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Huang D, Chen Y, Bai X, Zhang R, Chen Q, Wang N, Xu Q. Methane removal efficiencies of biochar-mediated landfill soil cover with reduced depth. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 355:120487. [PMID: 38422848 DOI: 10.1016/j.jenvman.2024.120487] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Revised: 02/15/2024] [Accepted: 02/21/2024] [Indexed: 03/02/2024]
Abstract
Biochar amendment for landfill soil cover has the potential to enhance methane removal efficiency while minimizing the soil depth. However, there is a lack of information on the response of biochar-mediated soil cover to the changes in configuration and operational parameters during the methane transport and transformation processes. This study constructed three biochar-amended landfill soil covers, with reduced soil depths from 75 cm (C2) to 55 cm (C3) and 45 cm (C4), and the control group (C1) with 75 cm and no biochar. Two operation phases were conducted under two soil moisture contents and three inlet methane fluxes in each phase. The methane removal efficiency increased for all columns along with the increase in methane flux. However, increasing moisture content from 10% to 20% negatively influenced the methane removal efficiency due to mass transfer limitation when at a low inlet methane flux, especially for C1; while this adverse effect could be alleviated by a high flux. Except for the condition with low moisture content and flux combination, C3 showed comparable methane removal efficiency to C2, both dominating over C1. As for C4 with only 45 cm, a high moisture content combined with a high methane flux enabled its methane removal efficiency to be competitive with other soil depths. In addition to the geotechnical reasons for gas transport processes, the evolution in methanotroph community structure (mainly type I methanotrophs) induced by biochar amendment and variations in soil properties supplemented the biological reasons for the varying methane removal efficiencies.
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Affiliation(s)
- Dandan Huang
- Shenzhen Engineering Laboratory for Eco-efficient Recycled Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen, 518055, China; School of Ecology, Sun Yat-sen University, No. 66, Gongchang Road, Guangming District, Shenzhen, 0020518107, China
| | - Yuke Chen
- Shenzhen Engineering Laboratory for Eco-efficient Recycled Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen, 518055, China
| | - Xinyue Bai
- Shenzhen Engineering Laboratory for Eco-efficient Recycled Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen, 518055, China
| | - Rujie Zhang
- Shenzhen Engineering Laboratory for Eco-efficient Recycled Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen, 518055, China
| | - Qindong Chen
- Shenzhen Engineering Laboratory for Eco-efficient Recycled Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen, 518055, China
| | - Ning Wang
- Shenzhen Engineering Laboratory for Eco-efficient Recycled Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen, 518055, China
| | - Qiyong Xu
- Shenzhen Engineering Laboratory for Eco-efficient Recycled Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen, 518055, China.
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Hartman WH, Bueno de Mesquita CP, Theroux SM, Morgan-Lang C, Baldocchi DD, Tringe SG. Multiple microbial guilds mediate soil methane cycling along a wetland salinity gradient. mSystems 2024; 9:e0093623. [PMID: 38170982 PMCID: PMC10804969 DOI: 10.1128/msystems.00936-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2023] [Accepted: 11/29/2023] [Indexed: 01/05/2024] Open
Abstract
Estuarine wetlands harbor considerable carbon stocks, but rising sea levels could affect their ability to sequester soil carbon as well as their potential to emit methane (CH4). While sulfate loading from seawater intrusion may reduce CH4 production due to the higher energy yield of microbial sulfate reduction, existing studies suggest other factors are likely at play. Our study of 11 wetland complexes spanning a natural salinity and productivity gradient across the San Francisco Bay and Delta found that while CH4 fluxes generally declined with salinity, they were highest in oligohaline wetlands (ca. 3-ppt salinity). Methanogens and methanogenesis genes were weakly correlated with CH4 fluxes but alone did not explain the highest rates observed. Taxonomic and functional gene data suggested that other microbial guilds that influence carbon and nitrogen cycling need to be accounted for to better predict CH4 fluxes at landscape scales. Higher methane production occurring near the freshwater boundary with slight salinization (and sulfate incursion) might result from increased sulfate-reducing fermenter and syntrophic populations, which can produce substrates used by methanogens. Moreover, higher salinities can solubilize ionically bound ammonium abundant in the lower salinity wetland soils examined here, which could inhibit methanotrophs and potentially contribute to greater CH4 fluxes observed in oligohaline sediments.IMPORTANCELow-level salinity intrusion could increase CH4 flux in tidal freshwater wetlands, while higher levels of salinization might instead decrease CH4 fluxes. High CH4 emissions in oligohaline sites are concerning because seawater intrusion will cause tidal freshwater wetlands to become oligohaline. Methanogenesis genes alone did not account for landscape patterns of CH4 fluxes, suggesting mechanisms altering methanogenesis, methanotrophy, nitrogen cycling, and ammonium release, and increasing decomposition and syntrophic bacterial populations could contribute to increases in net CH4 flux at oligohaline salinities. Improved understanding of these influences on net CH4 emissions could improve restoration efforts and accounting of carbon sequestration in estuarine wetlands. More pristine reference sites may have older and more abundant organic matter with higher carbon:nitrogen compared to wetlands impacted by agricultural activity and may present different interactions between salinity and CH4. This distinction might be critical for modeling efforts to scale up biogeochemical process interactions in estuarine wetlands.
