Diversity Of Microbial Communities Research Articles

Diversity and structure of pelagic microbial community in Kuroshio Extension

Kuroshio Extension (KE) is the most active region of oceanic change in the North Pacific Ocean, which provides an essential place for the survival of marine microorganisms. However, Vertical changes in microbial communities in the Kuroshio Extension and the mechanisms by which environmental factors drive vertical changes in community structure remain unclear. In this work, microbial diversity, abundance, and community structure of 12 water layers (from surface to bottom) at five stations were uncovered by 16S rRNA gene high–throughput sequencing. Microbial diversity and richness decreased with increasing seawater depth. Microorganisms in the euphotic zone can be well separated from other zones based on NMDS analysis. Proteobacteria (65.20%), Bacteroidota (8.48%), Actinobacteriota (5.76%), and Crenarchaeota (4.49%) accounted for a relatively large proportion and their distribution is similar in four zones. Most of microorganisms were significantly (Spearman test, p < 0.05) correlated with salinity, density, pressure, and temperature. This work enhances our understanding of vertical microbial diversity and provides insights into the pelagic microbial community structure.

Difference in microbial community structure along a gradient of crater altitude: insights from the Nushan volcano.

The variation in the soil microbial community along the altitude gradient has been widely documented. However, the structure and function of the microbial communities distributed along the altitude gradient in the crater still need to be determined. We gathered soil specimens from different elevations within the Nushan volcano crater to bridge this knowledge gap. We investigated the microbial communities of bacteria and fungi in the soil. It is noteworthy that the microbial alpha diversity peaks in the middle of the crater. However, network analysis shows that bacterial (nodes 760 vs 613 vs 601) and fungal (nodes 328 vs 224 vs 400) communities are most stable at the bottom and top of the crater, respectively. Furthermore, the soil microbial network exhibited a decline, followed by an increase across varying altitudes. The core microorganisms displayed the highest correlation with pH and alkaline phosphatase (AP, as determined through redundancy analysis (RDA) and Mantel tests for correlation analysis. The fungal community has a higher number of core microorganisms, while the bacterial core microorganisms demonstrate greater susceptibility to environmental factors. In conclusion, we utilized Illumina sequencing techniques to assess the disparities in the structure and function of bacteria and fungi in the soil.IMPORTANCEThese findings serve as a foundation for future investigations on microbial communities present in volcanic soil.

Activated sludge microbial community assembly: the role of influent microbial community immigration.

Wastewater treatment plants (WWTPs) are host to diverse microbial communities and receive a constant influx of microbes from influent wastewater. However, the impact of immigrants on the structure and activities of the activated sludge (AS) microbial community remains unclear. To gain insight on this phenomenon known as perpetual community coalescence, the current study utilized controlled manipulative experiments that decoupled the influent wastewater composition from the microbial populations to reveal the fundamental mechanisms involved in immigration between sewers and AS-WWTP. The immigration dynamics of heterotrophs were analyzed by harvesting wastewater biomass solids from three different sewer systems and adding to synthetic wastewater. Immigrating influent populations were observed to contribute up to 14% of the sequencing reads in the AS. By modeling the net growth rate of taxa, it was revealed that immigrants primarily exhibited low or negative net growth rates. By developing a protocol to reproducibly grow AS-WWTP communities in the lab, we have laid down the foundational principles for the testing of operational factors creating community variations with low noise and appropriate replication. Understanding the processes that drive microbial community diversity and assembly is a key question in microbial ecology. In the future, this knowledge can be used to manipulate the structure of microbial communities and improve system performance in WWTPs.IMPORTANCEIn biological wastewater treatment processes, the microbial community composition is essential in the performance and stability of the system. This study developed a reproducible protocol to investigate the impact of influent immigration (or perpetual coalescence of the sewer and activated sludge communities) with appropriate reproducibility and controls, allowing intrinsic definitions of core and immigrant populations to be established. The method developed herein will allow sequential manipulative experiments to be performed to test specific hypothesis and optimize wastewater treatment processes to meet new treatment goals.

