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Liu F, Yang J, Zhang Y, Yang S, Zhang Y, Chen Y, Shao Y, Gao D, Yuan Z, Zhang Y. Mulches assist degraded soil recovery via stimulating biogeochemical cycling: metagenomic analysis. Appl Microbiol Biotechnol 2024; 108:20. [PMID: 38159114 DOI: 10.1007/s00253-023-12824-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Revised: 11/07/2023] [Accepted: 11/21/2023] [Indexed: 01/03/2024]
Abstract
Soil degradation of urban greening has caused soil fertility loss and soil organic carbon depletion. Organic mulches are made from natural origin materials, and represent a cost-effective and environment-friendly remediation method for urban greening. To reveal the effects of organic mulch on soil physicochemical characteristics and fertility, we selected a site that was covered with organic mulch for 6 years and a nearby lawn-covered site. The results showed that soil organic matter, total nitrogen, and available phosphorus levels were improved, especially at a depth of 0-20 cm. The activities of cellulase, invertase, and dehydrogenase in soil covered with organic mulch were 17.46%, 78.98%, and 283.19% higher than those under lawn, respectively. The marker genes of fermentation, aerobic respiration, methanogenesis, and methane oxidation were also enriched in the soil under organic mulch. Nitrogen cycling was generally repressed by the organic mulch, but the assimilatory nitrate and nitrite reduction processes were enhanced. The activity of alkaline phosphatase was 12.63% higher in the mulch-covered soil, and functional genes involved in phosphorus cycling were also enriched. This study presents a comprehensive investigation of the influence of organic mulch on soil microbes and provides a deeper insight into the recovery strategy for soil degradation following urban greening. KEY POINTS: • Long-term cover with organic mulches assists soil recovery from degradation • Soil physical and chemical properties were changed by organic mulches • Organic mulches enhanced genes involved in microbially mediated C and P cycling • Soil organic matter was derived from decomposition of organic mulch and carbon fixation • N cycling was repressed by mulches, except for assimilatory NO2- and NO3- reductions.
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Affiliation(s)
- Fengqin Liu
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Jiale Yang
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Yu Zhang
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Shuilian Yang
- College of Resources and Environmental Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Yifan Zhang
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Yun Chen
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Yizhen Shao
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China
| | - Dawen Gao
- College of Environment and Energy Engineering, Engineering and Architecture, Beijing University of Civil, Beijing, 100044, China
| | - Zhiliang Yuan
- College of Life Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China.
| | - Yupeng Zhang
- College of Resources and Environmental Sciences, Henan Agricultural University, No. 63 Agricultural Road, Zhengzhou, 450002, China.
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Ren G, Zhang X, Zhang J, Mu L, Xin X, Yun Y, Zhu A, Ge S. Effects of straw management and N levels on gross nitrogen transformations in fluvo-aquic soil of the North China Plain. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 944:173652. [PMID: 38825209 DOI: 10.1016/j.scitotenv.2024.173652] [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: 03/04/2024] [Revised: 05/03/2024] [Accepted: 05/28/2024] [Indexed: 06/04/2024]
Abstract
Straw incorporation with nitrogen (N) fertilization is crucial for enhancing soil fertility and minimizing negative environmental impacts by altering the magnitude and direction of soil N transformation processes. However, the response of soil N transformations to long-term carbon (C) and N inputs, and their primary driving factors, remain poorly understood. Thus, a 15N tracing study was conducted to investigate the effects of straw incorporation (AS) and straw removal (NS) with N levels of 0, 150 and 250 kg N ha-1 per season (N0, N150 and N250) on gross N transformation rates in the North China Plain after 6-year trial. Results indicated that at N0, AS significantly increased soil microbial immobilization of nitrate (NO3--N, INO3) and autotrophic nitrification rates (ONH4) compared to NS. With N fertilization, AS increased gross N immobilization (Itotal), ammonium-N immobilization (NH4+-N, INH4), net NH4+-N immobilization (InetNH4) and net NH4+-N absorption rates (AnetNH4). Specifically, at N150, AS significantly increased recalcitrant organic N mineralization rate (MNrec), while significantly reducing ONH4, labile organic N mineralization (MNlab), and gross N mineralization rates (Mtotal). At N250, AnetNH4, MNlab, MNrec and ONH4 under AS were significantly higher than under NS. Nitrogen application significantly increased ONH4, Itotal and INO3 under two straw management practices, and enhanced INH4 and InetNH4 under AS. Compared to N250, N150 significantly increased INH4 and InetNH4 under AS, while decreasing Mtotal. Opposite results were observed under NS. Meanwhile, NO3--N and dissolved organic carbon (DOC) were master factors controlling immobilization, total nitrogen (TN), hydrolysable NH4+-N (HNN) and stable organic N significantly affected AnetNH4, while labile organic N were the key environmental factors affecting MNrec, all of which positively influenced the rates of assimilation, mineralization and clay mineral adsorption. Overall, this study provides new insights into reducing N fertilization under straw incorporation by quantifying soil N transformation processes.
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Affiliation(s)
- Guocui Ren
- Fengqiu Agro-ecological Experimental Station, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; University of Chinese Academy of Sciences, Beijing 100049, China; University of Chinese Academy of Sciences, Nanjing 211135, China
| | - Xianfeng Zhang
- Fengqiu Agro-ecological Experimental Station, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; University of Chinese Academy of Sciences, Beijing 100049, China; University of Chinese Academy of Sciences, Nanjing 211135, China
| | - Jinbo Zhang
- School of Geography, Nanjing Normal University, Nanjing 210023, China
| | - Lan Mu
- Soil and Fertilizer Station of Henan Province, Zhengzhou 450002, China
| | - Xiuli Xin
- Fengqiu Agro-ecological Experimental Station, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; University of Chinese Academy of Sciences, Beijing 100049, China; University of Chinese Academy of Sciences, Nanjing 211135, China
| | - Yiming Yun
- Fengqiu Agro-ecological Experimental Station, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; University of Chinese Academy of Sciences, Beijing 100049, China; University of Chinese Academy of Sciences, Nanjing 211135, China
| | - Anning Zhu
- Fengqiu Agro-ecological Experimental Station, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; University of Chinese Academy of Sciences, Beijing 100049, China; University of Chinese Academy of Sciences, Nanjing 211135, China.
| | - Shuchun Ge
- Soil and Fertilizer Station of Henan Province, Zhengzhou 450002, China.
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Zeng Y, Tan C, Zhang L, You L, Zheng W, Chen H, Peng H, Wu C, Liang Y. Long-term addition of organic manure stimulates the growth and activity of comammox in a subtropical Inceptisol. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 948:174839. [PMID: 39025147 DOI: 10.1016/j.scitotenv.2024.174839] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2024] [Revised: 07/11/2024] [Accepted: 07/14/2024] [Indexed: 07/20/2024]
Abstract
The discovery of complete ammonia oxidizers (comammox) has dramatically altered our perception of nitrogen (N) biogeochemistry. However, their functional importance vs. the canonical ammonia oxidizers (i.e., ammonia oxidizing-archaea (AOA) and bacteria (AOB)) in agroecosystems is still poorly understood. Accordingly, a new assay using acetylene, 3,4-dimethylpyrazole phosphate (DMPP), and 1-octyne was adopted to assess the ammonia (NH3) oxidation and nitrous oxide (N2O) production activity of these functional guilds in a subtropical Inceptisol under long-term different fertilization regimes. These regimes include CK (no fertilizer control), synthetic fertilizer only (NPK), organic manure only (M) and organic manure plus synthetic fertilizer (MNPK). AOA dominated NH3 oxidation in the M treatment, while AOB dominated both NH3 oxidation and N2O production in all treatments except M. Comammox always played a minor role in both NH3 oxidation and N2O production across all treatments. Both M and MNPK treatments significantly increased the activity and growth of comammox. Compared to NPK, comammox exhibited increases of 270 % and 326 % in the NH3 oxidation rates, and increases of 1472 % and 563 % in the N2O production rates in M and MNPK, respectively. Random forest model revealed that copper (Cu), comammox abundance, and dissolved organic nitrogen (DON) were the most important predictors for the NH3 oxidation rates of comammox. Redundancy analyses (RDA) showed that fertilizer treatments significantly altered the community composition of NH3 oxidizers, and pH was the overarching parameter underpinning the community shift of the NH3 oxidizers. Overall, this study provides evidence that comammox play a minor yet unneglectable role in the nitrification of agroecosystems, and the long-term addition of organic manure stimulates the growth and activity of comammox in a subtropical Inceptisol.
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Affiliation(s)
- Yu Zeng
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental & Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Che Tan
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental & Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Lei Zhang
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental & Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Lelin You
- College of Resources and Environment, Southwest University, Chongqing 400715, China
| | - Wanning Zheng
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental & Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Hao Chen
- Zhejiang Key Laboratory of Recycling and Eco-treatment of Waste Biomass, Zhejiang University of Science and Technology, Hangzhou 310023, China
| | - Hongyun Peng
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental & Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Chunyan Wu
- Institute of Environment, Resource, Soil and Fertilizer, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.
| | - Yongchao Liang
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental & Resource Sciences, Zhejiang University, Hangzhou 310058, China.
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Chen H, Cheng X, Zhang X, Shi H, Chen J, Xu R, Chen Y, Ying J, Wu Y, Zhou Y, Shi Y. Effects of Fertilizer Application Intensity on Carbon Accumulation and Greenhouse Gas Emissions in Moso Bamboo Forest- Polygonatum cyrtonema Hua Agroforestry Systems. PLANTS (BASEL, SWITZERLAND) 2024; 13:1941. [PMID: 39065468 PMCID: PMC11280953 DOI: 10.3390/plants13141941] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2024] [Revised: 05/29/2024] [Accepted: 07/12/2024] [Indexed: 07/28/2024]
Abstract
Agroforestry management has immense potential in enhancing forest carbon sequestration and mitigating climate change. Yet the impact and response mechanism of compound fertilization rates on carbon sinks in agroforestry systems remain ambiguous. This study aims to elucidate the impact of different compound fertilizer rates on soil greenhouse gas (GHG) emissions, vegetation and soil organic carbon (SOC) sinks, and to illustrate the differences in agroforestry systems' carbon sinks through a one-year positioning test across 12 plots, applying different compound fertilizer application rates (0 (CK), 400 (A1), 800 (A2), and 1600 (A3) kg ha-1). The study demonstrated that, after fertilization, the total GHG emissions of A1 decreased by 4.41%, whereas A2 and A3 increased their total GHG emissions by 17.13% and 72.23%, respectively. The vegetation carbon sequestration of A1, A2, and A3 increased by 18.04%, 26.75%, and 28.65%, respectively, and the soil organic carbon sequestration rose by 32.57%, 42.27% and 43.29%, respectively. To sum up, in contrast with CK, the ecosystem carbon sequestration climbed by 54.41%, 51.67%, and 0.90%, respectively. Our study suggests that rational fertilization can improve the carbon sink of the ecosystem and effectively ameliorate climate change.
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Affiliation(s)
- Huiying Chen
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
- Zhejiang Province Key Think Tank, Institute of Ecological Civilization, Zhejiang A&F University, Hangzhou 311300, China
- Key Laboratory of Carbon Cycling in Forest Ecosystems and Carbon Sequestration of Zhejiang Province, Zhejiang A&F University, Hangzhou 311300, China
- School of Environmental and Resources Science, Zhejiang A&F University, Hangzhou 311300, China
| | - Xuekun Cheng
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
- Zhejiang Province Key Think Tank, Institute of Ecological Civilization, Zhejiang A&F University, Hangzhou 311300, China
- Key Laboratory of Carbon Cycling in Forest Ecosystems and Carbon Sequestration of Zhejiang Province, Zhejiang A&F University, Hangzhou 311300, China
- School of Environmental and Resources Science, Zhejiang A&F University, Hangzhou 311300, China
| | - Xingfa Zhang
- Forestry Bureau of Qujiang District, Quzhou 324000, China
| | - Haitao Shi
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
- Zhejiang Province Key Think Tank, Institute of Ecological Civilization, Zhejiang A&F University, Hangzhou 311300, China
- Key Laboratory of Carbon Cycling in Forest Ecosystems and Carbon Sequestration of Zhejiang Province, Zhejiang A&F University, Hangzhou 311300, China
- School of Environmental and Resources Science, Zhejiang A&F University, Hangzhou 311300, China
| | - Jiahua Chen
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
- Zhejiang Province Key Think Tank, Institute of Ecological Civilization, Zhejiang A&F University, Hangzhou 311300, China
- Key Laboratory of Carbon Cycling in Forest Ecosystems and Carbon Sequestration of Zhejiang Province, Zhejiang A&F University, Hangzhou 311300, China
- School of Environmental and Resources Science, Zhejiang A&F University, Hangzhou 311300, China
| | - Ruizhi Xu
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
- Zhejiang Province Key Think Tank, Institute of Ecological Civilization, Zhejiang A&F University, Hangzhou 311300, China
- Key Laboratory of Carbon Cycling in Forest Ecosystems and Carbon Sequestration of Zhejiang Province, Zhejiang A&F University, Hangzhou 311300, China
- School of Environmental and Resources Science, Zhejiang A&F University, Hangzhou 311300, China
| | - Yangen Chen
- Agriculture and Rural Bureau of Lin’an District, Hangzhou 311300, China
| | - Jianping Ying
- Forestry and Water Bureau of Longyou County, Quzhou 324000, China
| | - Yixin Wu
- Forestry Bureau of Qujiang District, Quzhou 324000, China
| | - Yufeng Zhou
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
- Zhejiang Province Key Think Tank, Institute of Ecological Civilization, Zhejiang A&F University, Hangzhou 311300, China
- Key Laboratory of Carbon Cycling in Forest Ecosystems and Carbon Sequestration of Zhejiang Province, Zhejiang A&F University, Hangzhou 311300, China
- School of Environmental and Resources Science, Zhejiang A&F University, Hangzhou 311300, China
| | - Yongjun Shi
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
- Zhejiang Province Key Think Tank, Institute of Ecological Civilization, Zhejiang A&F University, Hangzhou 311300, China
- Key Laboratory of Carbon Cycling in Forest Ecosystems and Carbon Sequestration of Zhejiang Province, Zhejiang A&F University, Hangzhou 311300, China
- School of Environmental and Resources Science, Zhejiang A&F University, Hangzhou 311300, China
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Sharma P, Chandra R. Phytoremediation mechanism and role of plant growth promoting rhizobacteria in weed plants for eco-restoration of hazardous industrial waste polluted site: a review. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:42495-42520. [PMID: 38872037 DOI: 10.1007/s11356-024-33910-w] [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: 09/20/2023] [Accepted: 06/01/2024] [Indexed: 06/15/2024]
Abstract
Plants have numerous strategies for phytoremediation depending upon the characteristic of pollutants. Plant growth promoting rhizobacteria (PGPR) are essential to the process of phytoremediation and play a key part in it. The mechanism of PGPR for phytoremediation is mediated by two methods; under the direct method there is phytohormone production, nitrogen fixation, nutrient mineral solubilization, and siderophore production while the indirect method includes quorum quenching, antibiosis, production of lytic enzyme, biofilm formation, and hydrogen cyanide production. Due to their economic and environmental viability, most researchers have recently concentrated on the potential of weed plants for phytoremediation. Although weed plants are considered unwanted and noxious, they have a high growth rate and adaptability which opens a high scope for its role in phytoremediation of contaminated site. The interaction of plant with rhizobacteria starts from root exudates containing various organic acids and peptides which act as nutrients essential for colonization and siderophore production by the rhizospheric bacteria. The rhizobacteria, while colonizing, tend to promote plant growth and health either directly by providing phytohormones and minerals or indirectly by suppressing growth of possible phytopathogens. Recently, several weed plants have been reported for phytoextraction of heavy metals (Ni, Pb, Zn, Hg, Cd, Cu, As, Fe, and Cr) contaminants from various agro-based industries. These potential native weed plants have high prospect of eco-restoration of polluted site with complex organo-metallic waste for sustainable development.
