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Abundance and diversity of ammonia-oxidizing archaea in response to various habitats in Pearl River Delta of China, a subtropical maritime zone

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Journal of Environmental Sciences 2013年第6期25卷 1195-1205页

作者： Zhixin Li Wenbiao Jin Zhaoyun Liang Yangyang Yue Junhong Lv Shenzhen Key Laboratory of Water Resource Utilization and Environmental Pollution Control Harbin Institute of Technology Shenzhen Graduate School Shenzhen Institute of Advanced Technology Chinese Academy of Sciences

ammonia-oxidizing archaea （AOA） are widely considered key to ammonia oxidation in various environments. However, little work has been conducted to simultaneously investigate the abundance and diversity of AOA as well as correlations between archaeal amoA genotypes and environmental parameters of different ecosystems at one district. To understand the abundance, diversity, and distribution of AOA in Pearl River Delta of China in response to various habitats, the archaeal amoA genes in soil, marine, river, lake, hot spring and wastewater treatment plant （WWTP） samples were investigated using real-time fluorescent quantitative PCR and clone libraries. Our analyses indicated that the diversity of AOA in various habitats was different and could be clustered into five major clades, i.e., estuary sediment, marine water/sediment, soil, hot spring and Cluster 1. Phylogenetic analyses revealed that the structure of AOA communities in similar ecological habitats exhibited strong relation. The canonical correspondence method indicated that the AOA community structure was strongly correlated to temperature, pH, total organic carbon, total nitrogen and dissolved oxygen variables. Assessing AOA amoA gene copy numbers, ranging from 6.84× 10^6 to 9.45 × 10^7 copies/g in dry soil/sediment, and 6.06× 10^6 to 2.41 ×10^7 copies/L in water samples, were higher than ammonia-oxidizing bacteria （AOB） by 1-2 orders of magnitude. However, AOA amoA copy numbers were much lower than AOB in WWTP activated sludge samples. Overall, these studies suggested that AOA may be a major contributor to ammonia oxidation in natural habitats but play a minor role in highly aerated activated sludge. The result also showed the ratio of AOA to AOB amoA gene abundance was positively correlated with temperature and less correlated with other environmental parameters. New data from our study provide increasing evidence for the relative abundance and diversity of ammonia-oxidizing archaea in the global nitrogen cyc

关键词： ammonia-oxidizing archaea abundance community structure real-time quantitative PCR clone library Pearl River Delta

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Abundance and distribution of ammonia-oxidizing archaea in Tibetan and Yunnan plateau agricultural soils of China

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Frontiers of Environmental Science & Engineering 2014年第5期8卷 693-702页

作者： Kun DING Xianghua WEN Liang CHEN Daishi HUANG Fan FEI Yuyang LI Environmental Simulation and Pollution Control State Key Joint Laboratory School of Environment Tsinghua University Beijing 100084 China

As low oxygen and high ultraviolet （UV） exposure might significantly affect the microbial existence in plateau, it could lead to a specialized microbial community. To determine the abundance and distribution of ammonia-oxidizing archaea （AOA） in agricultural soil of plateau, seven soil samples were collected respectively from farmlands in Tibet and Yunnan cultivating the wheat, highland-barley, and colza, which are located at altitudes of 3200-3800 m above sea level. Quantitative PCR （q-PCR） and clone library targeting on amoA gene were used to quantify the abundances of AOA and ammonia-oxidizing bacteria （AOB）, and characterize the community structures of AOA in the samples. The number of AOA cells （9.34 × 10^7-2.32× 10^8 g^-1 soil） was 3.86-21.84 times greater than that of AOB cells （6.91 × 10^6-1.24 × 10^8 g^-1 soil） in most of the samples, except a soil sample cultivating highland- barley with an AOA/AOB ratio of 0.90. Based Kendall＇s correlation coefficient, no remarkable correlation between AOA abundance and the environmental factor was observed. Additionally, the diversities of AOA community were affected by total nitrogen and organic matter concentration in soils, suggesting that AOA was probably sensitive to several environmental factors, and could adjust its community structure to adapt to the environmental variation while maintaining its abundance.

