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Chen C, Jiang X, Deng Y, Wang H, Zhang Z, Zhang C. A comprehensive insight into the abundance and community of anammox bacteria in sediments of Hangzhou Bay, China. MARINE POLLUTION BULLETIN 2024; 198:115915. [PMID: 38091632 DOI: 10.1016/j.marpolbul.2023.115915] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2023] [Revised: 12/03/2023] [Accepted: 12/08/2023] [Indexed: 01/05/2024]
Abstract
A total of 13 surface sediments were collected from Hangzhou Bay (HZB) for an investigation into the distribution and influencing factors of anammox bacterial community. The anammox bacterial 16S rRNA and hzo genes ranged between 2.34 × 105 to 9.22 × 105 copies/g and 3.68 × 105 to 1.70 × 106 copies/g, respectively. The results of high throughput sequencing (HTS) revealed that the obtained OTUs were affiliated with five known genera, named Ca. Scalindua, Ca. Jettenia, Ca. Brocadia, Ca. Kuenenia and Ca. Anammoxoglobus. RDA analysis indicated that salinity, pH, and water depth influenced the anammox bacterial community. Furthermore, network analysis identified Ca. Scalindua as a key genus. Neutral community model (NCM) and modified stochasticity ratio (MST) indicated that the deterministic process dominated the anammox bacterial community assembly. Overall, this study offers a more comprehensive understanding of the abundance and community of anammox bacteria in the sediments of HZB.
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Affiliation(s)
- Chunlei Chen
- Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou 511458, China; Institute of Marine Biology and Pharmacology, Ocean College, Zhejiang University, Zhoushan 316021, Zhejiang, China
| | - Xuexiao Jiang
- Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou 511458, China; Guangzhou Marine Geological Survey, Guangzhou 510075, China
| | - Yinan Deng
- Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou 511458, China; Guangzhou Marine Geological Survey, Guangzhou 510075, China.
| | - Heng Wang
- Key Laboratory of Health Risk Factors for Seafood of Zhejiang Province, 316021, China
| | - Zhichao Zhang
- Key Laboratory of Health Risk Factors for Seafood of Zhejiang Province, 316021, China
| | - Chunfang Zhang
- Institute of Marine Biology and Pharmacology, Ocean College, Zhejiang University, Zhoushan 316021, Zhejiang, China.
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2
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Chen J, Zhou Z, Gu JD. Distribution pattern of N-damo bacteria along an anthropogenic nitrogen input gradient from the coastal mangrove wetland to the South China sea sediments. MARINE ENVIRONMENTAL RESEARCH 2022; 181:105739. [PMID: 36084374 DOI: 10.1016/j.marenvres.2022.105739] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2022] [Revised: 08/23/2022] [Accepted: 08/25/2022] [Indexed: 06/15/2023]
Abstract
Microbial nitrite-dependent anaerobic methane oxidation (n-damo) process is important for mitigating methane emission and anthropogenic nitrogen inputs in the marine environment. However, the distribution pattern of n-damo bacteria along an anthropogenic N-input gradient from the coastal wetland to the pristine South China Sea is poorly understood. This study investigated the diversity and abundance of n-damo bacteria in samples collected along a N-input gradient from Mai Po (MP) mangrove wetland sediments of the Pearl River Estuary (PRE) to the deep ocean sediments of the South China Sea (SCS). Retrieved 16S rDNA sequences showed a shift of n-damo community composition of complex structures with both freshwater and marine n-damo lineages in MP intertidal sediments to marine dominated characteristic in SCS sediments. The observed variation of Shannon and Chao1 indexes of n-damo bacteria shared a similar trend of a decrease at first followed by an increase along the targeting gradient with previously investigated methanogens, anaerobic methanotrophic archaea, ammonia-oxidizing archaea and ammonia-oxidizing bacteria, but had a reverse pattern with anammox bacteria. The community structure of pmoA gene sequences contained freshwater lineages only in SCS continental shelf sediments closer to the PRE, and turned to group with other marine samples in deeper and pristine sediments. Results suggested that n-damo bacteria might be a major contributor to anaerobic denitrification in the SCS sediments because their abundances were much higher than previously studied anammox bacteria in the same sample set. The distribution pattern of n-damo bacterial diversity, richness and abundance along the anthropogenic N-input gradient implies that they could be used as a bio-indicator for monitoring the anthropogenic/terrestrial inputs in marine environments.
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Affiliation(s)
- Jing Chen
- Department of Pharmaceutical & Biological Engineering, School of Chemical Engineering, Sichuan University, Chengdu, 610065, PR China; Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, Faculty of Science, The University of Hong Kong, Pokfulam Road, Hong Kong Special Administrative Region of China
| | - Zhichao Zhou
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, Faculty of Science, The University of Hong Kong, Pokfulam Road, Hong Kong Special Administrative Region of China
| | - Ji-Dong Gu
- Environmental Science and Engineering Research Group, Guangdong Technion - Israel Institute of Technology, Shantou, Guangdong, 515063, China; Guangdong Provincial Key Laboratory of Materials and Technologies for Energy Conversion, Guangdong Technion - Israel Institute of Technology, 241 Daxue Road, Shantou, Guangdong, 515063, China.
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3
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Cai M, Hong Y, Wu J, Moore SS, Vamerali T, Ye F, Wang Y. Nitrate Addition Increases the Activity of Microbial Nitrogen Removal in Freshwater Sediment. Microorganisms 2022; 10:microorganisms10071429. [PMID: 35889148 PMCID: PMC9317351 DOI: 10.3390/microorganisms10071429] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Revised: 07/08/2022] [Accepted: 07/13/2022] [Indexed: 12/04/2022] Open
Abstract
Denitrification and anammox occur widely in aquatic ecosystems serving vital roles in nitrogen pollution removal. However, small waterbodies are sensitive to external influences; stormwater runoff carrying nutrients and oxygen, flows into waterbodies resulting in a disruption of geochemical and microbial processes. Nonetheless, little is known about how these short-term external inputs affect the microbial processes of nitrogen removal in small waterbodies. To investigate the effects of NO3−, NH4+, dissolved oxygen (DO) and organic C on microbial nitrogen removal in pond sediments, regulation experiments have been conducted using slurry incubation experiments and 15N tracer techniques in this study. It was demonstrated the addition of NO3− (50 to 800 μmol L−1) significantly promoted denitrification rates, as expected by Michaelis-Menten kinetics. Ponds with higher NO3− concentrations in the overlying water responded more greatly to NO3− additions. Moreover, N2O production was also promoted by such an addition of NO3−. Denitrification was significantly inhibited by the elevation of DO concentration from 0 to 2 mg L−1, after which no significant increase in inhibition was observed. Denitrification rates increased when organic C was introduced. Due to the abundant NH4+ in pond sediments, the addition demonstrated little influence on nitrogen removal. Moreover, anammox rates showed no significant changes to any amendment.