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Affiliation(s)
- Pratishtha Sharma
- Department of Environmental Microbiology, School of Earth and Environmental Science, Babasaheb Bhimrao Ambedkar University (A Central University), Lucknow, Uttar Pradesh, 226025, India
| | - Ram Chandra
- Department of Environmental Microbiology, School of Earth and Environmental Science, Babasaheb Bhimrao Ambedkar University (A Central University), Lucknow, Uttar Pradesh, 226025, India.
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Beeckman F, Annetta L, Corrochano-Monsalve M, Beeckman T, Motte H. Enhancing agroecosystem nitrogen management: microbial insights for improved nitrification inhibition. Trends Microbiol 2024; 32:590-601. [PMID: 37973432 DOI: 10.1016/j.tim.2023.10.009] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2023] [Revised: 10/19/2023] [Accepted: 10/20/2023] [Indexed: 11/19/2023]
Abstract
Nitrification is a key microbial process in the nitrogen (N) cycle that converts ammonia to nitrate. Excessive nitrification, typically occurring in agroecosystems, has negative environmental impacts, including eutrophication and greenhouse gas emissions. Nitrification inhibitors (NIs) are widely used to manage N in agricultural systems by reducing nitrification rates and improving N use efficiency. However, the effectiveness of NIs can vary depending on the soil conditions, which, in turn, affect the microbial community and the balance between different functional groups of nitrifying microorganisms. Understanding the mechanisms underlying the effectiveness of NIs, and how this is affected by the soil microbial communities or abiotic factors, is crucial for promoting sustainable fertilizer practices. Therefore, this review examines the different types of NIs and how abiotic parameters can influence the nitrifying community, and, therefore, the efficacy of NIs. By discussing the latest research in this field, we provide insights that could facilitate the development of more targeted, efficient, or complementary NIs that improve the application of NIs for sustainable management practices in agroecosystems.
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Affiliation(s)
- Fabian Beeckman
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium; VIB Center for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
| | - Laure Annetta
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium; VIB Center for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
| | - Mario Corrochano-Monsalve
- Departamento de Genética, Antropología Física y Fisiología Animal, Facultad de Ciencia y Tecnología, Universidad del País Vasco (UPV/EHU), Leioa, Spain; Instituto Multidisciplinar Para el Estudio del Medio 'Ramon Margalef', Universidad de Alicante, Carretera de San Vicente del Raspeig s/n, 03690 San Vicente del Raspeig, Spain
| | - Tom Beeckman
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium; VIB Center for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium
| | - Hans Motte
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium; VIB Center for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium.
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Redko V, Wolska L, Olkowska E, Tankiewicz M, Cieszyńska-Semenowicz M. Long-Term Polyethylene (Bio)Degradation in Landfill: Environmental and Human Health Implications from Comprehensive Analysis. Molecules 2024; 29:2499. [PMID: 38893375 PMCID: PMC11173707 DOI: 10.3390/molecules29112499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2024] [Revised: 05/19/2024] [Accepted: 05/22/2024] [Indexed: 06/21/2024] Open
Abstract
This study investigates the process of long-term (bio)degradation of polyethylene (PE) in an old municipal waste landfill (MWL) and its implications for environmental and human health. Advanced techniques, such as ICP-ES/MS and IC-LC, were used to analyze heavy metals and anions/cations, demonstrating significant concentration deviations from control samples. The soil's chemical composition revealed numerous hazardous organic compounds, further indicating the migration of additives from PE to the soil. Toxicological assessments, including Phytotoxkit FTM, Microtox® bioassay, and Ostracodtoxkit®, demonstrated phytotoxicity, acute toxicity, and high mortality in living organisms (over 85% for Heterocypris Incongruens). An unusual concentration of contaminants in the MWL's middle layers, linked to Poland's economic changes during the 1980s and 1990s, suggests increased risks of pollutant migration, posing additional environmental and health threats. Moreover, the infiltration capability of microorganisms, including pathogens, into PE structures raises concerns about potential groundwater contamination through the landfill bottom. This research underscores the need for vigilant management and updated strategies to protect the environment and public health, particularly in older landfill sites.
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Affiliation(s)
- Vladyslav Redko
- Division of Environmental Toxicology, Faculty of Health Sciences with Institute of Maritime and Tropical Medicine, Medical University of Gdansk, Dębowa 23 A, 80-204 Gdansk, Poland
| | - Lidia Wolska
- Division of Environmental Toxicology, Faculty of Health Sciences with Institute of Maritime and Tropical Medicine, Medical University of Gdansk, Dębowa 23 A, 80-204 Gdansk, Poland
| | - Ewa Olkowska
- Division of Environmental Toxicology, Faculty of Health Sciences with Institute of Maritime and Tropical Medicine, Medical University of Gdansk, Dębowa 23 A, 80-204 Gdansk, Poland
| | - Maciej Tankiewicz
- Division of Environmental Toxicology, Faculty of Health Sciences with Institute of Maritime and Tropical Medicine, Medical University of Gdansk, Dębowa 23 A, 80-204 Gdansk, Poland
| | - Monika Cieszyńska-Semenowicz
- Division of Environmental Toxicology, Faculty of Health Sciences with Institute of Maritime and Tropical Medicine, Medical University of Gdansk, Dębowa 23 A, 80-204 Gdansk, Poland
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Pan Z, He P, Fan D, Jiang R, Song D, Song L, Zhou W, He W. Global impact of enhanced-efficiency fertilizers on vegetable productivity and reactive nitrogen losses. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 926:172016. [PMID: 38547999 DOI: 10.1016/j.scitotenv.2024.172016] [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: 01/14/2024] [Revised: 03/06/2024] [Accepted: 03/25/2024] [Indexed: 04/05/2024]
Abstract
Vegetables are the most consumed non-staple food globally, and their production is crucial for dietary diversity and public health. Use of enhanced-efficiency fertilizers (EEFs) in vegetable production could improve vegetable yield and quality while reducing reactive nitrogen (Nr) losses. However, different management and environmental factors has significantly distinctive impacts on the effectiveness of EEFs. In this study, a worldwide meta-analysis based on the data collected from 144 studies was performed to assess the impacts of EEF (nitrification inhibitor [NI] and polymer-coated urea [PCU]) application on vegetable yield, nitrogen (N) uptake, nitrogen use efficiency (NUE), vegetable quality and Nr losses (nitrous oxide [N2O] emissions, ammonia [NH3] volatilization, and nitrate [NO3-] leaching). The effects of the applied EEFs on vegetable yields and N2O emissions were assessed with different management practices (cultivation system, vegetable type and N application rate) and environmental conditions (climatic conditions and soil properties). Compared to conventional fertilizers, EEFs significantly improved vegetable yield (7.5-8.1 %) and quality (vitamin C increased by 10.7-13.6 %, soluble sugar increased by 9.3-10.9 %, and nitrate content reduced by 17.2-25.1 %). Meanwhile, the application of EEFs demonstrated a great potential for Nr loss reduction (N2O emissions reduced by 40.5 %, NO3- leaching reduced by 45.8 %) without compromising vegetable yield. The NI was most effective in reducing N2O emissions (40.5 %), but it significantly increased NH3 volatilization (32.4 %). While PCU not only significantly reduced N2O emissions (24.4 %) and NO3- leaching (28.7 %), but also significantly reduced NH3 volatilization (74.5 %). And N application rate, soil pH, and soil organic carbon (SOC) were the main factors affecting the yield and environmental effects of EEFs. Moreover, the yield-enhancing effect of NI and PCU were better at low soil N availability and SOC, respectively. Thus, it is important to adopt the appropriate EEF application strategy targeting specific environmental conditions and implement it at the optimal N application rate.
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Affiliation(s)
- Zhaolong Pan
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Institute of Plant Nutrition, Resources and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Ping He
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
| | - Daijia Fan
- Institute of Plant Nutrition, Resources and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Rong Jiang
- Institute of Plant Nutrition, Resources and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Daping Song
- Institute of Plant Nutrition, Resources and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
| | - Lei Song
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Wei Zhou
- State Key Laboratory of Efficient Utilization of Arid and Semi-arid Arable Land in Northern China, Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Wentian He
- Institute of Plant Nutrition, Resources and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China.
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Elrys AS, Desoky ESM, Zhu Q, Liu L, Yun-Xing W, Wang C, Shuirong T, Yanzheng W, Meng L, Zhang J, Müller C. Climate controls on nitrate dynamics and gross nitrogen cycling response to nitrogen deposition in global forest soils. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 920:171006. [PMID: 38369137 DOI: 10.1016/j.scitotenv.2024.171006] [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: 07/25/2023] [Revised: 02/06/2024] [Accepted: 02/13/2024] [Indexed: 02/20/2024]
Abstract
Understanding the patterns and controls regulating nitrogen (N) transformation and its response to N enrichment is critical to re-evaluating soil N limitation or availability and its environmental consequences. Nevertheless, how climatic conditions affect nitrate dynamics and the response of gross N cycling rates to N enrichment in forest soils is still only rudimentarily known. Through collecting and analyzing 4426-single and 769-paired observations from 231 15N labeling studies, we found that nitrification capacity [the ratio of gross autotrophic nitrification (GAN) to gross N mineralization (GNM)] was significantly lower in tropical/subtropical (19%) than in temperate (68%) forest soils, mainly due to the higher GNM and lower GAN in tropical/subtropical regions resulting from low C/N ratio and high precipitation, respectively. However, nitrate retention capacity [the ratio of dissimilatory nitrate reduction to ammonium (DNRA) plus gross nitrate immobilization (INO3) to gross nitrification] was significantly higher in tropical/subtropical (86%) than in temperate (54%) forest soils, mainly due to the higher precipitation and GNM of tropical/subtropical regions, which stimulated DNRA and INO3. As a result, the ratio of GAN to ammonium immobilization (INH4) was significantly higher in temperate than in tropical/subtropical soils. Climatic rather than edaphic factors control heterotrophic nitrification rate (GHN) in forest soils. GHN significantly increased with increasing temperature in temperate regions and with decreasing precipitation in tropical/subtropical regions. In temperate forest soils, gross N transformation rates were insensitive to N enrichment. In tropical/subtropical forests, however, N enrichment significantly stimulated GNM, GAN and GAN to INH4 ratio, but inhibited INH4 and INO3 due to reduced microbial biomass and pH. We propose that temperate forest soils have higher nitrification capacity and lower nitrate retention capacity, implying a higher potential risk of N losses. However, tropical/subtropical forest systems shift from a conservative to a leaky N-cycling system in response to N enrichment.
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Affiliation(s)
- Ahmed S Elrys
- School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University, Sanya 572025, China; College of Tropical Crops, Hainan University, Haikou 570228, China; Soil Science Department, Faculty of Agriculture, Zagazig University, Zagazig 44511, Egypt; Liebig Centre for Agroecology and Climate Impact Research, Justus Liebig University, Germany
| | - El-Sayed M Desoky
- Botany Department, Faculty of Agriculture, Zagazig University, Zagazig 44511, Egypt
| | - Qilin Zhu
- College of Tropical Crops, Hainan University, Haikou 570228, China
| | - Lijun Liu
- College of Tropical Crops, Hainan University, Haikou 570228, China
| | - Wan Yun-Xing
- College of Tropical Crops, Hainan University, Haikou 570228, China
| | - Chengzhi Wang
- College of Tropical Crops, Hainan University, Haikou 570228, China
| | - Tang Shuirong
- School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University, Sanya 572025, China; College of Tropical Crops, Hainan University, Haikou 570228, China
| | - Wu Yanzheng
- College of Tropical Crops, Hainan University, Haikou 570228, China
| | - Lei Meng
- School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University, Sanya 572025, China; College of Tropical Crops, Hainan University, Haikou 570228, China.
| | - Jinbo Zhang
- School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University, Sanya 572025, China; College of Tropical Crops, Hainan University, Haikou 570228, China; Liebig Centre for Agroecology and Climate Impact Research, Justus Liebig University, Germany; School of Geography, Nanjing Normal University, Nanjing 210023, China.
| | - Christoph Müller
- Liebig Centre for Agroecology and Climate Impact Research, Justus Liebig University, Germany; Institute of Plant Ecology, Justus Liebig University Giessen, Heinrich-Buff-Ring 26, 35392 Giessen, Germany; School of Biology and Environmental Science and Earth Institute, University College Dublin 4, Ireland
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10
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Philippot L, Chenu C, Kappler A, Rillig MC, Fierer N. The interplay between microbial communities and soil properties. Nat Rev Microbiol 2024; 22:226-239. [PMID: 37863969 DOI: 10.1038/s41579-023-00980-5] [Citation(s) in RCA: 22] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/19/2023] [Indexed: 10/22/2023]
Abstract
In recent years, there has been considerable progress in determining the soil properties that influence the structure of the soil microbiome. By contrast, the effects of microorganisms on their soil habitat have received less attention with most previous studies focusing on microbial contributions to soil carbon and nitrogen dynamics. However, soil microorganisms are not only involved in nutrient cycling and organic matter transformations but also alter the soil habitat through various biochemical and biophysical mechanisms. Such microbially mediated modifications of soil properties can have local impacts on microbiome assembly with pronounced ecological ramifications. In this Review, we describe the processes by which microorganisms modify the soil environment, considering soil physics, hydrology and chemistry. We explore how microorganism-soil interactions can generate feedback loops and discuss how microbially mediated modifications of soil properties can serve as an alternative avenue for the management and manipulation of microbiomes to combat soil threats and global change.
