Microbial Community Characteristics Research Articles

Microbial community structure and its driving mechanisms in the Hangbu estuary of Chaohu Lake under different sedimentary areas

Estuaries are known for their high ecological diversity and biological productivity. Sediment microorganisms, as crucial components of estuarine ecosystems, play a pivotal role in reflecting the intricate and dynamic ecological niches. However, our research on microbial community characteristics in estuarine ecosystems under different sedimentary types remains limited. In this study, we collected a total of 27 samples from three sampling sites at Hangbu estuary in Chaohu Lake, and three sedimentary areas were classified based on the overlying water flow conditions and sediment particle properties to elucidate their microbial community structure, environmental drivers, assembly processes, and co-occurrence network characteristics. Our results showed significant differences in microbial community composition and diversity among three sedimentary areas. Redundancy analysis indicated that the differences in microbial community composition at the OTU level among the three sedimentary areas were mainly determined by nitrate-nitrogen, temperature, and water content. Phylogenetic bin-based null model analysis revealed that temperature was a key factor influencing deterministic processes among the three sedimentary areas, while stochastic processes predominantly governed the assembly of microbial communities. In addition, co-occurrence network analysis demonstrated that the network in the hydraulically driven sedimentary area of the lake, consisting mainly of medium and fine silt, had the highest complexity, stability, and cohesion, but was missing potential keystone taxa. The remaining two sedimentary areas had 5 and 8 potential keystone taxa, respectively. Overall, our study proposes the delineation of sedimentary types and comprehensively elucidates the microbial community characteristics under different sedimentary areas, providing a new perspective for studying sediment microbial community structure and helping future scholars systematically study ecological dynamics in estuaries.

Seasonal changes driving shifts in microbial community assembly and species coexistence in an urban river

Microbial communities play a vital role in urban river biogeochemical cycles. However, the seasonal variations in microbial community characteristics, particularly phylogenetic group-based community assembly and species coexistence, have not been extensively investigated. Here, we systematically explored the microbiome characteristics and assembly mechanisms of urban rivers in different seasons using 16S rRNA gene sequencing and multivariate statistical methods. The results indicated that the microbial community presented significant temporal heterogeneity in different seasons, and the diversity decreased from spring to winter. The phylogenetic group-based microbial community assembly was governed by dispersal limitation and drift in spring, summer, and autumn but was structured by homogeneous selection in winter. Moreover, the main functions of nitrification, denitrification, and methanol oxidation were susceptible to dispersal limitation and drift processes, whereas sulfate respiration and aromatic compound degradation were controlled by dispersal limitation and homogeneous selection. Network analyses indicated that network complexity decreased and then increased with seasonal changes, while network stability showed the opposite trend, suggesting that higher complexity and diversity reduced community stability. Temperature was determined to be the primary driver of microbial community structure and assembly processes in different seasons based on canonical correspondence analysis and linear regression analysis. In conclusion, seasonal variation drives the dynamics of microbial community assembly and species coexistence patterns in urban rivers. This study provides new insights into the generation and maintenance of microbial community diversity in urban rivers under seasonal change conditions.

Characteristics of rhizosphere and bulk soil microbial community of Chinese cabbage (Brassica campestris) grown in Karst area.

