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Liu X, Zhang Q, Yang X, Wu D, Li Y, Di H. Isolation and characteristics of two heterotrophic nitrifying and aerobic denitrifying bacteria, Achromobacter sp. strain HNDS-1 and Enterobacter sp. strain HNDS-6. Environ Res 2023; 220:115240. [PMID: 36621544 DOI: 10.1016/j.envres.2023.115240] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2022] [Revised: 12/21/2022] [Accepted: 01/05/2023] [Indexed: 06/17/2023]
Abstract
In order to solve nitrogen pollution in environmental water, two heterotrophic nitrifying and aerobic denitrifying strains isolated from acid paddy soil were identified as Achromobacter sp. strain HNDS-1 and Enterobacter sp. strain HNDS-6 respectively. Strain HNDS-1 and strain HNDS-6 exhibited amazing ability to nitrogen removal. When (NH4)2SO4, KNO3, NaNO2 were used as nitrogen resource respectively, the NH4+-N, NO3--N, NO2--N removal efficiencies of strain HNDS-1 were 93.31%, 89.47%, and 100% respectively, while those of strain HNDS-6 were 82.39%, 96.92%, and 100%. And both of them could remove mixed nitrogen effectively in low C/N (C/N = 5). Strain HNDS-1 could remove 76.86% NH4+-N and 75.13% NO3--N. And strain HNDS-6 can remove 65.07% NH4+-N and 78.21% NO3--N. A putative ammonia monooxygenase, nitrite reductase, nitrate reductase, assimilatory nitrate reductase, nitrate/nitrite transport protein and nitric oxide reductase of strain HNDS-1, while hydroxylamine reductase, nitrite reductase, nitrate reductase, assimilatory nitrate reductase, nitrate/nitrite transport protein, and nitric oxide reductase of strain HNDS-6 were identified by genomic analysis. DNA-SIP analysis showed that genes Nxr, narG, nirK, norB, nosZ were involved in nitrogen removal pathway, which indicates that the denitrification pathway of strain HNDS-1 and strain HNDS-6 was NO3-→NO2-→NO→N2O→N2 during NH4+-N removal process. And the nitrification pathway of strain HNDS-1 and strain HNDS-6 was NO2-→NO3-, but the nitrification pathway of NH4+→ NO2- needs further studies.
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Affiliation(s)
- Xiaoting Liu
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, Zhejiang University, Hangzhou, 310058, PR China
| | - Qichun Zhang
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, Zhejiang University, Hangzhou, 310058, PR China.
| | - Xiaoyu Yang
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, Zhejiang University, Hangzhou, 310058, PR China
| | - Dan Wu
- College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou 310058, PR China
| | - Yong Li
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, Zhejiang University, Hangzhou, 310058, PR China
| | - Hongjie Di
- Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, Zhejiang University, Hangzhou, 310058, PR China
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2
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Moghadam SV, Jafarzadeh A, Matta A, Dessouky S, Hutchinson J, Kapoor V. Evaluation of nitrogen removal, functional gene abundance and microbial community structure in a stormwater detention basin. J Environ Manage 2023; 325:116669. [PMID: 36335700 DOI: 10.1016/j.jenvman.2022.116669] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Revised: 10/24/2022] [Accepted: 10/29/2022] [Indexed: 06/16/2023]
Abstract
Stormwater control measures such as detention basins are used to mitigate the negative effects of urban stormwater resulting from watershed development. In this study, the performance of a detention basin in mitigating nitrogen pollution was examined and the abundance of N-cycling genes (amoA, nirK, nosZ, hzsB and Ntsp-amoA) present in the soil media of the basin was measured using quantitative PCR. Results showed a net export of nitrogen from the basin, however, differences between in- and outflow concentrations were not significant. Furthermore, the quantitative PCR showed that nirK (denitrification gene) was more abundant in the winter season, whereas amoA (nitrification gene) was more abundant in the summer season. The abundance of nirK, Ntsp-amoA and hzsB genes also varied with the sampling depth of soil and based on 16S rRNA gene sequencing of soil samples, Actinobacteria and Proteobacteria were the most dominant phyla. Species diversity appeared higher in summer, while the top and bottom layer of soil clustered separately based on the bacterial community structure. These results underline the importance of understanding nitrogen dynamics and microbial processes within stormwater control measures to enhance their design and performance.
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Affiliation(s)
- Sina V Moghadam
- School of Civil & Environmental Engineering, And Construction Management, University of Texas at San Antonio, San Antonio, TX, 78249, USA
| | - Arash Jafarzadeh
- School of Civil & Environmental Engineering, And Construction Management, University of Texas at San Antonio, San Antonio, TX, 78249, USA
| | - Akanksha Matta
- School of Civil & Environmental Engineering, And Construction Management, University of Texas at San Antonio, San Antonio, TX, 78249, USA; Department of Chemistry, University of Texas at San Antonio, San Antonio, TX, 78249, USA
| | - Samer Dessouky
- School of Civil & Environmental Engineering, And Construction Management, University of Texas at San Antonio, San Antonio, TX, 78249, USA
| | - Jeffrey Hutchinson
- Department of Integrative Biology, University of Texas at San Antonio, San Antonio, TX, 78249, USA
| | - Vikram Kapoor
- School of Civil & Environmental Engineering, And Construction Management, University of Texas at San Antonio, San Antonio, TX, 78249, USA.
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3
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Deng L, Liu W, Chang N, Sun L, Zhang J, Bello A, Uzoamaka Egbeagu U, Shi S, Sun Y, Xu X. Disentangling the coupling relationships between functional denitrifiers and nitrogen transformation during cattle-manure and biochar composting: A novel perspective. Bioresour Technol 2023; 367:128235. [PMID: 36332857 DOI: 10.1016/j.biortech.2022.128235] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2022] [Revised: 10/24/2022] [Accepted: 10/27/2022] [Indexed: 06/16/2023]
Abstract
This study explored the coupling relationships between denitrifiers and N-transformation using multi-level (DNA, RNA and enzyme) and multi-aspect (abundance, diversity, structure, key community, network pattern, and functional module) analyses during cattle-manure (CM) and biochar (CMB) composting. Amino sugar-N (ASN, 0.914) and hydrolysable unknown-N (-0.724) were main organic-N components mediating NH4+-N in CM and CMB, respectively. Biochar lowered nirK, nirS, and nosZ genes copies, up-regulated nir gene transcripts, and inhibited nitrite reductase (NIR) activity. For nirK-denitrifiers, Luteimonas was predominant taxa influencing NO2--N and amino acid-N (AAN). Unclassified_k_norank_d_Bacteria and unclassified_p_Proteobacteria regulated NO3--N and ASN, respectively. These three genera played crucial roles in mediating NIR activity and nosZ/nirK. For nirS-denitrifiers, Paracoccus and Pseudomonas mediated NH4+-N and AAN, respectively, and they were vital genera regulating NO3--N, ASN and NIR activity. Furthermore, nirK-denitrifiers was major contributor to denitrification. Overall, functional denitrifiers might simultaneously participate in multiple N-transformation processes.
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Affiliation(s)
- Liting Deng
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Wanying Liu
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Nuo Chang
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Lei Sun
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Jizhou Zhang
- Institute of Natural Resources and Ecology, Heilongjiang Academy of Sciences, Harbin 150040, China
| | - Ayodeji Bello
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Ugochi Uzoamaka Egbeagu
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Shuai Shi
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Yu Sun
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China
| | - Xiuhong Xu
- College of Resources and Environment, Northeast Agricultural University, Harbin 150030, China.
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4
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Wang M, Liang Y, Li F, Shen S, Huang X, Sun Y. Enhancement of biological denitrification by the addition of novel sRNA Pda200 under antibiotic pressure. Bioresour Technol 2022; 365:128113. [PMID: 36252762 DOI: 10.1016/j.biortech.2022.128113] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2022] [Revised: 10/05/2022] [Accepted: 10/07/2022] [Indexed: 06/16/2023]
Abstract
Paracoccus denitrificans can adapt to complex environmental changes and sRNAs play crucial roles during this process. This work aim to identify antibiotic-induced sRNA that regulated denitrification and explored its potential for functional enhancement of this process. Target prediction indicated complementary base pairing between the denitrifying gene nosZ and the sRNA Pda200. Anaerobic culture of P. denitrificans ATCC 19367 in the presence of florfenicol (FF) resulted in significant decreases in nosZ and Pda200 gene expression (p < 0.01). Two additional denitrifiers isolated from contaminated sediment were co-cultured with ATCC 19367 to generate a consortium. And an inducible Pda200 expression strain was also added. The results revealed that Pda200 significantly enhanced napA, napB and norB expression in different types of denitrifiers under FF condition (p < 0.05 ∼ 0.001). This study identified the sRNA Pda200 as a novel positive regulator of denitrification, which may realize the efficient treatment of antibiotic-contaminated wastewater by microbial agents.
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Affiliation(s)
- Mei Wang
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, PR China; Key Laboratory of Applied Technology on Green-Eco-Healthy Animal Husbandry of Zhejiang Province, Zhejiang Provincial Engineering Laboratory for Animal Health Inspection & Internet Technology, Zhejiang International Science and Technology Cooperation Base for Veterinary Medicine and Health Management, China-Australia Joint Laboratory for Animal Health Big Data Analytics, College of Animal Science and Technology & College of Veterinary Medicine of Zhejiang A&F University, Hangzhou 311300, PR China
| | - Yi Liang
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, PR China
| | - Fulin Li
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, PR China
| | - Shuqing Shen
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, PR China
| | - Xinyu Huang
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, PR China
| | - Yongxue Sun
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, Guangzhou, PR China.
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Ling X, Lu G, Xue C. Environmental and anthropogenic factors affect bacterial community and nitrogen removal in the Yarlung Zangbo River. Environ Sci Pollut Res Int 2022; 29:84590-84599. [PMID: 35788475 DOI: 10.1007/s11356-022-21498-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2022] [Accepted: 06/12/2022] [Indexed: 06/15/2023]
Abstract
Microorganisms play a critical role in the process of nitrogen removal in aquatic environment, which is regulated by multiple environmental factors. As a high-altitude region, the Qinghai-Tibet Plateau has unique composition of bacterial communities due to its unique geographical conditions, which may affect the nitrogen conversion of Plateau rivers. However, the regulation of nitrogen removal by environmental factors and bacterial community in high-altitude rivers has been rarely reported. This study investigated denitrification, anammox, and dissimilatory nitrate reduction to ammonium rates as well as the community of bacteria and denitrifiers in the Yarlung Zangbo River. The results showed that denitrification was the dominant nitrate removal process. Redundancy analysis revealed that environmental factors including suspended particulate matter, chemical oxygen demand, dissolved oxygen, nitrogen and phosphorus content, electrical conductivity, and pH explained a large amount of the variance in bacterial community. Denitrifiers carrying nitrite reductase-related gene were an important driver of denitrification in the Yarlung Zangbo River. The low water temperature brought by high altitude significantly reduced the denitrification rate. The cascade dams on the river affected the particle size distribution of sediment, changed the community composition of bacteria and denitrifying bacteria, and increased the denitrification rate in the downstream. Our findings highlight that nitrogen removal processes in high-altitude rivers are jointly regulated by environmental and anthropogenic factors through shaping denitrifier abundance.
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Affiliation(s)
- Xin Ling
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes of Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China
| | - Guanghua Lu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes of Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Chenwang Xue
- College of Hydraulic and Civil Engineering, XiZang Agriculture and Animal Husbandry College, Linzhi, 860000, China
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6
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Li HS, Wang KD, Chen XL, Yan DK, Xu ZC, Hu PJ. [Microbial Community Structure of Activated Sludge for Total Nitrogen Upgrading Project]. Huan Jing Ke Xue 2022; 43:4727-4735. [PMID: 36096613 DOI: 10.13227/j.hjkx.202111056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
The activated sludge of a biochemical unit (WLK_OD) and an advanced denitrification unit (WLK_AD) were collected from a municipal wastewater treatment plant (WWTP), in which the TN concentration of effluent was less than 1.5 mg·L-1, and their microbial community structure and function profiles were analyzed using 16S rRNA gene high-throughput sequencing. The microorganisms in WLK_AD had lower evenness compared with that in WLK_OD, which was attributed to environmental selection. Furthermore, PCoA revealed that different incoming wastewaters had an impact on microbial community structure. At the phylum level, Proteobacteria (70.11%) was enriched in WLK_AD. At the genus level, Thauera, Flavobacterium, Hydrogenophaga, and Zoogloea served as distinct-dominant denitrifying bacteria in WLK_AD; however, Trichococcus (3.50%) and Terrimonas (1.10%) were enriched in WLK_OD. Through the comparison between groups (P<0.05), the biomarkers detected in each WWTP were different. Furthermore, the results of the co-occurrence network showed that the bacteria from module I had a higher proportion in WLK_AD; the bacteria from module II had a higher proportion in WLK_OD, and they were common microorganisms in WWTPs, implying that wastewater environments drpve the differences in the microbial community structure. Among the types of environmental parameters, the removal efficiency of COD and TN had the greatest impact on the microbial community by the RDA. The removal efficiency of COD was positively correlated with the dominant bacteria from WLK_OD, such as Saccharibacteria, Thermomarinilinea, Terrimonas, and Comamonas; the removal efficiency of TN was positively correlated with the denitrifying bacteria from WLK_AD, such as Dokdonella, Thauera, Flavobacterium, and Zoogloea. WLK_AD was enriched with Novosphingobium, Dokdonella, Thauera, and Sphingomonas, which synergistically removed TN, leading to the TN of the effluent being less than 1.5 mg·L-1. Moreover, based on the results of function prediction, WLK_AD had a higher proportion of genes that could code the denitrification enzymes.
