Ecological patterns and adaptability of bacterial communities in alkaline copper mine drainage

Promoting the denitrification process by heavy metals in Liaohe Estuary sediment

The impact of heavy metal ions on the biodenitrification process remains unknown, which is the key to understand the nitrogen cycle in estuarine areas. Here, denitrification rate and the abundance of five denitrifying enzyme genes (narG, nirK, napA, norB and nosZ) in Liaohe Estuary sediments were examined, and the community structure of nirK denitrifying bacteria was also analyzed. The results demonstrate a significant positive correlation between heavy metal content (Cu2+, Zn2+, and Cr) and the denitrification rate, and the abundance of napA/norB (periplasmic nitrate reductase and nitric-oxide reductase) in sediments. The dominant narG denitrifiers were Pseudomonas, Hydrogenophaga, and Serratia known to be tolerant to heavy metal pollution. Sediment particle size, NO3-, NO2-, Zn2+, and Cd2+ were the key factors influencing the denitrifying community structure. These findings suggest that heavy metals may enhance the aerobic denitrification process in sediments and mitigate the adverse effects of high dissolved oxygen levels.

Protists play important roles in the assembly and stability of denitrifying bacterial communities in copper-tailings drainage

Unraveling the drivers controlling the assembly and stability of functional communities is a central issue in ecology. Despite extensive research and data, relatively little attention has been paid on the importance of biotic factors and, in particular, on the trophic interaction for explaining the assembly of microbial community. Here, we examined the diversity, assembly, and stability of nirS-, nirK-, and nosZ-type denitrifying bacterial communities in copper-tailings drainages of the Shibahe tailings reservoir in Zhongtiao Mountain, China's. We found that components of nirS-, nirK-, and nosZ-type denitrifying bacterial community diversity, such as taxon relative abundance, richness, and copy number, were strongly correlated with protist community composition and diversity. Assembly of the nirK-type denitrifying bacterial community was governed by dispersal limitation, whereas those of nirS- and nosZ-type communities were controlled by homogeneous selection. The relative importance of protist diversity in the assembly of nirK- and nosZ-type denitrifying bacterial communities was greater than that in nirS-type assembly. In addition, protists reduced the stability of the co-occurrence network of the nosZ-type denitrifying bacterial community. Compared with eukaryotic algae, protozoa had a greater impact on the stability of denitrifying bacterial community co-occurrence networks. Generally, protists affected the assembly and community stability of denitrifying bacteria in copper-tailings drainages. Our findings thus emphasize the importance of protists on affecting the assembly and community stability of denitrifying bacteria in copper-tailings drainages and may be useful for predicting changes in the ecological functions of microorganisms.

Geochemical properties, heavy metals and soil microbial community during revegetation process in a production Pb-Zn tailings

Lead-zinc (Pb-Zn) tailings pose a significant environmental threat from heavy metals (HMs) contamination. Revegetation is considered as a green path for HM remediation. However, the interplay between HM transport processes and soil microbial community in Pb-Zn tailings (especially those in production) remain unclear. This study investigated the spatial distribution of HMs as well as the crucial roles of the soil microbial community (i.e., structure, richness, and diversity) during a three-year revegetation of production Pb-Zn tailings in northern Guangdong province, China. Prolonged tailings stockpiling exacerbated Pb contamination, elevating concentrations (from 10.11 to 11.53 g/kg) in long-term weathering. However, revegetation effectively alleviated Pb, reducing its concentrations of 9.81 g/kg. Through 16 S rRNA gene amplicon sequencing, the dominant genera shifted from Weissella (44%) to Thiobacillus (17%) and then to Pseudomonas (comprising 44% of the sequences) during the revegetation process. The structural equation model suggested that Pseudomonas, with its potential to transform bioavailable Pb into a more stable form, emerged as a potential Pb remediator. This study provides essential evidence of HMs contamination and microbial community dynamics during Pb-Zn tailings revegetation, contributing to the development of sustainable microbial technologies for tailings management.

Rhizosphere microbial ecological characteristics of strawberry root rot

Introduction

Strawberry (Fragaria × ananassa Duch.) holds a preeminent position among small fruits globally due to its delectable fruits and significant economic value. However, strawberry cultivation is hampered by various plant diseases, hindering the sustainable development of the strawberry industry. The occurrence of plant diseases is closely linked to imbalance in rhizosphere microbial community structure.

Methods

In the present study, a systematic analysis of the differences and correlations among non-culturable microorganisms, cultivable microbial communities, and soil nutrients in rhizosphere soil, root surface soil, and non-rhizosphere soil of healthy and diseased strawberry plants affected by root rot was conducted. The goal was to explore the relationship between strawberry root rot occurrence and rhizosphere microbial community structure.

Results

According to the results, strawberry root rot altered microbial community diversity, influenced fungal community composition in strawberry roots, reduced microbial interaction network stability, and enriched more endophytic-phytopathogenic bacteria and saprophytic bacteria. In addition, the number of bacteria isolated from the root surface soil of diseased plants was significantly higher than that of healthy plants.

Discussion

In summary, the diseased strawberry plants changed microbial community diversity, fungal species composition, and enriched functional microorganisms significantly, in addition to reshaping the microbial co-occurrence network. The results provide a theoretical basis for revealing the microecological mechanism of strawberry root rot and the ecological prevention and control of strawberry root rot from a microbial ecology perspective.

Distinct gut bacterial composition in Anoplophora glabripennis reared on two host plants

Anoplophora glabripennis (Coleoptera: Cerambycidae: Lamiinae) is an invasive wood borer pest that has caused considerable damage to forests. Gut bacteria are of great importance in the biology and ecology of herbivores, especially in growth and adaptation; however, change in the gut bacterial community of this pest feeding on different hosts is largely unknown. In this study, we investigated the gut bacterial communities of A. glabripennis larvae fed on different preferred hosts, Salix matsudana and Ulmus pumila, using 16S rDNA high-throughput sequencing technology. A total of 15 phyla, 25 classes, 65 orders, 114 families, 188 genera, and 170 species were annotated in the gut of A. glabripennis larvae fed on S. matsudana or U. pumila using a 97% similarity cutoff level. The dominant phyla were Firmicutes and Proteobacteria and the core dominant genera were Enterococcus, Gibbsiella, Citrobacter, Enterobacter, and Klebsiella. There was significantly higher alpha diversity in the U. pumila group than in the S. matsudana group, and principal co-ordinate analysis showed significant differences in gut bacterial communities between the two groups. The genera with significant abundance differences between the two groups were Gibbsiella, Enterobacter, Leuconostoc, Rhodobacter, TM7a, norank, Rhodobacter, and Aurantisolimonas, indicating that the abundance of larval gut bacteria was affected by feeding on different hosts. Further network diagrams showed that the complexity of the network structure and the modularity were higher in the U. pumila group than in the S. matsudana group, suggesting more diverse gut bacteria in the U. pumila group. The dominant role of most gut microbiota was related to fermentation and chemoheterotrophy, and specific OTUs positively correlated with different functions were reported. Our study provides an essential resource for the gut bacteria functional study of A. glabripennis associated with host diet.