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Affiliation(s)
- Min Cai
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China; (M.C.); (Y.H.); (J.W.)
| | - Yiguo Hong
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China; (M.C.); (Y.H.); (J.W.)
| | - Jiapeng Wu
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China; (M.C.); (Y.H.); (J.W.)
| | - Selina Sterup Moore
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, 35122 Padova, Italy; (S.S.M.); (T.V.)
| | - Teofilo Vamerali
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, 35122 Padova, Italy; (S.S.M.); (T.V.)
| | - Fei Ye
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China; (M.C.); (Y.H.); (J.W.)
- Correspondence: (F.Y.); (Y.W.)
| | - Yu Wang
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China; (M.C.); (Y.H.); (J.W.)
- Correspondence: (F.Y.); (Y.W.)
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Zhang X, Meng H, Yang Y, Lan W, Wang W, Lam PKS, Li XY, Gu JD. Diversity, abundance, and distribution of anammox bacteria in shipping channel sediment of Hong Kong by analysis of DNA and RNA. ECOTOXICOLOGY (LONDON, ENGLAND) 2021; 30:1705-1718. [PMID: 33433766 DOI: 10.1007/s10646-020-02332-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 12/07/2020] [Indexed: 06/12/2023]
Abstract
Anammox bacteria have been detected in various ecosystems, but their occurrence and community composition along the shipping channels have not been reported. In this study, anammox bacteria were recovered by PCR-amplified biomarker hzsB gene from the genomic DNA of the sediment samples. Phylogenetic tree revealed that Candidatus Scalindua and Ca. Brocadia dominated the anammox community of the Hong Kong channels; Ca. Scalindua spp. was present abundantly at the sites farther from the shore, whereas Ca. Jettenia and Ca. Kuenenia were detected as the minor members in the estuarine sediments near the shipping terminals. The highest values of Shannon-Wiener index and Chao1 were identified in the sediments along the Urmston road (UR), suggesting the highest α-diversity and species richness of anammox bacteria. PCoA analysis indicated that anammox bacterial communities along UR and Tai Hong (TH) channel were site-specific because these samples were grouped and clearly separated from the other samples. The maximum diversity of anammox bacteria was detected in UR samples, ranging from 6.28 × 105 to 1.28 × 106 gene copies per gram of dry sediment. A similar pattern of their transcriptional activities was also observed among these channels. Pearson's moment correlation and redundancy analysis indicated that NH4+-N was a strong factor shaping the community structure, which showed significant positive correlation with the anammox bacterial abundance and anammox transcriptional activities (p < 0.01, r > 0.8). Also, NH4+-N, (NO3- + NO2-)-N, and NH4+/NOX were additional key environmental factors that influenced the anammox community diversity and distribution. This study yields a better understanding of the ecological distribution of anammox bacteria and the dominant genera in selective niche.
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Affiliation(s)
- Xiaowei Zhang
- Department of Obstetrics and Gynecology, Peking University Shenzhen Hospital, Shenzhen, Guangdong, People's Republic of China
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong, SAR, People's Republic of China
| | - Han Meng
- School of Environment, Nanjing Normal University, Nanjing, Jiangsu, 210023, The People's Republic of China
| | - Yuchun Yang
- State Key Laboratory of Biocontrol, School of Ecology, Sun Yat-sen University, Guangzhou, 510275, The People's Republic of China
| | - Wensheng Lan
- Shenzhen R&D Key Laboratory of Alien Pest Detection Technology, The Shenzhen Academy of Inspection and Quarantine, Food Inspection and Quarantine Center of Shenzhen Customs, 1011 Fuqiang Road, Shenzhen, 518045, The People's Republic of China
| | - Weidong Wang
- Heilongjiang Provincial Key Laboratory of Environmental Microbiology and Recycling of Agro-Waste in Cold Region, College of Life Science and Biotechnology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, 163319, People's Republic of China
| | - Paul K S Lam
- Department of Chemistry, State Key Laboratory of Marine Pollution, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong, SAR, The People's Republic of China
| | - Xiao-Yan Li
- Department of Civil and Environmental Engineering, The University of Hong Kong, Pokfulam Road, Hong Kong, SAR, The People's Republic of China
| | - Ji-Dong Gu
- Environmental Engineering, Guangdong Technion-Israel Institute of Technology, 241 Daxue Road, Shantou, Guangdong, 515063, The People's Republic of China.
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Liu X, Wu J, Hong Y, Li Y, Hu Y, Wang L, Wang Y, Long A. Wide distribution of anaerobic ammonium‐oxidizing bacteria in the water column of the South China Sea: Implications for their survival strategies. DIVERS DISTRIB 2020. [DOI: 10.1111/ddi.13159] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
Affiliation(s)
- Xiaohan Liu
- Institute of Environmental Research at Greater Bay Area Key Laboratory for Water Quality and Conservation of the Pearl River Delta Ministry of Education Guangzhou University Guangzhou China
- School of Environmental Science and Engineering Guangzhou University Guangzhou China
| | - Jiapeng Wu
- Institute of Environmental Research at Greater Bay Area Key Laboratory for Water Quality and Conservation of the Pearl River Delta Ministry of Education Guangzhou University Guangzhou China
- School of Environmental Science and Engineering Guangzhou University Guangzhou China
| | - Yiguo Hong
- Institute of Environmental Research at Greater Bay Area Key Laboratory for Water Quality and Conservation of the Pearl River Delta Ministry of Education Guangzhou University Guangzhou China
- School of Environmental Science and Engineering Guangzhou University Guangzhou China
| | - Yiben Li
- Institute of Environmental Research at Greater Bay Area Key Laboratory for Water Quality and Conservation of the Pearl River Delta Ministry of Education Guangzhou University Guangzhou China
- School of Environmental Science and Engineering Guangzhou University Guangzhou China
| | - Yaohao Hu
- State Key Laboratory of Tropical Oceanography (LTO) South China Sea Institute of Oceanology Chinese Academy of Sciences Guangzhou China
- University of Chinese Academy of Sciences Beijing China
| | - Limei Wang
- Institute of Environmental Research at Greater Bay Area Key Laboratory for Water Quality and Conservation of the Pearl River Delta Ministry of Education Guangzhou University Guangzhou China
- School of Environmental Science and Engineering Guangzhou University Guangzhou China
| | - Yu Wang
- Institute of Environmental Research at Greater Bay Area Key Laboratory for Water Quality and Conservation of the Pearl River Delta Ministry of Education Guangzhou University Guangzhou China
- School of Environmental Science and Engineering Guangzhou University Guangzhou China
| | - Aimin Long
- State Key Laboratory of Tropical Oceanography (LTO) South China Sea Institute of Oceanology Chinese Academy of Sciences Guangzhou China
- University of Chinese Academy of Sciences Beijing China
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Wen X, Hong Y, Wu J, Wang Y. Optimization of a method for diversity analysis of anammox bacteria using high-throughput sequencing of 16S rRNA gene amplicon. J Microbiol Methods 2020; 178:106066. [PMID: 32980336 DOI: 10.1016/j.mimet.2020.106066] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2020] [Revised: 09/20/2020] [Accepted: 09/21/2020] [Indexed: 11/16/2022]
Abstract
High-throughput sequencing of 16S rRNA amplicons is an effective method for diversity analysis of anammox bacteria. However, the corresponding taxonomic database and suitable cut-off value are unavailable for processing high-throughput sequencing data. This study is the first to construct a taxonomic database, comprising 17 sequences of enriched anammox strains (regarded as seed sequences) and 2925 uncultured sequences from environmental samples. Moreover, a suitable cut-off value was determined based on pairwise evolutionary distances between the 16S rRNA gene sequences of the 17 identified species and diversity indexes of community in the taxonomic database. Furthermore, the proposed method was validated with multiple environmental samples. In summary, the taxonomic database and proposed cut-off value targeting the 16S rRNA gene presented in this study can be effectively employed to explore the diversity of anammox bacteria.