关键词： ammonia-oxidizing archaea ammonia-oxidizing bacteria quantitative PCR clone library plateau

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Active ammonia-oxidizing bacteria and archaea in wastewater treatment systems

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Journal of Environmental Sciences 2021年第4期33卷 273-282页

作者： Maosheng Zheng Shishi He Yueqi Feng Mingyuan Wang Yong-Xin Liu Chenyuan Dang Jiawen Wang The Key Laboratory of Resources and Environmental Systems Optimization Ministry of EducationCollege of Environmental Science and EngineeringNorth China Electric Power UniversityBeijing 102206China CAS Center for Excellence in Biotic Interactions University of Chinese Academy of SciencesBeijing 100049China The Key Laboratory of Water and Sediment Sciences Ministry of EducationCollege of Environmental Sciences and EngineeringPeking UniversityBeijing 100871China

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 *** amo A genes as molecular markers,this study investigated the transcriptional abundance and community structure of active AOA and AOB in 14 *** 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 ***,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 ***,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 *** study provides a basis for evaluating the relative contributions of ammonia-oxidizing microorganisms(AOMs)to nitrogen conversions in WWTSs.

关键词： ammonia-oxidizing bacteria ammonia-oxidizing archaea Transcriptional activity Community structure Wastewater treatment system

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Effect of Vallisneria natans on community structure and activity of ammonia-oxidizing archaea and bacteria in eutrophic freshwater sediment

Effect of Vallisneria natans on community structure and acti...

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江苏省遗传学会第九次会员代表大会暨学术研讨会

作者： Dongmei Yue Lu Liu Xiaolin Wang Lijuan Jiang Lin Xiao State Key Laboratory of Pollution Control and Resource Reuse School of the Environment Nanjing University

Nitrification mediated by ammonia-oxidizing bacteria（AOB） and ammonia-oxidizing archaea（AOA） is important in nitrogen transformation. The influence of Vallisneria natans（V. natans） on the abundance and community composition of AOB and AOA in sediments was examined by quantitative PCR and clone library analyses based on the ammonia monooxygenase α-subunit（amoA） gene. The results showed that AOA predominated among ammonia-oxidizing microbes in the sediments of Lake Taihu. Cloning and sequencing of amoA gene showed that the AOB community consisted of Nitrosomonas and unclassified Nitrosomonas-like lineage, and most AOA amoA sequences clustered with environmental clones previously obtained from eutrophic lake and estuarine sediments. Neither AOA nor AOB communities clustered according to vegetation or sediment type. The results of the present study demonstrated that aquatic macrophytes may stimulate the growth and metabolic activity of AOA and/or AOB and subsequently help to the ecological restoration process.

关键词： Vallisneria natans ammonia-oxidizing archaea ammonia-oxidizing bacteria sediment PNR

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Nitrification intensity and ammonia-oxidizing bacteria and archaea in different wetland plant rhizosphere soils

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Journal of Southeast University(English Edition) 2017年第4期33卷 466-472页

作者： Yan Chunni Huang Juan Yang Sisi Cao Chong Peng Cheng Li Runqing School of Civil Engineering Southeast University Nanjing 210096 China

In order to explore the nitrogen removal process in constructed wetlands(CW s),the moisture,ammonia nitrogen(NH4+-N),nitrate nitrogen(NO3"-N)and nitrification intensity in three wetland plant rhizosphere soils(Acorns calamus,Typha orientalis,Iris pseudacorus)were investigated at a relatively normal temperature range of15to25The relative abundance of ammonia-oxidizing bacteria(AOB)and ammonia-oxidizing archaea(AOA)were also achieved using fluorescence in situ hybridization(FISH).It is found that *** achieves the highest nitrification intensity of2.03m g(h?kg)while the second is ***(1.74m g/(h?kg)),and followed by ***(1.65m g/(h?kg))throughout the *** reveals that the abundance of bacteria(1010g_1wet soil)is higher than that of archaea(109g_1wet soil),and AOBare the dominant bacteria in the ammonia oxidation *** abundance of AOB in te rhizosphere soils from high to low ***(1.88x1010g"1),I pseudacorus(1.23x1010g1),***(5.07x109g"1)while the abundance of AOA from high to low ae ***(4.00x109g1),***(3.52x109g"1),***(3.48x109g"1).The study provides valuable evidence of plant selection for nitrogen removal in CWs.