Feasibility assessment and underlying mechanisms of metabisulfite pretreatment for enhanced volatile fatty acids production from anaerobic sludge fermentation

Employing chemical pretreatment for waste activated sludge (WAS) fermentation is crucial to achieving sustainable sludge management. This study investigated the feasibility of metabisulfite (MS) pretreatment for enhancing volatile fatty acids (VFAs) production from WAS. The results show that after 24-h MS pretreatment, the content of soluble organic matter and loosely bound extracellular polymeric substances (LB-EPS), especially proteins, increased significantly. During the fermentation, MS pretreatment under alkaline conditions was more efficient, with VFA peaking on the fifth day, showing a 140 % increase compared to the alkaline control group. Correlation analysis suggests that the dosage of MS, rather than pH, is closely related to the levels of soluble protein, polysaccharides, LB-EPS, and subsequential VFAs production, while alkaline conditions facilitate the dissolution of total organic carbon. Furthermore, sulfite radicals (SO3•−) are attributed to cell inactivation and lysis, while alkaline conditions initially reduce the size of the flocs, further promoting MS for attacking flocs, thereby improving the performance of fermentation. The study also found that MS pretreatment reduced microbial community diversity, enriched hydrolytic and fermentation bacteria (Actinobacteriota and Firmicutes), and suppressed methanogens (Methanobacteriaceae and Methanosaetaceae), making it a safe, viable, and cost-effective chemical agent for sustainable sludge management.

Effect of steam explosion pretreatment on the fermentation characteristics of polysaccharides from tea residue

Green tea residues are the by-product of tea processing and they contain a large number of bioactive ingredients. Steam explosion has been recognized as one of the most innovative pretreatments for modifying the physicochemical characteristic of polysaccharides from lignocellulosic materials. However, the comparison of biological activity of steam exploded (SE-GTR) and unexploded (UN-GTR) green tea residue polysaccharides was still unclear, which prompted the determination of the efficacy of steam explosion in tea residue resource utilization. In this study, the effects of two extracted polysaccharides UN-GTR and SE-GTR on human gut microbiota in vitro fermentation were conducted. The results showed that after steam explosion pretreatment, SE-GTR displayed more loose and porous structures, resulting in higher polysaccharide content (2483.44±0.5 μg/mg) compared to UN-GTR (1903.56±2.6 μg/mg). In addition, after 24 h fermentation, gut microbiota produced more beneficial metabolites by SE-GTR. The largest SCFAs produced among samples was acetic acid, propionic acid and butyric acid. Furthermore, SE-GTR could regulate the composition and diversity of microbial community, increasing the abundance of beneficial bacteria, such as Bifidobacterium. These results revealed that steam explosion pretreatment could be a promising and efficient approach to enhance the antioxidant activity and bioavailability of polysaccharides isolated from tea residues.

Metagenomic profiling of rhizosphere microbiota: Unraveling the plant-soil dynamics

Rhizosphere is a dynamic and complex environment shaped by intricate interactions between plants and a diverse microbial community. The rhizosphere microbiome is crucial for plant growth, nutrition, and health in agro-ecosystems. Recent advancements in metagenomics, especially through shotgun sequencing, offer unprecedented opportunities to unravel the complexities of rhizosphere microbial dynamics. Sequence and function-based metagenomic approaches enhance our understanding of plant-microbe relationships and serve as transformative tools for sustainable agriculture. They offer insights into precision microbiome engineering and ecosystem management by capturing the genomic landscape of microbial communities, revealing their taxonomic composition and functional potential. The integration of computational tools and machine learning approaches provides a powerful analytical framework to interpret vast and intricate metagenomic datasets. This paper comprehensively explores the rhizosphere using cutting-edge shotgun sequencing techniques to capture a holistic view of microbial communities in this crucial zone. Additionally, it delves into the emerging domain of virus-rhizosphere interactions, elucidating the impact of viral dynamics on rhizosphere microbial composition. To date, significant achievements in rhizosphere biology through metagenomics include detailed characterizations of microbial diversity, functional profiling of microbial communities, and identification of key microbial players in plant health and nutrient cycling. These advances underscore the critical role of metagenomics in advancing our understanding of rhizosphere biology and its applications in sustainable agriculture. The novel application of these advanced metagenomic techniques presents both opportunities and challenges, offering deeper insights into the rhizosphere while highlighting the need for improved data integration and interpretation methods.

