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Zhang D, Yu H, Yang Y, Liu F, Li M, Huang J, Yu Y, Wang C, Jiang F, He Z, Yan Q. Ecological interactions and the underlying mechanism of anammox and denitrification across the anammox enrichment with eutrophic lake sediments. MICROBIOME 2023; 11:82. [PMID: 37081531 PMCID: PMC10116762 DOI: 10.1186/s40168-023-01532-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/06/2022] [Accepted: 03/22/2023] [Indexed: 05/03/2023]
Abstract
BACKGROUND Increasing attention has recently been devoted to the anaerobic ammonium oxidation (anammox) in eutrophic lakes due to its potential key functions in nitrogen (N) removal for eutrophication control. However, successful enrichment of anammox bacteria from lake sediments is still challenging, partly due to the ecological interactions between anammox and denitrifying bacteria across such enrichment with lake sediments remain unclear. RESULTS This study thus designed to fill such knowledge gaps using bioreactors to enrich anammox bacteria with eutrophic lake sediments for more than 365 days. We continuously monitored the influent and effluent water, measured the anammox and denitrification efficiencies, quantified the anammox and denitrifying bacteria, as well as the related N cycling genes. We found that the maximum removal efficiencies of NH4+ and NO2- reached up to 85.92% and 95.34%, respectively. Accordingly, the diversity of anammox and denitrifying bacteria decreased significantly across the enrichment, and the relative dominant anammox (e.g., Candidatus Jettenia) and denitrifying bacteria (e.g., Thauera, Afipia) shifted considerably. The ecological cooperation between anammox and denitrifying bacteria tended to increase the microbial community stability, indicating a potential coupling between anammox and denitrifying bacteria. Moreover, the nirS-type denitrifiers showed stronger coupling with anammox bacteria than that of nirK-type denitrifiers during the enrichment. Functional potentials as depicted by metagenome sequencing confirmed the ecological interactions between anammox and denitrification. Metagenome-assembled genomes-based ecological model indicated that the most dominant denitrifiers could provide various materials such as amino acid, cofactors, and vitamin for anammox bacteria. Cross-feeding in anammox and denitrifying bacteria highlights the importance of microbial interactions for increasing the anammox N removal in eutrophic lakes. CONCLUSIONS This study greatly expands our understanding of cooperation mechanisms among anammox and denitrifying bacteria during the anammox enrichment with eutrophic lake sediments, which sheds new insights into N removal for controlling lake eutrophication. Video Abstract.
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Affiliation(s)
- Dandan Zhang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
| | - Huang Yu
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
| | - Yuchun Yang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
| | - Fei Liu
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
| | - Mingyue Li
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
| | - Jie Huang
- Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072 China
| | - Yuhe Yu
- Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072 China
| | - Cheng Wang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
| | - Feng Jiang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
| | - Zhili He
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
| | - Qingyun Yan
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-Sen University, Guangzhou, 510006 China
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Zhang D, Li M, Yang Y, Yu H, Xiao F, Mao C, Huang J, Yu Y, Wang Y, Wu B, Wang C, Shu L, He Z, Yan Q. Nitrite and nitrate reduction drive sediment microbial nitrogen cycling in a eutrophic lake. WATER RESEARCH 2022; 220:118637. [PMID: 35617789 DOI: 10.1016/j.watres.2022.118637] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Revised: 05/16/2022] [Accepted: 05/17/2022] [Indexed: 05/05/2023]
Abstract
The anaerobic microbial nitrogen (N) removal in lake sediments is one of the most important processes driving the nitrogen cycling in lake ecosystems. However, the N removal and its underlying mechanisms regulated by denitrifying and anaerobic ammonia oxidation (anammox) bacteria in lake sediments remain poorly understood. With the field sediments collected from different areas of Lake Donghu (a shallow eutrophic lake), we examined the denitrifying and anammox bacterial communities by sequencing the nirS/K and hzsB genes, respectively. The results indicated that denitrifiers in sediments were affiliated to nine clusters, which are involved in both heterotrophic and autotrophic denitrification. However, anammox bacteria were only dominated by Candidatus Brocadia. We found that NO3- and NO2- concentrations, as well as Nar enzyme activity were the key factors affecting denitrifying and anammox communities in this eutrophic lake. The enrichment experiments in bioreactors confirmed the divergence of denitrification and anammox rates with an additional complement of NO2-, especially under a condition low nitrate reductase activity. The coupled denitrification and anammox may play significant roles in N removal, and the availability of electronic acceptors (i.e., NO2- and NO3-) strongly influenced the N loss in lake sediments. Further path analysis indicated that NO2-, NO3- and some N-related enzymes were the key factors affecting microbial N removal in lake sediments. This study advances our understanding of the mechanisms driving the of denitrification and anammox in lake sediments, which also provides new insights into coupled denitrification-anammox N removal in eutrophic lake ecosystems.
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Affiliation(s)
- Dandan Zhang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Mingyue Li
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Yuchun Yang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Huang Yu
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Fanshu Xiao
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China; Center for Precision Medicine, Guangdong Provincial People's Hospital, Guangdong Academy of Medical Sciences, Guangzhou 510080, China
| | - Chengzhi Mao
- Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Jie Huang
- Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Yuhe Yu
- Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Yunfeng Wang
- Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China; Institute of Evolution & Marine Biodiversity, College of Fisheries, Ocean University of China, Qingdao 266003, China
| | - Bo Wu
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Cheng Wang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Longfei Shu
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Zhili He
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China; College of Agronomy, Hunan Agricultural University, Changsha 410128, China
| | - Qingyun Yan
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, School of Ecology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China.
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Oshiki M, Gao L, Zhang L, Okabe S. NH 2OH Disproportionation Mediated by Anaerobic Ammonium-oxidizing (Anammox) Bacteria. Microbes Environ 2022; 37. [PMID: 35418545 PMCID: PMC9530737 DOI: 10.1264/jsme2.me21092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Anammox bacteria produce N2 gas by oxidizing NH4+ with NO2–, and hydroxylamine (NH2OH) is a potential intermediate of the anammox process. N2 gas production occurs when anammox bacteria are incubated with NH2OH only, indicating their capacity for NH2OH disproportionation with NH2OH serving as both the electron donor and acceptor. Limited information is currently available on NH2OH disproportionation by anammox bacteria; therefore, the stoichiometry of anammox bacterial NH2OH disproportionation was examined in the present study using 15N-tracing techniques. The anammox bacteria, Brocadia sinica, Jettenia caeni, and Scalindua sp. were incubated with the addition of 15NH2OH, and the production of 15N-labeled nitrogenous compounds was assessed. The anammox bacteria tested performed NH2OH disproportionation and produced 15-15N2 gas and NH4+ as reaction products. The addition of acetylene, an inhibitor of the anammox process, reduced the activity of NH2OH disproportionation, but not completely. The growth of B. sinica by NH2OH disproportionation (–240.3 kJ mol NH2OH–1 under standard conditions) was also tested in 3 up-flow column anammox reactors fed with 1) 0.7 mM NH2OH only, 2) 0.7 mM NH2OH and 0.5 mM NH4+, and 3) 0.7 mM NH2OH and 0.5 mM NO2–. NH2OH consumption activities were markedly reduced after 7 d of operation, indicating that B. sinica was unable to maintain its activity or biomass by NH2OH disproportionation.
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Affiliation(s)
- Mamoru Oshiki
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University
| | - Lin Gao
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University
| | - Lei Zhang
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University
| | - Satoshi Okabe
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University
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Oshiki M, Toyama Y, Suenaga T, Terada A, Kasahara Y, Yamaguchi T, Araki N. N 2O Reduction by Gemmatimonas aurantiaca and Potential Involvement of Gemmatimonadetes Bacteria in N 2O Reduction in Agricultural Soils. Microbes Environ 2022; 37. [PMID: 35418546 PMCID: PMC9530729 DOI: 10.1264/jsme2.me21090] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Agricultural soil is the primary N2O sink limiting the emission of N2O gas into the atmosphere. Although Gemmatimonadetes bacteria are abundant in agricultural soils, limited information is currently available on N2O reduction by Gemmatimonadetes bacteria. Therefore, the effects of pH and temperature on N2O reduction activities and affinity constants for N2O reduction were examined by performing batch experiments using an isolate of Gemmatimonadetes bacteria, Gemmatimonas aurantiaca (NBRC100505T). G. aurantiaca reduced N2O at pH 5–9 and 4–50°C, with the highest activity being observed at pH 7 and 30°C. The affinity constant of G. aurantiaca cells for N2O was 4.4 μM. The abundance and diversity of the Gemmatimonadetes 16S rRNA gene and nosZ encoding nitrous oxide reductase in agricultural soil samples were also investigated by quantitative PCR (qPCR) and amplicon sequencing analyses. Four N2O-reducing agricultural soil samples were assessed, and the copy numbers of the Gemmatimonadetes 16S rRNA gene (clades G1 and G3), nosZ DNA, and nosZ mRNA were 8.62–9.65×108, 5.35–7.15×108, and 2.23–4.31×109 copies (g dry soil)–1, respectively. The abundance of the nosZ mRNA of Gemmatimonadetes bacteria and OTU91, OUT332, and OTU122 correlated with the N2O reduction rates of the soil samples tested, suggesting N2O reduction by Gemmatimonadetes bacteria. Gemmatimonadetes 16S rRNA gene reads affiliated with OTU4572 and OTU3759 were predominant among the soil samples examined, and these Gemmatimonadetes OTUs have been identified in various types of soil samples.
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Affiliation(s)
- Mamoru Oshiki
- Department of Civil Engineering, National Institute of Technology, Nagaoka College.,Division of Environmental Engineering, Faculty of Engineering, Hokkaido University
| | - Yuka Toyama
- Department of Civil Engineering, National Institute of Technology, Nagaoka College
| | | | - Akihiko Terada
- Department of Applied Physics and Chemical Engineering, Tokyo University of Agriculture and Technology
| | | | - Takashi Yamaguchi
- Department of Science of Technology Innovation, Nagaoka University of Technology
| | - Nobuo Araki
- Department of Civil Engineering, National Institute of Technology, Nagaoka College
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Determination of 15N/ 14N of Ammonium, Nitrite, Nitrate, Hydroxylamine, and Hydrazine Using Colorimetric Reagents and Matrix-Assisted Laser Desorption Ionization-Time-of-Flight Mass Spectrometry (MALDI-TOF MS). Appl Environ Microbiol 2022; 88:e0241621. [PMID: 35285242 DOI: 10.1128/aem.02416-21] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
In the nitrogen (N) cycle, nitrogenous compounds are chemically and biologically converted to various aqueous and gaseous N species. The 15N-labeling approach is a powerful culture-dependent technique to obtain insights into the complex nitrogen transformation reactions that occur in cultures. In the 15N-labeling approach, the fates of supplemented 15N- and/or unlabeled gaseous and aqueous compounds are tracked by mass spectrometry (MS) analysis, whereas MS analysis of aqueous N species requires laborious sample preparation steps and is performed using isotope-ratio mass spectrometry, which requires an expensive mass spectrometer. We developed a simple and high-throughput MS method for determining the 15N atoms percent of NH4+, NO2-, NO3-, NH2OH, and N2H4, where liquid samples (<0.5 mL) were mixed with colorimetric reagents (naphthylethylenediamine for NO2-, indophenol for NH4+, and p-aminobenzaldehyde for N2H4), and the mass spectra of the formed N complex dyes were obtained by matrix-assisted laser desorption ionization-time-of-flight (MALDI-TOF) MS. NH2OH and NO3- were chemically converted to NO2- by iodine oxidation and copper/hydrazine reduction reaction, respectively, prior to the above colorimetric reaction. The intensity of the isotope peak (M + 1 or M + 2) increased when the N complex dye was formed by coupling with a 15N-labeled compound, and a linear relationship was found between the determined 15N/14N peak ratio and 15N atom% for the tested N species. The developed method was applied to bacterial cultures to examine their N-transformation reactions, enabling us to observe the occurrence of NO2- oxidation and NO3- reduction in a hypoxic Nitrobacter winogradskyi culture. IMPORTANCE 15N/14N analysis for aqueous N species is a powerful tool for obtaining insights into the global N cycle, but the procedure is cumbersome and laborious. The combined use of colorimetric reagents and MALDI-TOF MS, designated color MALDI-TOF MS, enabled us to determine the 15N atom% of common aqueous N species without laborious sample preparation and chromatographic separation steps; for instance, the 15N atom% of NO2- can be determined from >1,000 liquid samples daily at <$1 (U.S.) per 384 samples for routine analysis. This convenient MS method is a powerful tool that will advance our ability to explore the N-transformation reactions that occur in various environments and biological samples.