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Affiliation(s)
- Laurent Philippot
- Université de Bourgogne Franche-Comté, INRAE, Institut Agro Dijon, Department of Agroecology, Dijon, France.
| | - Claire Chenu
- University of Paris-Saclay, INRAE, AgroParisTech, Palaiseau, France
| | - Andreas Kappler
- Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
- Cluster of Excellence: EXC 2124: Controlling Microbes to Fight Infection, Tübingen, Germany
| | - Matthias C Rillig
- Freie Universität Berlin, Institute of Biology, Berlin, Germany
- Berlin-Brandenburg Institute of Advanced Biodiversity Research, Berlin, Germany
| | - Noah Fierer
- Department of Ecology and Evolutionary Biology, Cooperative Institute for Research in Environmental Sciences, University of Colorado Boulder, Boulder, CO, USA
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11
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Zhao Y, Ling N, Liu X, Li C, Jing X, Hu J, Rui J. Altitudinal patterns of alpine soil ammonia-oxidizing community structure and potential nitrification rate. Appl Environ Microbiol 2024; 90:e0007024. [PMID: 38385702 PMCID: PMC11206213 DOI: 10.1128/aem.00070-24] [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: 01/13/2024] [Accepted: 01/31/2024] [Indexed: 02/23/2024] Open
Abstract
Nitrogen availability limits the net primary productivity in alpine meadows on the Qinghai-Tibetan Plateau, which is regulated by ammonia-oxidizing microorganisms. However, little is known about the elevational patterns of soil ammonia oxidizers in alpine meadows. Here, we investigated the potential nitrification rate (PNR), abundance, and community diversity of soil ammonia-oxidizing microorganisms along the altitudinal gradient between 3,200 and 4,200 m in Qinghai-Tibetan alpine meadows. We found that both PNR and amoA gene abundance declined from 3,400 to 4,200 m but lowered at 3,200 m, possibly due to intense substrate competition and biological nitrification inhibition from grasses. The primary contributors to soil nitrification were ammonia-oxidizing archaea (AOA), and their proportionate share of soil nitrification increased with altitude in comparison to ammonia-oxidizing bacteria (AOB). The alpha diversity of AOA increased by higher temperature and plant richness at low elevations, while decreased by higher moisture and low legume biomass at middle elevations. In contrast, the alpha diversity of AOB increased along elevation. The elevational patterns of AOA and AOB communities were primarily driven by temperature, soil moisture, and vegetation. These findings suggest that elevation-induced climate changes, such as shifts in temperature and water conditions, could potentially alter the soil nitrification process in alpine meadows through changes in vegetation and soil properties, which provide new insights into how soil ammonia oxidizers respond to climate change in alpine meadows.IMPORTANCEThe importance of this study is revealing that elevational patterns and nitrification contributions of ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB) communities were primarily driven by temperature, soil moisture, and vegetation. Compared to AOB, the relative contribution of AOA to soil nitrification increased at higher elevations. The research highlights the potential impact of elevation-induced climate change on nitrification processes in alpine meadows, mediated by alterations in vegetation and soil properties. By providing new insights into how ammonia oxidizers respond to climate change, this study contributes valuable knowledge to the field of microbial ecology and helps predict ecological responses to environmental changes in alpine meadows.
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Affiliation(s)
- Yuwei Zhao
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, China
| | - Ning Ling
- Center for Grassland Microbiome, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Xiang Liu
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, China
| | - Chao Li
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, China
| | - Xin Jing
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Jingjing Hu
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, China
| | - Junpeng Rui
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, China
- Center for Grassland Microbiome, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
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12
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Deng N, Gubry-Rangin C, Song XT, Ju XT, Liu SY, Shen JP, Di HJ, Han LL, Zhang LM. AOB Nitrosospira cluster 3a.2 (D11) dominates N 2O emissions in fertilised agricultural soils. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 355:120504. [PMID: 38447513 DOI: 10.1016/j.jenvman.2024.120504] [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: 12/16/2023] [Revised: 02/20/2024] [Accepted: 02/25/2024] [Indexed: 03/08/2024]
Abstract
Ammonia-oxidation process directly contribute to soil nitrous oxide (N2O) emissions in agricultural soils. However, taxonomy of the key nitrifiers (within ammonia oxidising bacteria (AOB), archaea (AOA) and complete ammonia oxidisers (comammox Nitrospira)) responsible for substantial N2O emissions in agricultural soils is unknown, as is their regulation by soil biotic and abiotic factors. In this study, cumulative N2O emissions, nitrification rates, abundance and community structure of nitrifiers were investigated in 16 agricultural soils from major crop production regions of China using microcosm experiments with amended nitrogen (N) supplemented or not with a nitrification inhibitor (nitrapyrin). Key nitrifier groups involved in N2O emissions were identified by comparative analyses of the different treatments, combining sequencing and random forest analyses. Soil cumulative N2O emissions significantly increased with soil pH in all agricultural soils. However, they decreased with soil organic carbon (SOC) in alkaline soils. Nitrapyrin significantly inhibited soil cumulative N2O emissions and AOB growth, with a significant inhibition of the AOB Nitrosospira cluster 3a.2 (D11) abundance. One Nitrosospira multiformis-like OTU phylotype (OTU34), which was classified within the AOB Nitrosospira cluster 3a.2 (D11), had the greatest importance on cumulative N2O emissions and its growth significantly depended on soil pH and SOC contents, with higher growth at high pH and low SOC conditions. Collectively, our results demonstrate that alkaline soils with low SOC contents have high N2O emissions, which were mainly driven by AOB Nitrosospira cluster 3a.2 (D11). Nitrapyrin can efficiently reduce nitrification-related N2O emissions by inhibiting the activity of AOB Nitrosospira cluster 3a.2 (D11). This study advances our understanding of key nitrifiers responsible for high N2O emissions in agricultural soils and their controlling factors, and provides vital knowledge for N2O emission mitigation in agricultural ecosystems.
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Affiliation(s)
- Na Deng
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 18 Shuangqing Road, Beijing, 100085, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | | | - Xiao-Tong Song
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 18 Shuangqing Road, Beijing, 100085, China
| | - Xiao-Tang Ju
- School of Tropical Agriculture and Forestry, Hainan University, Haikou, 570228, China
| | - Si-Yi Liu
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 18 Shuangqing Road, Beijing, 100085, China
| | - Ju-Pei Shen
- Key Laboratory for Humid Subtropical Eco-Geographical Processes of the Ministry of Education, School of Geographical Sciences, Fujian Normal University, Fuzhou, 350007, China
| | - Hong-Jie Di
- Centre for Soil and Environmental Research, Lincoln University, Lincoln, 7647, Christchurch, New Zealand
| | - Li-Li Han
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 18 Shuangqing Road, Beijing, 100085, China
| | - Li-Mei Zhang
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 18 Shuangqing Road, Beijing, 100085, China; University of Chinese Academy of Sciences, Beijing, 100049, China.
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13
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Wan Y, Li R, Yao K, Peng C, Wang W, Li N, Wang X. Bioelectro-barriers prevent nitrate leaching into groundwater via nitrogen retention. WATER RESEARCH 2024; 249:120988. [PMID: 38070341 DOI: 10.1016/j.watres.2023.120988] [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: 10/28/2023] [Revised: 12/04/2023] [Accepted: 12/06/2023] [Indexed: 01/03/2024]
Abstract
Groundwater, the main freshwater resource for humans, has been widely contaminated with nitrate from fertilizers. Here, we report a new and chemical-free strategy to prevent nitrate leaching from soil based on the enrichment of electroactive bacteria, mainly of the genus Geobacter, with bioelectro-barriers, which leads to a nearly 100 % interception of nitrate and partly conserves reactive nitrogen in the form of weakly mobile ammonium by dissimilatory nitrate reduction to ammonium (DNRA). G. sulfurreducens was recognized to efficiently secrete nitrite reductase (NrfA) for rapid DNRA because it lacks nitrate reductase, which inhibits DNRA by competing with nitrite and producing toxic intracellular nitric oxide. With an increase in G. sulfurreducens abundance, near-zero nitrate leaching and 3-fold greater N retention was achieved. Periodic application of weak electricity to the bioelectro-barrier ensured the dominance of G. sulfurreducens in the microbial community and therefore its ability to consistently prevent nitrate leaching. The ability of G. sulfurreducens to intercept nitrate was further demonstrated in more diverse agricultural soils, providing a novel way to prevent nitrate leaching and conserve bioavailable nitrogen in the soil, which has broader implications for both sustainable agriculture and groundwater protection.
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Affiliation(s)
- Yuxuan Wan
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, No. 38 Tongyan Road, Jinnan District, Tianjin 300350, China; School of Civil Engineering, Guangzhou University, No. 230 West Waihuan Road, Panyu District, Guangzhou 510006, China
| | - Ruixiang Li
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, No. 38 Tongyan Road, Jinnan District, Tianjin 300350, China
| | - Kexin Yao
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, No. 38 Tongyan Road, Jinnan District, Tianjin 300350, China
| | - Chenchen Peng
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, TEDA Institute of Biological Sciences and Biotechnology, Nankai University, Tianjin 300457, China
| | - Wei Wang
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, TEDA Institute of Biological Sciences and Biotechnology, Nankai University, Tianjin 300457, China
| | - Nan Li
- School of Environmental Science and Engineering, Tianjin University, No. 92 Weijin Road, Nankai District, Tianjin 300072, China
| | - Xin Wang
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, No. 38 Tongyan Road, Jinnan District, Tianjin 300350, China.
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14
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Su Y, Wang Y, Liu G, Zhang Z, Li X, Chen G, Gou Z, Gao Q. Nitrogen (N) "supplementation, slow release, and retention" strategy improves N use efficiency via the synergistic effect of biochar, nitrogen-fixing bacteria, and dicyandiamide. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 908:168518. [PMID: 37967639 DOI: 10.1016/j.scitotenv.2023.168518] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/28/2023] [Revised: 11/10/2023] [Accepted: 11/10/2023] [Indexed: 11/17/2023]
Abstract
Irrational nitrogen (N) fertilizer management and application practices have led to a range of ecological and environmental problems that seriously threaten food security. In this study, an effective N fertilizer management strategy was established for improving N fertilizer utilization efficiency (NUE). Biochar, N2-fixing bacteria (Enterobacter cloacae), and a nitrification inhibitor (dicyandiamide, DCD) were simultaneously added to the soil during maize cultivation. The goal was to increase soil ammonium nitrogen content and NUE by regulating the relative abundance, enzyme activity, and functional gene expression of N conversion-related soil microbes. Biochar combined with E. cloacae and DCD significantly increased soil N content, and the NUE reached 46.69 %. The relative abundance of Burkholderia and Bradyrhizobium and the activity of nitrogenase increased significantly during biological N2 fixation. Further, the abundance of the nifH gene was significantly up-regulated. The relative abundance of Sphingomonas, Pseudomonas, Nitrospira, and Castellaniella and the activities of ammonia monooxygenase and nitrate reductase decreased significantly during nitrification and denitrification. Moreover, the abundance of the genes amoA and narG was significantly down-regulated. Correlation analyses showed that the increase in soil N2 fixation and the suppression of nitrification and denitrification reactions were the key contributors to the increase in soil N content and NUE. Biochar combined with E. cloacae and DCD synergistically enabled the supplementation, slow release, and retention of N, thus providing adequate N for maize growth. Thus, the combination of biochar, E. cloacae, and DCD is effective for mitigating the irrational application of N fertilizers and reducing N pollution.
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Affiliation(s)
- Yingjie Su
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Yanran Wang
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Guoqing Liu
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Zhongqing Zhang
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Xiaoyu Li
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Guang Chen
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Zechang Gou
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China.
| | - Qiang Gao
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China.