Understanding the rhizosphere soil microbial community and its relationship with the bulk soil microbial community is critical for maintaining soil health and fertility and improving crop yields in Karst regions. The microbial communities in the rhizosphere and bulk soils of a Chinese cabbage (Brassica campestris) plantation in a Karst region, as well as their relationships with soil nutrients, were examined in this study using high-throughput sequencing technologies of 16S and ITS amplicons. The aim was to provide theoretical insights into the healthy cultivation of Chinese cabbage in a Karst area. The findings revealed that the rhizosphere soil showed higher contents of organic matter (OM), alkaline hydrolyzable nitrogen (AN), available phosphorus (AP), total phosphorus (TP), available potassium (AK), total potassium (TK), total nitrogen (TN), catalase (CA), urease (UR), sucrase (SU), and phosphatase (PHO), in comparison with bulk soil, while the pH value showed the opposite trend. The diversity of bacterial and fungal communities in the bulk soil was higher than that in the rhizosphere soil, and their compositions differed between the two types of soil. In the rhizosphere soil, Proteobacteria, Acidobacteriota, Actinobacteriota, and Bacteroidota were the dominant bacterial phyla, while Olpidiomycota, Ascomycota, Mortierellomycota, and Basidiomycota were the predominant fungal phyla. In contrast, the bulk soil was characterized by bacterial dominance of Proteobacteria, Acidobacteriota, Chloroflexi, and Actinobacteriota and fungal dominance of Ascomycota, Olpidiomycota, Mortierellomycota, and Basidiomycota. The fungal network was simpler than the bacterial network, and both networks exhibited less complexity in the rhizosphere soil compared with the bulk soil. Moreover, the rhizosphere soil harbored a higher proportion of beneficial Rhizobiales. The rhizosphere soil network was less complicated than the network in bulk soil by building a bacterial-fungal co-occurrence network. Furthermore, a network of relationships between soil properties and network keystone taxa revealed that the rhizosphere soil keystone taxa were more strongly correlated with soil properties than those in the bulk soil; despite its lower complexity, the rhizosphere soil contains a higher abundance of bacteria which are beneficial for cabbage growth compared with the bulk soil.

Methane Cycling Microbial Community Characteristics: Comparing Natural, Actively Extracted, Restored and Unrestored Boreal Peatlands

Methane Cycling Microbial Community Characteristics: Comparing Natural, Actively Extracted, Restored and Unrestored Boreal Peatlands

Nitrogen removal characteristics of heterotrophic nitrification-aerobic denitrification bacterium Acinetobacter ZQ-A1 and community characteristics analysis of its application in pig farm wastewater.

A heterotrophic nitrifying aerobic denitrifying (HN-AD) strain ZQ-A1 with excellent denitrification performance, identified as Acinetobacter, was isolated from simultaneous nitrification and denitrification (SND) craft. ZQ-A1 was capable of removing NH4+, NO2-, and NO3-; the 21-hour removal rates were 84.84%, 87.13%, and 92.63%. ZQ-A1 has the ability to treat mixed nitrogen sources. In addition, ZQ-A1 can be well applied to actual sewage. According to the analysis of microbial community characteristics, the relative abundance of Acinetobacter in the experimental group increased from 0.06% to 2.38%, which is an important reason for the removal rate of NH4+ exceeding 99% within 30 days. The results of KEGG function prediction showed that with the addition of ZQ-A1, the relative abundance of pathways related to bacterial metabolism, such as tricarboxylic acid cycle metabolism, was higher. The research expanded the thinking of HN-AD bacteria in actual production and laid a foundation for its application in sewage treatment.

Water supply sludge-based ceramsite denitrification filter: Pollutant removal and microbial community characteristics

Using water supply sludge to prepare ceramsite for sewage treatment is one of the methods to realize resource utilization. In this study, water supply sludge-based ceramsite was prepared, and analyzed the preparation conditions, reaction conditions, and characterization of water supply sludge-based ceramsite. The results showed that water supply sludge-based ceramsite had the best adsorption performance (for NO3−-N and PO43−-P were 31.2 % and 64.5 %) when the mass ratio of water supply sludge to kaolin was 85:15, the firing temperature was 1150 °C, and the firing time was 10 min. The removal efficiencies of chemical oxygen demand (COD) and total nitrogen (TN) were 67.0 % and 79.9 %, respectively, with the water supply sludge-based ceramsite as denitrification biofilter carrier, when the optimal hydraulic retention time (HRT) and carbon‑nitrogen ratio (C/N) were 0.5 h and 2:1. However, the removal efficiency of total phosphorus (TP) gradually decreased. During the biofilm formation of denitrification biofilter, the microbial community richness remained basically stable, but the microbial diversity decreased in the later stage of biofilm formation. The main dominant microbial communities were Acinetobacter and Methylophilaceae; and the relative abundance of amino acid metabolism genes increased, with the extension of biofilm formation time.