Flaxseed promotes productive performance through regulating gut microbiome in ducks

BackgroundFlaxseed has been widely used in animal diets to increase the omega-3 polyunsaturated fatty acid content in animal products and promote overall animal health, but little known about its effects on the productive performance and the mictobita of gut of laying duck.Methods and resultsJinding duck, a Chinese indigenous breed, was used in the study. The corn-soybean basal diet supplemented with 0, 2%, 3% 4% and 5% flaxseed were provided to Control, 2% Fla, 3% Fla, 4% Fla and 5% Fla groups for 53 days, respectively. Compared with Control group, groups fed with flaxseed diets showed higher egg production, egg mass, ovary weight and more preovulatory follicles. The Docosahexaenoic Acid content of egg was extremely significantly elevated by flaxseed diets (P < 0.01), and the albumen height and haugh unit were elevated, especially in 4% Fla and/or 5% Fla group (P < 0.05). Groups 4% Fla and 5% Fla had highest ileal villus height, jejunal and ileal crypt depth. Moreover, Flaxseed diets significantly increased the levels of IgG and IgM in all Fla groups (P < 0.01), while increased IgA levels except for in 3% Fla group (P < 0.05). The results of 16s rDNA sequencing showed that flaxseed diet altered the microbial composition of gut and reduced the diversity and evenness of gut microbial communities except for 5% Fla. The correlation analysis identified Blautia, Butyricicoccus and Subdoligranulum positively associated with egg production. Genera Fourinierella, Fusobacterium and Intestinimonas positively associated with ovary weight, haught unit and album height. And Mucispirillum positively associated with haugh unit and album height.ConclusionThis study has suggested that flaxseed play a positive role in productive performance, the overall or intestinal health of laying ducks.

Modulations in gastrointestinal microbiota during postpartum period fulfill energy requirements and maintain health of lactating Tibetan cattle.

Postpartum period of dairy cattle is an important phase of their life mainly associated with the changes in physiology, rumen function, and energy metabolism. Studies have shown that gut microbial composition undergoes drastic changes during the postpartum period. However, little is known about the temporal variations in digestive tract microbiota in postpartum Tibetan cattle. The aim of this study was to investigate the temporal variations in blood metabolites, ruminal fermentation, and microbial community of oral, rumen, and gut in lactating Tibetan cattle during postpartum. We collected blood, saliva, rumen fluid, and fecal samples from lactating Tibetan cattle during 1st week (1 W), the 2nd week (2 W), the 1st month (1 M), and the 2nd month (2 M) of the postpartum period. The microbiota of saliva, rumen fluid, and fecal samples were assessed using 16S rRNA sequencing. The rumen volatile fatty acid and blood parameters were also quantified. The content of volatile fatty acids (VFAs) and blood parameters showed opposite tendency to each other and reached to stability at 2 M. Rumen microbiota showed the highest alpha diversity compared to other two sites. At phylum level, the oral cavity was dominated by Proteobacteria, while most dominant phylum in rumen and feces were Firmicutes and Bacteroidetes, respectively. The dominant genera in oral cavity were Moraxella and Bibersteinia, while genera Prevotella 1 and Ruminococcaceae UCG-005 were dominant in rumen and fecal samples, respectively. Microbial network analysis revealed that most of the active genera in all networks belonged to phylum Firmicutes, indicating the importance of this phyla during postpartum period of lactating cattle. The functional analysis revealed distinct division of labor among three gastrointestinal sites associated with defense, fatty acid synthesis, and maintaining health of host. All in all, our findings provide insights into the metabolic and microbial changes of lactating Tibetan cattle and help to the improvement of the management strategies.

