates in moth assemblages across both tree communities and high nestedness in butterfly assemblages within the DBL. Although the diet breadth of butterflies and moths did not significantly differ between the two tree communities, the number of butterfly species per host plant was higher in DBL and that of moths was higher in EBL. Considering the ongoing vegetation transition from DBL to EBL, changes in forest structure—such as canopy openness and tree density—may adversely impact insect communities within DBL.

Vertical niche and trait associations in Central African amphibians

AbstractTropical forests are vertically complex and offer unique niche opportunities in the form of resources, climate, and habitat gradients from the forest floor to the canopy. Rainforest amphibians have diversified within this vertical space, resulting in partitioned niches and corresponding morphological, behavioral, and reproductive traits. However, a lack of data regarding the vertical niche space used by amphibian species has prevented a nuanced analysis of the form‐function relationship between traits and vertical height. We performed 74 ground‐to‐canopy surveys for amphibians in the tropical rainforest of Gabon and described the vertical stratification patterns of the assemblage in terms of richness, abundance, and species‐specific vertical niches. We determined that the community shift in richness and abundance between the ground and understory was pronounced, while the community change from understory to canopy was gradual. We analyzed the relationships between amphibian traits with vertical height using linear mixed effects models, finding strong support (>60% variance explained) that frogs with bigger toes in relation to their length access greater height in the canopy. This relationship provides support for the form‐function hypothesis: that morphology changes predictably to meet the functional demands of species along niche gradients. Furthermore, we documented differences in the vertical heights of species according to their reproductive modes, highlighting the potential impact of reproductive mode diversity on the vertical stratification patterns of amphibian assemblages.

Fast approximation of the traveling salesman problem shortest route by rectangular cell clustering pattern to parallelize solving

A method of quickly obtaining an approximate solution to the traveling salesman problem (TSP) is suggested, where a dramatic computational speedup is guaranteed. The initial TSP is broken into open-loop TSPs by using a clustering method. The clustering method is based on either imposing a rectangular lattice on the nodes or dividing the dataset iteratively until the open-loop TSPs become sufficiently small. The open-loop TSPs are independent and so they can be solved in parallel without synchronization, whichever the solver is. Then the open-loop subroutes are assembled into an approximately shortest route of the initial TSP via the shortest connections. The assemblage pattern is a symmetric rectangular closed-loop serpentine. The iterative clustering can use the rectangular assembling approach as well. Alternatively, the iterative clustering can use the centroid TSP assembling approach, which requires solving a supplementary closed-loop TSP whose nodes are centroids of the open-loop-TSP clusters. Based on results of numerical simulation, it is ascertained that both the iterative clustering and rectangular cell clustering pattern are roughly equally accurate, but the latter is way more computationally efficient on squarish datasets. Fast approximation of the TSP shortest route serves as an upper bound. In addition, the route can be studied to find its bottlenecks, which subsequently are separated and another bunch of open-loop TSPs is approximately solved. For big-sized TSPs, where the balance of the accuracy loss and computational time is uncertain, the rectangular cell clustering pattern allows obtaining fast solution approximations on multitudinous non-synchronized parallel processor cores.

Disease Occurrence and Climatic Factors Jointly Structure Pomelo Leaf Fungal Succession in Disturbed Agricultural Ecosystem.