Phytoremediation Effect and Soil Microbial Community Characteristics of Jiulong Iron Tailings Area, Jiangxi

The aim of this paper was to explore the remediation effect and mechanism of Wetland pine (Pinus elliottii), Chinese fir (Cunninghamia lanceolata (Lamb.) Hook), and Alder (Alnus cremastogyne Burkill) on heavy metal contaminated soil in the iron tailings of Jiulong Iron Tailings Area. At the same time, the specificity of plant rhizosphere and non-rhizosphere soil microbial community structure and ecological function were analyzed based on macrogenomic sequencing. The results showed that the dominant microbial genera in J1 (control) was Acidobacteria, followed by Proteobacteria and Actinobacteria. The microbial genera with the highest percentage of relative abundance in J2, J3, J4, J5, and J6 (J2, Wetland Pine rhizosphere; J3, Wetland Pine non-rhizosphere; J4, Chinese fir rhizosphere; J5, Alder rhizosphere; J6, Alder non-rhizosphere) were Proteobacteria, followed by Acidobacteria, and Actinobacteria. It was found that Proteobacteria promoted heavy metal solubilization, activated heavy metals, and converted their forms to improve plant uptake of heavy metals. This proves that the microorganisms of Proteobacteria are the key microbial genera in the study of regional heavy metal remediation. The antibiotic resistance genes (ARGs) in microorganisms can respond to the inducement of heavy metals. Here, we investigated the relationship between the abundance of soil microorganisms ARGs and heavy metal pollution in Jiulong Iron Tailings Area. There are significant differences in the quantity and category of ARGs in the rhizosphere and non-rhizosphere soil samples of the three tree species. The results of this study provide the foundation for the theory and practice of remediation of heavy metal contamination in soils of iron tailing areas in Jiulong Iron Tailings Area in similar stand conditions.

Different responses of soil fungal and bacterial communities to nitrogen addition in a forest grassland ecotone.

Continuous nitrogen deposition increases the nitrogen content of terrestrial ecosystem and affects the geochemical cycle of soil nitrogen. Forest-grassland ecotone is the interface area of forest and grassland and is sensitive to global climate change. However, the structure composition and diversity of soil microbial communities and their relationship with soil environmental factors at increasing nitrogen deposition have not been sufficiently studied in forest-grassland ecotone. In this study, experiments were carried out with four nitrogen addition treatments (0 kgN·hm-2·a-1, 10 kgN·hm-2·a-1, 20 kgN·hm-2·a-1 and 40 kgN·hm-2·a-1) to simulate nitrogen deposition in a forest-grassland ecotone in northwest Liaoning Province, China. High-throughput sequencing and qPCR technologies were used to analyze the composition, structure, and diversity characteristics of the soil microbial communities under different levels of nitrogen addition. The results showed that soil pH decreased significantly at increasing nitrogen concentrations, and the total nitrogen and ammonium nitrogen contents first increased and then decreased, which were significantly higher in the N10 treatment than in other treatments (N:0.32 ~ 0.48 g/kg; NH4+-N: 11.54 ~ 13 mg/kg). With the increase in nitrogen concentration, the net nitrogen mineralization, nitrification, and ammoniation rates decreased. The addition of nitrogen had no significant effect on the diversity and structure of the fungal community, while the diversity of the bacterial community decreased significantly at increasing nitrogen concentrations. Ascomycetes and Actinomycetes were the dominant fungal and bacterial phyla, respectively. The relative abundance of Ascomycetes was negatively correlated with total nitrogen content, while that of Actinomycetes was positively correlated with soil pH. The fungal community diversity was significantly negatively correlated with nitrate nitrogen, while the diversity of the bacterial community was significantly positively correlated with soil pH. No significant differences in the abundance of functional genes related to soil nitrogen transformations under the different treatments were observed. Overall, the distribution pattern and driving factors were different in soil microbial communities in a forest-grassland ecotone in northwest Liaoning. Our study enriches research content related to factors that affect the forest-grassland ecotone.