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Affiliation(s)
- Xiaomei Wen
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China; School of Environmental Science and Engineering, Guangzhou University, Guangzhou 510006, China
| | - Yiguo Hong
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China; School of Environmental Science and Engineering, Guangzhou University, Guangzhou 510006, China.
| | - Jiapeng Wu
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China
| | - Yu Wang
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou 510006, China
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7
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Zhou Z, Chen J, Gu W, Gu JD. Biogeographic pattern of the nirS gene-targeted anammox bacterial community and composition in the northern South China Sea and a coastal Mai Po mangrove wetland. Appl Microbiol Biotechnol 2020; 104:3167-3181. [PMID: 32036435 DOI: 10.1007/s00253-020-10415-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2019] [Revised: 01/19/2020] [Accepted: 01/24/2020] [Indexed: 11/29/2022]
Abstract
Functional genes, namely hzo/hao, nirS, hzs, and ccs gene, are efficient with high specificity for detecting anammox bacteria. Sc-nirS and An-nirS primer sets were proposed for targeting Scalindua/non-Scalindua anammox bacterial groups; previously, they have not been assessed for biogeographic study on marine-terrestrial transitional systems, specifically marine and terrestrial ecosystems. Here, we report phylogenetic distribution pattern of anammox bacteria in both northern South China Sea (nSCS) and Mai Po wetland (a coastal mangrove) using nirS gene-based primers. A well-delineated biogeographic distribution pattern from ocean to continental shelf was evident by combining both gene-based analyses as previously depicted using 16S rRNA as the biomarker. Furthermore, factors affecting the abundance and composition of An-nirS genes in Mai Po wetland were identified as substrate (NO3-/NO2- concentration) and anoxic/oxic condition in association to depth. An-nirS gene abundance was from 2.6 × 103 to 1.2-1.4 × 104 copies/g dry sediment in nSCS; and it was around 5 × 103 and 1-2 × 104 copies/g dry sediment in surface and subsurface sediments of Mai Po wetland, respectively. In addition, nirS gene abundance and distribution pattern of denitrifiers and anammox bacteria in the wetland indicates a competition relationship between them. Mangrove vegetation affected the community composition of An-nirS gene considerably, and a more homogeneous distribution pattern was observed in the mangrove forest than intertidal mudflats. Sc/An-nirS gene-based biogeographic insights on anammox bacteria have shed lights on the compositional and potential functional dynamics and emphasized the importance of molecular tools on refining the current microbial ecological patterns.
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Affiliation(s)
- Zhichao Zhou
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong, SAR, People's Republic of China
| | - Jing Chen
- School of Chemical Engineering, Sichuan University, No.24 South Section 1, Yihuan Road, Chengdu, 610065, Sichuan Province, People's Republic of China
| | - Wenjie Gu
- Guangdong Academy of Agricultural Sciences, 29 Jinying Road, Guangzhou, 510000, Guangdong Province, People's Republic of China
| | - Ji-Dong Gu
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong, SAR, People's Republic of China.
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Spatial and Seasonal Variations in the Abundance of Nitrogen-Transforming Genes and the Microbial Community Structure in Freshwater Lakes with Different Trophic Statuses. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2019; 16:ijerph16132298. [PMID: 31261730 PMCID: PMC6651097 DOI: 10.3390/ijerph16132298] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/28/2019] [Revised: 06/25/2019] [Accepted: 06/26/2019] [Indexed: 12/27/2022]
Abstract
Identifying nitrogen-transforming genes and the microbial community in the lacustrine sedimentary environment is critical for revealing nitrogen cycle processes in eutrophic lakes. In this study, we examined the diversity and abundance of ammonia-oxidizing bacteria (AOB), ammonia-oxidizing archaea (AOA), denitrifying bacteria (DNB), and anammox bacteria (AAOB) in different trophic status regions of Lake Taihu using the amoA, Arch-amoA, nirS, and hzo genes as functional markers. Quantitative Polymerase Chain Reaction (qPCR) results indicated that the abundance of the nirS gene was the highest, while the amoA gene had the lowest abundance in all regions. Except for the primary inflow area of Lake Taihu, Arch-amoA gene abundance was higher than the hzo gene in three lake bays, and the abundance of the nirS gene increased with decreasing trophic status. The opposite pattern was observed for the amoA, Arch-amoA, and hzo genes. Phylogenetic analyses showed that the predominant AOB and AOA were Nitrosomonas and Nitrosopumilus maritimus, respectively, and the proportion of Nitrosomonas in the eutrophic region (87.9%) was higher than that in the mesotrophic region (71.1%). Brocadia and Anammoxoglobus were the two predominant AAOB in Lake Taihu. Five novel unknown phylotypes of AAOB were observed, and Cluster AAOB-B was only observed in the inflow area with a proportion of 32%. In the DNB community, Flavobacterium occurred at a higher proportion (22.6–38.2%) in all regions, the proportion of Arthrobacter in the mesotrophic region (3.6%) was significantly lower than that in the eutrophic region (15.6%), and the proportions of Cluster DNB-E in the inflow area (24.5%) was significantly higher than that in the lake bay (7.3%). The canonical correspondence analysis demonstrated that the substrate concentration in sedimentary environments, such as NOx--N in the sediment, NH4+-N in the pore water, and the total organic matter, were the key factors that determined the nitrogen-transforming microbial community. However, the temperature was also a predominant factor affecting the AOA and AAOB communities.