关键词： wetland plant rhizosphere nitrification intensity ammonia-oxidizing bacteria ammonia-oxidizing archaea florescence in situ hybridization

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Responses of nitrogen cycling and related microorganisms to brackish wetlands formed by evapotranspiration

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Pedosphere 2024年第1期34卷 252-266页

作者： Jiaohui FANG Tianshu LU Jian LIU Shangbin HE Xiufeng YANG Huashan DOU Honghai ZHANG School of Life Sciences Qufu Normal UniversityQufu 273100China Environment Research Institute Shandong UniversityQingdao 266237China Hulunbuir Academy of Inland Lakes in Northern Cold&Arid Areas Hulunbuir 021000China

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.

关键词： ammonia-oxidizing archaea ammonia-oxidizing bacteria aquatic plants denitrifying bacteria nitrogen transformation inland wetlands

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Main environmental drivers of abundance,diversity and community structure of comammox Nitrospira in paddy soils

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Pedosphere 2023年第5期33卷 808-818页

作者： Fuyun GAO Yaying LI Haoxin FAN Jiantao XUE Huaiying YAO Key Laboratory of Urban Environment and Health Institute of Urban EnvironmentChinese Academy of SciencesXiamen 361021China Zhejiang Key Laboratory of Urban Environmental Processes and Pollution Control CAS Haixi Industrial Technology Innovation Center in BeilunNingbo 315800China University of Chinese Academy of Sciences Beijing 100049China Research Center for Environmental Ecology and Engineering School of Environmental Ecology and Biological EngineeringWuhan Institute of TechnologyWuhan 430073China

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 *** 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 *** 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 *** Nitrospira were found to be widely distributed among the paddy *** abundance of comammox Nitrospira clade A was mostly lower than that of clade B,whereas its diversity was mostly higher than that of clade *** 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 ***,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 *** 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 *** contrast,comammox Nitrospira clade B showed no clear habitat *** 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.

关键词： ammonia-oxidizing archaea ammonia-oxidizing bacteria amplicon sequence variant complete ammonia oxidizer environmental factor habitat nitrification nitrogen cycling

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Abundance and Community Composition of ammonia-Oxidizers in Paddy Soil at Different Nitrogen Fertilizer Rates

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Journal of Integrative Agriculture 2014年第4期13卷 870-880页

作者： SONG Ya-na LIN Zhi-min Institute of Biological Technology Fujian Academy of Agricultural Sciences

ammonia oxidation, the first and rate-limiting step of nitrification, is carried out by both ammonia-oxidizing bacteria （AOB） and ammonia-oxidizing archaea （AOA）. However, the relative importance of AOB and AOA to nitrification in terrestrial ecosystems is not well understood. The aim of this study was to investigate the effect of the nitrogen input amount on abundance and community composition of AOB and AOA in red paddy soil. Soil samples of 10-20 cm （root layer soil） and 0-5 cm （surface soil） depths were taken from a red paddy. Rice in the paddy was fertilized with different rates of N as urea of N1 （75 kg N ha＂ yr-1）, N2 （150 kg N ha~ yrl）, N3 （225 kg N ha1 yrl） and CK （without fertilizers） in 2009, 2010 and 2011. Abundance and community composition of ammonia oxidizers was analyzed by real-time PCR and denaturing gradient gel electrophoresis （DGGE） based on amoA （the unit A of ammonia monooxygenase） gene. archaeal amoA copies in N3 and N2 were significantly （P〈0.05） higher than those in CK and N1 in root layer soil or in surface soil under tillering and heading stages of rice, while the enhancement in bacterial amoA gene copies with increasing of N fertilizer rates only took on in root layer soil. N availability and soil NO3--N content increased but soil NH4＋-N content didn＇t change with increasing of N fertilizer rates. Otherwise, the copy numbers of archaeal amoA gene were higher （P〈0.05） than those of bacterial amoA gene in root lary soil or in surface soil. Redundancy discriminate analysis based on DGGE bands showed that there were no obvious differs in composition of AOA or AOB communities in the field among different N fertilizer rates. Results of this study suggested that the abundance of ammonia-oxidizers had active response to N fertilizer rates and the response of AOA was more obvious than that of AOB. Similarity in the community composition of AOA or AOB among different N fertilizer rates indicate that the community composition of ammonia-oxidizers w