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Affiliation(s)
| | | | | | - Connor Morgan-Lang
- Department of Microbiology and Immunology, University of British Columbia, Vancouver, British Columbia, Canada
| | - Dennis D. Baldocchi
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, California, USA
| | - Susannah G. Tringe
- DOE Joint Genome Institute, Berkeley, California, USA
- Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
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3
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Obregon D, Mafa-Attoye TG, Baskerville M, Mitter EK, de Souza LF, Oelbermann M, Thevathasan NV, Tsai SM, Dunfield KE. Functionality of methane cycling microbiome during methane flux hot moments from riparian buffer systems. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 870:161921. [PMID: 36739023 DOI: 10.1016/j.scitotenv.2023.161921] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2022] [Revised: 01/26/2023] [Accepted: 01/26/2023] [Indexed: 06/18/2023]
Abstract
Riparian buffer systems (RBS) are a common agroforestry practice that involves maintaining a forested boundary adjacent to water bodies to protect the aquatic ecosystems in agricultural landscapes. While RBS have potential for carbon sequestration, they also can be sources of methane emissions. Our study site at Washington Creek in Southern Ontario, includes a rehabilitated tree buffer (RH), a grassed buffer (GRB), an undisturbed deciduous forest (UNF), an undisturbed coniferous forest (CF), and an adjacent agricultural field (AGR). The objective of this study was to assess the diversity and activity of CH4 cycling microbial communities in soils sampled during hot moments of methane fluxes (July 04 and August 15). We used qPCR and high-throughput amplicon sequencing from both DNA and cDNA to target methanogen and methanotroph communities. Methanogens, including the archaeal genera Methanosaeta, Methanosarcina, Methanomassiliicoccus, and Methanoreggula, were abundant in all RBSs, but they were significantly more active in UNF soils, where CH4 emissions were highest. Methylocystis was the most prevalent taxon among methanotrophs in all the riparian sites, except for AGR soils where the methanotrophs community was composed primarily of members of rice paddy clusters (RPCs and RPC-1) and upland soil clusters (TUSC and USCα). The main factors influencing the composition and assembly of methane-cycling microbiomes were soil carbon and moisture content. We concluded that the differences in CH4 fluxes observed between RBSs were primarily caused by differences in the presence and activity of methanogens, which were influenced by total soil carbon and water content. Overall, this study emphasizes the importance of understanding the microbial drivers of CH4 fluxes in RBSs in order to maximize RBS environmental benefits.
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Affiliation(s)
- Dasiel Obregon
- School of Environmental Science, University of Guelph, 50 Stone Rd E, Guelph, ON N1H 2W1, Canada; Center for Nuclear Energy in Agriculture, University of São Paulo, Av. Centenário, 303 - São Dimas, Piracicaba, SP 13400-970, Brazil
| | - Tolulope G Mafa-Attoye
- School of Environmental Science, University of Guelph, 50 Stone Rd E, Guelph, ON N1H 2W1, Canada
| | - Megan Baskerville
- Environment and Climate Change Canada, 351, Boul. Saint-Joseph, Gatineau, Quebec, QC K1A 0H3, Canada
| | - Eduardo K Mitter
- School of Environmental Science, University of Guelph, 50 Stone Rd E, Guelph, ON N1H 2W1, Canada
| | - Leandro Fonseca de Souza
- Center for Nuclear Energy in Agriculture, University of São Paulo, Av. Centenário, 303 - São Dimas, Piracicaba, SP 13400-970, Brazil
| | - Maren Oelbermann
- School of Environment, Resources, and Sustainability, University of Waterloo, 200 University Avenue West, Waterloo, ON N2L 3G1, Canada
| | - Naresh V Thevathasan
- School of Environmental Science, University of Guelph, 50 Stone Rd E, Guelph, ON N1H 2W1, Canada
| | - Siu Mui Tsai
- Center for Nuclear Energy in Agriculture, University of São Paulo, Av. Centenário, 303 - São Dimas, Piracicaba, SP 13400-970, Brazil
| | - Kari E Dunfield
- School of Environmental Science, University of Guelph, 50 Stone Rd E, Guelph, ON N1H 2W1, Canada.
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Shen L, Ren B, Jin Y, Liu X, Jin J, Huang H, Tian M, Yang W, Yang Y, Liu J, Geng C, Bai Y, Hu Z. Effects of abrupt and gradual increase of atmospheric CO 2 concentration on methanotrophs in paddy fields. ENVIRONMENTAL RESEARCH 2023; 223:115474. [PMID: 36773639 DOI: 10.1016/j.envres.2023.115474] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 01/27/2023] [Accepted: 02/08/2023] [Indexed: 06/18/2023]
Abstract
The simulation of abrupt atmospheric CO2 increase is a common way to examine the response of soil methanotrophs to future climate change. However, atmosphere is undergoing a gradual CO2 increase, and it is unknown whether the previously reported response of methanotrophs to abrupt CO2 increase can well represent their response to the gradual increase. To improve the understanding of the effect of elevated CO2 (eCO2) on methanotrophs in paddy ecosystems, the methane oxidation potential and communities of methanotrophs were examined via open top chambers under the three following CO2 treatments: an ambient CO2 concentration (AC); an abrupt CO2 increase by 200 ppm above AC (AI); a gradual CO2 increase by 40 ppm each year until 200 ppm above AC (GI). Relative to AC treatment, AI and GI treatments significantly (p < 0.05) increased the methane oxidation rate by 43.8% and 36.7%, respectively, during rice growth period. Furthermore, the abundance of pmoA genes was significantly (p < 0.05) increased by 62.4% and 32.5%, respectively, under AI and GI treatments. However, there were no significant variations in oxidation rate or gene abundance between the two eCO2 treatments. In addition, no obvious change of overall community composition of methanotrophs was observed among treatments, while the proportions of Methylosarcina and Methylocystis significantly (p < 0.05) changed. Taken together, our results indicate similar response of methanotrophs to abrupt and gradual CO2 increase, although the magnitude of response under gradual increase was smaller and the abrupt increase may somewhat overestimate the response.