Effects of Mineral on Taxonomic and Functional Structures of Microbial Community in Tengchong Hot Springs via in-situ cultivation

Diverse mineralogical compositions occur in hot spring sediments, but the impact of minerals on the diversity and structure of microbial communities remains poorly elucidated. In this study, different mineral particles with various chemistries (i.e., hematite, biotite, K-feldspar, quartz, muscovite, aragonite, serpentine, olivine, barite, apatite, and pyrite) were incubated for ten days in two Tengchong hot springs, one alkaline (pH ~ 8.34) with a high temperature (~ 82.8 °C) (Gumingquan, short as GMQ) and one acidic (pH ~ 3.63) with a relatively low temperature (~ 43.3 °C) (Wenguangting, short as WGT), to determine the impacts of minerals on the microbial communities taxonomic and functional diversities. Results showed that the mineral-associated bacterial taxa differed from those of the bulk sediment samples in the two hot springs. The relative abundance of Proteobacteria, Euryarchaeota, and Acidobacteria increased in all minerals, indicating that these microorganisms are apt to colonize on solid surfaces. The α-diversity indices of the microbial communities on the mineral surfaces in the WGT were higher than those from the bulk sediment samples (p < 0.05), which may be caused by the stochastically adhering process on the mineral surface during 10-day incubation, different from the microbial community in sediment which has experienced long-term environmental and ecological screening. Chemoheterotrophy increased with minerals incubation, which was high in most cultured minerals (the relative contents were 5.8 - 21.4%). Most notably, the sulfate respiration bacteria (mainly related to Desulfobulbaceae and Syntrophaceae) associated with aragonite in the acidic hot spring significantly differed from other minerals, possibly due to the pH buffering effect of aragonite providing more favorable conditions for their survival and proliferation. By comparison, aragonite cultured in the alkaline hot spring highly enriched denitrifying bacteria and may have promoted the nitrogen cycle within the system. Collectively, we speculated that diverse microbes stochastically adhered on the surface of minerals in the water flows, and the physicochemical properties of minerals drove the enrichment of certain microbial communities and functional groups during the short-term incubation. Taken together, these findings thereby provide novel insights into mechanisms of community assembly and element cycling in the terrestrial hydrothermal system associated with hot springs.

Metagenomic insight into the distribution of metal resistance genes within cascade reservoir waters: Synergic impacts of geographic variation and anthropogenic pollution

Metal resistance genes (MRGs) are potential bio-indicators to diagnose contamination stress on riverine ecosystems. Within reservoir systems, river damming weakens hydrodynamic condition and enriches metal contaminants. But, little is known about the synergic impacts of geographic variation and anthropogenic pollution on MRGs. In this study, the abundance, composition and microbes of MRGs in four cascade reservoirs along the Jinsha River, southwestern China were investigated via high-throughput metagenomics. The results showed significant enrichment of chromium, cadmium and lead in Ludila and Xiluodu reservoirs with moderate ecological risks based on the criteria of drinking water quality and aquatic life protection. Nevertheless, at watershed scale, these metals played little role in up-regulating MRGs abundance owing to the limited toxic stress on microbes. Accordingly, geographic variation showed stronger impacts on MRGs composition than metals as revealed by the distance-decay relationship (Pearson correlation, r_geo = 0.24-0.57, r_metal = 0.10-0.41) and co-occurrence network (Node degree to MRGs subtype, n_geo = 180, n_metal = 6). River damming, as an artificial isolation of geographic space, significantly affected MRGs composition. The longer operation history, smaller storage capacity and higher regulation frequency caused the higher dissimilarity of MRGs composition between the reservoir's upstream and downstream areas. In conclusion, the metal pollution level is a prerequisite regulating MRGs; while under the lowly-polluted conditions, geographic variation had stronger impacts on MRGs than metal pollution via altered assembly of microbial communities. This study provides an important guidance for the future environmental management and ecological protection of river-reservoir ecosystems.

Divergent prokaryotic microbial assembly, co-existence patterns and functions in surrounding river sediments of a Cu-polymetallic deposit in Tibet

The exploitation of polymetallic deposits produces large amounts of mine drainage, which poses great challenges to the surrounding aquatic ecosystem. However, the prokaryotic microbial community assembly and co-existence patterns in the polluted area are poorly understood, especially in high-altitude localities. Herein, we investigated the prokaryotic microbial assembly, co-existence patterns and their potential functional responses in surrounding river sediments of a Cu-polymetallic deposit in Tibet. The sediments from mine drainage and surrounding tributaries exhibited distinct geochemical gradients, especially the changes in Cu content. The microbial community structure changed significantly, accompanied by decreased richness and diversity with increased Cu content. Interestingly, the relative abundances of some potential functional bacteria (e.g., Planctomycetota) actually increased as the Cu levels raised. In low contaminated area, ecological drift was the most important assembly process, whereas deterministic processes gained importance with pollution levels. Meanwhile, negative interactions in co-occurrence networks were more frequent with higher modularity and reduced keystone taxa in high contaminated area. Notably, the functions related to ABC transporters and quorum sensing (QS) were more abundant with high Cu content, which helped bacteria work together to cope with the stressful environment. Taken together, the physicochemical gradients dominated by Cu content drove the distribution, assembly and co-existence patterns of microbial communities in surrounding river sediments of a Cu-polymetallic deposit. These findings provide new insights into the maintenance mechanisms of prokaryotic microbial communities in response to heavy metal stress at high altitudes.

Sensitivity of Pathogenic Bacteria Strains to Treated Mine Water

Mine water as a result of meteoric and/or underground water's contact with tailings and underground workings could have an elevated content of metals associated with sulfate, often acidic, due to the bio-oxidation of sulfides. When entering aquatic ecosystems, the mine water can cause significant changes in the species' trophic levels, therefore a treatment is required to adjust the alkalinity and to remove the heavy metals and metalloids. The conventional mine water treatment removes metals, but in many cases it does not reduce the sulfate content. This paper aimed to predict the impact of conventionally treated mine water on the receiving river by assessing the genotoxic activity on an engineered Escherichia coli and by evaluating the toxic effects generated on two Gram-negative bacterial strains, Pseudomonas aeruginosa and Escherichia coli. Although the main chemical impact is the severe increases of calcium and sulfate concentrations, no significant genotoxic characteristics were detected on the Escherichia coli strain and on the cell-viability with a positive survival rate higher than 80%. Pseudomonas aeruginosa was more resistant than Escherichia coli in the presence of 1890 mg SO₄^2-/L. This paper reveals different sensitivities and adaptabilities of pathogenic bacteria to high concentrations of sulfates in mine waters.