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15
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Wang G, Gou Z, Tian G, Sima W, Zhou J, Bo Z, Zhang Z, Gao Q. Study on the effectiveness and mechanism of a sustainable dual slow-release model to improve N utilization efficiency and reduce N pollution in black soil. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 907:168033. [PMID: 37898209 DOI: 10.1016/j.scitotenv.2023.168033] [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: 06/27/2023] [Revised: 10/03/2023] [Accepted: 10/20/2023] [Indexed: 10/30/2023]
Abstract
Long-term intensive cultivation has led to serious N loss and low N fertilizer utilization efficiency (NUE) in black soil areas. The lost N is not only a waste of resources but also a serious pollution threat to the environment, leading to the decline in water quality and food safety and the greenhouse effect. In the present study, a stable dual slow-release model, CPCS-Urea, was prepared by in situ polymerization using nitrapyrin, urea and melamine-formaldehyde resin as raw materials. The effect of the dual slow-release model was systematically evaluated using two consecutive years of field experiments. Five treatments were established in the field experiment: no N fertilizer (N0), urea (N180), 1 % CPEC-Urea, 0.5 % CPCS-Urea, and 1 % CPCS-Urea. The results showed that the new dual slow-release CPCS-Urea model outperformed both the use of urea and the traditional slow-release CPEC-Urea model in reducing N losses and improving NUE. The application of CPCS-Urea reduced nitrate (NO3-) leaching by 28.2 %-47.2 % and N2O emissions by 36.5 %-42.4 % and increased NUE by 20.7 %-28.5 % compared to urea application. The CPCS-Urea model modulated the activity of ammonia-oxidizing bacteria (AOB) and dissimilatory nitrate reduction to ammonium (DNRA) bacteria in soil, showing a significant decrease in AOB activity and an increase in DNRA activity. This results in a lower soil NO3--N yield and a 53.1 %-72.0 % increase in NH4+-N content, providing sufficient N for the entire growth and development cycle of maize. In short, the dual slow-release CPCS-Urea model has great application prospects for promoting agricultural development in black soil areas.
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Affiliation(s)
- Gaoxu Wang
- College of Resources and Environment, Jilin Agricultural University/Key Laboratory of Sustainable Utilization of Soil Resources in Commodity Grain Base of Jilin Province, Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Changchun, Jilin 130118, China
| | - Zechang Gou
- College of Resources and Environment, Jilin Agricultural University/Key Laboratory of Sustainable Utilization of Soil Resources in Commodity Grain Base of Jilin Province, Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Changchun, Jilin 130118, China
| | - Geng Tian
- Jilin Woyijia Ecological Agriculture Co. LTD, Siping, Jilin 136400, China
| | - Wenyue Sima
- College of Resources and Environment, Jilin Agricultural University/Key Laboratory of Sustainable Utilization of Soil Resources in Commodity Grain Base of Jilin Province, Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Changchun, Jilin 130118, China
| | - Jiafeng Zhou
- College of Resources and Environment, Jilin Agricultural University/Key Laboratory of Sustainable Utilization of Soil Resources in Commodity Grain Base of Jilin Province, Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Changchun, Jilin 130118, China
| | - Zhenghao Bo
- College of Resources and Environment, Jilin Agricultural University/Key Laboratory of Sustainable Utilization of Soil Resources in Commodity Grain Base of Jilin Province, Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Changchun, Jilin 130118, China
| | - Zhongqing Zhang
- College of Resources and Environment, Jilin Agricultural University/Key Laboratory of Sustainable Utilization of Soil Resources in Commodity Grain Base of Jilin Province, Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Changchun, Jilin 130118, China.
| | - Qiang Gao
- College of Resources and Environment, Jilin Agricultural University/Key Laboratory of Sustainable Utilization of Soil Resources in Commodity Grain Base of Jilin Province, Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Changchun, Jilin 130118, China.
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16
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Beeckman F, Drozdzecki A, De Knijf A, Audenaert D, Beeckman T, Motte H. High-throughput assays to identify archaea-targeting nitrification inhibitors. FRONTIERS IN PLANT SCIENCE 2024; 14:1283047. [PMID: 38259951 PMCID: PMC10800436 DOI: 10.3389/fpls.2023.1283047] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/25/2023] [Accepted: 12/06/2023] [Indexed: 01/24/2024]
Abstract
Nitrification is a microbial process that converts ammonia (NH3) to nitrite (NO2 -) and then to nitrate (NO3 -). The first and rate-limiting step in nitrification is ammonia oxidation, which is conducted by both bacteria and archaea. In agriculture, it is important to control this process as high nitrification rates result in NO3 - leaching, reduced nitrogen (N) availability for the plants and environmental problems such as eutrophication and greenhouse gas emissions. Nitrification inhibitors can be used to block nitrification, and as such reduce N pollution and improve fertilizer use efficiency (FUE) in agriculture. Currently applied inhibitors target the bacteria, and do not block nitrification by ammonia-oxidizing archaea (AOA). While it was long believed that nitrification in agroecosystems was primarily driven by bacteria, recent research has unveiled potential significant contributions from ammonia-oxidizing archaea (AOA), especially when bacterial activity is inhibited. Hence, there is also a need for AOA-targeting nitrification inhibitors. However, to date, almost no AOA-targeting inhibitors are described. Furthermore, AOA are difficult to handle, hindering their use to test or identify possible AOA-targeting nitrification inhibitors. To address the need for AOA-targeting nitrification inhibitors, we developed two miniaturized nitrification inhibition assays using an AOA-enriched nitrifying community or the AOA Nitrosospaera viennensis. These assays enable high-throughput testing of candidate AOA inhibitors. We here present detailed guidelines on the protocols and illustrate their use with some examples. We believe that these assays can contribute to the discovery of future AOA-targeting nitrification inhibitors, which could complement the currently applied inhibitors to increase nitrification inhibition efficiency in the field and as such contribute to a more sustainable agriculture.
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Affiliation(s)
- Fabian Beeckman
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, Vlaams Instituut voor Biotechnologie (VIB), Ghent, Belgium
| | - Andrzej Drozdzecki
- Screening Core, Vlaams Instituut voor Biotechnologie (VIB), Ghent, Belgium
- Centre for Bioassay Development and Screening (C-BIOS), Ghent University, Ghent, Belgium
| | - Alexa De Knijf
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, Vlaams Instituut voor Biotechnologie (VIB), Ghent, Belgium
| | - Dominique Audenaert
- Screening Core, Vlaams Instituut voor Biotechnologie (VIB), Ghent, Belgium
- Centre for Bioassay Development and Screening (C-BIOS), Ghent University, Ghent, Belgium
| | - Tom Beeckman
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, Vlaams Instituut voor Biotechnologie (VIB), Ghent, Belgium
| | - Hans Motte
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, Vlaams Instituut voor Biotechnologie (VIB), Ghent, Belgium
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Faghihinia M, Halverson LJ, Hršelová H, Bukovská P, Rozmoš M, Kotianová M, Jansa J. Nutrient-dependent cross-kingdom interactions in the hyphosphere of an arbuscular mycorrhizal fungus. Front Microbiol 2024; 14:1284648. [PMID: 38239731 PMCID: PMC10794670 DOI: 10.3389/fmicb.2023.1284648] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2023] [Accepted: 11/27/2023] [Indexed: 01/22/2024] Open
Abstract
Introduction The hyphosphere of arbuscular mycorrhizal (AM) fungi is teeming with microbial life. Yet, the influence of nutrient availability or nutrient forms on the hyphosphere microbiomes is still poorly understood. Methods Here, we examined how the microbial community (prokaryotic, fungal, protistan) was affected by the presence of the AM fungus Rhizophagus irregularis in the rhizosphere and the root-free zone, and how different nitrogen (N) and phosphorus (P) supplements into the root-free compartment influenced the communities. Results The presence of AM fungus greatly affected microbial communities both in the rhizosphere and the root-free zone, with prokaryotic communities being affected the most. Protists were the only group of microbes whose richness and diversity were significantly reduced by the presence of the AM fungus. Our results showed that the type of nutrients AM fungi encounter in localized patches modulate the structure of hyphosphere microbial communities. In contrast we did not observe any effects of the AM fungus on (non-mycorrhizal) fungal community composition. Compared to the non-mycorrhizal control, the root-free zone with the AM fungus (i.e., the AM fungal hyphosphere) was enriched with Alphaproteobacteria, some micropredatory and copiotroph bacterial taxa (e.g., Xanthomonadaceae and Bacteroidota), and the poorly characterized and not yet cultured Acidobacteriota subgroup GP17, especially when phytate was added. Ammonia-oxidizing Nitrosomonas and nitrite-oxidizing Nitrospira were significantly suppressed in the presence of the AM fungus in the root-free compartment, especially upon addition of inorganic N. Co-occurrence network analyses revealed that microbial communities in the root-free compartment were complex and interconnected with more keystone species when AM fungus was present, especially when the root-free compartment was amended with phytate. Conclusion Our study showed that the form of nutrients is an important driver of prokaryotic and eukaryotic community assembly in the AM fungal hyphosphere, despite the assumed presence of a stable and specific AM fungal hyphoplane microbiome. Predictable responses of specific microbial taxa will open the possibility of using them as co-inoculants with AM fungi, e.g., to improve crop performance.
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Affiliation(s)
- Maede Faghihinia
- Laboratory of Fungal Biology, Institute of Microbiology, Czech Academy of Sciences, Prague, Czechia
- Department of Plant Pathology, Entomology, and Microbiology, Iowa State University, Ames, IA, United States
| | - Larry J. Halverson
- Department of Plant Pathology, Entomology, and Microbiology, Iowa State University, Ames, IA, United States
| | - Hana Hršelová
- Laboratory of Fungal Biology, Institute of Microbiology, Czech Academy of Sciences, Prague, Czechia
| | - Petra Bukovská
- Laboratory of Fungal Biology, Institute of Microbiology, Czech Academy of Sciences, Prague, Czechia
| | - Martin Rozmoš
- Laboratory of Fungal Biology, Institute of Microbiology, Czech Academy of Sciences, Prague, Czechia
| | - Michala Kotianová
- Laboratory of Fungal Biology, Institute of Microbiology, Czech Academy of Sciences, Prague, Czechia
| | - Jan Jansa
- Laboratory of Fungal Biology, Institute of Microbiology, Czech Academy of Sciences, Prague, Czechia
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18
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Ding F, He T, Qi X, Zhang H, An L, Xu S, Zhang X. Comammox Nitrospira dominates the nitrification in artificial coniferous forest soils of the Qilian Mountains. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 906:167653. [PMID: 37806577 DOI: 10.1016/j.scitotenv.2023.167653] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Revised: 10/04/2023] [Accepted: 10/05/2023] [Indexed: 10/10/2023]
Abstract
Complete ammonia oxidizers (Comammox, CMX) are a newly discovered and important component of the nitrogen cycle. While CMX Nitrospira has been detected in various ecosystems, few studies so far have focused on the relative contribution and co-occurrence network of ammonia oxidizing archaea (AOA), bacteria (AOB), and CMX Nitrospira in artificial forest ecosystems (tree plantations). We evaluated the dynamics of composition, co-occurrence patterns and contribution of soil microbial nitrifiers to nitrification in soil of various tree species with different ages in the Qilian Mountains employing the space for time substitution approach, quantitative PCR and high-throughput sequencing technology. Generally, plantation development significantly reduced soil potential nitrification rates. Inhibition experiments and modular analysis showed that AOA played leading roles in nitrification of abandoned farmland and 17-year-old Hippophae rhamnoides, whereas CMX Nitrospira dominated in 36-year-old Picea crassifolia, 36-year-old Picea crassifolia and Larix gmelinii mixed plantation, and 50-year-old Picea crassifolia. The dominant AOA and CMX Nitrospira lineages in all samples were Group I.1b and Clade B, respectively. The assembly of nitrifier community was governed by stochastic processes, in which dispersal limitation made a significant contribution. The nitrifiers coexist in a mutualistic manner, albeit with possible functional redundancy, while the modular analysis revealed the aggregation pattern of the four modules in different artificial forests' soil. The Mantel test showed that modular formation is mainly affected by NH4+ and SOM. These results broaden our current understanding of the relation between CMX Nitrospira and canonical ammonia oxidizers in terrestrial ecosystems, and provide empirical evidence for not only niche differentiation, but also the relative contribution and co-occurrence patterns of nitrifying communities in an artificial forest ecosystem.
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Affiliation(s)
- Fan Ding
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, Gansu 730000, China
| | - Tianjiao He
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, Gansu 730000, China
| | - Xing'e Qi
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, Gansu 730000, China
| | - Hui Zhang
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, Gansu 730000, China
| | - Lizhe An
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, Gansu 730000, China; The College of Forestry, Beijing Forestry University, Beijing 100083, China
| | - Shijian Xu
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, Gansu 730000, China
| | - Xinfang Zhang
- Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou, Gansu 730000, China.
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19
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Mazzei L, Paul A, Cianci M, Devodier M, Mandelli D, Carloni P, Ciurli S. Kinetic and structural details of urease inactivation by thiuram disulphides. J Inorg Biochem 2024; 250:112398. [PMID: 37879152 DOI: 10.1016/j.jinorgbio.2023.112398] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2023] [Revised: 09/21/2023] [Accepted: 10/07/2023] [Indexed: 10/27/2023]
Abstract
This paper reports on the molecular details of the reactivity of urease, a nickel-dependent enzyme that catalyses the last step of organic nitrogen mineralization, with thiuram disulphides, a class of molecules known to inactivate the enzyme with high efficacy but for which the mechanism of action had not been yet established. IC50 values of tetramethylthiuram disulphide (TMTD or Thiram) and tetraethylthiuram disulphide (TETD or Disulfiram) in the low micromolar range were determined for plant and bacterial ureases. The X-ray crystal structure of Sporosarcina pasteurii urease inactivated by Thiram, determined at 1.68 Å resolution, revealed the presence of a covalent modification of the catalytically essential cysteine residue. This is located on the flexible flap that modulates the size of the active site channel and cavity. Formation of a Cys-S-S-C(S)-N(CH3)2 functionality responsible for enzyme inactivation was observed. Quantum-mechanical calculations carried out to rationalise the large reactivity of the active site cysteine support the view that a conserved histidine residue, adjacent to the cysteine in the active site flap, modulates the charge and electron density along the thiol SH bond by shifting electrons towards the sulphur atom and rendering the thiol proton more reactive. We speculate that this proton could be transferred to the nickel-coordinated urea amide group to yield a molecule of ammonia from the generated Curea-NH3+ functionality during catalysis.