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Affiliation(s)
- Lidong Shen
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China.
| | - Bingjie Ren
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Yuhan Jin
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Xin Liu
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Jinghao Jin
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Hechen Huang
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Maohui Tian
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Wangting Yang
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Yuling Yang
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Jiaqi Liu
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Caiyu Geng
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Yanan Bai
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China.
| | - Zhenghua Hu
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
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5
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Lee J, Yun J, Yang Y, Jung JY, Lee YK, Yuan J, Ding W, Freeman C, Kang H. Attenuation of Methane Oxidation by Nitrogen Availability in Arctic Tundra Soils. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:2647-2659. [PMID: 36719133 DOI: 10.1021/acs.est.2c05228] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
CH4 emission in the Arctic has large uncertainty due to the lack of mechanistic understanding of the processes. CH4 oxidation in Arctic soil plays a critical role in the process, whereby removal of up to 90% of CH4 produced in soils by methanotrophs can occur before it reaches the atmosphere. Previous studies have reported on the importance of rising temperatures in CH4 oxidation, but because the Arctic is typically an N-limited system, fewer studies on the effects of inorganic nitrogen (N) have been reported. However, climate change and an increase of available N caused by anthropogenic activities have recently been reported, which may cause a drastic change in CH4 oxidation in Arctic soils. In this study, we demonstrate that excessive levels of available N in soil cause an increase in net CH4 emissions via the reduction of CH4 oxidation in surface soil in the Arctic tundra. In vitro experiments suggested that N in the form of NO3- is responsible for the decrease in CH4 oxidation via influencing soil bacterial and methanotrophic communities. The findings of our meta-analysis suggest that CH4 oxidation in the boreal biome is more susceptible to the addition of N than in other biomes. We provide evidence that CH4 emissions in Arctic tundra can be enhanced by an increase of available N, with profound implications for modeling CH4 dynamics in Arctic regions.
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Affiliation(s)
- Jaehyun Lee
- School of Civil and Environmental Engineering, Yonsei University, Seoul03722, South Korea
| | - Jeongeun Yun
- School of Civil and Environmental Engineering, Yonsei University, Seoul03722, South Korea
| | - Yerang Yang
- School of Civil and Environmental Engineering, Yonsei University, Seoul03722, South Korea
| | - Ji Young Jung
- Korea Polar Research Institute, Incheon21990, South Korea
| | - Yoo Kyung Lee
- Korea Polar Research Institute, Incheon21990, South Korea
| | - Junji Yuan
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing210008, China
| | - Weixin Ding
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing210008, China
| | - Chris Freeman
- School of Natural Sciences, Bangor University, BangorLL57 2UW, U.K
| | - Hojeong Kang
- School of Civil and Environmental Engineering, Yonsei University, Seoul03722, South Korea
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6
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Kang H, Lee J, Zhou X, Kim J, Yang Y. The Effects of N Enrichment on Microbial Cycling of Non-CO 2 Greenhouse Gases in Soils-a Review and a Meta-analysis. MICROBIAL ECOLOGY 2022; 84:945-957. [PMID: 34725713 DOI: 10.1007/s00248-021-01911-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2021] [Accepted: 10/25/2021] [Indexed: 06/13/2023]
Abstract
Terrestrial ecosystems are typically nitrogen (N) limited, but recent years have witnessed N enrichment in various soil ecosystems caused by human activities such as fossil fuel combustion and fertilizer application. This enrichment may alter microbial processes in soils in a way that would increase the emissions of methane (CH4) and nitrous oxide (N2O), thereby aggravating global climate change. This review focuses on the effects of N enrichment on methanogens and methanotrophs, which play a central role in the dynamics of CH4 at the global scale. We also address the effects of N enrichment on N2O, which is produced in soils mainly by nitrification and denitrification. Overall, N enrichment inhibits methanogenesis in pure culture experiments, while its effects on CH4 oxidation are more complicated. The majority of previous studies reported that N enrichment, especially NH4+ enrichment, inhibits CH4 oxidation, resulting in higher CH4 emissions from soils. However, both activation and neutral responses have also been reported, particularly in rice paddies and landfill sites, which is well reflected in our meta-analysis. In contrast, N enrichment substantially increases N2O emission by both nitrification and denitrification, which increases proportionally to the amount of N amended. Future studies should address the effects of N enrichment on the active microbes of those functional groups at multiple scales along with parameterization of microbial communities for the application to climate models at the global scale.