Evaluation of PCR primers for detecting the distribution of nitrifiers in mangrove sediments

Ammonia-oxidizing archaea and ammonia-oxidizing bacteria (AOA and AOB), complete ammonia oxidizers (Comammox), and nitrite-oxidizing bacteria (NOB) play a crucial role in the nitrification process during the nitrogen cycle. However, their occurrence and diversity in mangrove ecosystems are still not fully understood. Here, a total of 11 pairs of PCR primers were evaluated to study the distribution and abundances of these nitrifiers in rhizosphere and non-rhizosphere sediments of a mangrove ecosystem. The amplification efficiency of these 11 pairs of primers was first evaluated and their performances were found to vary considerably. The CamoA-19F/CamoA-616R primer pair was suitable for the amplification of AOA in mangrove sediments, especially on the surface of rhizosphere sediments. Primer pair amoA1F/amoA2R was better for the characterization of novel AOB in the bacterial community of non-rhizosphere sediments of mangroves. In contrast, primer nxrB169F/nxrB638R showed a low abundance of NOB in mangrove sediments (except for R1). Comammox bacteria were abundant and diverse in mangrove sediments, as indicated by both the amoB gene for Comammox clade A and the amoA gene for Comammox Nitrospira clade B. However, the amoA gene for Comammox Nitrospira clade A was not successful in detecting them in the mangrove sediments. Furthermore, 568 operational taxonomic units (OTUs) were obtained by generating a clone library and a high abundance of OTUs was correlated with ammonium, pH, NO₂^-, and NO₃^-. Comammox and Comammox Nitrospira were identified by phylogenetic tree analysis, indicating that mangrove sediments harbor newly discovered nitrifiers. Additionally, many AOA and NOB were mainly distributed in the surface layer of the rhizosphere, whereas AOB and Comammox Nitrospira were in the subsurface of non-rhizosphere, as determined by qPCR analysis. Collectively, our findings highlight the limitations of some primers for the identification of specific nitrifying bacteria. Therefore, primers must be carefully selected to gain accurate insights into the ecological distribution of nitrifiers in mangroves. KEY POINTS: • Several sets of PCR primers perform well for the detection of nitrifiers in mangroves. • Mangroves are an important source of newly discovered nitrifiers. • Ammonium, pH, NO₂^-, and NO₃^- are important shapers of nitrifier communities in mangroves.

Investigation of an intermittently-aerated moving bed biofilm reactor in rural wastewater treatment under low dissolved oxygen and C/N condition

An intermittently-aerated moving bed biofilm reactor (MBBR) was proposed for nitrogen and carbon removal from low C/N synthetic rural wastewater. In purposes of low energy consumption and costs, the intermittent aeration modes were changed and the dissolved oxygen was reduced gradually during the operation. The results showed that effluent concentrations of ammonia nitrogen and chemical oxygen demand were lower than 15 and 50 mg/L, respectively, even under microaerobic condition (0.1-1.0 mg/L). Meanwhile, the simultaneous nitrification-denitrification was achieved by intermittent aeration. The activity of functional bacteria was still high and the proportion of autotrophic biomass increased significantly under intermittent micro-aeration mode, which improved the nitrification performance. Aerobic denitrifier Hydrogenophaga, anoxic denitrifier Thiothrix, and heterotrophic nitrifier such as Rhodobacter were enriched in the intermittently micro-aerated MBBR, which will provide an applicable solution for rural wastewater treatment under low C/N and costs.

Abundant microbial communities act as more sensitive bio-indicators for ecological evaluation of copper mine contamination than rare taxa in river sediments

Bacterial and fungal communities have been widely applied as bio-indicators for ecological evaluation of copper (Cu) mine pollution in river sediments. However, the response pattern of their abundant and rare sub-communities is still unknown, limiting the further development of biological diagnostics. Here, the alpha-diversity, community composition, environmental contribution and co-occurrence network of total, abundant and rare taxa for bacteria and fungi in the Jiaopingdu Cu Mine wastewater treatment plant (WWTP) were investigated through high-throughput sequencing. The results revealed different responses of microbial alpha-diversity for abundant and rare sub-communities. The abundant taxa were ubiquitous in all sediments, while rare taxa exhibited increases of species richness in polluted areas because of heterochthonous inputs of WWTP drainage. Nevertheless, the variations of community composition were consistent for bacterial and fungal abundant and rare taxa, all of which showed significant dissimilarity between control and polluted areas. Distance-decay relationship and canonical correlation analysis indicated that abundant taxa assemblies (r_bacteria = -0.924, r_fungi = -0.684) were more strongly driven by environmental changes than rare ones (r_bacteria = -0.626, r_fungi = -0.349), because abundant microbes had higher proportions of significant variations in abundance. Co-occurrence networks revealed more keystone species with high node degree and centrality among abundant taxa compared with rare ones. Moreover, bacterial abundant and rare taxa were more sensitive to Cu mine pollution than relevant fungal taxa owing to different Cu tolerance. In conclusion, among all microbial sub-communities, abundant bacteria had the highest environmental sensitivity, suggesting their important application in biological diagnosis of Cu mine pollution. Accordingly, the abundant taxa could act as "key reservoir" for future selection of specific indicator species, for example Thiobacillus, while rare taxa no longer need excessive in-depth analysis, which would greatly improve microbial diagnosis efficiency.

Long-term metal pollution shifts microbial functional profiles of nitrification and denitrification in agricultural soils

The increasing contamination of heavy metals in agricultural soils and its impact on the nitrogen (N) cycle and N use efficiency have attracted considerable attention in recent years. In this study, agricultural soils neighboring the Dabaoshan copper mining area (DBS) and Qingyuan electronic-waste recycling area (QY), in Guangdong, China, were sampled to study the interaction between heavy metals and nitrification/denitrification processes, especially the related microbial functional profiles. Results showed that the contamination of heavy metals affected nitrifiers and denitrifiers differently. The potential nitrification activity was about four times lower in metal-polluted soils compared with the unpolluted ones, with a significant decrease in the abundance of amoA and nxrB (p < 0.05) in the polluted samples. On the other hand, the potential denitrification activity was more metal-resistant, which attributed to its complex species composition as shown by a slightly higher α-diversity index, and was slightly higher (p > 0.05) in the polluted samples. Among the five denitrifying genes tested, nosZ gene had the highest increase and the nirK gene the most decrease in numbers and in the polluted soils. The metal-polluted soils had fewer correlations among N functional genes based on the co-occurrence network analysis. In addition, the core taxa of the whole bacterial community changed from copiotrophic to oligotrophic bacteria in the presence of heavy metals. Mantel test indicated that heavy metals were the dominant factors determining N-related genes while the bacterial community composition was due to a combination of heavy metal presence and soil properties such as TOC, NO₂^-, and pH. It is concluded that long-term heavy metals pollution potentially affected nitrifiers and denitrifiers differently as indicated by the shift in N functional genes and the change in nitrification/denitrification processes.