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Liu L, Lv AP, Narsing Rao MP, Ming YZ, Salam N, Li MM, Liu ZT, Zhang XT, Zhang JY, Xian WD, Jiao JY, Li WJ. Diversity and Distribution of Anaerobic Ammonium Oxidation Bacteria in Hot Springs of Conghua, China. Front Microbiol 2022; 12:739234. [PMID: 35145488 PMCID: PMC8822059 DOI: 10.3389/fmicb.2021.739234] [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: 07/10/2021] [Accepted: 12/07/2021] [Indexed: 11/13/2022] Open
Abstract
Anaerobic ammonium oxidation (anammox) is an important process of the nitrogen cycle, and the anammox bacteria have been studied in a wide variety of environments. However, the distribution, diversity, and abundance of anammox bacteria in hot springs remain enigmatic. In this study, the anammox process was firstly investigated in hot springs of Conghua, China. Anammox-like bacterial sequences that closely affiliated to “Candidatus Brocadia,” “Candidatus Kuenenia,” “Candidatus Scalindua,” “Candidatus Anammoxoglobus,” and “Candidatus Jettenia” were detected. Several operational taxonomic units (OTUs) from this study shared low sequence identities to the 16S rRNA gene of the known anammox bacteria, suggesting that they might be representing putative novel anammox bacteria. A quantitative PCR analysis of anammox-specific 16S rRNA gene confirmed that the abundance of anammox bacteria ranged from 1.60 × 104 to 1.20 × 107 copies L–1. Nitrate was a key environmental factor defining the geographical distribution of the anammox bacterial community in the hot spring ecosystem. Dissolved inorganic carbon had a significant influence on anammox bacterial biodiversity. Our findings for the first time revealed that the diverse anammox bacteria, including putative novel anammox bacterial candidates, were present in Conghua hot spring, which extended the existence of anammox bacteria to the hot springs in China and expands our knowledge of the biogeography of anammox bacteria. This work filled up the research lacuna of anammox bacteria in Chinese hot spring habitat and would guide for enrichment strategies of anammox bacteria of Conghua hot springs.
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Affiliation(s)
- Lan Liu
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Ai-Ping Lv
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Manik Prabhu Narsing Rao
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Yu-Zhen Ming
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Nimaichand Salam
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Meng-Meng Li
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Ze-Tao Liu
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Xiao-Tong Zhang
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Jing-Yi Zhang
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Wen-Dong Xian
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | - Jian-Yu Jiao
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
- Jian-Yu Jiao,
| | - Wen-Jun Li
- State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Ürümqi, China
- *Correspondence: Wen-Jun Li,
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Ishimoto C, Waki M, Soda S. Adaptation of anammox granules in swine wastewater treatment to low temperatures at a full-scale simultaneous partial nitrification, anammox, and denitrification plant. CHEMOSPHERE 2021; 282:131027. [PMID: 34098308 DOI: 10.1016/j.chemosphere.2021.131027] [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: 02/08/2021] [Revised: 05/13/2021] [Accepted: 05/23/2021] [Indexed: 06/12/2023]
Abstract
In the anammox process, maintaining a high anammox activity at low water temperatures for stable nitrogen removal is a challenge. In this study, to verify the adaptability of anammox to low water temperatures, we investigated effects of annual temperature fluctuations on nitrogen removal in a full-scale swine wastewater treatment plant, where anammox bacteria accumulated. Annual quarters were defined as L-1 (November-January), L-2 (February-April), H-1 (April-July), and H-2 (July-October). The total nitrogen removal rate was stable at 0.08-0.11 kg-N/m3/d, even during temperature fluctuations. Removal efficiencies of biochemical oxygen demand and total nitrogen were consistently high at 95-99% and 69-81%, respectively. The anammox activity and abundance of anammox bacteria were highest in granule L-1 and lowest in granule H-2. The optimal temperature for anammox activity shifted from 35 °C in granules H-1 and H-2 to 30 °C in granules L-1 and L-2, while the latter maintained a moderate activity compared to the former at low temperature. Candidatus Jettenia asiatica was predominant, especially in granule L-2, accounting for up to 54% of the microbial community composition at the genus level. The high specific anammox activity in granule L-2 was considered to be due to the abundance of anammox bacteria and the adaptation of Ca. Jettenia asiatica to low temperature. The anammox granules adapted well to low temperatures and demonstrated high efficiency in the simultaneous partial nitrification anammox and denitrification process without heating. Thus, constructing an energy-saving and cost-effective nitrogen removal system can be considered.
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Affiliation(s)
- Chikako Ishimoto
- Shizuoka Prefectural Research Institute of Animal Industry, Swine & Poultry Research Center, 2780 Nishikata, Kikugawa, Shizuoka, 439-0037, Japan.
| | - Miyoko Waki
- National Agriculture and Food Research Organization (NARO), Institute of Livestock and Grassland Science, Animal Waste Management and Environment Research Division, 2 Ikenodai, Tsukuba, Ibaraki, 305-0901, Japan.
| | - Satoshi Soda
- College of Science and Engineering, Ritsumeikan University, 1-1-1 Noji-higashi, Kusatsu, Shiga, 525-8577, Japan.
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Xu Y, Lu J, Huang S, Zhao J. Submerged plants alleviated the impacts of increased ammonium pollution on anammox bacteria and nirS denitrifiers in the rhizosphere. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:58755-58767. [PMID: 34120278 DOI: 10.1007/s11356-021-14715-7] [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] [Received: 02/19/2021] [Accepted: 05/31/2021] [Indexed: 06/12/2023]
Abstract
Excess nitrogen input into water bodies can cause eutrophication and affect the community structure and abundance of the nitrogen-transforming microorganisms; thus, it is essential to remove nitrogen from eutrophic water bodies. Aquatic plants can facilitate the growth of rhizosphere microorganisms. This study investigated the impact of ammonium pollution on the anammox and denitrifying bacteria in the rhizosphere of a cultivated submerged macrophyte, Potamogeton crispus (P. crispus) by adding three different concentrations of slow-release urea (0, 400, 600 mg per kg sediment) to the sediment to simulate different levels of nitrogen pollution in the lake. Results showed that the ammonium concentrations in the interstitial water under three pollution treatments were significantly different, but the nitrate concentration remained stable. The abundance of anammox 16S rRNA and nitrite reductase (nirS) gene in rhizosphere sediments exhibited no significant differences under the three pollution conditions. The increase in the nitrogen pollution levels did not significantly affect the growth of anammox bacteria and nirS denitrifying bacteria (denitrifiers). The change trend of the abundance ratio of (anammox 16S rRNA)/nirS in different nitrogen treatment groups on the same sampling date was very close, indicating that this ratio was not affected by ammonium pollution levels when P. crispus existed. The redundancy analysis showed that there was a positive correlation between the abundance of anammox 16S rRNA and nirS gene and that the abundance of these bacteria was significantly affected by the mole ratio of NH4+/NO3-. This study reveals that submerged plants weaken the environmental changes caused by ammonia pollution in the rhizosphere, thereby avoiding strong fluctuation of anammox bacteria and nirS denitrifiers.
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Affiliation(s)
- Yangfan Xu
- Research and Development Center of Transport Industry of Intelligent Manufacturing Technologies of Transport Infrastructure, Wuhan, 430040, China
- Key Laboratory of Large-span Bridge Construction Technology, Wuhan, 430040, China
- CCCC Second Harbor Engineering Company Ltd., Wuhan, 430040, China
| | - Jing Lu
- Australian Rivers Institute, Griffith University, QLD, Nathan, 4111, Australia
| | - Shanshan Huang
- Laboratory of Eco-Environmental Engineering Research, Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, Huazhong Agricultural University, No.1, Shizishan Street, Hongshan District, Wuhan, 430070, Hubei Province, China
| | - Jianwei Zhao
- Laboratory of Eco-Environmental Engineering Research, Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, Huazhong Agricultural University, No.1, Shizishan Street, Hongshan District, Wuhan, 430070, Hubei Province, China.
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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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10
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Zheng Y, Hou L, Zhang Z, Ge J, Li M, Yin G, Han P, Dong H, Liang X, Gao J, Gao D, Liu M. Overlooked contribution of water column to nitrogen removal in estuarine turbidity maximum zone (TMZ). THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 788:147736. [PMID: 34020087 DOI: 10.1016/j.scitotenv.2021.147736] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2021] [Revised: 05/06/2021] [Accepted: 05/07/2021] [Indexed: 06/12/2023]
Abstract
Estuarine systems are important sites of eliminating reactive nitrogen (N) delivered from land to sea. Numerous studies have focused on N cycling in estuarine sediment. However, the N elimination role of suspended sediments in estuarine turbid water column, which might provide anaerobic microenvironment for N loss, is rarely considered. This study examined the community dynamics and activities of denitrifying and anaerobic ammonium oxidation (anammox) bacteria in the water column of the turbidity maximum zone (TMZ) of the Yangtze Estuary, using molecular and 15N isotope-tracing techniques. Results showed that the anammox bacterial community was dominated by Candidatus Kuenenia and Candidatus Brocadia in the TMZ water column, while the main nirS-harboring denitrifiers were affiliated with Rhodobacterales. The denitrifying nirS gene was two orders of magnitude more abundant than anammox bacterial 16S rRNA gene, ranging from 1.77 × 105 to 1.42 × 108 copies l-1 and from 7.68 × 104 to 4.27 × 106 copies l-1, respectively. Compared with anammox, denitrification, with rates of 0.88 to 20.83 μmol N l-1 d-1, overwhelmingly dominated the N removal in the TMZ water column and was significantly correlated to suspended sediment concentrations (SSC). Based on the measured N removal rates, it was estimated that about 2.5 × 105 ton N was annually removed from the TMZ water column, accounting for approximately 18.5% of the total inorganic N (TIN) discharged from the Yangtze River. Overall, this study implies the importance of estuarine turbid water column in controlling N budget, and also improves the understanding of N loss mechanisms in estuarine TMZ systems.