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Affiliation(s)
- Hojeong Kang
- School of Civil and Environmental Engineering, Yonsei University, Seoul, Korea.
| | - Jaehyun Lee
- School of Civil and Environmental Engineering, Yonsei University, Seoul, Korea
| | - Xue Zhou
- School of Civil and Environmental Engineering, Yonsei University, Seoul, Korea
- College of Agricultural Science and Engineering, Hohai University, Nanjing, China
| | - Jinhyun Kim
- School of Civil and Environmental Engineering, Yonsei University, Seoul, Korea
| | - Yerang Yang
- School of Civil and Environmental Engineering, Yonsei University, Seoul, Korea
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7
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Liu X, Shi Y, Yang T, Gao GF, Zhang L, Xu R, Li C, Liu R, Liu J, Chu H. Distinct Co-occurrence Relationships and Assembly Processes of Active Methane-Oxidizing Bacterial Communities Between Paddy and Natural Wetlands of Northeast China. Front Microbiol 2022; 13:809074. [PMID: 35154054 PMCID: PMC8826055 DOI: 10.3389/fmicb.2022.809074] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2021] [Accepted: 01/04/2022] [Indexed: 11/27/2022] Open
Abstract
Studies of methane-oxidizing bacteria are updating our views of their composition and function in paddy and natural wetlands. However, few studies have characterized differences in the methane-oxidizing bacterial communities between paddy and natural wetlands. Here, we conducted a 13C stable isotope-probing experiment and high-throughput sequencing to determine the structure profiling, co-occurrence relationships, and assembly processes of methanotrophic communities in four wetlands of Northeast China. There was a clear difference in community structure between paddy and natural wetlands. LEfSe analyses revealed that Methylobacter, FWs, and Methylosinus were enriched in natural wetlands, while Methylosarcina were prevailing in paddy, all identified as indicative methanotrophs. We observed distinct co-occurrence relationships between paddy and natural wetlands: more robust and complex connections in natural wetlands than paddy wetlands. Furthermore, the relative importance of stochastic processes was greater than that of deterministic processes, as stochastic processes explained >50% of the variation in communities. These results demonstrated that the co-occurrence relationships and assembly processes of active methanotrophic communities in paddy and natural wetlands were distinct. Overall, the results of this study enhance our understanding of the communities of methane-oxidizing bacteria in paddy and natural wetlands of Northeast China.
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Affiliation(s)
- Xu Liu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Yu Shi
- State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng, China
| | - Teng Yang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Gui-Feng Gao
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Liyan Zhang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing, China
| | - Ruoyu Xu
- High School Affiliated to Nanjing Normal University, Nanjing, China
| | - Chenxin Li
- High School Affiliated to Nanjing Normal University, Nanjing, China
| | - Ruiyang Liu
- High School Affiliated to Nanjing Normal University, Nanjing, China
| | - Junjie Liu
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China
| | - Haiyan Chu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China.,University of Chinese Academy of Sciences, Beijing, China
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8
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Chen J, Feng M, Cui Y, Liu G. The impacts of nitrogen addition on upland soil methane uptake: A global meta-analysis. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 795:148863. [PMID: 34247074 DOI: 10.1016/j.scitotenv.2021.148863] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2021] [Revised: 07/01/2021] [Accepted: 07/01/2021] [Indexed: 06/13/2023]
Abstract
Elevated nitrogen (N) addition from anthropogenic activities has great impacts on soil methane (CH4) uptake, which could interrupt the existing global CH4 balance and cause feedbacks to climate and biogeochemical processes. Previous studies have come to inconsistent conclusions on both the quantification of the response of CH4 uptake to N addition and understanding of its underlying mechanisms, probably due to the lack of experimental data. Here, we conduct a broad meta-analysis of 90 papers to quantify the responses of CH4 uptake to N addition in upland soil. The results show that N addition has a significant negative impact on soil CH4 uptake (-19.25%), which is termed the N inhibition effect. Soil pH is identified as the dominant factor, with the other factors affecting the CH4 uptake through the alteration of soil pH. The N inhibition effect is observed to be large and significant in forest and grassland, but small and insignificant in farmland, because of the distinct composition of their methanotrophic communities. A threshold of the N addition level is identified at about 68 kg N ha-1 year-1, which indicates the lowest N inhibition effect. Furthermore, the convex relationship between response ratio of CH4 uptake (negative) and N addition duration indicates that a medium level of N addition duration has the largest N inhibition effect, and longer or shorter durations will both reduce the effect. Our analysis of the N inhibition effect implies that controlling the N addition level could effectively reduce the CH4 concentration in the atmosphere and thus relieve global warming.