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Tong T, Li B, Xie S. Anaerobic ammonium-oxidizing bacteria in river water treatment wetland. Folia Microbiol (Praha) 2019; 65:315-322. [PMID: 31228140 DOI: 10.1007/s12223-019-00726-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2019] [Accepted: 06/11/2019] [Indexed: 11/27/2022]
Abstract
Anaerobic ammonium-oxidizing (anammox) bacteria play an essential part in nitrogen removal in constructed wetlands. The objective of the present study was to explore the spatiotemporal dynamics of anammox bacterial communities and the associated factors in a full-scale constructed wetland for the treatment of polluted surface water. The abundance and diversity of anammox bacterial communities were characterized using quantitative polymerase chain reaction (PCR) and clone library analysis, respectively. Anammox bacterial diversity, richness, and abundance in the treatment wetland differed considerably among sampling sites and seasons, whereas anammox bacterial community structure tended to change slightly with site and time. Anammox abundance was likely influenced by temperature and the contents of nitrate and nitrite nitrogen. The increase of carbon and nitrogen contents could lower wetland anammox bacterial diversity and richness. Moreover, anammox bacterial diversity, richness, and abundance were also affected by wetland vegetation type. Candidatus Brocadia dominated in the treatment wetland, whereas Candidatus Kuenenia and a novel anammox phylotype were also detected. This work could provide some new insights towards anaerobic ammonium oxidization in surface water treatment wetland.
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Affiliation(s)
- Tianli Tong
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China
| | - Bingxin Li
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China
| | - Shuguang Xie
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China.
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10
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Fu L, Chen Y, Li S, He H, Mi T, Zhen Y, Yu Z. Shifts in the anammox bacterial community structure and abundance in sediments from the Changjiang Estuary and its adjacent area. Syst Appl Microbiol 2019; 42:383-396. [PMID: 30679000 DOI: 10.1016/j.syapm.2018.12.008] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2018] [Revised: 12/13/2018] [Accepted: 12/19/2018] [Indexed: 10/27/2022]
Abstract
Anaerobic ammonium oxidation (anammox) is an important process in marine nitrogen cycle. In this study, diverse anammox bacteria were identified in the sediments of the Changjiang (Yangtze) Estuary and its adjacent area. Specifically, the community characters of anammox bacteria in the studied area were studied by quantitative polymerase chain reaction (qPCR), as well as 16S rRNA gene- and functional gene (hzo)-based Roche 454 sequencing. The abundance of denitrifying bacteria detected by the nirS gene was greater than that of anammox bacteria. 16S rRNA and hzo gene fragments affiliating with known anammox bacterial lineages were recovered, and the two major phylotypes belonged to the Candidatus Scalindua (Ca. Scalindua) genus, with >90% sequence similarity. A phylogenetic analysis detected the Scalindua and Brocadia genera together with some anammox-like bacterial clusters, which suggested a higher diversity in the studied ecosystem than in open ocean environment, where only Scalindua genus was detected. A redundancy analysis (RDA) showed that total organic carbon (TOC) and total nitrogen (TN) content in sediments significantly influenced anammox bacterial abundance of. Spearman correlation analyses confirmed that the spatial variation in anammox bacterial abundance was highly correlated with TOC (P<0.01) and TN (P<0.01) contents in sediments.
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Affiliation(s)
- Lulu Fu
- College of Marine Life Science, Ocean University of China, Qingdao 266003, PR China; Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China; Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao 266100, PR China
| | - Yangyang Chen
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China; Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao 266100, PR China; College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, PR China
| | - Siqi Li
- College of Marine Life Science, Ocean University of China, Qingdao 266003, PR China; Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China; Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao 266100, PR China
| | - Hui He
- College of Marine Life Science, Ocean University of China, Qingdao 266003, PR China; Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China; Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao 266100, PR China; Key Laboratory of Marine Chemical Theory and Technology, Ministry of Education, Qingdao 266100, PR China
| | - Tiezhu Mi
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China; Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao 266100, PR China; College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, PR China
| | - Yu Zhen
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China; Key Laboratory of Marine Environment and Ecology, Ministry of Education, Qingdao 266100, PR China; College of Environmental Science and Engineering, Ocean University of China, Qingdao 266100, PR China.
| | - Zhigang Yu
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China; Key Laboratory of Marine Chemical Theory and Technology, Ministry of Education, Qingdao 266100, PR China
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11
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Wu J, Hong Y, Chang X, Jiao L, Li Y, Liu X, Xie H, Gu JD. Unexpectedly high diversity of anammox bacteria detected in deep-sea surface sediments of the South China Sea. FEMS Microbiol Ecol 2019; 95:5298864. [DOI: 10.1093/femsec/fiz013] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2018] [Accepted: 01/21/2019] [Indexed: 11/14/2022] Open
Affiliation(s)
- Jiapeng Wu
- State Key Laboratory of Tropical Oceanography (LTO), South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, P. R. China
- University of Chinese Academy of Sciences, Beijing, 100049, P. R. China
| | - Yiguo Hong
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, P. R. China
| | - Xiangyang Chang
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, P. R. China
| | - Lijing Jiao
- State Key Laboratory of Tropical Oceanography (LTO), South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, P. R. China
- University of Chinese Academy of Sciences, Beijing, 100049, P. R. China
| | - Yiben Li
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, P. R. China
| | - Xiaohan Liu
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, P. R. China
| | - Haitao Xie
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, P. R. China
| | - Ji-Dong Gu
- School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong SAR, P.R. China
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12
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Characterization of a Microbial Community in an Anammox Process Using Stored Anammox Sludge. WATER 2017. [DOI: 10.3390/w9110829] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
This study investigated a rapid start-up anaerobic ammonium oxidation (Anammox) process by inoculation with stored Anammox sludge and characterized the associated microbial communities. The Anammox process took only 43 days to start. A high nitrogen removal rate of 1.13 kg N m−3 d−1 and a nitrogen loading rate of 1.28 kg N m−3 d−1 were achieved. The ratio of ammonium removal to nitrite removal to nitrate production (1:1:0.2) was slightly lower than the theoretical value, which indicated nitrogen removal by denitrification in the reactor. Illumina high-throughput sequencing of sludge samples confirmed the co-existence of Anammox bacteria and denitrifying bacteria in the reactor and demonstrated that denitrifying bacteria play a role in nitrogen removal during the Anammox process. The dominant microbes in the reactor were Proteobacteria, Chlorobi, Chloroflexi, and Planctomycetes. However, only one species of Anammox bacteria, Candidatus jettenia, was identified and had an abundance of 4.92%. Our results illustrate the relationship between Anammox reactor performance and microbial community succession.