Simulation of red mud/phosphogypsum-based artificial soil engineering applications in vegetation restoration and ecological reconstruction

Red mud and phosphogypsum are two of the most typical bulk industrial solid wastes. How they can be efficiently recycled as resources on a large scale and at low costs has always been a global issue that urgently needs to be solved. By constructing a small-scale test site and preparing two types of artificial soils using red mud and phosphogypsum, this study simulated their engineering applications in vegetation restoration and ecological reconstruction. According to the results of this study, the artificial soils contained a series of major elements (e.g. O, Si, Al, Fe, Ca, Na, K, and Mg) similar to those in common natural soil, and preliminarily possessed basic physicochemical properties (pH, moisture, organic matter, and cation exchange capacity), main nutrient conditions (nitrogen, phosphorus and potassium), and biochemical characteristics that could meet the demands of plant growth. A total of 18 different types of adaptable plants (e.g. wood, herbs, flowers, succulents, etc) grew in the test sites, indicating that the artificial soils could be used for vegetation greening and landscaping. The preliminary formation of microbial (fungal and bacterial) community diversity and the gradually enriched arthropod community diversity reflected the constantly improving quality of the artificial soils, suggesting that they could be used for the gradual construction of artificial soil micro-ecosystems. Overall, the artificial soils provided a feasible solution for the large-scale, low-cost, and highly efficient synergistic disposal of red mud and phosphogypsum, with enormous potential for future engineering applications. They are expected to be used for vegetation greening, landscaping, and ecological environment improvement in tailings, collapse, and soil-deficient areas, as well as along municipal roads.

Structural and functional diversity of microbial communities in ancient mining sites from San Luis Potosí, México

AbstractThe purpose of this study was to evaluate the effects of potentially toxic elements (PTEs) on soil microbial community functionality and structure. Charcas and Cedral in San Luis Potosí, Mexico, are sites with ancient mining activity. This activity has generated heavy metals (HMs) polluted soils that provoke deleterious effects on microbial community. Sampling was conducted in sites with and without aged mining activity. The parameters analysed were physicochemical properties and PTE concentrations. Functional diversity was evaluated with a community‐level physiological profiling (CLPP) analysis, diversity was evaluated using the richness (S), and the indices of Shannon's diversity (H), Simpson's dominance (D) and Pielou's evenness (J) were for the structure evaluation, based on relative substrate utilisation. CLPP results of set of soils indicated the following substrate utilisation pattern: carbohydrates &gt; polymers (POL) &gt; carboxylic/ketonic acids &gt; amino acids (AmA) &gt; amine/amides (A/A). In Cedral, the AmA utilisation favoured the increase of J value. In addition, it was observed that the utilisation of these compounds decreases at a higher concentration of Al and organic matter (OM) but increases at a higher concentration of Cu, Pb, Zn, Fe, Mn, and Ni, a phenomenon opposite to that was observed in Charcas. The results of set of soil indicated that AmA utilisation increases the values of S, J, D, and H. These results indicate that the microorganisms in soil are resistant to high PTE concentrations, in that condition they need accessible carbon sources as energy and as nutrients, however, they adapted to use complex carbon sources (POL). Furthermore, it presented low OM mineralisation despite high values of H, or J, then some metabolic processes could be compromised. Therefore, an intervention for soil conservation and monitoring is required.

Microbial community diversity analysis of kiwifruit pollen and identification of potential pathogens.

The kiwifruit industry typically uses commercial pollen for artificial pollination. However, during the collection of male flowers and pollen production, pollen can be easily contaminated by pathogenic bacteria that cause diseases such as canker and flower rot. Consequently, it is crucial to understand the structure of the pollen microbial community. This study employed Illumina high-throughput sequencing technology to analyze the fungal and bacterial composition in pollen samples from various regions in Shaanxi Province. Concurrently, potential pathogenic strains were isolated using traditional microbial isolation and cultivation techniques, and their molecular identification was performed through 16S rDNA sequence analysis. A tieback test was conducted on healthy branches to verify the pathogenicity of the strains. The results revealed a rich diversity of fungi and bacteria in kiwifruit pollen. At the phylum level, pollen fungi were mainly distributed in Ascomycota, and bacteria were mainly distributed in Proteobacteria and Firmicutes. The dominant fungal genera were Mycosphaerella, Aspergillus, and Cladosporium; the dominant bacterial genera were Weissella, Pantoea, Enterobacter, and Pseudomonas, respectively. Additionally, both Erwinia persicina and Pseudomonas fluorescens, isolated from pollen, exhibited high pathogenicity toward healthy kiwifruit branches. These findings contribute to a deeper understanding of the microbial diversity in commercial kiwifruit pollen used for mass pollination.

