Search Results (10,251)

Soil degradation poses a serious threat to the sustainability of global agricultural development, endangering the foundation and environment of human survival. Therefore, elucidating the effects of different agricultural production patterns on the quality and health of paddy soils is of great significance. To investigate the impact of the integrated rice-red swamp crayfish farming on paddy soil health, this paper systematically analyzed the differences in 19 soil physicochemical indicators and bacterial and eukaryotic microbial communities between the traditional rice monoculture (TRM) and integrated rice-red swamp crayfish (Procambarus clarkii) farming (IRPF), and it features a comprehensive quantitative assessment of paddy soil health status through Principal Component Analysis based on a minimum dataset. The experimental results showed that IRPF significantly increased the soil aggregate mean weight diameter, total phosphorus, available potassium, cation exchange capacity, pH, available zinc, and available silicon contents. Meanwhile, IRPF exerted marked effects on the beta diversity and composition of both bacterial and eukaryotic microbial communities, markedly enhancing the relative abundances of Bacillariophyta and Chlorophyta in the paddy soil. The integrated analysis of 19 soil physicochemical indicators along with bacterial and eukaryotic microbial community parameters revealed that the Soil Health Index under IRPF was obviously higher than that under the rice monoculture. In conclusion, the integrated rice-red swamp crayfish farming system markedly impacted the soil fertility, effectively improved soil aggregate structure and enhanced the overall paddy soil health status, representing a promising and sustainable agricultural production pattern within a single production cycle. Full article

Jujube (Ziziphus jujuba Mill.) cultivation in arid regions of China faces severe soil constraints, including high alkalinity, low organic matter content, and poor water retention. Although soil amendments have demonstrated potential for improving soil quality, their combined effects on soil–plant–microbe interactions in desert agroecosystems remain poorly understood. This study conducted a three-year field experiment in a desert jujube orchard in southern Xinjiang, China, to evaluate six nitrogen fertilizer management strategies: urea alone (CK) or combined with biochar (NB), bentonite (NP), graphene (NS), biochar plus bentonite (NBP), or microbial inoculants (NW). Soil physicochemical properties, enzyme activities, bacterial community structure, and jujube yield were analyzed. Structural equation modeling (SEM) was employed to elucidate the pathways linking soil amendments to crop productivity. Results showed that NBP was the most effective in improving soil physical structure, significantly reducing bulk density and enhancing water retention capacity compared to the control. The NBP treatment also enhanced soil organic matter (30% increase), available phosphorus (119% increase), and urease activity (44% increase), resulting in the highest jujube yield (7.14 kg per tree). Bacterial community analysis revealed that NBP significantly increased Shannon diversity and enriched Actinobacteriota and Proteobacteria. SEM analysis indicated that urease activity served as a significant mechanistic pathway linking soil organic matter improvements to enhanced crop productivity. These findings demonstrate that combined application of biochar and bentonite with nitrogen fertilizer represents an effective strategy for improving soil quality, enhancing microbial functionality, and increasing crop yield in desert jujube orchards, providing a practical and synergistic amendment combination for sustainable soil management and productivity enhancement in arid agroecosystems. Full article

Eukaryotic microorganisms, including microalgae, protists, fungi, and micro-metazoans, act as drivers of energy flow and nutrient cycling, collectively forming the microbial food loop, and also serve as important indicators of environmental health. To investigate the seasonal variation in eukaryotic microorganisms in a mussel farming area, a total of 96 seawater samples were collected from surface and bottom layers of water across different seasons. High-throughput sequencing of the 18S rRNA gene was employed to characterize shifts in microbial community structure and identify key influencing factors. Our results indicated significant seasonal differences in eukaryotic microbial communities between surface and bottom waters. Redundancy Analysis (RDA) revealed that seasonal variations in community structure were primarily driven by environmental factors such as temperature, dissolved oxygen (DO), and salinity. Co-occurrence network analysis indicated that surface water networks exhibited higher numbers of nodes and edges, as well as greater modularity, suggesting more distinct niche differentiation and higher natural connectivity within the community. These findings provide fundamental data for understanding the response mechanisms of eukaryotic microbial communities to seasonal changes in the mussel cultivation area of Gouqi Island. Full article