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Affiliation(s)
- Hai-Song Li
- School of Ecology and Environment, Zhengzhou University, Zhengzhou 450001, China
- Zhihe Environmental Science and Technology, Co., Ltd., Zhengzhou 450000, China
| | - Ke-Dan Wang
- Zhihe Environmental Science and Technology, Co., Ltd., Zhengzhou 450000, China
| | - Xiao-Lei Chen
- Zhihe Environmental Science and Technology, Co., Ltd., Zhengzhou 450000, China
| | - Deng-Ke Yan
- Zhihe Environmental Science and Technology, Co., Ltd., Zhengzhou 450000, China
| | - Zi-Cong Xu
- Zhihe Environmental Science and Technology, Co., Ltd., Zhengzhou 450000, China
| | - Pei-Ji Hu
- Zhihe Environmental Science and Technology, Co., Ltd., Zhengzhou 450000, China
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Xuan Y, Mai Y, Xu Y, Zheng J, He Z, Shu L, Cao Y. Enhanced microbial nitrification-denitrification processes in a subtropical metropolitan river network. Water Res 2022; 222:118857. [PMID: 35868099 DOI: 10.1016/j.watres.2022.118857] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Revised: 07/09/2022] [Accepted: 07/11/2022] [Indexed: 06/15/2023]
Abstract
Urban rivers are hotspots of regional nitrogen (N) pollution and N transformations. Previous studies have reported that the microbial community of urban rivers was different from that of natural rivers. However, how microbial community affects N transformations in the urban rivers is still unclear. In this study, we employed N nutrients-related isotope technology (includes natural-abundance isotopes survey and isotope-labeling method) and bioinformatics methods (includes 16S rRNA high-throughput sequencing and quantitative PCR analysis) to investigate the major N transformations, microbial communities as well as functional gene abundances in a metropolitan river network. Our results suggested that the bacterial community structure in the highly urbanized rivers was characterized by higher richness, less complexity and increased abundances of nitrification and denitrifying bacterium compared to those in the suburban rivers. These differences were mainly caused by high sewage discharge and N loadings. In addition, the abundances of nitrifier gene (amoA) and denitrifier genes (nirK and nirS) were significantly higher in the highly urbanized rivers (2.36 × 103, 7.43 × 107 and 2.28 × 107 copies·mL-1) than that in the suburban rivers (0.43 × 103, 2.18 × 107 and 0.99 × 107 copies·mL-1). These changes in microbes have accelerated nitrification-denitrification processes in the highly urbanized rivers as compared to those in the suburban rivers, which was evidenced by environmental isotopes and the rates of nitrification (10.52 vs. 0.03 nmol·L-1·h-1) and denitrification (83.31 vs. 22.49 nmol·g-1·h-1). Overall, this study concluded that the excess exogenous N has significantly shaped the specific aquatic bacterial communities, which had a potential for enhancing nitrification-denitrification processes in the highly urbanized river network. This study provides a further understanding of microbial N cycling in urban river ecosystems and expands the combined application of isotopic technology and bioinformatics methods in studying biogeochemical cycling.
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Affiliation(s)
- Yingxue Xuan
- School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-sen University, Guangzhou 510006, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Sun Yat-sen University, Guangzhou 510006, China
| | - Yingwen Mai
- School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-sen University, Guangzhou 510006, China
| | - Yunqiu Xu
- School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-sen University, Guangzhou 510006, China
| | - Jianyi Zheng
- School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-sen University, Guangzhou 510006, China
| | - Zhili He
- School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-sen University, Guangzhou 510006, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Sun Yat-sen University, Guangzhou 510006, China
| | - Longfei Shu
- School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-sen University, Guangzhou 510006, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Sun Yat-sen University, Guangzhou 510006, China.
| | - Yingjie Cao
- School of Environmental Science and Engineering, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-sen University, Guangzhou 510006, China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Sun Yat-sen University, Guangzhou 510006, China.
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Wang N, Awasthi MK, Pan J, Jiang S, Wan F, Lin X, Yan B, Zhang J, Zhang L, Huang H, Li H. Effects of biochar and biogas residue amendments on N 2O emission, enzyme activities and functional genes related with nitrification and denitrification during rice straw composting. Bioresour Technol 2022; 357:127359. [PMID: 35618192 DOI: 10.1016/j.biortech.2022.127359] [Citation(s) in RCA: 25] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Revised: 05/17/2022] [Accepted: 05/19/2022] [Indexed: 06/15/2023]
Abstract
This study was carried out to determine the response characteristics of N2O emission, enzyme activities, and functional gene abundances involved in nitrification/denitirification process with biochar and biogas residue amendments during rice straw composting. The results revealed that N2O release mainly occurred during the second fermentation phase. Biogas residue amendment promoted N2O emission, while biochar addition decreased its emission by 33.6%. The nirK gene was abundant through composting process. Biogas residues increased the abundance of denitrification genes, resulting in further release of N2O. Biochar enhanced nosZ gene abundance and accelerated the reduction of N2O. Nitrate reductase (NR), nitrite reductase (NiR), N2O reductase (N2OR), and ammonia monooxygenase (AMO) activities were greatly stimulated by biochar or biogas residue rather than their combined addition. Pearson regression analysis indicated that N2O emission negatively correlated with ammonium and positively correlated with nosZ, nirK, 18S rDNA, total nitrogen, and nitrate (P < 0.05).
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Affiliation(s)
- Nanyi Wang
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China
| | - Mukesh Kumar Awasthi
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, China
| | - Junting Pan
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Shilin Jiang
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China; State Key Laboratory of Utilization of Woody Oil Resource, Hunan Academy of Forestry, Changsha 410029, China
| | - Fachun Wan
- College of Animal Science and Technology, Hunan Agricultural University, Changsha 410128, China
| | - Xu Lin
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China
| | - Binghua Yan
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China
| | - Jiachao Zhang
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China.
| | - Lihua Zhang
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China
| | - Hongli Huang
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, China
| | - Hui Li
- State Key Laboratory of Utilization of Woody Oil Resource, Hunan Academy of Forestry, Changsha 410029, China
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Zhao L, Xue L, Wang L, Liu C, Li Y. Simultaneous heterotrophic and FeS 2-based ferrous autotrophic denitrification process for low-C/N ratio wastewater treatment: Nitrate removal performance and microbial community analysis. Sci Total Environ 2022; 829:154682. [PMID: 35307420 DOI: 10.1016/j.scitotenv.2022.154682] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2021] [Revised: 03/05/2022] [Accepted: 03/15/2022] [Indexed: 06/14/2023]
Abstract
Heterotrophic-autotrophic denitrification reduces the cost of wastewater treatment and the risk of excess chemical oxygen demanded (COD) in the effluent. A mixotrophic denitrification system involving mixed heterotrophic and ferrous autotrophic bacteria was investigated to treat low-C/N ratio (C/N, defined as chemical oxygen demand (COD)/total nitrogen (TN)) wastewater with pyrite and organic carbon as electron donors. The system yielded effluent total nitrogen (TN) of 0.38 mg/L in 48 h due to a synergistic effect when the C/N ratio was 0.5 and influent nitrate nitrogen (NO3--N) was 20 mg/L; this TN value was significantly lower than those of the heterotrophic system (14.08 mg/L) and ferrous autotrophic system (12.00 mg/L). The highest abundance of the narG gene was observed in the mixotrophic denitrification system, along with more abundant microbial species. The dominant denitrification bacteria in each system included Thaurea, Ferritrophicum, Pseudomonas, and Thiobacillus, which varied with the initial inoculum source and the environment. Nevertheless, the abundance of the heterotrophic bacteria Thaurea decreased with prolonged operation of the systems. Together, these results implied that the simultaneous heterotrophic and FeS2-based ferrous autotrophic denitrification process can be an alternative approach for the treatment of low-C/N ratio wastewater.
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Affiliation(s)
- Lianfang Zhao
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake, Ministry of Education, College of Environment, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Xikang Road, Nanjing 210098, China.
| | - Liuying Xue
- College of Environment, Hohai University, Xikang Road, Nanjing 210098, China
| | - Li Wang
- College of Environment, Hohai University, Xikang Road, Nanjing 210098, China
| | - Cheng Liu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake, Ministry of Education, College of Environment, Hohai University, Nanjing 210098, China
| | - Ying Li
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake, Ministry of Education, College of Environment, Hohai University, Nanjing 210098, China
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10
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Li H, Liu Z, Tan C, Zhang X, Zhang Z, Bai X, Wu L, Yang H. Efficient nitrogen removal from stormwater runoff by bioretention system: The construction of plant carbon source-based heterotrophic and sulfur autotrophic denitrification process. Bioresour Technol 2022; 349:126803. [PMID: 35124218 DOI: 10.1016/j.biortech.2022.126803] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Revised: 01/25/2022] [Accepted: 01/28/2022] [Indexed: 06/14/2023]
Abstract
The plant carbon source and sulfur were selected as the denitrification electron donors and filled in the internal water storage zone (IWSZ) of bioretention system to establish excellent mixotrophic denitrification system, which was beneficial to waste recycling and showed very high nitrate nitrogen removal efficiency (approximately 94%). The ammonia nitrogen, total nitrogen, and chemical oxygen demand removal efficiencies could reach 79.41%, 85.89%, and 74.07%, respectively. Mechanism study revealed the synergistic degradation effect was existed between acetic acid released from plant carbon source and the generated sulfate, which improved the S/CH3COOH mediated nitrate nitrogen removal reactions. Autotrophic denitrification occurred mainly in the upper layer of IWSZ, and the dominant bacteria were Thiobacillus. While in the lower layer, the dominant bacteria were mainly related to organic matter utilization and heterotrophic denitrification. The abundance of narG, nirK, nirS, and nosZ functional genes in the upper layer was significantly higher than the lower layers.
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Affiliation(s)
- Haiyan Li
- Beijing Engineering Research Center of Sustainable Urban Sewage System Construction and Risk Control, Beijing University of Civil Engineering and Architecture, Beijing 100044, China; Beijing Advanced Innovation Center for Future Urban Design, Beijing 100044, China
| | - Zhaoying Liu
- Beijing Engineering Research Center of Sustainable Urban Sewage System Construction and Risk Control, Beijing University of Civil Engineering and Architecture, Beijing 100044, China; Beijing Advanced Innovation Center for Future Urban Design, Beijing 100044, China
| | - Chaohong Tan
- Beijing Engineering Research Center of Sustainable Urban Sewage System Construction and Risk Control, Beijing University of Civil Engineering and Architecture, Beijing 100044, China; Beijing Advanced Innovation Center for Future Urban Design, Beijing 100044, China
| | - Xiaoran Zhang
- Beijing Engineering Research Center of Sustainable Urban Sewage System Construction and Risk Control, Beijing University of Civil Engineering and Architecture, Beijing 100044, China; Beijing Advanced Innovation Center for Future Urban Design, Beijing 100044, China
| | - Ziyang Zhang
- Beijing Engineering Research Center of Sustainable Urban Sewage System Construction and Risk Control, Beijing University of Civil Engineering and Architecture, Beijing 100044, China; Beijing Advanced Innovation Center for Future Urban Design, Beijing 100044, China
| | - Xiaojuan Bai
- Beijing Engineering Research Center of Sustainable Urban Sewage System Construction and Risk Control, Beijing University of Civil Engineering and Architecture, Beijing 100044, China; Beijing Advanced Innovation Center for Future Urban Design, Beijing 100044, China
| | - Liyuan Wu
- Beijing Engineering Research Center of Sustainable Urban Sewage System Construction and Risk Control, Beijing University of Civil Engineering and Architecture, Beijing 100044, China; Beijing Advanced Innovation Center for Future Urban Design, Beijing 100044, China.
| | - Hua Yang
- Beijing Engineering Research Center of Sustainable Urban Sewage System Construction and Risk Control, Beijing University of Civil Engineering and Architecture, Beijing 100044, China; Beijing Advanced Innovation Center for Future Urban Design, Beijing 100044, China
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11
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Pacheco PJ, Cabrera JJ, Jiménez-Leiva A, Bedmar EJ, Mesa S, Tortosa G, Delgado MJ. Effect of Copper on Expression of Functional Genes and Proteins Associated with Bradyrhizobium diazoefficiens Denitrification. Int J Mol Sci 2022; 23:ijms23063386. [PMID: 35328804 PMCID: PMC8951191 DOI: 10.3390/ijms23063386] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2022] [Revised: 03/16/2022] [Accepted: 03/17/2022] [Indexed: 12/16/2022] Open
Abstract
Nitrous oxide (N2O) is a powerful greenhouse gas that contributes to climate change. Denitrification is one of the largest sources of N2O in soils. The soybean endosymbiont Bradyrhizobium diazoefficiens is a model for rhizobial denitrification studies since, in addition to fixing N2, it has the ability to grow anaerobically under free-living conditions by reducing nitrate from the medium through the complete denitrification pathway. This bacterium contains a periplasmic nitrate reductase (Nap), a copper (Cu)-containing nitrite reductase (NirK), a c-type nitric oxide reductase (cNor), and a Cu-dependent nitrous oxide reductase (Nos) encoded by the napEDABC, nirK, norCBQD and nosRZDFYLX genes, respectively. In this work, an integrated study of the role of Cu in B. diazoefficiens denitrification has been performed. A notable reduction in nirK, nor, and nos gene expression observed under Cu limitation was correlated with a significant decrease in NirK, NorC and NosZ protein levels and activities. Meanwhile, nap expression was not affected by Cu, but a remarkable depletion in Nap activity was found, presumably due to an inhibitory effect of nitrite accumulated under Cu-limiting conditions. Interestingly, a post-transcriptional regulation by increasing Nap and NirK activities, as well as NorC and NosZ protein levels, was observed in response to high Cu. Our results demonstrate, for the first time, the role of Cu in transcriptional and post-transcriptional control of B. diazoefficiens denitrification. Thus, this study will contribute by proposing useful strategies for reducing N2O emissions from agricultural soils.
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12
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Sun H, Jiang S. A review on nirS-type and nirK-type denitrifiers via a scientometric approach coupled with case studies. Environ Sci Process Impacts 2022; 24:221-232. [PMID: 35072673 DOI: 10.1039/d1em00518a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The denitrification process plays an important role in improving water quality and is a source/sink of nitrous oxide to the atmosphere. The second important rate-limiting step of the denitrification process is catalyzed by two enzymes with different structures and unrelated evolutionary relationships, namely, the Cu-type nitrite reductase encoded by the nirK gene and the cytochrome cd1-type nitrite reductase encoded by the nirS gene. Although some relevant reviews have been published on denitrifiers, most of these reviews do not include statistical analysis, and do not compare the nirS and nirK communities in-depth. However, a systematic study of the nirS-type and nirK-type denitrifying communities and their response to environmental factors in different ecosystems is needed. In this review, a scientometric approach combined with case studies was used to study the nirS-type and nirK-type denitrifiers. The scientometric approach demonstrated that Pseudomonas, Paracoccus, and Thauera are the most frequently mentioned nirS-type denitrifiers, while Pseudomonas and Bradyrhizobium are the top two most frequently mentioned nirK-type denitrifiers. Among various environmental factors, the concentrations of nitrite, nitrate and carbon sources were widely reported factors that can influence the abundance and structure of nirS-type and nirK-type denitrifying communities. Case studies indicated that Bradyrhizobium was the major genus detected by high-throughput sequencing in both nirS and nirK-type denitrifiers in soil systems. nirS-type denitrifiers are more sensitive to the soil type, soil moisture, pH, and rhizosphere effect than nirK. To clarify the relationships between denitrifying communities and environmental factors, the DNA stable isotope probe combined with metagenomic sequencing is needed for new denitrifier detections.
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Affiliation(s)
- Haishu Sun
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Shanxue Jiang
- School of Ecology and Environment, Beijing Technology and Business University, Beijing 100048, China.