For perennial plants, newly emerged organs are fresh hot spots for environmental microbes to occupy and assemble to form mature microbial communities. In the microbial community, some commensal fungi can play important roles in microbial succession, thus significantly improving host plant growth and disease resistance. However, their participating patterns in microbial assembly and succession remain largely unknown. In this study, we profiled the fungal community and found a similar fungal succession pattern of spring-emerged leaves from March to October in two pomelo orchards. Specifically, the fungal species, tracked on the old leaves, dominated the spring leaves after emergence and then decreased in relative abundance. This reduction in priority effects on the spring leaves was then followed by an increase in the number of observed species, Shannon and phylogenetic diversity indices, and the pathogen-associated fungal groups. In addition, we found that the temporal fungal succession on the spring leaves highly correlated with the disease occurrence in the orchards and with the temperature and precipitation variation from spring to summer. Of the pathogen-associated fungal groups, an increase in the relative abundance of Mycosphaerellaceae, hosting the causal agent of citrus greasy spot, correlated with the occurrence of the disease, while the relative abundance of Diaporthaceae, hosting the causal agent of melanose, was extremely low during the fungal succession. These results confirm that the two kinds of pathogen-associated fungal groups share different lifestyles on citrus, and also suggest that the study of temporal fungal succession in microbial communities can add to our understanding of the epidemiology of potential plant pathogens.

Development of whole cell biocatalytic system for asymmetric synthesis of esomeprazole with enhancing coenzyme biosynthesis pathway

Esomeprazole is the most popular proton pump inhibitor for treating gastroesophageal reflux disease. Previously, a phenylacetone monooxygenase mutant LnPAMOmu15 (LM15) was obtained by protein engineering for asymmetric synthesis of esomeprazole using pyrmetazole as substrate. To scale up the whole cell asymmetric synthesis of esomeprazole and reduce the cost, in this work, an Escherichia coli whole-cell catalyst harboring LM15 and formate dehydrogenase from Burkholderia stabilis 15516 (BstFDH) were constructed through optimized gene assembly patterns. CRISPR/Cas9 mediated insertion of Ptrc promoter in genome was done to enhance the expression of key genes to increase the cellular NADP supply in the whole cell catalyst, by which the amount of externally added NADP+ for the asymmetric synthesis of esomeprazole decreased to 0.05 mM from 0.3 mM for reducing the cost. After the optimization of reaction conditions in the reactor, the scalable synthesis of esomeprazole was performed using the efficient LM15-BstFDH whole-cell as catalyst, which showed the highest reported space-time yield of 3.28 g/L/h with 50 mM of pyrmetazole loading. Isolation procedure was conducted to obtain esomeprazole sodium of 99.55 % purity and > 99.9 % ee with 90.1 % isolation yield. This work provides the basis for production of enantio-pure esomeprazole via cost-effective whole cell biocatalysis.

The response of epibenthic molluscan assemblages associated with Mytilus galloprovincialis beds to natural- and human-induced changes: Structure and small-scale spatiotemporal variability

Mussel beds are species-rich and diversified biogenic habitats for associated assemblages, playing important ecological roles and contributing significantly to local littoral invertebrate biodiversity. The community structure and seasonal patterns of molluscan assemblages associated with rocky-intertidal mussel Mytilus galloprovincialis beds along NW Atlantic coast of Morocco were investigated. Sampling was conducted at reference and contaminated stations in three distant coastal areas over a 4-season sampling period (between August 2018 and May 2019). We tested the hypothesis that the biogenic mussel habitats in areas experiencing different environmental conditions along the shore would support different associated molluscan assemblages under human-induced and natural changes at small spatial and temporal scales. A total of 6371 specimens comprising 28 taxa were identified and encompassing four trophic groups (carnivores, detritivores/deposivores, micrograzers and suspensivores). Micrograzers predominated, followed by carnivores, with gastropods being the numerically dominant taxa accounting for 79 % of total abundance. Steromphala pennanti emerged as the most abundant and frequent species, across almost all seasons and stations contributing to 31 % of total abundance. Significant seasonal variations were observed in species richness and Shannon-Wiener’s index (ANOVA, p<0.05), with the highest values recorded at the most polluted stations during cold/wet periods, and the lowest at the cleanest stations during hot/warm periods. Furthermore, the ANOVA analyses unveiled a significant spatiotemporal variation in abundance, emphasizing the dynamic nature of molluscan assemblages in response to environmental conditions and seasonal changes. The multivariate structure of associated molluscan assemblages (PERMANOVA analysis) differed significantly among stations and seasons, highlighting clear geographical and seasonal effects. Gastropod species, including Acanthochitona fascicularis, Lepidochitona cinerea, Nucella lapillus, Patella ulyssiponensis, P. vulgata, Phorcus lineatus, P. sauciatus, and Steromphala pennanti, were identified as the most contributive species to the dissimilarity of molluscan assemblage structure among stations throughout seasons (SIMPER analysis). Based on the canonical correspondence analysis results, salinity, water temperature, nutrient concentrations, sediment granulometry and total organic matter were identified as the key factors driving changes in the molluscan community structure. This study underscores the ecological importance of habitat-forming mussels as ecosystem engineers and biodiversity enhancers in shallow coastal waters along the Moroccan Atlantic coast.

