This study examines the impacts of short-term(6 months) fertilization on the community structure and abundance of ammonia-oxidizing betaproteobacteria(β-AOB) and the potential nitrification rate in sediment colonized...This study examines the impacts of short-term(6 months) fertilization on the community structure and abundance of ammonia-oxidizing betaproteobacteria(β-AOB) and the potential nitrification rate in sediment colonized by S uaeda heteroptera in a saltmarsh located in Shuangtai estuary, China. The sediment samples were collected from plots treated with different amounts of an N fertilizer(urea supplied at 0.1, 0.2, 0.4, and 0.8 g/kg(nitrogen content in dry sediment)), and with different forms of N fertilizers(urea,(NH4) 2 SO 4, and NH_4NO_3, each supplied at 0.2 g/kg). The fertilizers were applied 1–4 times during the plant-growing season in May, July, August and September of 2013. Untreated plots were included as a control. As revealed in denaturing gradient gel electrophoresis of the 16 S r RNA gene, the β-AOB community responded to both the amount and form of N. Real-time quantitative PCR indicated that both abundance and potential nitrification rate of β-AOB increased after N addition, regardless of concentration and form(except NH_4NO_3). These results provide evidence that short-term N application influences the sediment β-AOB community, β-AOB abundance and potential nitrification rate in a saltmarsh ecosystem.展开更多
Soil nitrification is mediated by ammonia-oxidizing archaea (AOA) and bacteria (AOB), which occupy different specialized ecological niches. However, little is known about the diversification of AOA and AOB communities...Soil nitrification is mediated by ammonia-oxidizing archaea (AOA) and bacteria (AOB), which occupy different specialized ecological niches. However, little is known about the diversification of AOA and AOB communities in a large geographical scale. Here, eight paddy soils collected from different geographic regions in China were selected to investigate the spatial distribution of AOA and AOB, and their potential nitrification activity (PNA). The result showed that the abundance of AOA was predominant over AOB, indicating that the rice fields favor the growth of AOA. PNA highly varied from 0.43 to 3.57 μg NOX-N·g·dry·soil·h-1, and was positively related with soil NH3 content, the abundance of AOA community, and negatively related with the diversity of AOB community (P amoA genes revealed remarkable differences in the compositions of AOA and AOB community. Phylogenetic analyses of amoA genes showed that Nitrosospiracluster-3-like and Nitrosomonas cluster 7-like AOB extensively dominated the AOB communities, and 54d9-like AOA within the soil group 1.1b predominated in AOA communities in paddy soils. Redundancy analysis suggested that the spatial variations of AOA community structure were influenced by soil TN content (P < 0.01), while no significant correlation between AOB community structure and soil properties was found. Findings highlight that ammonia oxidizers exhibit spatial variations in complex paddy fields due to the joint influence of soil variables associated with N availability.展开更多
We investigated the changes in communities of bacteria,ammonia-oxidizing bacteria,and Nitrospira during the operation of a pufferfish Takifugu rubripes recirculating aquaculture system by using high-throughput DNA seq...We investigated the changes in communities of bacteria,ammonia-oxidizing bacteria,and Nitrospira during the operation of a pufferfish Takifugu rubripes recirculating aquaculture system by using high-throughput DNA sequencing.Differences in bacterial communities were observed at days 1-32,47-62 and 78-93 of biofilm development by using 16S rRNA gene pyrosequencing.The relative abundance of Proteobacteria(Gammaproteobacteria)increased,while that of Bacteroidetes(Flavobacteria)decreased.The proportions of Nitrosomonas and Nitrospina ranged from 0.02%to 0.30%and from 0.02%to 0.83%,respectively.Ammonia monooxygenase gene pyrosequencing revealed that the top three operational taxonomic units were related to Nitrosomonas aestuarii(17.5%-61.1%),uncultured beta proteobacterium clone B67S-54(1.9%-45.2%),and uncultured bacterium clone AZPa8(3.6%-24.7%).Nitrite oxidoreductase gene pyrosequencing revealed that the relative abundance of the dominant strain Nitrospira sp.Ecomares 2.1 increased,but that of the abundant species Nitrospira marina decreased.Our results demonstrated that the communities of bacteria,ammonia-oxidizing bacteria,and Nitrospira were changing during the operation of the pufferfish recirculating aquaculture system.展开更多
Ammonia-oxidizing archaea(AOA) are important in converting ammonia into nitrate in soils. While many aspects of their community structure have been studied, the relative importance of stochastic versus deterministic p...Ammonia-oxidizing archaea(AOA) are important in converting ammonia into nitrate in soils. While many aspects of their community structure have been studied, the relative importance of stochastic versus deterministic processes has poorly been understood. We compared AOA communities across the North China Plain, targeting the amoA gene. A phylogenetic null modelling approach was used to calculate the beta nearest taxon index to quantify the influence of stochastic and deterministic processes. We found that spatial distance between samples predicted the perceived processes involved in community structuring, with stochastic processes dominating at local scales. At greater distances, stochasticity became weaker. However, soil pH, which was also the strongest determinant of AOA community, was a much stronger predictor of community structuring, leaving the distance effect redundant as an explanation of community structuring processes. The communities of AOA differing by less than 1 pH unit differed mainly stochastically in terms of operational taxonomic unit composition. At larger pH differences, deterministic processes based on heterogeneous selection between clades became increasingly dominant. It appears that AOA community composition is largely determined by the environment. However, very similar pH environments are the exception. In environments with very close pH values, stochastic effects dominantly cause differences in community composition, whether spatially near or far.展开更多
The abundance of ammonia-oxidizing bacteria and archaea and their amo A genes from the aerobic activated sludge tanks,recycled sludge and anaerobic digesters of a full-scale wastewater treatment plant(WWTP)was determi...The abundance of ammonia-oxidizing bacteria and archaea and their amo A genes from the aerobic activated sludge tanks,recycled sludge and anaerobic digesters of a full-scale wastewater treatment plant(WWTP)was determined.Polymerase chain reaction and denaturing gradient gel electrophoresis were used to generate diversity profiles,which showed that each population had a consistent profile although the abundance of individual members varied.In the aerobic tanks,the ammonia-oxidizing bacterial(AOB)population was more than 350 times more abundant than the ammonia-oxidizing archaeal(AOA)population,however in the digesters,the AOA population was more than 10 times more abundant.Measuring the activity of the amo A gene expression of the two populations using RT-PCR also showed that the AOA amo A gene was more active in the digesters than in the activated sludge tanks.Using batch reactors and dd PCR,amo A activity could be measured and it was found that when the AOB amo A activity was inhibited in the anoxic reactors,the expression of the AOA amo A gene increased fourfold.This suggests that these two populations may have a cooperative relationship for the oxidation of ammonia.展开更多