Probiotics are widely used to support host health by modulating microbial communities and immune–metabolic homeostasis. Such interventions may be particularly relevant in long COVID syndrome, a condition characterized by persistent symptoms, low-grade inflammation, and microbiota alterations following SARS-CoV-2 infection. This study investigated the effects of a multi-strain probiotic on gut microbiota composition and predicted functional potential and biochemical parameters in individuals with long COVID and convalescent participants. Healthy individuals were included as reference controls. In an interventional study, 34 participants received a 12-week probiotic formulation containing Saccharomyces boulardii, Lacticaseibacillus rhamnosus GG, and two Lactiplantibacillus plantarum strains, while 40 served as non-supplemented controls. Fecal microbiota, assessed using 16S rRNA sequencing, and biochemical markers were measured at baseline and post-intervention. Probiotic supplementation induced selective compositional changes without significantly altering overall microbial diversity. Effects were more pronounced in long COVID participants and included enrichment of bacteria associated with metabolic and immune regulation, including Adlercreutzia, Coprococcus, and Eubacterium. Functional prediction analysis identified a probiotic-responsive signature in long-COVID-affected individuals, characterized by enrichment of pathways related to energy metabolism and redox balance. These microbial changes were accompanied by a consistent trend toward reduced inflammatory and hepatic markers. Overall, probiotic intervention demonstrated microbiota-status-dependent potential in long COVID recovery. Full article

In the process of anaerobic digestion for manure treatment, adding conductive materials is one of the most used methods to enhance methane yield. Biochar, a stable conductive material, shows significant potential in facilitating direct interspecies electron transfer in anaerobic digestion systems. However, biochar’s structure and properties are influenced by its preparation method, and the mechanisms by which structural characteristics affect methane yield and microbial community structure in fermentation systems require further investigation. This study investigates the effects of pyrolysis duration (1 h for A3O and 2 h for A3T) at 550 °C using corn straw as raw material. Through characterization analyses including SEM, FTIR, conductivity, and elemental composition, we explore the impacts on gas production efficiency and key parameters in anaerobic digestion systems. By analyzing microbial community structure and changes in methanogenic functional bacteria, we elucidate the mechanisms by which biochar materials with different pyrolysis times influence anaerobic digestion processes and microbial community composition. These findings provide theoretical foundations and support for optimizing biochar preparation techniques and their targeted applications in anaerobic digestion fields. It was found that the biochar-treated group exhibited higher methane production. Compared with the CK group without biochar, the methane production of A3O and A3T increased by 8.53% and 5.16%, respectively. While methane yield differed little between A3O and A3T, longer pyrolysis time increased the biochar’s specific surface area, promoting the system’s reaction rate and enabling faster methanogenesis. High-throughput analysis showed that biochar enriched methanogenic archaea like Methanosarcina and Methanobrevibacter while upregulating methanogenesis metabolic pathways and enhancing system metabolic potential. This study elucidates the influence of pyrolysis conditions on biochar performance and its regulatory role in anaerobic digestion, providing a basis for energy recovery from organic waste and biochar application in anaerobic fermentation. Full article

This study investigated the characteristics and interrelationships of polycyclic aromatic hydrocarbons (PAHs), phthalate esters (PAEs), and microbial communities in coastal river sediments and benthic mollusks collected from an e-waste recycling area in Taizhou, Zhejiang Province. In sediments, 16 PAHs and six PAEs were detected, with concentrations ranging from 2.66 to 379.99 μg/kg and 76.5 to 3426.57 μg/kg, respectively. Four-ring PAHs (particularly fluoranthene and pyrene) and Bis(2-ethylhexyl) phthalate (DEHP) were dominant, with DEHP posing a potential risk, especially at site 10, warranting further attention. In contrast, only eight PAHs and four PAEs were detected in mollusks, with concentrations of 60.14–523.10 μg/kg and 144.55–3005.71 μg/kg, respectively. Two-ring PAHs (particularly naphthalene) and Dibutyl phthalate (DBP) were dominant, likely derived directly from the overlying water. The PAHs in sediments primarily originated from fossil fuel combustion, biomass burning, and coal combustion, while PAEs were likely derived from the release of plastic waste from solid waste recycling. Lower concentrations and fewer PAH and PAE species were observed in the sediments near the ocean and at greater distances from the e-waste recycling sites. Significant differences were observed in microbial communities between sediment and mollusk samples. Dominant phyla shared by both sample types include proteobacteria, bacteroidetes, firmicutes, and acidobacteria. The concentration of low-ring PAHs was correlated with the microbial communities, particularly in mollusk samples. Relationships were also identified between microbial communities and DEHP concentrations in sediments or DBP concentrations in mollusks. Full article