High spatial variability in a species-rich assemblage of diadromous fishes in Hong Kong, southern China.

China has experienced substantial coastal reclamation and damming of rivers. These changes have the potential to impact migrations of diadromous fishes between the sea and fresh waters, but the composition of these fishes and the impacts of barriers to their movement in China have received little attention. We inventoried the species composition and distribution of diadromous fishes, and the impacts of barriers on them, in the Hong Kong Special Administrative Region (HKSAR), southern China. Fish assemblages were surveyed using hand-nets, supplemented by cast-netting and single-pass snorkel surveys, in 24 small coastal streams across three regions. Surveys were undertaken on multiple occasions during the wet and dry seasons to account for the monsoonal tropical climate. Twenty-eight diadromous fishes were collected, mostly gobies, amounting to over half (53%) of the total richness of primary freshwater fishes; four additional species are known from literature records. Diadromous richness was 48% greater during the wet season, when all species were encountered. Richness varied substantially among streams, from a maximum of 17 (2 streams that were diversity hot spots) to none (3 streams). The most widespread diadromous fish was Glossogobius giuris (71% frequency of occurrence), followed by Mugil cephalus (58% occurrence) and Eleotris oxycephala (50% occurrence). The remaining 25 diadromous fishes occurred in fewer than half of the streams; 12 species were confined to a single stream and may be locally threatened. There were conspicuous spatial differences in diadromous assemblages across HKSAR, despite its limited extent (1114 km2), the proximity of the surveyed streams, and the broad geographic distribution of most species. Regional species assemblages were influenced by localized habitat characteristics, with a noticeable distinction between areas with and without large, fast-flowing, and highly oxygenated streams. The presence of in-stream barriers (weirs: 0.3-8.7 m high) did not affect spatial patterns in species assemblages, although, on average, diadromous richness was lower in weir-obstructed streams (4.0 vs. 6.9 species in unobstructed streams). In total, 18 species were confined to unobstructed streams or sections below weirs, whereas the remaining 10 species were recorded both above and below weirs. Only the mottled eel (Anguilla marmorata) and a goby (Stiphodon multisquamus) were able to ascend weirs over 2 m. Although at least 400 m of the lower course of each stream was sampled, diadromous fishes were confined to the first 300 m in 12 of the 13 weir-obstructed streams. Remarkably, the tally of 32 diadromous species in HKSAR exceeds the 19 known from mainland China, highlighting the need for further research on composition and conservation status of diadromous fishes.

Environmental filtering mediates desert ant community assembly at two spatial scales.

Understanding the mechanisms that maintain species coexistence and determine patterns of community assembly are fundamental goals of ecology. Quantifying the relationship between species traits and stress gradients is a necessary step to disentangle assembly processes and to be able to predict the outcome of environmental change. We examined the hypothesis that desert ant communities are assembled by niche-based processes i.e., environmental filtering and limiting similarity. First, we used population-level morphological trait measurements to study the functional structure of ant communities along a dryland environmental stress gradient. Second, we developed species distribution models for each species to quantify large-scale climatic niche overlap between species. Body, femur, antennal scape, and head lengths were correlated with environmental gradients. Regionally, the ant community was significantly and functionally overdispersed in terms of morphological traits which suggests the importance of competition to ant community structure. Ant community assembly was also strongly influenced by environmental factors as the degree of functional trait divergence, but not phylogenetic divergence, decreased with increasing environmental stress. Thus, environmental stress likely mediates limiting similarity in these desert ecosystems. Species with lower climatic niche overlap were more dissimilar in morphological traits. This suggests that environmental filtering on ant functional traits is important at the scale of species distributions in addition to regional scales. This study shows that environmental and biotic filtering (i.e., niche-based assembly mechanisms) are jointly and non-independently structuring the ant community.