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Affiliation(s)
- Yanling Zheng
- School of Geographic Sciences, East China Normal University, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, Shanghai 200241, China; State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Lijun Hou
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China.
| | - Zongxiao Zhang
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Jianzhong Ge
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Maotian Li
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Guoyu Yin
- School of Geographic Sciences, East China Normal University, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, Shanghai 200241, China
| | - Ping Han
- School of Geographic Sciences, East China Normal University, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, Shanghai 200241, China; State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Hongpo Dong
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Xia Liang
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Juan Gao
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Dengzhou Gao
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai 200241, China
| | - Min Liu
- School of Geographic Sciences, East China Normal University, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, Shanghai 200241, China
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11
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Okubo T, Toyoda A, Fukuhara K, Uchiyama I, Harigaya Y, Kuroiwa M, Suzuki T, Murakami Y, Suwa Y, Takami H. The physiological potential of anammox bacteria as revealed by their core genome structure. DNA Res 2021; 28:6046978. [PMID: 33367889 PMCID: PMC7814187 DOI: 10.1093/dnares/dsaa028] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Accepted: 12/04/2020] [Indexed: 01/25/2023] Open
Abstract
We present here the second complete genome of anaerobic ammonium oxidation (anammox) bacterium, Candidatus (Ca.) Brocadia pituitae, along with those of a nitrite oxidizer and two incomplete denitrifiers from the anammox bacterial community (ABC) metagenome. Although NO2− reduction to NO is considered to be the first step in anammox, Ca. B. pituitae lacks nitrite reductase genes (nirK and nirS) responsible for this reaction. Comparative genomics of Ca. B. pituitae with Ca. Kuenenia stuttgartiensis and six other anammox bacteria with nearly complete genomes revealed that their core genome structure contains 1,152 syntenic orthologues. But nitrite reductase genes were absent from the core, whereas two other Brocadia species possess nirK and these genes were horizontally acquired from multiple lineages. In contrast, at least five paralogous hydroxylamine oxidoreductase genes containing candidate ones (hao2 and hao3) encoding another nitrite reductase were observed in the core. Indeed, these two genes were also significantly expressed in Ca. B. pituitae as in other anammox bacteria. Because many nirS and nirK genes have been detected in the ABC metagenome, Ca. B. pituitae presumably utilises not only NO supplied by the ABC members but also NO and/or NH2OH by self-production for anammox metabolism.
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Affiliation(s)
- Takashi Okubo
- Marine Microbiology, Atmosphere and Ocean Research Institute, The University of Tokyo, Kashiwa 277-8564, Japan
| | - Atsushi Toyoda
- Comparative Genomics Laboratory, National Institute of Genetics, Mishima 411-8540, Japan
| | - Kohei Fukuhara
- Department of Biological Sciences, Chuo University, Bunkyo, Tokyo 112-8851, Japan
| | - Ikuo Uchiyama
- Laboratory of Genome Informatics, National Institute for Basic Biology, National Institutes of Natural Sciences, Myodaiji, Okazaki 444-8585, Japan
| | - Yuhki Harigaya
- Department of Biological Sciences, Chuo University, Bunkyo, Tokyo 112-8851, Japan
| | - Megumi Kuroiwa
- Department of Biological Sciences, Chuo University, Bunkyo, Tokyo 112-8851, Japan
| | - Takuma Suzuki
- Department of Biological Sciences, Chuo University, Bunkyo, Tokyo 112-8851, Japan
| | - Yuka Murakami
- Department of Biological Sciences, Chuo University, Bunkyo, Tokyo 112-8851, Japan
| | - Yuichi Suwa
- Department of Biological Sciences, Chuo University, Bunkyo, Tokyo 112-8851, Japan
| | - Hideto Takami
- Marine Microbiology, Atmosphere and Ocean Research Institute, The University of Tokyo, Kashiwa 277-8564, Japan
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12
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An Analysis of Operation Conditions and Microbial Characteristics in Swine Wastewater Treatment Plants with Spontaneously Enriched Anammox Bacteria. Processes (Basel) 2021. [DOI: 10.3390/pr9061010] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
The spontaneous enrichment of anammox bacteria has been reported in swine wastewater treatment facilities. However, their causative conditions and microbial characteristics, which this study aims to explain, are poorly understood. We discovered eight treatment facilities where the collected red biofilms exhibited high anammox activity levels at 57–843 µmol-N2/g-ignition loss (IL)/h and anammox DNA concentrations of 4.3 × 108–1.6 × 1012 copies/g-IL. The facilities used various wastewater treatment methods—six of them employed a multi-stage continuous reactor, whereas aeration tanks were continuously aerated at another combination of six facilities. Levels of dissolved oxygen (DO) in these tanks were fairly low at ≤1 mg/L. Pyrosequencing of the biofilms indicated the presence of 3–62.5% Planctomycetes, and the dominant anammox in each biofilm comprised three operational taxonomic units (OTUs) similar to Candidatus Jettenia asiatica, Ca. Brocadia fulgida, and Ca. B. caroliniensis. This suggested that some particular species of anammox bacteria naturally thrive when operating a swine wastewater treatment facility at low DO levels. The frequent enrichment of anammox biofilms at the sampled sites indicated that these treatment facilities were good seed sources of anammox; therefore, anammox treatment would be a viable method for the removal of nitrogen from swine wastewater.
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13
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Dos Santos CED, Costa RB, Rabelo CABS, Ferraz Júnior ADN, Persinoti GF, Pozzi E, Foresti E, Damianovic MHRZ. Hacking biofilm developed in a structured-bed reactor (SBRRIA) with integrated processes of nitrogen and organic matter removal. Bioprocess Biosyst Eng 2021; 44:1841-1851. [PMID: 33864127 DOI: 10.1007/s00449-021-02564-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Accepted: 03/29/2021] [Indexed: 12/01/2022]
Abstract
Biomass samples from a structured-bed reactor subjected to recirculation and intermittent aeration (SBRRIA) were analyzed to investigate the bacterial community shift along with the changes in the C/N ratio. The C/N ratios tested were 7.6 ± 1.0 (LNC) and 2.9 ± 0.4 (HNC). The massive sequencing analyses revealed that the microbial community adjusted itself to different organic and nitrogenous applied loads, with no harm to reactor performance regarding COD and Total-N removal. Under LNC, conventional nitrification and heterotrophic denitrification steered the process, as indicated by the detection of microorganisms affiliated with Nitrosomonadaceae, Nitrospiraceae, and Rhodocyclaceae families. However, under HNC, the C/N ratio strongly affected the microbial community, resulting in the prevalence of members of Saprospiraceae, Chitinophagaceae, Xanthomonadaceae, Comamonadaceae, Bacillaceae, and Planctomycetaceae. These families include bacteria capable of using organic matter derived from cell lysis, ammonia-oxidizers under low DO, heterotrophic nitrifiers-aerobic denitrifiers, and non-isolated strains of Anammox. The DO profile confirmed that the stratification in aerobic, anoxic, and anaerobic zones enabled the establishment of different nitrogen degradation pathways, including the Anammox.
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Affiliation(s)
- Carla Eloísa Diniz Dos Santos
- Environmental Engineering Department, Federal University of Triângulo Mineiro (UFTM), Av. Dr. Randolfo Borges Júnior 1250, Univerdecidade, Uberaba, Minas Gerais, 38064-200, Brazil. .,Biological Processes Laboratory, São Carlos School of Engineering (EESC), University of São Paulo (USP), Av. João Dagnone 1100, Santa Angelina, São Carlos, São Paulo, 13563-120, Brazil.
| | - Rachel Biancalana Costa
- Department of Biochemistry and Organic Chemistry, Institute of Chemistry, São Paulo State University (UNESP), R. Francisco Degni, 55, Araraquara, São Paulo, 14800-060, Brazil
| | - Camila Abreu Borges Silva Rabelo
- Biological Processes Laboratory, São Carlos School of Engineering (EESC), University of São Paulo (USP), Av. João Dagnone 1100, Santa Angelina, São Carlos, São Paulo, 13563-120, Brazil
| | - Antônio Djalma Nunes Ferraz Júnior
- Brazilian Biorenewables National Laboratory (LNBR/CNPEM), Rua Giuseppe Máximo Scolfaro, 10.000, Polo II de Alta Tecnologia, Campinas, São Paulo, 13083-970, Brazil.,Laboratorio de Ecología Microbiana, Departamento de Bioquímica Y Genómica Microbiana, Instituto de Investigaciones Biológicas Clemente Estable, Av. Italia 3318, Montevideo, Uruguay
| | - Gabriela Felix Persinoti
- Brazilian Biorenewables National Laboratory (LNBR/CNPEM), Rua Giuseppe Máximo Scolfaro, 10.000, Polo II de Alta Tecnologia, Campinas, São Paulo, 13083-970, Brazil
| | - Eloísa Pozzi
- Biological Processes Laboratory, São Carlos School of Engineering (EESC), University of São Paulo (USP), Av. João Dagnone 1100, Santa Angelina, São Carlos, São Paulo, 13563-120, Brazil
| | - Eugenio Foresti
- Biological Processes Laboratory, São Carlos School of Engineering (EESC), University of São Paulo (USP), Av. João Dagnone 1100, Santa Angelina, São Carlos, São Paulo, 13563-120, Brazil
| | - Márcia Helena Rissato Zamariolli Damianovic
- Biological Processes Laboratory, São Carlos School of Engineering (EESC), University of São Paulo (USP), Av. João Dagnone 1100, Santa Angelina, São Carlos, São Paulo, 13563-120, Brazil
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14
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Wang Q, Rogers MJ, Ng SS, He J. Fixed nitrogen removal mechanisms associated with sulfur cycling in tropical wetlands. WATER RESEARCH 2021; 189:116619. [PMID: 33232815 DOI: 10.1016/j.watres.2020.116619] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2020] [Revised: 10/27/2020] [Accepted: 11/06/2020] [Indexed: 06/11/2023]
Abstract
Wetland ecosystems play an important role in nitrogen cycling, yet the role of anaerobic ammonium oxidation (anammox) in tropical wetlands remains unclear. In the current study the anammox process accounted for 29.8 ~ 57.3% of nitrogen loss in ex situ activity batch tests of microcosms established from anoxic sediments of different tropical wetlands, with the highest activity being 17.95±0.51 nmol-N/g dry sediment/h. This activity was most likely driven by sulfide oxidation with dissimilatory nitrate reduction to ammonium (sulfide-driven DNRA). Microbial community analyses revealed a variety of anammox bacteria related to several known lineages, including Candidatus Anammoximicrobium, Candidatus Brocadia and Candidatus Kuenenia, at different wetlands. Metagenome predictions, batch tests, and isotope-tracing suggested that the high level of anammox activity was due to sulfide-driven DNRA. This was corroborated by a strong correlation (through Pearson's analysis) between the abundance of anammox bacteria and the nrfA (a dissimilatory nitrate reduction to ammonium gene) and dsrA (a sulfate reductase gene) genes, as well as sulfate, ammonium and nitrate concentrations. These correlations suggest syntrophic interactions among sulfate-reducing, sulfide-driven DNRA, and anammox bacterial populations. A better understanding of the role of sulfur in nitrogen loss via the anammox reaction in natural systems could inform development of a viable wastewater treatment strategy that utilizes sulfate to minimize the activity of denitrifying bacteria and thus to reduce nitrous oxide emissions from wastewater treatment plants.
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Affiliation(s)
- Qingkun Wang
- Department of Civil and Environmental Engineering, National University of Singapore, 117576 Singapore
| | - Matthew James Rogers
- Department of Civil and Environmental Engineering, National University of Singapore, 117576 Singapore
| | - Sir Sing Ng
- Department of Civil and Environmental Engineering, National University of Singapore, 117576 Singapore
| | - Jianzhong He
- Department of Civil and Environmental Engineering, National University of Singapore, 117576 Singapore.
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15
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Abundance, diversity, and distribution patterns along with the salinity of four nitrogen transformation-related microbes in the Yangtze Estuary. ANN MICROBIOL 2020. [DOI: 10.1186/s13213-020-01561-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
Abstract
Abstract
Purpose
The abundance and composition of nitrogen transformation-related microbes with certain environmental parameters for living conditions provide information about the nitrogen cycle in the Yangtze Estuary. The aim of this study was to explore the impacts of salinity on four N-related microbes and reveal the phylogenetic characteristics of microorganisms in the Yangtze Estuary ecosystem. A molecular biology method was used for the quantitation and identification of four microbes in the Yangtze River: ammonia-oxidizing bacteria (AOB), ammonia-oxidizing archaea (AOA), denitrifying microbes (nirS-type), and anaerobic ammonia-oxidizing (anammox) bacteria. Sequence identification was performed on the levels of phylum, class, order, family, and genus, and the sequences were then matched to species.