Deciphering insights into rhizospheric microbial community and soil parameters under the influence of herbicides in zero-tillage tropical rice-agroecosystem

Extensive use of chemicals like herbicides in rice and other fields to manage weeds is expected to have a lasting influence on the soil environment. Considering this rationale, we aimed to decipher the effects of herbicides, Pendimethalin and Pretilachlor, applied at 0.5 and 0.6 kg ha−1, respectively on the rhizosphere microbial community and soil characteristics in the tropical rice field, managed under zero tillage cultivation. The quantity of herbicide residues declined gradually since application up to 60 days thereafter it reached the non-detectable level. Most of the soil variables viz., microbial biomass, soil enzymes etc., exhibited slight reduction in the treated soils compared to the control. A gradual decline was observed in Mineral-N, MBC, MBN and enzyme activities. Quantitative polymerase chain reaction results showed maximal microbial abundance of bacteria, fungi and archaea at mid-flowering stage of rice crop. The 16 rRNA and ITS region targeted amplicons high throughput sequencing microbial metagenomic approach revealed total of 94, 1353, and 510 species for archaea, bacteria and fungi, respectively. The metabarcoding of core microbiota revealed that the archaea comprised of Nitrososphaera, Nitrosocosmicus, and Methanosarcina. In the bacterial core microbiome, Neobacillus, Nitrospira, Thaurea, and Microvigra were found as the predominant taxa. Fusarium, Clonostachys, Nigrospora, Mortierella, Chaetomium, etc., were found in core fungal microbiome. Overall, the study exhibited that the recommended dose of herbicides found to be detrimental to the microbial dynamics, though a negative relation between residues and soil variables was observed that might alter the microbial diversity. The outcomes offer a comprehensive understanding of how herbicides affect the microbial community in zero tillage rice soil, thus has a critical imputation for eco-friendly and sustainable rice agriculture. Further, the long-term studies will be helpful in elucidating the role of identified microbial groups in sustaining the soil fertility and crop productivity.

Intestinal microbiota of the four omnivorous fishes revealed by 16S rRNA metabarcoding from the habitats of oyster reefs

The habitats of oyster reefs had played various ecological services functions, as an important means of marine ecological restoration and fishery resources conservation, which had been widely used worldwide. And the characteristics of microbial communities would be inevitably affected by habitat of oyster reefs. The aim of this study was to reveal the relationship between oyster reefs and the intestinal microbiota of fish (Takifugu ocellatus, Acanthopagrus latus, Clupanodon thrissa, and Mugil cephalus). Here, based on 16S rRNA sequencing, this research analyzed the microbial communities of fishes gut in the oyster reefs from the most crucial estuary economic zone in Southern China. It was significantly lower that the bacterial alpha-diversity in the fish intestines than in the sediments of oyster reefs. The non-metric multidimensional scaling (NMDS) and analysis of similarities (ANOSIM) results showed that intestines microbiota of T. ocellatus and A. latus were more homologous to sediments microbiota, but intestines microbiota of C. thrissa and M. cephalus were more similar to the water microbiota. There were obvious differences in the contribution of oyster reefs habitat to intestinal microorganisms of four fishes. Source tracking analysis as well reached the similar conclusion. For instance, contribution of water to T. ocellatus and A. latus was lesser than sediments, which was related to their benthic habits. Based on the differences in microbial community compositions, the functional prediction analysis had demonstrated that special functional pathways and independent core indicators had been formed separately from oyster reefs and fish intestines. Overall, these findings highlighted the characteristics of microbial diversity and functions from the omnivorous fish living in oyster reefs habitats. This research proposed new insights into the function of oyster reefs habitats, which have enriched the ecological service value of oyster reefs from microbial ecology and provided a reference for the application of oyster reefs habitats in other estuaries.

The Analysis of Microbial Community Characteristics Revealed that the Pathogens of Leaf Spot of Rosa roxburghii Originated from the Phyllosphere.