Indigenous microbial populations of abandoned mining sites and their role in natural attenuation

Environmental contamination by toxic effluents discharged by anthropogenic activities including the mining industries has increased extensively in the recent past. Microbial communities and their biofilms inhabiting these extreme habitats have developed different adaptive strategies in metabolizing and transforming the persistent pollutants. They also play a crucial role in natural attenuation of these abandoned mining sites and act as a major driver of many biogeochemical processes, which helps in ecological rehabilitation and is a viable approach for restoration of wide stretches of land. In this review, the types of mine wastes including the overburden and mine drainage and the types of microbial communities thriving in such environments were probed in detail. The types of biofilms formed along with their possible role in metal bioremediation were also reviewed. This review also provides an overview of the shift in microbial communities in natural reclamation process and also provides an insight into the restoration of the enzyme activities of the soils which may help in further revegetation of abundant mining areas in a sustainable manner. Moreover, the role of indigenous microbiota in bioremediation of heavy metals and their plant growth-promoting activity weres discussed to assess their role in phytoremedial processes.

pH-dependent biological sulfidogenic processes for metal-laden wastewater treatment: Sulfate reduction or sulfur reduction?

Both biological sulfate reduction process and sulfur reduction process are attractive technologies for metal-laden wastewater treatment. However, the acidity stress of metal-laden wastewater could affect the sulfidogenic performance and the microbial community, weaken the stability, efficiency and cost-effectiveness of the biological sulfidogenic processes (BSP). In this study, long-term lab-scale trials were conducted with a sulfate-reducing bioreactor and a sulfur-reducing bioreactor to evaluate the effects of acidity on sulfidogenic activities and the microbial community of the BSP. In the 300-day trial, the sulfate-reducing bacteria (SRB)-driven BSP was stable in terms of sulfidogenic performance and microbial community with the decline of pH, while the sulfur-reducing bacteria (S⁰RB)-driven BSP achieved high-rate and low-cost sulfide production under neutral conditions but unstable under acidic conditions. With the decline of pH, the sulfide production rate (SPR) of the SRB-driven BSP stably increased from 30 to 83 mg S/L-h; while it decreased from 56 to 37 mg S/L-h in the S⁰RB-driven BSP with high fluctuation. The results of estimation were consistent with the thermodynamical calculations, in which the sulfur reduction process showed a better performance at pH 5-7, while the sulfate reduction process might gain more energy when pH<5. The stable sulfidogenic performance and microbial community diversity of the SRB-driven BSP could be attributed to the alkalinity produced in sulfate reduction to buffer the acidic stress. In comparison, the microbial community in the S⁰RB-driven BSP was significantly re-shaped by acidity stress, and the predominant sulfidogenic bacterium changed from Desulfovibrio at neutral condition, to Desulfurella at pH≤5.4. The stability of the microbial community significantly affected the SPR and the operational cost. Nevertheless, the organic consumption for sulfide production of the S⁰RB-driven BSP was still less than the SRB-driven BSP even in acidic conditions. Collectively, the S⁰RB-driven BSP was recommended under neutral or mild acid conditions, while the SRB-driven BSP was more suitable under fluctuating pH conditions, especially at low pH. Overall, this study presented the long-term performance of SRB- and S⁰RB-driven BSP under varying pH conditions, and provided guidance to determine the suitable BSP and operational cost for different metal-laden wastewater.

Effect of copper sulfate on the external microbiota of adult common snook (Centropomus undecimalis)

BACKGROUND

The environment exerts a strong influence on the fish external microbiota, with lower diversity and increased abundances of opportunistic bacterial groups characterizing cultured fish compared to their wild counterparts. Deviation from a healthy external microbiota structure has been associated with increased susceptibility to bacterial pathogens. Treatment of wild-caught broodstock with copper sulfate for the removal of external parasites is a common aquaculture practice. Despite the microbiota's importance to fish health, the effects of copper sulfate on mucosal bacterial communities and their ability to recover following this chemical treatment have not been examined. The skin microbiota of adult common snook was characterized from wild individuals (Wild), and wild-caught fish maintained in recirculating aquaculture systems (RAS) immediately following a month-long copper sulfate treatment (Captive-1), and then two-weeks (Captive-2) and 2 years (Captive-3) after cessation of copper treatment.

RESULTS

The skin microbiota of wild fish were characterized by high diversity and taxa including Synechocococcus, SAR11, and a member of the Roseobacter clade. Bacterial diversity decreased in Captive individuals during the 2-year sampling period. Captive fish harbored greater abundances of Firmicutes, which may reflect glycan differences between aquaculture and natural feeds. Bacterial taxa with copper resistance mechanisms and indicative of metal contamination were enriched in Captive-1 and Captive-2 fish. Vibrionaceae were dominant in Captive fish, particularly immediately and 2 weeks following copper treatment. Based on our observations and previous literature, our results suggest putatively beneficial taxa amass over time in captivity. Within 2 years, Captive individuals harbored Bacillus which contains numerous probiotic candidates and the complex carbon degraders of the family Saprospiraceae. Predicted butanoate metabolism exceeded that of Wild fish, and its reported roles in immunity and energy provision suggest a prebiotic effect for fishes.

CONCLUSIONS

The mucosal microbiota contains bacterial taxa that may act as bioindicators of environmental pollution. Increases in mutualistic groups indicate a return to a beneficial skin microbiota following copper sulfate treatment. Our data also suggests that vastly different taxa, influenced by environmental conditions, can be associated with adult fish without noticeable health impairment, perhaps due to establishment of various mutualists to maintain fish mucosal health.