Result
The results showed that the dominant species of AOA were crenarchaeote enrichment cultures, thaumarchaeote enrichment cultures, and Nitrosopumilus maritimus cultures, and the dominant AOB species were betaproteobacterium enrichment cultures and Nitrosomona sp. The denitrifying microbes were identified as the phylum Proteobacteria, classes Alphaproteobacteria, Betaproteobacteria, and Gammaproteobacteria, and the species Thauera selenatis. The dominant species of the anammox bacteria was Candidatus Brocadia sp. In the estuarine sediments of the Yangtze River, the nirS gene abundance (1.31 × 107–9.50 × 108 copies g−1 sediments) was the highest among all the detected genes, and the abundance of bacterial amoA, archaeal amoA, and nirS was significantly correlated. Closely correlated with the abundance of the bacterial amoA gene, salinity was an important factor in promoting the abundance and restraining the community diversity of AOB. Moreover, the distribution of the AOB species exhibited regional patterns in the estuarine zone.
Conclusions
The results indicated that salinity might promote abundance while limiting the diversity of AOB and that salinity might have reverse impacts on AOA. Denitrifying microbes, which showed a significant correlation with the other genes, were thought to interact with the other genes during nitrogen migration. The results also implied that AOA has a lower potential nitrification rate than AOB and that both the anammox and denitrification processes (defined by nirS gene) account for N2 production.
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16
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Ali M, Shaw DR, Saikaly PE. Application of an enrichment culture of the marine anammox bacterium "Ca. Scalindua sp. AMX11" for nitrogen removal under moderate salinity and in the presence of organic carbon. WATER RESEARCH 2020; 170:115345. [PMID: 31805498 DOI: 10.1016/j.watres.2019.115345] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2019] [Revised: 10/20/2019] [Accepted: 11/25/2019] [Indexed: 06/10/2023]
Abstract
Seawater can be directly used for toilet flushing in coastal areas to reduce our dependence on desalination and freshwater resources. The presence of high-salt content in the generated wastewater from seawater toilet flushing could limit the performance of conventional biological nitrogen removal processes. Anaerobic ammonium oxidation (anammox) process is regarded as one of the most energy-efficient process for nitrogen removal from N-rich waste streams. In this study, we demonstrated the application of a novel marine anammox bacterium (Candidatus Scalindua sp. AMX11) in a membrane bioreactor (MBR) to treat moderate-saline (∼1.2% salinity) and N-rich organic (2 mM acetate) solution, prepared using real seawater. The MBR showed stable performance with nitrogen removal rate of 0.3 kg-N m-3 d-1 at >90% N-removal efficiency. Furthermore, results of 15N stable isotope experiments revealed that anammox bacteria was mainly responsible for respiratory ammonification through NO3- reduction to NH4+ via NO2-, and the by-products of respiratory ammonification were used as substrates by anammox bacteria. The dominant role of anammox bacteria in nitrogen removal under saline and organic conditions was further confirmed by genome-centric combined metagenomics and meta-transcriptomic approach. Taken together, these results highlight the potential application of marine anammox bacteria for treating saline wastewater generated from seawater toilet flushing practices.
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Affiliation(s)
- Muhammad Ali
- Biological and Environmental Science and Engineering Division, Water Desalination and Reuse Center, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
| | - Dario Rangel Shaw
- Biological and Environmental Science and Engineering Division, Water Desalination and Reuse Center, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
| | - Pascal E Saikaly
- Biological and Environmental Science and Engineering Division, Water Desalination and Reuse Center, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.
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17
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Ishimoto C, Sugiyama T, Matsumoto T, Uenishi H, Fukumoto Y, Waki M. Full-scale simultaneous partial nitrification, anammox, and denitrification process for treating swine wastewater. WATER SCIENCE AND TECHNOLOGY : A JOURNAL OF THE INTERNATIONAL ASSOCIATION ON WATER POLLUTION RESEARCH 2020; 81:456-465. [PMID: 32385199 DOI: 10.2166/wst.2020.120] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
A full-scale swine-wastewater activated sludge treatment plant that contains naturally enriched anammox biofilms was investigated for 2 years. Red biofilm in this system included Planctomycetes at a maximum of 62.5% of the total bacteria diversity, including Candidatus Jettenia and Candidatus Brocadia. The plant was operated with an influent containing 1,104 ± 513 mg/L biochemical oxygen demand (BOD) and 629 ± 198 mg/L total nitrogen (TN) (BOD/N of 1.78 ± 0.58) at a volumetric BOD loading rate of 0.32 ± 0.12 kg/m3/d. Notwithstanding drastically varying influent concentrations, BOD removal efficiency was stable at 95 ± 4%. However, TN removal fluctuated at 75 ± 14%. Dissolved oxygen (DO) concentrations in the aeration tank were 0.06-2.0 mg/L. DO concentration greatly affected nitrogen removal, e.g. when DO was lower than 0.3 mg/L, total inorganic nitrogen removal was 61 ± 14% (≤20 °C), 78 ± 16% (20-30 °C), and 75 ± 12% (≥30 °C), whereas at higher DO concentrations, removal rates were 47 ± 13%, 55 ± 16%, and 68%, respectively. As BOD concentration in the influent was limited compared to nitrogen concentration, nitrogen was likely removed by simultaneous nitrification, anammox, and denitrification (SNAD) under microaerobic conditions. Maintaining low DO concentrations would therefore be a simple method to improve nitrogen removal during SNAD processes for swine-wastewater treatment with fluctuating influent.
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Affiliation(s)
- Chikako Ishimoto
- Shizuoka Prefectural Research Institute of Animal Industry, Swine and Poultry Research Center, 2780 Nishikata, Kikugawa, Shizuoka 439-0037, Japan
| | - Tsukasa Sugiyama
- Shizuoka Prefectural Research Institute of Animal Industry, Swine and Poultry Research Center, 2780 Nishikata, Kikugawa, Shizuoka 439-0037, Japan
| | - Toshimi Matsumoto
- Division of Animal Sciences, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization (NARO), 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan
| | - Hirohide Uenishi
- Division of Animal Sciences, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization (NARO), 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan
| | - Yasuyuki Fukumoto
- Animal Waste Management and Environment Research Division, Institute of Livestock and Grassland Science, NARO, 2 Ikenodai, Tsukuba, Ibaraki 305-0901, Japan E-mail:
| | - Miyoko Waki
- Animal Waste Management and Environment Research Division, Institute of Livestock and Grassland Science, NARO, 2 Ikenodai, Tsukuba, Ibaraki 305-0901, Japan E-mail:
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18
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Wang Y, Xu L, Wang S, Ye F, Zhu G. Global Distribution of Anaerobic Ammonia Oxidation (Anammox) Bacteria - Field Surveys in Wetland, Dryland, Groundwater Aquifer and Snow. Front Microbiol 2019; 10:2583. [PMID: 31798550 PMCID: PMC6861858 DOI: 10.3389/fmicb.2019.02583] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2019] [Accepted: 10/24/2019] [Indexed: 11/26/2022] Open
Abstract
The discovery of anaerobic ammonia oxidation (anammox) expanded our knowledge on the microbial nitrogen cycle. Previous studies report that anammox bacteria are distributed in a wide range of habitats and plays significant roles in the global nitrogen cycle. However, most studies focus only on individual ecosystems or datasets from public databases. To date, our understanding of how anammox bacteria respond to environmental properties and are distributed in different habitats on a global scale, remain unclear. To explore the global distribution of anammox bacteria, samples were collected from different habitats at different locations globally, including wetlands, drylands, groundwater aquifers and snow from 10 countries across six continents. We then used high-throughput amplicon sequencing targeting the functional gene hydrazine synthase (HZS) and generated community profiles. Results showed that Candidatus Brocadia is detected as the dominant genus on a global scale, accounting for 80.0% to 99.9% of the retrieved sequences in different habitats. The Jettenia-like sequences were the second most abundant group, accounting for no more than 19.9% of the retrieved sequences in all sites. The samples in drylands, wetlands and groundwater aquifers showed similar community composition and diversity, with the snow samples being the most different. Deterministic processes seem stronger in regulating the community composition of anammox bacteria, which is supported by the higher proportion explained by local-scale factors. Groundwater aquifers showed high gene abundance and the most complex co-occurrence network among the four habitat types, suggesting that it might be the preferred habitat of anammox bacteria. There is little competition between anammox bacterial species based on co-occurrence analysis. Hence, we could infer that environmental factors such as anaerobic and stable conditions, instead of substrate limitations, may be vital factors determining the anammox bacteria community. These results provide a better understanding of the global distribution of anammox bacteria and the ecological factors that affect their community structuring in diverse habitats.
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Affiliation(s)
- Yu Wang
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China.,Institute of Environmental Research at Greater Bay, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Guangzhou University, Guangzhou, China
| | - Liya Xu
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Shanyun Wang
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Fei Ye
- Institute of Environmental Research at Greater Bay, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Guangzhou University, Guangzhou, China
| | - Guibing Zhu
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
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19
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Chen S, Li N, Chang S, Chen D, Xie S, Guo Q. Evaluating the response of anaerobic ammonium-oxidizing bacteria to heavy metal spill in freshwater sediment. ECOTOXICOLOGY (LONDON, ENGLAND) 2019; 28:1003-1008. [PMID: 31471821 DOI: 10.1007/s10646-019-02099-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 08/12/2019] [Indexed: 06/10/2023]
Abstract
Anaerobic ammonium-oxidizing (anammox) bacteria can play an important role in nitrogen elimination in the environment. However, the effect of heavy metals on anammox bacteria in aquatic ecosystem remains largely unknown. The present study investigated the variability of anammox bacterial community in a freshwater reservoir after a severe heavy metal spill. The richness (Chao1 richness estimator = 2-18), diversity (Shannon index = 0.26-2.04) and community structure of anammox bacteria changed considerably with sampling date, while anammox bacterial abundance (from 1.38 × 105 to 3.09 × 105 anammox bacterial 16S rRNA gene copies per gram dry sediment) was less responsive to metal spill. Anammox bacterial communities were mainly composed of Brocadia- and Anammoxoglobus-like bacteria as well as novel phylotype, however, there relative abundance varied among sampling dates. This work could add the knowledge of the response of anammox bacteria to heavy metal contamination.
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Affiliation(s)
- Sili Chen
- South China Institute of Environmental Sciences (SCIES), Ministry of Ecology and Environment, Guangzhou, 510655, China
| | - Ningning Li
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China
| | - Sha Chang
- South China Institute of Environmental Sciences (SCIES), Ministry of Ecology and Environment, Guangzhou, 510655, China
| | - Dinghao Chen
- South China Institute of Environmental Sciences (SCIES), Ministry of Ecology and Environment, Guangzhou, 510655, China
| | - Shuguang Xie
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China.
| | - Qingwei Guo
- South China Institute of Environmental Sciences (SCIES), Ministry of Ecology and Environment, Guangzhou, 510655, China.