Members of the plant mycobiota are all associated to varying degrees with the development of plant diseases. Although many reports on the plant mycobiota are well documented, the relationships between mycobiota of Rosa roxburghii and plant diseases are poorly understood. Mutual interactions and extent of the roles of microbial communities associated with R. roxburghii and the source of pathogens are still unclear, and more research is needed on the health benefits of this ecologically important population. Using high-throughput sequencing, we analyzed the mycobiota composition and ecological guilds of the rhizosphere, root, and phyllosphere of healthy and diseased R. roxburghii from the Tianfu R. roxburghii Industrial Park in Panzhou city, Guizhou province. Analysis of community composition showed that the relative abundance of pathogens of leaf spot, including Alternaria, Pestalotiopsis and Neofusicoccum in the phyllosphere of diseased plant (LD), were 1.15%, 0.15% and 0.06%, and the relative abundance of Alternaria and Pestalotiopsis were 0.96% and 0.58% in healthy plant (LH). The alpha diversity indices indicated that fungal diversity was higher in healthy plants compared to diseased plants in each compartment. The alpha diversity index of fungi in the phyllosphere (LH) of healthy R. roxburghii, including Shannon, Chao-1, and Faith-pd indices, was 1.02, 81.50 and 10.42 higher than that of the diseased (LD), respectively. The fungi in the rhizosphere of healthy was 1.03, 59.00 and 5.56 higher than the diseased, respectively. The Shannon index of fungi in the root of healthy was 0.29 higher than that of diseased. Principal Coordinate analysis and ANOSIM results showed that there were significant differences in mycobiota composition between healthy and diseased phyllospheres (P < 0.05), as well as rhizosphere fungal community, while there was no significant difference between healthy and diseased roots (P > 0.05). Linear discriminant analysis effect size revealed that, at different taxonomic levels, there were significantly different taxa between the healthy and diseased plants in each compartment. The ecological guilds differed between healthy and diseased plants according to the FUNGuild analysis. For example, of healthy compared to diseased plants, the percentages of "lichenized-undefined saprotroph" were increased by 2.34%, 0.44%, and 1.54% in the phyllosphere, root, and rhizosphere, respectively. In addition, the plant pathogens existed in each compartment of R. roxburghii, but the percentages of "plant pathogen" were increased by 1.16% in the phyllosphere of diseased compared to healthy plants. Together, the ecological guild and co-occurrence network indicated that the potential pathogens of leaf spot were mainly found in the phyllosphere. This study explained one of pathogen origin of leaf spots of R. roxburghii by the microbial community ecology, which will provide the new insights for identification of plant pathogens.

Seasonal purification efficiency, greenhouse gas emissions and microbial community characteristics of a field-scale surface-flow constructed wetland treating agricultural runoff

Controlling nonpoint source pollution (NPSP) is very important for protecting the water environment, and surface-flow constructed wetlands (SFCWs) have been widely established to mitigate NPSP loads. In this study, the pollutant removal efficiencies, greenhouse gas (GHG) emissions, and chemical and microbial community properties of the sediment in a large-scale SFCW established beside a plateau lake (Qilu Lake) in southwestern China to treat agricultural runoff were evaluated over a year. The SFCW performed best in terms of nitrogen removal in autumn (average efficiency of 63.5% at influent concentrations of 9.3–35.4 mg L−1) and demonstrated comparable efficiency in other seasons (23.7–40.0%). The removal rates of total phosphorus (TP) and chemical oxygen demand (COD) were limited (18.6% and 12.4% at influent concentrations of 1.1 and 45.5 mg L−1 on average, respectively). The SFCW was a hotspot of CH4 emissions, with an average flux of 31.6 mg m−2·h−1; moreover, CH4 emissions contributed the most to the global warming potential (GWP) of the SFCW. Higher CH4 and N2O fluxes were detected in winter and in the front-end section of the SFCW with high pollutant concentrations, and plant presence increased CH4 emissions. Significant positive relationships between nutrient and heavy metal contents in the SFCW sediment were detected. The microbial community compositions were similar in autumn and winter, with Thiobacillus, Lysobacter, Acinetobacter and Pseudomonas dominating, and this distribution pattern was clearly distinct from those in spring and summer, with high proportions of Spirochaeta_2 and Denitratisoma. The microbial co-occurrence network in spring was more complex with stronger positive correlations than those in winter and autumn, while it was more stable in autumn with more keystone taxa. Optimization of the construction, operation and management of SFCWs treating NPSP in lake watersheds is necessary to promote their environmental benefits.