In this study, pristine biochar (BC1) and magnesium-modified biochar (BC2) were prepared from corn straw. Different nitrogen deposition intensities (0, 8, 30, and 50 kg N/(ha·yr)) were simulated by adding NH₄NO₃ solution. A laboratory incubation experiment was conducted to investigate the effects of biochar addition and N deposition on CO₂ emissions, CH₄ uptake, and microbial community structure in soils from a temperate mixed conifer–broadleaf forest. The results showed that BC1 significantly increased cumulative CO₂ emissions (p < 0.05), while no significant difference was observed between BC2 and the control. N deposition had no significant effect on CO₂ emissions. Biochar addition significantly promoted cumulative CH₄ uptake (p < 0.05), with BC2 exhibiting a stronger promoting effect than BC1. In contrast, N deposition significantly inhibited CH₄ uptake (p < 0.05) in a dose-dependent manner. Spearman’s correlation analysis revealed that cumulative CO₂ emissions were significantly or highly significantly negatively correlated with the relative abundances of Elusimicrobiota, Actinomycetota, Chloroflexota, Planctomycetota, Acidibacter, Bacillus, Paenibacillus, Acidothermus, and Mycobacterium, and significantly positively correlated with Bacteroidota, Bdellovibrionota, Pseudomonadota, Devosia, and Mesorhizobium. Cumulative CH₄ uptake was highly significantly positively correlated with the relative abundance of Bacteroidota and significantly negatively correlated with Chloroflexota, Candidatus_Eremiobacterota, and Mycobacterium. These findings demonstrate that N deposition has no significant impact on soil CO₂ emissions but significantly inhibits CH₄ uptake, while magnesium-modified corn straw biochar promotes CH₄ uptake without substantially increasing CO₂ emissions, highlighting its promising application potential. Full article

Reducing enteric methane emissions from ruminants has emerged as a critical environmental priority in the face of global climate change, given the substantial contribution of methane to agricultural greenhouse gas outputs. This study evaluated the potential of spearmint essential oil (SEO) to reduce methane production and enhance energy utilization efficiency using an in vitro rumen fermentation system. The experiment comprised a control (CON, no additive), three SEO doses (L-SEO: 100 mg/L; M-SEO: 200 mg/L; H-SEO: 400 mg/L), and a commercial essential oil blend (AGL: 150 mg/L). Results indicated that M-SEO and H-SEO significantly reduced methane production at 24 h from 58.11 mL/g DM in CON to 47.93 and 46.58 mL/g DM, respectively (p < 0.001), corresponding to reductions of 17.5% and 19.8%. Furthermore, M-SEO increased total volatile fatty acid concentration from 48.41 to 58.10 mmol/L and elevated the molar proportion of propionate, while significantly enhancing microbial crude protein production (p < 0.001). Microbial community analysis revealed that M-SEO increased bacterial alpha-diversity (Shannon index) (p = 0.001) and significantly enriched specific functional guilds, particularly the propionate-producing genus Succiniclasticum and the butyrate-producing genus Butyrivibrio. Interestingly, the abundance of dominant methanogens (Methanobrevibacter) was not reduced, suggesting a metabolic inhibition mechanism rather than a biocidal effect. Functional prediction analysis further supported this, indicating a downregulation of pathways associated with methanogenesis, including key enzymes such as methyl-coenzyme M reductase. In conclusion, SEO supplementation at 200 mg/L effectively reduced methane production by redirecting metabolic hydrogen toward propionate formation, without affecting overall fermentation. Therefore, the current study indicated that SEO could serve as a sustainable feed additive for mitigating enteric methane emissions in ruminants. Full article

The cervicovaginal microbiome (CVMB) is pivotal in maintaining the homeostasis of the lower female genital tract and has emerged as a significant modulator of cervical carcinogenesis. Although persistent infection with high-risk human papillomavirus (HR-HPV) is a prerequisite for the development of cervical intraepithelial neoplasia (CIN) and subsequent cervical carcinoma, it remains insufficient alone to drive oncogenesis. Accumulating evidence suggests that alterations in the CVMB composition profoundly impact HPV persistence, local immune responses, and disease progression. A vaginal microbiota dominated by Lactobacillus species, most notably Lactobacillus crispatus, correlates with low microbial diversity, robust immune regulation, and facilitated HPV clearance. Conversely, microbial dysbiosis—characterized by Lactobacillus depletion and a concomitant proliferation of anaerobic taxa, typical of Community State Type (CST) IV and Lactobacillus iners-dominated profiles—is strongly associated with chronic inflammation, oxidative stress, epithelial barrier compromise, and an elevated risk of CIN progression. This review synthesizes current evidence regarding the multifaceted interactions among the cervicovaginal microbiome, HPV pathogenesis, immune dysregulation, and oxidative stress in the etiology of CIN. Elucidating these intricate host–microbiome dynamics may precipitate the discovery of novel microbiome-derived biomarkers, ultimately informing innovative prophylactic and therapeutic interventions for cervical cancer. Full article