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Affiliation(s)
- Jianyu Chen
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing 100871, PR China
| | - Maoyuan Feng
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing 100871, PR China.
| | - Yongxing Cui
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing 100871, PR China
| | - Gang Liu
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing 100871, PR China
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9
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Xia F, Jiang QY, Zhu T, Zou B, Liu H, Quan ZX. Ammonium promoting methane oxidation by stimulating the Type Ia methane-oxidizing bacteria in tidal flat sediments of the Yangtze River estuary. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 793:148470. [PMID: 34166901 DOI: 10.1016/j.scitotenv.2021.148470] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2021] [Revised: 06/10/2021] [Accepted: 06/11/2021] [Indexed: 06/13/2023]
Abstract
Estuary and coastal environments have essential ecosystem functions in greenhouse gas sinks and removal of nitrogen pollution. Methane-oxidizing bacteria (MOB) and ammonia-oxidizing bacteria (AOB) communities play critical functions in the estuary's tidal flat sediments. Therefore, the effects of ammonium on MOB communities and methane on AOB communities need to be further explained. In this study, microcosm incubations with different contents of ammonium or methane were conducted for a relatively short (24 h) or long (28 days) period with tidal flat sediments from the Yangtze River estuary. Subsequently, the tagged highly degenerate primer PCR and DNA-based stable isotope probing method were employed to demonstrate the effects on MOB and AOB populations. The results indicated that the methane consumption was enhanced with ammonium supplements within 24 h of incubation. Supplement of 2 μmol/g d.w.s (μmol per gram dry weight soil) NH4+ increased the amount of MOB and its proportion to the total bacteria (p < 0.05) for 28 days incubation. The ammonium supplement increased the proportion of Methylomonas and Methylobacter based on the 16S rRNA gene. According to the functional gene analysis, the MOB primarily engaged in methane oxidation include Methylomonas, Methylobacter, Methylomicrobium, and Methylosarcina, which were associated with Type Ia MOB. It suggested that ammonium supplement may promote methane oxidation by stimulating the Type Ia MOB in tidal flat sediments of the Yangtze River estuary. The current research helps understand the effect of ammonium on methane consumption in the estuary and coastal environments.
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Affiliation(s)
- Fei Xia
- School of Food and Biological Engineering, Shaanxi University of Science and Technology, Xi'an 710021, China; Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
| | - Qiu-Yue Jiang
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
| | - Ting Zhu
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
| | - Bin Zou
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China
| | - Huan Liu
- School of Food and Biological Engineering, Shaanxi University of Science and Technology, Xi'an 710021, China
| | - Zhe-Xue Quan
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, School of Life Sciences, Fudan University, Shanghai, China.
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Rani V, Bhatia A, Kaushik R. Inoculation of plant growth promoting-methane utilizing bacteria in different N-fertilizer regime influences methane emission and crop growth of flooded paddy. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 775:145826. [PMID: 33631576 DOI: 10.1016/j.scitotenv.2021.145826] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2020] [Revised: 02/06/2021] [Accepted: 02/08/2021] [Indexed: 06/12/2023]
Abstract
Methane (CH4) emission in rice fields is greatly influenced by the type and quantity of nitrogenous fertilizer used. The net methane emission from paddy fields is also influenced by the activity of methane utilizing bacteria, which inhabit the flooded paddy ecosystem. Efficient methane utilizing and plant growth promoting bacteria Methylobacterium oryzae MNL7 and Paenibacillus polymyxa MaAL70, respectively were co-inoculated along with different nitrogenous fertilizer combinations in flooded paddy to assess their impact on cumulative methane emission and crop growth promotion. Co-inoculation significantly influenced the plant growth parameters of paddy, resulting in an increase in grain yield by 14.04, 11.08, and 12.38% in treatments receiving Urea, Di-ammonium Phosphate (DAP) + Urea, or farm yard manure (FYM), over their respective un-inoculated plots. Significant improvement in the rice grain nutrient quality in term of crude protein, Fe and Zn content was observed as a result of bacterial co-inoculation in FYM fertilized plots as compared to Urea and DAP+ Urea fertilized plots. Significantly higher cumulative methane emission of 63.39 kg ha-1 was observed in uninoculated plots fertilized with FYM treatment as compared to Urea (33.83 kg ha-1) and DAP+Urea (31.66 kg ha-1) treatments. Bacterial co-inoculation significantly reduced the cumulative methane emission by 12.03, 11.47 and 6.92% in Urea, DAP+Urea, and FYM fertilized plots over their respective uninoculated treatments. Among the different fertilizer treatments, bacterial co-inoculation with urea application performed significantly better in reducing cumulative methane emission. These findings suggest that methane utilizing bacteria which also possess plant growth promoting trait can be explored for developing a novel biofertilizer for flooded paddies, as they can aid in managing both the overall methane emission and enhancing crop yield.
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Affiliation(s)
- Vijaya Rani
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Arti Bhatia
- Center for Environemtal Sciences and Climate Resilient Agriculture, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Rajeev Kaushik
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India.