Constructing carbon-based materials loaded with MOFs to realize efficient anaerobic digestion of rural organic waste

The application of anaerobic digestion (AD) technology could convert rural organic waste (ROW) into renewable energy such as methane, which can help to mitigate the scarcity of fossil fuels and positively impact the global environment. However, the inhibition of ammonia nitrogen remains a significant obstacle to the methane production process with high concentrations of AD. Hence, in this study, three adsorption materials for ammonia nitrogen, namely FeMn-MOF, FeMn/MOF-CFs, and FeMn/MOF-CFC, were synthesized through distinct protocols. Their ability to mitigate the effect of ammonia nitrogen inhibition was investigated in a Continuous Stirred-Tank Reactor (CSTR) with total solid (TS) concentration of 10% under a semi-continuous operation of ROW digestion system. The results show that the addition of Metal-Organic Frameworks (MOFs) material substantially mitigated the inhibition of ammonia nitrogen and enhanced methane production. Compared with the control group, FeMn/MOF-CFC exhibited the best performance, with a 40.21% decrease in ammonia nitrogen concentration and 66.96 L/L-reactor cumulative methane production. Furthermore, the potential mechanisms underlying microbial community characteristics were explored, indicating that the addition of FeMn/MOF-CFC to AD provides the optimal enhancement of methane production. The addition of FeMn/MOF-CFC can enrich Methanosarcina, enhance the acetoclastic pathway for methane production, and increase the relative activity of coenzyme F420, achieving a 193.68% increase.

Differences in Juniperus przewalskii Rhizosphere Microbiomes across Age Classes: Community Diversity and Assembly.

Evidence shows that biotic and abiotic factors have apparent diversity at different forest ages, leading to changes in rhizosphere microbiomes. However, the difference in diversity, co-occurrence pattern, and assembly of the rhizosphere microbial community among the different forest ages is still unclear. A total of 24 Juniperus przewalskii rhizosphere soil samples were selected from four representative age classes, using diameter at breast height (DBH) as a proxy for tree age (age class I: 5 < DBH ≤ 12.5 cm, age class II: 12.5 < DBH ≤ 22.5 cm, age class III: 22.5 < DBH ≤ 32.5 cm, and age class IV: DBH > 32.5 cm), and analyzed the structural characteristics of the soil microbial community by high-throughput amplicon sequencing. With the increase in age class, the microbial community α-diversity and β-diversity had an increased trend. The bacterial Shannon index in class II and class III were markedly higher than in class I. From class I to class IV, the relative abundances of dominant phyla such as Actinobacteria and Ascomycota decreased, and the relative abundances of Proteobacteria and Basidiomycota increased in contrast. The complexity and association stability of the bacteria and fungi community network structure increase with forest age. Stochastic processes mediated the assembly of soil bacterial communities, while deterministic processes played a more significant role in the assembly of fungal communities. In addition, the relative importance of deterministic components in the microbial community increased significantly with age class. Random forests suggested that soil pH, plant Shannon-Wiener index (H), and Pielou's evenness index (J) were the most important driving factors of bacterial and fungal community assembly. Overall, these results provide information useful for understanding the generation and maintenance mechanisms of rhizosphere microbial communities across age classes.

Composition and assembly mechanisms of prokaryotic communities in wetlands, and their relationships with different vegetation and reclamation methods