Biomass and Functional Diversity of Microbial Communities in Catenas of Virgin and Arable Gray Soils and Chernozems

Biomass and Functional Diversity of Microbial Communities in Catenas of Virgin and Arable Gray Soils and Chernozems

Isolation of Microbes from Landfill Soil of Gorakhpur, Uttar Pradesh, India

This study focuses on the isolation and characterization of microbes from landfill soil in Gorakhpur, India. Landfills are a major source of soil pollution, and understanding the microbial composition in these environments is crucial for assessing soil quality and developing remediation strategies. Microorganisms can degrade numerous of organic pollutants owing to their metabolic machinery and to their capacity to adapt to inhospitable environment. Thus, microorganisms are major players in site remediation. However, their efficiency depends on many factors, including the chemical nature and the concentration of pollutants, their availability to microorganisms, and the physio-chemical characteristics of the environment. The research identified a diverse microbial community in the landfill soil, with predominant bacterial representatives including Gamma-proteobacteria, firmicutes, and bacteroids. Gram staining revealed the prevalence of gram-positive bacilli, along with distinct fungal species. These findings emphasize the potential of microorganisms in degrading organic pollutants and transforming various compounds in landfill soil. By elucidating the microbial diversity in landfill sites, this study provides insights for sustainable waste management practices and environmental conservation efforts. One of the major cause of soil pollution are landfills. There are the sites designated for dumping rubbish, garbage, or other sorts of solid wastes. Because most of these waste materials are non-biodegradable, they heap in the landfills where they stay for years, impacting on soil quality and polluting the land. The aim of this study is to isolate and investigate the role of microorganisms in a particular landfill area of Gorakhpur, Uttar Pradesh and to identify the microbial community found in that particular area.

The influence of plant traits on soil microbial communities varies between arid and mesic grasslands

Abstract Background and aims Both soil properties and plant traits shape the diversity, composition and functions of plant-associated soil microbial communities. However, the relative influence of these factors is poorly understood, as are interactive effects between factors and the degree to which their influence varies among climate zones. Methods To address this gap, we compared the diversity and composition of soil microbial communities associated with co-occurring C3 and C4 grasses from arid and mesic environments, and plant traits influencing them. Results Climate emerged as the main determinant of plant traits and microbial community properties. Within each climatic region, above- and below-ground traits and soil properties differentially affected microbial community composition, and their relative influence varied among communities. In both mesic and arid environments aboveground traits related to quantity and quality of leaf litter (e.g., specific leaf area, leaf C content) and nutrient availability were the most influential variables for community composition. However, in arid regions, belowground traits (i.e., root tissue density and specific root area) significantly contributed to structure the eukaryotic community, supporting the role of roots as important driver of eukaryotic differentiation in constrained environments. Further, the presence of C4 plants in the arid region resulted in higher relative abundance of ciliate protists and higher recruitment of potentially beneficial microbial community members from green algae mediated by drought adaptation traits (e.g. decreased abundance of fine roots). Conclusions Overall, our study revealed a differential response of microbial communities to environmental conditions, suggesting that soil microbial community composition is influenced by trade-offs between host adaptive traits across distinct climatic regions.

Combined Approaches for the Remediation of Cadmium- and Arsenic-Contaminated Soil: Phytoremediation and Stabilization Strategies

The prolonged duration of phytoremediation poses a risk of heavy metal dispersal to the surrounding environment. This study investigated a combined remediation approach for cadmium (Cd)- and arsenic (As)-contaminated soil by integrating phytoremediation with stabilization techniques. Bidens pilosa was utilized as the phytoremediator, and steel slag, pyrolusite, and FeSO4 were employed as stabilizing agents in the pot experiments. Key metrics such as soil moisture content, root length, plant height, and heavy metal concentrations in Bidens pilosa were measured to evaluate the remediation efficacy. Additionally, the bioavailability, leaching toxicity, and chemical forms of Cd and As, along with other soil properties, were analyzed. The results indicated that the optimal restoration effect was achieved by combining steel slag, pyrolusite, and FeSO4 with stabilizers in a ratio of 2:1:10. Additionally, the optimal dosage of these materials was found to be 9% by weight. Mechanistic studies, including heavy metal speciation analysis, X-ray photoelectron spectroscopy (XPS), and microbial community diversity analysis, revealed that the stabilization effects were primarily due to the interactions of anionic and cationic ions, chelation by organic acids secreted by plant roots, and enhanced microbial activity. A cost–benefit analysis demonstrated the technical, economic, and commercial viability of the combined remediation approach.