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13
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Önal N, Avşar C, Aras ES. Detection of multidrug-resistant Pseudomonas isolates and distribution of denitrifying functional genes. Int J Environ Health Res 2021; 31:1015-1031. [PMID: 31994901 DOI: 10.1080/09603123.2020.1720619] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2019] [Accepted: 01/21/2020] [Indexed: 06/10/2023]
Abstract
The aim of this study was to characterize 59 Pseudomonas strains isolated from soil samples in terms of Inducible Beta-Lactamase (IBL), fluorescence production, antibiotic resistance, presence of plasmids and genetic diversity, as well as denitrification functional genes. Fourteen out of fifty-nine (23.7%) Pseudomonas isolates were identified as multidrug-resistant. To evaluate the contribution of denitrification functional genes to genetic diversity, PCR products were screened by RFLP. It was determined that the 18, 6 and 22 out of 59 isolate harbored nirS, nirK and nosZ genes, respectively. It was found that the 37 isolates were nosZ-negative. Thus, these results suggest that nosZ gene-missing pseudomonad denitrifiers are partly contribute to N2O emission. Moreover, nirS, nirK and nosZ genes were found to be positive with IBL and negatively correlated with fluorescence production. These results suggest that Pseudomonas species have important roles in soil and even in biosphere due to their diversity and genetic factors.
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Affiliation(s)
- Nur Önal
- Department of Biology, Faculty of Arts and Sciences, Sinop University, Sinop, Turkey
| | - Cumhur Avşar
- Department of Biology, Faculty of Arts and Sciences, Sinop University, Sinop, Turkey
| | - E Sümer Aras
- Department of Biology, Faculty of Science, Ankara University, Ankara, Turkey
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14
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Liu S, Chen Y, Xiao L. Metagenomic insights into mixotrophic denitrification facilitated nitrogen removal in a full-scale A2/O wastewater treatment plant. PLoS One 2021; 16:e0250283. [PMID: 33857258 PMCID: PMC8049308 DOI: 10.1371/journal.pone.0250283] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2020] [Accepted: 04/01/2021] [Indexed: 11/18/2022] Open
Abstract
Wastewater treatment plants (WWTPs) are important for pollutant removal from wastewater, elimination of point discharges of nutrients into the environment and water resource protection. The anaerobic/anoxic/oxic (A2/O) process is widely used in WWTPs for nitrogen removal, but the requirement for additional organics to ensure a suitable nitrogen removal efficiency makes this process costly and energy consuming. In this study, we report mixotrophic denitrification at a low COD (chemical oxygen demand)/TN (total nitrogen) ratio in a full-scale A2/O WWTP with relatively high sulfate in the inlet. Nitrogen and sulfur species analysis in different units of this A2/O WWTP showed that the internal sulfur cycle of sulfate reduction and reoxidation occurred and that the reduced sulfur species might contribute to denitrification. Microbial community analysis revealed that Thiobacillus, an autotrophic sulfur-oxidizing denitrifier, dominated the activated sludge bacterial community. Metagenomics data also supported the potential of sulfur-based denitrification when high levels of denitrification occurred, and sulfur oxidation and sulfate reduction genes coexisted in the activated sludge. Although most of the denitrification genes were affiliated with heterotrophic denitrifiers with high abundance, the narG and napA genes were mainly associated with autotrophic sulfur-oxidizing denitrifiers. The functional genes related to nitrogen removal were actively expressed even in the unit containing relatively highly reduced sulfur species, indicating that the mixotrophic denitrification process in A2/O could overcome not only a shortage of carbon sources but also the inhibition by reduced sulfur of nitrification and denitrification. Our results indicate that a mixotrophic denitrification process could be developed in full-scale WWTPs and reduce the requirement for additional carbon sources, which could endow WWTPs with more flexible and adaptable nitrogen removal.
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Affiliation(s)
- Shulei Liu
- School of the Environment, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University, Nanjing, China
| | - Yasong Chen
- School of the Environment, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University, Nanjing, China
| | - Lin Xiao
- School of the Environment, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University, Nanjing, China
- * E-mail:
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15
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Wang M, Wu J, Zhou T, Liang Y, Zheng L, Sun Y. Effects of copper and florfenicol on nirS- and nirK-type denitrifier communities and related antibiotic resistance in vegetable soils. Ecotoxicol Environ Saf 2021; 213:112011. [PMID: 33592374 DOI: 10.1016/j.ecoenv.2021.112011] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2019] [Revised: 12/20/2020] [Accepted: 01/28/2021] [Indexed: 06/12/2023]
Abstract
Denitrification play an important role in nitrogen cycle and is affected by veterinary drugs entering agricultural soils. In the present study, the effects of copper and florfenicol on denitrification, related antibiotic resistance and environmental variables were characterized using real-time quantitative PCR (qPCR) and amplicon sequencing in a short-term (30 d) soil model experiment. Drug additions significantly decreased the nirS gene abundance (P < 0.05) but maximized the abundance of gene nirK in soil containing florfenicol and moderate copper levels (150 mg kg-1). Surprisingly, copper additions decreased the fexB gene abundance, however, the abundance of gene pcoD significantly increased in soils containing florfenicol, moderate copper levels (150 mg kg-1), and florfenicol and low copper levels (30 mg kg-1), respectively (P < 0.05). Overall, the nirK-type community composition was more complex than that of nirS-type but Proteobacteria predominated (> 90%) in both communities. Correlation analysis indicated that the gene abundance of fexB was highly correlated with NH4+-N (P < 0.05) and NO3--N (P < -0.01), and floR gene abundance was positively correlated with nirK (P < 0.01). Besides, the abundance of nirS-type genera Bradyrhizobium and Pseudomonas were obviously related to total organic matter (TOM), total nitrogen (TN) or total phosphorus (TP) (P < 0.05), while the abundance of nirK-type Rhizobium, Sphingomonas and Bosea showed a significantly correlated with TOM, TN or copper contents (P < 0.05). Taken together, copper and florfenicol contamination increased the possibility of durg resistance genes spread in agricultural soils through nitrogen transformation.
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Affiliation(s)
- Mei Wang
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Laboratory of Safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China
| | - Jing Wu
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Laboratory of Safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China
| | - Tong Zhou
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Laboratory of Safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China
| | - Yi Liang
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Laboratory of Safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China
| | - Lixuan Zheng
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Laboratory of Safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China
| | - Yongxue Sun
- Guangdong Provincial Key Laboratory of Veterinary Pharmaceutics Development and Safety Evaluation, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Laboratory of Safety Evaluation (Environmental Assessment) of Veterinary Drugs, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China; National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, 483 Wushan Road, Guangzhou 510642, China.
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16
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Du L, Zhao Y, Wang C, Wu Z, Zhou Q. Effects of plant on denitrification pathways in integrated vertical-flow constructed wetland treating swine wastewater. Ecotoxicol Environ Saf 2020; 201:110752. [PMID: 32474208 DOI: 10.1016/j.ecoenv.2020.110752] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2020] [Revised: 04/25/2020] [Accepted: 05/08/2020] [Indexed: 06/11/2023]
Abstract
Plant is an important part of constructed wetland (CW), while, its potential effect on nitrogen cycling is complicated. Herein, integrated vertical-flow constructed wetland (IVCW) in pilot-scale planted with Arundo donax (Planted System, PS) was constructed to treat swine wastewater. The removal performance of nitrogen in PS, effects of plant on the microbial community structure and nitrogen related function genes were revealed. Results showed that, Arundo donax planting enhanced the removal rate of TN, compared to unplanted IVCWs, the absolute abundance of Pseudomonas, Acinetobacter and Bacillus in PS was significantly increased, as well as the absolute abundance of functional gene (amoA, nxrA, nirK, nirS and nosZ). The denitrification process was mainly occurred in down-flow cell of PS with significantly higher abundant of nirK and nosZ (P < 0.05). These findings suggested that Arundo donax planting in IVCWs with zeolite as substrate promoted the growth of denitrifying microorganisms under higher pollutant load. In addition, the increased abundant of nosZ and the ratio of nosZ/∑nir indicating a lower genetic potential for N2O release. Our research provides new insight into the potential application of plant on the purification of swine wastewater.
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Affiliation(s)
- Lu Du
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, PR China; State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China; College of Resources and Environmental Engineering, Wuhan University of Technology, Wuhan, 430070, PR China
| | - Yuqing Zhao
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China; College of Resources and Environmental Engineering, Wuhan University of Technology, Wuhan, 430070, PR China
| | - Chuan Wang
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Zhenbin Wu
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Qiaohong Zhou
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China.
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17
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Qian Y, Zhang Y, Zuh AA, Qiao W. New application of rutin: Repair the toxicity of emerging perfluoroalkyl substance to Pseudomonas stutzeri. Ecotoxicol Environ Saf 2020; 201:110879. [PMID: 32559694 DOI: 10.1016/j.ecoenv.2020.110879] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2020] [Revised: 06/03/2020] [Accepted: 06/08/2020] [Indexed: 06/11/2023]
Abstract
Per- and polyfluoroalkyl substances (PFASs) are toxic to microorganisms, thereby affecting microbial communities in sludge and soil, but how to repair the toxicity of microorganisms remains unclear. In this study, rutin, an antioxidant, was added into a culture medium with an aerobic denitrification bacteria, Pseudomonas stutzeri, under the exposure of sodium perfluorononyloxy-benzenesulfonate (OBS) to evaluate the repair mechanisms of rutin to the toxicity of OBS to the bacteria. The results showed that rutin could repair the damage of OBS to cell structures, and reduce the death rates of the bacteria under OBS exposure. The dosage of rutin reduced the effect on the inhibition of denitrification ability of P. stutzeri under OBS exposure. Compared with the bacteria exposed to single OBS, the dosage of rutin resulted in that the death rates recovered from 96.2% to 66.4%, the growth inhibition rate decreased from 46.5% to 15.8%, the total nitrogen removal rate recovered from 66.9% to 100%, and the NO2- content recovered from 34.5 mg/L to 0.22 mg/L. The expressions of key denitrification genes (napA, nirS, norB, nosZ) were recovered after adding rutin under OBS exposure. Rutin changed the positive rate of reactive oxygen species, the relative superoxide dismutase and catalase activities in the bacteria which exposed to OBS. The mechanism by which rutin repaired the toxicity of OBS to P. stutzeri related to inhibiting the activities of antioxidant and denitrification enzymes rather than affecting the expressions of genes involved in these enzymes. This study sheds light on the repair method of micro-organics and reveals the repair mechanisms under PFASs exposure.
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Affiliation(s)
- Yi Qian
- Department of Environmental Engineering, College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China
| | - Yunhao Zhang
- Department of Environmental Engineering, College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China
| | - Achuo Anitta Zuh
- Department of Environmental Engineering, College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China
| | - Weichuan Qiao
- Department of Environmental Engineering, College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China.
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18
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Yu L, Liu S, Jiang L, Wang X, Xiao L. Insight into the nitrogen accumulation in urban center river from functional genes and bacterial community. PLoS One 2020; 15:e0238531. [PMID: 32877444 PMCID: PMC7467313 DOI: 10.1371/journal.pone.0238531] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2020] [Accepted: 08/18/2020] [Indexed: 01/26/2023] Open
Abstract
Along with urbanization, the intensified nitrogen pollution in urban rivers and the form of black-odor rivers has become one of the biggest concerns. Better understanding of the nitrogen transformations and microbial mechanisms occurring within urban rivers could help to manage their water quality. In this study, pollution characteristics, potential nitrogen removal rate, composition and function of bacterial community, and abundance of functional genes associated with nitrogen transformation were comparatively investigated in a typical urban river (FC) and a suburban river (LH). Compared with LH, FC was characterized by higher content of nutrients, lower potential nitrogen removal rate and lower abundance of functional genes associated with nitrogen transformation in both overlying water and sediment, especially in summer. Sediment dissolved organic matter characterized by excitation−emission matrix (EEM) showed that FC was more severely polluted by high nitrogen organic matter. Our results revealed that anammox was the main nitrogen removal pathway in both rivers and potential nitrogen removal rates decreased significantly in summer. Bacterial community analysis showed that the benthic communities were more severely influenced by the pollutant than aquatic ones in both rivers. Furthermore, the FC benthic community was dominated by anaerobic respiring, fermentative, sulfate reduction bacteria. Quantitatively, the denitrification rate showed a significant positive correlation with the abundance of denitrification genes, whilst the anammox rate was significantly negatively correlated with bacterial diversity. Meanwhile, NH4+-N had a significant negative correlation to both denitrification and anammox in sediment. Taken together, the results indicated that the increased nitrogen pollutants in an urban river altered nitrogen removal pathways and bacterial communities, which could in turn exacerbate the nitrogen pollution to this river.
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Affiliation(s)
- Lei Yu
- School of the Environment, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University, Nanjing, China
| | - ShuLei Liu
- School of the Environment, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University, Nanjing, China
| | - LiJuan Jiang
- School of the Environment, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University, Nanjing, China
| | - XiaoLin Wang
- School of the Environment, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University, Nanjing, China
| | - Lin Xiao
- School of the Environment, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University, Nanjing, China
- * E-mail:
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19
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Wang H, Chen N, Feng C, Deng Y, Gao Y. Research on efficient denitrification system based on banana peel waste in sequencing batch reactors: Performance, microbial behavior and dissolved organic matter evolution. Chemosphere 2020; 253:126693. [PMID: 32464770 DOI: 10.1016/j.chemosphere.2020.126693] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2020] [Revised: 03/19/2020] [Accepted: 04/01/2020] [Indexed: 06/11/2023]
Abstract
Nitrate pollution presents a serious threat to the environment and public health. As an excellent heterotrophic denitrification carbon source, banana peel (a kind of agricultural waste) provides a feasible alternative to deal with the persistent high concentrations of nitrate pollution. Although the feasibility and economy of banana peel for denitrification have already been reported, the long-term stability and mechanism were still unclear. The coupling mechanism of organic matters and microorganism in the denitrification process was systematically investigated through a 17-cycle experiment. The results showed that significant NO3--N removal load and rate of 164.42 mg/g and 4.69 mg/(L·h) after long-term tests could be obtained. Organic matter analysis and 16S rRNA sequencing showed that the evolution of organic matter was dominated by Anaerolineaceae (fermenting bacteria), and, in the final step, the humification of organic matter was realized. Moreover, the presence of Lentimicrobium (denitrifying bacteria) was indispensable for the continuous removal of high concentrations of nitrate. The main functional gene of nitrogen transformation in this reaction system was NirS (haem-containing). This lab-scale heterotrophic denitrification process could contribute to a better understanding of the carbon and nitrogen cycles in the biogeochemical cycles to some extent, and it also provides a reference for the construction of highly efficient nitrate degradation reactors, based on agricultural wastes.