Coastal wetlands are undergoing substantial transformations globally as a result of increased human activities. However, compared to other ecosystems, diversity and functional characteristics of microbial communities in reclaimed coastal wetlands are not well studied compared to other ecosystems. This is important because it is known that microorganisms can play a crucial role in biogeochemical cycling within coastal wetland ecosystems. Hence, this study utilized the high-throughput sequencing technique to investigate the structure and assembly processes of microbial communities in reclaimed coastal wetlands. The results revealed a substantial change in soil properties following coastal wetland reclamation. Remarkably, the reclaimed soil exhibited significantly lower pH, soil organic carbon (SOC), and total salinity (TS) values (p < 0.05). The dominant phyla included Proteobacteria, Chloroflexi, Bacteroidetes, Acidobacteria, and Planctomycetes among study sites. However, the relative abundance of Proteobacteria increased from un-reclaimed coastal wetlands to reclaimed ones. The Proteobacteria, Chloroflexi, and Acidobacteria showed higher relative abundance in vegetated soil compared to bare soil, while Bacteroidetes and Planctomycetes exhibited the opposite trend. Notably, vegetation types exerted the strongest influence on microbial diversity, surpassing the effects of soil types and depth (F = 34.49, p < 0.001; F = 25.49, p < 0.001; F = 3.173, p < 0.078, respectively). Stochastic assembly processes dominated in un-reclaimed soil, whereas deterministic processes governed the assembly in artificial sea embankment wetlands (SEW). The presence of Spartina alterniflora in all soil types (except SEW soils) indicated stochastic assembly, while Phragmites australis in reclaimed soils pointed toward deterministic microbial assembly. Furthermore, environmental factors such as pH, soil water content (SWC), SOC, total carbon (TC), total nitrogen (TN), total phosphorus (TP), NH4+-N, vegetation types, soil depth, and geographic distance exhibited significant effects on microbial beta diversity indices. Co-occurrence network analysis revealed a stronger association between taxa in SEW compared to land reclaimed from wetlands (LRW) and natural coastal wetlands (NCW). The bottom soil layer exhibited more complex network interactions than the topsoil layer. Besides soil parameters, reclamation and varieties of vegetation were also substantial factors influencing the composition, diversity, and assembly processes of microbial communities in coastal wetlands.

The response of soil respiration to land‐use change depends on soil microbial community being regulated by edaphic factors in the Loess Plateau, China

AbstractLand‐use change has significant influences on soil respiration (Rs) in terrestrial ecosystems. Soil microbes play critical roles in soil carbon cycling. Nevertheless, the specific mechanism of how changes in soil microbial properties are linked to the variation of Rs rate during land‐use change still remains poorly understood, especially in the Loess Plateau, China. Here, the characteristics of Rs rate and soil microbial community following the land‐use change from farmland to plantation/grassland were analyzed via an automated soil CO2 flux system and high‐throughput 16S rDNA gene sequencing. The afforestation altered soil microbial diversity and community composition, which was mainly explained by soil pH, temperature, organic matter, nitrate, alkali‐hydrolyzed nitrogen, and available phosphorus. The biomarkers of Bacteroidetes, Firmicutes, and Thaumarchaeota were found in farmland soil at the phylum level. The afforestation also significantly decreased Rs rate, which was closely related to Shannon's index, Simpson's index, and some microbial taxa, such as Bacteroidetes, Firmicutes, Nitrospirae, and Acidobacteria. Bacteroidetes, and Firmicutes were particularly expected to be important drivers of high Rs rate in farmland soil. Moreover, the microbial interaction was probably also an important factor affecting Rs rate. Our results indicate that the response of Rs to land‐use change depends on soil microbial community being regulated by soil physicochemical properties in the Loess Plateau, China.

Long-term fertilization promotes soil organic nitrogen accumulation by increasing the abundance of keystone microbial cluster across aggregates

Nitrogen (N) in soil mainly occurs in organic forms, with soil organic nitrogen (SON) playing an essential role in supplying N to crops. However, it is unclear how the content and distribution of SON vary among different aggregate sizes, and how SON content is related to soil microorganisms. In this study, we investigated the associations between SON content and various microbial community characteristics across different aggregate sizes using data from a long-term field fertilization experiment in paddy soils. We also performed functional prediction to explore potential microbial mechanisms underlying SON accumulation. The results showed that SON content decreased as aggregate size decreased, with macroaggregates having the highest SON content and the silt-clay fraction having the lowest. Furthermore, our linear regression and structural equation modeling analysis revealed that keystone microbial clusters (highly interconnected taxa within Firmicutes, Proteobacteria, Chloroflexi, Actinobacteriota, and Ascomycota) were significantly correlated with SON content. Finally, functional prediction analysis suggested that this relationship may be due, at least in part, to the large number of metabolic pathways involved in biosynthesis of N-containing compounds present in keystone microbial clusters. Overall, our study highlights the importance of keystone microbial clusters in influencing the accumulation of SON and contributes to our understanding of soil N biogeochemical cycling.