Ammonia-oxidizing bacteria(AOB)and archaea(AOA)are two microbial groups mediating nitrification,yet little is presently known about their abundances and community structures at the transcriptional level in wastewater ...Ammonia-oxidizing bacteria(AOB)and archaea(AOA)are two microbial groups mediating nitrification,yet little is presently known about their abundances and community structures at the transcriptional level in wastewater treatment systems(WWTSs).This is a significant issue,as the numerical abundance of AOA or AOB at the gene level may not necessarily represent their functional role in ammonia oxidation.Using amo A genes as molecular markers,this study investigated the transcriptional abundance and community structure of active AOA and AOB in 14 WWTSs.Quantitative PCR results indicated that the transcriptional abundances of AOB amo A(averaged:1.6×10^(8)copies g^(-1)dry sludge)were higher than those of AOA(averaged:3.4×10^(7)copies g^(-1)dry sludge)in all WWTSs despite several higher abundances of AOA amo A at the gene level.Moreover,phylogenetic analysis demonstrated that Nitrosomonas europaea and unknown clusters accounted for 37.66%and 49.96%of the total AOB amo A transcripts,respectively,suggesting their dominant role in driving ammonia oxidation.Meanwhile,AOA amo A transcripts were only successfully retrieved from 3 samples,and the Nitrosospaera sister cluster dominated,accounting for 83.46%.Finally,the substrate utilization kinetics of different AOA and AOB species might play a fundamental role in shaping their niche differentiation,community composition,and functional activity.This study provides a basis for evaluating the relative contributions of ammonia-oxidizing microorganisms(AOMs)to nitrogen conversions in WWTSs.展开更多
Tidal flats are soil resources of great significance.Nitrification plays a central role in the nitrogen cycle and is often a critical first step in nitrogen removal from estuarine and coastal environments.We determine...Tidal flats are soil resources of great significance.Nitrification plays a central role in the nitrogen cycle and is often a critical first step in nitrogen removal from estuarine and coastal environments.We determined the abundance as well as composition of ammonia-oxidizing bacteria(AOB) and ammonia-oxidizing archaea(AOA) in different soils during land reclamation process.The abundance of AOA was higher than that of AOB in farm land and wild land while AOA was not detected in tidal flats using real-time polymerase chain reaction(PCR).The different abundances of AOB and AOA were negatively correlated with the salinity.The diversities of AOB and AOA were also investigated using clone libraries by amplification of amoA gene.Among AOB,nearly all sequences belonged to the Nitrosomonas lineage in the initial land reclamation process,i.e.,tidal flats,while both Nitrosomonas and Nitrosospira lineages were detected in later and transition phases of land reclamation process,farm land and wild land.The ratio of the numbers of sequences of Nitrosomonas and Nitrosospira lineages was positively correlated with the salinity and the net nitrification rate.As for AOA,there was no obvious correlation with the changes in the physicochemical properties of the soil.This study suggests that AOB may be more import than AOA with respect to influencing the different land reclamation process stages.展开更多
Heavy metal pollution affects soil ecological function.Biochar and compost can effectively remediate heavy metals and increase soil nutrients.The effects and mechanisms of biochar and compost amendments on soil nitrog...Heavy metal pollution affects soil ecological function.Biochar and compost can effectively remediate heavy metals and increase soil nutrients.The effects and mechanisms of biochar and compost amendments on soil nitrogen cycle function in heavy-metal contaminated soils are not fully understood.This study examined how biochar,compost,and their integrated use affected ammonia-oxidizing microorganisms in heavy metal polluted soil.Quantitative PCR was used to determine the abundance of ammonia-oxidizing archaea(AOA)and bacteria(AOB).Ammonia monooxygenase(AMO)activity was evaluated by the enzymelinked immunosorbent assay.Results showed that compost rather than biochar improved nitrogen conversion in soil.Biochar,compost,or their integrated application significantly reduced the effective Zn and Cd speciation.Adding compost obviously increased As and Cu effective speciation,bacterial 16 S rRNA abundance,and AMO activity.AOB,stimulated by compost addition,was significantly more abundant than AOA throughout remediation.Correlation analysis showed that AOB abundance positively correlated with NO_(3)^(-)-N(r=0.830,P<0.01),and that AMO activity had significant correlation with EC(r=-0.908,P<0.01)and water-soluble carbon(r=-0.868,P<0.01).Those seem to be the most vital factors affecting AOB community and their function in heavy metal-polluted soil remediated by biochar and compost.展开更多
Ammonia-oxidizing microorganisms,including ammoniaoxidizing bacteria(AOB)and archaea(AOA),are important to the global nitrogen cycle.These microbes catalyze the oxidization of ammonia(NH3)to nitrite(NO2-),the ratelimi...Ammonia-oxidizing microorganisms,including ammoniaoxidizing bacteria(AOB)and archaea(AOA),are important to the global nitrogen cycle.These microbes catalyze the oxidization of ammonia(NH3)to nitrite(NO2-),the ratelimiting step in the biogeochemical cycling of nitrogen(Stahl and de la Torre,2012).展开更多
It has been well-documented that the distribution of ammonia-oxidizing bacteria(AOB) and archaea(AOA) in soils can be affected by heavy metal contamination, whereas information about the impact of heavy metal on these...It has been well-documented that the distribution of ammonia-oxidizing bacteria(AOB) and archaea(AOA) in soils can be affected by heavy metal contamination, whereas information about the impact of heavy metal on these ammonia-oxidizing microorganisms in freshwater sediment is still lacking. The present study explored the change of sediment ammonia-oxidizing microorganisms in a freshwater reservoir after being accidentally contaminated by industrial discharge containing high levels of metals. Bacterial amoA gene was found to be below the quantitative PCR detection and was not successfully amplified by conventional PCR. The number of archaeal amoA gene in reservoir sediments were 9.62 × 10~2–1.35 × 10~7 copies per gram dry sediment. AOA abundance continuously decreased, and AOA richness, diversity and community structure also considerably varied with time. Therefore, heavy metal pollution could have a profound impact on freshwater sediment AOA community. This work could expand our knowledge of the effect of heavy metal contamination on nitrification in natural ecosystems.展开更多
Since its first detection, ammonia-oxidizing archaea (AOA) have been proven to be ubiquitous in aquatic and terrestrial ecosystems. In this study, two freshwater marsh wetlands- the Honghe wetland and Qixinghe wetland...Since its first detection, ammonia-oxidizing archaea (AOA) have been proven to be ubiquitous in aquatic and terrestrial ecosystems. In this study, two freshwater marsh wetlands- the Honghe wetland and Qixinghe wetland - in the black soil zone in North-east China were chosen to investigate the AOA community diversity and distribution in wetland soils with different vegetation and depth. In the Honghe wetland, two sampling locations were chosen as the dominant plant transited from Deyeuxia to Carex. In the Qixinghe wetland, one sample location that was dominated by Deyeuxia was chosen. Samples of each location were collected from three different depths, and Illumina MiSeq platform was used to generate the AOA amoA gene archive. The results showed that the AOA amoA genes in the soils of the two wetlands were affiliated with three lineages: Nitrososphaera, Nitrosotalea, and Nitrosopumilus clusters. The different dominant status of these AOA lineages indicated their differences in adapting to acidic habitat, oxygenic/hypoxic alternation, organic matter, and other environmental factors, suggesting high diversity among AOA in marsh soils. The main driver of the AOA community was pH, along with organic carbon and ammonium nitrogen, which also played an important role combined with many other environmental factors. Thus, soil physiochemical characteristics, rather than vegetation, were the main cause of AOA community diversity in the wetlands in the black soil zone in China.展开更多