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20
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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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21
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Wu J, Hong Y, He X, Jiao L, Wen X, Chen S, Chen G, Li Y, Huang T, Hu Y, Liu X. Anaerobic Ammonium Oxidation in Acidic Red Soils. Front Microbiol 2018; 9:2142. [PMID: 30233562 PMCID: PMC6134040 DOI: 10.3389/fmicb.2018.02142] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2018] [Accepted: 08/21/2018] [Indexed: 01/29/2023] Open
Abstract
Anaerobic ammonium oxidation (anammox) has been proven to be an important nitrogen removal process in terrestrial ecosystems, particularly paddy soils. However, the contribution of anammox in acidic red soils to nitrogen loss has not been well-documented to date. Here, we investigated the activity, abundance, and distribution of anammox bacteria in red soils collected from nine provinces of Southern China. High-throughput sequencing analysis showed that Candidatus Brocadia dominates the anammox bacterial community (93.03% of sequence reads). Quantification of the hydrazine synthase gene (hzsB) and anammox 16S rRNA gene indicated that the abundance of anammox bacteria ranged from 6.20 × 106 to 1.81 × 109 and 4.81 × 106 to 4.54 × 108 copies per gram of dry weight, respectively. Contributions to nitrogen removal by anammox were measured by a 15N isotope-pairing assay. Anammox rates in red soil ranged from 0.01 to 0.59 nmol N g−1 h−1, contributing 16.67–53.27% to N2 production in the studied area, and the total amount of removed nitrogen by anammox was estimated at 2.33 Tg N per year in the natural red soils of southern China. Pearson correlation analyses revealed that the distribution of anammox bacteria significantly correlated with the concentration of nitrate and pH, whereas the abundance and activity of anammox bacteria were significantly influenced by the nitrate and total nitrogen concentrations. Our findings demonstrate that Candidatus Brocadia dominates anammox bacterial communities in acidic red soils and plays an important role in nitrogen loss of the red soil in Southern China.
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Affiliation(s)
- Jiapeng Wu
- State Key Laboratory of Tropical Oceanography, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Yiguo Hong
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
| | - Xiang He
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
| | - Lijing Jiao
- State Key Laboratory of Tropical Oceanography, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Xiaomei Wen
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
| | - Shuai Chen
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
| | - Guangshi Chen
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
| | - Yiben Li
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
| | - Tianzheng Huang
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
| | - Yaohao Hu
- State Key Laboratory of Tropical Oceanography, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Xiaohan Liu
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
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22
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Shen LD, Liu X, Wu HS. Importance of anaerobic ammonium oxidation as a nitrogen removal pathway in freshwater marsh sediments. J Appl Microbiol 2018; 125:1423-1434. [DOI: 10.1111/jam.14042] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2018] [Revised: 06/04/2018] [Accepted: 07/04/2018] [Indexed: 12/26/2022]
Affiliation(s)
- L.-D. Shen
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters; Jiangsu Key Laboratory of Agricultural Meteorology; School of Applied Meteorology; Nanjing University of Information Science and Technology; Nanjing China
- Department of Ecology; School of Applied Meteorology; Nanjing University of Information Science and Technology; Nanjing China
| | - X. Liu
- Department of Ecology; School of Applied Meteorology; Nanjing University of Information Science and Technology; Nanjing China
| | - H.-S. Wu
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters; Jiangsu Key Laboratory of Agricultural Meteorology; School of Applied Meteorology; Nanjing University of Information Science and Technology; Nanjing China
- Department of Ecology; School of Applied Meteorology; Nanjing University of Information Science and Technology; Nanjing China
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23
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Akbarzadeh Z, Laverman AM, Rezanezhad F, Raimonet M, Viollier E, Shafei B, Van Cappellen P. Benthic nitrite exchanges in the Seine River (France): An early diagenetic modeling analysis. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 628-629:580-593. [PMID: 29454199 DOI: 10.1016/j.scitotenv.2018.01.319] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2017] [Revised: 01/10/2018] [Accepted: 01/30/2018] [Indexed: 06/08/2023]
Abstract
Nitrite is a toxic intermediate compound in the nitrogen (N) cycle. Elevated concentrations of nitrite have been observed in the Seine River, raising questions about its sources and fate. Here, we assess the role of bottom sediments as potential sources or sinks of nitrite along the river continuum. Sediment cores were collected from two depocenters, one located upstream, the other downstream, from the largest wastewater treatment plant (WWTP) servicing the conurbation of Paris. Pore water profiles of oxygen, nitrate, nitrite and ammonium were measured. Ammonium, nitrate and nitrite fluxes across the sediment-water interface (SWI) were determined in separate core incubation experiments. The data were interpreted with a one-dimensional, multi-component reactive transport model, which accounts for the production and consumption of nitrite through nitrification, denitrification, anammox and dissimilatory nitrate reduction to ammonium (DNRA). In all core incubation experiments, nitrate uptake by the sediments was observed, indicative of high rates of denitrification. In contrast, for both sampling locations, the sediments in cores collected in August 2012 acted as sinks for nitrite, but those collected in October 2013 released nitrite to the overlying water. The model results suggest that the first step of nitrification generated most pore water nitrite at the two locations. While nitrification was also the main pathway consuming nitrite in the sediments upstream of the WWTP, anammox dominated nitrite removal at the downstream site. Sensitivity analyses indicated that the magnitude and direction of the benthic nitrite fluxes most strongly depend on bottom water oxygenation and the deposition flux of labile organic matter.
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Affiliation(s)
- Zahra Akbarzadeh
- Ecohydrology Research Group, Water Institute and Department of Earth and Environmental Sciences, University of Waterloo, Canada.
| | | | - Fereidoun Rezanezhad
- Ecohydrology Research Group, Water Institute and Department of Earth and Environmental Sciences, University of Waterloo, Canada
| | - Mélanie Raimonet
- UMR 7619 METIS, Université Pierre et Marie Curie, Paris 6, Sorbonne Universités, Paris, France
| | - Eric Viollier
- Laboratoire de Géochimie des Eaux, UMR 7154, Université Paris Diderot, Paris 7 and Institut de Physique du Globe (IPGP), Paris, France
| | - Babak Shafei
- AquaNRG Consulting Inc., Houston, TX, United States
| | - Philippe Van Cappellen
- Ecohydrology Research Group, Water Institute and Department of Earth and Environmental Sciences, University of Waterloo, Canada
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24
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Zhou Z, Wei Q, Yang Y, Li M, Gu JD. Practical applications of PCR primers in detection of anammox bacteria effectively from different types of samples. Appl Microbiol Biotechnol 2018; 102:5859-5871. [PMID: 29802476 DOI: 10.1007/s00253-018-9078-2] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Revised: 05/05/2018] [Accepted: 05/07/2018] [Indexed: 01/21/2023]
Abstract
Research on anammox (anaerobic ammonium oxidizing) bacteria is important due to their biogeochemical and industrial application significance since the first discovery made over two decades ago. By coupling NH4+ and NO2- biochemically to form N2 gas, anammox bacteria contribute significantly to global marine and terrestrial nitrogen balance (responsible for 50, 9~40, and 4~37% of the nitrogen loss for marine, lakes, and paddy soil) and are also useful in energy-conserving nitrogen removal in wastewater treatment. PCR-based detection and quantification of anammox bacteria are an easy, essential, and widely accessible technique used ubiquitously for studying them in many environmental niches. In this article, we make a summary on practical applications of 16S rRNA and functional gene PCR primers, including hydrazine dehydrogenase (Hzo), nitrite reductase (NirS), hydrazine synthase (Hzs), and cytochrome c biogenesis proteins (Ccs) in detection of them. PCR primer performances in both practical applications and tests in silico are also presented for comparison. For detecting general and specific anammox bacterial groups, selection of appropriate PCR primers for different environmental samples and practical application guidance on choice of appropriate primer pairs for different purposes are also offered. This article provides practical information on selection and application of PCR technique in detection of anammox bacteria from the diverse environments to further promote convenient applications of this technique in research and other purposes.
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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, Hong Kong, People's Republic of China
| | - Qiaoyan Wei
- Institute for Advanced Study, Shenzhen University, Shenzhen, 518060, People's Republic of China
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen, 518060, People's Republic of China
| | - Yuchun Yang
- 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
| | - Meng Li
- Institute for Advanced Study, Shenzhen University, Shenzhen, 518060, 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, Hong Kong, People's Republic of China.
- State Key Laboratory in Marine Pollution, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong, SAR, People's Republic of China.
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25
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Qin H, Han C, Jin Z, Wu L, Deng H, Zhu G, Zhong W. Vertical distribution and community composition of anammox bacteria in sediments of a eutrophic shallow lake. J Appl Microbiol 2018. [DOI: 10.1111/jam.13758] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- H. Qin
- Jiangsu Provincial Key Laboratory of Materials Cycling and Pollution Control; School of Geography Science; Nanjing Normal University; Nanjing China
- Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application; Nanjing China
| | - C. Han
- Jiangsu Provincial Key Laboratory of Materials Cycling and Pollution Control; School of Geography Science; Nanjing Normal University; Nanjing China
- Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application; Nanjing China
| | - Z. Jin
- Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application; Nanjing China
- School of Environment; Nanjing Normal University; Nanjing China
| | - L. Wu
- Jiangsu Provincial Key Laboratory of Materials Cycling and Pollution Control; School of Geography Science; Nanjing Normal University; Nanjing China
- Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application; Nanjing China
| | - H. Deng
- Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application; Nanjing China
- School of Environment; Nanjing Normal University; Nanjing China
| | - G. Zhu
- Nanjing Institute for Geography and Limnology; Chinese Academy of Sciences; Nanjing China
| | - W. Zhong
- Jiangsu Provincial Key Laboratory of Materials Cycling and Pollution Control; School of Geography Science; Nanjing Normal University; Nanjing China
- Jiangsu Center for Collaborative Innovation in Geographical Information Resource Development and Application; Nanjing China
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26
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Novel anammox bacteria and nitrogen loss from Lake Superior. Sci Rep 2017; 7:13757. [PMID: 29061974 PMCID: PMC5653767 DOI: 10.1038/s41598-017-12270-1] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2017] [Accepted: 08/10/2017] [Indexed: 11/12/2022] Open
Abstract
Anaerobic ammonium oxidizing (anammox) bacteria own a central position in the global N-cycle, as they have the ability to oxidize NH4+ to N2 under anoxic conditions using NO2−. They are responsible for up to 50% of all N2 released from marine ecosystems into the atmosphere and are thus indispensible for balancing the activity of N-fixing bacteria and completing the marine N-cycle. The contribution, diversity, and impact of anammox bacteria in freshwater ecosystems, however, is largely unknown, confounding assessments of their role in the global N-cycle. Here we report the activity and diversity of anammox bacteria in the world’s largest freshwater lake—Lake Superior. We found that anammox performed by previously undiscovered bacteria is an important contributor to sediment N2 production. We observed striking differences in the anammox bacterial populations found at different locations within Lake Superior and those described from other locations. Our data thus reveal that novel anammox bacteria underpin N-loss from Lake Superior, and if more broadly distributed across inland waters would play an important role in continental N-cycling and mitigation of fixed nitrogen transfer from land to the sea.
