Search Results (65)

Microbial communities are crucial to maintaining the ecological health of lakes, but their response to water quality and eutrophication is poorly understood. This study analyzed seasonal variation in the effect of water quality parameters on microbial community structure and function at southern Lake Taihu. We observed poor water quality in autumn (low dissolved oxygen concentration and water transparency) with severe eutrophication (high in nitrogen, phosphorus, and microcystins). Microcystins were a major indicator of water quality that affected total phosphorus and dissolved oxygen concentrations. Redundancy analysis revealed that total nitrogen, total phosphorus, nitrate, ammonium, and microcystins, temperature, and dissolved oxygen all significantly influenced the microbial community. Microbial co-occurrence networks revealed significant seasonal variations, with autumn and winter exhibiting a more complex structure than other seasons. Additionally, we identified microcystin-sensitive microbial species as eutrophication indicators; they are involved in bacterial community components and metabolic function and fluctuate under seasonal changes to water quality. In conclusion, our findings provide insight into the relationship between water quality and microbial communities, offering an empirical basis for improving the sustainable management of Lake Taihu. Full article

Aquatic fungi serve as core ecological engines in freshwater ecosystems, driving organic matter decomposition and energy flow to sustain environmental balance. Wetlands, with their distinct hydrological dynamics and nutrient-rich matrices, serve as critical habitats for these microorganisms. As an internationally designated Ramsar Site, Yunnan Dashanbao Black-Necked Crane National Nature Reserve in China not only sustains endangered black-necked cranes but also harbors a cryptic reservoir of aquatic fungi within its peat marshes and alpine lakes. This study employed high-throughput sequencing to characterize fungal diversity and community structure across 12 understudied wetland sites in the reserve, while analyzing key environmental parameters (dissolved oxygen, pH, total nitrogen, and total phosphorus). A total of 5829 fungal operational taxonomic units (OTUs) spanning 649 genera and 15 phyla were identified, with Tausonia (4.17%) and Cladosporium (1.89%) as dominant genera. Environmental correlations revealed 19 genera significantly linked to abiotic factors. FUNGuild functional profiling highlighted saprotrophs (organic decomposers) and pathogens as predominant trophic guilds. Saprotrophs exhibited strong associations with pH, total nitrogen, and phosphorus, whereas pathogens correlated primarily with pH. These findings unveil the hidden diversity and ecological roles of aquatic fungi in alpine wetlands, emphasizing their sensitivity to environmental gradients. By establishing baseline data on fungal community dynamics, this work advances the understanding of wetland microbial ecology and informs conservation strategies for Ramsar sites. Full article

The Qinghai–Tibet Plateau is a key region for biodiversity conservation, where alpine grasslands are ecologically important. While previous studies have mainly addressed vegetation, ecosystem processes, and soil microbes, phyllosphere microorganisms are essential for nutrient cycling, plant health, and stress tolerance. However, their communities remain poorly understood compared to those in soil. The relative influence of host identity and environmental conditions on shaping phyllosphere microbial diversity and community assembly remains uncertain. In this study, we characterized phyllosphere bacterial and fungal communities of the phyllosphere at two alpine steppe sites with similar vegetation but climatic conditions: the Qilian Mountains (QLM) and the Qinghai Lake region (LQS). At both sites, Cyanobacteriota and Ascomycota were the predominant bacterial and fungal taxa, respectively. Microbial α-diversity did not differ significantly between the two regions, implying that host-associated mechanisms may stabilize within-site diversity. In contrast, β-diversity exhibited clear spatial differentiation. In QLM, bacterial β-diversity was significantly correlated with mean annual precipitation, while fungal α- and β-diversity were associated with soil nutrient levels (including nitrate, ammonium, available potassium, and phosphorus) and vegetation coverage. At LQS, the β-diversity of both bacterial and fungal communities was strongly influenced by soil electrical conductivity, and fungal communities were further shaped by vegetation cover. Community assembly processes were predominantly stochastic at both sites, although deterministic patterns were more pronounced in QLM. Variability in moisture availability contributed to random bacterial assembly at LQS, while increased environmental heterogeneity promoted deterministic assembly in fungal communities. The elevated diversity of microbes and plants in QLM also reinforced deterministic processes. Overall, our findings support a host–environment interaction hypothesis, indicating that host factors primarily govern α-diversity, while climatic and soil-related variables have stronger effects on β-diversity and microbial assembly dynamics. These insights advance our understanding of how phyllosphere microbial communities may respond to environmental change in alpine ecosystems. Full article