Impact of microplastics on microbial community structure in the Qiantang river: A potential source of N2O emissions

This study aimed to investigate the spatial distribution of microplastics (MPs) and the features of the bacterial community in the Qiantang River urban river. Surface water samples from the Qiantang River were analyzed for this purpose. The results of the 16S high-throughput sequencing indicated that the microbial community diversity of MPs was significantly lower than in natural water but higher than in natural substrates. The biofilm of MPs was mainly composed of Enterobacteriaceae (28.00%), Bacillaceae (16.25%), and Phormidiaceae (6.75%). The biodiversity on MPs, natural water, and natural substrates varied significantly and was influenced by seasonal factors. In addition, the presence of MPs hindered the denitrification process in the aquatic environment and intensified N2O emission when the nitrate concentration was higher than normal. In particular, polyethylene terephthalate (PET) exhibited a 12% residue of NO3−-N and a 4.2% accumulation of N2O after a duration of 48 h. Further findings on gene abundance and cell viability provided further confirmation that PET had a considerable impact on reducing the expression of nirS (by 0.34-fold) and nosZ (by 0.53-fold), hence impeding the generation of nicotinamide adenine dinucleotide (NADH) (by 0.79-fold). Notably, all MPs demonstrated higher the nirK gene abundances than the nirS gene, which could account for the significant accumulation of N2O. The results suggest that MPs can serve as a novel carrier substrate for microbial communities and as a potential promoter of N2O emission in aquatic environments.

Natural Foraging Selection and Gut Microecology of Two Subterranean Rodents from the Eurasian Steppe in China.

As the most abundant group of mammals, rodents possess a very rich ecotype, which makes them ideal for studying the relationship between diet and host gut microecology. Zokors are specialized herbivorous rodents adapted to living underground. Unlike more generalized herbivorous rodents, they feed on the underground parts of grassland plants. There are two species of the genus Myospalax in the Eurasian steppes in China: one is Myospalax psilurus, which inhabits meadow grasslands and forest edge areas, and the other is M. aspalax, which inhabits typical grassland areas. How are the dietary choices of the two species adapted to long-term subterranean life, and what is the relationship of this diet with gut microbes? Are there unique indicator genera for their gut microbial communities? Relevant factors, such as the ability of both species to degrade cellulose, are not yet clear. In this study, we analyzed the gut bacterial communities and diet compositions of two species of zokors using 16S amplicon technology combined with macro-barcoding technology. We found that the diversity of gut microbial bacterial communities in M. psilurus was significantly higher than that in M. aspalax, and that the two species of zokors possessed different gut bacterial indicator genera. Differences in the feeding habits of the two species of zokors stem from food composition rather than diversity. Based on the results of Mantel analyses, the gut bacterial community of M. aspalax showed a significant positive correlation with the creeping-rooted type food, and there was a complementary relationship between the axis root-type-food- and the rhizome-type-food-dominated (containing bulb types and tuberous root types) food groups. Functional prediction based on KEGG found that M. psilurus possessed a stronger degradation ability in the same cellulose degradation pathway. Neutral modeling results show that the gut flora of the M. psilurus has a wider ecological niche compared to that of the M. aspalax. This provides a new perspective for understanding how rodents living underground in grassland areas respond to changes in food conditions.