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Affiliation(s)
- Luca Mazzei
- Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology (FaBiT), University of Bologna, Viale Giuseppe Fanin 40, Bologna I-40127, Italy.
| | - Arundhati Paul
- Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology (FaBiT), University of Bologna, Viale Giuseppe Fanin 40, Bologna I-40127, Italy
| | - Michele Cianci
- Department of Agricultural, Food and Environmental Sciences, Polytechnic University of Marche, Via Brecce Bianche 10, Ancona I-60131, Italy
| | - Marta Devodier
- Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum Jülich GmbH, Jülich D-52428, Germany; Università degli Studi di Parma, Via Università 12, Parma I-43121, Italy
| | - Davide Mandelli
- Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum Jülich GmbH, Jülich D-52428, Germany
| | - Paolo Carloni
- Computational Biomedicine, Institute of Advanced Simulations IAS-5/Institute for Neuroscience and Medicine INM-9, Forschungszentrum Jülich GmbH, Jülich D-52428, Germany; Department of Physics and Universitätsklinikum, RWTH Aachen University, Aachen D-52074, Germany
| | - Stefano Ciurli
- Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology (FaBiT), University of Bologna, Viale Giuseppe Fanin 40, Bologna I-40127, Italy
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20
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Akutsu Y, Fujiwara T, Suzuki R, Nishigaya Y, Yamazaki T. Juglone, a plant-derived 1,4-naphthoquinone, binds to hydroxylamine oxidoreductase and inhibits the electron transfer to cytochrome c554. Appl Environ Microbiol 2023; 89:e0129123. [PMID: 38009977 PMCID: PMC10734522 DOI: 10.1128/aem.01291-23] [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: 08/10/2023] [Accepted: 09/20/2023] [Indexed: 11/29/2023] Open
Abstract
IMPORTANCE Nitrification, the microbial conversion of ammonia to nitrate via nitrite, plays a pivotal role in the global nitrogen cycle. However, the excessive use of ammonium-based fertilizers in agriculture has disrupted this cycle, leading to groundwater pollution and greenhouse gas emissions. In this study, we have demonstrated the inhibitory effects of plant-derived juglone and related 1,4-naphthoquinones on the nitrification process in Nitrosomonas europaea. Notably, the inhibition mechanism is elucidated in which 1,4-naphthoquinones interact with hydroxylamine oxidoreductase, disrupting the electron transfer to cytochrome c554, a physiological electron acceptor. These findings support the notion that phytochemicals can impede nitrification by interfering with the essential electron transfer process in ammonia oxidation. The findings presented in this article offer valuable insights for the development of strategies aimed at the management of nitrification, reduction of fertilizer utilization, and mitigation of greenhouse gas emissions.
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Affiliation(s)
- Yukie Akutsu
- Research Center for Advanced Analysis, National Agriculture and Food Research Organization (NARO), Tsukuba, Ibaraki, Japan
| | - Takaaki Fujiwara
- Research Center for Advanced Analysis, National Agriculture and Food Research Organization (NARO), Tsukuba, Ibaraki, Japan
| | - Rintaro Suzuki
- Research Center for Advanced Analysis, National Agriculture and Food Research Organization (NARO), Tsukuba, Ibaraki, Japan
| | | | - Toshimasa Yamazaki
- Research Center for Advanced Analysis, National Agriculture and Food Research Organization (NARO), Tsukuba, Ibaraki, Japan
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21
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Beeckman F, Drozdzecki A, De Knijf A, Corrochano-Monsalve M, Bodé S, Blom P, Goeminne G, González-Murua C, Lücker S, Boeckx P, Stevens CV, Audenaert D, Beeckman T, Motte H. Drug discovery-based approach identifies new nitrification inhibitors. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 346:118996. [PMID: 37725864 DOI: 10.1016/j.jenvman.2023.118996] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2023] [Revised: 08/24/2023] [Accepted: 09/09/2023] [Indexed: 09/21/2023]
Abstract
Nitrogen (N) fertilization is crucial to sustain global food security, but fertilizer N production is energy-demanding and subsequent environmental N losses contribute to biodiversity loss and climate change. N losses can be mitigated be interfering with microbial nitrification, and therefore the use of nitrification inhibitors in enhanced efficiency fertilizers (EEFs) is an important N management strategy to increase N use efficiency and reduce N pollution. However, currently applied nitrification inhibitors have limitations and do not target all nitrifying microorganisms. Here, to identify broad-spectrum nitrification inhibitors, we adopted a drug discovery-based approach and screened 45,400 small molecules on different groups of nitrifying microorganisms. Although a high number of potential nitrification inhibitors were identified, none of them targeted all nitrifier groups. Moreover, a high number of new nitrification inhibitors were shown to be highly effective in culture but did not reduce ammonia consumption in soil. One archaea-targeting inhibitor was not only effective in soil, but even reduced - when co-applied with a bacteria-targeting inhibitor - ammonium consumption and greenhouse gas emissions beyond what is achieved with currently applied nitrification inhibitors. This advocates for combining different types of nitrification inhibitors in EEFs to optimize N management practices and make agriculture more sustainable.
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Affiliation(s)
- Fabian Beeckman
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium; VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium
| | - Andrzej Drozdzecki
- Ghent University Centre for Bioassay Development and Screening (C-BIOS), 9052, Ghent, Belgium; VIB Screening Core, Technologiepark 71, 9052, Ghent, Belgium
| | - Alexa De Knijf
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium; VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium
| | - Mario Corrochano-Monsalve
- Department of Plant Biology and Ecology, University of the Basque Country-UPV/EHU, Apdo. 644, Bilbao, E-48080, Spain
| | - Samuel Bodé
- Laboratory of Applied Physical Chemistry (ISOFYS), Ghent University, Coupure Links 653, 9000, Ghent, Belgium
| | - Pieter Blom
- Department of Microbiology, RIBES, Radboud University, Heyendaalseweg 135, 6525, AJ, Nijmegen, the Netherlands
| | - Geert Goeminne
- VIB Metabolomics Core, Technologiepark 71, 9052, Ghent, Belgium
| | - Carmen González-Murua
- Department of Plant Biology and Ecology, University of the Basque Country-UPV/EHU, Apdo. 644, Bilbao, E-48080, Spain
| | - Sebastian Lücker
- Department of Microbiology, RIBES, Radboud University, Heyendaalseweg 135, 6525, AJ, Nijmegen, the Netherlands
| | - Pascal Boeckx
- Laboratory of Applied Physical Chemistry (ISOFYS), Ghent University, Coupure Links 653, 9000, Ghent, Belgium
| | - Christian V Stevens
- Synthesis, Bioresources and Bioorganic Chemistry Research Group (SynBioC), Department of Green Chemistry and Technology, Ghent University, Coupure Links 653, 9000, Ghent, Belgium
| | - Dominique Audenaert
- Ghent University Centre for Bioassay Development and Screening (C-BIOS), 9052, Ghent, Belgium; VIB Screening Core, Technologiepark 71, 9052, Ghent, Belgium
| | - Tom Beeckman
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium; VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium.
| | - Hans Motte
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052, Ghent, Belgium; VIB Center for Plant Systems Biology, Technologiepark 71, 9052, Ghent, Belgium.
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22
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Wang L, Li A. Ammonia monooxygenase-mediated transformation of 17α-ethinylestradiol: Underlying molecular mechanism. ENVIRONMENTAL RESEARCH 2023; 237:116930. [PMID: 37604224 DOI: 10.1016/j.envres.2023.116930] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2023] [Revised: 08/08/2023] [Accepted: 08/18/2023] [Indexed: 08/23/2023]
Abstract
17α-ethinylestradiol (EE2) has received increasing attention as an emerging and difficult-to-remove emerging contaminant in recent years. Ammonia-oxidizing bacteria (AOB) have been reported to be effective in EE2 removal, and ammonia monooxygenase (AMO) is considered as the primary enzyme for EE2 removal. However, the molecular mechanism underlying the transformation of EE2 by AOB and AMO is still unclear. This study investigated the molecular mechanism of EE2 degradation using a combination of experimental and computational simulation methods. The results revealed that ammonia nitrogen was essential for the co-metabolism of EE2 by AOB, and that NH3 bound with CuC (one active site of AMO) to induce a conformational change in AMO, allowing EE2 to bind with the other active site (CuB), and then EE2 underwent biological transformation. These results provide a theoretical basis and a novel research perspective on the removal of ammonia nitrogen and emerging contaminants (e.g., EE2) in wastewater treatment.
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Affiliation(s)
- Lili Wang
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China; Laboratory of Environmental Protection in Water Transport Engineering, Tianjin Research Institute of Water Transport Engineering, Tanggu, Tianjin, 300456, China
| | - Anjie Li
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China.
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23
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Liu S, Liu Y, Cai Y. Incubation study on remediation of nitrate-contaminated soil by Chroococcus sp. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:117637-117653. [PMID: 37870669 DOI: 10.1007/s11356-023-30383-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Accepted: 10/05/2023] [Indexed: 10/24/2023]
Abstract
The possibility of using the non-nitrogen-fixing cyanobacterium (Chroococcus sp.) for the reduction of soil nitrate contamination was tested through Petri dish experiments. The application of 0.03, 0.05 and 0.08 mg/cm2 Chroococcus sp. efficiently removed NO3--N from the soil through assimilation of nitrate nutrient and promotion of soil denitrification. At the optimal application dose of 0.05 mg/cm2, 44.06%, 36.89% and 36.17% of NO3--N were removed at initial NO3--N concentrations of 60, 90 and 120 mg/kg, respectively. The polysaccharides released by Chroococcus sp. acted as carbon sources for bacterial denitrification and facilitated the reduction of soil salinity, which significantly (p < 0.05) stimulated the growth of denitrifying bacteria (Hyphomicrobium denitrificans and Hyphomicrobium sp.) as well as significantly (p < 0.05) elevated the activities of nitrate reductase and nitrite reductase by 1.07-1.23 and 1.15-1.22 times, respectively. The application of Chroococcus sp. promoted the dominance of Nocardioides maradonensis in soil microbial community, which resulted in elevated phosphatase activity and increased available phosphorus content. The application of Chroococcus sp. positively regulated the growth of soil bacteria belonging to the genera Chitinophaga, Prevotella and Tumebacillus, which may contribute to increased soil fertility through the production of beneficial enzymes such as invertase, urease and catalase. To date, this is the first study verifying the remediation effect of non-nitrogen-fixing cyanobacteria on nitrate-contaminated soil.
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Affiliation(s)
- Shuaitong Liu
- School of Environmental Science and Engineering, Shandong University, Qingdao, 266237, People's Republic of China
| | - Ying Liu
- School of Environmental Science and Engineering, Shandong University, Qingdao, 266237, People's Republic of China.
| | - Yong Cai
- School of Environmental Science and Engineering, Shandong University, Qingdao, 266237, People's Republic of China
- Department of Chemistry & Biochemistry, Florida International University, Miami, FL, 33199, USA
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24
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Holland BL, Matthews ML, Bota P, Sweetlove LJ, Long SP, diCenzo GC. A genome-scale metabolic reconstruction of soybean and Bradyrhizobium diazoefficiens reveals the cost-benefit of nitrogen fixation. THE NEW PHYTOLOGIST 2023; 240:744-756. [PMID: 37649265 DOI: 10.1111/nph.19203] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2023] [Accepted: 07/05/2023] [Indexed: 09/01/2023]
Abstract
Nitrogen-fixing symbioses allow legumes to thrive in nitrogen-poor soils at the cost of diverting some photoassimilate to their microsymbionts. Effort is being made to bioengineer nitrogen fixation into nonleguminous crops. This requires a quantitative understanding of its energetic costs and the links between metabolic variations and symbiotic efficiency. A whole-plant metabolic model for soybean (Glycine max) with its associated microsymbiont Bradyrhizobium diazoefficiens was developed and applied to predict the cost-benefit of nitrogen fixation with varying soil nitrogen availability. The model predicted a nitrogen-fixation cost of c. 4.13 g C g-1 N, which when implemented into a crop scale model, translated to a grain yield reduction of 27% compared with a non-nodulating plant receiving its nitrogen from the soil. Considering the lower nitrogen content of cereals, the yield cost to a hypothetical N-fixing cereal is predicted to be less than half that of soybean. Soybean growth was predicted to be c. 5% greater when the nodule nitrogen export products were amides versus ureides. This is the first metabolic reconstruction in a tropical crop species that simulates the entire plant and nodule metabolism. Going forward, this model will serve as a tool to investigate carbon use efficiency and key mechanisms within N-fixing symbiosis in a tropical species forming determinate nodules.
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Affiliation(s)
- Bethany L Holland
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Megan L Matthews
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Pedro Bota
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Lee J Sweetlove
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Stephen P Long
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
- Departments of Plant Biology and of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - George C diCenzo
- Department of Biology, Queen's University, Kingston, ON, K7L 3N6, Canada
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25
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Xie Y, Lv Y, Jia L, Zheng L, Li Y, Zhu M, Tian M, Wang M, Qi W, Luo L, De Gernier H, Pélissier PM, Motte H, Lin S, Luo L, Xu G, Beeckman T, Xuan W. Plastid-localized amino acid metabolism coordinates rice ammonium tolerance and nitrogen use efficiency. NATURE PLANTS 2023; 9:1514-1529. [PMID: 37604972 DOI: 10.1038/s41477-023-01494-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Accepted: 07/19/2023] [Indexed: 08/23/2023]
Abstract
Ammonium toxicity affecting plant metabolism and development is a worldwide problem impeding crop production. Remarkably, rice (Oryza sativa L.) favours ammonium as its major nitrogen source in paddy fields. We set up a forward-genetic screen to decipher the molecular mechanisms conferring rice ammonium tolerance and identified rohan showing root hypersensitivity to ammonium due to a missense mutation in an argininosuccinate lyase (ASL)-encoding gene. ASL localizes to plastids and its expression is induced by ammonium. ASL alleviates ammonium-inhibited root elongation by converting the excessive glutamine to arginine. Consequently, arginine leads to auxin accumulation in the root meristem, thereby stimulating root elongation under high ammonium. Furthermore, we identified natural variation in the ASL allele between japonica and indica subspecies explaining their different root sensitivity towards ammonium. Finally, we show that ASL expression positively correlates with root ammonium tolerance and that nitrogen use efficiency and yield can be improved through a gain-of-function approach.