Ammonia-oxidizing archaeon(AOA)could play important roles for nitrogen removal in the bioreactors under conditions such as low pH and low dissolved oxygen.Therefore,enhancing ammonia oxidation capability of AOA has gr...Ammonia-oxidizing archaeon(AOA)could play important roles for nitrogen removal in the bioreactors under conditions such as low pH and low dissolved oxygen.Therefore,enhancing ammonia oxidation capability of AOA has great significance for water and wastewater treatment,especially under conditions like low dissolved oxygen concentration.Utilizing a novel AOA strain SAT1,which was enriched from a wastewater treatment plant by our group,the effect of magnetic field on AOA’s ammonia oxidation capability,its magnetotaxis and heredity were investigated in this study.Compared with control experiment,AOA’s maximum nitrite-N formation rate during the cultivation increased by 56.8%(0.65 mgN/(L·d))with 20 mT magnetic field.Also,it was testified that AOA possessed a certain magnetotaxis.However,results manifested that the enhancement of AOA’s ammonia oxidation capability was not heritable,that is,lost once the magnetic field was removed.Additionally,the possible mechanism of improving AOA’s ammonia oxidation capability by magnetic field was owing to the promotion of AOA single cells’growth and fission,rather than the enhancement of their ammonia oxidation rates.The results shed light on the application of AOA and methods to enhance AOA’s ammonia oxidation capability,especially in wastewater treatment processes under certain conditions.展开更多
Subterranean estuaries(STEs)are characterized by the mixing of terrestrial fresh groundwater and seawater in coastal aquifers.Although microorganisms are important components of coastal groundwater ecosystems and play...Subterranean estuaries(STEs)are characterized by the mixing of terrestrial fresh groundwater and seawater in coastal aquifers.Although microorganisms are important components of coastal groundwater ecosystems and play critical roles in biogeochemical transformations in STEs,limited information is available about how their community dynamics interact with hydrological,geochemical and environmental characteristics in STEs.Here,we studied bacterial and archaeal diversities and distributions with 16S rRNA-based Illumina MiSeq sequencing technology between surface water and groundwater in a karstic STE.Principal-coordinate analysis found that the bacterial and archaeal communities in the areas where algal blooms occurred were significantly separated from those in other stations without algal bloom occurrence.Canonical correspondence analysis showed that nutrients and salinity can explain the patterns of bacterial and archaeal community dynamics.The results suggest that hydrological,geochemical and environmental characteristics between surface water and groundwater likely control the bacterial and archaeal diversities and distributions in STEs.Furthermore,we found that some key species can utilize terrestrial pollutants such as nitrate and ammonia in STEs,indicating that these species(e.g.,Nitrosopumilus maritimus,Limnohabitans parvus and Simplicispira limi)may be excellent candidates for in situ degradation/remediation of coastal groundwater contaminations concerned with the nitrate and ammonia.Overall,this study reveals the coupling relationship between the microbial communities and hydrochemical environments in STEs,and provides a perspective of in situ degradation/remediation for coastal groundwater quality management.展开更多
Soil nitrogen(N)transformation processes in the High Arctic tundra are poorly understood even though nitrogen is one of the main limiting nutrients.We analyzed soil samples collected along a High Arctic tundra transec...Soil nitrogen(N)transformation processes in the High Arctic tundra are poorly understood even though nitrogen is one of the main limiting nutrients.We analyzed soil samples collected along a High Arctic tundra transect to investigate spatial variability in key nitrogen transformation processes,functional gene abundances,ammonia-oxidizing archaea(AOA)community structures,and key nitrogen transformation regulators.The potential denitrification rates were higher than the nitrification rates in the soil samples,although nitrification may still regulate N2O emissions from tundra soil.The nutrient(total carbon,total organic carbon,total nitrogen,and NH_(4)^(+)-N)contents were important determinants of spatial variability in the potential denitrification rates of soil along the tundra transect.The total sulfurcontent was the main variable controlling potential nitrification processes,probably in association with sulfate-reducing bacteria.The nitrate content was the main variable affecting potential dissimilatory nitrate reduction to ammonium.AOA and ammonia-oxidizing bacteria amoA,nirS,and anammox 16S rRNA genes were found in all of the soil samples.AOA play more important roles than ammonia-oxidizing bacteria in soilnitrification.Anammox bacteria may utilize NO_(2)^(-)produced through nitrification.Phylogenetic analysis indicated that the AOA amoA sequences could be grouped into eight unique operational taxonomic units(OTUs)with a 97%sequence similarity and were affiliated with three group 1.1b Nitrososphaeraclusters.The results indicated that heterogeneous environmental factors(e.g.,the carbon and nitrogen contents of soil)along the High Arctic tundra transect strongly affected the nitrogen transformation rate and relevant functional gene abundances in soil.展开更多
Metagenomic studies have demonstrated the existence of ammonia-oxidizing archaea(AOA) and revealed they are responsible for ammoxidation in some extreme environments. However, the changes in compositional structure an...Metagenomic studies have demonstrated the existence of ammonia-oxidizing archaea(AOA) and revealed they are responsible for ammoxidation in some extreme environments. However, the changes in compositional structure and ammonia-oxidation capacity of AOA communities in biological soil crusts(BSCs) of desert ecosystems remain poorly understood.Here, we utilized Illumina MiSeq sequencing and microbial functional gene array(GeoChip 5.0) to assess the above changes along a 51-year revegetation chronosequence in the Tengger Desert, China. The results showed a significant difference in AOA-community richness between 5-year-old BSCs and older ones. The most dominant phylum during BSC development was Crenarchaeota, and the corresponding species were ammonia-oxidizing_Crenarchaeote and environmental_samples_Crenarchaeota. Network analysis revealed that the positive correlations among dominant taxa increased, and their cooperation was reinforced in AOA communities during BSC succession. Redundancy analysis showed that the dominant factor influencing the change in AOA-community structure was soil texture. GeoChip 5.0 indicated that the amoA gene abundances of AOA and ammonia-oxidizing bacteria(AOB) were basically the same, demonstrating that AOA and AOB played an equally important role during BSCs development. Our study of the long-term succession of BSC demonstrated a persistent response of AOA communities to revegetation development in desert ecosystems.展开更多
Elevated evapotranspiration due to warmer air temperature could raise salinity and nutrient levels of some inland wetlands, potentially impacting nitrogen cycling. To characterize the impact of high evapotranspiration...Elevated evapotranspiration due to warmer air temperature could raise salinity and nutrient levels of some inland wetlands, potentially impacting nitrogen cycling. To characterize the impact of high evapotranspiration on soil microbial nitrogen cycling in inland wetlands, we compared freshwater and brackish marsh(or non-marsh) wetlands in terms of sediment ammonia-oxidizing rate(AOR), denitrifying rate(DR), and related microbial communities in a typical inland basin, the Hulun Lake basin, in China. Results showed that marsh ecosystems(ME) exhibited 31% higher AOR and 65% higher DR than non-marsh ecosystems(NE). For NE, freshwater non-marsh wetland exhibited 12% higher AOR than brackish non-marsh wetland. This was probably due to the inhibitory effects of high NH_4~+ and salinity levels on ammonia-oxidizing archaea in brackish non-marsh wetland. Conversely, DR in brackish non-marsh wetland was 23% higher than that in freshwater non-marsh wetland, with total organic carbon(TOC) significantly influencing this difference,suggesting that the higher DR in brackish non-marsh wetland was mainly due to its higher TOC level. For ME, due to the direct and indirect interference of salinity, brackish marsh wetland displayed 26% lower AOR and 19% lower DR than freshwater marsh wetland. Besides, brackish wetlands harbored distinct ammonia-oxidizing and denitrifying microbial communities compared to freshwater wetlands. The assembly of these communities was dominated by stochastic processes, while brackish wetlands exhibited more prominent deterministic processes than freshwater wetlands. Overall, high evapotranspiration altered activities and community characteristics of ammonia oxidizers and denitrifiers in inland brackish wetlands by enhancing salinity and nutrient levels,while emergent plants occurring in ME could mitigate the adverse effects of salt stress of inland brackish wetlands on nitrogen cycling.展开更多