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13
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Assessment of molecular detection of anaerobic ammonium-oxidizing (anammox) bacteria in different environmental samples using PCR primers based on 16S rRNA and functional genes. Appl Microbiol Biotechnol 2017; 101:7689-7702. [PMID: 28932888 DOI: 10.1007/s00253-017-8502-3] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2017] [Revised: 08/10/2017] [Accepted: 08/26/2017] [Indexed: 10/18/2022]
Abstract
Eleven published PCR primer sets for detecting genes encoding 16S ribosomal RNA (rRNA), hydrazine oxidoreductase (HZO), cytochrome cd 1-containing nitrite reductase (NirS), and hydrazine synthase subunit A (HzsA) of anaerobic ammonium-oxidizing (anammox) bacteria were assessed for the diversity and abundance of anammox bacteria in samples of three environments: wastewater treatment plant (WWTP), wetland of Mai Po Nature Reserve (MP), and the South China Sea (SCS). Consistent phylogenetic results of three biomarkers (16S rRNA, hzo, and hzsA) of anammox bacteria were obtained from all samples. WWTP had the lowest diversity with Candidatus Kuenenia dominating while the SCS was dominated by Candidatus Scalindua. MP showed the highest diversity of anammox bacteria including C. Scalindua, C. Kuenenia, and Candidatus Brocadia. Comparing different primer sets, no significant differences in specificity for 16S rRNA gene could be distinguished. Primer set CL1 showed relatively high efficiency in detecting the anammox bacterium hzo gene from all samples, while CL2 showed greater selectivity for WWTP samples. The recently reported primer sets of the hzsA gene resulted in high efficiencies in detecting anammox bacteria while nirS primer sets were more selective for specific samples. Results collectively indicate that the distribution of anammox bacteria is niche-specific within different ecosystems and primer specificity may cause biases on the diversity detected.
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Tomaszewski M, Cema G, Ziembińska-Buczyńska A. Influence of temperature and pH on the anammox process: A review and meta-analysis. CHEMOSPHERE 2017; 182:203-214. [PMID: 28499181 DOI: 10.1016/j.chemosphere.2017.05.003] [Citation(s) in RCA: 112] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2017] [Revised: 03/31/2017] [Accepted: 05/01/2017] [Indexed: 06/07/2023]
Abstract
The anammox (anaerobic ammonium oxidation) process was considered a very efficient and economic wastewater treatment technology immediately after its discovery in 1995, thus research in this field was intensified. The anammox process is characterised by a high temperature optimum and is very sensitive to both temperature and pH fluctuations. The process can also be inhibited by many factors, including by its substrates, i.e. nitrite and ammonium (or its unionised forms: free ammonia and free nitrous acid). This paper presents a comprehensive study of the most important and recent findings on the influence of two parameters that are crucial in wastewater treatment, i.e. temperature and pH. Because both parameters may influence the anammox process simultaneously, a meta-analysis was conducted of the data from the literature. Although meta-analysis is commonly used in medical research, mathematical analysis of the literature data has become an interesting and important step in the environmental sciences. This paper presents information on the influence of both temperature and pH on process efficiency and microbial composition. Additionally, the responses of different operating systems on both temperature and pH changes are described. Moreover, the role of both adaptation to changed conditions and of pH control as well as indicated areas of process operation are discussed.
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Affiliation(s)
- Mariusz Tomaszewski
- The Silesian University of Technology, Environmental Biotechnology Department, Akademicka 2, 44-100, Gliwice, Poland.
| | - Grzegorz Cema
- The Silesian University of Technology, Environmental Biotechnology Department, Akademicka 2, 44-100, Gliwice, Poland
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15
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Zhou X, Zhang J, Wen C. Community Composition and Abundance of Anammox Bacteria in Cattail Rhizosphere Sediments at Three Phenological Stages. Curr Microbiol 2017; 74:1349-1357. [DOI: 10.1007/s00284-017-1324-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2017] [Accepted: 07/31/2017] [Indexed: 10/19/2022]
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16
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Sobotka D, Tuszynska A, Kowal P, Ciesielski S, Czerwionka K, Makinia J. Long-term performance and microbial characteristics of the anammox-enriched granular sludge cultivated in a bench-scale sequencing batch reactor. Biochem Eng J 2017. [DOI: 10.1016/j.bej.2017.01.007] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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17
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Shen LD, Cheng HX, Liu X, Li JH, Liu Y. Potential role of anammox in nitrogen removal in a freshwater reservoir, Jiulonghu Reservoir (China). ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:3890-3899. [PMID: 27905043 DOI: 10.1007/s11356-016-8126-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2016] [Accepted: 11/16/2016] [Indexed: 06/06/2023]
Abstract
Currently, the nitrogen removal potential of anaerobic ammonium oxidation (anammox) and its regulating factors in reservoir systems remain uncertain. Here, we provided the molecular and isotopic evidence for anammox in the freshwater sediment of Jiulonghu Reservoir that is located in Quzhou, Zhejiang Province, China. Diverse 16S rRNA gene sequences related to Candidatus Kuenenia and Candidatus Brocadia were detected by using high-throughput (Illumina MiSeq) sequencing of total bacterial 16S rRNA genes, and the Candidatus Brocadia was the most frequently detected anammox bacterial genus. The anammox bacterial abundance was determined based on quantitative PCR on hzsA (the alpha subunit of the hydrazine synthase) genes and varied from 3.1 × 105 to 1.1 × 106 copies g-1 dry sediment. Homogenized sediments were further incubated with 15NO3- amendments to measure the potential anammox rates and determine the contribution of this process to dinitrogen gas (N2) production. The potential rates of anammox ranged between 8.1 and 30.8 nmol N2 g-1 dry sediment day-1, and anammox accounted for 7.7-20.5% of total N2 production in sediment. Higher levels of anammox bacterial diversity, abundance, and activity were observed in the downstream with greater human disturbance than those in the upstream with less human disturbance. Correlation analyses suggested that the inorganic nitrogen level in sediment could be a key factor for the anammox bacterial abundance and activity. The results showed that the nitrogen removal via anammox may not be negligible in the examined reservoir and indicated that human activities could influence the anammox process in reservoir systems.
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Affiliation(s)
- Li-Dong Shen
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, Jiangsu Key Laboratory of Agricultural Meteorology, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Hai-Xiang Cheng
- College of Chemistry and Materials Engineering, Quzhou University, Quzhou, 324000, China.