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Affiliation(s)
- Yuanming Xie
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Yuanda Lv
- Excellence and Innovation Center, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Letian Jia
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Lulu Zheng
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Yonghui Li
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Ming Zhu
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Mengjun Tian
- Department of Plant Pathology, Nanjing Agricultural University, Nanjing, China
| | - Ming Wang
- Department of Plant Pathology, Nanjing Agricultural University, Nanjing, China
| | - Weicong Qi
- Excellence and Innovation Center, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Long Luo
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Hugues De Gernier
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Pierre-Mathieu Pélissier
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Hans Motte
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Shaoyan Lin
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Le Luo
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Guohua Xu
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Tom Beeckman
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium.
| | - Wei Xuan
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China.
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Xiong Y, Wang S, Cui C, Wu X, Zhu J. Suaeda salsa NRT1.1 Is Involved in the Regulation of Tolerance to Salt Stress in Transgenic Arabidopsis. Int J Mol Sci 2023; 24:12761. [PMID: 37628942 PMCID: PMC10454414 DOI: 10.3390/ijms241612761] [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: 07/07/2023] [Revised: 08/07/2023] [Accepted: 08/11/2023] [Indexed: 08/27/2023] Open
Abstract
Like other abiotic stresses, salt stress has become a major factor that restricts the growth, distribution and yield of crops. Research has shown that increasing the nitrogen content in soil can improve the salt tolerance of plants and nitrate transporter (NRT) is the primary nitrogen transporter in plants. Suaeda salsa (L.) Pall is a strong halophyte that can grow normally at a salt concentration of 200 mM. The salt stress transcriptome database of S. salsa was found to contain four putative genes that were homologous to NRT, including SsNRT1.1A, SsNRT1.1B, SsNRT1.1C and SsNRT1.1D. The cDNA of SsNRT1.1s was predicted to contain open reading frames of 1791, 1782, 1755 and 1746 bp, respectively. Sequence alignment and structural analysis showed that the SsNRT1.1 amino acids were inducible by salt and have conserved MFS and PTR2 domains. Subcellular localization showed they are on the endoplasmic reticulum. Overexpression of SsNRT1.1 genes in transgenic Arabidopsis improves its salt tolerance and SsNRT1.1C was more effective than others. We constructed a salt-stressed yeast cDNA library and used yeast two-hybrid and BiFC technology to find out that SsHINT1 and SsNRT1.1C have a protein interaction relationship. Overexpression of SsHINT1 in transgenic Arabidopsis also improves salt tolerance and the expressions of Na+ and K+ were increased and reduced, respectively. But the K+/Liratio was up-regulated 11.1-fold compared with the wild type. Thus, these results provide evidence that SsNRT1.1C through protein interactions with SsHINT1 increases the K+/Na+ ratio to improve salt tolerance and this signaling may be controlled by the salt overly sensitive (SOS) pathway.
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Affiliation(s)
| | | | | | | | - Jianbo Zhu
- College of Life Sciences, Shihezi University, Shihezi 832000, China; (Y.X.); (S.W.); (C.C.); (X.W.)
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Ni G, Leung PM, Daebeler A, Guo J, Hu S, Cook P, Nicol GW, Daims H, Greening C. Nitrification in acidic and alkaline environments. Essays Biochem 2023; 67:753-768. [PMID: 37449414 PMCID: PMC10427799 DOI: 10.1042/ebc20220194] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2023] [Revised: 06/27/2023] [Accepted: 06/29/2023] [Indexed: 07/18/2023]
Abstract
Aerobic nitrification is a key process in the global nitrogen cycle mediated by microorganisms. While nitrification has primarily been studied in near-neutral environments, this process occurs at a wide range of pH values, spanning ecosystems from acidic soils to soda lakes. Aerobic nitrification primarily occurs through the activities of ammonia-oxidising bacteria and archaea, nitrite-oxidising bacteria, and complete ammonia-oxidising (comammox) bacteria adapted to these environments. Here, we review the literature and identify knowledge gaps on the metabolic diversity, ecological distribution, and physiological adaptations of nitrifying microorganisms in acidic and alkaline environments. We emphasise that nitrifying microorganisms depend on a suite of physiological adaptations to maintain pH homeostasis, acquire energy and carbon sources, detoxify reactive nitrogen species, and generate a membrane potential at pH extremes. We also recognize the broader implications of their activities primarily in acidic environments, with a focus on agricultural productivity and nitrous oxide emissions, as well as promising applications in treating municipal wastewater.
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Affiliation(s)
- Gaofeng Ni
- Department of Microbiology, Biomedicine Discovery Institute, Monash University, Melbourne, Victoria, Australia
| | - Pok Man Leung
- Department of Microbiology, Biomedicine Discovery Institute, Monash University, Melbourne, Victoria, Australia
| | - Anne Daebeler
- Institute of Soil Biology and Biogeochemistry, Biology Centre CAS, Ceske Budejovice, Czechia
| | - Jianhua Guo
- Australian Centre for Water and Environmental Biotechnology (Formerly AWMC), The University of Queensland, Brisbane, Queensland, Australia
| | - Shihu Hu
- Australian Centre for Water and Environmental Biotechnology (Formerly AWMC), The University of Queensland, Brisbane, Queensland, Australia
| | - Perran Cook
- School of Chemistry, Monash University, Melbourne, Victoria, Australia
| | - Graeme W Nicol
- Univ Lyon, CNRS, INSA Lyon, Université Claude Bernard Lyon 1, Ecole Centrale de Lyon, Ampère, UMR5005, 69134 Ecully, France
| | - Holger Daims
- Division of Microbial Ecology, Centre for Microbiology and Environmental Systems Science, University of Vienna, Vienna, Austria
- The Comammox Research Platform, University of Vienna, Vienna, Austria
| | - Chris Greening
- Department of Microbiology, Biomedicine Discovery Institute, Monash University, Melbourne, Victoria, Australia
- Securing Antarctica's Environmental Future, Monash University, Melbourne, Victoria, Australia
- Centre to Impact AMR, Monash University, Melbourne, Victoria, Australia
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28
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Zakrzewska M, Rzepa G, Musialowski M, Goszcz A, Stasiuk R, Debiec-Andrzejewska K. Reduction of bioavailability and phytotoxicity effect of cadmium in soil by microbial-induced carbonate precipitation using metabolites of ureolytic bacterium Ochrobactrum sp. POC9. FRONTIERS IN PLANT SCIENCE 2023; 14:1109467. [PMID: 37416890 PMCID: PMC10321601 DOI: 10.3389/fpls.2023.1109467] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/27/2022] [Accepted: 05/26/2023] [Indexed: 07/08/2023]
Abstract
The application of ureolytic bacteria for bioremediation of soil contaminated with heavy metals, including cadmium (Cd), allows for the efficient immobilization of heavy metals by precipitation or coprecipitation with carbonates. Microbially-induced carbonate precipitation process may be useful also in the case of the cultivation of crop plants in various agricultural soils with trace but legally permissible Cd concentrations, which may be still uptaken by plants. This study aimed to investigate the influence of soil supplementation with metabolites containing carbonates (MCC) produced by the ureolytic bacterium Ochrobactrum sp. POC9 on the Cd mobility in the soil as well as on the Cd uptake efficiency and general condition of crop plants (Petroselinum crispum). In the frame of the conducted studies (i) carbonate productivity of the POC9 strain, (ii) the efficiency of Cd immobilization in soil supplemented with MCC, (iii) crystallization of cadmium carbonate in the soil enriched with MCC, (iv) the effect of MCC on the physico-chemical and microbiological properties of soil, and (v) the effect of changes in soil properties on the morphology, growth rate, and Cd-uptake efficiency of crop plants were investigated. The experiments were conducted in soil contaminated with a low concentration of Cd to simulate the natural environmental conditions. Soil supplementation with MCC significantly reduced the bioavailability of Cd in soil with regard to control variants by about 27-65% (depending on the volume of MCC) and reduced the Cd uptake by plants by about 86% and 74% in shoots and roots, respectively. Furthermore, due to the decrease in soil toxicity and improvement of soil nutrition with other metabolites produced during the urea degradation (MCC), some microbiological properties of soil (quantity and activity of soil microorganisms), as well as the general condition of plants, were also significantly improved. Soil supplementation with MCC enabled efficient Cd stabilization and significantly reduced its toxicity for soil microbiota and plants. Thus, MCC produced by POC9 strain may be used not only as an effective Cd immobilizer in soil but also as a microbe and plant stimulators.
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Affiliation(s)
- Marta Zakrzewska
- Department of Environmental Microbiology and Biotechnology, Institute of Microbiology, Faculty of Biology, University of Warsaw, Warsaw, Poland
| | - Grzegorz Rzepa
- Department of Mineralogy, Petrography and Geochemistry, Faculty of Geology, Geophysics and Environmental Protection, AGH University of Science and Technology, Krakow, Poland
| | - Marcin Musialowski
- Department of Geomicrobiology, Institute of Microbiology, Faculty of Biology, University of Warsaw, Warsaw, Poland
| | - Aleksandra Goszcz
- Department of Geomicrobiology, Institute of Microbiology, Faculty of Biology, University of Warsaw, Warsaw, Poland
- Department of Ecotoxicology, Institute of Environmental Biology, Faculty of Biology, University of Warsaw, Warsaw, Poland
| | - Robert Stasiuk
- Department of Geomicrobiology, Institute of Microbiology, Faculty of Biology, University of Warsaw, Warsaw, Poland
| | - Klaudia Debiec-Andrzejewska
- Department of Geomicrobiology, Institute of Microbiology, Faculty of Biology, University of Warsaw, Warsaw, Poland
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29
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Wang Z, Li Y, Zheng W, Ji Y, Duan M, Ma L. Ammonia oxidizing archaea and bacteria respond to different manure application rates during organic vegetable cultivation in Northwest China. Sci Rep 2023; 13:8064. [PMID: 37202434 DOI: 10.1038/s41598-023-35134-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2022] [Accepted: 05/12/2023] [Indexed: 05/20/2023] Open
Abstract
Ammonia oxidization is a critical process in nitrogen cycling that involves ammonia oxidizing archaea (AOA) and bacteria (AOB). However, the effects of different manure amounts on ammonia-oxidizing microorganisms (AOMs) over the course of organic vegetables production remains unclear. We used the amoA gene to evaluated AOMs abundance and community structure in organic vegetable fields. Quantitative PCR revealed that AOB were more abundant than AOA. Among them, the amoA copy number of AOB treated with 900 kgN ha-1 was 21.3 times that of AOA. The potential nitrification rate was significantly correlated with AOB abundance (P < 0.0001) but not with AOA, suggesting that AOB might contribute more to nitrification than AOA. AOB sequences were classified into Nitrosomonas and Nitrosospira, and AOA into Nitrosopumilus and Nitrososphaera. Nitrosomonas and Nitrosopumilus were predominant in treatments that received manure nitrogen at ≥ 900 kg ha-1 (52.7-56.5%) and when manure was added (72.7-99.8%), respectively, whereas Nitrosospira and Nitrososphaera occupied more than a half percentage in those that received ≤ 600 kg ha-1 (58.4-84.9%) and no manure (59.6%). A similar manure rate resulted in more identical AOMs' community structures than greater difference manure rate. The bacterial amoA gene abundances and ratios of AOB and AOA showed significantly positive correlations with soil electrical conductivity, total carbon and nitrogen, nitrate, phosphorus, potassium, and organic carbon, indicating that these were potential key factors influencing AOMs. This study explored the AOMs' variation in organic vegetable fields in Northwest China and provided a theoretical basis and reference for the subsequent formulation of proper manure management.
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Affiliation(s)
- Zhan Wang
- Research Centre of Intelligent Equipment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
- Guyuan Branch, Ningxia Academy of Agricultural and Forestry Sciences, Guyuan, 756000, China
| | - Yinkun Li
- Research Centre of Intelligent Equipment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China.
| | - Wengang Zheng
- Research Centre of Intelligent Equipment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
| | - Yuru Ji
- Research Centre of Intelligent Equipment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
| | - Minjie Duan
- Beijing Key Laboratory of Ecological Function Assessment and Regulation Technology of Green Space, Beijing Urban Ecosystem Positioning Observation and Research Station, Beijing Institute of Landscape Architecture, Beijing, 100102, China
| | - Li Ma
- Wuzhong National Agricultural Science and Technology Park Management Committee, Wuzhong, 751100, Ningxia, China
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30
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Lu J, Sha H, Chen J, Yi X, Xiong J. Characterizing sediment functional traits and ecological consequences respond to increasing antibiotic pollution. Appl Microbiol Biotechnol 2023:10.1007/s00253-023-12572-7. [PMID: 37191684 DOI: 10.1007/s00253-023-12572-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Revised: 04/28/2023] [Accepted: 05/05/2023] [Indexed: 05/17/2023]
Abstract
Current studies have shown that the taxonomic structures of ecologically important microbial communities are altered by antibiotic exposure, but the resulting effects on functional potentials and subsequent biogeochemical processes are poorly understood. However, this knowledge is indispensable for developing an accurate projection of nutrient dynamics in the future. Using metagenomic analyses, here we explored the responses of taxonomical and functional structures of a sediment microbial community, and their links with key biogeochemical processes to increasing antibiotic pollution from the pristine inlet to the outfall sites along an aquaculture discharge channel. We identified sharply contrasting sedimentary microbial communities and functional traits along increasing antibiotic pollution. Functional structures exhibited steeper distance-decay relationships than taxonomical structures along both the antibiotic distance and physicochemical distance, revealing higher functional sensitivity. Sediment enzyme activities were significantly and positively coupled with the relative abundances of their coding genes, thus the abundances of genes were indicative of functional potentials. The nitrogen cycling pathways were commonly inhibited by antibiotics, but not for the first step of nitrification, which could synergistically mitigate nitrous oxide emission. However, antibiotic pollution stimulated methanogens and inhibited methanotrophs, thereby promoting methane efflux. Furthermore, microbes could adapt to antibiotic pollution through enriched potential of sulfate uptake. Antibiotics indirectly affected taxonomic structures through alterations in network topological features, which in turn affected sediment functional structures and biogeochemical processes. Notably, only 13 antibiotics concentration-discriminatory genes contributed an overall 95.9% accuracy in diagnosing in situ antibiotic concentrations, in which just two indicators were antibiotic resistance genes. Our study comprehensively integrates sediment compositional and functional traits, biotic interactions, and enzymatic activities, thus generating a better understanding about ecological consequences of increasing antibiotics pollution. KEY POINTS: • Contrasting functional traits respond to increasing antibiotic pollution. • Antibiotics pollution stimulates CH4 efflux, while mitigating N2O emission and may drive an adaptive response of enriched sulfate uptake. • Indicator genes contribute 95.9% accuracy in diagnosing antibiotic concentrations.