Artificial reservoirs formed by hydroelectric dams are young ecosystems requiring water quality monitoring, as they often serve local populations. Traditionally, this is performed through hydrochemical and sanitary assessments, alongside phytoplankton composition analysis. This study aimed to assess the seasonal dynamics of microbial communities—both bacterioplankton and microeukaryotes including phytoplankton—in the Irkutsk Reservoir (IR), which is fed by the cold oligotrophic waters of Southern Baikal (SB). Using parallel metabarcoding of 16S and 18S rRNA gene fragments, we analyzed community composition during the open-water season and evaluated the ecological connectivity between these two freshwater systems. We demonstrated that seasonal changes in microeukaryotic communities were closely linked between SB and IR, with the greatest divergence observed in early summer and progressive convergence by autumn. Metabarcoding confirmed microscopy-based observations while providing higher taxonomic resolution and detecting otherwise overlooked groups. Bacterioplankton communities also exhibited seasonal variation and were shaped by environmental gradients and reservoir characteristics. Cyanobacteria peaked in SB in late summer but did not dominate communities, unlike in mesotrophic lowland reservoirs. These findings demonstrate the value of metabarcoding for freshwater monitoring and provide new insights into microbial community dynamics in river–reservoir systems influenced by oligotrophic lake inflow. Full article

Urban lake degradation caused by intensive urbanization necessitates systematic solutions, with water connectivity being a crucial ecological restoration strategy. This study evaluates the two-year effects (2020–2022) of connectivity interventions on seven lakes in Yangshuo, Guilin, classified by connectivity: multi-channel (Mc), single-channel (Sc), and non-connected (Nc). Regular monitoring of the physicochemical parameters and microbial communities revealed significant patterns: multi-channel connected lakes exhibited superior water quality improvement, with trophic state downgrading (weak eutrophic → mesotrophic), but the water quality of Sc-BQ was deteriorating. Seasonal variations showed wet season peaks in pH, DO, COD_Mn, and Chl-a, versus dry season elevations in NH₃-N, NO₃-N, TN, and TP. Correlation analysis identified organic matter as the primary driver of eutrophication, with TN strongly linked to NH₃-N, indicating persistent domestic sewage contamination. Microbial community restructuring was accompanied by changes in water quality, and the abundance and diversity of OTUs decreased after restoration. Notably, Limnohabitans dominated Mc lakes (31.82–35.1%), while Pleurocapsa prevailed (37.85%) in Nc-LH under weak eutrophic conditions. These findings demonstrate that multi-channel connectivity effectively enhances hydrodynamic conditions and pollutant dispersion, whereas inadequate connectivity exacerbates nutrient accumulation. The study provides critical empirical evidence for optimizing urban lake management, emphasizing the necessity of multi-dimensional connectivity designs and targeted control of untreated sewage inputs in water system rehabilitation projects. Full article