| | - Xu Liu
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, Jiangsu Key Laboratory of Agricultural Meteorology, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Jian-Hui Li
- Quzhou Academy of Agricultural Sciences, Quzhou, 324000, China
| | - Yan Liu
- Wuxijiang National Wetland Park Service, Quzhou, 324000, China
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New PCR primers targeting hydrazine synthase and cytochrome c biogenesis proteins in anammox bacteria. Appl Microbiol Biotechnol 2016; 101:1267-1287. [PMID: 28032194 DOI: 10.1007/s00253-016-8013-7] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2016] [Revised: 11/12/2016] [Accepted: 11/14/2016] [Indexed: 01/13/2023]
Abstract
PCR primers targeting genes encoding the two proteins of anammox bacteria, hydrazine synthase and cytochrome c biogenesis protein, were designed and tested in this study. Three different ecotypes of samples, namely ocean sediments, coastal wetland sediments, and wastewater treatment plant (WWTP) samples, were used to assess the primer efficiency and the community structures of anammox bacteria retrieved by 16S ribosomal RNA (rRNA) and the functional genes. Abundances of hzsB gene of anammox bacteria in South China Sea (SCS) samples were significantly correlated with 16S rRNA gene by qPCR method. And hzsB and hzsC gene primer pair hzsB364f-hzsB640r and hzsC745f-hzsC862r in combination with anammox bacterial 16S rRNA gene primers were recommended for quantifying anammox bacteria. Congruent with 16S rRNA gene-based community study, functional gene hzsB could also delineate the coastal-ocean distributing pattern, and seawater depth was positively associated with the diversity and abundance of anammox bacteria from shallow- to deep-sea. Both hzsC and ccsA genes could differentiate marine samples between deep and shallow groups of the Scalindua sp. clades. As for WWTP samples, non-Scalindua anammox bacteria reflected by hzsB, hzsC, ccsA, and ccsB gene-based libraries showed a similar distribution pattern with that by 16S rRNA gene. NH4+ and NH4+/Σ(NO3- + NO2-) positively correlated with anammox bacteria gene diversity, but organic matter contents correlated negatively with anammox bacteria gene diversity in SCS. Salinity was positively associated with diversity indices of hzsC and ccsB gene-harboring anammox bacteria communities and could potentially differentiate the distribution patterns between shallow- and deep-sea sediment samples. SCS surface sediments harbored considerably diverse community of Scalindua. A new Mai Po clade representing coastal estuary wetland anammox bacteria group based on 16S rRNA gene phylogeny is proposed. Existence of anammox bacteria within wider coverage of genera in Mai Po wetland indicates this unique niche is very complex, and species of anammox bacteria are niche-specific with different physiological properties towards substrates competing and chemical tolerance capability.
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19
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Co-occurrence of nitrite-dependent anaerobic ammonium and methane oxidation processes in subtropical acidic forest soils. Appl Microbiol Biotechnol 2016; 100:7727-39. [DOI: 10.1007/s00253-016-7585-6] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2016] [Revised: 04/24/2016] [Accepted: 04/27/2016] [Indexed: 01/01/2023]
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20
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Lee KH, Wang YF, Zhang GX, Gu JD. Distribution patterns of ammonia-oxidizing bacteria and anammox bacteria in the freshwater marsh of Honghe wetland in Northeast China. ECOTOXICOLOGY (LONDON, ENGLAND) 2014; 23:1930-1942. [PMID: 25139035 DOI: 10.1007/s10646-014-1333-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 08/09/2014] [Indexed: 06/03/2023]
Abstract
Community characteristics of aerobic ammonia-oxidizing bacteria (AOB) and anaerobic ammonium-oxidizing (anammox) bacteria in Honghe freshwater marsh, a Ramsar-designated wetland in Northeast China, were analyzed in this study. Samples were collected from surface and low layers of sediments in the Experimental, Buffer, and Core Zones in the reserve. Community structures of AOB were investigated using both 16S rRNA and amoA (encoding for the α-subunit of the ammonia monooxygenase) genes. Majority of both 16S rRNA and amoA gene-PCR amplified sequences obtained from the samples in the three zones affiliated with Nitrosospira, which agreed with other wetland studies. A relatively high richness of β-AOB amoA gene detected in the freshwater marsh might suggest minimal external pressure was experienced, providing a suitable habitat for β-AOB communities. Anammox bacteria communities were assessed using both 16S rRNA and hzo (encoding for hydrazine oxidoreductase) genes. However, PCR amplification of the hzo gene in all samples failed, suggesting that the utilization of hzo biomarker for detecting anammox bacteria in freshwater marsh might have serious limitations. Results with 16S rRNA gene showed that Candidatus Kuenenia was detected in only the Experimental Zone, whereas Ca. Scalindua including different lineages was observed in both the Buffer and Experimental Zones but not the Core Zone. These results indicated that both AOB and anammox bacteria have specific distribution patterns in the ecosystem corresponding to the extent of anthropogenic impact.
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Affiliation(s)
- Kwok-Ho Lee
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong, SAR, People's Republic of China
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21
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Melton ED, Stief P, Behrens S, Kappler A, Schmidt C. High spatial resolution of distribution and interconnections between Fe- and N-redox processes in profundal lake sediments. Environ Microbiol 2014; 16:3287-303. [DOI: 10.1111/1462-2920.12566] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2014] [Accepted: 07/05/2014] [Indexed: 11/29/2022]
Affiliation(s)
- Emily D. Melton
- Geomicrobiology; Center for Applied Geosciences; University of Tübingen; Tübingen 72076 Germany
| | - Peter Stief
- Microsensor Research Group; Max Planck Institute for Marine Microbiology; Bremen Germany
| | - Sebastian Behrens
- Geomicrobiology; Center for Applied Geosciences; University of Tübingen; Tübingen 72076 Germany
| | - Andreas Kappler
- Geomicrobiology; Center for Applied Geosciences; University of Tübingen; Tübingen 72076 Germany
| | - Caroline Schmidt
- Geomicrobiology; Center for Applied Geosciences; University of Tübingen; Tübingen 72076 Germany
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22
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Sonthiphand P, Hall MW, Neufeld JD. Biogeography of anaerobic ammonia-oxidizing (anammox) bacteria. Front Microbiol 2014; 5:399. [PMID: 25147546 PMCID: PMC4123730 DOI: 10.3389/fmicb.2014.00399] [Citation(s) in RCA: 101] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2014] [Accepted: 07/15/2014] [Indexed: 02/01/2023] Open
Abstract
Anaerobic ammonia-oxidizing (anammox) bacteria are able to oxidize ammonia and reduce nitrite to produce N2 gas. After being discovered in a wastewater treatment plant (WWTP), anammox bacteria were subsequently characterized in natural environments, including marine, estuary, freshwater, and terrestrial habitats. Although anammox bacteria play an important role in removing fixed N from both engineered and natural ecosystems, broad scale anammox bacterial distributions have not yet been summarized. The objectives of this study were to explore global distributions and diversity of anammox bacteria and to identify factors that influence their biogeography. Over 6000 anammox 16S rRNA gene sequences from the public database were analyzed in this current study. Data ordinations indicated that salinity was an important factor governing anammox bacterial distributions, with distinct populations inhabiting natural and engineered ecosystems. Gene phylogenies and rarefaction analysis demonstrated that freshwater environments and the marine water column harbored the highest and the lowest diversity of anammox bacteria, respectively. Co-occurrence network analysis indicated that Ca. Scalindua strongly connected with other Ca. Scalindua taxa, whereas Ca. Brocadia co-occurred with taxa from both known and unknown anammox genera. Our survey provides a better understanding of ecological factors affecting anammox bacterial distributions and provides a comprehensive baseline for understanding the relationships among anammox communities in global environments.