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11
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Transcriptomic and Metabolomic Responses to Carbon and Nitrogen Sources in Methylomicrobium album BG8. Appl Environ Microbiol 2021; 87:e0038521. [PMID: 33893121 DOI: 10.1128/aem.00385-21] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Methanotrophs use methane as their sole carbon and energy source and represent an attractive platform for converting single-carbon feedstocks into value-added compounds. Optimizing these species for biotechnological applications involves choosing an optimal growth substrate based on an understanding of cellular responses to different nutrients. Although many studies of methanotrophs have examined growth rate, yield, and central carbon flux in cultures grown with different carbon and nitrogen sources, few studies have examined more global cellular responses to different media. Here, we evaluated global transcriptomic and metabolomic profiles of Methylomicrobium album BG8 when grown with methane or methanol as the carbon source and nitrate or ammonium as the nitrogen source. We identified five key physiological changes during growth on methanol: M. album BG8 cultures upregulated transcripts for the Entner-Doudoroff and pentose phosphate pathways for sugar catabolism, produced more ribosomes, remodeled the phospholipid membrane, activated various stress response systems, and upregulated glutathione-dependent formaldehyde detoxification. When using ammonium, M. album BG8 upregulated hydroxylamine dehydrogenase (haoAB) and overall central metabolic activity, whereas when using nitrate, cultures upregulated genes for nitrate assimilation and conversion. Overall, we identified several nutrient source-specific responses that could provide a valuable basis for future research on the biotechnological optimization of these species. IMPORTANCE Methanotrophs are gaining increasing interest for their biotechnological potential to convert single-carbon compounds into value-added products such as industrial chemicals, fuels, and bioplastics. Optimizing these species for biotechnological applications requires a detailed understanding of how cellular activity and metabolism vary across different growth substrates. Although each of the two most commonly used carbon sources (methane or methanol) and nitrogen sources (ammonium or nitrate) in methanotroph growth media have well-described advantages and disadvantages in an industrial context, their effects on global cellular activity remain poorly characterized. Here, we comprehensively describe the transcriptomic and metabolomic changes that characterize the growth of an industrially promising methanotroph strain on multiple combinations of carbon and nitrogen sources. Our results represent a more holistic evaluation of cellular activity than previous studies of core metabolic pathways and provide a valuable basis for the future biotechnological optimization of these species.
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12
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Li Q, Peng C, Zhang J, Li Y, Song X. Nitrogen addition decreases methane uptake caused by methanotroph and methanogen imbalances in a Moso bamboo forest. Sci Rep 2021; 11:5578. [PMID: 33692387 PMCID: PMC7947007 DOI: 10.1038/s41598-021-84422-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Accepted: 02/11/2021] [Indexed: 11/23/2022] Open
Abstract
Forest soils play an important role in controlling global warming by reducing atmospheric methane (CH4) concentrations. However, little attention has been paid to how nitrogen (N) deposition may alter microorganism communities that are related to the CH4 cycle or CH4 oxidation in subtropical forest soils. We investigated the effects of N addition (0, 30, 60, or 90 kg N ha−1 yr−1) on soil CH4 flux and methanotroph and methanogen abundance, diversity, and community structure in a Moso bamboo (Phyllostachys edulis) forest in subtropical China. N addition significantly increased methanogen abundance but reduced both methanotroph and methanogen diversity. Methanotroph and methanogen community structures under the N deposition treatments were significantly different from those of the control. In N deposition treatments, the relative abundance of Methanoculleus was significantly lower than that in the control. Soil pH was the key factor regulating the changes in methanotroph and methanogen diversity and community structure. The CH4 emission rate increased with N addition and was negatively correlated with both methanotroph and methanogen diversity but positively correlated with methanogen abundance. Overall, our results suggested that N deposition can suppress CH4 uptake by altering methanotroph and methanogen abundance, diversity, and community structure in subtropical Moso bamboo forest soils.
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Affiliation(s)
- Quan Li
- Center for Ecological Forecasting and Global Change, College of Forestry, Northwest A&F University, Yangling, 712100, China.,State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, 311300, China
| | - Changhui Peng
- Center for Ecological Forecasting and Global Change, College of Forestry, Northwest A&F University, Yangling, 712100, China. .,Department of Biology Sciences, Institute of Environment Sciences, University of Quebec at Montreal, Case Postale 8888, Succursale Centre-Ville, Montreal, H3C3P8, Canada.
| | - Junbo Zhang
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, 311300, China
| | - Yongfu Li
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, 311300, China
| | - Xinzhang Song
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, 311300, China.
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13
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Bai S, Qin L, Liu L, Gao X, Ding Y, Li Y. Effect of substrate types on contaminant removals, electrochemical characteristics and microbial community in vertical flow constructed wetlands for treatment of urban sewage. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 280:111682. [PMID: 33243625 DOI: 10.1016/j.jenvman.2020.111682] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2020] [Revised: 10/27/2020] [Accepted: 11/14/2020] [Indexed: 06/11/2023]
Abstract
The purpose of this study was to investigate the influence of substrates (quartz sand and coke) on the removal of pollutants (COD, NH4+-N and TP), electrochemical characteristics and microbial communities of vertical flow constructed wetlands (VFCW) under high pollutant loads. During operation, the removal rates of COD, NH4+-N and TP by VFCW-C (coke as substrate) were higher than that of VFCW-Q (quartz sand as substrate) by 9.73-19.41%, 5.03%-13.15% and 8.83%-14.58%, respectively. And the resistances of the VFCW-Q and VFCW-C were increased by 1228.9 Ω and 38.3 Ω, while their potentials were dropped from 182.4 mV to 377.9 mV-85.6 mV and 222.0 mV, respectively. The dominant bacteria at the bottoms of VFCW-Q and VFCW-C were individually aerobic denitrifying bacteria (ADNB; 14.98%)/ammonia oxidizing bacteria (AOB; 5.73%) and organics aerobic degrading bacteria (OADB; 12.48%)/ammonia oxidizing bacteria (AOB; 7.24%), while the predominant bacteria at their tops were separately ADNB (11.36%)/OADB (10.52%)/AOB (4.69%) and ADNB (15.09%)/AOB (8.86%) and OADB (3.20%) The removal of pollutants by VFCW-Q and VFCW-C may be mainly attributed to substrate adsorption and microbial degradation.