The phyllosphere microbiome of aquatic macrophytes constitutes an integral component of freshwater ecosystems, serving crucial functions in global biogeochemical cycling and anthropogenic pollutant remediation. In this study, we examined the assembly mechanisms of epiphytic bacterial communities across four phylogenetically diverse macrophyte species (Scirpus validus, Hippuris vulgaris, Nymphoides peltatum, and Myriophyllum spicatum) inhabiting Ningwu Mayinghai Lake (38.87° N, 112.20° E), a vulnerable subalpine freshwater system in Shanxi Province, China. Through 16S rRNA amplicon sequencing, we demonstrate marked phyllospheric microbiome divergence, as follows: Gammaproteobacteria dominated S. validus, H. vulgaris and N. peltatum, while Alphaproteobacteria dominated in M. spicatum. The nitrate, nitrite, and pH value of water bodies and the chlorophyll, leaf nitrogen, and carbon contents of plant leaves are the main driving forces affecting the changes in the β-diversity of epiphytic bacterial communities of four plant species. The partitioning of assembly processes revealed that deterministic dominance governed S. validus and M. spicatum, where niche-based selection contributed 67.5% and 100% to community assembly, respectively. Conversely, stochastic processes explained 100% of the variability in H. vulgaris and N. peltatum microbiomes, predominantly mediated by dispersal limitation and ecological drift. This investigation advances the understanding of microbial community structural dynamics and diversity stabilization strategies in aquatic macrophyte-associated microbiomes, while establishing conceptual frameworks between plant–microbe symbiosis and the ecological homeostasis mechanisms within vulnerable subalpine freshwater ecosystems. The empirical references derived from these findings offer novel perspectives for developing conservation strategies aimed at sustaining biodiversity equilibrium in high-altitude lake habitats, particularly in the climatically sensitive regions of north-central China. Full article

Nitrate is the most prevalent inorganic pollutant in aquatic environments, posing a significant threat to human health and the ecological environment, especially in lakes and groundwater, which are located in the high agricultural activity intensity areas. In order to reveal the sources of nitrogen pollution in lakes and groundwater, this study of the transformation mechanism of nitrogen in the interaction zone between lakes and groundwater has become an important foundation for pollution prevention and control. The coupling effect between the biogeochemical processes of nitrate and iron has been pointed out to be widely present in various water environments in recent years. However, the impact of iron minerals on nitrate reduction in the lake–groundwater interaction zone of a high-salinity environment still remains uncertain. Based on the sediment and water chemistry characteristics of the Chagan Lake–groundwater interaction zone in northeastern China (groundwater TDS: 420~530 mg/L, Na⁺: 180~200 mg/L, and Cl⁻: 15~20 mg/L and lake water TDS: 470~500 mg/L, Na⁺: 210~240 mg/L, and Cl⁻: 71.40~87.09 mg/L), this study simulated relative oxidizing open system conditions and relative reducing closed conditions to investigate hematite and siderite effects on nitrate reduction and microbial behavior. The results indicated that both hematite and siderite promoted nitrate reduction in the closed system, whereas only siderite promoted nitrate reduction in the open system. Microbial community analysis indicated that iron minerals significantly promoted functional bacterial proliferation and restructured community composition by serving as electron donors/acceptors. In closed systems, hematite addition preferentially enriched Geobacter (denitrification, +15% abundance) and Burkholderiales (DNRA, +12% abundance), while in open systems, siderite addition fostered a distinct iron-carbon coupled metabolic network through Sphingomonas enrichment (+48% abundance), which secretes organic acids to enhance iron dissolution. These microbial shifts accelerated Fe(II)/Fe(III) cycling rates by 37% and achieved efficient nitrogen removal via combined denitrification and DNRA pathways. Notably, the open system with siderite amendment demonstrated the highest nitrate removal efficiency (80.6%). This study reveals that iron minerals play a critical role in regulating microbial metabolic pathways within salinized lake–groundwater interfaces, thereby influencing nitrogen biogeochemical cycling through microbially mediated iron redox processes. Full article

The increasing global demand for food caused by a growing world population has resulted in environmental problems, such as the destruction of ecologically significant biomes and pollution of ecosystems. At the same time, the intensification of crop production in modern agriculture has led to the extensive use of synthetic fertilizers to achieve higher yields. Although chemical fertilizers provide essential nutrients and accelerate crop growth, they also pose significant health and environmental risks, including pollution of groundwater and other bodies of water such as rivers and lakes. Soils that have been destabilized by indiscriminate clearing of vegetation undergo a desertification process that has profound effects on microbial ecological succession, impacting biogeochemical cycling and thus the foundation of the ecosystem. Tropical countries have positive aspects that can be utilized to their advantage, such as warmer climates, leading to increased primary productivity and, as a result, greater biodiversity. As an eco-friendly, cost-effective, and easy-to-apply alternative, biofertilizers have emerged as a solution to this issue. Biofertilizers consist of a diverse group of microorganisms that is able to promote plant growth and enhance soil health, even under challenging abiotic stress conditions. They can include plant growth-promoting rhizobacteria, arbuscular mycorrhizal fungi, and other beneficial microbial consortia. Bioremediators, on the other hand, are microorganisms that can reduce soil and water pollution or otherwise improve impacted environments. So, the use of microbial biotechnology relies on understanding the relationships among microorganisms and their environments, and, inversely, how abiotic factors influence microbial activity. The recent introduction of genetically modified microorganisms into the gamut of biofertilizers and bioremediators requires further studies to assess potential adverse effects in various ecosystems. This article reviews and discusses these two soil correcting/improving processes with the aim of stimulating their use in developing tropical countries. Full article