Effects of submerged vegetation on sediment nitrogen-cycling bacterial communities in Honghu Lake (China)

Sediment nitrogen (N) cycling is an important biological removal process for N permanently and driven by N-cycling microbial community. There is a growing interest in interactions between submerged vegetation (SV) and sediment N-cycling bacterial community, because of the close link between rooted aquatic plants and the sediment microbes. However, the effects of SV on the sediment N-cycling bacterial community are still controversial. Furthermore, the discrimination of direct and indirect effects of SV on the N-cycling bacterial community remains unclear. Here, we investigated the biomass and species richness of SV and determined the corresponding environment factors (water quality and sediment properties) in Honghu Lake (China). We also used functional genes as markers to unveil the bacterial diversity and community composition and abundance in lake sediments. Our results showed that biomass and species richness of SV affected the composition, diversity and abundance of sediment N-cycling bacterial communities through improving lake water quality and sediment properties. With the increasing richness and abundance of SV, the diversity of most N-cycling bacterial assemblages including nitrifying, denitrifying and DNRA bacteria decreased, while the abundance increased. However, the anammox bacterial assemblage in sediments showed inverse trends. Sediment carbon vs. nitrogen (C:N) ratio negatively affected the abundance of amoA and nirS + nirK + nosZ bacterial assemblages. Additionally, due to the presence of SV, positive interactions among N-cycling bacterial assemblages were found, such as amoA and nrfA bacterial assemblages. Overall, our findings confirmed the significant effects of SV on the N-cycling bacterial community structure and abundance. Moreover, the direct effects of SV on the N-cycling bacterial community and the indirect effects through altering the sediment C were clarified in our study. Our results casted a new light on the negative effects of high C:N ratio. From the study, we made a conclusion that the better SV develops, the greater nitrogen removal occurs in lake sediments.

Effects of environmental factors on denitrifying bacteria and functional genes in sediments of Bohai Sea, China

The ability of denitrifying microorganisms to respond to different ecological pressures remains unknown, especially in marine sediments rich in various heavy metals. Here, gene abundance and transcriptional abundance of five functional denitrification genes (narG, nirK, nirS, norB, and nosZ) in Bohai Sea sediments were examined, and high-throughput Illumina sequencing was used to analyze the community structure of nirK and nirS denitrifying bacteria. The nirS- and nirK-type denitrifying bacteria were classified into different genera. The heavy metal content in sediments was negatively correlated with transcriptional abundance of denitrifying genes, and RNA: DNA ratio for each gene was highest in central Bohai Sea. These results indicated the distribution of nitrite reductase denitrifying bacterial communities was affected by depth, total nitrogen, total phosphorus and sediment grain size. Heavy metal contamination in sediment environment may negatively regulate the transcriptional abundance of denitrifying genes and cause geographical differences in the denitrifying bacterial community structure.

Effects of inoculation with lignocellulose-degrading microorganisms on nitrogen conversion and denitrifying bacterial community during aerobic composting

The present study compared the effects of inoculation (WSD treatment) and non-inoculation (CK treatment) with lignocellulose-degrading microorganisms on nitrogen conversion, nitrogen functional genes, and the denitrifying bacterial community during aerobic composting, and their potential relations to NH₃ and N₂O emissions were also explored. Results showed that, WSD reduced the NH₃ and N₂O emissions by 25.9% and 34.98%, respectively, compared with CK. WSD also reduced the abundances of nitrifying (bacteria amoA) and denitrifying (nirS, nirK, and nosZ) genes during composting, which were significantly positively correlated with N₂O emissions (P < 0.01). The most important nosZ denitrifying microorganisms belonged to Proteobacteria. Redundancy analysis showed that environmental factors could affect the succession of the denitrifying bacterial community during composting. Based on these results, structural equation modeling demonstrated that the reduction in N₂O emissions under WSD was related to the lower accumulation of NO₃^--N utilized by denitrifying microorganisms during the compost maturation period.

Spatial Distribution of Toxic Metal(loid)s and Microbial Community Analysis in Soil Vertical Profile at an Abandoned Nonferrous Metal Smelting Site

In this study soils at different depths were collected in a Zn smelting site located in Zhuzhou City, China, in order to understand toxic metal(loid)s distribution and microbial community in vertical soil profile at a smelting site. Except Soil properties and metal(loid)s content, the richness and diversity of microbial communities in soil samples were analyzed via high-throughput Illumina sequencing of 16s rRNA gene amplicons. The results showed that the content of As, Pb, Cu, Cd, Zn, and Mn was relatively high in top soil in comparison to subsoil, while the concentration of Cr in subsoil was comparable with that in top soil due to its relative high background value in this soil layer. The bioavailability of Cd, Mn, Zn, and Pb was relative higher than that of As, Cr, and Cu. The diversity of soil microbial communities decreased with increasing depth, which might be ascribed to the decrease in evenness with increase in depth duo to the influence by environmental conditions, such as pH, TK (total potassium), CEC (cation exchange capacity), ORP (oxidation reduction potential), and Bio-Cu (bioavailable copper). The results also found Acidobacteria, Proteobacteria, Firmicutes, and Chloroflexi were dominant phyla in soil samples. At the genus level, Acinetobacter, Pseudomonas, and Gp7 were dominant soil microorganism. Besides, Environmental factors, such as SOM (soil organic matter), pH, Bio-Cu, Bio-Cd (bioavailable cadmium), and Bio-Pb (bioavailable lead), greatly impacted microbial community in surface soil (1-3 m), while ORP, TK, and AN concentration influenced microbial community in the subsoil (4-10 m).

Bacterial community characteristics and enzyme activities in Imperata cylindrica litter as phytoremediation progresses in a copper tailings dam

This study analyzed Imperata cylindrica litter to determine variation in bacterial community composition and function along with enzyme activity as phytoremediation progresses. We found significant differences in physical and chemical properties of soil and litter in the different sub-dams investigated. The Actinobacteria, Gammaproteobacteria and Alphaproteobacteria were the dominant bacteria found in the litter of the different sub-dams. The alpha diversity (α-diversity) of litter bacterial community increased over as phytoremediation progressed, while total soil carbon and total litter carbon content were positively correlated to bacterial α-diversity. Total litter carbon and total nitrogen were the key factors that influenced bacterial community structure. Heavy metal can influence the degradation of litters by altering the composition of the microbial community. Furthermore, bacterial communities encoded with alpha-amylase (α-amylase) dominated during the initial phytoremediation stage; however, bacterial communities encoded with hemicellulase and peroxidase gradually dominated as phytoremediation progressed. Findings from this study provide a basis for exploring litter decomposition mechanisms in degraded ecosystems, which is critically important to understand the circulation of substances in copper tailings dams.

Influence of Phragmites communis and Zizania aquatica on rhizosphere soil enzyme activity and bacterial community structure in a surface flow constructed wetland treating secondary domestic effluent in China

The present study aims to investigate the effects of Phragmites communis and Zizania aquatica on rhizosphere soil enzyme activity and bacterial community structure in a surface flow constructed wetland (SFCW) for the treatment of domestic sewage from the Shanxi province of China. The basic physical and chemical properties of the soil, the contents of soil urease (UE), alkaline phosphatase (ALP), soil microbial biomass carbon and nitrogen (SMBC, SMBN), and bacterial community structure were measured in the Phragmites communis group (PG), Zizania aquatica group (ZG), and control group (CG), respectively. The results showed that (1) the contents of UE, ALP, SMBC, and SMBN in rhizosphere soil of PG were more than those of ZG; (2) the highest bacterial abundance and α-diversity appeared in PG, in which Gp6 was the most abundant bacterial genus in PG; (3) the main functions of the dominant bacteria Gp6 and Longilinea in PG were involved in metabolizing multiple carbohydrates and participating in the carbon cycle in the soil based on the clusters of orthologous groups pathway analysis data; (4) the bacterial community of PG was mainly affected by the positive correlation with arsenic, nickel, or SMBC via the redundancy analysis. Collectively, Phragmites communis is a recommended species for wastewater wetland treatment system in Shanxi province, and the special enzymes and dominant bacteria in plant rhizosphere soil had obvious functions of removing organic pollutants. Besides, the influences of environmental factors on rhizosphere bacteria and the combined effects of Phragmites communis and dominant bacteria in wetland wastewater treatment system should be taken seriously.