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Affiliation(s)
- Shaoyuan Bai
- College of Environmental Science and Engineering, Guilin University of Technology, Guilin, 541004, China; Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin University of Technology, Guilin, 541004, China
| | - Lanqian Qin
- College of Environmental Science and Engineering, Guilin University of Technology, Guilin, 541004, China
| | - Liheng Liu
- College of Environmental Science and Engineering, Guilin University of Technology, Guilin, 541004, China; Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin University of Technology, Guilin, 541004, China.
| | - Xutao Gao
- College of Environmental Science and Engineering, Guilin University of Technology, Guilin, 541004, China
| | - Yanli Ding
- College of Earth Science, Guilin University of Technology, Guilin, 541004, China
| | - Yanhong Li
- Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin University of Technology, Guilin, 541004, China
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14
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Xu X, Xia Z, Liu Y, Liu E, Müller K, Wang H, Luo J, Wu X, Beiyuan J, Fang Z, Xu J, Di H, Li Y. Interactions between methanotrophs and ammonia oxidizers modulate the response of in situ methane emissions to simulated climate change and its legacy in an acidic soil. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 752:142225. [PMID: 33207503 DOI: 10.1016/j.scitotenv.2020.142225] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2020] [Revised: 08/31/2020] [Accepted: 09/03/2020] [Indexed: 06/11/2023]
Abstract
Methane (CH4) is one of the most important greenhouse gases which can be formed by methanogens and oxidized by methanotrophs, as well as ammonia oxidizers. Agricultural soils can be both a source and sink for atmospheric CH4. However, it is unclear how climate change, will affect CH4 emissions and the underlying functional guilds. In this field study, we determined the impact of simulated climate change (a warmer and drier condition) and its legacy effect on CH4 emissions and the methanogenic and methanotrophic communities, as well as their relationships with ammonia oxidizers in an acidic soil with urea application. The climate change conditions were simulated in a greenhouse, and the legacy effect was simulated by removing the greenhouse after twelve months. Simulated climate change significantly decreased the in situ CH4 emissions in the urea-treated soils while the legacy effect significantly decreased the in situ CH4 emissions in the control plots, but had very little effect in the urea-treated soils. This indicates that the impact of simulated climate change and its legacy on CH4 emissions was significantly modified by nitrogen fertilization. Methanotrophs were more sensitive than methanogens in response to simulated climate change and its legacy effect, especially in the urea treated soil. Significant negative correlations were observed between the abundances of ammonia oxidizers and methanotrophs. Additionally, results of partial least path modeling (PLS-PM) indicated that the interactions of methanogens and methanotrophs with ammonia oxidizing archaea (AOA) had significant positive relationships with in situ CH4 emissions under the simulated climate change condition. Our work highlights the important role of AOA for CH4 emissions under climate change conditions. Further research is needed to better understand this effect in other ecosystems.
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Affiliation(s)
- Xiaoya Xu
- College of Geography and Environment, Shandong Normal University, Jinan 250014, China; College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China; School of Environment and Chemical Engineering, Foshan University, Foshan, Guangdong 528000, China
| | - Zhidan Xia
- School of Public Health, Zhejiang University School of Medicine, Hangzhou, Zhejiang 310058, China
| | - Yaowei Liu
- College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| | - Enfeng Liu
- College of Geography and Environment, Shandong Normal University, Jinan 250014, China
| | - Karin Müller
- The New Zealand Institute for Plant & Food Research Limited, Ruakura Research Centre, Private Bag 3123, Hamilton, New Zealand
| | - Hailong Wang
- School of Environment and Chemical Engineering, Foshan University, Foshan, Guangdong 528000, China
| | - Jiafa Luo
- AgResearch Ruakura, Hamilton 3214, New Zealand
| | - Xiaolian Wu
- School of Environment and Chemical Engineering, Foshan University, Foshan, Guangdong 528000, China
| | - Jingzi Beiyuan
- School of Environment and Chemical Engineering, Foshan University, Foshan, Guangdong 528000, China
| | - Zheng Fang
- School of Environment and Chemical Engineering, Foshan University, Foshan, Guangdong 528000, China
| | - Jianming Xu
- College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| | - Hongjie Di
- College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| | - Yong Li
- College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China.