The application of butachlor as an herbicide in paddy fields is widely practiced,aiming to increase rice yield by directly or indirectly influencing the paddy environment.Periphytic biofilms,which form at the soil-wat...The application of butachlor as an herbicide in paddy fields is widely practiced,aiming to increase rice yield by directly or indirectly influencing the paddy environment.Periphytic biofilms,which form at the soil-water interface in paddy fields,are complex bioaggregates that play an important role in nitrogen (N) cycling.The objective of this study was to investigate the effect of butachlor on periphytic biofilm growth and N cycling under both light and dark conditions in the laboratory.The results revealed that butachlor application hindered the growth of periphytic biofilms and led to the dominance of Cyanobacteria as the primary prokaryotes,while inhibiting the development of eukaryotic Trebouxiophyceae.Furthermore,the application of butachlor reduced the richness and diversity of prokaryotes,but increased those of eukaryotes in periphytic biofilms.The light treatments exhibited higher total N loss because light favored periphytic biofilm growth and enhanced ammonium (NH_(4)^(+)) assimilation and nitrification.Additionally,butachlor application resulted in the increased retention of NH_(4)^(+)-N and nitrate (NO_(3)^(-))-N and an increase in N loss via denitrification.The abundances of functional genes encoding enzymes such as ammonia monooxygenase,nitrite reductase,and nitrous oxide reductase were increased by butachlor application,favoring nitrification and denitrification processes.Overall,the results suggest that butachlor application leads to an increase in total N loss mainly through denitrification in paddy systems,particularly in the presence of periphytic biofilms.Thus,the results may provide valuable insights into the changes in periphytic biofilm growth and N cycling induced by butachlor,and future studies can further explore the potential implications of these changes in paddy soils.展开更多
The recently discovered complete ammonia oxidizers comammox Nitrospira contain clades A and B that can establish an independent one-step nitrification process;however,little is known about their environmental drivers ...The recently discovered complete ammonia oxidizers comammox Nitrospira contain clades A and B that can establish an independent one-step nitrification process;however,little is known about their environmental drivers or habitat distributions in agricultural soils.Previous studies on comammox Nitrospira in paddy soils have mainly focused on small-scale samples,and there is a lack of multisite research on comammox Nitrospira in paddy soils.In this study,we conducted a survey of 36 paddy soils to understand the community structure,abundance,and diversity of comammox Nitrospira and the degree to which they are affected by environmental factors at a large scale.Comammox Nitrospira were found to be widely distributed among the paddy soils.The abundance of comammox Nitrospira clade A was mostly lower than that of clade B,whereas its diversity was mostly higher than that of clade B.Correlation analysis showed that multiple factors affected(P<0.05)the abundance of comammox Nitrospira,including soil pH,organic matter,total carbon,and total nitrogen,latitude,mean annual temperature,and mean annual precipitation.Moreover,there was a clear relationship between the comammox Nitrospira community and habitat,indicating that some amplicon sequence variants(ASVs)had a unique dominant position in specific habitats.Phylogenetic analysis showed that the ASVs of comammox Nitrospira clade A clustered with the known sequences in the paddy soils and were significantly different from the known sequences in other habitats,which may be related to the unique paddy field habitat.In contrast,comammox Nitrospira clade B showed no clear habitat dependence.These results support the wide distribution and high abundance of comammox Nitrospira in paddy soils and provide novel insights into nitrogen cycling and nutrient management in agricultural ecosystems.展开更多
Nitrate (NO-3) and nitrite (NO2-) leaching threatens groundwater quality.Soil C:N ratio,i.e.,the ratio of soil organic carbon to total nitrogen,affects mineralization,nitrification,and denitrification;however,its mech...Nitrate (NO-3) and nitrite (NO2-) leaching threatens groundwater quality.Soil C:N ratio,i.e.,the ratio of soil organic carbon to total nitrogen,affects mineralization,nitrification,and denitrification;however,its mechanism for driving soil NO-3and NO-2accumulation and leaching remains unclear.Here,a field investigation in a fluvo-aquic soil and a soil column experiment were performed to explore the relationships between soil C:N ratio and soil NO-3and NO-2leaching in three soil layers (0–20,20–40,and 40–60 cm) under heavy rainfall (rainfall rate>25 mm d-1).The field investigation results showed that both soil NO-3-N and NO-2-N contents decreased exponentially (P<0.001) with increasing soil C:N ratio in each soil layer.Furthermore,negative exponential relationships (P<0.001) were found between soil C:N ratio and both NO-3-N and NO-2-N concentrations in soil solution in each soil layer under heavy rainfall.The soil column divided into three layers was leached with simulated heavy rainfall;the results confirmed negative exponential relationships (P<0.05) between soil C:N ratio and both NO-3-N and NO-2-N concentrations in the leachate from each soil layer.A total of 18 soil samples obtained from three depths at six field sites during the rainy season were used to elucidate the microbial mechanisms induced by soil C:N ratio using high-throughput sequencing and real-time polymerase chain reaction.High abundances of ammonifying bacteria (Flavobacterium,Bacillu,and Pseudomonas),ammonia-oxidizing bacteria (Nitrosospira),and nirS/K gene were observed when soil C:N was low,concomitant with low abundances of NO-2-oxidizing bacteria (Nitrospira) and narG gene.Partial least squares path modeling showed that the high NO-3and NO-2levels at low soil C:N ratio might be attributed to the inhibition of NO-3reduction (i.e.,low narG gene) and NO-2oxidation (i.e.,low Nitrospira) and thus the accumulation of soil NO-3and NO-2,respectively.Therefore,the leaching of NO-2and NO-3in low C:N soils requires more attention during the rainy season.展开更多
基金Supported by the National Natural Science Foundation of China(No.41171389)the Public Science and Technology Research Funds Projects of Ocean(No.201305043)the Program for Liaoning Excellent Talents in University(No.LR2013035)
文摘This study examines the impacts of short-term(6 months) fertilization on the community structure and abundance of ammonia-oxidizing betaproteobacteria(β-AOB) and the potential nitrification rate in sediment colonized by S uaeda heteroptera in a saltmarsh located in Shuangtai estuary, China. The sediment samples were collected from plots treated with different amounts of an N fertilizer(urea supplied at 0.1, 0.2, 0.4, and 0.8 g/kg(nitrogen content in dry sediment)), and with different forms of N fertilizers(urea,(NH4) 2 SO 4, and NH_4NO_3, each supplied at 0.2 g/kg). The fertilizers were applied 1–4 times during the plant-growing season in May, July, August and September of 2013. Untreated plots were included as a control. As revealed in denaturing gradient gel electrophoresis of the 16 S r RNA gene, the β-AOB community responded to both the amount and form of N. Real-time quantitative PCR indicated that both abundance and potential nitrification rate of β-AOB increased after N addition, regardless of concentration and form(except NH_4NO_3). These results provide evidence that short-term N application influences the sediment β-AOB community, β-AOB abundance and potential nitrification rate in a saltmarsh ecosystem.