Seed coating technology is regarded as one of the optimal strategies to promote sustainable agricultural development. It can effectively optimize the physical and physiological characteristics of seeds, improve germplasm quality, and enhance crop resistance to abiotic and biotic stresses. Saline–alkali soils, characterized by high salinity and alkalinity, severely restrict plant growth and development. However, alfalfa, a high-quality leguminous forage, faces substantial challenges in large-scale popularization and cultivation in saline–alkali regions. At present, research on the application of microbial seed coating technology in alfalfa production under saline–alkali conditions remains insufficient, and relevant techniques and formulations still require optimization. Under field conditions, this study used a randomized complete block design with alfalfa as the research material. Different coating treatments combining plant growth-promoting rhizobacteria (PGPR), rhizobia, and extracellular polysaccharides (EPSs) were established to systematically investigate the effects of various coating formulations on alfalfa yield, nutritional quality, root system architecture, and rhizosphere soil properties. Meanwhile, high-throughput sequencing was employed to analyze shifts in rhizosphere soil microbial community structure. The results demonstrated that all microbial coating treatments exerted significant growth-promoting effects on alfalfa grown in saline–alkali soils, among which the T8 treatment (combined coating of rhizobia + PGPR + EPS) performed the best. This treatment not only significantly improved alfalfa yield and nutritional quality but also modified root system architecture and enhanced soil enzyme activities, soil nutrient contents, and soil physical structure, thereby creating a favorable growth environment for plants. Among the single microbial coating treatments, the combined coating of rhizobia and EPS outperformed other single treatments and exhibited favorable application potential. Sequencing results revealed that microbial seed coating treatments significantly increased the relative abundance of beneficial soil bacteria, decreased the abundance of harmful fungi, regulated rhizosphere microbial community structure, and consequently promoted improvements in alfalfa yield and quality by optimizing the plant growth microenvironment. The findings of this study provide important theoretical support for the popularization and application of microbial seed coating technology in crop cultivation in saline–alkali soils, offer a key reference for optimizing alfalfa-specific seed coating formulations for saline–alkali conditions, and are of great significance for promoting the efficient utilization of saline–alkali land resources and the development of ecological agriculture. Full article

Environmental contamination with fluorinated compounds has increased markedly due to their widespread use in industry, medicine, and agriculture. Fluoride ions and fluoroquinolone antibiotics may enter soils through fertilizers, wastewater, and manure application, where they can interact with plant-associated microbial communities. In the present study, we investigated the effects of inorganic fluoride (applied as sodium fluoride, NaF) and the fluoroquinolone antibiotic pefloxacin on the growth and microbiome composition of Eruca sativa L. Plants were cultivated under controlled conditions and exposed for four weeks to NaF or pefloxacin at equimolar concentrations of 10 and 20 µM/kg soil. Morphological parameters, including biomass accumulation, root length, leaf dimensions, and leaf area, were not significantly affected by either treatment. Nevertheless, increased variability of growth traits was observed, particularly in plants exposed to NaF. High-throughput sequencing of the 16S rRNA gene revealed pronounced, treatment-specific alterations in both rhizosphere and phyllosphere bacterial communities. The rhizosphere microbiome was relatively stable at higher taxonomic levels but exhibited selective enrichment of Actinomycetota, including the class Thermoleophilia, under NaF exposure. In contrast, the phyllosphere microbiome showed strong sensitivity to fluoride, with a marked increase in Betaproteobacteria, dominated by Burkholderiales. Changes induced by pefloxacin were weaker and more diffuse. Our results demonstrate that plant-associated microbiomes respond to fluorinated compounds at concentrations that do not induce visible plant stress. The phyllosphere microbiome, in particular, represents a sensitive indicator of fluoride exposure and may serve as an early-warning system for environmental contamination. Full article