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15
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Chen J, Zhang Y, Yang Y, Tao T, Sun X, Guo P. Effects of increasing organic nitrogen inputs on CO 2, CH 4, and N 2O fluxes in a temperate grassland. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2021; 268:115822. [PMID: 33130444 DOI: 10.1016/j.envpol.2020.115822] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2020] [Revised: 10/08/2020] [Accepted: 10/10/2020] [Indexed: 06/11/2023]
Abstract
Understanding future climate change requires accurate estimates of the impacts of atmospheric nitrogen (N) deposition, composed of both inorganic and organic compounds, on greenhouse gas (GHG) fluxes in grassland ecosystems. However, previous studies have focused on inorganic compounds and have not considered the potential effects of organic N sources. Here, we conducted a grassland experiment that included organic, inorganic N, and a mix of them at a ratio of 4:6, with two input rates, to study N inputs induced CO2, CH4, and N2O fluxes, as well as the potential abiotic and biotic mechanisms driving the fluxes. We found that N compositions significantly affected fluxes each of the three GHGs. Greater organic N decreased the impacts of N addition on CO2 and N2O emissions, caused primarily by low rates of increase in substrates (soil available N) for production of CO2 and N2O resulting from high ammonia volatilization rather than changes in microbial activity. Also, greater organic N slightly stimulated CH4 uptake. Nitrogen composition effects on CO2 emissions and CH4 uptake were independent of N input rates and measurement dates, but N2O emissions showed stronger responses to inorganic N under high N addition and in June. These results suggest that future studies should consider the source of N to improve our prediction of future climate impact of N deposition, and that management of N fertilization can help mitigate GHG emissions.
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Affiliation(s)
- Jihui Chen
- College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, 210095, China; College of Animal Science, Guizhou University, Guiyang, 550025, China
| | - Yingjun Zhang
- College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, 210095, China; College of Grassland Science and Technology, China Agricultural University, Beijing, 100193, China
| | - Yi Yang
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, Chongqing, 400045, China; Department of Environmental Studies, Dartmouth College, Hanover, NH, 03755, USA
| | - Tingting Tao
- College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, 210095, China
| | - Xiao Sun
- College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, 210095, China.
| | - Peng Guo
- School of Biological Science and Engineering, Hebei University of Science and Technology, Yuxiang Street 26, Shijiazhuang, 050018, China
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16
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Hu Y, Jiang H, Wang F, Xu Z, Chen Y, Ma S, Yan Y, Lu X. Opposite responses of global warming potential to ammonium and nitrate addition in an alpine steppe soil from Northern Tibet. Glob Ecol Conserv 2020. [DOI: 10.1016/j.gecco.2020.e01115] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
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17
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Lemmel F, Maunoury-Danger F, Leyval C, Cébron A. DNA stable isotope probing reveals contrasted activity and phenanthrene-degrading bacteria identity in a gradient of anthropized soils. FEMS Microbiol Ecol 2019; 95:5626340. [PMID: 31730156 DOI: 10.1093/femsec/fiz181] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2019] [Accepted: 11/13/2019] [Indexed: 11/13/2022] Open
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are ubiquitous soil organic pollutants. Although PAH-degrading bacteria are present in almost all soils, their selection and enrichment have been shown in historically high PAH contaminated soils. We can wonder if the effectiveness of PAH biodegradation and the PAH-degrading bacterial diversity differ among soils. The stable isotope probing (SIP) technique with 13C-phenanthrene (PHE) as a model PAH was used to: (i) compare for the first time a range of 10 soils with various PAH contamination levels, (ii) determine their PHE-degradation efficiency and (iii) identify the active PHE-degraders using 16S rRNA gene amplicon sequencing from 13C-labeled DNA. Surprisingly, the PHE degradation rate was not directly correlated to the initial level of total PAHs and phenanthrene in the soils, but was mostly explained by the initial abundance and richness of soil bacterial communities. A large diversity of PAH-degrading bacteria was identified for seven of the soils, with differences among soils. In the soils where the PHE degradation activities were the higher, Mycobacterium species were always the dominant active PHE degraders. A positive correlation between PHE-degradation level and the diversity of active PHE-degraders (Shannon index) supported the hypothesis that cooperation between strains led to a more efficient PAH degradation.
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Affiliation(s)
- Florian Lemmel
- Université de Lorraine, CNRS, LIEC UMR7360, Faculté des Sciences et Technologies, Bd des Aiguillettes, BP70239, 54506 Vandoeuvre-les-Nancy, France
| | - Florence Maunoury-Danger
- Université de Lorraine, CNRS, LIEC UMR7360, Campus Bridoux, Avenue du général Delestraint, 57070 Metz, France
| | - Corinne Leyval
- Université de Lorraine, CNRS, LIEC UMR7360, Faculté des Sciences et Technologies, Bd des Aiguillettes, BP70239, 54506 Vandoeuvre-les-Nancy, France
| | - Aurélie Cébron
- Université de Lorraine, CNRS, LIEC UMR7360, Faculté des Sciences et Technologies, Bd des Aiguillettes, BP70239, 54506 Vandoeuvre-les-Nancy, France
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18
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Chu H, Zhu YG. Editorial: China Soil Microbiome thematic issue. FEMS Microbiol Ecol 2019; 95:5613420. [PMID: 31689345 DOI: 10.1093/femsec/fiz170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2019] [Accepted: 10/23/2019] [Indexed: 11/13/2022] Open
Affiliation(s)
- Haiyan Chu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, 71 East Beijing Road, Nanjing 210008, China
| | - Yong-Guan Zhu
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, 1799 Jimei Road, Xiamen 361021, China
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