Microbial community structure and function in a sandy soil column under dynamic hydrologic regimes

The capillary fringe (CF) exhibits steep chemical and redox gradients, representing a critical reactive interface in the subsurface. The spatial extent of the CF is temporally dynamic because of water table and soil moisture fluctuations. To simulate the spatio-temporal responses of the CF’s microbial community structure and activity, a 91 cm long sandy soil column experiment was conducted by imposing three different sequential hydrologic regimes: a stable water table separating the unsaturated and saturated zones (static regime), periodic pulse infiltration events with a constant water table position (infiltration regime), and water table fluctuations under three drainage-imbibition cycles of 6, 12, and 18 days (fluctuating regime). The investigation focused on the microbially-mediated turnover of nitrogen (N) and carbon (C). Geochemical profiles in the soil column were monitored continuously, while microbial DNA was extracted for 16S rDNA sequencing at the start, middle and end of the experiment. The observed microbial community compositions corresponded to five categories: (1) initial soil, (2) near-surface and (3) CF and saturated soil under the infiltration regime, (4) unsaturated and (5) saturated soil in the fluctuating regime. Based on co-occurrence network analysis, microbial physiologies matched the predominant geochemical conditions, and relatively stable community structures prevailed throughout the experiment. NO3- and NH4+ were more available to the microbes in the fluctuating regime’s alternating oxic/anoxic zone, leading to a more flexible network. The prevalent microbial metabolic pathways predicted using FAPROTAX were mainly associated with N and C metabolisms and significantly correlated with the taxonomic compositions. However, the dominant microbial groups were shared among all the soil samples. The limited spatial differences in microbial community structure under the fluctuating regime were likely due to a more pronounced role of microbial activity than microbial diversity, and similar drying-wetting conditions between the soil column and the filed site. Internally consistent geochemical and microbial depth stratifications were identified by (1) the redox potential and nitrogen species distributions, (2) spatial moment analysis of NO3- and NH4+ concentrations, (3) microbial community composition and (4) function. The five imposed hydrologic regimes generated distinct and coupled geochemical and microbial signatures. These signatures resulted from variations in the soil microbial community’s activity, rather than diversity or abundance.

Multi-stage oxic biofilm system for pilot-scale treatment of coking wastewater: Pollutants removal performance, biofilm properties and microbial community

A multi-stage oxic biofilm system based on hydrophilic polyurethane foam was established and operated for advanced treatment of coking wastewater, in which distinct gradient variations of pollutants removal, biofilm properties and microbial community in the 5 stages were evaluated. The system rapidly achieved NH4+-N removal efficiency of 97.51 ± 2.29 % within 8 days. The biofilm growing attached on the carriers exhibited high biomass (≥10.29 g/L), which ensured sufficient microbial population. Additionally, the rising extracellular polymeric substance and declining proteins/polysaccharides ratios across stages suggested a dense-to-loose transition in the biofilm’s structure, in response to the varying pollutant concentrations. The dominance of Nitrosomonas cluster in the first 3 stages and Nitrospira lineage in the following 2 stages facilitated the complete depletion of high NH4+-N concentration without NO2--N accumulation. Overall, the distinct biofilm property and community at each stage, shaped by the multi-stage configuration, maximized the pollutants removal efficiency.

Wheat domestication alters root metabolic functions to drive the assembly of endophytic bacteria.

The domestication process progressively differentiated wild relatives from modern cultivars, thus impacting plant-associated microorganisms. Endophytic bacterial communities play vital roles in plant growth, development, and health, which contribute to the crop's sustainable development. However, how plant domestication impacts endophytic bacterial communities and relevant root exudates in wheat remains unclear. First, we have observed that the domestication process increased the root endophytic microbial community diversity of wheat while decreasing functional diversity. Second, domestication decreased the endophytic bacterial co-occurrence network stability, and it did significantly alter the abundances of core microorganisms or potential probiotics. Third, untargeted LC-MS metabolomics revealed that domestication significantly altered the metabolite profiles, and the abundances of various root exudates released were significantly correlated with keystone taxa including the Chryseobacterium, Massilia, and Lechevalieria. Moreover, we found that root exudates, especially L-tyrosine promote the growth of plant-beneficial bacteria, such as Chryseobacterium. Additionally, with L-tyrosine and Chryseobacterium colonized in the roots, the growth of wild wheat's roots was significantly promoted, while no notable effect could be found in the domesticated cultivars. Overall, this study suggested that wild wheat as a key germplasm material, and its native endophytic microbes may serve as a resource for engineering crop microbiomes to improve the morphological and physiological traits of crops in widely distributed poor soils.