Since ancient times, the community of Xochimilco in the south of Mexico City has provided vegetables for the entire city. Today, Lake Xochimilco is listed as a UNESCO World Heritage Site because it is the last remaining bastion of Aztec culture and preserves the extraordinary ecological landscape of chinampas, a system of arable islands that has endured for over 1000 years. Here, we report on the microbiological communities currently existing in the lake. This is relevant since the water irrigates crops on the islands, known as chinampas. To achieve this, samples from the lake were collected at two different sites, and metagenomics analysis of the 16S gene was conducted. The results indicate the presence of five dominant bacterial phyla: Actinobacteria (44.5%), Proteobacteria (22.5%), Firmicutes (13%), Bacteroidota (6%), and Chloroflexi (4.6%). The most abundant families were Micrococcaceae, Intrasporangiaceae, and Rhodobacteraceae. The results correlate with current anthropogenic activity, indicating a moderate problem associated with contamination. Our findings suggest that immediate actions and increased awareness are necessary to preserve this cultural and natural heritage site and to take steps to comply with Sustainable Development Goal 11 (Sustainable Cities and Communities). Furthermore, this is the first report to characterize microbial communities in the water of Lake Xochimilco using 16S rRNA gene sequencing. Full article

The effects of plant configuration modes on soil organic carbon fractions are mainly reflected in plant species, root structure, apoplastic input, and microbial activity, and different plant configuration modes affect the accumulation and stability of soil organic carbon by changing the input and decomposition processes of organic matter. Considering the common use of local species in ecological restoration and their diverse ecological functions, we selected five different plant configuration modes in the lakeshore zone of Hongze Lake (Metasequoia glyptostroboides-Amorpha fruticosa L. (M-Af), Metasequoia glyptostroboides-Acorus calamus L. (M-Ac), Salix babylonica L.-Amorpha fruticosa L. (S-Af), Magnolia grandiflora L.-Nandina domestica Thunb. (Mg-N), and Pterocarya stenoptera C. DC.-Nandina domestica Thunb. (P-N)) in this study. The objective of the present study was to analyze the carbon content in the vegetation, the content of soil organic carbon and its components in the understorey, and the activity of the soil carbon pool and their interrelationships under different plant configuration modes in the lakeshore zone of Hongze Lake to reveal the dynamic change law in the carbon pool under different plant configuration modes. The findings demonstrated that within the Metasequoia glyptostroboides mode, M-Ac exhibited notable benefits in accumulating soil organic carbon and enhancing the stability of carbon fractions. The soil organic carbon (SOC) content was recorded at 3.93 g·kg⁻¹, the total carbon (TC) content at 4.73 g·kg⁻¹, and the mineral-associated organic carbon (MAOC) content of 2.20 g·kg⁻¹ in the soil layer of 0–20 cm, which were 23.4%–71.6%, 9%–24.5%, and 18.9%–54.3% (p < 0.05), respectively, and were higher than the other configuration modes. Regarding the percentage of inactive carbon (NLC/SOC), the corresponding values for M-Ac and M-Af were 74.21% and 70.33%, respectively, which were significantly higher than the other modes. Redundancy analysis further showed that the soil whole carbon and arbor layer branch carbon content were the pivotal factors driving the accumulation of soil organic carbon fractions (with a cumulative explanation of 71.26%). This study has the potential to provide a theoretical basis and practical reference for optimizing plant allocation and enhancing the carbon sink function in the ecological restoration of the lakeshore zone. Full article