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Affiliation(s)
- Jiaqi Lu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Ningbo University, 315211, Ningbo, China
- Key Laboratory of Marine Biotechnology of Zhejiang Province, School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Haonan Sha
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Ningbo University, 315211, Ningbo, China
- Key Laboratory of Marine Biotechnology of Zhejiang Province, School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Jiong Chen
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Ningbo University, 315211, Ningbo, China
- Key Laboratory of Marine Biotechnology of Zhejiang Province, School of Marine Sciences, Ningbo University, Ningbo, 315211, China
| | - Xianghua Yi
- Lanshion Marine Science and Technology Co., Ltd, Ningbo, 315715, China
| | - Jinbo Xiong
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Ningbo University, 315211, Ningbo, China.
- Key Laboratory of Marine Biotechnology of Zhejiang Province, School of Marine Sciences, Ningbo University, Ningbo, 315211, China.
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31
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Wang M, Yu Y, Ren Y, Wang J, Chen H. Effect of antibiotic and/or heavy metal on nitrogen cycle of sediment-water interface in aquaculture system: Implications from sea cucumber culture. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 325:121453. [PMID: 36934965 DOI: 10.1016/j.envpol.2023.121453] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Revised: 02/16/2023] [Accepted: 03/15/2023] [Indexed: 06/18/2023]
Abstract
Antibiotics and heavy metals can have a negative impact on the nitrogen (N) cycle and microbial metabolism in coastal aquaculture environment. An indoor simulated culture experiment was conducted to explore how sulfadiazine and lead influence the N cycling in aquatic environment. Specifically, the experiment involved adding sulfadiazine (SDZ), lead (Pb), a combination of SDZ and Pb (SP), and a control group (CK). The fluxes and contents of ammonia nitrogen (NH4+-N), nitrate nitrogen (NO3--N) and nitrite nitrogen (NO2--N) in sediment-water interface and sediments, the abundance of N cycle function genes (amoA_AOB, hzsA, nar, nirK, nirS, norB and nosZ) and microbiota in sediments were analyzed. The results showed that the presence of SDZ and Pb inhibited the nitrification function gene and nitrifiers abundance in surface sediment, and thus leading to more accumulation of NH4+ and NO2- in overlying water. Pb exposure increased the abundances of denitrifying bacteria stimulated the first three steps of denitrification in the sediment, resulting in more removal of NO3- from the sediment, but possibly had the risk of releasing more greenhouse gas N2O. Conversely, the presence of SDZ ultimately inhibited denitrification and anammox bacterial activities in the sediment. This study revealed how heavy metal and antibiotic impair the microbial communities and N cycling function gene expression, leading to the deterioration of typical coastal aquaculture environments.
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Affiliation(s)
- Mengshu Wang
- School of Marine Science and Engineering, Qingdao Agricultural University, Qingdao, 266235, China
| | - Yu Yu
- School of Marine Science and Engineering, Qingdao Agricultural University, Qingdao, 266235, China
| | - Yichao Ren
- School of Marine Science and Engineering, Qingdao Agricultural University, Qingdao, 266235, China.
| | - Jinye Wang
- School of Marine Science and Engineering, Qingdao Agricultural University, Qingdao, 266235, China
| | - Hui Chen
- School of Marine Science and Engineering, Qingdao Agricultural University, Qingdao, 266235, China
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32
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Venegas Garcia P, Wang H. A Data-Validated Stoichiometric Model for the Priming Effect. Bull Math Biol 2023; 85:53. [PMID: 37162598 DOI: 10.1007/s11538-023-01160-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2022] [Accepted: 04/25/2023] [Indexed: 05/11/2023]
Abstract
Due to global warming, interest in sequestering carbon by appropriately managing soils has contributed to studying the dynamic exchange of carbon and nitrogen in soils and atmospheric CO[Formula: see text]. The priming effect, or the intensified CO[Formula: see text] emissions from soil organic matter (SOM) decomposition in short periods by using labile substrates, has been a topic of interest over the last decades. A combination of two experimentally supported mechanisms explains the priming effect phenomenon, and for the first time, we combine them in a novel stoichiometric model. The model considers the effects of labile substrate utilization in soils during the SOM decomposition and how CO[Formula: see text] emissions rates are affected. Laboratory data and a local sensitivity analysis validate the accuracy and robustness of the model. We find an optimized ratio of labile carbon and nitrogen that intensifies SOM decomposition for different soil features. The priming effect is weakened as C/N in SOM increases for nutrient-poor soils and is independent of C/N in SOM for nutrient-rich soils. The time required for microorganisms to decompose SOM at its maximum rate is delayed only for labile carbon treatments and poor-nutrient soils but remains constant otherwise. Finally, the SOM degradation efficiency determines the priming effect's acceleration or reduction under different soil treatments.
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Affiliation(s)
- Pablo Venegas Garcia
- Department of Mathematical and Statistical Sciences, University of Alberta, Edmonton, AB, T6G2G1, Canada.
| | - Hao Wang
- Department of Mathematical and Statistical Sciences, University of Alberta, Edmonton, AB, T6G2G1, Canada
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Jáuregui I, Vega-Mas I, Delaplace P, Vanderschuren H, Thonar C. An optimized hydroponic pipeline for large-scale identification of wheat genotypes with resilient biological nitrification inhibition activity. THE NEW PHYTOLOGIST 2023; 238:1711-1721. [PMID: 36764923 DOI: 10.1111/nph.18807] [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: 09/05/2022] [Accepted: 01/26/2023] [Indexed: 06/18/2023]
Abstract
Several plant species have been reported to inhibit nitrification via their root exudates, the so-called biological nitrification inhibition (BNI). Given the potential of BNI-producing plants to sustainably mitigate N losses in agrosystems, identification of BNI activity in existing germplasms is of paramount importance. A hydroponic system was combined with an optimized Nitrosomonas europaea-based bioassay to determine the BNI activity of root exudates. The pipeline allows collecting and processing hundreds of root exudates simultaneously. An additional assay was established to assess the potential bactericide effect of the root exudates. The pipeline was used to unravel the impact of developmental stage, temperature and osmotic stress on the BNI trait in selected wheat genotypes. Biological nitrification inhibition activity appeared consistently higher in wheat at the pretillering stage as compared to the tillering stage. While low-temperatures did not alter BNI activities in root exudates, osmotic stress appeared to change the BNI activity in a genotype-dependent manner. Further analysis of Nitrosomonas culture after pre-exposure to root exudates suggested that BNI activity has no or limited bactericide effects. The present pipeline will be instrumental to further investigating the dynamics of BNI activity and to uncover the diversity of the BNI trait in plant species.
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Affiliation(s)
- Iván Jáuregui
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
| | - Izargi Vega-Mas
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
- Department of Plant Biology and Ecology, University of the Basque Country (UPV/EHU), 48940, Bilbao, Spain
| | - Pierre Delaplace
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
| | - Hervé Vanderschuren
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
- Tropical Crop Improvement Laboratory, Biosystems Department, KU Leuven, B-3001, Leuven, Belgium
| | - Cécile Thonar
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
- Agroecology Lab, Université Libre de Bruxelles (ULB), B-1050, Brussels, Belgium
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Liu C, Siri M, Li H, Ren C, Huang J, Feng C, Liu K. Drought is threatening plant growth and soil nutrients of grassland ecosystems: A meta-analysis. Ecol Evol 2023; 13:e10092. [PMID: 37250445 PMCID: PMC10208897 DOI: 10.1002/ece3.10092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Revised: 04/25/2023] [Accepted: 04/28/2023] [Indexed: 05/31/2023] Open
Abstract
As a widespread direct effect of global warming, drought is currently wreaking havoc on terrestrial ecosystems' structure and function, however, the synthesized analysis is lacked to explore the general rules between drought changes and main functional factors of grassland ecosystems. In this work, meta-analysis was used to examine the impacts of drought on grassland ecosystems in recent decades. According to the results, drought greatly reduced aboveground biomass (AGB), aboveground net primary production (ANPP), height, belowground biomass (BGB), belowground net primary production (BNPP), microbial biomass nitrogen (MBN), microbial biomass carbon (MBC) and soil respiration (SR), and increased dissolved organic carbon (DOC), total nitrogen (TN), total phosphorus (TP), nitrate nitrogen (NO3--N), and the ratio of microbial biomass carbon and nitrogen (MBC/MBN). The drought-related environmental factor mean annual temperature (MAT) was negatively correlated with AGB, height, ANPP, BNPP, MBC, and MBN, however, mean annual precipitation (MAP) had positive effect on these variables. These findings indicate that drought is threatening the biotic environment of grassland ecosystem, and the positive steps should be taken to address the negative effects of drought on grassland ecosystems due to climate change.
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Affiliation(s)
- Cheng Liu
- College of Grassland Science and TechnologyChina Agricultural UniversityBeijingChina
| | - Muji Siri
- College of Grassland Science and TechnologyChina Agricultural UniversityBeijingChina
| | - Hui Li
- College of Grassland Science and TechnologyChina Agricultural UniversityBeijingChina
| | - Cheng Ren
- College of Grassland Science and TechnologyChina Agricultural UniversityBeijingChina
| | - Jing Huang
- College of Grassland Science and TechnologyChina Agricultural UniversityBeijingChina
| | - Changliang Feng
- College of Grassland Science and TechnologyChina Agricultural UniversityBeijingChina
| | - Kesi Liu
- College of Grassland Science and TechnologyChina Agricultural UniversityBeijingChina
- National Field Station of Grassland Ecosystem in GuyuanGuyuanChina
- Key Laboratory of Restoration Ecology of Cold Area in Qinghai Province, Northwest Institute of Plateau BiologyChinese Academy of SciencesXiningChina
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35
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Bi R, Xu X, Zhan L, Chen A, Zhang Q, Xiong Z. Proper organic substitution attenuated both N 2O and NO emissions derived from AOB in vegetable soils by enhancing the proportion of Nitrosomonas. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 866:161231. [PMID: 36586678 DOI: 10.1016/j.scitotenv.2022.161231] [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: 10/31/2022] [Revised: 12/07/2022] [Accepted: 12/23/2022] [Indexed: 06/17/2023]
Abstract
The ammonia oxidation process driven by microorganisms is an essential source of nitrous oxide (N2O) and nitric oxide (NO) emissions. However, few evaluations have been performed on the changes in the community structure and abundance of soil ammonia-oxidizing bacteria (AOB) and ammonia-oxidizing archaea (AOA) under substituting portion of chemical fertilizers with organic manure (organic substitution) and their relative contribution to the ammonia oxidation process. Here, five long-term fertilization strategies were applied in field (SN: synthetic fertilizer application; OM: organic manure; M1N1: substituting 50 % of chemical N fertilizer with organic manure; M1N4: substituting 20 % of chemical N fertilizer with organic manure; and CK: no fertilizer). We investigated the response characteristics of AOB and AOA community structures by selective inhibitor shaking assays and high-throughput sequencing and further explained their relative contribution to the ammonia oxidation process during three consecutive years of vegetable production. Compared to SN and M1N4, the potential of ammonia oxidation (PAO) was significantly reduced by 26.4 % and 22.3 % in OM and 9.5 % and 4.4 % in M1N1, resulting in N2O reductions of 38.9 % and 30.8 % (OM) and 31.2 % and 21.1 % (M1N1), respectively, and NO reductions of 45.0 % and 34.1 % (OM) and 40.1 % and 28.3 % (M1N1). RDA and correlation analyses showed that the soil organic carbon and ammonium nitrogen content increased while AOB gene abundance and diversity significantly decreased with increasing organic replacement ratio; however, the relative abundance of Nitrosomonas in AOB increased in OM and M1N1, which further demonstrates that AOB are the main driver in vegetable soils. Therefore, the appropriate proportion of organic substitution (OM and M1N1) could decrease the N2O and NO emissions contributed by AOB by affecting the soil physicochemical properties and AOB community structure.
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Affiliation(s)
- Ruiyu Bi
- Jiangsu Key Laboratory of Low Carbon Agriculture and GHGs Mitigation, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Xintong Xu
- Jiangsu Key Laboratory of Low Carbon Agriculture and GHGs Mitigation, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Liping Zhan
- Jiangsu Key Laboratory of Low Carbon Agriculture and GHGs Mitigation, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Anfeng Chen
- Jiangsu Key Laboratory of Low Carbon Agriculture and GHGs Mitigation, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Qianqian Zhang
- Jiangsu Key Laboratory of Low Carbon Agriculture and GHGs Mitigation, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China; State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou 311300, China
| | - Zhengqin Xiong
- Jiangsu Key Laboratory of Low Carbon Agriculture and GHGs Mitigation, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China.