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Affiliation(s)
- Haishuang Wang
- School of Water Resources and Environment, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), Beijing, 100083, China
| | - Nan Chen
- School of Water Resources and Environment, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), Beijing, 100083, China.
| | - Chuanping Feng
- School of Water Resources and Environment, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), Beijing, 100083, China.
| | - Yang Deng
- School of Water Resources and Environment, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), Beijing, 100083, China
| | - Yu Gao
- College of Chemical and Environmental Engineering, Shandong University of Science and Technology, Qingdao, 266590, China
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20
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Rahman MM, Nahar K, Ali MM, Sultana N, Karim MM, Adhikari UK, Rauf M, Azad MAK. Effect of Long-Term Pesticides and Chemical Fertilizers Application on the Microbial Community Specifically Anammox and Denitrifying Bacteria in Rice Field Soil of Jhenaidah and Kushtia District, Bangladesh. Bull Environ Contam Toxicol 2020; 104:828-833. [PMID: 32385520 DOI: 10.1007/s00128-020-02870-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2020] [Accepted: 05/02/2020] [Indexed: 06/11/2023]
Abstract
In this study, we investigated the effect of long-term pesticides and chemical fertilizers application on the microbial communities specifically anammox and denitrification bacteria in rice field soils. The abundances of microbial communities (16S rDNA), anammox (hszB), and denitrification (narG, nirK, nirS, and nosZ) genes were quantified by q-PCR. 10 pesticides (5 insecticides, 3 fungicides and 2 herbicides) and chemical fertilizers urea, potassium, phosphate, DAP (di-ammonium phosphate), gypsum, and boric acid were used by local farmers. Nitrate, SOC (ammonia, soil organic carbon), N and C content significantly (p < 0.05) decreased in the rice field soils as compared to the upland soils. Abundance of 16S rDNA, hszB, narG, nirK, nirS, and nosZ genes significantly (p < 0.05) decreased in the rice field soils and positively correlated with chemical properties of soils. Our results provide useful information and further maintenance should be instilled to the potential of chemical and biological factors decreased in rice field soils.
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Affiliation(s)
- M Mizanur Rahman
- Department of Biotechnology and Genetic Engineering, Islamic University, Kushtia, 7003, Bangladesh.
| | - Kamrun Nahar
- Department of Biotechnology and Genetic Engineering, Islamic University, Kushtia, 7003, Bangladesh
| | - Md Meraj Ali
- Department of Biotechnology and Genetic Engineering, Islamic University, Kushtia, 7003, Bangladesh
| | - Nasrin Sultana
- Department of Agroforestry and Environmental Science, Sher-e-Bangla Agricultural University, Sher-e-Bangla Nagar, Dhaka, 1207, Bangladesh
| | - Mohammad Minnatul Karim
- Department of Biotechnology and Genetic Engineering, Islamic University, Kushtia, 7003, Bangladesh
| | - Utpal Kumar Adhikari
- School of Medicine, Western Sydney University, Locked Bag 1797, Penrith, NSW, 2751, Australia
| | - Mamoona Rauf
- Department of Botany, Garden Campus, Abdul Wali Khan University Mardan, Mardan, 23200, KP, Pakistan
| | - Md Abul Kalam Azad
- Department of Biotechnology and Genetic Engineering, Islamic University, Kushtia, 7003, Bangladesh
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21
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Zheng Y, Hou L, Zhang Z, Gao D, Yin G, Han P, Dong H, Liang X, Yang Y, Liu M. Community dynamics and activity of nirS-harboring denitrifiers in sediments of the Indus River Estuary. Mar Pollut Bull 2020; 153:110971. [PMID: 32275529 DOI: 10.1016/j.marpolbul.2020.110971] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/26/2019] [Revised: 02/04/2020] [Accepted: 02/10/2020] [Indexed: 06/11/2023]
Abstract
Denitrification is an important pathway for reactive nitrogen removal from aquatic ecosystems. In this study, the biodiversity, abundance, and activity of cytochrome cd1-type nitrate reductase gene (nirS)-harboring denitrifiers in the sediments of the Indus River Estuary were examined by molecular and isotope-tracing techniques. Results showed that the nirS-harboring denitrifier communities showed significant geographical variations along the estuarine salinity gradient. Real-time quantitative PCR showed that the abundance of nirS-harboring denitrifiers ranged from 5.3 × 106 to 2.5 × 108 copies g-1, without significant spatiotemporal variation. The potential rates of denitrification varied from 0.01 to 6.27 μmol N kg-1 h-1 and correlated significantly to TOC and Fe(II) (P < 0.05). On the basis of 15N isotope-tracing experiments, the denitrification process contributed 18.4-99.4% to the total nitrogen loss in the sediments of the Indus River Estuary. This study provides novel insights into the microbial mechanism of nitrogen removal process in estuarine ecosystems.
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Affiliation(s)
- Yanling Zheng
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China; School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China.
| | - Lijun Hou
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China.
| | - Zongxiao Zhang
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China
| | - Dengzhou Gao
- School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China
| | - Guoyu Yin
- School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China
| | - Ping Han
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China; School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China
| | - Hongpo Dong
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China
| | - Xia Liang
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China
| | - Yi Yang
- School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China
| | - Min Liu
- School of Geographic Sciences, East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China; Key Laboratory of Geographic Information Science (Ministry of Education), East China Normal University, 500 Dongchuan Road, Minhang District, Shanghai 200241, China
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22
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van Grinsven S, Sinninghe Damsté JS, Abdala Asbun A, Engelmann JC, Harrison J, Villanueva L. Methane oxidation in anoxic lake water stimulated by nitrate and sulfate addition. Environ Microbiol 2020; 22:766-782. [PMID: 31814267 PMCID: PMC7027835 DOI: 10.1111/1462-2920.14886] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2019] [Revised: 11/21/2019] [Accepted: 12/04/2019] [Indexed: 11/30/2022]
Abstract
Methanotrophic bacteria play a key role in limiting methane emissions from lakes. It is generally assumed that methanotrophic bacteria are mostly active at the oxic-anoxic transition zone in stratified lakes, where they use oxygen to oxidize methane. Here, we describe a methanotroph of the genera Methylobacter that is performing high-rate (up to 72 μM day-1 ) methane oxidation in the anoxic hypolimnion of the temperate Lacamas Lake (Washington, USA), stimulated by both nitrate and sulfate addition. Oxic and anoxic incubations both showed active methane oxidation by a Methylobacter species, with anoxic rates being threefold higher. In anoxic incubations, Methylobacter cell numbers increased almost two orders of magnitude within 3 days, suggesting that this specific Methylobacter species is a facultative anaerobe with a rapid response capability. Genomic analysis revealed adaptations to oxygen-limitation as well as pathways for mixed-acid fermentation and H2 production. The denitrification pathway was incomplete, lacking the genes narG/napA and nosZ, allowing only for methane oxidation coupled to nitrite-reduction. Our data suggest that Methylobacter can be an important driver of the conversion of methane in oxygen-limited lake systems and potentially use alternative electron acceptors or fermentation to remain active under oxygen-depleted conditions.
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Affiliation(s)
- Sigrid van Grinsven
- Department of Marine Microbiology and BiogeochemistryNIOZ Royal Netherlands Institute for Sea Research, and Utrecht UniversityDen BurgThe Netherlands
| | - Jaap S. Sinninghe Damsté
- Department of Marine Microbiology and BiogeochemistryNIOZ Royal Netherlands Institute for Sea Research, and Utrecht UniversityDen BurgThe Netherlands
- Department of Earth Sciences, Faculty of GeosciencesUtrecht UniversityUtrechtThe Netherlands
| | - Alejandro Abdala Asbun
- Department of Marine Microbiology and BiogeochemistryNIOZ Royal Netherlands Institute for Sea Research, and Utrecht UniversityDen BurgThe Netherlands
| | - Julia C. Engelmann
- Department of Marine Microbiology and BiogeochemistryNIOZ Royal Netherlands Institute for Sea Research, and Utrecht UniversityDen BurgThe Netherlands
| | - John Harrison
- Washington State University Vancouver, School of the EnvironmentVancouverWA98686USA
| | - Laura Villanueva
- Department of Marine Microbiology and BiogeochemistryNIOZ Royal Netherlands Institute for Sea Research, and Utrecht UniversityDen BurgThe Netherlands
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23
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Yin X, Lu J, Wang Y, Liu G, Hua Y, Wan X, Zhao J, Zhu D. The abundance of nirS-type denitrifiers and anammox bacteria in rhizospheres was affected by the organic acids secreted from roots of submerged macrophytes. Chemosphere 2020; 240:124903. [PMID: 31563100 DOI: 10.1016/j.chemosphere.2019.124903] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2019] [Revised: 09/17/2019] [Accepted: 09/17/2019] [Indexed: 06/10/2023]
Abstract
Excessive nitrogen has been a global concern to cause lake eutrophication. The denitrification and anammox processes are considered to be effective biological pathways for nitrogen removal. Submerged macrophytes also play a key role in the nitrogen cycle of lakes. However, the mechanism of submerged macrophytes on regulating biological nitrogen removal pathways has not been well quantified. Therefore, this study investigated the impacts of submerged macrophytes on the community structures and abundance of the nirS-type denitrifiers and anammox bacteria in the rhizospheres. The qPCR results indicated that the abundance of two bacteria in the near-rhizospheres of submerged macrophytes was significantly lower than the root compartments and non-rhizospheres, while the concentrations of organic acids in the near-rhizospheres were higher than those of the root compartments and non-rhizospheres. Redundancy analysis results illustrated that concentrations of NO3--N, NO2--N, citric acid and oxalic acid were the key environmental indicators which had the significant impact on the microbial community. The concentrations of citric acid and oxalic acid were negatively correlated with the nirS-type denitrifiers abundance, and the oxalic acid concentrations were negatively correlated with the anammox bacteria abundance. These results indicated that submerged macrophytes could reduce the abundance of nirS-type denitrifiers and anammox bacteria by releasing organic acids. In addition, the highest diversity of denitrifier community were found in the rhizosphere of the Hydrilla verticillata, while the highest diversity of anammox community were found in the Potamogeton maackianus rhizosphere. These results indicate that the impacts of submerged macrophytes on the biological nitrogen removal pathways were species-dependent.
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Affiliation(s)
- Xingjia Yin
- Laboratory of Eco-Environmental Engineering Research of Huazhong Agricultural University, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, Wuhan, 430070, China
| | - Jing Lu
- Australian Rivers Institute, Griffith University, Nathan, QLD, 4111, Australia
| | - Yuchun Wang
- State Key Laboratory of Simulation and Regulation of Water Cycle in River Basin, Beijing, 10038, China; Department of Water Environment, China Institute of Water Resources and Hydropower Research, Beijing, 10038, China
| | - Guanglong Liu
- Laboratory of Eco-Environmental Engineering Research of Huazhong Agricultural University, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, Wuhan, 430070, China
| | - Yumei Hua
- Laboratory of Eco-Environmental Engineering Research of Huazhong Agricultural University, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, Wuhan, 430070, China
| | - Xiaoqiong Wan
- Laboratory of Eco-Environmental Engineering Research of Huazhong Agricultural University, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, Wuhan, 430070, China
| | - Jianwei Zhao
- Laboratory of Eco-Environmental Engineering Research of Huazhong Agricultural University, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, Wuhan, 430070, China.
| | - Duanwei Zhu
- Laboratory of Eco-Environmental Engineering Research of Huazhong Agricultural University, Wuhan, 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, Wuhan, 430070, China
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24
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Chen T, Liu Y, Zhang B, Sun L. Plant rhizosphere, soil microenvironment, and functional genes in the nitrogen removal process of bioretention. Environ Sci Process Impacts 2019; 21:2070-2079. [PMID: 31598615 DOI: 10.1039/c9em00296k] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The coupling effect of plant, soil, and microbes in bioretention provides conditions conductive for nitrogen (N) removal via nitrification, accretion, denitrification, and dissimilatory nitrate reduction to ammonium (DNRA). To assess this process, the effects of plant rhizosphere, isotope labelled inorganic N distribution, soil microenvironment variation, and functional genes' abundance at different pollutant loads in simulated bioretention were evaluated. The results show that both nitrification and denitrification rates decreased with soil depths, and the maximum overall nitrification efficiency was about 3.4-4.4 times higher than that of denitrification. The overall nitrification rates decreased but the overall denitrification rates increased with pollutant loads, showing the limitation of bioretention for N removal at high loads within limited retention time. The radial oxygen loss (ROL) from the roots increased with the pollutant load. DO was higher while pH was lower in the rhizosphere soil compared with those in the soil of the same depth; thus, the nitrification rates was relative higher while the denitrification rates were lower in the rhizosphere soil. The sequence of nitrification rates was O > I > H at all soil depths, which is consistent with the DO and pH profiles of different plants at different loads. The abundance of 16S rRNA genes, nitrifying genes (amoA, nxrB), and denitrifying genes (narG, nirK, qnorB and nosZ) in the soil of plant group were higher than those of the control group without plant, suggesting that plants help increasing soil microbial abundance. The abundance of 16S rRNA genes, nitrifying genes, and denitrifying genes decreased with soil depth. More copies of denitrifying genes in the topsoil, which was thought as aerobic conditions, suggests that denitrification may occur in anoxic microenvironment of the topsoil or during stormwater retention period. Moreover, the root exudates and other organic matter accumulated in the topsoil may provide carbon sources for local denitrification in bioretention.
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Affiliation(s)
- Tao Chen
- Key Laboratory of Urban Stormwater System and Water Environment, Ministry of Education, Beijing University of Civil Engineering and Architecture, Beijing 100044, China.
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25
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Yamada T, Tsuji H, Daimon H. Nitrate removal performance and diversity of active denitrifying bacteria in denitrification reactors using poly(L-lactic acid) with enhanced chemical hydrolyzability. Environ Sci Pollut Res Int 2019; 26:36236-36247. [PMID: 31713134 DOI: 10.1007/s11356-019-06722-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2019] [Accepted: 10/07/2019] [Indexed: 06/10/2023]
Abstract
Poly(L-lactic acid) (PLLA) can be used as an external electron donor in denitrification reactors to treat drinking water, aquaculture water, and industrial wastewater with an imbalanced carbon/nitrogen ratio. However, for PLLA to function in these applications, its chemical hydrolyzability requires improvement. Although the adjustment of the crystallinity (Xc) is effective in improving the hydrolyzability of PLLA, the condition for the Xc of PLLA, in which a sufficient amount of lactic acid is released for denitrification, must be clarified. Therefore, this study investigated the effective Xc range and optimal PLLA content as an electron donor for continuous nitrate removal in denitrification reactors. This study also explored the abundance, succession, and diversity of active denitrifying bacteria in denitrification reactors. The nitrate removal activity of activated sludge using the highly crystalline PLLA (Xc = 39.4%) was 1.8 mg NO3- -N g MLSS-1 h-1, which is 2.4 times higher than that using the nearly amorphous PLLA (Xc = 0.9%). During the 57 days of operation, the denitrification reactor with 3% (w/v) highly crystalline PLLA continued to completely remove nitrate, with a maximum nitrate removal activity of 22.8 mg NO3- -N g MLSS-1 h-1. The 16S rRNA amplicon sequencing and clone library analyses are using transcripts of two nitrite reductase genes, encoding cytochrome cd1 nitrite reductase, and copper-containing nitrite reductase revealed that bacteria belonging to the families Comamonadaceae, Rhodocyclaceae, and Alcaligenaceae were active denitrifying bacteria in the denitrification reactor using PLLA.