文摘Soil nitrification is mediated by ammonia-oxidizing archaea (AOA) and bacteria (AOB), which occupy different specialized ecological niches. However, little is known about the diversification of AOA and AOB communities in a large geographical scale. Here, eight paddy soils collected from different geographic regions in China were selected to investigate the spatial distribution of AOA and AOB, and their potential nitrification activity (PNA). The result showed that the abundance of AOA was predominant over AOB, indicating that the rice fields favor the growth of AOA. PNA highly varied from 0.43 to 3.57 μg NOX-N·g·dry·soil·h-1, and was positively related with soil NH3 content, the abundance of AOA community, and negatively related with the diversity of AOB community (P amoA genes revealed remarkable differences in the compositions of AOA and AOB community. Phylogenetic analyses of amoA genes showed that Nitrosospiracluster-3-like and Nitrosomonas cluster 7-like AOB extensively dominated the AOB communities, and 54d9-like AOA within the soil group 1.1b predominated in AOA communities in paddy soils. Redundancy analysis suggested that the spatial variations of AOA community structure were influenced by soil TN content (P < 0.01), while no significant correlation between AOB community structure and soil properties was found. Findings highlight that ammonia oxidizers exhibit spatial variations in complex paddy fields due to the joint influence of soil variables associated with N availability.
基金This research was supported by the National Key R&D Program of China(No.2017YFD0701700)the National Natural Science Foundation of China(Nos.31472312 and 31672673).
文摘We investigated the changes in communities of bacteria,ammonia-oxidizing bacteria,and Nitrospira during the operation of a pufferfish Takifugu rubripes recirculating aquaculture system by using high-throughput DNA sequencing.Differences in bacterial communities were observed at days 1-32,47-62 and 78-93 of biofilm development by using 16S rRNA gene pyrosequencing.The relative abundance of Proteobacteria(Gammaproteobacteria)increased,while that of Bacteroidetes(Flavobacteria)decreased.The proportions of Nitrosomonas and Nitrospina ranged from 0.02%to 0.30%and from 0.02%to 0.83%,respectively.Ammonia monooxygenase gene pyrosequencing revealed that the top three operational taxonomic units were related to Nitrosomonas aestuarii(17.5%-61.1%),uncultured beta proteobacterium clone B67S-54(1.9%-45.2%),and uncultured bacterium clone AZPa8(3.6%-24.7%).Nitrite oxidoreductase gene pyrosequencing revealed that the relative abundance of the dominant strain Nitrospira sp.Ecomares 2.1 increased,but that of the abundant species Nitrospira marina decreased.Our results demonstrated that the communities of bacteria,ammonia-oxidizing bacteria,and Nitrospira were changing during the operation of the pufferfish recirculating aquaculture system.
文摘Ammonia-oxidizing archaea(AOA) are important in converting ammonia into nitrate in soils. While many aspects of their community structure have been studied, the relative importance of stochastic versus deterministic processes has poorly been understood. We compared AOA communities across the North China Plain, targeting the amoA gene. A phylogenetic null modelling approach was used to calculate the beta nearest taxon index to quantify the influence of stochastic and deterministic processes. We found that spatial distance between samples predicted the perceived processes involved in community structuring, with stochastic processes dominating at local scales. At greater distances, stochasticity became weaker. However, soil pH, which was also the strongest determinant of AOA community, was a much stronger predictor of community structuring, leaving the distance effect redundant as an explanation of community structuring processes. The communities of AOA differing by less than 1 pH unit differed mainly stochastically in terms of operational taxonomic unit composition. At larger pH differences, deterministic processes based on heterogeneous selection between clades became increasingly dominant. It appears that AOA community composition is largely determined by the environment. However, very similar pH environments are the exception. In environments with very close pH values, stochastic effects dominantly cause differences in community composition, whether spatially near or far.
基金supported by the Natural Sciences and Engineering Research Council of Canada (NSERC) Discovery Grant (RGPIN/227565-2013) to K.A.G
文摘The abundance of ammonia-oxidizing bacteria and archaea and their amo A genes from the aerobic activated sludge tanks,recycled sludge and anaerobic digesters of a full-scale wastewater treatment plant(WWTP)was determined.Polymerase chain reaction and denaturing gradient gel electrophoresis were used to generate diversity profiles,which showed that each population had a consistent profile although the abundance of individual members varied.In the aerobic tanks,the ammonia-oxidizing bacterial(AOB)population was more than 350 times more abundant than the ammonia-oxidizing archaeal(AOA)population,however in the digesters,the AOA population was more than 10 times more abundant.Measuring the activity of the amo A gene expression of the two populations using RT-PCR also showed that the AOA amo A gene was more active in the digesters than in the activated sludge tanks.Using batch reactors and dd PCR,amo A activity could be measured and it was found that when the AOB amo A activity was inhibited in the anoxic reactors,the expression of the AOA amo A gene increased fourfold.This suggests that these two populations may have a cooperative relationship for the oxidation of ammonia.