Impact of altered groundwater depth on soil microbial diversity, network complexity and multifunctionality.

Understanding the effects of groundwater depth on soil microbiota and multiple soil functions is essential for ecological restoration and the implementation of groundwater conservation. The current impact of increased groundwater levels induced by drought on soil microbiota and multifunctionality remains ambiguous, which impedes our understanding of the sustainability of water-scarce ecosystems that heavily rely on groundwater resources. This study investigated the impacts of altered groundwater depths on soil microbiota and multifunctionality in a semi-arid region. Three groundwater depth levels were studied, with different soil quality and soil moisture at each level. The deep groundwater treatment had negative impacts on diversity, network complexity of microbiota, and the relationships among microbial phylum unites. Increasing groundwater depth also changed composition of soil microbiota, reducing the relative abundance of dominant phyla including Proteobacteria and Ascomycota. Increasing groundwater depth led to changes in microbial community characteristics, which are strongly related to alterations in soil multifunctionality. Overall, our results suggest that groundwater depth had a strongly effect on soil microbiota and functionality.

Responses of soil biochemical and microbial properties to vegetation combinations of quarry restoration strategies in mountainous areas in China

The growing concern about the effectiveness of restoration strategies has spurred an evaluation of soil properties under different vegetation combinations. The restoration of underground microbial communities is critical to the success of restoration, however, the responses of biochemical and microbial properties to reclamation remain unknown. In this study, soil nutrients, enzyme activities and the characteristics of microbial communities of four restoration modes, CK1 (a non-restored mode) and CK2 (an original habitat mode) in a mining area of Sanhe City of Hebei Province were measured. Soil bacteria and fungi communities were analyzed by high-throughput sequencing of 16S rRNA gene fragment and internal transcribed spacer (ITS) to assess the recovery effects of different ecological restorations. Our results showed that: (1) The improved effect on soil available phosphorus (AP), available potassium (AK) and organic matter (OM) was obvious. Also, artificial and native plant combinations of Medicago sativa + local dominant natural vegetation (Nr) had the most obvious effect on soil nutrients. (2) The activities of soil urease, soil sucrase and soil phosphatase in Nr were considerably higher than those in other restoration modes (p < 0.05), while the soil catalase activity was the highest in the vegetation combinations of Medicago sativa + artificial miscellaneous grass (Mg) (p < 0.05). (3) Bacterial community structures in Nr were closest with those in CK2, whereas fungal community structures in Mg recovered the best. On the whole, the recovery rates of different indicators were ranked as follows: soil nutrients > bacteria > fungi. These results indicated that in the short term, native vegetation incorporating the planting of alfalfa significantly increased ecological restoration effects, however, a longer restoration history was required to restore the soil microbial diversity level similar to that of the original habitat.

Characteristics of microbial community in Linyi fermented pork sausage and their correlation with quality: effects of the single Lactobacillus starter

This study aimed to assess the effect of five Lactobacillus starters adding on the quality and bacterial diversity of Linyi fermented sausage (LFS). The relationships between the differentially abundant microorganisms and product quality were explored. The Lactobacillus bulgaricus (B), Lactobacillus casei (C), Lactobacillus reuteri (RE) and Lactobacillus rhamnosus (RH) were inoculated into the meat batter with single strains, and the commercial starter Lactiplantibacillus plantarum (P) was used as the control group. The results demonstrated that the B and C samples presented better fermentation characteristics (lower pH and aw), the most content of free amino acids, and significantly improved sausage sensory and texture properties. As for the volatile profile identified by headspace gas chromatography-ion mobility spectrometry, aldehydes were enriched in the B sample, which imparted a stronger fat, floral, honey-like fragrance. High-throughput sequencing showed that 11 bacteria genera were identified as differentially abundant. Spearman correlation revealed that excessive Klebsiella, Serratia and Hafnia-Obesumbacterium might not contribute to improving the quality of LFSs. Collectively, these findings are providing the theoretical guidance for the screening of functional starters.