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Affiliation(s)
- Takeshi Yamada
- Department of Applied Chemistry and Life Science, Toyohashi University of Technology, Toyohashi, Aichi, 441-8580, Japan.
| | - Hideto Tsuji
- Department of Applied Chemistry and Life Science, Toyohashi University of Technology, Toyohashi, Aichi, 441-8580, Japan
| | - Hiroyuki Daimon
- Department of Applied Chemistry and Life Science, Toyohashi University of Technology, Toyohashi, Aichi, 441-8580, Japan
- Core for Global Network Innovation in Technology Education, Toyohashi University of Technology, Toyohashi, Aichi, 441-8580, Japan
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26
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Liu T, Kumar Awasthi M, Kumar Awasthi S, Duan Y, Chen H, Zhang Z. Effects of clay on nitrogen cycle related functional genes abundance during chicken manure composting. Bioresour Technol 2019; 291:121886. [PMID: 31377046 DOI: 10.1016/j.biortech.2019.121886] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2019] [Revised: 07/19/2019] [Accepted: 07/22/2019] [Indexed: 06/10/2023]
Abstract
The objective of this study was to identify the effect of clay additive to explore the nitrogen cycling related ammonification, denitrifying genes and their relation N2O and ammonia emission during the chicken manure (CM) composting. The consequences indicated that the additive clay could optimize the environment and improve the NH4+-N into NO3--N transformation. Meanwhile, the results observed that 8% clay amendment was significant correlated the abundance of nifH and nosZ genes. Compared with the other treatments, the 6% and 10% clay treatments observed low abundance of nifH. The heat map indicated that clay amendment could enhance the function genes abundance. The redundancy analysis showed that N2O and ammonia emission among all physiochemical parameters had great relationship with functional genes. Therefore, the addition of 10% clay into CM composting system could efficiently enhance the abundance of nirK and narG genes, and improve the composting with its application.
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Affiliation(s)
- Tao Liu
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, PR China
| | - Mukesh Kumar Awasthi
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, PR China
| | - Sanjeev Kumar Awasthi
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, PR China
| | - Yumin Duan
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, PR China
| | - Hongyu Chen
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, PR China
| | - Zengqiang Zhang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, PR China.
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27
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Yang S, Guo B, Shao Y, Mohammed A, Vincent S, Ashbolt NJ, Liu Y. The value of floc and biofilm bacteria for anammox stability when treating ammonia-rich digester sludge thickening lagoon supernatant. Chemosphere 2019; 233:472-481. [PMID: 31181494 DOI: 10.1016/j.chemosphere.2019.05.287] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2019] [Revised: 05/29/2019] [Accepted: 05/30/2019] [Indexed: 06/09/2023]
Abstract
Ammonia-rich lagoon supernatant was treated using anammox process in an integrated fixed-film activated sludge (IFAS) laboratory reactor. Effective anammox activities were demonstrated over 259 days of operation. The ammonium removal efficiency reached 94% in Phase I with influent concentrations of NH4+, NO2- and chemical oxygen demand (COD) at 250 mg-N/L, 325 mg-N/L, and 145 mg-COD/L, and reached 88% in Phase II at 420 mg-N/L, 525 mg-N/L, and 305 mg-COD/L. When supplemented with nitritation effluent for nitrite sources in Phase III, the influent COD concentration increased to 583 mg-COD/L without loss of ammonia removal efficiency (87%). The specific anammox activity was higher in biofilm than in the suspended flocs (P < 0.05), increased from Phase I to II (P < 0.05), and decreased in Phase III. Ammonia removal related genes were quantified using qPCR. Results showed higher anammox gene (AMX nirS) prevalence in biofilm, while denitrification genes (nosZ and narG) were higher in flocs (P < 0.05). Microbial community analysis showed that the seeded anammox bacteria Candidatus Brocadia was maintained at 19% in the biofilm and only 0.3% in the flocs. The major taxa in the flocs were related to denitrifiers. The floc community was affected largely under high COD conditions, but the biofilm community was not. These results suggest that the anammox activity in biofilm is resilient to high COD loadings, due to the existence of flocs with denitrification activity. The segregation of bacterial communities between biofilm and flocs in the anammox IFAS system resulted in high ammonia removal efficiency and resistance to high organic loadings.
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Affiliation(s)
- Sen Yang
- University of Alberta, Department of Civil and Environmental Engineering, Edmonton, Alberta, T6G 1H9, Canada
| | - Bing Guo
- University of Alberta, Department of Civil and Environmental Engineering, Edmonton, Alberta, T6G 1H9, Canada
| | - Yanxi Shao
- University of Alberta, Department of Civil and Environmental Engineering, Edmonton, Alberta, T6G 1H9, Canada
| | | | - Simon Vincent
- Veolia Water Technologies Canada Inc., Montreal, Quebec, H4S 2B3, Canada
| | - Nicholas J Ashbolt
- University of Alberta, School of Public Health, Edmonton, Alberta, T6G 2R3, Canada
| | - Yang Liu
- University of Alberta, Department of Civil and Environmental Engineering, Edmonton, Alberta, T6G 1H9, Canada.
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28
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Yan P, Li K, Guo JS, Zhu SX, Wang ZK, Fang F. Toward N 2O emission reduction in a single-stage CANON coupled with denitrification: Investigation on nitrite simultaneous production and consumption and nitrogen transformation. Chemosphere 2019; 228:485-494. [PMID: 31051351 DOI: 10.1016/j.chemosphere.2019.04.148] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2018] [Revised: 04/09/2019] [Accepted: 04/20/2019] [Indexed: 06/09/2023]
Abstract
A dynamic analysis approach for determining nitrite production and consumption rates was established to systematically investigate the characteristics of nitrogen transformation and N2O emission of the completely autotrophic nitrogen removal over nitrite (CANON) process coupled with denitrification using a sequencing batch biofilm reactor (SBBR). The results indicate that anaerobic ammonium-oxidizing bacteria was not inhibited significantly by low C/N ratios. There were no obvious differences in the nitrite production rate, nitrite consumption rate or nitrogen removal among reactors operated with C/N ratios of 0, 0.67 and 1.00, which suggested that the certain carbon source did not significantly affect the nitrite conversion and nitrogen removal in the process. More than 60% of total N2O emission is generated during the initial phase of each period in the SBBR. More than 94.5% of N2O was generated by NO2--N consumption via denitrification in the process. Interestingly, total N2O production drops by 16.7%, when the C/N ratio increases from 0 to 1. This phenomenon may be caused by the inhibition of N2O production via AOB denitrification. Therefore, an appropriate carbon source (C/N = 1.00) has the beneficial effect of reducing N2O emission by CANON coupled with denitrification. The results of this study provide an important empirical foundation for the mitigation of N2O emission in the CANON process coupled with denitrification.
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Affiliation(s)
- Peng Yan
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, No. 174, Shazhen Street, Chongqing, 400045, China.
| | - Kai Li
- College of Eco-environment Engineering, Guizhou Minzu University, Huaxi District, Guiyang City, Guizhou, 550025, China
| | - Jin-Song Guo
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, No. 174, Shazhen Street, Chongqing, 400045, China
| | - Si-Xi Zhu
- College of Eco-environment Engineering, Guizhou Minzu University, Huaxi District, Guiyang City, Guizhou, 550025, China
| | - Zhi-Kang Wang
- College of Eco-environment Engineering, Guizhou Minzu University, Huaxi District, Guiyang City, Guizhou, 550025, China
| | - Fang Fang
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, No. 174, Shazhen Street, Chongqing, 400045, China.
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29
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Chen P, Song C, Liu XM, Zhou L, Yang H, Zhang X, Zhou Y, Du Q, Pang T, Fu ZD, Wang XC, Liu WG, Yang F, Shu K, Du J, Liu J, Yang W, Yong T. Yield advantage and nitrogen fate in an additive maize-soybean relay intercropping system. Sci Total Environ 2019; 657:987-999. [PMID: 30677964 DOI: 10.1016/j.scitotenv.2018.11.376] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2018] [Revised: 11/24/2018] [Accepted: 11/25/2018] [Indexed: 05/25/2023]
Abstract
Sustainable agricultural development is urgently required to satisfy future food demands while decreasing environmental costs. Intercropping can increase per-unit farmland productivity through a resource-efficient utilization. However, the fate of N in intercropping systems remains unclear. To study the yield advantages and the fate of N in additive maize-soybean relay intercropping (IMS) systems, we quantified crop yield, soil N transformation abilities, soil bacterial abundances, and the fate of 15N. This study was conducted using three planting patterns, namely, monoculture maize (Zea mays L.) (MM), monoculture soybean (Glycine max L. Merr.) (MS), and IMS, and two N application rates, specifically, no N and applied N (N1, 45 and 135 kg N ha-1 for MS and MM, correspondingly; and N for the IMS, which was the sum of the monocultures). Results showed that a higher per-unit farmland productivity and a lower land use intensity are attained in the intercropping system than in the corresponding monocultures. In addition, land equivalent ratio (LER) ranges from 1.85 to 2.20. Moreover, the fate of 15N showed that the N uptake and residual are the highest, whereas N loss in the IMS is the lowest among all planting patterns. Intercropping had an increased N use efficiency by increasing N utilization efficiency, rather than N uptake efficiency. The abundance of ammonia oxidizer and denitrifier indicated that IMS improves the structure of soil microorganisms. Furthermore, the transformation abilities of soil N denoted that intercropping strengthens ammonifying and nitrifying capacities to increase soil N residual while decreasing ammonia volatilization and N2O emission. Finally, the greenhouse warming potential and gas intensity of N2O were significantly lower in the IMS than in the corresponding monocultures. In summary, the IMS system provides an environmentally friendly approach to increasing farmland productivity.
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Affiliation(s)
- Ping Chen
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Chun Song
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu 611130, PR China
| | - Xiao-Ming Liu
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China; Shehong Farm Bureau, Suining 629200, PR China
| | - Li Zhou
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China; Yibing Academy of Agricultural Sciences, Yibing 644000, PR China
| | - Huan Yang
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Xiaona Zhang
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Ying Zhou
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Qing Du
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Ting Pang
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Zhi-Dan Fu
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Xiao-Chun Wang
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Wei-Guo Liu
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Feng Yang
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Kai Shu
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Junbo Du
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Jiang Liu
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Wenyu Yang
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China
| | - Taiwen Yong
- College of Agronomy, Sichuan Agricultural University/Key Laboratory of Crop Eco-physiology and Farming System in Southwest, Ministry of Agriculture/Sichuan Engineering Research Center for Crop Strip Intercropping System, Chengdu 611130, PR China.
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Fatehi-Pouladi S, Anderson BC, Wootton B, Button M, Bissegger S, Rozema L, Weber KP. Interstitial water microbial communities as an indicator of microbial denitrifying capacity in wood-chip bioreactors. Sci Total Environ 2019; 655:720-729. [PMID: 30476852 DOI: 10.1016/j.scitotenv.2018.11.278] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2018] [Revised: 11/17/2018] [Accepted: 11/18/2018] [Indexed: 06/09/2023]
Abstract
The discharge from food production greenhouses (greenhouse effluent) contains high nutrient and salt concentrations, which, if directly released, can have adverse effects on the environment. Wood-chip bioreactors are increasingly popular passive water treatment systems favoured for their economical denitrification in treating agricultural field tile drainage. Microbial communities are central to denitrification; however little is known about the maturation of microbial communities in wood-chip bioreactors treating greenhouse effluents. In this study, multiple subsurface flow wood-chip bioreactors, each vegetated with a different plant species, together with an unplanted unit, received synthetic greenhouse effluent with elevated nitrate concentrations. The hybrid bioreactors were operated for over 2 years, during which time water samples were collected from the inlet, outlet and within the reactors. The increasing denitrification rate in the bioreactor planted with Typha angustifolia (narrowleaf cattail) correlated with increasing microbial activity and metabolic richness, measured by the carbon utilization patterns in Biolog® EcoPlates. Increased denitrifying gene (nirS) copies (determined by quantitative polymerase chain reaction, qPCR), and near-complete nitrate removal were observed in the T. angustifolia and unplanted reactors after 16 and 23 months of operation respectively. The findings suggested that an acclimation period of at least one year can be expected in unseeded bioreactors planted with T. angustifolia, while bioreactors without vegetation may require a longer time to maximize their denitrification capacity. These results are important for the design and operation of wood-chip bioreactors, which are expected to be more commonly applied in the future.
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Affiliation(s)
- Soheil Fatehi-Pouladi
- Department of Civil Engineering, Queen's University, 58 University Ave., Kingston, ON K7L 3N6, Canada.
| | - Bruce C Anderson
- Department of Civil Engineering, Queen's University, 58 University Ave., Kingston, ON K7L 3N6, Canada
| | - Brent Wootton
- Centre for Advancement of Water and Wastewater Technologies, Fleming College, 200 Albert Street South, Lindsay, ON K9V 5E6, Canada
| | - Mark Button
- Fipke Laboratory for Trace Element Research, Earth, Environmental and Geographic Sciences, University of British Columbia Okanagan, University Way, Kelowna, BC V1V 1V7, Canada
| | - Sonja Bissegger
- Department of Chemistry and Chemical Engineering, Royal Military College of Canada, Station Forces, Kingston, ON K7K 7B4, Canada
| | - Lloyd Rozema
- Aqua Treatment Technologies, 4250 Fly Road, Campden, ON L0R 1G0, Canada
| | - Kela P Weber
- Department of Chemistry and Chemical Engineering, Royal Military College of Canada, Station Forces, Kingston, ON K7K 7B4, Canada
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Jang J, Sakai Y, Senoo K, Ishii S. Potentially Mobile Denitrification Genes Identified in Azospirillum sp. Strain TSH58. Appl Environ Microbiol 2019; 85:e02474-18. [PMID: 30413471 PMCID: PMC6328785 DOI: 10.1128/aem.02474-18] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2018] [Accepted: 11/05/2018] [Indexed: 11/20/2022] Open
Abstract
Denitrification ability is sporadically distributed among diverse bacteria, archaea, and fungi. In addition, disagreement has been found between denitrification gene phylogenies and the 16S rRNA gene phylogeny. These facts have suggested potential occurrences of horizontal gene transfer (HGT) for the denitrification genes. However, evidence of HGT has not been clearly presented thus far. In this study, we identified the sequences and the localization of the nitrite reductase genes in the genomes of 41 denitrifying Azospirillum sp. strains and searched for mobile genetic elements that contain denitrification genes. All Azospirillum sp. strains examined in this study possessed multiple replicons (4 to 11 replicons), with their sizes ranging from 7 to 1,031 kbp. Among those, the nitrite reductase gene nirK was located on large replicons (549 to 941 kbp). Genome sequencing showed that Azospirillum strains that had similar nirK sequences also shared similar nir-nor gene arrangements, especially between the TSH58, Sp7T, and Sp245 strains. In addition to the high similarity between nir-nor gene clusters among the three Azospirillum strains, a composite transposon structure was identified in the genome of strain TSH58, which contains the nir-nor gene cluster and the novel IS6 family insertion sequences (ISAz581 and ISAz582). The nirK gene within the composite transposon system was actively transcribed under denitrification-inducing conditions. Although not experimentally verified in this study, the composite transposon system containing the nir-nor gene cluster could be transferred to other cells if it is moved to a prophage region and the phage becomes activated and released outside the cells. Taken together, strain TSH58 most likely acquired its denitrification ability by HGT from closely related Azospirillum sp. denitrifiers.IMPORTANCE The evolutionary history of denitrification is complex. While the occurrence of horizontal gene transfer has been suggested for denitrification genes, most studies report circumstantial evidences, such as disagreement between denitrification gene phylogenies and the 16S rRNA gene phylogeny. Based on the comparative genome analyses of Azospirillum sp. denitrifiers, we identified denitrification genes, including nirK and norCBQD, located on a mobile genetic element in the genome of Azospirillum sp. strain TSH58. The nirK was actively transcribed under denitrification-inducing conditions. Since this gene was the sole nitrite reductase gene in strain TSH58, this strain most likely benefitted by acquiring denitrification genes via horizontal gene transfer. This finding will significantly advance our scientific knowledge regarding the ecology and evolution of denitrification.