基金supported by grants from the National Natural Science Foundation of China(No.41701278)Shanghai Committee of Science and Technology(No.19DZ1204302)the Fundamental Research Funds for the Central Universities(No.2019MS041)。
文摘Ammonia-oxidizing bacteria(AOB)and archaea(AOA)are two microbial groups mediating nitrification,yet little is presently known about their abundances and community structures at the transcriptional level in wastewater treatment systems(WWTSs).This is a significant issue,as the numerical abundance of AOA or AOB at the gene level may not necessarily represent their functional role in ammonia oxidation.Using amo A genes as molecular markers,this study investigated the transcriptional abundance and community structure of active AOA and AOB in 14 WWTSs.Quantitative PCR results indicated that the transcriptional abundances of AOB amo A(averaged:1.6×10^(8)copies g^(-1)dry sludge)were higher than those of AOA(averaged:3.4×10^(7)copies g^(-1)dry sludge)in all WWTSs despite several higher abundances of AOA amo A at the gene level.Moreover,phylogenetic analysis demonstrated that Nitrosomonas europaea and unknown clusters accounted for 37.66%and 49.96%of the total AOB amo A transcripts,respectively,suggesting their dominant role in driving ammonia oxidation.Meanwhile,AOA amo A transcripts were only successfully retrieved from 3 samples,and the Nitrosospaera sister cluster dominated,accounting for 83.46%.Finally,the substrate utilization kinetics of different AOA and AOB species might play a fundamental role in shaping their niche differentiation,community composition,and functional activity.This study provides a basis for evaluating the relative contributions of ammonia-oxidizing microorganisms(AOMs)to nitrogen conversions in WWTSs.
基金Project supported by the National Natural Science Foundation of China (Nos. 31070097 and 31011140339)the National Key Technologies R & D Program of China (Nos. 2006BAJ05A11 and2010BAK69B14)the Major Program of Science and Technology Department of Shanghai (No. 10DZ1200700),China
文摘Tidal flats are soil resources of great significance.Nitrification plays a central role in the nitrogen cycle and is often a critical first step in nitrogen removal from estuarine and coastal environments.We determined the abundance as well as composition of ammonia-oxidizing bacteria(AOB) and ammonia-oxidizing archaea(AOA) in different soils during land reclamation process.The abundance of AOA was higher than that of AOB in farm land and wild land while AOA was not detected in tidal flats using real-time polymerase chain reaction(PCR).The different abundances of AOB and AOA were negatively correlated with the salinity.The diversities of AOB and AOA were also investigated using clone libraries by amplification of amoA gene.Among AOB,nearly all sequences belonged to the Nitrosomonas lineage in the initial land reclamation process,i.e.,tidal flats,while both Nitrosomonas and Nitrosospira lineages were detected in later and transition phases of land reclamation process,farm land and wild land.The ratio of the numbers of sequences of Nitrosomonas and Nitrosospira lineages was positively correlated with the salinity and the net nitrification rate.As for AOA,there was no obvious correlation with the changes in the physicochemical properties of the soil.This study suggests that AOB may be more import than AOA with respect to influencing the different land reclamation process stages.
基金supported by the Hunan Provincial Key Research and Development Project(Nos.2019WK2031 and 2017SK2351)the National Natural Science Foundation of China(No.51408219)+1 种基金the Natural Science Foundation of Hu-nan Province(No.2020JJ5259)the Outstanding Youth Fund Project of the Hunan Education Department(No.18B094)。
文摘Heavy metal pollution affects soil ecological function.Biochar and compost can effectively remediate heavy metals and increase soil nutrients.The effects and mechanisms of biochar and compost amendments on soil nitrogen cycle function in heavy-metal contaminated soils are not fully understood.This study examined how biochar,compost,and their integrated use affected ammonia-oxidizing microorganisms in heavy metal polluted soil.Quantitative PCR was used to determine the abundance of ammonia-oxidizing archaea(AOA)and bacteria(AOB).Ammonia monooxygenase(AMO)activity was evaluated by the enzymelinked immunosorbent assay.Results showed that compost rather than biochar improved nitrogen conversion in soil.Biochar,compost,or their integrated application significantly reduced the effective Zn and Cd speciation.Adding compost obviously increased As and Cu effective speciation,bacterial 16 S rRNA abundance,and AMO activity.AOB,stimulated by compost addition,was significantly more abundant than AOA throughout remediation.Correlation analysis showed that AOB abundance positively correlated with NO_(3)^(-)-N(r=0.830,P<0.01),and that AMO activity had significant correlation with EC(r=-0.908,P<0.01)and water-soluble carbon(r=-0.868,P<0.01).Those seem to be the most vital factors affecting AOB community and their function in heavy metal-polluted soil remediated by biochar and compost.
文摘Ammonia-oxidizing microorganisms,including ammoniaoxidizing bacteria(AOB)and archaea(AOA),are important to the global nitrogen cycle.These microbes catalyze the oxidization of ammonia(NH3)to nitrite(NO2-),the ratelimiting step in the biogeochemical cycling of nitrogen(Stahl and de la Torre,2012).
基金supported by Guangdong Province Science and Technology Project(No.2016B020240007)the Basic Scientific Research Business of Central Level Public Welfare Scientific Research Institution(No.PM-zx703-201803-070)
文摘It has been well-documented that the distribution of ammonia-oxidizing bacteria(AOB) and archaea(AOA) in soils can be affected by heavy metal contamination, whereas information about the impact of heavy metal on these ammonia-oxidizing microorganisms in freshwater sediment is still lacking. The present study explored the change of sediment ammonia-oxidizing microorganisms in a freshwater reservoir after being accidentally contaminated by industrial discharge containing high levels of metals. Bacterial amoA gene was found to be below the quantitative PCR detection and was not successfully amplified by conventional PCR. The number of archaeal amoA gene in reservoir sediments were 9.62 × 10~2–1.35 × 10~7 copies per gram dry sediment. AOA abundance continuously decreased, and AOA richness, diversity and community structure also considerably varied with time. Therefore, heavy metal pollution could have a profound impact on freshwater sediment AOA community. This work could expand our knowledge of the effect of heavy metal contamination on nitrification in natural ecosystems.
基金funded by the National Natural Science Foundation of China (Grang Nos. 31870471 and 31470543)the State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology (No. 2014DX07).
文摘Since its first detection, ammonia-oxidizing archaea (AOA) have been proven to be ubiquitous in aquatic and terrestrial ecosystems. In this study, two freshwater marsh wetlands- the Honghe wetland and Qixinghe wetland - in the black soil zone in North-east China were chosen to investigate the AOA community diversity and distribution in wetland soils with different vegetation and depth. In the Honghe wetland, two sampling locations were chosen as the dominant plant transited from Deyeuxia to Carex. In the Qixinghe wetland, one sample location that was dominated by Deyeuxia was chosen. Samples of each location were collected from three different depths, and Illumina MiSeq platform was used to generate the AOA amoA gene archive. The results showed that the AOA amoA genes in the soils of the two wetlands were affiliated with three lineages: Nitrososphaera, Nitrosotalea, and Nitrosopumilus clusters. The different dominant status of these AOA lineages indicated their differences in adapting to acidic habitat, oxygenic/hypoxic alternation, organic matter, and other environmental factors, suggesting high diversity among AOA in marsh soils. The main driver of the AOA community was pH, along with organic carbon and ammonium nitrogen, which also played an important role combined with many other environmental factors. Thus, soil physiochemical characteristics, rather than vegetation, were the main cause of AOA community diversity in the wetlands in the black soil zone in China.