Straw returning is an effective means of improving soil structure and increasing soil organic matter content. However, few studies have been conducted on the effects of corn straw returning on the soil microorganism community in soybean crops. In this paper, taking conventional combined tillage (CT) as a control, the effects of no-tillage with straw mulching (NTS), no-tillage with stubble retention (NT), and deep plowing with straw incorporation (DT) on soil bacterial community under a corn–soybean rotation system were studied. The results showed that the contents of soil total nitrogen, total phosphorus, available phosphorus, the activities of soil urease and acid phosphatase, and soil bacterial richness and diversity in the NTS treatment were significantly higher than those in other treatments. Moreover, the NTS treatment increased the abundance of Acidobacteriota and MND1 (unclassified bacterial genus) in the soil. The number of unique OTUs in the NTS treatment was the greatest (26.67%), with that of the CT treatment being the smallest (7.22%). Redundancy analysis (RDA) revealed that soil total nitrogen, total phosphorus, and available phosphorus are the key driving changes in bacterial community. Consequently, NTS treatment was the optimal approach for both soil fertility improvement and bacterial community optimization. This approach combines straw mulching and no-tillage, which not only exerts the nutrient supply effect of straw but also reduces the impact of soil disturbance on microbial habitats. Full article

Coprophagous flies can convert livestock manure into protein-rich larval biomass for animal feed, but manure-based rearing raises biosafety concerns. This study characterized the internal bacterial community dynamics across development in Aldrichina grahami and Boettcherisca peregrina reared on swine manure, aiming to identify developmental stages with a lower microbial hazard profile. Using 16S rRNA gene amplicon sequencing of pooled internal samples, we analyzed communities from third-instar larvae, dispersing-stage larvae, pupae at multiple time points, and newly emerged adults. Developmental stage strongly structured bacterial composition and altered richness in both species. Communities were dominated by Bacillota and Pseudomonadota, reflecting substrate origin, with pronounced turnover during metamorphosis and stage-specific dominance patterns, indicating developmental filtering rather than uniform microbial clearance. Crucially, dispersing larvae did not show the marked dominance signatures seen in later pupal or adult stages, supporting this stage as a pragmatic harvest window with a comparatively lower microbial-hazard indicator profile. Since downstream processing such as drying or heating will further reduce viable hazards, stage selection serves as an effective upstream control to lower the initial hazard burden entering production. Full article

The bovine milk microbiome is a complex and dynamic microbial ecosystem, comprising both commensal and pathogenic bacteria. Its composition is shaped by endogenous factors, including udder physiology, lactation stage, and health status, particularly mastitis, as well as by exogenous factors, such as housing conditions, farm infrastructure, milking practices, and post-milking processing. Mastitis not only alters milk quality but also induces persistent dysbiosis that may persist even after clinical recovery, highlighting the need for continuous microbiome monitoring to ensure milk safety. Advances in molecular and metagenomic techniques have enabled the detection of microbial taxa that are difficult to identify using traditional culture-based methods. However, challenges remain due to low microbial biomass, reagent contamination, and the inability to distinguish live from dead bacteria, all of which complicate accurate characterization. Environmental contamination from skin, air, and equipment, along with microbial shifts during transport, storage, pasteurization, and product separation, further modulate microbial communities. While mastitis-related changes in milk microbiota have been extensively studied, the effects of other bovine diseases and systemic health conditions remain largely unexplored, constituting a critical knowledge gap. Understanding the factors that shape milk microbial communities is essential for ensuring dairy product safety, optimizing herd management, and developing microbiome-based innovations in milk production. Full article

The gut microbiota is a crucial component of a tiger’s health and plays a significant role in adapting to changes in food and the environment. Although extensive studies have been carried out on the gut microbiota of tigers, investigating the responses of gut microbial composition and function to preadaptation to wild predation patterns under captive conditions is particularly significant for South China tigers, given that it is the only tiger subspecies existing solely in captive settings at present. Here, we performed shotgun metagenomic sequencing for a comprehensive analysis of the gut microbiota of South China tigers assigned to two dietary groups (live prey group, LP group; frozen meat group, FM group), thereby generating abundant valuable data for this endangered subspecies. The results indicated that the core intestinal microbial composition was similar between the two dietary groups. Differential analysis revealed associations between dietary treatments and microbial abundance in the intestines of South China tigers. Functional gene analysis revealed that the LP group exhibited upregulation of genes and pathways related to antimicrobial resistance, bacterial infection-related disease, cell motility and proliferation, while the FM group displayed efficient energy metabolism. A total of 1251 antibiotic resistance genes (ARGs) were identified in the gut microbiome of South China tigers. The core resistome mainly included resistance to peptides, glycopeptides, tetracyclines, fluoroquinolones, and macrolides. In addition, the differences in ARGs between the LP group and FM group may be related to a broader range of animal tissues of live prey and the processing conditions of frozen meat. In summary, although feeding live prey did not change the core framework of the gut microbiota in South China tigers, it was associated with differences in microbial abundance, metabolic pathways, and antibiotic resistance gene profiles. Full article