Micro-graphite particles accelerate denitrification in biological treatment systems

Accelerated denitrification is an essential problem in the biological treatment of nitrogenous wastewater. In this study, we report that denitrification is accelerated by micro-graphite particles (MGPs). The denitrification rate was increased by 83.4% or 11.1% in synthetic (with 0.16 g/L MGPs) or industrial nitrogenous wastewater (with 0.12 g/L MGP), respectively. The mechanism was revealed via a quantitative polymerase chain reaction (q-PCR), high-throughput sequencing, and scanning electron microscopy (SEM). The abundance of denitrifying bacteria Paracoccus in the sludge was increased by micro-graphite particles. The number of denitrifying bacteria with the nirS gene was increased significantly (75.6%). To the best of our knowledge, this is the first report that MGP could enhance denitrification via the sludge. MGP can denitrify in industrial applications.

Characteristics and Driving Factors of the Aerobic Denitrifying Microbial Community in Baiyangdian Lake, Xiong'an New Area

Here, the ion-exchangeable form of nitrogen (IEF-N), weak-acid extractable form of nitrogen (WAEF-N), strong-alkali extractable form of nitrogen (SAEF-N), strong-oxidant extractable form of nitrogen (SOEF-N), residue nitrogen (Res-N), and total nitrogen (TN) showed spatial differences, and most of the sediment nitrogen fractions exhibited positive correlations in Baiyangdian Lake. High-throughput sequencing analysis revealed that the aerobic denitrification microbial community was composed of proteobacteria (42.04%–99.08%) and unclassified_bacteria (0.92%–57.92%). Moreover, the microbial community exhibited significant differences (R² = 0.4422, P < 0.05) on the basis of the adonis analysis. T(temperature), Moisture content (MC), sediment total phosphorus (STP), ion-exchangeable form of ammonia (IEF-NH₄⁺-N), weak-acid extractable form of ammonia (WAEF-NH₄⁺-N), weak-acid extractable form of nitrate (WAEF-NO₃⁻-N), and strong-alkali extractable form of ammonia (SAEF-NH₄⁺-N) were the dominant environmental factors and explained 11.1%, 8.2%, 10.7%, 6.9%, 9.3%, 8.1%, 10.5%, 7.5%, and 7% variation, respectively, of the total variation in the microbial community. Furthermore, the network analysis showed that symbiotic relationships accounted for a major percentage of the microbial networks. The keystone aerobic denitrifying bacteria belonged to Comamonas, Rhodobacter, Achromobacter, Aeromonas, Azoarcus, Leptothrix_Burkholderiales, Pseudomonas, Thauera, unclassified_Burkholderiales, and unclassified_bacteria. The composition of the keystone aerobic denitrifying microbial community also exhibited significant differences (R² = 0.4534, P < 0.05) on the basis of the adonis analysis. T, STP, IEF-NH₄⁺-N, ion-exchangeable form of nitrate (IEF-NO₃⁻-N), WAEF-NO₃⁻-N, SAEF-NH₄⁺-N, and TN were the dominant environmental factors that explained 8.4%, 6.2%, 4.6%, 5.9%, 5.9%, 4.5%, and 9.4% variation, respectively, of the total variation in the keystone aerobic denitrifying microbial community. The systematic investigation could provide a theoretical foundation for the evolution mechanism of the aerobic denitrifying microbial community in Baiyangdian Lake.

The dynamic development of bacterial community following long-term weathering of bauxite residue

Bauxite residue is the industrial waste generated from alumina production and commonly deposited in impoundments. These sites are bare of vegetation due to the extreme high salinity and alkalinity, as well as lack of nutrients. However, long term weathering processes could improve residue properties to support the plant establishment. Here we investigate the development of bacterial communities and the geochemical drivers in bauxite residue, using Illumina high-throughput sequencing technology. Long term weathering reduced the pH in bauxite residue and increased its nutrients content. The bacterial community also significantly developed during long term weathering processes. Taxonomic analysis revealed that natural weathering processes encouraged the populations of Proteobacteria, Chloroflexi, Acidobacteria and Planctomycetes, whereas reducing the populations of Firmicutes and Actinobacteria. Redundancy analysis (RDA) indicated that total organic carbon (TOC) was the dominant factors affecting microbial structure. The results have demonstrated that natural weathering processes improved the soil development on the abandoned bauxite residue disposal areas, which also increased our understanding of the correlation between microbial variation and residue properties during natural weathering processes in Bauxite residue disposal areas.

Nitrate removal from low carbon-to-nitrogen ratio wastewater by combining iron-based chemical reduction and autotrophic denitrification

Nitrate removal from low carbon-to-nitrogen ratio (C/N) wastewater has always been a knotty problem due to the deficiency of organics. Here, a novel iron-based chemical reduction and autotrophic denitrification (ICAD) system was developed. ICAD system could maintain average nitrate removal efficiency of 97.2% for 131 days with feeding 20.3 mg NO₃^--N/L at hydraulic retention time (HRT) of 24 h. The optimal operational conditions was further explored, and results demonstrated that average nitrate removal efficiency of 85.5% and 98.4% could be achieved at HRT of 12 h and 24 h (influent 20.3 mg NO₃^--N/L), while average nitrate removal efficiency could reach 96.3% at optimal HRT of 12 h (influent 10.3 mg NO₃^--N/L). Hydrogenophaga, which can carry out hydrogenotrophic denitrification, showed a positive correlation with nitrate removal efficiency of the ICAD system. Low cost and simple operation make the ICAD system suitable for large-scale application.