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Affiliation(s)
- Jeonghwan Jang
- BioTechnology Institute, University of Minnesota, St. Paul, Minnesota, USA
| | - Yoriko Sakai
- Institute for Agro-Environmental Sciences, National Agriculture and Food Research Organization (NARO), Tsukuba, Japan
| | - Keishi Senoo
- Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo, Japan
- Collaborative Research Institute for Innovative Microbiology, The University of Tokyo, Tokyo, Japan
| | - Satoshi Ishii
- BioTechnology Institute, University of Minnesota, St. Paul, Minnesota, USA
- Department of Soil, Water, and Climate, University of Minnesota, St. Paul, Minnesota, USA
- Microbial and Plant Genomics Institute, University of Minnesota, St. Paul, Minnesota, USA
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32
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Zhu B, Zhang X, Zhao C, Chen S, Yang S. Comparative genome analysis of marine purple sulfur bacterium Marichromatium gracile YL28 reveals the diverse nitrogen cycle mechanisms and habitat-specific traits. Sci Rep 2018; 8:17803. [PMID: 30546119 PMCID: PMC6292899 DOI: 10.1038/s41598-018-36160-2] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2018] [Accepted: 11/16/2018] [Indexed: 11/26/2022] Open
Abstract
Mangrove ecosystems are characteristic of the high salinity, limited nutrients and S-richness. Marichromatium gracile YL28 (YL28) isolated from mangrove tolerates the high concentrations of nitrite and sulfur compounds and efficiently eliminates them. However, the molecular mechanisms of nitrite and sulfur compounds utilization and the habitat adaptation remain unclear in YL28. We sequenced YL28 genome and further performed the comparative genome analysis in 36 purple bacteria including purple sulfur bacteria (PSB) and purple non-sulfur bacteria (PNSB). YL28 has 6 nitrogen cycle pathways (up to 40 genes), and possibly removes nitrite by denitrification, complete assimilation nitrate reduction and fermentative nitrate reduction (DNRA). Comparative genome analysis showed that more nitrogen utilization genes were detected in PNSB than those in PSB. The partial denitrification pathway and complete assimilation nitrate reduction were reported in PSB and DNRA was reported in purple bacteria for the first time. The three sulfur metabolism genes such as oxidation of sulfide, reversed dissimilatory sulfite reduction and sox system allowed to eliminate toxic sulfur compounds in the mangrove ecosystem. Several unique stress response genes facilitate to the tolerance of the high salinity environment. The CRISPR systems and the transposon components in genomic islands (GIs) likely contribute to the genome plasticity in purple bacteria.
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Affiliation(s)
- Bitong Zhu
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen, 361021, China
| | - Xiaobo Zhang
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen, 361021, China
| | - Chungui Zhao
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen, 361021, China
| | - Shicheng Chen
- Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, Michigan, 48863, USA.
| | - Suping Yang
- Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen, 361021, China.
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Zhang P, Peng Y, Lu J, Li J, Chen H, Xiao L. Microbial communities and functional genes of nitrogen cycling in an electrolysis augmented constructed wetland treating wastewater treatment plant effluent. Chemosphere 2018; 211:25-33. [PMID: 30071433 DOI: 10.1016/j.chemosphere.2018.07.067] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2017] [Revised: 07/07/2018] [Accepted: 07/13/2018] [Indexed: 06/08/2023]
Abstract
To enhance nitrogen removal efficiency, a new electrolysis augmented constructed wetland (E-CW) was applied for nitrogen removal from waste water treatment plant (WWTP) effluent. This work demonstrated that E-CW could remove NO3- efficiently (45.5%-83.4%) under low CCOD/N ratio (average 2.29 ± 0.45) with little amount of NH4+ and NO2- generation. High throughput 16S rRNA sequence analysis revealed that Proteobacteria, Actinobacteria, Cyanobacteria, Bacteroidetes, and Verrucomicrobia were the dominant phyla in the E-CW. However, abundance of denitrifiers and denitrification genes decreased along with the operation of E-CW. Four functional gene pairs of anammox-amoA, (narG + napA)-(nirK + nirS), (narG + napA)-nosZ and qnorB-nosZ showed positive correlations with each other. Co-occurrence network analysis results indicated that functional guilds of FeOB and FeRB coupled with denitrifiers and contributed to the process of nitrogen removal in the E-CW. Overall, this work illustrated E-CW was a feasible and effective technology for enhancing nitrogen removal, and provided a theoretical basis for better design and operation of E-CW.
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Affiliation(s)
- Pengfei Zhang
- School of the Environment, Nanjing University, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University Xianlin Campus, Xianlin Avenue 163, Nanjing, 210023, China.
| | - Yuke Peng
- School of the Environment, Nanjing University, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University Xianlin Campus, Xianlin Avenue 163, Nanjing, 210023, China.
| | - Junling Lu
- School of the Environment, Nanjing University, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University Xianlin Campus, Xianlin Avenue 163, Nanjing, 210023, China.
| | - Jie Li
- School of the Environment, Nanjing University, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University Xianlin Campus, Xianlin Avenue 163, Nanjing, 210023, China.
| | - Huiping Chen
- School of the Environment, Nanjing University, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University Xianlin Campus, Xianlin Avenue 163, Nanjing, 210023, China.
| | - Lin Xiao
- School of the Environment, Nanjing University, State Key Laboratory for Pollution Control and Resource Reuse (SKL-PCRR), Nanjing University Xianlin Campus, Xianlin Avenue 163, Nanjing, 210023, China.
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Zhang Y, Ji G. Quantitative responses of potential nitrification and denitrification rates to the size of microbial communities in rice paddy soils. Chemosphere 2018; 211:970-977. [PMID: 30119028 DOI: 10.1016/j.chemosphere.2018.08.047] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2018] [Revised: 08/08/2018] [Accepted: 08/10/2018] [Indexed: 06/08/2023]
Abstract
Nitrification and denitrification are important to nitrogen balance in agricultural ecosystems. However, the molecular drivers and limiting steps for these microbial processes in rice paddy soils are not well understood. Here, we assessed soil properties and abundances of functional genes affiliated with nitrification (amoA and nxrA), denitrification (nirS, nirK and nosZ), nitrate reduction (narG and napA) processes, and measured potential nitrification and denitrification rates (PNRs and PDRs) at 15 sites in Xiamen, China. The soil properties imposed indirect impacts on the potential rates by mediating the relative abundances of microbial communities. No significant relationships between the size of microbial communities and the potential rates were observed. Instead, we found the variables that best explained the variations in the PNRs and PDRs were AOB/nirS and (nirK + nirS)/nosZ, respectively. The PNRs were mainly limited by the relative strength of two steps, namely bacterial ammonium oxidation and nitrite into nitric oxide reduction, whereas the PDRs were mainly limited by the relative strength of the second and last denitrification steps. These results indicated that the dynamics of microbial communities based on the relative gene abundances are valuable in integrating fluctuations in soil physicochemical properties and are indictive of potential rates in paddy soils. Results of this study contribute to our quantitative understanding of the relative importance of soil physicochemical and biological factors in driving microbial potential in paddy soils.
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Affiliation(s)
- Yan Zhang
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China.
| | - Guodong Ji
- Key Laboratory of Water and Sediment Sciences, Ministry of Education, Department of Environmental Engineering, Peking University, Beijing 100871, China
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Lee YY, Choi H, Cho KS. Effects of carbon source, C/N ratio, nitrate, temperature, and pH on N 2O emission and functional denitrifying genes during heterotrophic denitrification. J Environ Sci Health A Tox Hazard Subst Environ Eng 2018; 54:16-29. [PMID: 30199323 DOI: 10.1080/10934529.2018.1503903] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2018] [Revised: 07/02/2018] [Accepted: 07/13/2018] [Indexed: 06/08/2023]
Abstract
The effects of operational parameters such as carbon source, C/N ratio, initial nitrate concentration, temperature, and pH value on heterotrophic denitrification and functional denitrifying genes were evaluated. When methanol was used as the sole carbon source, complete denitrification was performed in a short time without nitrous oxide (N2O) emission. Complete denitrification was performed at high C/N ratios (5.14 and 12.85) and low initial nitrate concentrations (75.9 and 151.6 mg N L-1). The denitrification rate was not temperature-sensitive in the range of 25-35 °C, but tended to decrease at a low pH of 5-6. The relationships between N2O emission and functional genes under various operational conditions were investigated by Pearson correlation and association network analyses. The C/N ratio was a key factor for N2O emission during the heterotrophic denitrification process. This information on the denitrification performance and its association with functional gene dynamics under various operational conditions is useful for N2O mitigation strategies for wastewater treatment processes.
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Affiliation(s)
- Yun-Yeong Lee
- a Department of Environmental Science and Engineering , Ewha Womans University , Seoul , Republic of Korea
| | - Hyungjoo Choi
- a Department of Environmental Science and Engineering , Ewha Womans University , Seoul , Republic of Korea
| | - Kyung-Suk Cho
- a Department of Environmental Science and Engineering , Ewha Womans University , Seoul , Republic of Korea
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36
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Xu Z, Dai X, Chai X. Effect of different carbon sources on denitrification performance, microbial community structure and denitrification genes. Sci Total Environ 2018; 634:195-204. [PMID: 29627542 DOI: 10.1016/j.scitotenv.2018.03.348] [Citation(s) in RCA: 125] [Impact Index Per Article: 20.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2017] [Revised: 03/28/2018] [Accepted: 03/28/2018] [Indexed: 06/08/2023]
Abstract
Solid and liquid organic substances as carbon sources for denitrification process were deeply explored. In this study, the effect of three carbon sources, referred to as poly (3-hydroxybutyrate-co-3-hydroxyvalerate)/poly (lactic acid) (PHBV/PLA) polymer, glucose and CH3COONa, on denitrification performance, microbial community and functional genes were investigated. It was found that maximum denitrification rates of 0.37, 0.46 and 0.39gN/(L·d) were achieved in PHBV/PLA, glucose and CH3COONa supported denitrification systems, respectively. Meanwhile, Illumina MiSeq sequencing revealed that three carbon sources led to different microbial community structures. It can be seen that Brevinema/Thauera/Dechloromonas, Tolumonas/Thauera/Dechloromonas, Thauera dominated in the PHBV/PLA, glucose and CH3COONa supported denitrification systems, respectively. Transcriptome-based analysis further indicated that the glucose supported denitrification system showed the highest FPKM values (the fragments per kilobase per million mapped reads) of the genes participating in the dissimilatory nitrate reduction process, corresponding to the greatest effluent NH4+-N concentration. A better knowledge of effect of different carbon sources on denitrification process will be significant for nitrate removal in practice.
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Affiliation(s)
- Zhongshuo Xu
- College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
| | - Xiaohu Dai
- College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
| | - Xiaoli Chai
- College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China.
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Woehle C, Roy AS, Glock N, Wein T, Weissenbach J, Rosenstiel P, Hiebenthal C, Michels J, Schönfeld J, Dagan T. A Novel Eukaryotic Denitrification Pathway in Foraminifera. Curr Biol 2018; 28:2536-2543.e5. [PMID: 30078568 PMCID: PMC6783311 DOI: 10.1016/j.cub.2018.06.027] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2018] [Revised: 05/22/2018] [Accepted: 06/14/2018] [Indexed: 12/25/2022]
Abstract
Benthic foraminifera are unicellular eukaryotes inhabiting sediments of aquatic environments. Several species were shown to store and use nitrate for complete denitrification, a unique energy metabolism among eukaryotes. The population of benthic foraminifera reaches high densities in oxygen-depleted marine habitats, where they play a key role in the marine nitrogen cycle. However, the mechanisms of denitrification in foraminifera are still unknown, and the possibility of a contribution of associated bacteria is debated. Here, we present evidence for a novel eukaryotic denitrification pathway that is encoded in foraminiferal genomes. Large-scale genome and transcriptomes analyses reveal the presence of a denitrification pathway in foraminifera species of the genus Globobulimina. This includes the enzymes nitrite reductase (NirK) and nitric oxide reductase (Nor) as well as a wide range of nitrate transporters (Nrt). A phylogenetic reconstruction of the enzymes' evolutionary history uncovers evidence for an ancient acquisition of the foraminiferal denitrification pathway from prokaryotes. We propose a model for denitrification in foraminifera, where a common electron transport chain is used for anaerobic and aerobic respiration. The evolution of hybrid respiration in foraminifera likely contributed to their ecological success, which is well documented in palaeontological records since the Cambrian period.