The distribution and assembly mechanisms of microorganisms in Antarctic lakes and glaciers remain poorly understood, despite their ecological significance. This study investigates the bacterial diversity and community composition in glacier borehole meltwater samples from the eastern Broknes Peninsula of the Larsemann Hills and adjacent lake water samples in East Antarctica using high—throughput 16S rRNA gene sequencing. The results show that bacterial diversity in glacier borehole meltwater increased with depth, but remained lower than in lake water. Significant compositional differences were observed between lake and glacier borehole bacterial communities, with higher relative abundances of Actinobacteria, Bacteroidia, Cyanobacteriia, and Verrucomicrobiae in glacier borehole water samples, while Alphaproteobacteria, Gammaproteobacteria, OLB14 (phylum Chloroflexi), Acidimicrobiia, and Thermoleophilia were more abundant in lake samples. These differences were attributed to distinct community assembly mechanisms: stochastic processes (ecological drift and dispersal limitation) dominated in lakes, while both stochastic (ecological drift and homogeneous dispersal) and deterministic (homogeneous selection) processes played key roles in glacier boreholes. This study enhances our understanding of bacterial community assembly and distribution patterns in Antarctic glacier ecosystems, providing insights into microbial biodiversity and biogeochemical cycling in these extreme environments. Full article

Arbuscular mycorrhizal fungi (AMF) play a pivotal role in sustainable agriculture by enhancing nutrient efficiency and reducing the dependence on synthetic fertilizers. Developing these sustainable, effective products requires knowledge of the target plant and its associated microbial communities in the production landscape of interest. This study focused on AMF populations associated with Tir wheat in six main locations of Türkiye’s Van Lake Basin. The Erçek-Özalp-Saray region exhibited the highest organic matter values. Higher available phosphorous contents were found for Erciş-Patnos and Muradiye. The Erciş-Patnos region exhibited the highest AMF density (120 spores/10 g soil) and frequency (75%), while the lowest AMF density (45 spores/10 g soil) was recorded in Muradiye. Sand contents correlated positively with spore number and mycorrhizal frequency and negatively with silt and clay. Based on these results, Erciş-Patnos was elected as the best location for the isolation of AMF spores suitable for the development of microbial-based tools for Tir wheat cultivation. These results are very important in the current context of climate change, which mandates the use of low-impact environmental strategies. Further research should explore the interactions of AMFs with other microorganisms to optimize their ecological benefits. However, the results of this study provide a valuable basis for future investigations of AMF-based products for use in sustainable Tir wheat cultivation. Full article

Background: Lake Al-Asfar in KSA was used as a sink for wastewater for decades and suffered from pollution. The lake is a habitat to different microbial species that play important ecological roles, some of which are good, and some are bad and even pathogenic. In a previous investigation, algal-bacteria consortia have proven to be beneficial in bioremediating heavy metals and hydrocarbons in Lake Al-Asfar. The identity of algae was revealed to be Chlorella sp. and Geitlernema sp. in the consortia. The identity of the heterotrophic bacterial partners, on the other hand, awaits investigation and is addressed in the present research. On the other hand, investigating the diversity of Protozoa and parasites is also tackled as they represent indicators of pollution. Some pose serious health risks, but some of them also contribute to reducing some of the pollution levels. Methods: Bacteria associated with algae were isolated in pure form. The polyphasic approach was used to identify bacterial samples, including staining procedures, the use of Vitek technology, and scanning electron microscopy. This information was integrated with structure information such as capsule presence, endospore formation, and wall characteristics indicated by Gram stain. With regard to protists including Protozoa and parasites, Light microscopy and taxonomic books of identification were used to reveal their identity. Results: three main bacterial strains belonging to the following genera were identified: Sphingomonas, Rhizobium, and Enterbacter. The last is potentially pathogenic and poses health risks to Lake goers. Rhizobium, on the other hand, is most likely found in the lake from agricultural wastewater and is a nitrogen fixer that increases the fertility of crops. The first bacterium is associated with special lipid metabolism and is hardly pathogenic. Several diverse microscopic forms of protists, mainly Protozoa and parasites, were identified, which included Entamoeba histolytica, Balantidium coli, Ascaris lumbricoides, Amoeba, Paramecium, Euglena, and Gymnodinium sp. Discussion: The three types of bacteria identified have metabolic activities that are associated with bioremediation. On the other hand, protists, including Protozoa and parasites, are regular members of wastewater communities and help in scavenging solid wastes, but they cause hazards such as secreting toxins, causing disease, and impacting the bioremediation potential by feeding on beneficial bioremediating algae and bacteria. This is part of the wastewater ecosystem dynamics, but efforts must be exerted to minimize, if not completely eliminate, pathogenic parasites in order to maximize the growth of algal consortia. Conclusions: Vitek technology is an emerging less time- and effort-consuming fast technology for identifying bacteria. Bacteria identified have significant ecological bioremediating roles, together with their algal partners, but some pose pathogenic risks. Identifying co-inhabitants like protists and parasites helps to shed light on their impact on one another and pave the way for restoration efforts that minimize the biological hazards and maximize the use of beneficial local microorganisms. Full article