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Affiliation(s)
| | - Michael W Hall
- Department of Biology, University of Waterloo Waterloo, ON, Canada
| | - Josh D Neufeld
- Department of Biology, University of Waterloo Waterloo, ON, Canada
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Sun W, Xia C, Xu M, Guo J, Wang A, Sun G. Diversity and distribution of planktonic anaerobic ammonium-oxidizing bacteria in the Dongjiang River, China. Microbiol Res 2014; 169:897-906. [PMID: 24932882 DOI: 10.1016/j.micres.2014.05.003] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2013] [Revised: 02/16/2014] [Accepted: 05/14/2014] [Indexed: 01/21/2023]
Abstract
Anaerobic ammonium-oxidizing (anammox) process has recently been recognized as an important pathway for removing fixed nitrogen (N) from aquatic ecosystems. Anammox organisms are widely distributed in freshwater environments. However, little is known about their presence in the water column of riverine ecosystems. Here, the existence of a diverse anammox community was revealed in the water column of the Dongjiang River by analyzing 16S rRNA and hydrazine oxidation (hzo) genes of anammox bacteria. Phylogenetic analyses of hzo genes showed that Candidatus Jettenia related clades of anammox bacteria were dominant in the river, suggesting the ecological microniche distinction from freshwater/estuary and marine anammox bacteria with Ca. Brocadia and Kuenenia genera mainly detected in freshwater/estuary ecosystems, and Ca. Scalindua genus mainly detected in marine ecosystems. The abundance and diversity of anammox bacteria along the river were both significantly correlated with concentrations of NH4(+)-N based on Pearson and partial correlation analyses. Redundancy analyses showed the contents of NH4(+)-N, NO3(-)-N and the ratio of NH4(+)-N to NO2(-)-N significantly influenced the spatial distributions of anammox bacteria in the water column of the Dongjiang River. These results expanded our understanding of the distribution and potential roles of anammox bacteria in the water column of the river ecosystem.
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Affiliation(s)
- Wei Sun
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangzhou 510070, China; School of Bioscience and Bioengineering, South China University of Technology, Guangzhou 510070, China; State Key Laboratory of Applied Microbiology Southern China, Guangzhou 510070, China
| | - Chunyu Xia
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangzhou 510070, China; State Key Laboratory of Applied Microbiology Southern China, Guangzhou 510070, China
| | - Meiying Xu
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangzhou 510070, China; State Key Laboratory of Applied Microbiology Southern China, Guangzhou 510070, China.
| | - Jun Guo
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangzhou 510070, China; State Key Laboratory of Applied Microbiology Southern China, Guangzhou 510070, China
| | - Aijie Wang
- Harbin Institute of Technology, Harbin 150090, China
| | - Guoping Sun
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangzhou 510070, China; State Key Laboratory of Applied Microbiology Southern China, Guangzhou 510070, China.
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24
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Wang J, Dong H, Wang W, Gu JD. Reverse-transcriptional gene expression of anammox and ammonia-oxidizing archaea and bacteria in soybean and rice paddy soils of Northeast China. Appl Microbiol Biotechnol 2014; 98:2675-86. [PMID: 24077726 DOI: 10.1007/s00253-013-5242-x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2013] [Revised: 09/03/2013] [Accepted: 09/06/2013] [Indexed: 10/26/2022]
Abstract
The relative gene expression of hydrazine oxidoreductase encoding gene (hzo) for anaerobic ammonium oxidizing bacteria (anammox) and ammonia monooxygenase encoding gene (amoA) for both ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB) in Sanjiang Plain soybean and rice paddy soils of Northeast China was investigated by using real-time reverse-transcriptional quantitative PCR. Metabolically active populations of anammox, AOA, and AOB in rice paddy soils were evident by the presence and successful quantification of hzo mRNA and amoA mRNA genes. The expression ratio of amoA gene for both AOA and AOB varied between soybean soils and different rice paddy soils while the expression of hzo gene for anammox was detectable only in rice paddy soils by showing a diverse relative expression ratio in each soil sample. Gene expression of both archaeal and bacterial amoA genes in rice paddy soils differed among the three sampling depths, but that of hzo was not. Both archaeal and bacterial amoA genes showed an increase trend of expression level with continuation of rice paddy cultivation, but the low expression ratio of hzo gene indicated a relatively small contribution of anammox in overall removal of inorganic nitrogen through N2 even under anoxic and high nitrogen input in agriculture. Bacterial amoA gene from two soybean fields and three rice paddy fields were also analyzed for community composition by denaturing gradient gel electrophoresis fingerprint. Community shift was observed between soybean and paddy fields and within each of them. The consistent occurrence of three bands 5, 6, and 7 in all samples showed their high adaptability for both arid cultivation and continuous rice paddy cultivation. Our data suggest that AOA and AOB are playing a more important role in nitrogen transformation in agricultural soils in oxic or anoxic environment and anammox bacteria may also contribute but in a less extent to N transformation in these agricultural soils under anoxic condition.
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The increasing interest of ANAMMOX research in China: bacteria, process development, and application. BIOMED RESEARCH INTERNATIONAL 2013; 2013:134914. [PMID: 24381935 PMCID: PMC3870099 DOI: 10.1155/2013/134914] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/20/2013] [Accepted: 10/19/2013] [Indexed: 01/14/2023]
Abstract
Nitrogen pollution created severe environmental problems and increasingly has become an important issue in China. Since the first discovery of ANAMMOX in the early 1990s, this related technology has become a promising as well as sustainable bioprocess for treating strong nitrogenous wastewater. Many Chinese research groups have concentrated their efforts on the ANAMMOX research including bacteria, process development, and application during the past 20 years. A series of new and outstanding outcomes including the discovery of new ANAMMOX bacterial species (Brocadia sinica), sulfate-dependent ANAMMOX bacteria (Anammoxoglobus sulfate and Bacillus benzoevorans), and the highest nitrogen removal performance (74.3–76.7 kg-N/m3/d) in lab scale granule-based UASB reactors around the world were achieved. The characteristics, structure, packing pattern and floatation mechanism of the high-rate ANAMMOX granules in ANAMMOX reactors were also carefully illustrated by native researchers. Nowadays, some pilot and full-scale ANAMMOX reactors were constructed to treat different types of ammonium-rich wastewater including monosodium glutamate wastewater, pharmaceutical wastewater, and leachate. The prime objective of the present review is to elucidate the ongoing ANAMMOX research in China from lab scale to full scale applications, comparative analysis, and evaluation of significant findings and to set a design to usher ANAMMOX research in culmination.