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Affiliation(s)
- Christian Woehle
- Institute of Microbiology, Kiel University, Am Botanischen Garten 11, Kiel 24118, Germany.
| | - Alexandra-Sophie Roy
- Institute of Microbiology, Kiel University, Am Botanischen Garten 11, Kiel 24118, Germany.
| | - Nicolaas Glock
- GEOMAR Helmholtz Centre for Ocean Research Kiel, Wischhofstrasse, Kiel 24148, Germany
| | - Tanita Wein
- Institute of Microbiology, Kiel University, Am Botanischen Garten 11, Kiel 24118, Germany
| | - Julia Weissenbach
- Institute of Microbiology, Kiel University, Am Botanischen Garten 11, Kiel 24118, Germany
| | - Philip Rosenstiel
- Institute of Clinical Molecular Biology, Kiel University, Am Botanischen Garten 11, Kiel 24118, Germany
| | - Claas Hiebenthal
- GEOMAR Helmholtz Centre for Ocean Research Kiel, Wischhofstrasse, Kiel 24148, Germany
| | - Jan Michels
- Institute of Zoology, Kiel University, Am Botanischen Garten 1-9, Kiel 24118, Germany
| | - Joachim Schönfeld
- GEOMAR Helmholtz Centre for Ocean Research Kiel, Wischhofstrasse, Kiel 24148, Germany
| | - Tal Dagan
- Institute of Microbiology, Kiel University, Am Botanischen Garten 11, Kiel 24118, Germany
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38
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Brambilla S, Frare R, Soto G, Jozefkowicz C, Ayub N. Absence of the Nitrous Oxide Reductase Gene Cluster in Commercial Alfalfa Inoculants Is Probably Due to the Extensive Loss of Genes During Rhizobial Domestication. Microb Ecol 2018; 76:299-302. [PMID: 29330647 DOI: 10.1007/s00248-018-1145-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2017] [Accepted: 01/02/2018] [Indexed: 06/07/2023]
Abstract
As other legume crops, alfalfa cultivation increases the emission of the greenhouse gas nitrous oxide (N2O). Since legume-symbiotic nitrogen-fixing bacteria play a crucial role in this emission, it is important to understand the possible impacts of rhizobial domestication on the evolution of denitrification genes. In comparison with the genomes of non-commercial strains, those of commercial alfalfa inoculants exhibit low total genome size, low number of ORFs and high numbers of both frameshifted genes and pseudogenes, suggesting a dramatic loss of genes during bacterial domestication. Genomic analysis focused on denitrification genes revealed that commercial strains have perfectly conserved the nitrate (NAP), nitrite (NIR) and nitric (NOR) reductase clusters related to the production of N2O from nitrate but completely lost the nitrous oxide (NOS) reductase cluster (nosRZDFYLX genes) associated with the reduction of N2O to gas nitrogen. Based on these results, we propose future screenings for alfalfa-nodulating isolates containing both nitrogen fixation and N2O reductase genes for environmental sustainability of alfalfa production.
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Affiliation(s)
- Silvina Brambilla
- Instituto de Genética Ewald A. Favret (INTA), De los Reseros S/N, C25(1712), Castelar, Buenos Aires, Argentina
| | - Romina Frare
- Instituto de Genética Ewald A. Favret (INTA), De los Reseros S/N, C25(1712), Castelar, Buenos Aires, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, CABA, Argentina
| | - Gabriela Soto
- Instituto de Genética Ewald A. Favret (INTA), De los Reseros S/N, C25(1712), Castelar, Buenos Aires, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, CABA, Argentina
| | - Cintia Jozefkowicz
- Instituto de Genética Ewald A. Favret (INTA), De los Reseros S/N, C25(1712), Castelar, Buenos Aires, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, CABA, Argentina
| | - Nicolás Ayub
- Instituto de Genética Ewald A. Favret (INTA), De los Reseros S/N, C25(1712), Castelar, Buenos Aires, Argentina.
- Consejo Nacional de Investigaciones Científicas y Técnicas, CABA, Argentina.
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39
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Zeng J, Shen JP, Wang JT, Hu HW, Zhang CJ, Bai R, Zhang LM, He JZ. Impacts of Projected Climate Warming and Wetting on Soil Microbial Communities in Alpine Grassland Ecosystems of the Tibetan Plateau. Microb Ecol 2018; 75:1009-1023. [PMID: 29124311 DOI: 10.1007/s00248-017-1098-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2017] [Accepted: 10/24/2017] [Indexed: 06/07/2023]
Abstract
Climate change is projected to have impacts on precipitation and temperature regimes in drylands of high elevation regions, with especially large effects in the Qinghai-Tibetan Plateau. However, there was limited information about how the projected climate change will impact on the soil microbial community and their activity in the region. Here, we present results from a study conducted across 72 soil samples from 24 different sites along a temperature and precipitation gradient (substituted by aridity index ranging from 0.079 to 0.89) of the Plateau, to assess how changes in aridity affect the abundance, community composition, and diversity of bacteria, ammonia-oxidizers, and denitrifers (nirK/S and nosZ genes-containing communities) as well as nitrogen (N) turnover enzyme activities. We found V-shaped or inverted V-shaped relationships between the aridity index (AI) and soil microbial parameters (gene abundance, community structures, microbial diversity, and N turnover enzyme activities) with a threshold at AI = 0.27. The increasing or decreasing rates of the microbial parameters were higher in areas with AI < 0.27 (alpine steppes) than in mesic areas with 0.27 < AI < 0.89 (alpine meadow and swamp meadow). The results indicated that the projected warming and wetting have a strong impact on soil microbial communities in the alpine steppes.
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Affiliation(s)
- Jun Zeng
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
- College of Resources and Environment, University of the Chinese Academy of Sciences, Beijing, 100049, China
- Institute of Applied Microbiology, Xinjiang Academy of Agricultural Sciences, Urumqi, 830091, China
| | - Ju-Pei Shen
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.
- College of Resources and Environment, University of the Chinese Academy of Sciences, Beijing, 100049, China.
| | - Jun-Tao Wang
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
| | - Hang-Wei Hu
- Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, 3010, Australia
| | - Cui-Jing Zhang
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
| | - Ren Bai
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
| | - Li-Mei Zhang
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
- College of Resources and Environment, University of the Chinese Academy of Sciences, Beijing, 100049, China
| | - Ji-Zheng He
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.
- College of Resources and Environment, University of the Chinese Academy of Sciences, Beijing, 100049, China.
- Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, VIC, 3010, Australia.
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40
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Chaudhary DR, Kim J, Kang H. Influences of Different Halophyte Vegetation on Soil Microbial Community at Temperate Salt Marsh. Microb Ecol 2018; 75:729-738. [PMID: 28986657 DOI: 10.1007/s00248-017-1083-y] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2017] [Accepted: 09/27/2017] [Indexed: 06/07/2023]
Abstract
Salt marshes are transitional zone between terrestrial and aquatic ecosystems, occupied mainly by halophytic vegetation which provides numerous ecological services to coastal ecosystem. Halophyte-associated microbial community plays an important role in the adaptation of plants to adverse condition and also affected habitat characteristics. To explore the relationship between halophytes and soil microbial community, we studied the soil enzyme activities, soil microbial community structure, and functional gene abundance in halophytes- (Carex scabrifolia, Phragmites australis, and Suaeda japonica) covered and un-vegetated (mud flat) soils at Suncheon Bay, South Korea. Higher concentrations of total, Gram-positive, Gram-negative, total bacterial, and actinomycetes PLFAs (phospholipid fatty acids) were observed in the soil underneath the halophytes compared with mud flat soil and were highest in Carex soil. Halophyte-covered soils had different microbial community composition due to higher abundance of Gram-negative bacteria than mud flat soil. Similar to PLFA concentrations, the increased activities of β-glucosidase, cellulase, phosphatase, and sulfatase enzymes were observed under halophyte soil compared to mud flat soil and Carex exhibited highest activities. The abundance of archaeal 16S rRNA, fungal ITS, and denitrifying genes (nirK, nirS, and nosZ) were not influenced by the halophytes. Abundance bacterial 16S rRNA and dissimilatory (bi)sulfite (dsrA) genes were highest in Carex-covered soil. The abundance of functional genes involved in methane cycle (mcrA and pmoA) was not affected by the halophytes. However, the ratios of mcrA/pmoA and mcrA/dsrA increased in halophyte-covered soils which indicate higher methanogenesis activities. The finding of the study also suggests that halophytes had increased the microbial and enzyme activities, and played a pivotal role in shaping microbial community structure.
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Affiliation(s)
- Doongar R Chaudhary
- Marine Biotechnology and Ecology Division, Central Salt and Marine Chemicals Research Institute (CSIR), Bhavnagar, Gujarat, 364 002, India.
- Academy of Scientific and Innovative Research (AcSIR), CSIR, New Delhi, India.
| | - Jinhyun Kim
- School of Civil and Environmental Engineering, Yonsei University, Seoul, 03722, South Korea
| | - Hojeong Kang
- School of Civil and Environmental Engineering, Yonsei University, Seoul, 03722, South Korea.
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41
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Bian R, Sun Y, Li W, Ma Q, Chai X. Co-composting of municipal solid waste mixed with matured sewage sludge: The relationship between N 2O emissions and denitrifying gene abundance. Chemosphere 2017; 189:581-589. [PMID: 28963975 DOI: 10.1016/j.chemosphere.2017.09.070] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2017] [Revised: 08/27/2017] [Accepted: 09/15/2017] [Indexed: 06/07/2023]
Abstract
Aerobic composting is an alternative measure to the disposal of municipal solid waste (MSW). However, it produces nitrous oxide (N2O), a highly potent greenhouse via microbial nitrification and denitrification. In this study, the effects of matured sewage sludge (MSS) amendment on N2O emissions and the inter-relationships between N2O emissions and the abundance of denitrifying bacteria were investigated during aerobic composting of MSW. The results demonstrated that MSW composting with MSS amendments (C1, and C2, with a MSW to MSS ratio of 2:1 and 4:1, (v/v), respectively) significantly increased N2O emissions during the initial stage, yet contributed to the mitigation of N2O emissions during the cooling and maturation stage. MSS amended composting emitted a total of 18.4%-25.7% less N2O than the control treatment without MSS amendment (CK). Matured sewage sludge amendment also significantly altered the abundance of denitrifying bacteria. The quantification of denitrifying functional genes revealed that the N2O emission rate had a significant positive correlation with the abundance of the nirS, nirK genes in both treatments with MSS amendment. The nosZ/(nirS + nirK) ratio could be a good indicator for predicting N2O emissions. The higher N2O emission rate during the initial stage of composting mixed with MSS was characterized by lower nosZ/(nirS + nirK) ratios, compared to CK treatment. Higher ratios of nosZ/(nirS + nirK) were measured during the cooling and maturation stage in treatments with MSS which resulted in a reduction of the N2O emissions. These results demonstrated that MSS amendment could be a valid strategy for mitigating N2O emissions during MSW composting.
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Affiliation(s)
- Rongxing Bian
- State Key Laboratory of Pollution Control and Resource Reuse, Tongji University, Shanghai 200092, China
| | - Yingjie Sun
- Department of Environment and Municipal Engineering, Qingdao University of Technology, Qingdao 266033, China.
| | - Weihua Li
- Department of Environment and Municipal Engineering, Qingdao University of Technology, Qingdao 266033, China
| | - Qiang Ma
- Department of Environment and Municipal Engineering, Qingdao University of Technology, Qingdao 266033, China
| | - Xiaoli Chai
- State Key Laboratory of Pollution Control and Resource Reuse, Tongji University, Shanghai 200092, China
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Giannopoulos G, Sullivan MJ, Hartop KR, Rowley G, Gates AJ, Watmough NJ, Richardson DJ. Tuning the modular Paracoccus denitrificans respirome to adapt from aerobic respiration to anaerobic denitrification. Environ Microbiol 2017; 19:4953-4964. [PMID: 29076595 DOI: 10.1111/1462-2920.13974] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2017] [Revised: 10/10/2017] [Accepted: 10/16/2017] [Indexed: 12/31/2022]
Abstract
Bacterial denitrification is a respiratory process that is a major source and sink of the potent greenhouse gas nitrous oxide. Many denitrifying bacteria can adjust to life in both oxic and anoxic environments through differential expression of their respiromes in response to environmental signals such as oxygen, nitrate and nitric oxide. We used steady-state oxic and anoxic chemostat cultures to demonstrate that the switch from aerobic to anaerobic metabolism is brought about by changes in the levels of expression of relatively few genes, but this is sufficient to adjust the configuration of the respirome to allow the organism to efficiently respire nitrate without the significant release of intermediates, such as nitrous oxide. The regulation of the denitrification respirome in strains deficient in the transcription factors FnrP, Nnr and NarR was explored and revealed that these have both inducer and repressor activities, possibly due to competitive binding at similar DNA binding sites. This may contribute to the fine tuning of expression of the denitrification respirome and so adds to the understanding of the regulation of nitrous oxide emission by denitrifying bacteria in response to different environmental signals.
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Affiliation(s)
- Georgios Giannopoulos
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Matthew J Sullivan
- School of Medical Science, Griffith University, Gold Coast campus, Southport, Australia
| | - Katherine R Hartop
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Gary Rowley
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Andrew J Gates
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Nicholas J Watmough
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, UK
| | - David J Richardson
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, UK
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Chen J, Ying GG, Liu YS, Wei XD, Liu SS, He LY, Yang YQ, Chen FR. Nitrogen removal and its relationship with the nitrogen-cycle genes and microorganisms in the horizontal subsurface flow constructed wetlands with different design parameters. J Environ Sci Health A Tox Hazard Subst Environ Eng 2017; 52:804-818. [PMID: 28394701 DOI: 10.1080/10934529.2017.1305181] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
This study aims to investigate nitrogen removal and its relationship with the nitrogen-cycle genes and microorganisms in the horizontal subsurface flow constructed wetlands (CWs) with different design parameters. Twelve mesocosm-scale CWs with four substrates and three hydraulic loading rates were set up in the outdoor. The result showed the CWs with zeolite as substrate and HLR of 20 cm/d were selected as the best choice for the TN and NH3-N removal. It was found that the single-stage mesocosm-scale CWs were incapable to achieve high removals of TN and NH3-N due to inefficient nitrification process in the systems. This was demonstrated by the lower abundance of the nitrification genes (AOA and AOB) than the denitrification genes (nirK and nirS), and the less diverse nitrification microorganisms than the denitrification microorganisms in the CWs. The results also show that microorganism community structure including nitrogen-cycle microorganisms in the constructed wetland systems was affected by the design parameters especially the substrate type. These findings show that nitrification is a limiting factor for the nitrogen removal by CWs.
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Affiliation(s)
- Jun Chen
- a State Key Laboratory of Organic Geochemistry, CAS Research Centre for Pearl River Delta Environmental Pollution and Control , Guangzhou Institute of Geochemistry, Chinese Academy of Sciences , Guangzhou , China
| | - Guang-Guo Ying
- a State Key Laboratory of Organic Geochemistry, CAS Research Centre for Pearl River Delta Environmental Pollution and Control , Guangzhou Institute of Geochemistry, Chinese Academy of Sciences , Guangzhou , China
| | - You-Sheng Liu
- a State Key Laboratory of Organic Geochemistry, CAS Research Centre for Pearl River Delta Environmental Pollution and Control , Guangzhou Institute of Geochemistry, Chinese Academy of Sciences , Guangzhou , China
| | - Xiao-Dong Wei
- a State Key Laboratory of Organic Geochemistry, CAS Research Centre for Pearl River Delta Environmental Pollution and Control , Guangzhou Institute of Geochemistry, Chinese Academy of Sciences , Guangzhou , China
| | - Shuang-Shuang Liu
- a State Key Laboratory of Organic Geochemistry, CAS Research Centre for Pearl River Delta Environmental Pollution and Control , Guangzhou Institute of Geochemistry, Chinese Academy of Sciences , Guangzhou , China
| | - Liang-Ying He
- a State Key Laboratory of Organic Geochemistry, CAS Research Centre for Pearl River Delta Environmental Pollution and Control , Guangzhou Institute of Geochemistry, Chinese Academy of Sciences , Guangzhou , China
| | - Yong-Qiang Yang
- a State Key Laboratory of Organic Geochemistry, CAS Research Centre for Pearl River Delta Environmental Pollution and Control , Guangzhou Institute of Geochemistry, Chinese Academy of Sciences , Guangzhou , China
| | - Fan-Rong Chen
- a State Key Laboratory of Organic Geochemistry, CAS Research Centre for Pearl River Delta Environmental Pollution and Control , Guangzhou Institute of Geochemistry, Chinese Academy of Sciences , Guangzhou , China
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Suleiman M, Brandt FB, Brenzinger K, Martinson GO, Braker G. Potential N 2O Emissions from the Tanks of Bromeliads Suggest an Additional Source of N 2O in the Neotropics. Microb Ecol 2017; 73:751-754. [PMID: 27924401 DOI: 10.1007/s00248-016-0903-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2016] [Accepted: 11/24/2016] [Indexed: 06/06/2023]
Abstract
We studied the propensity of the tank bromeliad Werauhia gladioliflora to emit the greenhouse gas nitrous oxide (N2O) at current and at increased N deposition levels in the range of predicted future scenarios. Potential production rates and net accumulation of N2O from tank substrate corresponded to N availability. N2O was produced in excess at all N levels due to a low level of N2O reductase activity which agreed well with a low abundance of N2O reducers compared to nitrite reducers. Transcriptional activation, however, indicated that expression of denitrification genes may be enhanced with increasing N supply eventually leading to more efficient N2O turnover with potential for adaptation of denitrifier communities to higher N levels. Our findings indicate that tank bromeliads may constitute a novel source of N2O in Neotropical forest canopies but further studies are required to understand the size and significance of in situ N2O fluxes from tank bromeliads to the environment.