Background: Soil microbes play a vital role in the ecosystem as they are able to carry out a number of vital tasks. Additionally, metagenomic studies offer valuable insights into the composition and functional potential of soil microbial communities. Furthermore, analyzing the obtained data can improve agricultural restoration practices and aid in developing more effective environmental management strategies. Methodology: In November 2023, sandy soil samples were collected from ten sites of different geographical areas surrounding natural lakes and artificial water points in the Tubaiq conservation area of King Salman Bin Abdulaziz Royal Natural Reserve (KSRNR), Saudi Arabia. In addition, genomic DNA was extracted from the collected soil samples, and 16S rRNA sequencing was conducted using high-throughput Illumina technology. Several computational analysis tools were used for gene prediction and taxonomic classification of the microbial groups. Results: In this study, sandy soil samples from the surroundings of natural and artificial water resources of two distinct natures were used. Based on 16S rRNA sequencing, a total of 24,563 OTUs were detected. The metagenomic information was then categorized into 446 orders, 1036 families, 4102 genera, 213 classes, and 181 phyla. Moreover, the phylum Pseudomonadota was the most dominant microbial community across all samples, representing an average relative abundance of 34%. In addition, Actinomycetes was the most abundant class (26%). The analysis of clustered proteins assigned to COG categories provides a detailed understanding of the functional capabilities and adaptation of microbial communities in soil samples. Amino acid metabolism and transport were the most abundant categories in the soil environment. Conclusions: Metagenome analysis of sandy soils surrounding natural lakes and artificial water points in the Tubaiq conservation area of KSRNR (Saudi Arabia) has unveils rich microbial activity, highlighting the complex interactions and ecological roles of microbial communities in these environments. Full article

Poyang Lake is the largest freshwater lake in China, which boasts unique hydrological conditions and rich biodiversity. In this study, metagenomics technology was used to sequence the microbial genome of soil samples S1 (sedimentary), S2 (semi-submerged), and S3 (arid) with different water content from the Poyang Lake wetland; the results indicate that the three samples have different physicochemical characteristics and their microbial community structure and functional gene distribution are also different, resulting in separate ecological functions. The abundance of typical ANME archaea Candidatus Menthanoperedens and the high abundance of mcrA in S1 mutually demonstrate prominent roles in the methane anaerobic oxidation pathway during the methane cycle. In S2, the advantageous bacterial genus Nitrospira with ammonia oxidation function is validated by a large number of nitrification functional genes (amoA, hao, nxrA), manifesting in that it plays a monumental role in nitrification in the nitrogen cycle. In S3, the dominant bacterial genus Nocardioides confirms a multitude of antibiotic resistance genes, indicating their crucial role in resistance and their emphatic research value for microbial resistance issues. The results above have preliminarily proved the role of soil microbial communities as indicators predicting wetland ecological functions, which will help to better develop plans for restoring ecological balance and addressing climate change. Full article