Distinct Assembly Patterns of Soil Antibiotic Resistome Revealed by Land-Use Changes over 30 Years.

Compared with the ever-growing information about the anthropogenic discharge of nutrients, metals, and antibiotics on the disturbance of antibiotic resistance genes (ARGs), less is known about how the potential natural stressors drive the evolutionary processes of antibiotic resistance. This study examined how soil resistomes evolved and differentiated over 30 years in various land use settings with spatiotemporal homogeneity and minimal human impact. We found that the contents of soil organic carbon, nitrogen, soil microbial biomass, and bioavailable heavy metals, as well as related changes in the antibiotic resistome prevalence including diversity and abundance, declined in the order of grassland > cropland > bareland. Sixty-nine remaining ARGs and 14 mobile genetic elements (MGEs) were shared among three land uses. Multiple factors (i.e., soil properties, heavy metals, bacterial community, and MGEs) contributed to the evolutionary changes of the antibiotic resistome, wherein the resistome profile was dominantly driven by MGEs from both direct and indirect pathways, supported by a partial least-squares path model analysis. Our results suggest that pathways to mitigate ARGs in soils can coincide with land degradation processes, posing a challenge to the common goal of managing our environment sustainably.

Assembly patterns and key taxa of bacterial communities in the rhizosphere soil of moso bamboo (Phyllostachys pubescens) under different Cd and Pb pollution

Moso bamboo is excellent candidate for cadmium (Cd)/lead (Pb) phytoremediation, while rhizosphere microbiome has significant impact on phytoremediation efficiency of host plant. However, little is known about the rhizosphere bacterial communities of moso bamboo in Cd/Pb contaminated soils. Therefore, this study investigated the assembly patterns and key taxa of rhizosphere bacterial communities of moso bamboo in Cd/Pb polluted and unpolluted soils, by field sampling, chemical analysis, and 16S rRNA gene sequencing. The results indicated α-diversity between Cd/Pb polluted and unpolluted soils showed a similar pattern (p > 0.05), while β-diversity was significantly different (p < 0.05). The relative abundance analysis indicated α-proteobacteria (37%) and actinobacteria (31%) were dominant in Cd/Pb polluted soils, while γ-proteobacteria (40%) and α-proteobacteria (22%) were dominant in unpolluted soils. Co-occurrence network analysis indicated microbial networks were less complex and more negative in polluted soils than in unpolluted soils. Mantel analysis indicated soil available phosphorus, organic matter, and available Pb were the most important environmental factors affecting microbial community structure. Correlation analysis showed 11 bacterial genera were significantly positively related to Cd/Pb. Overall, this study identified the bacterial community composition of bamboo rhizosphere in responding to Cd/Pb contamination and provides a theoretical basis for microbe-assistant phytoremediation in the future.

Seasonality regulates the distinct assembly patterns of microeukaryotic plankton communities in the Three Gorges Reservoir, China.