The spatial variations of correlation between microbial diversity and groundwater quality derived from a riverbank filtration site, northeast China

To identify the relationship between microbial communities and groundwater quality parameters, especially typical groundwater contaminants including ammonium (NH₄⁺), iron (Fe²⁺), and manganese (Mn²⁺), groundwater samples and aquifer media were collected from a riverbank filtration (RBF) site in Harbin city, northeast China. The structures of the microbial communities of aquifer media at different depths were illustrated through 16S rRNA sequencing using the Illumina MiSeq platform, and the correlation between microbial communities and water quality parameters was quantitatively demonstrated by redundancy analysis (RDA). The results revealed that the diversity of microbial communities decreased along the groundwater flow path at the south bank of Songhua river. The richness and diversity in the unsaturated zone (0-5 m) were significantly higher than those in the saturated zone (5-50 m) because of physiochemical properties of aquifer media and the redox environment in the RBF system. Core taxa, which were significantly related to the biotransformation behavior of iron, manganese, and ammonium, were Pseudomonas, Acinetobacter, Ochrobactrum, Sphingobium, and Sphingomonas. RDA results indicated that the critical physiochemical parameters that significantly influenced the composition of microbial communities were different in the saturated and unsaturated zones, and the total organic carbon (TOC), electrical conductivity (EC), nitrate (NO₃^-), and manganese (Mn²⁺) levels were the four principal factors affecting the function and composition of microbial communities in the whole RBF system. Proteobacteria, Sphingomonadales, and Sphingobium were the dominant bacteria at the phylum, order, and genus levels with 39.8%, 59.2%, and 65.3% contribution to the overall groundwater quality, respectively. The results obtained from this study should improve the understanding of the relationship between the structure of microbial communities (especially, bacteria related to the biotransformation of NH₄⁺, Fe²⁺, and Mn²⁺) and physiochemical parameters.

Coupling ammonia nitrogen adsorption and regeneration unit with a high-load anoxic/aerobic process to achieve rapid and efficient pollutants removal for wastewater treatment

In this study, an ammonium nitrogen (NH₄⁺-N) adsorption and regeneration (AAR) was constructed by a zeolite-packed column and NaClO-NaCl regeneration unit, and coupled with an anoxic/aerobic (AO) system to achieve efficient removal of carbon, nitrogen and phosphorus under short hydraulic retention time (HRT) and sludge retention time (SRT). Compared to conventional anaerobic/anoxic/aerobic (AAO) process, the proposed AO-AAR process achieved more efficient and stable nitrogen removal with greatly shorter HRT (5.6 h) and SRT (8 d) at 10.4 °C, with NH₄⁺-N and total nitrogen in the effluent below 1.5 and 8.0 mg/L, respectively. The AO-AAR also obtained efficient phosphorus removal (<0.5 mg/L) by dosing aluminum in aerobic tank. High load and short SRT deteriorated sludge settleability and dewaterability, but enhanced methane production by improving sludge biodegradability. Dosing aluminum made the AO operating module more stable with improved settleability and dewaterability, and further enhanced methane production. Short HRT and SRT also resulted in the thriving of filamentous bacteria (Thiothrix) and heterotrophic nitrifiers (Acinetobacter, Pseudomonas and Rhodobacter) in the AO module, which helped in enhancing denitrification potential and nitrification efficiency under low temperature. Long-term operation showed that exchange capacity and physicochemical properties of zeolite were unchanged under NaClO-NaCl regeneration by introducing the tail gas from aerobic tank into the used regenerant to remove Ca²⁺ and Mg²⁺ exchanged from effluent of the AO module. Techno-economic analysis showed that the AO-AAR process is attractive and sustainable for municipal wastewater treatment by significantly improving nitrogen removal, greatly reducing land occupancy, enhancing methane production and achieving efficient reduction of carbon dioxide emission.

Quantification of denitrifier genes population size and its relationship with environmental factors

The objectives of this study were to use real-time PCR for culture-independent quantification of the copy numbers of 16S rRNA and denitrification functional genes, and also the relationships between gene copy numbers and soil physicochemical properties. In this study, qPCR analysis of the soil samples showed 16S rRNA, nirS, nirK, nosZI and nosZII average densities of 3.0 × 10⁸, 2.25 × 10⁷, 2.9 × 10⁵, 4.0 × 10⁶ and 1.75 × 10⁷ copies per gram of dry soil, respectively. In addition, the abundances of (nirS + nirK), nosZI and nosZII relative to 16S rRNA genes were 1.4-34.1%, 0.06-3.95% and 1.3-39%, respectively, confirming the low proportion of denitrifiers to total bacteria in soil. This showed that the non-denitrifying nosZII-type bacteria may contribute significantly to N₂O consumption in the soil. Furthermore, the shifts in abundance and diversity of the total bacteria and denitrification functional gene copy numbers correlated significantly with the various soil factors. It is the first study in Turkey about the population size of denitrification functional genes in different soil samples. It also aims to draw attention to nitrous oxide-associated global warming.

Role of heterotrophic aerobic denitrifying bacteria in nitrate removal from wastewater

With the increase in industrial and agricultural activities, a large amount of nitrogenous compounds are released into the environment, leading to nitrate pollution. The perilous effects of nitrate present in the environment pose a major threat to human and animal health. Bioremediation provides a cost-effective and environmental friendly method to deal with this problem. The process of aerobic denitrification can reduce nitrate compounds to harmless dinitrogen gas. This review provides a brief view of the exhaustive role played by aerobic denitrifiers for tackling nitrate pollution under different ecological niches and their dependency on various environmental parameters. It also provides an understanding of the enzymes involved in aerobic denitrification. The role of aerobic denitrification to solve the issues faced by the conventional method (aerobic nitrification-anaerobic denitrification) in treating nitrogen-polluted wastewaters is elaborated.

Bacterial Heavy-Metal and Antibiotic Resistance Genes in a Copper Tailing Dam Area in Northern China

Heavy metal resistance genes (MRGs) and antibiotic resistance genes (ARGs) in bacteria can respond to the inducement of heavy metals. However, the co-occurrence of MRGs and ARGs in the long-term heavy metal contaminated area is still poorly understood. Here, we investigated the relationship between the abundance of soil bacteria MRGs, ARGs and heavy metal pollution in a copper tailing dam area of northern China. We found that arsC and ereA genes coding for resistance mechanisms to arsenic and to macrolides, respectively, are the most abundant MRG and ARG in the study area. The abundance of MRGs is positively correlated with cadmium (Cd) concentration, and this indicates the importance of Cd in the selection of MRGs. The network analysis results show that sulII and MRGs co-occur and copB occur with ARGs, which suggests that MRGs and ARGs can be co-selected in the soil contaminated by heavy metal. The network analysis also reveals the co-occurrence of Cd and MRGs, and thus heavy metal with a high 'toxic-response' factor can be used as the indicator of MRGs. This study improves the understanding of the relationship between bacterial resistance and multi-metal contamination, and underlies the exploration of the adaptive mechanism of microbes in the multi-metal contaminated environment.