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27
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Kumar S, Herrmann M, Thamdrup B, Schwab VF, Geesink P, Trumbore SE, Totsche KU, Küsel K. Nitrogen Loss from Pristine Carbonate-Rock Aquifers of the Hainich Critical Zone Exploratory (Germany) Is Primarily Driven by Chemolithoautotrophic Anammox Processes. Front Microbiol 2017; 8:1951. [PMID: 29067012 PMCID: PMC5641322 DOI: 10.3389/fmicb.2017.01951] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2017] [Accepted: 09/22/2017] [Indexed: 11/22/2022] Open
Abstract
Despite the high relevance of anaerobic ammonium oxidation (anammox) for nitrogen loss from marine systems, its relative importance compared to denitrification has less been studied in freshwater ecosystems, and our knowledge is especially scarce for groundwater. Surprisingly, phospholipid fatty acids (PLFA)-based studies identified zones with potentially active anammox bacteria within two superimposed pristine limestone aquifer assemblages of the Hainich Critical Zone Exploratory (CZE; Germany). We found anammox to contribute an estimated 83% to total nitrogen loss in suboxic groundwaters of these aquifer assemblages at rates of 3.5–4.7 nmol L−1 d−1, presumably favored over denitrification by low organic carbon availability. Transcript abundances of hzsA genes encoding hydrazine synthase exceeded nirS and nirK transcript abundances encoding denitrifier nitrite reductase by up to two orders of magnitude, providing further support of a predominance of anammox. Anammox bacteria, dominated by groups closely related to Cand. Brocadia fulgida, constituted up to 10.6% of the groundwater microbial community and were ubiquitously present across the two aquifer assemblages with indication of active anammox bacteria even in the presence of 103 μmol L−1 oxygen. Co-occurrence of hzsA and amoA gene transcripts encoding ammonia mono-oxygenase suggested coupling between aerobic and anaerobic ammonium oxidation under suboxic conditions. These results clearly demonstrate the relevance of anammox as a key process driving nitrogen loss from oligotrophic groundwater environments, which might further be enhanced through coupling with incomplete nitrification.
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Affiliation(s)
- Swatantar Kumar
- Aquatic Geomicrobiology Group, Institute of Biodiversity, Friedrich Schiller University Jena, Jena, Germany.,Department of Biogeochemical Processes, Max-Planck-Institute for Biogeochemistry, Jena, Germany
| | - Martina Herrmann
- Aquatic Geomicrobiology Group, Institute of Biodiversity, Friedrich Schiller University Jena, Jena, Germany.,German Center for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leipzig, Germany
| | - Bo Thamdrup
- Department of Biology, Nordic Center for Earth Evolution, University of Southern Denmark, Odense, Denmark
| | - Valérie F Schwab
- Institute of Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Jena, Germany
| | - Patricia Geesink
- Aquatic Geomicrobiology Group, Institute of Biodiversity, Friedrich Schiller University Jena, Jena, Germany
| | - Susan E Trumbore
- Department of Biogeochemical Processes, Max-Planck-Institute for Biogeochemistry, Jena, Germany
| | - Kai-Uwe Totsche
- Hydrogeology, Institute of Geosciences, Friedrich Schiller University Jena, Jena, Germany
| | - Kirsten Küsel
- Aquatic Geomicrobiology Group, Institute of Biodiversity, Friedrich Schiller University Jena, Jena, Germany.,German Center for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leipzig, Germany
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28
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Xue Y, Yu Z, Chen H, Yang JR, Liu M, Liu L, Huang B, Yang J. Cyanobacterial bloom significantly boosts hypolimnelic anammox bacterial abundance in a subtropical stratified reservoir. FEMS Microbiol Ecol 2017; 93:4111147. [DOI: 10.1093/femsec/fix118] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2017] [Accepted: 09/09/2017] [Indexed: 11/14/2022] Open
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29
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Nakamura T, Harigaya Y, Kimura Y, Kuroiwa M, Kurata Y, Isaka K, Suwa Y. Quantitative evaluation of inhibitory effect of various substances on anaerobic ammonia oxidation (anammox). J Biosci Bioeng 2017; 124:333-338. [DOI: 10.1016/j.jbiosc.2017.04.010] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2017] [Accepted: 04/14/2017] [Indexed: 10/19/2022]
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30
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Yasuda T, Waki M, Fukumoto Y, Hanajima D, Kuroda K, Suzuki K. Characterization of the denitrifying bacterial community in a full-scale rockwool biofilter for compost waste-gas treatment. Appl Microbiol Biotechnol 2017; 101:6779-6792. [DOI: 10.1007/s00253-017-8398-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2017] [Revised: 05/22/2017] [Accepted: 06/16/2017] [Indexed: 11/29/2022]
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31
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Yang Y, Dai Y, Li N, Li B, Xie S, Liu Y. Temporal and Spatial Dynamics of Sediment Anaerobic Ammonium Oxidation (Anammox) Bacteria in Freshwater Lakes. MICROBIAL ECOLOGY 2017; 73:285-295. [PMID: 27726034 DOI: 10.1007/s00248-016-0872-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2016] [Accepted: 09/29/2016] [Indexed: 05/05/2023]
Abstract
Anaerobic ammonium-oxidizing (anammox) process can play an important role in freshwater nitrogen cycle. However, the distribution of anammox bacteria in freshwater lake and the associated environmental factors remain essentially unclear. The present study investigated the temporal and spatial dynamics of sediment anammox bacterial populations in eutrotrophic Dianchi Lake and mesotrophic Erhai Lake on the Yunnan Plateau (southwestern China). The remarkable spatial change of anammox bacterial abundance was found in Dianchi Lake, while the relatively slight spatial shift occurred in Erhai Lake. Dianchi Lake had greater anammox bacterial abundance than Erhai Lake. In both Dianchi Lake and Erhai Lake, anammox bacteria were much more abundant in summer than in spring. Anammox bacterial community richness, diversity, and structure in these two freshwater lakes were subjected to temporal and spatial variations. Sediment anammox bacterial communities in Dianchi Lake and Erhai Lake were dominated by Candidatus Brocadia and a novel phylotype followed by Candidatus Kuenenia; however, these two lakes had distinct anammox bacterial community structure. In addition, trophic status determined sediment anammox bacterial community structure.
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Affiliation(s)
- Yuyin Yang
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China
| | - Yu Dai
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China
| | - Ningning Li
- 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.
| | - Yong Liu
- Key Laboratory of Water and Sediment Sciences (Ministry of Education), College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China.
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32
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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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Starke R, Müller M, Gaspar M, Marz M, Küsel K, Totsche KU, von Bergen M, Jehmlich N. Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer. J Proteomics 2017; 152:153-160. [DOI: 10.1016/j.jprot.2016.11.003] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2016] [Revised: 10/28/2016] [Accepted: 11/07/2016] [Indexed: 10/20/2022]
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Suto R, Ishimoto C, Chikyu M, Aihara Y, Matsumoto T, Uenishi H, Yasuda T, Fukumoto Y, Waki M. Anammox biofilm in activated sludge swine wastewater treatment plants. CHEMOSPHERE 2017; 167:300-307. [PMID: 27728889 DOI: 10.1016/j.chemosphere.2016.09.121] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2016] [Revised: 08/31/2016] [Accepted: 09/26/2016] [Indexed: 06/06/2023]
Abstract
We investigated anammox with a focus on biofilm in 10 wastewater treatment plants (WWTPs) that use activated sludge treatment of swine wastewater. In three plants, we found red biofilms in aeration tanks or final sedimentation tanks. The biofilm had higher anammox 16S rRNA gene copy numbers (up to 1.35 × 1012 copies/g-VSS) and higher anammox activity (up to 295 μmoL/g-ignition loss/h) than suspended solids in the same tank. Pyrosequencing analysis revealed that Planctomycetes accounted for up to 17.7% of total reads in the biofilm. Most of them were related to Candidatus Brocadia or Ca. Jettenia. The highest copy number and the highest proportion of Planctomycetes were comparable to those of enriched anammox sludge. Thus, swine WWTPs that use activated sludge treatment can fortuitously acquire anammox biofilm. Thus, concentrated anammox can be detected by focusing on red biofilm.
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Affiliation(s)
- Ryu Suto
- Ibaraki Prefectural Livestock Research Center, 1234 Negoya, Ishioka, Ibaraki 315-0132, Japan
| | - Chikako Ishimoto
- Shizuoka Prefectural Research Institute of Animal Industry Swine & Poultry Research Center, 2780 Nishikata, Kikugawa, Shizuoka 439-0037 Japan
| | - Mikio Chikyu
- Shizuoka Prefectural Research Institute of Animal Industry Swine & Poultry Research Center, 2780 Nishikata, Kikugawa, Shizuoka 439-0037 Japan
| | - Yoshito Aihara
- Ibaraki Prefectural Livestock Research Center, 1234 Negoya, Ishioka, Ibaraki 315-0132, Japan
| | - Toshimi Matsumoto
- Advanced Genomics Breeding Section, Institute of Crop Science, National Agriculture and Food Research Organization, 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan
| | - Hirohide Uenishi
- Division of Animal Sciences, Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan
| | - Tomoko Yasuda
- National Agriculture and Food Research Organization, Institute of Livestock and Grassland Science, Animal Waste Management and Environment Research Division, 2 Ikenodai, Tsukuba, Ibaraki 305-0901, Japan
| | - Yasuyuki Fukumoto
- National Agriculture and Food Research Organization, Institute of Livestock and Grassland Science, Animal Waste Management and Environment Research Division, 2 Ikenodai, Tsukuba, Ibaraki 305-0901, Japan
| | - Miyoko Waki
- National Agriculture and Food Research Organization, Institute of Livestock and Grassland Science, Animal Waste Management and Environment Research Division, 2 Ikenodai, Tsukuba, Ibaraki 305-0901, Japan.
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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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Oshiki M, Satoh H, Okabe S. Ecology and physiology of anaerobic ammonium oxidizing bacteria. Environ Microbiol 2016; 18:2784-96. [DOI: 10.1111/1462-2920.13134] [Citation(s) in RCA: 235] [Impact Index Per Article: 29.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2014] [Revised: 11/08/2015] [Accepted: 11/13/2015] [Indexed: 11/28/2022]
Affiliation(s)
- Mamoru Oshiki
- Department of Civil Engineering National Institute of Technology Nagaoka College 888 Nishikatakaimachi Nagaoka Niigata 940‐0834 Japan
| | - Hisashi Satoh
- Division of Environmental Engineering Faculty of Engineering Hokkaido University North 13, West‐8 Sapporo Hokkaido 060‐8628 Japan
| | - Satoshi Okabe
- Division of Environmental Engineering Faculty of Engineering Hokkaido University North 13, West‐8 Sapporo Hokkaido 060‐8628 Japan
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Shen LD, Wu HS, Gao ZQ, Ruan YJ, Xu XH, Li J, Ma SJ, Zheng PH. Evidence for anaerobic ammonium oxidation process in freshwater sediments of aquaculture ponds. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:1344-1352. [PMID: 26362637 DOI: 10.1007/s11356-015-5356-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2015] [Accepted: 09/01/2015] [Indexed: 06/05/2023]
Abstract
The anaerobic ammonium oxidation (anammox) process, which can simultaneously remove ammonium and nitrite, both toxic to aquatic animals, can be very important to the aquaculture industry. Here, the presence and activity of anammox bacteria in the sediments of four different freshwater aquaculture ponds were investigated by using Illumina-based 16S rRNA gene sequencing, quantitative PCR assays and (15)N stable isotope measurements. Different genera of anammox bacteria were detected in the examined pond sediments, including Candidatus Brocadia, Candidatus Kuenenia and Candidatus Anammoxoglobus, with Candidatus Brocadia being the dominant anammox genus. Quantitative PCR of hydrazine synthase genes showed that the abundance of anammox bacteria ranged from 5.6 × 10(4) to 2.1 × 10(5) copies g(-1) sediment in the examined ponds. The potential anammox rates ranged between 3.7 and 19.4 nmol N2 g(-1) sediment day(-1), and the potential denitrification rates varied from 107.1 to 300.3 nmol N2 g(-1) sediment day(-1). The anammox process contributed 1.2-15.3% to sediment dinitrogen gas production, while the remainder would be due to denitrification. It is estimated that a total loss of 2.1-10.9 g N m(-2) per year could be attributed to the anammox process in the examined ponds, suggesting that this process could contribute to nitrogen removal in freshwater aquaculture ponds.