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26
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Wang YF, Gu JD. Effects of allylthiourea, salinity, and pH on ammonia/ammonium-oxidizing prokaryotes in mangrove sediment incubated in laboratory microcosms. Appl Microbiol Biotechnol 2013; 98:3257-74. [DOI: 10.1007/s00253-013-5399-3] [Citation(s) in RCA: 62] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2013] [Revised: 11/02/2013] [Accepted: 11/09/2013] [Indexed: 10/26/2022]
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Sun W, Xu MY, Wu WM, Guo J, Xia CY, Sun GP, Wang AJ. Molecular diversity and distribution of anammox community in sediments of the Dongjiang River, a drinking water source of Hong Kong. J Appl Microbiol 2013; 116:464-76. [DOI: 10.1111/jam.12367] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2013] [Revised: 09/21/2013] [Accepted: 10/08/2013] [Indexed: 11/27/2022]
Affiliation(s)
- W. Sun
- School of Bioscience and Bioengineering; South China University of Technology; Guangzhou China
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application; Guangdong Institute of Microbiology; Guangzhou China
- State Key Laboratory of Applied Microbiology (Ministry-Guangdong Province Jointly Breeding Base), South China; Guangzhou China
| | - M.-Y. Xu
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application; Guangdong Institute of Microbiology; Guangzhou China
- State Key Laboratory of Applied Microbiology (Ministry-Guangdong Province Jointly Breeding Base), South China; Guangzhou China
| | - W.-M. Wu
- Department of Civil & Environmental Engineering; Center for Sustainable Development & Global Competitiveness; Stanford University; Stanford CA USA
| | - J. Guo
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application; Guangdong Institute of Microbiology; Guangzhou China
- State Key Laboratory of Applied Microbiology (Ministry-Guangdong Province Jointly Breeding Base), South China; Guangzhou China
| | - C.-Y. Xia
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application; Guangdong Institute of Microbiology; Guangzhou China
- State Key Laboratory of Applied Microbiology (Ministry-Guangdong Province Jointly Breeding Base), South China; Guangzhou China
| | - G.-P. Sun
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application; Guangdong Institute of Microbiology; Guangzhou China
- State Key Laboratory of Applied Microbiology (Ministry-Guangdong Province Jointly Breeding Base), South China; Guangzhou China
| | - A.-J. Wang
- Harbin Institute of Technology; Harbin China
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Han P, Huang YT, Lin JG, Gu JD. A comparison of two 16S rRNA gene-based PCR primer sets in unraveling anammox bacteria from different environmental samples. Appl Microbiol Biotechnol 2013; 97:10521-9. [PMID: 24177731 DOI: 10.1007/s00253-013-5305-z] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2013] [Revised: 09/27/2013] [Accepted: 09/30/2013] [Indexed: 10/26/2022]
Abstract
Two 16S rRNA gene-based PCR primer sets (Brod541F/Amx820R and A438f/A684r) for detecting anammox bacteria were compared using sediments from Mai Po wetlands (MP), the South China Sea (SCS), a freshwater reservoir (R2), and sludge granules from a wastewater treatment plant (A2). By comparing their ability in profiling anammox bacteria, the recovered diversity, community structure, and abundance of anammox bacteria among all these diverse samples indicated that A438f/A684r performed better than Brod541F/Amx820R in retrieving anammox bacteria from these different environmental samples. Five Scalindua subclusters (zhenghei-I, SCS-I, SCS-III, arabica, and brodae) dominated in SCS whereas two Scalindua subclusters (zhenghei-II and wagneri) and one cluster of Kuenenia dominated in MP. R2 showed a higher diversity of anammox bacteria with two new retrieved clusters (R2-New-1 and R2-New-2), which deserves further detailed study. The dominance of Brocadia in sample A2 was supported by both of the primer sets used. Results collectively indicate strongly niche-specific community structures of anammox bacteria in different environments, and A438f/A684r is highly recommended for screening anammox bacteria from various environments when dealing with a collection of samples with diverse physiochemical characteristics.
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Affiliation(s)
- Ping Han
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong SAR, Hong Kong, People's Republic of China
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Wang YF, Li XY, Gu JD. Differential responses of ammonia/ammonium-oxidizing microorganisms in mangrove sediment to amendment of acetate and leaf litter. Appl Microbiol Biotechnol 2013; 98:3165-80. [PMID: 24169949 DOI: 10.1007/s00253-013-5318-7] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2013] [Accepted: 10/03/2013] [Indexed: 02/07/2023]
Abstract
The effects of acetate and leaf litter powder on ammonia/ammonium-oxidizing microorganisms (AOMs) in mangrove sediment were investigated in a laboratory incubation study for a period of 60 days. The results showed that different AOMs responded differently to the addition of acetate and leaf litter. A higher diversity of anaerobic ammonium-oxidizing (anammox) bacteria was observed when acetate or leaf litter was added than the control. However, acetate and leaf litter generally inhibited the growth of anammox bacteria despite that leaf litter promoted their growth in the first 5 days. The inhibitory effects on anammox bacteria were more pronounced by acetate than by leaf litter. Neither acetate nor leaf litter affected ammonia-oxidizing archaea (AOA) community structures, but promoted their growth. For ammonia-oxidizing bacteria (AOB), the addition of acetate or leaf litter resulted in changes of community structures and promoted their growth in the early phase of the incubation. In addition, the promoting effects by leaf litter on AOB growth were more obvious than acetate. These results indicated that organic substances affect AOM community structures and abundances. The study suggests that leaf litter has an important influence on the community structures and abundances of AOMs in mangrove sediment and affects the nitrogen cycle in such ecosystem.
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Affiliation(s)
- Yong-Feng Wang
- Laboratory of Microbial Ecology, Guangdong Academy of Forestry, No. 233, Guangshan 1st Road, Guangzhou, People's Republic of China
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A newly designed degenerate PCR primer based on pmoA gene for detection of nitrite-dependent anaerobic methane-oxidizing bacteria from different ecological niches. Appl Microbiol Biotechnol 2013; 97:10155-62. [PMID: 24201910 DOI: 10.1007/s00253-013-5260-8] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2013] [Revised: 09/10/2013] [Accepted: 09/11/2013] [Indexed: 10/26/2022]
Abstract
A new pmoA gene-based PCR primer set was designed for detection of nitrite-dependent anaerobic oxidation of methane (n-damo) bacteria from four different ecosystems, namely rice paddy soil, freshwater reservoir, reed bed, and sludge from wastewater treatment plant. This primer set showed high specificity and efficiency in recovering n-damo bacteria from these diverse samples. The obtained sequences showed 88-94 and 90-96% similarity to nucleotide and amino acid sequences, respectively, with the known NC10 phylum bacterium. According to the UniFrac principal coordinates analysis (PCoA), DNA sequences retrieved by the new PCR primer set in this study formed a separate group from the reported sequences, indicating higher diversity of n-damo in the environment. This newly designed PCR primer is capable of amplifying not only the currently known n-damo bacteria but also those that have not been reported, providing new information on the ecological diversity and distribution of this group of microorganisms in the ecosystem.
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