Microbial community succession and pollutants removal of a novel carriers enhanced duckweed treatment system for rural wastewater in Dianchi Lake basin

Carriers strengthened duckweed treatment system (CDW), duckweed treatment system (DW) and water hyacinth treatment system (WH) were developed to treat rural wastewater in Dianchi Lake basin. Results showed that adding microbial carrier did not affect the growth and biomass components of duckweed. The following features were discovered in the CDW system. First, the NO₃^--N and TN removal efficiencies were the highest among three systems, reaching 80.02% and 56.42%, respectively. Secondly, Illumina sequencing revealed the highest microbial diversity. Thirdly, a distinct succession of microbial community was observed. Rhodobacter, Bacteria vadinCA02, C39 and Flavobacterium dominated in the start-up stage, and contributed to biofilm formation and pollutants degradation. Acinetobacter, Planctomyces and Methylibium significantly increased in the stable stage, and contributed to nitrogen removal. Finally, highly abundant plant growth-promoting bacteria were found. Comprehensive analysis indicated that the functional bacteria community was closely related to the pollutant removals, plant growth and system operating status.

Biogeographic Patterns and Assembly Mechanisms of Bacterial Communities Differ Between Habitat Generalists and Specialists Across Elevational Gradients

A core issue in microbial ecology is the need to elucidate the ecological processes and underlying mechanisms involved in microbial community assembly. However, the extent to which these mechanisms differ in importance based on traits of taxa with different niche breadth is poorly understood. Here, we used high-throughput sequencing to examine the relative importance of environmental selection and stochastic processes in shaping soil bacterial sub-communities with different niche breadth (including habitat generalists, specialists and other taxa) across elevational gradients on the subalpine slope of Mount Wutai, Northern China. Our findings suggested that the composition of soil bacterial communities differed significantly different among elevational gradients. According to the niche breadth index, 10.9% of OTUs were defined as habitat generalists (B-value >8.7) and 10.0% of OTUs were defined as habitat specialists (B-value <1.5). Generalists and specialists differed distinctly in diversity and biogeographic patterns across elevational gradients. Environmental selection (deterministic processes) and spatial factors (stochastic processes) seemed to determine the assembly and biogeography of habitat generalists. However, for specialists, deterministic processes strongly influenced the distribution, while stochastic processes were not at play. Environmental drivers for generalists and specialists differed, as did their importance. Elevation, total nitrogen and pH were the main factors determining habitat generalists, and soil water content, nitrate nitrogen and pH had the strongest impacts on specialists. Moreover, variation partitioning analysis revealed that environmental selection had a much greater impact on both generalists (17.7% of pure variance was explained) and specialists (3.6%) than spatial factors. However, generalists had a much stronger response to spatial factors (2.3%) than specialists (0.3%). More importantly, null models of β-diversity suggested that specialists deviated significantly from non-neutral assembly mechanisms (relative null deviation= 0.64–0.74) relative to generalists (0.16–0.65) (P < 0.05). These results indicate that generalists and specialists are governed by different assembly mechanisms and present distinct biogeographical patterns. The large proportion of unexplained variation in specialists (93.3%) implies that very complex assembly mechanisms exist in the assembly of specialists across elevational gradients on the subalpine slope of Mount Wutai. It is essential to understand the microbial community assembly at a more refined level, and to expand the current understanding of microbial ecological mechanisms.

Denitrifier communities impacted by heavy metal contamination in freshwater sediment

Heavy metals are widely detected in natural environments, however their impacts on denitrifier community in freshwater ecosystem remain unclear. The present study investigated the changes of denitrifier communities (based on nosZ (nitrous oxide reductase) gene) in a freshwater reservoir contaminated by a severe accidental spill of heavy metals. The abundance of nosZ-denitrifiers drastically decreased, and their community richness, diversity and structure also showed considerable variations. The mainly detected denitrifying bacteria included Pseudogulbenkiania, Pseudomonas and two unknown groups. These major nosZ-denitrifier groups responded in different ways to heavy metal pollution. Metal contamination could exert a profound influence on denitrifier community in freshwater sediment. This work could provide some new insights to the impact of metal pollution on nitrogen cycling.

Effects of Restoration Time on Microbial Diversity in Rhizosphere and Non-Rhizosphere Soil of Bothriochloa ischaemum

There is well-documented evidence that shows phytoremediation and restoration methods affect physical and chemical properties, enzyme activities, and microbial communities of soil. In this study, we investigated the response of soil microbial communities to restoration time. We found that arsenic content decreased gradually as restoration progressed. Total carbon (C) in shoots and total nitrogen (N) in roots of B. ischaemum both exhibited increasing trends with an increase in restoration time. The transfer factor of chromium was negatively correlated to C in shoots and positively correlated to sulfur in roots. Additionally, the transfer factor of lead had a remarkably positive correlation to the C/N ratio of roots. For soil enzymes, total N in soil was positively correlated to catalase and urease but negatively correlated to sucrose. Moreover, bulk soil bacterial composition was positively correlated to catalase, sucrase and phosphatase while fungal diversity was positively correlated to sucrose. This study found that restoration time plays the most significant role in bacterial and fungal composition and bacterial diversity, but it has no effect on fungal diversity in rhizosphere and non-rhizosphere soil. In addition, the driving factors of microbial composition and diversity varied in rhizosphere and non-rhizosphere soil among the different restoration time treatments.

Effects of Heavy Metals on Phyllosphere and Rhizosphere Microbial Community of Bothriochloa ischaemum

Copper mining has resulted in severe damage to the ecological environment of mining areas. This study investigated heavy metal distribution in plants and compared the driving factors between aboveground and subsurface microorganisms, as well as the diversity in rhizosphere and non-rhizosphere soil microbial community response to heavy metal transfer factors in a copper tailings dam. We analyzed phyllosphere and soil microbial community using high-throughput sequencing and denaturing gradient gel electrophoresis, respectively. Although we detected chromium in aboveground and subsurface of Bothriochloa ischaemum specimens, no chromium was detected in soil. Total nitrogen was negatively correlated to the carbon and nitrogen ratios of plants and soil, respectively, while the total sulfur was negatively correlated to cadmium in roots. On the contrary, soil sulfur was positively correlated to cadmium in soil. Moreover, soil sulphur was the main influencing factor on the soil bacterial community, while ammonium nitrogen, total nitrogen, and zinc were the driving factors of fungi diversity in non-rhizosphere soil. Fungi diversity in the rhizosphere was significantly correlated to phosphatase, and fungi diversity in the non-rhizosphere was significantly correlated to sucrose enzymes. The transfer factor of lead was negatively correlated to rhizosphere fungi diversity, and the transfer factor of copper was significantly correlated to non-rhizosphere bacterial diversity. Results from this study may offer some scientific reference for the improvement of plant-microbe remediation efficiency. At the same time, this study could provide an ecological basis for further studies on soil ecosystem restoration and degradation mechanisms that are associated with copper tailings dams.