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Affiliation(s)
- Marcel Suleiman
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
- Institute of Technical Microbiology, Hamburg University of Technology (TUHH), Hamburg, Germany
| | | | | | | | - Gesche Braker
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.
- Kiel University, Christian-Albrechts-Platz 4, 24118, Kiel, Germany.
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45
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Reyes C, Schneider D, Lipka M, Thürmer A, Böttcher ME, Friedrich MW. Nitrogen Metabolism Genes from Temperate Marine Sediments. Mar Biotechnol (NY) 2017; 19:175-190. [PMID: 28283802 PMCID: PMC5405112 DOI: 10.1007/s10126-017-9741-0] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2016] [Accepted: 02/05/2017] [Indexed: 05/26/2023]
Abstract
In this study, we analysed metagenomes along with biogeochemical profiles from Skagerrak (SK) and Bothnian Bay (BB) sediments, to trace the prevailing nitrogen pathways. NO3- was present in the top 5 cm below the sediment-water interface at both sites. NH4+ increased with depth below 5 cm where it overlapped with the NO3- zone. Steady-state modelling of NO3- and NH4+ porewater profiles indicates zones of net nitrogen species transformations. Bacterial protease and hydratase genes appeared to make up the bulk of total ammonification genes. Genes involved in ammonia oxidation (amo, hao), denitrification (nir, nor), dissimilatory NO3- reduction to NH4+ (nfr and otr) and in both of the latter two pathways (nar, nap) were also present. Results show ammonia-oxidizing bacteria (AOB) and ammonia-oxidizing archaea (AOA) are similarly abundant in both sediments. Also, denitrification genes appeared more abundant than DNRA genes. 16S rRNA gene analysis showed that the relative abundance of the nitrifying group Nitrosopumilales and other groups involved in nitrification and denitrification (Nitrobacter, Nitrosomonas, Nitrospira, Nitrosococcus and Nitrosomonas) appeared less abundant in SK sediments compared to BB sediments. Beggiatoa and Thiothrix 16S rRNA genes were also present, suggesting chemolithoautotrophic NO3- reduction to NO2- or NH4+ as a possible pathway. Our results show the metabolic potential for ammonification, nitrification, DNRA and denitrification activities in North Sea and Baltic Sea sediments.
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Affiliation(s)
- Carolina Reyes
- Microbial Ecophysiology, University of Bremen, Leobener Strasse, D-28359, Bremen, Germany.
- Department of Environmental Geosciences, University of Vienna, Althanstrasse 14, 1090, Vienna, Austria.
| | - Dominik Schneider
- Department of Genomic and Applied Microbiology, University of Göttingen, Grisebachstrasse 8, D-37077, Göttingen, Germany
| | - Marko Lipka
- Geochemistry and Stable Isotope Biogeochemistry Group, Leibniz Institute for Baltic Sea Research (IOW), Seestrasse 15, D-18119, Warnemünde, Germany
| | - Andrea Thürmer
- Department of Genomic and Applied Microbiology, University of Göttingen, Grisebachstrasse 8, D-37077, Göttingen, Germany
| | - Michael E Böttcher
- Geochemistry and Stable Isotope Biogeochemistry Group, Leibniz Institute for Baltic Sea Research (IOW), Seestrasse 15, D-18119, Warnemünde, Germany
| | - Michael W Friedrich
- Microbial Ecophysiology, University of Bremen, Leobener Strasse, D-28359, Bremen, Germany
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46
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Gao M, Liu J, Qiao Y, Zhao M, Zhang XH. Diversity and Abundance of the Denitrifying Microbiota in the Sediment of Eastern China Marginal Seas and the Impact of Environmental Factors. Microb Ecol 2017; 73:602-615. [PMID: 27924403 DOI: 10.1007/s00248-016-0906-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2016] [Accepted: 11/27/2016] [Indexed: 06/06/2023]
Abstract
Investigating the environmental influence on the community composition and abundance of denitrifiers in marine sediment ecosystem is essential for understanding of the ecosystem-level controls on the biogeochemical process of denitrification. In the present study, nirK-harboring denitrifying communities in different mud deposit zones of eastern China marginal seas (ECMS) were investigated via clone library analysis. The abundance of three functional genes affiliated with denitrification (narG, nirK, nosZ) was assessed by fluorescent quantitative PCR. The nirK-harboring microbiota were dominated by a few operational taxonomic units (OTUs), which were widely distributed in different sites with each site harboring their unique phylotypes. The mean abundance of nirK was significantly higher than that of narG and nosZ genes, and the abundance of narG was higher than that of nosZ. The inconsistent abundance profile of different functional genes along the process of denitrification might indicate that nitrite reduction occurred independently of denitrification in the mud deposit zones of ECMS, and sedimentary denitrification was accomplished by cooperation of different denitrifying species rather than a single species. Such important information would be missed when targeting only a single denitrifying functional gene. Analysis of correlation between abundance ratios and environmental factors revealed that the response of denitrifiers to environmental factors was not invariable in different mud deposit zones. Our results suggested that a comprehensive analysis of different denitrifying functional genes may gain more information about the dynamics of denitrifying microbiota in marine sediments.
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Affiliation(s)
- Minghong Gao
- College of Marine Life Sciences, Ocean University of China, 5 Yushan Road, Qingdao, 266003, China
| | - Jiwen Liu
- College of Marine Life Sciences, Ocean University of China, 5 Yushan Road, Qingdao, 266003, China
| | - Yanlu Qiao
- College of Marine Life Sciences, Ocean University of China, 5 Yushan Road, Qingdao, 266003, China
| | - Meixun Zhao
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, China
| | - Xiao-Hua Zhang
- College of Marine Life Sciences, Ocean University of China, 5 Yushan Road, Qingdao, 266003, China.
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, China.
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47
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Lennon EFE, Houlton BZ. Coupled molecular and isotopic evidence for denitrifier controls over terrestrial nitrogen availability. ISME J 2017; 11:727-740. [PMID: 27935591 PMCID: PMC5322299 DOI: 10.1038/ismej.2016.147] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2016] [Revised: 09/09/2016] [Accepted: 09/16/2016] [Indexed: 11/08/2022]
Abstract
Denitrification removes ecologically available nitrogen (N) from the biosphere and influences both the pace and magnitude of global climate change. Disagreements exist over the degree to which this microbial process influences N-availability patterns across Earth's ecosystems. We combine natural stable isotope methods with qPCR to investigate how denitrifier gene abundance is related to variations in nitrate (NO3-) pool sizes across diverse terrestrial biomes and conditions. We analyze NO3- isotope composition (15N/14N, 18O/16O) and denitrifier gene nirS in 52 soil samples from different California ecosystems, spanning desert, chaparral, oak-woodland/savanna and forest. δ15N-NO3- correlates positively with δ18O-NO3- (P⩽0.03) and nirS abundance (P=0.00002) across sites, revealing the widespread importance of isotopic discrimination by soil denitrifiers. Furthermore, NO3- concentrations correlate negatively to nirS (P=0.002) and δ15N-NO3- (P=0.003) across sites. We also observe these spatial relationships in short-term (7-day), in situ soil-incubation experiments; NO3--depletion strongly corresponds with increased nirS, nirS/16 rRNA, and enrichment of heavy NO3- isotopes over time. Overall, these findings suggest that microbial denitrification can consume plant-available NO3- to low levels at multiple time scales, contributing to N-limitation patterns across sites, particularly in moist, carbon-rich soils. Furthermore, our study provides a new approach for understanding the relationships between microbial gene abundance and terrestrial ecosystem functioning.
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Affiliation(s)
- Erin F E Lennon
- Department of Land Air and Water Resources, University of California at Davis, Davis, CA, USA
| | - Benjamin Z Houlton
- Department of Land Air and Water Resources, University of California at Davis, Davis, CA, USA
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48
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Lee JA, Francis CA. Spatiotemporal Characterization of San Francisco Bay Denitrifying Communities: a Comparison of nirK and nirS Diversity and Abundance. Microb Ecol 2017; 73:271-284. [PMID: 27709247 DOI: 10.1007/s00248-016-0865-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2016] [Accepted: 09/16/2016] [Indexed: 06/06/2023]
Abstract
Denitrifying bacteria play a critical role in the estuarine nitrogen cycle. Through the transformation of nitrate into nitrogen gas, these organisms contribute to the loss of bioavailable (i.e., fixed) nitrogen from low-oxygen environments such as estuary sediments. Denitrifiers have been shown to vary in abundance and diversity across the spatial environmental gradients that characterize estuaries, such as salinity and nitrogen availability; however, little is known about how their communities change in response to temporal changes in those environmental properties. Here, we present a 1-year survey of sediment denitrifier communities along the estuarine salinity gradient of San Francisco Bay. We used quantitative PCR and sequencing of functional genes coding for a key denitrifying enzyme, dissimilatory nitrite reductase, to compare two groups of denitrifiers: those with nirK (encoding copper-dependent nitrite reductase) and those with nirS (encoding the cytochrome-cd 1-dependent variant). We found that nirS was consistently more abundant and more diverse than nirK in all parts of the estuary. The abundances of the two genes were tightly linked across space but differed temporally, with nirK peaking when temperature was low and nirS peaking when nitrate was high. Likewise, the diversity and composition of nirK- versus nirS-type communities differed in their responses to seasonal variations, though both were strongly determined by site. Furthermore, our sequence libraries detected deeply branching clades with no cultured isolates, evidence of enormous diversity within the denitrifiers that remains to be explored.
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Affiliation(s)
- Jessica A Lee
- Department of Earth System Science, Stanford University, Stanford, CA, USA
- Present address: Department of Biological Sciences, University of Idaho, Moscow, ID, USA
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49
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Chen D, Wang X, Yang K, Wang H. Response of a three dimensional bioelectrochemical denitrification system to the long-term presence of graphene oxide. Bioresour Technol 2016; 214:24-29. [PMID: 27115747 DOI: 10.1016/j.biortech.2016.04.082] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2016] [Revised: 04/12/2016] [Accepted: 04/16/2016] [Indexed: 06/05/2023]
Abstract
In this study, a three dimensional bioelectrochemical denitrification system (3D-BEDS) was operated under long-term graphene oxide (GO) condition to treat high nitrate polluted water. When GO concentration increased from 0 to 100mgL(-1), nitrate removal efficiency slightly decreased from 99.52% to 94.81%. However, when GO concentration was further increased to 150mgL(-1), the denitrification efficiency dramatically decreased to 74.95%. Increasing GO concentration in this BEDS resulted in decreased community richness, and the abundances of the dominant bacterial communities presented obvious shift. The abundances of denitrifying genes napA, nirS, and nirK showed no obvious changes with GO concentration lower than 50mgL(-1). However, the abundances of the three genes decreased when GO concentration was further increased to higher than 100mgL(-1). The increased lactate dehydrogenase (LDH) release and reactive oxygen species (ROS) production demonstrated that long-term presence of GO caused chronic impacts onto microorganisms in this BEDS.
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Affiliation(s)
- Dan Chen
- School of Civil Engineering, Wuhan University, Wuhan 430072, China
| | - Xufeng Wang
- School of Civil Engineering, Wuhan University, Wuhan 430072, China
| | - Kai Yang
- School of Civil Engineering, Wuhan University, Wuhan 430072, China
| | - Hongyu Wang
- School of Civil Engineering, Wuhan University, Wuhan 430072, China.
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50
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Wang L, Zhang Y, Luo X, Zhang J, Zheng Z. Effects of earthworms and substrate on diversity and abundance of denitrifying genes (nirS and nirK) and denitrifying rate during rural domestic wastewater treatment. Bioresour Technol 2016; 212:174-181. [PMID: 27099942 DOI: 10.1016/j.biortech.2016.04.044] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2016] [Revised: 04/05/2016] [Accepted: 04/10/2016] [Indexed: 06/05/2023]
Abstract
This study investigated the performance of an ecological filter (EF) and vermifiltration (VF) system, the effects of substrate and earthworms on the diversity and abundance of denitrifying genes coding for nitrite (nirS and nirK) reductases and on denitrifying rate, and the factors influencing denitrification. The majority of organic matter, ammonia nitrogen and total nitrogen from sewage was removed by the soil layer in both reactors, and their total removal efficiencies increased in VF compared with those in EF. Additionally, substrate in the reactors significantly influenced the Shannon diversity index and abundance of nirS and nirK, as well as the denitrifying rate. However, the earthworms only significantly influenced nirS diversity. Furthermore, evaluation of the factors controlling denitrification implied that increasing NH3-N availability, diversity and abundance of nirS and nirK or decreasing available NO3-N might be responsible for the enhanced denitrification activity obtained using VF for rural domestic wastewater treatment.
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Affiliation(s)
- Longmian Wang
- Nanjing Institute of Environmental Sciences, Ministry of Environmental Protection, No. 8 Jiang Wang Miao Street, Nanjing 210042, PR China.
| | - Yimin Zhang
- Nanjing Institute of Environmental Sciences, Ministry of Environmental Protection, No. 8 Jiang Wang Miao Street, Nanjing 210042, PR China
| | - Xingzhang Luo
- Environmental Science and Engineering Department, Fudan University, No 220, Handan Road, Shanghai 200433, PR China
| | - Jibiao Zhang
- Environmental Science and Engineering Department, Fudan University, No 220, Handan Road, Shanghai 200433, PR China
| | - Zheng Zheng
- Environmental Science and Engineering Department, Fudan University, No 220, Handan Road, Shanghai 200433, PR China
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