基金the National Natural Science Foundation of China(Grant No.51678335)the China Postdoctoral Science Foundation(No.2015M57105).
文摘Ammonia-oxidizing archaeon(AOA)could play important roles for nitrogen removal in the bioreactors under conditions such as low pH and low dissolved oxygen.Therefore,enhancing ammonia oxidation capability of AOA has great significance for water and wastewater treatment,especially under conditions like low dissolved oxygen concentration.Utilizing a novel AOA strain SAT1,which was enriched from a wastewater treatment plant by our group,the effect of magnetic field on AOA’s ammonia oxidation capability,its magnetotaxis and heredity were investigated in this study.Compared with control experiment,AOA’s maximum nitrite-N formation rate during the cultivation increased by 56.8%(0.65 mgN/(L·d))with 20 mT magnetic field.Also,it was testified that AOA possessed a certain magnetotaxis.However,results manifested that the enhancement of AOA’s ammonia oxidation capability was not heritable,that is,lost once the magnetic field was removed.Additionally,the possible mechanism of improving AOA’s ammonia oxidation capability by magnetic field was owing to the promotion of AOA single cells’growth and fission,rather than the enhancement of their ammonia oxidation rates.The results shed light on the application of AOA and methods to enhance AOA’s ammonia oxidation capability,especially in wastewater treatment processes under certain conditions.
基金The National Key R&D Program of China under contract No.2022YFE0209300the National Natural Science Foundation of China under contract No.42006152+1 种基金the Zhejiang Provincial Natural Science Foundation of China under contract No.LQ21D060005the 111 Project under contract No.BP0820020.
文摘Subterranean estuaries(STEs)are characterized by the mixing of terrestrial fresh groundwater and seawater in coastal aquifers.Although microorganisms are important components of coastal groundwater ecosystems and play critical roles in biogeochemical transformations in STEs,limited information is available about how their community dynamics interact with hydrological,geochemical and environmental characteristics in STEs.Here,we studied bacterial and archaeal diversities and distributions with 16S rRNA-based Illumina MiSeq sequencing technology between surface water and groundwater in a karstic STE.Principal-coordinate analysis found that the bacterial and archaeal communities in the areas where algal blooms occurred were significantly separated from those in other stations without algal bloom occurrence.Canonical correspondence analysis showed that nutrients and salinity can explain the patterns of bacterial and archaeal community dynamics.The results suggest that hydrological,geochemical and environmental characteristics between surface water and groundwater likely control the bacterial and archaeal diversities and distributions in STEs.Furthermore,we found that some key species can utilize terrestrial pollutants such as nitrate and ammonia in STEs,indicating that these species(e.g.,Nitrosopumilus maritimus,Limnohabitans parvus and Simplicispira limi)may be excellent candidates for in situ degradation/remediation of coastal groundwater contaminations concerned with the nitrate and ammonia.Overall,this study reveals the coupling relationship between the microbial communities and hydrochemical environments in STEs,and provides a perspective of in situ degradation/remediation for coastal groundwater quality management.
基金This study was funded by the National Key Research and Development Program of China(Grant no.2020YFA0608501)the National Natural Science Foundation of China(Grant no.41976220)the State Key Laboratory of NBC Protection of Civilians(Grant no.SKLNBC2020-10).
文摘Soil nitrogen(N)transformation processes in the High Arctic tundra are poorly understood even though nitrogen is one of the main limiting nutrients.We analyzed soil samples collected along a High Arctic tundra transect to investigate spatial variability in key nitrogen transformation processes,functional gene abundances,ammonia-oxidizing archaea(AOA)community structures,and key nitrogen transformation regulators.The potential denitrification rates were higher than the nitrification rates in the soil samples,although nitrification may still regulate N2O emissions from tundra soil.The nutrient(total carbon,total organic carbon,total nitrogen,and NH_(4)^(+)-N)contents were important determinants of spatial variability in the potential denitrification rates of soil along the tundra transect.The total sulfurcontent was the main variable controlling potential nitrification processes,probably in association with sulfate-reducing bacteria.The nitrate content was the main variable affecting potential dissimilatory nitrate reduction to ammonium.AOA and ammonia-oxidizing bacteria amoA,nirS,and anammox 16S rRNA genes were found in all of the soil samples.AOA play more important roles than ammonia-oxidizing bacteria in soilnitrification.Anammox bacteria may utilize NO_(2)^(-)produced through nitrification.Phylogenetic analysis indicated that the AOA amoA sequences could be grouped into eight unique operational taxonomic units(OTUs)with a 97%sequence similarity and were affiliated with three group 1.1b Nitrososphaeraclusters.The results indicated that heterogeneous environmental factors(e.g.,the carbon and nitrogen contents of soil)along the High Arctic tundra transect strongly affected the nitrogen transformation rate and relevant functional gene abundances in soil.
基金supported financially by the Strategic Priority Research Program of Chinese Academy of Sciences (Grant No. XDA2003010301)the National Natural Science Foundation of China (Grant No. 41621001)
文摘Metagenomic studies have demonstrated the existence of ammonia-oxidizing archaea(AOA) and revealed they are responsible for ammoxidation in some extreme environments. However, the changes in compositional structure and ammonia-oxidation capacity of AOA communities in biological soil crusts(BSCs) of desert ecosystems remain poorly understood.Here, we utilized Illumina MiSeq sequencing and microbial functional gene array(GeoChip 5.0) to assess the above changes along a 51-year revegetation chronosequence in the Tengger Desert, China. The results showed a significant difference in AOA-community richness between 5-year-old BSCs and older ones. The most dominant phylum during BSC development was Crenarchaeota, and the corresponding species were ammonia-oxidizing_Crenarchaeote and environmental_samples_Crenarchaeota. Network analysis revealed that the positive correlations among dominant taxa increased, and their cooperation was reinforced in AOA communities during BSC succession. Redundancy analysis showed that the dominant factor influencing the change in AOA-community structure was soil texture. GeoChip 5.0 indicated that the amoA gene abundances of AOA and ammonia-oxidizing bacteria(AOB) were basically the same, demonstrating that AOA and AOB played an equally important role during BSCs development. Our study of the long-term succession of BSC demonstrated a persistent response of AOA communities to revegetation development in desert ecosystems.