The hydrographic and environmental factors along the Three Gorges Reservoir (TGR) have been significantly altered since the Three Gorges Dam (TGD) began working in 2006. Here, we collected 54 water samples, and then measured the environmental factors, followed by sequencing of the 18S rRNA gene and subsequent analysis of community assembly mechanisms. The findings indicated that the majority of environmental variables (such as AN, TP, Chl-a, CODMn, and Cu) exhibited both temporal and spatial variations due to the influences of the TGD. The distribution of different environmental factors and microeukaryotic plankton communities is influenced by the changing seasons. The community structure in TGR showed variations across three seasons, possibly due to variations in their environmental preferences, inherent dissimilarities, and seasonal succession. Furthermore, different communities exhibited a comparable distance-decay trend, suggesting that distinct taxa are likely to exhibit a similar spatial distribution. In addition, the community formation in TGR was influenced by both deterministic and stochastic factors, with the balance between them being mainly controlled by the season. Specifically, deterministic processes could explain 33.9-51.1% of community variations, while stochastic processes could contribute 23.5-32.2%. The findings of this research demonstrated that the varying ecological processes' significance relied on environmental gradients, geographical scale, and ecological conditions. This could offer a fresh outlook on comprehending the composition, assembly mechanisms, and distribution patterns of microeukaryotic plankton in reservoir ecosystems.

Distinct structure, assembly, and gene expression of microplankton in two Arctic estuaries with varied terrestrial inputs

The Laptev Sea is a major Marginal Sea in the Western Arctic Ocean. The Arctic amplification brought by global warming influences the hydrological properties of rivers passing through the permafrost zone, which would alter the biological community structure at continental margin. In this study, the structure, assembly, and gene expression of planktonic microbial communities in two estuaries (Protoka Ularovskaya River Estuary, PURE; Lena River Estuary, LRE) of Laptev Sea were examined to investigate the environmental effects of polar rivers. PURE and LRE exhibited distinct environmental characteristics: low temperature and high salinity for PURE, and high temperature and low salinity for LRE, influenced by runoff size. Salinity more closely influenced microbial communities in LRE, with freshwater species playing a significant role in community composition. The findings revealed differences between two estuaries in community composition and diversity. Prokaryotes and microeukaryotes had shown different assembly patterns in response to habitat changes caused by terrestrial freshwater input. Furthermore, compared with the PURE, the co-occurrence and inter-domain network of the LRE, which was more affected by terrestrial input, was more complex and stable. Functional gene prediction revealed a higher gene expression of methane metabolism in LRE than in PURE, particularly those related to methane oxidation, and this conclusion could help better explore the impact of global warming on the methane cycle in the Arctic Marginal Seas. This study explored the increased freshwater runoffs under the background of global warming dramatically affect Arctic microplankton communities from community structure, assembly and gene expression aspects.

Environmental DNA metabarcoding reveals fish diversity, community assembly and one invasive species prevalence in a National Park of Liaohe in September

The escalating environmental changes are imposing multiple pressures on biodiversity conservation, thereby, more attention has been paid to fish diversity and community assembly patterns. Fish diversity in Liaohe River has deteriorated significantly due to overfishing, environmental pollution and other reasons, in addition, no fish survey related research has been published in Liaohe National Park in recent years. In order to study the diversity of fish species in the area and to investigate the presence of any invasive species. This study used eDNA metabarcoding to explore the distribution and diversity of fish communities in the Liaohe National Park. The study showed that a total of 54 species of fish from six orders, 14 families, and 39 genera were detected, meantime, the invasive species Lepomis cyanellus was found at two sampling sites. The α-diversity results showed that estuarine sites had the highest species diversity. The spatial structure of fish communities in the upstream and downstream reaches were similar as indicated by non-metric multidimensional scaling. In our study, the fish community is influenced by both deterministic and stochastic processes, with the stochastic processes being the main factor. The potential existence of L. cyanellus in Liaohe National Park might be resulted from aquaculture, ornamental pet trade, other economic fish farming, artificial release. The relatively low number of fish species in this study may be attributed to the limited number of sampling events and sampling sites. In addition to these factors, over exploitation of resources, water pollution, and the invasion of alien species have directly impacted the biodiversity of aquatic life. The results of this study lay a foundation for the future biodiversity investigation in National Parks of China, meantime, the use of eDNA monitoring is crucial to prevent, to control and limit the spreading of invasive species in advance.