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Affiliation(s)
- Li-dong Shen
- Jiangsu Key Laboratory of Agricultural Meteorology, Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
- Department of Agricultural Resource and Environment, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Hong-sheng Wu
- Jiangsu Key Laboratory of Agricultural Meteorology, Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
- Department of Agricultural Resource and Environment, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Zhi-qiu Gao
- State Key Laboratory of Atmospheric Boundary Layer Physics and Atmospheric Chemistry, Institute of Atmospheric Physics, Chinese Academy of Science, Beijing, China.
- College of Geophysics and Remote Sensing, Nanjing University of Information Science and Technology, Nanjing, 210044, China.
| | - Yun-jie Ruan
- Institute of Agricultural Bio-Environmental Engineering, College of Bio-systems Engineering and Food Science, Zhejiang University, Hangzhou, 310058, China
| | - Xiang-hua Xu
- Jiangsu Key Laboratory of Agricultural Meteorology, Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
- Department of Agricultural Resource and Environment, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Ji Li
- Department of Agricultural Resource and Environment, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Shi-jie Ma
- Department of Agricultural Resource and Environment, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Pei-hui Zheng
- Department of Agricultural Resource and Environment, College of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
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Affiliation(s)
- Koji Mori
- NITE Biological Resource Center (NBRC), National Institute of Technology and Evaluation (NITE)
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Distribution and activity of anaerobic ammonium-oxidising bacteria in natural freshwater wetland soils. Appl Microbiol Biotechnol 2015; 100:3291-300. [DOI: 10.1007/s00253-015-7191-z] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2015] [Revised: 11/17/2015] [Accepted: 11/20/2015] [Indexed: 11/27/2022]
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40
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Zhu G, Xia C, Shanyun W, Zhou L, Liu L, Zhao S. Occurrence, activity and contribution of anammox in some freshwater extreme environments. ENVIRONMENTAL MICROBIOLOGY REPORTS 2015; 7:961-969. [PMID: 26419325 DOI: 10.1111/1758-2229.12341] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2015] [Revised: 09/21/2015] [Accepted: 09/25/2015] [Indexed: 06/05/2023]
Abstract
Anaerobic ammonium oxidation (anammox) widely occurs in marine ecosystems, and it plays an important role in the global nitrogen cycle. But in freshwater ecosystems its occurrence, distribution and contribution, especially in extreme environments, are still not well known. In this study, anammox process was investigated in some extreme environments of freshwater ecosystems, such as those with high (above 75°C) and low (below -35°C) temperature, high (pH > 8) and low (pH < 4) pH and eutrophy (the concentration of NH4 (+) -N > 300 mg kg(-1) ). The polymerase chain reaction (PCR) screening results showed that anammox bacteria were widespread in the examined sediments from freshwater extreme environments. Quantitative PCR showed that the abundance of anammox bacteria ranged from 6.94 × 10(4) to 8.05 × 10(6) hydrazine synthase (hzsB) gene copies g(-1) dry soil. (15) N-labelled incubation experiments indicated the occurrence of anammox in all examined sediments and the potential anammox rates ranged from 0.02 to 6.24 nmol N g(-1) h(-1) , with a contribution of 3.45-58.74% of the total N2 production. In summary, these results demonstrate the occurrence of anammox in these extreme environments, inferring that anammox may harbour a wide ecological niche in the freshwater ecosystems.
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Affiliation(s)
- Guibing Zhu
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, China
- Department of Biogeochemistry, Max Planck Institute for Marine Microbiology, Bremen, Germany
| | - Chao Xia
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, China
| | - Wang Shanyun
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, China
| | - Leiliu Zhou
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, China
| | - Lu Liu
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, China
| | - Siyan Zhao
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, China
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Wang S, Hong Y, Wu J, Xu XR, Bin L, Pan Y, Guan F, Wen J. Comparative analysis of two 16S rRNA gene-based PCR primer sets provides insight into the diversity distribution patterns of anammox bacteria in different environments. Appl Microbiol Biotechnol 2015; 99:8163-76. [PMID: 26231134 DOI: 10.1007/s00253-015-6814-8] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2015] [Revised: 06/29/2015] [Accepted: 07/01/2015] [Indexed: 08/02/2023]
Abstract
Due to the high divergence among 16S rRNA genes of anammox bacteria, different diversity pattern of the community could be resulted from using different primer set. In this study, the efficiencies and specificities of two commonly used sets, Amx368F/Amx820R and Brod541F/Amx820R, were evaluated by exploring the diversity characteristics of anammox bacteria in sediments from marine, estuary, and freshwater wetland. Statistical analysis indicated that the base mispairing rate between bases on 16S rRNA gene sequences retrieved by Amx368F/Amx820R and their corresponding ones on primer Brod541F was quite high, suggesting the different efficiency and specificity of Amx368F/Amx820R and Brod541F/Amx820R. Further experimental results demonstrated that multiple genera of anammox bacteria, including Ca. Scalindua, Ca. Brocadia, and Ca. Kuenenia, were able to be detected by Amx368F/Amx820R, but only Ca. Scalindua could be retrieved by Brod541F/Amx820R. Moreover, the phylogenetic clusters of Ca. Scalindua by Amx368F/Amx820R were different completely from those by Brod541F/Amx820R, presenting a significant complementary effect. By joint application of these two primer sets, the diversity distribution patterns of anammox bacteria in different environments were analyzed. Almost all retrieved sequences from marine sediments belonged to Ca. Scalindua. Sequences from freshwater wetland were affiliated to Ca. Brocadia and two new clusters, while high diversity of anammox bacteria was found in estuary, including Ca. Scalindua, Ca. Brocadia, and Ca. Kuenenia, corresponding to the river-sea intersection environmental feature. In total, these two prime sets have different characteristic for anammox bacteria detecting from environmental samples, and their combined application could achieve better diversity display of anammox community.
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Affiliation(s)
- Shuailong Wang
- State Key Laboratory of Tropical Oceanography, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, People's Republic of China
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Takeuchi M, Yamagishi T, Kamagata Y, Oshima K, Hattori M, Katayama T, Hanada S, Tamaki H, Marumo K, Maeda H, Nedachi M, Iwasaki W, Suwa Y, Sakata S. Tepidicaulis marinus gen. nov., sp. nov., a marine bacterium that reduces nitrate to nitrous oxide under strictly microaerobic conditions. Int J Syst Evol Microbiol 2015; 65:1749-1754. [DOI: 10.1099/ijs.0.000167] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A moderately thermophilic, aerobic, stalked bacterium (strain MA2T) was isolated from marine sediments in Kagoshima Bay, Japan. Phylogenetic analysis of 16S rRNA gene sequences indicated that strain MA2T was most closely related to the genera
Rhodobium
,
Parvibaculum
, and
Rhodoligotrophos
(92–93 % similarity) within the class
Alphaproteobacteria
. Strain MA2T was a Gram-stain-negative and stalked dimorphic bacteria. The temperature range for growth was 16–48 °C (optimum growth at 42 °C). This strain required yeast extract and NaCl (>1 %, w/v) for growth, tolerated up to 11 % (w/v) NaCl, and was capable of utilizing various carbon sources. The major cellular fatty acid and major respiratory quinone were C18 : 1ω7c and ubiquinone-10, respectively. The DNA G+C content was 60.7 mol%. Strain MA2T performed denitrification and produced N2O from nitrate under strictly microaerobic conditions. Strain MA2T possessed periplasmic nitrate reductase (Nap) genes but not membrane-bound nitrate reductase (Nar) genes. On the basis of this morphological, physiological, biochemical and genetic information a novel genus and species, Tepidicaulis marinus gen. nov., sp. nov., are proposed, with MA2T ( = NBRC 109643T = DSM 27167T) as the type strain of the species.
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Affiliation(s)
- Mio Takeuchi
- Institute for Geo-resources and Environments, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki 305-8567, Japan
| | - Takao Yamagishi
- Institute for Geo-resources and Environments, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki 305-8567, Japan
| | - Yoichi Kamagata
- Bioproduction Research Institute, AIST, 1-1-1 Higashi, Tsukuba, Ibaraki 305-8566, Japan
| | - Kenshiro Oshima
- The Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwa-no-ha, Kashiwa, Chiba 277-8561, Japan
| | - Masahira Hattori
- The Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwa-no-ha, Kashiwa, Chiba 277-8561, Japan
| | - Taiki Katayama
- Institute for Geo-resources and Environments, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki 305-8567, Japan
| | - Satoshi Hanada
- Bioproduction Research Institute, AIST, 1-1-1 Higashi, Tsukuba, Ibaraki 305-8566, Japan
| | - Hideyuki Tamaki
- Bioproduction Research Institute, AIST, 1-1-1 Higashi, Tsukuba, Ibaraki 305-8566, Japan
| | - Katsumi Marumo
- Institute of Geology and Geoinformation, AIST, 1-1-1 Higashi, Tsukuba, Ibaraki 305-8567, Japan
| | - Hiroto Maeda
- Department of Physics and Astronomy Graduate School of Science and Engineering/Faculty of Science, Kagoshima University, 1-21-24 Korimoto, Kagoshima 890-8580, Japan
| | - Munetomo Nedachi
- The United Graduate School of Agricultural Sciences, Kagoshima University, 1-21-24 Korimoto, Kagoshima 890-8580, Japan
| | - Wataru Iwasaki
- The Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwa-no-ha, Kashiwa, Chiba 277-8561, Japan
- Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, Japan
| | - Yuichi Suwa
- Department of Biological Science, Faculty of Science and Engineering, Chuo University, 1-13-27 Kasuga, Bunkyo-ku, Tokyo 112-8551, Japan
| | - Susumu Sakata
- Institute for Geo-resources and Environments, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki 305-8567, Japan
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Occurrence and importance of anaerobic ammonium-oxidising bacteria in vegetable soils. Appl Microbiol Biotechnol 2015; 99:5709-18. [PMID: 25690313 DOI: 10.1007/s00253-015-6454-z] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2015] [Revised: 01/28/2015] [Accepted: 02/01/2015] [Indexed: 12/27/2022]
Abstract
The quantitative importance of anaerobic ammonium oxidation (anammox) has been described in paddy fields, while the presence and importance of anammox in subsurface soil from vegetable fields have not been determined yet. Here, we investigated the occurrence and activity of anammox bacteria in five different types of vegetable fields located in Jiangsu Province, China. Stable isotope experiments confirmed the anammox activity in the examined soils, with the potential rates of 2.1 and 23.2 nmol N2 g(-1) dry soil day(-1), and the anammox accounted for 5.9-20.5% of total soil dinitrogen gas production. It is estimated that a total loss of 7.1-78.2 g N m(-2) year(-1) could be linked to the anammox process in the examined vegetable fields. Phylogenetic analyses showed that multiple co-occurring anammox genera were present in the examined soils, including Candidatus Brocadia, Candidatus Kuenenia, Candidatus Anammoxoglobus and Candidatus Jettenia, and Candidatus Brocadia appeared to be the most common anammox genus. Quantitative PCR further confirmed the presence of anammox bacteria in the examined soils, with the abundance varying from 2.8 × 10(5) to 3.0 × 10(6) copies g(-1) dry soil. Correlation analyses suggested that the soil ammonium concentration had significant influence on the activity and abundance of anammox bacteria in the examined soils. The results of our study showed the presence of diverse anammox bacteria and indicated that the anammox process could serve as an important nitrogen loss pathway in vegetable fields.