关键词： ammonia-oxidizing bacteria ammonia-oxidizing archaea nitrogen fertilizer rates paddy soil

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Linking bacterial and archaeal community dynamics to related hydrological,geochemical and environmental characteristics between surface water and groundwater in a karstic estuary

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海洋学报:英文版 2023年第8期42卷 158-170页

作者： Xiaogang Chen Qi Ye Jinzhou Du Neven Cukrov Nuša Cukrov Yan Zhang Ling Li Jing Zhang State Key Laboratory of Estuarine and Coastal Research East China Normal UniversityShanghai 200241China Key Laboratory of Coastal Environment and Resources of Zhejiang Province School of EngineeringWestlake UniversityHangzhou 310024China Division for Marine and Environmental Research Ruđer BoškovićInstituteZagreb 10000Croatia

Subterranean estuaries(STEs)are characterized by the mixing of terrestrial fresh groundwater and seawater in coastal *** 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 ***,we studied bacterial and archaeal diversities and distributions with 16S rRNA-based Illumina MiSeq sequencing technology between surface water and groundwater in a karstic ***-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 *** correspondence analysis showed that nutrients and salinity can explain the patterns of bacterial and archaeal community *** results suggest that hydrological,geochemical and environmental characteristics between surface water and groundwater likely control the bacterial and archaeal diversities and distributions in ***,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 ***,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.

关键词： submarine groundwater discharge surface water and groundwater interaction algal bloom microbial ecology nutrient biogeochemistry ammonia-oxidizing archaea nitrate-utilizing bacteria Krka River Estuary

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Autotrophic and Heterotrophic Nitri?cation in a Highly Acidic Subtropical Pine Forest Soil

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Pedosphere 2016年第6期26卷 904-910页

作者： FAEFLEN J.Sarwee LI Shiwei XIN Xiaoping Alan L.WRIGHT JIANG Xianjun College of Resources and Environment Southwest UniversityChongqing 400715(China) Everglades Research&Education Center University of FloridaBelle Glade FL 33430(USA)

The occurrence of nitri?cation in some acidic forest soils is still a subject of ***?cation of main nitri?cation pathways in acidic forest soils is still largely *** yellow soil(Oxisol) samples were selected to test whether nitri?cation can occur or not in acidic subtropical pine forest *** contributions of autotrophs and heterotrophs to nitri?cation were studied by adding selective nitri?cation inhibitor *** NH^+_4-N concentrations decreased,but NO^-_3-N concentrations increased signi?cantly for the no-nitrapyrin control during the ?rst week of incubation,indicating that nitri?cation did occur in the acidic subtropical *** calculated net nitri?cation rate was 0.49 mg N kg^(-1)d^(-1)for the no-nitrapyrin control during the ?rst week of *** amendment resulted in a signi?cant reduction of NO^-_3-N *** nitri?cation rate averaged0.28 mg N kg^(-1)d^(-1)and the heterotrophic nitri?cation rate was 0.21 mg N kg^(-1)d^(-1)in the ?rst ***-oxidizing bacteria(AOB) abundance increased slightly during incubation,but nitrapyrin amendment signi?cantly decreased AOB amo A gene copy numbers by about 80%.However,the ammonia-oxidizing archaea(AOA) abundance showed signi?cant increases only in the last 2weeks of incubation and it was also decreased by nitrapyrin *** results indicated that nitri?cation did occur in the present acidic subtropical pine forest soil,and autotrophic nitri?cation was the main nitri?cation *** AOA and AOB were the active biotic agents responsible for autotrophic nitri?cation in the acidic subtropical pine forest soil.

关键词： acidic yellow soil ammonia-oxidizing archaea ammonia-oxidizing bacteria net nitrification rate nitrapyrin nitrification inhibitor

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