基金supported by the Natural Science Foundation of Shandong Province,China(Nos.ZR2022QC146and ZR2021YQ22)the National Natural Science Foundation of China(Nos.31872242,32070405,32270444,and32200349)he Colleges and Universities Youth Innovation Science and Technology Teams Support Program of Shandong Province,China(No.2021KJ015)。
文摘Elevated evapotranspiration due to warmer air temperature could raise salinity and nutrient levels of some inland wetlands, potentially impacting nitrogen cycling. To characterize the impact of high evapotranspiration on soil microbial nitrogen cycling in inland wetlands, we compared freshwater and brackish marsh(or non-marsh) wetlands in terms of sediment ammonia-oxidizing rate(AOR), denitrifying rate(DR), and related microbial communities in a typical inland basin, the Hulun Lake basin, in China. Results showed that marsh ecosystems(ME) exhibited 31% higher AOR and 65% higher DR than non-marsh ecosystems(NE). For NE, freshwater non-marsh wetland exhibited 12% higher AOR than brackish non-marsh wetland. This was probably due to the inhibitory effects of high NH_4~+ and salinity levels on ammonia-oxidizing archaea in brackish non-marsh wetland. Conversely, DR in brackish non-marsh wetland was 23% higher than that in freshwater non-marsh wetland, with total organic carbon(TOC) significantly influencing this difference,suggesting that the higher DR in brackish non-marsh wetland was mainly due to its higher TOC level. For ME, due to the direct and indirect interference of salinity, brackish marsh wetland displayed 26% lower AOR and 19% lower DR than freshwater marsh wetland. Besides, brackish wetlands harbored distinct ammonia-oxidizing and denitrifying microbial communities compared to freshwater wetlands. The assembly of these communities was dominated by stochastic processes, while brackish wetlands exhibited more prominent deterministic processes than freshwater wetlands. Overall, high evapotranspiration altered activities and community characteristics of ammonia oxidizers and denitrifiers in inland brackish wetlands by enhancing salinity and nutrient levels,while emergent plants occurring in ME could mitigate the adverse effects of salt stress of inland brackish wetlands on nitrogen cycling.
基金supported by the State Key Development Program for Basic Research of China(No.2015CB158200)。
文摘The application of butachlor as an herbicide in paddy fields is widely practiced,aiming to increase rice yield by directly or indirectly influencing the paddy environment.Periphytic biofilms,which form at the soil-water interface in paddy fields,are complex bioaggregates that play an important role in nitrogen (N) cycling.The objective of this study was to investigate the effect of butachlor on periphytic biofilm growth and N cycling under both light and dark conditions in the laboratory.The results revealed that butachlor application hindered the growth of periphytic biofilms and led to the dominance of Cyanobacteria as the primary prokaryotes,while inhibiting the development of eukaryotic Trebouxiophyceae.Furthermore,the application of butachlor reduced the richness and diversity of prokaryotes,but increased those of eukaryotes in periphytic biofilms.The light treatments exhibited higher total N loss because light favored periphytic biofilm growth and enhanced ammonium (NH_(4)^(+)) assimilation and nitrification.Additionally,butachlor application resulted in the increased retention of NH_(4)^(+)-N and nitrate (NO_(3)^(-))-N and an increase in N loss via denitrification.The abundances of functional genes encoding enzymes such as ammonia monooxygenase,nitrite reductase,and nitrous oxide reductase were increased by butachlor application,favoring nitrification and denitrification processes.Overall,the results suggest that butachlor application leads to an increase in total N loss mainly through denitrification in paddy systems,particularly in the presence of periphytic biofilms.Thus,the results may provide valuable insights into the changes in periphytic biofilm growth and N cycling induced by butachlor,and future studies can further explore the potential implications of these changes in paddy soils.
基金supported by the National Natural Science Foundation of China(Nos.42077036 and 41877051)the Ningbo Municipal Science and Technology Bureau,China(No.202002N3079)。
文摘The recently discovered complete ammonia oxidizers comammox Nitrospira contain clades A and B that can establish an independent one-step nitrification process;however,little is known about their environmental drivers or habitat distributions in agricultural soils.Previous studies on comammox Nitrospira in paddy soils have mainly focused on small-scale samples,and there is a lack of multisite research on comammox Nitrospira in paddy soils.In this study,we conducted a survey of 36 paddy soils to understand the community structure,abundance,and diversity of comammox Nitrospira and the degree to which they are affected by environmental factors at a large scale.Comammox Nitrospira were found to be widely distributed among the paddy soils.The abundance of comammox Nitrospira clade A was mostly lower than that of clade B,whereas its diversity was mostly higher than that of clade B.Correlation analysis showed that multiple factors affected(P<0.05)the abundance of comammox Nitrospira,including soil pH,organic matter,total carbon,and total nitrogen,latitude,mean annual temperature,and mean annual precipitation.Moreover,there was a clear relationship between the comammox Nitrospira community and habitat,indicating that some amplicon sequence variants(ASVs)had a unique dominant position in specific habitats.Phylogenetic analysis showed that the ASVs of comammox Nitrospira clade A clustered with the known sequences in the paddy soils and were significantly different from the known sequences in other habitats,which may be related to the unique paddy field habitat.In contrast,comammox Nitrospira clade B showed no clear habitat dependence.These results support the wide distribution and high abundance of comammox Nitrospira in paddy soils and provide novel insights into nitrogen cycling and nutrient management in agricultural ecosystems.
基金funded by the National Key Research and Development Project of China (No. 2016YFD0800100-04)。
文摘Nitrate (NO-3) and nitrite (NO2-) leaching threatens groundwater quality.Soil C:N ratio,i.e.,the ratio of soil organic carbon to total nitrogen,affects mineralization,nitrification,and denitrification;however,its mechanism for driving soil NO-3and NO-2accumulation and leaching remains unclear.Here,a field investigation in a fluvo-aquic soil and a soil column experiment were performed to explore the relationships between soil C:N ratio and soil NO-3and NO-2leaching in three soil layers (0–20,20–40,and 40–60 cm) under heavy rainfall (rainfall rate>25 mm d-1).The field investigation results showed that both soil NO-3-N and NO-2-N contents decreased exponentially (P<0.001) with increasing soil C:N ratio in each soil layer.Furthermore,negative exponential relationships (P<0.001) were found between soil C:N ratio and both NO-3-N and NO-2-N concentrations in soil solution in each soil layer under heavy rainfall.The soil column divided into three layers was leached with simulated heavy rainfall;the results confirmed negative exponential relationships (P<0.05) between soil C:N ratio and both NO-3-N and NO-2-N concentrations in the leachate from each soil layer.A total of 18 soil samples obtained from three depths at six field sites during the rainy season were used to elucidate the microbial mechanisms induced by soil C:N ratio using high-throughput sequencing and real-time polymerase chain reaction.High abundances of ammonifying bacteria (Flavobacterium,Bacillu,and Pseudomonas),ammonia-oxidizing bacteria (Nitrosospira),and nirS/K gene were observed when soil C:N was low,concomitant with low abundances of NO-2-oxidizing bacteria (Nitrospira) and narG gene.Partial least squares path modeling showed that the high NO-3and NO-2levels at low soil C:N ratio might be attributed to the inhibition of NO-3reduction (i.e.,low narG gene) and NO-2oxidation (i.e.,low Nitrospira) and thus the accumulation of soil NO-3and NO-2,respectively.Therefore,the leaching of NO-2and NO-3in low C:N soils requires more attention during the rainy season.