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Awata T, Kindaichi T, Ozaki N, Ohashi A. Biomass yield efficiency of the marine anammox bacterium, "Candidatus Scalindua sp.," is affected by salinity. Microbes Environ 2015; 30:86-91. [PMID: 25740428 PMCID: PMC4356468 DOI: 10.1264/jsme2.me14088] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2014] [Accepted: 12/12/2014] [Indexed: 11/12/2022] Open
Abstract
The growth rate and biomass yield efficiency of anaerobic ammonium oxidation (anammox) bacteria are markedly lower than those of most other autotrophic bacteria. Among the anammox bacterial genera, the growth rate and biomass yield of the marine anammox bacterium "Candidatus Scalindua sp." is still lower than those of other anammox bacteria enriched from freshwater environments. The activity and growth of marine anammox bacteria are generally considered to be affected by the presence of salinity and organic compounds. Therefore, in the present study, the effects of salinity and volatile fatty acids (VFAs) on the anammox activity, inorganic carbon uptake, and biomass yield efficiency of "Ca. Scalindua sp." enriched from the marine sediments of Hiroshima Bay, Japan, were investigated in batch experiments. Differences in VFA concentrations (0-10 mM) were observed under varying salinities (0.5%-4%). Anammox activity was high at 0.5%-3.5% salinity, but was 30% lower at 4% salinity. In addition, carbon uptake was higher at 1.5%-3.5% salinity. The results of the present study clearly demonstrated that the biomass yield efficiency of the marine anammox bacterium "Ca. Scalindua sp." was significantly affected by salinity. On the other hand, the presence of VFAs up to 10 mM did not affect anammox activity, carbon uptake, or biomass yield efficiency.
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Affiliation(s)
- Takanori Awata
- EcoTopia Science Institute, Nagoya UniversityNagoya 464–8603Japan
| | - Tomonori Kindaichi
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Hiroshima UniversityHigashihiroshima 739–8527Japan
| | - Noriatsu Ozaki
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Hiroshima UniversityHigashihiroshima 739–8527Japan
| | - Akiyoshi Ohashi
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Hiroshima UniversityHigashihiroshima 739–8527Japan
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Ali M, Oshiki M, Awata T, Isobe K, Kimura Z, Yoshikawa H, Hira D, Kindaichi T, Satoh H, Fujii T, Okabe S. Physiological characterization of anaerobic ammonium oxidizing bacterium 'Candidatus Jettenia caeni'. Environ Microbiol 2014; 17:2172-89. [PMID: 25367004 DOI: 10.1111/1462-2920.12674] [Citation(s) in RCA: 133] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2014] [Revised: 09/25/2014] [Accepted: 10/16/2014] [Indexed: 11/26/2022]
Abstract
To date, six candidate genera of anaerobic ammonium-oxidizing (anammox) bacteria have been identified, and numerous studies have been conducted to understand their ecophysiology. In this study, we examined the physiological characteristics of an anammox bacterium in the genus 'Candidatus Jettenia'. Planctomycete KSU-1 was found to be a mesophilic (20-42.5°C) and neutrophilic (pH 6.5-8.5) bacterium with a maximum growth rate of 0.0020 h(-1) . Planctomycete KSU-1 cells showed typical physiological and structural features of anammox bacteria; i.e. (29) N2 gas production by coupling of (15) NH4 (+) and (14) NO2 (-) , accumulation of hydrazine with the consumption of hydroxylamine and the presence of anammoxosome. In addition, the cells were capable of respiratory ammonification with oxidation of acetate. Notably, the cells contained menaquinone-7 as a dominant respiratory quinone. Proteomic analysis was performed to examine underlying core metabolisms, and high expressions of hydrazine synthase, hydrazine dehydrogenase, hydroxylamine dehydrogenase, nitrite/nitrate oxidoreductase and carbon monoxide dehydrogenase/acetyl-CoA synthase were detected. These proteins require iron or copper as a metal cofactor, and both were dominant in planctomycete KSU-1 cells. On the basis of these experimental results, we proposed the name 'Ca. Jettenia caeni' sp. nov. for the bacterial clade of the planctomycete KSU-1.
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Affiliation(s)
- Muhammad Ali
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University, North-13, West-8, Kita-ku, Sapporo, Hokkaido, 060-8628, Japan
| | - Mamoru Oshiki
- Department of Civil Engineering, Nagaoka National College of Technology, 888 Nishikatakaimachi, Nagaoka, Niigata, 940-0834, Japan
| | - Takanori Awata
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Hiroshima University, 1-4-1 Kagamiyama, Higashihiroshima, Hiroshima, 739-8527, Japan
| | - Kazuo Isobe
- Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Science, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657, Japan
| | - Zenichiro Kimura
- Biomass Refinery Research Center, National Institute of Advanced Industrial Science and Technology, 3-11-32, Kagamiyama, Higashihiroshima, Hiroshima, 739-0046, Japan
| | - Hiroaki Yoshikawa
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University, North-13, West-8, Kita-ku, Sapporo, Hokkaido, 060-8628, Japan
| | - Daisuke Hira
- Department of Applied Life Science, Faculty of Biotechnology and Life Science, Sojo University, 4-22-1 Ikeda, Kumamoto, 860-0082, Japan
| | - Tomonori Kindaichi
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Hiroshima University, 1-4-1 Kagamiyama, Higashihiroshima, Hiroshima, 739-8527, Japan
| | - Hisashi Satoh
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University, North-13, West-8, Kita-ku, Sapporo, Hokkaido, 060-8628, Japan
| | - Takao Fujii
- Department of Applied Life Science, Faculty of Biotechnology and Life Science, Sojo University, 4-22-1 Ikeda, Kumamoto, 860-0082, Japan
| | - Satoshi Okabe
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University, North-13, West-8, Kita-ku, Sapporo, Hokkaido, 060-8628, Japan
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Potential contribution of anammox to nitrogen loss from paddy soils in Southern China. Appl Environ Microbiol 2014; 81:938-47. [PMID: 25416768 DOI: 10.1128/aem.02664-14] [Citation(s) in RCA: 104] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The anaerobic oxidation of ammonium (anammox) process has been observed in diverse terrestrial ecosystems, while the contribution of anammox to N2 production in paddy soils is not well documented. In this study, the anammox activity and the abundance and diversity of anammox bacteria were investigated to assess the anammox potential of 12 typical paddy soils collected in southern China. Anammox bacteria related to "Candidatus Brocadia" and "Candidatus Kuenenia" and two novel unidentified clusters were detected, with "Candidatus Brocadia" comprising 50% of the anammox population. The prevalence of the anammox was confirmed by the quantitative PCR results based on hydrazine synthase (hzsB) genes, which showed that the abundance ranged from 1.16 × 10(4) to 9.65 × 10(4) copies per gram of dry weight. The anammox rates measured by the isotope-pairing technique ranged from 0.27 to 5.25 nmol N per gram of soil per hour in these paddy soils, which contributed 0.6 to 15% to soil N2 production. It is estimated that a total loss of 2.50 × 10(6) Mg N per year is linked to anammox in the paddy fields in southern China, which implied that ca. 10% of the applied ammonia fertilizers is lost via the anammox process. Anammox activity was significantly correlated with the abundance of hzsB genes, soil nitrate concentration, and C/N ratio. Additionally, ammonia concentration and pH were found to be significantly correlated with the anammox bacterial structure.
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Zhou S, Borjigin S, Riya S, Terada A, Hosomi M. The relationship between anammox and denitrification in the sediment of an inland river. THE SCIENCE OF THE TOTAL ENVIRONMENT 2014; 490:1029-1036. [PMID: 24914531 DOI: 10.1016/j.scitotenv.2014.05.096] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2014] [Revised: 05/12/2014] [Accepted: 05/21/2014] [Indexed: 06/03/2023]
Abstract
This study measured the microbial processes of anaerobic ammonium oxidation (anammox) and denitrification in sediment sampled from two sites in the estuary of an inland river (Koisegawa River, Ibaragi prefecture, Japan) using a nitrogen isotope pairing technique (IPT). The responses of anammox and denitrification activities to temperature and nitrate concentration were also evaluated. Further, to elucidate the correlation between anammox and denitrification processes, an inhibition experiment was conducted, using chlorate to inhibit the first step of denitrification. Denitrification activity was much higher than anammox activity, and it reached a maximum at the surface layer in February 2012. Denitrification activity decreased as sediment depth increased, and a similar phenomenon was observed for anammox activity in the sediment of site A, where aquatic plants were absent from the surroundings. The activities of both denitrification and anammox were temperature-dependent, but they responded differently to changes in incubation temperature. Compared to a linear increase in denitrification as temperature rose to 35 °C, the optimal temperature for anammox was 25 °C, after which the activity decreased sharply. At the same time, both anammox and denitrification activities increased with NO3(-) concentration. The Michaelis-Menten kinetic constants (Vmax and Km) of denitrification were significantly higher than those of the anammox process. Furthermore, anammox activity decreased accordingly when the first step of denitrification was inhibited, which probably reduced the amount of the intermediate NO2(-). Our study provides the first direct exploration of the denitrification-dependent correlation of anammox activity in the sediment of inland river.
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Affiliation(s)
- Sheng Zhou
- Eco-environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, No. 1000 Jinqi Road, Shanghai 201403, China; Institute of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan.
| | - Sodbilig Borjigin
- Institute of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan
| | - Shohei Riya
- Institute of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan
| | - Akihiko Terada
- Institute of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan
| | - Masaaki Hosomi
- Institute of Engineering, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan
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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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Ali M, Oshiki M, Okabe S. Simple, rapid and effective preservation and reactivation of anaerobic ammonium oxidizing bacterium "Candidatus Brocadia sinica". WATER RESEARCH 2014; 57:215-22. [PMID: 24726991 DOI: 10.1016/j.watres.2014.03.036] [Citation(s) in RCA: 64] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2013] [Revised: 02/03/2014] [Accepted: 03/17/2014] [Indexed: 05/21/2023]
Abstract
It is still the biggest challenge to secure enough seeding biomass for rapid start-up of full-scale (anaerobic ammonium oxidation) anammox processes due to slow growth. Preservation of active anammox biomass could be one of the solutions. In this study, biomass of anammox bacterium, "Candidatus Brocadia sinica", immersed in various nutrient media were preserved at -80 °C, 4 °C and room temperature. After 45, 90 and 150 days of preservation, specific anammox activity (SAA) of the preserved anammox biomass was determined by measuring (29)N2 production rate and transcription levels of hzsA gene encoding hydrazine synthase alpha subunit. Storage in nutrient medium containing 3 mM of molybdate at room temperature with periodical (every 45 days) supply of NH4(+) and NO2(-) was proved to be the most effective storage technique for "Ca. Brocadia sinica" biomass. Using this preservation condition, 96, 92 and 65% of the initial SAA was sustained after 45, 90 and 150 days of storage, respectively. Transcription levels of hzsA gene in biomass correlated with the SAA (R(2) = 0.83), indicating it can be used as a genetic marker to evaluate the anammox activity of preserved biomass. Furthermore, the 90-day-stored biomass was successfully reactivated by immobilizing in polyvinyl alcohol (6%, w/v) and sodium alginate (2%, w/v) gel and then inoculated to up-flow column reactors. Total nitrogen removal rates rapidly increased to 7 kg-N m(-3) d(-1) within 35 days of operation. Based on these results, the room temperature preservation with molybdate addition is simple, cost-effective and feasible at a practical scale, which will accelerate the practical use of anammox process for wastewater treatment.
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Affiliation(s)
- Muhammad Ali
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University, North-13, West-8, Kita-ku, Sapporo, Hokkaido 060-8628, Japan
| | - Mamoru Oshiki
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University, North-13, West-8, Kita-ku, Sapporo, Hokkaido 060-8628, Japan
| | - Satoshi Okabe
- Division of Environmental Engineering, Faculty of Engineering, Hokkaido University, North-13, West-8, Kita-ku, Sapporo, Hokkaido 060-8628, Japan.
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50
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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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