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Xie J, Xu X, Zhang S, Yang Z, Wang G, Li T, Pu Y, Zhou W, Xu C, Lv G, Cheng Z, Xian J, Pu Z. Activation and tolerance of Siegesbeckia Orientalis L. rhizosphere to Cd stress. FRONTIERS IN PLANT SCIENCE 2023; 14:1145012. [PMID: 37035082 PMCID: PMC10081161 DOI: 10.3389/fpls.2023.1145012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/15/2023] [Accepted: 02/27/2023] [Indexed: 06/19/2023]
Abstract
This experiment investigated the changes of rhizosphere soil microenvironment for hyperaccumulation-soil system under Cd stress in order to reveal the mechanism of hyperaccumulation and tolerance. Thus, Cd fractions, chemical compositions, and biochemical characteristics in rhizosphere soil of Siegesbeckia orientalis L. under Cd stress conditions of 0, 5, 10, 25, 50, 100, and 150 mg kg-1 were investigated through a root bag experiment, respectively. As a result, Cd induced the acidification of S. orientalis rhizosphere soil, and promoted the accumulation of dissolved organic carbon (DOC) and readily oxidizable organic carbon (ROC), which increased by 28.39% and 6.98% at the maximum compared with control. The percentage of labile Cd (acid-soluble and reducible Cd) in soil solution increased significantly (P < 0.05) from 31.87% to 64.60% and from 26.00% to 34.49%, respectively. In addition, rhizosphere microenvironment can alleviate the inhibition of Cd on soil microorganisms and enzymes compare with bulk soils. Under medium and low concentrations of Cd, the rhizosphere soil microbial biomass carbon (MBC), basal respiration, ammonification and nitrification were significantly increased (P < 0.05), and the activities of key enzymes were not significantly inhibited. This suggests that pH reduction and organic carbon (DOC and ROC) accumulation increase the bioavailability of Cd and may have contributed to Cd accumulation in S. orientalis. Moreover, microorganisms and enzymes in rhizosphere soils can enhance S. orientalis tolerance to Cd, alleviating the nutrient imbalance and toxicity caused by Cd pollution. This study revealed the changes of physicochemical and biochemical properties of rhizosphere soil under Cd stress. Rhizosphere soil acidification and organic carbon accumulation are key factors promoting Cd activation, and microorganisms and enzymes are the responses of Cd tolerance.
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Affiliation(s)
- Jianyu Xie
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
| | - Xiaoxun Xu
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Soil Environment Protection of Sichuan Province, Chengdu, China
| | - Shirong Zhang
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Soil Environment Protection of Sichuan Province, Chengdu, China
| | - Zhanbiao Yang
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Soil Environment Protection of Sichuan Province, Chengdu, China
| | - Guiyin Wang
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Soil Environment Protection of Sichuan Province, Chengdu, China
| | - Ting Li
- College of Resources, Sichuan Agricultural University, Chengdu, China
| | - Yulin Pu
- College of Resources, Sichuan Agricultural University, Chengdu, China
| | - Wei Zhou
- College of Resources, Sichuan Agricultural University, Chengdu, China
| | - Changlian Xu
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
| | - Guochun Lv
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
| | - Zhang Cheng
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
| | - Junren Xian
- College of Environmental Sciences, Sichuan Agricultural University, Chengdu, China
| | - Zhien Pu
- College of Agronomy, Sichuan Agricultural University, Chengdu, China
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Xie L, Liu D, Chen Z, Niu Y, Meng L, Ding W. Non-native Brachiaria humidicola with biological nitrification inhibition capacity stimulates in situ grassland N2O emissions. Front Microbiol 2023; 14:1127179. [PMID: 37007459 PMCID: PMC10064092 DOI: 10.3389/fmicb.2023.1127179] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Accepted: 02/27/2023] [Indexed: 03/19/2023] Open
Abstract
IntroductionBrachiaria humidicola, a tropical grass, could release root exudates with biological nitrification inhibition (BNI) capacity and reduce soil nitrous oxide (N2O) emissions from grasslands. However, evidence of the reduction effect in situ in tropical grasslands in China is lacking.MethodsTo evaluate the potential effects of B. humidicola on soil N2O emissions, a 2-year (2015–2017) field experiment was established in a Latosol and included eight treatments, consisting of two pastures, non-native B. humidicola and a native grass, Eremochloa ophiuroide, with four nitrogen (N) application rates. The annual urea application rates were 0, 150, 300, and 450 kg N ha−1.ResultsThe average 2-year E. ophiuroides biomass with and without N fertilization were 9.07–11.45 and 7.34 t ha−1, respectively, and corresponding values for B. humidicola increased to 31.97–39.07 and 29.54 t ha−1, respectively. The N-use efficiencies under E. ophiuroide and B. humidicola cultivation were 9.3–12.0 and 35.5–39.4%, respectively. Annual N2O emissions in the E. ophiuroides and B. humidicola fields were 1.37 and 2.83 kg N2O-N ha−1, respectively, under no N fertilization, and 1.54–3.46 and 4.30–7.19 kg N2O-N ha−1, respectively, under N fertilization.DiscussionsAccording to the results, B. humidicola cultivation increased soil N2O emissions, especially under N fertilization. This is because B. humidicola exhibited the more effective stimulation effect on N2O production via denitrification primarily due to increased soil organic carbon and exudates than the inhibition effect on N2O production via autotrophic nitrification. Annual yield-scaled N2O emissions in the B. humidicola treatment were 93.02–183.12 mg N2O-N kg−1 biomass, which were significantly lower than those in the E. ophiuroides treatment. Overall, our results suggest that cultivation of the non-native grass, B. humidicola with BNI capacity, increased soil N2O emissions, while decreasing yield-scaled N2O emissions, when compared with native grass cultivation.
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Affiliation(s)
- Lu Xie
- 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
| | - Deyan Liu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Zengming Chen
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Yuhui Niu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Lei Meng
- College of Tropical Crops, Hainan University, Haikou, China
| | - Weixin Ding
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- *Correspondence: Weixin Ding,
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Park K, Kim CY, Kirk MF, Chae G, Kwon MJ. Effects of natural non-volcanic CO 2 leakage on soil microbial community composition and diversity. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 862:160754. [PMID: 36513229 DOI: 10.1016/j.scitotenv.2022.160754] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2022] [Revised: 11/22/2022] [Accepted: 12/03/2022] [Indexed: 06/17/2023]
Abstract
Geological carbon capture and storage (CCS) can reduce anthropogenic CO2 emissions, but questions exist about impacts at the surface if CO2 leaks from deep storage reservoirs. To examine potential impacts on soils, previous studies have investigated the geochemistry and microbiology of volcanic soils hosting high fluxes of CO2 rich gas. This study builds on those previous investigations by considering impacts of CO2 leakage at a non-volcanic site, where deep geogenic CO2 leaks from a cracked well casing. At the site, we collected 26 soil cores adjacent to soil gas monitoring wells. Based on measured CO2 fluxes, the soil samples fall into two groups 1) high CO2 (flux = 304.6 ± 272.1 g m-2 d-1, conc. = 29.1 ± 34 %) and 2) low CO2 (flux = 15.8 ± 6.1 g m-2 d-1, conc. = 0.8 ± 0.9 %). Soil pH was significantly lower (p < 0.05) in high flux group samples (4.6 ± 0.3) than the low flux ones (5.3 ± 0.7). Beta diversity calculations using 16S rRNA gene sequences and redundancy analysis (RDA) revealed clear clustering of microbial communities relative to CO2 flux and significant correlations of community composition with pH and organic carbon content. In the high flux soils, abundant microbial groups included Acidobacteriota, Ktedonobacteria, and SC-I-84 in the phylum Proteobacteria, as well as Nitrososphaeria, a genus of ammonia oxidizing archaea. Compared to volcanic sites described previously, our non-volcanic site had slight differences in soil geochemical properties and gradual shifts in community compositions between CO2 hotspots and background locations. Moreover, the elevated abundance of SC-I-84 has not been reported in studies of volcanic sites. This study improves our ability to predict potential environmental impacts of geological CCS by expanding the range of conditions over which existing CO2 leakage has been observed.
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Affiliation(s)
- Kanghyun Park
- Department of Earth and Environmental Sciences, Korea University, Seoul 02841, South Korea
| | - Chan Yeong Kim
- Korea Institute of Geoscience and Mineral Resources (KIGAM), Daejeon 34132, South Korea; GeoGreen21, 55 Digital-ro 33-gil, Guro-gu, Seoul 08376, South Korea
| | - Matthew F Kirk
- Department of Geology, Kansas State University, Manhattan, KS 66506, USA
| | - Gitak Chae
- Korea Institute of Geoscience and Mineral Resources (KIGAM), Daejeon 34132, South Korea.
| | - Man Jae Kwon
- Department of Earth and Environmental Sciences, Korea University, Seoul 02841, South Korea.
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Zhao Y, Gao J, Wang Z, Zhang Y, Cui Y, Guo Y, Wu Z. Metatranscriptome Revealed the Efficacy and Safety of a Prospective Approach for Agricultural Wastewater Reuse: Achieving Ammonia Retention during Biological Treatment by a Novel Natural Inhibitor Epsilon-Poly-l-Lysine. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:2538-2547. [PMID: 36720085 DOI: 10.1021/acs.est.2c06977] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Appropriate inhibitors might play important roles in achieving ammonia retention in biological wastewater treatment and its reuse in agriculture. In this study, the feasibility of epsilon-poly-l-lysine (ε-PL) as a novel natural ammonia oxidation inhibitor was investigated. Significant inhibition (ammonia oxidation inhibition rate was up to 96.83%) was achieved by treating the sludge with ε-PL (400 mg/L, 12 h soaking) only once and maintaining for six cycles. Meanwhile, the organic matter and nitrite removal was not affected. This method was effective under the common environmental conditions of biological wastewater treatment. Metatranscriptome uncovered the possible action mechanisms of ε-PL. The ammonia oxidation inhibition was due to the co-decrease of Nitrosomonas abundance, ammonia oxidation genes, and the cellular responses of Nitrosomonas. Thauera and Dechloromonas could adapt to ε-PL by stimulating stress responses, which maintained the organic matter and nitrite removal. Importantly, ε-PL did not cause the enhancement of antibiotic resistance genes and virulent factors. Therefore, ε-PL showed a great potential of ammonia retention, which could be applied in the biological treatment of wastewater for agricultural reuse.
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Affiliation(s)
- Yifan Zhao
- National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, Faculty of Environment and Life, Beijing University of Technology, Beijing 100124, China
| | - Jingfeng Gao
- National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, Faculty of Environment and Life, Beijing University of Technology, Beijing 100124, China
| | - Zhiqi Wang
- National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, Faculty of Environment and Life, Beijing University of Technology, Beijing 100124, China
| | - Yi Zhang
- National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, Faculty of Environment and Life, Beijing University of Technology, Beijing 100124, China
| | - Yingchao Cui
- National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, Faculty of Environment and Life, Beijing University of Technology, Beijing 100124, China
| | - Yi Guo
- National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, Faculty of Environment and Life, Beijing University of Technology, Beijing 100124, China
| | - Zejie Wu
- National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, Faculty of Environment and Life, Beijing University of Technology, Beijing 100124, China
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Egbeagu UU, Liu W, Zhang J, Sun L, Bello A, Wang B, Deng L, Sun Y, Han Y, Zhao Y, Zhao L, Zhao M, Bi R, Jong C, Shi S, Xu X. The activity of ammonia-oxidizing bacteria on the residual effect of biochar-compost amended soils in two cropping seasons. Biochem Eng J 2023. [DOI: 10.1016/j.bej.2022.108778] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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King WL, Richards SC, Kaminsky LM, Bradley BA, Kaye JP, Bell TH. Leveraging microbiome rediversification for the ecological rescue of soil function. ENVIRONMENTAL MICROBIOME 2023; 18:7. [PMID: 36691096 PMCID: PMC9872425 DOI: 10.1186/s40793-023-00462-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Accepted: 01/06/2023] [Indexed: 06/17/2023]
Abstract
BACKGROUND Global biodiversity losses threaten ecosystem services and can impact important functional insurance in a changing world. Microbial diversity and function can become depleted in agricultural systems and attempts to rediversify agricultural soils rely on either targeted microbial introductions or retaining natural lands as biodiversity reservoirs. As many soil functions are provided by a combination of microbial taxa, rather than outsized impacts by single taxa, such functions may benefit more from diverse microbiome additions than additions of individual commercial strains. In this study, we measured the impact of soil microbial diversity loss and rediversification (i.e. rescue) on nitrification by quantifying ammonium and nitrate pools. We manipulated microbial assemblages in two distinct soil types, an agricultural and a forest soil, with a dilution-to-extinction approach and performed a microbiome rediversification experiment by re-introducing microorganisms lost from the dilution. A microbiome water control was included to act as a reference point. We assessed disruption and potential restoration of (1) nitrification, (2) bacterial and fungal composition through 16S rRNA gene and fungal ITS amplicon sequencing and (3) functional genes through shotgun metagenomic sequencing on a subset of samples. RESULTS Disruption of nitrification corresponded with diversity loss, but nitrification was successfully rescued in the rediversification experiment when high diversity inocula were introduced. Bacterial composition clustered into groups based on high and low diversity inocula. Metagenomic data showed that genes responsible for the conversion of nitrite to nitrate and taxa associated with nitrogen metabolism were absent in the low diversity inocula microcosms but were rescued with high diversity introductions. CONCLUSIONS In contrast to some previous work, our data suggest that soil functions can be rescued by diverse microbiome additions, but that the concentration of the microbial inoculum is important. By understanding how microbial rediversification impacts soil microbiome performance, we can further our toolkit for microbial management in human-controlled systems in order to restore depleted microbial functions.
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Affiliation(s)
- William L King
- Department of Plant Pathology and Environmental Microbiology, The Pennsylvania State University, 317 Buckhout Lab, University Park, PA, 16802, USA
- School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - Sarah C Richards
- Department of Plant Pathology and Environmental Microbiology, The Pennsylvania State University, 317 Buckhout Lab, University Park, PA, 16802, USA
- Intercollege Graduate Degree Program in Ecology, The Pennsylvania State University, University Park, PA, 16802, USA
- Intercollege Graduate Degree Program in International Agriculture and Development, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Laura M Kaminsky
- Department of Plant Pathology and Environmental Microbiology, The Pennsylvania State University, 317 Buckhout Lab, University Park, PA, 16802, USA
| | - Brosi A Bradley
- Department of Ecosystem Science and Management, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Jason P Kaye
- Intercollege Graduate Degree Program in Ecology, The Pennsylvania State University, University Park, PA, 16802, USA
- Department of Ecosystem Science and Management, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Terrence H Bell
- Department of Plant Pathology and Environmental Microbiology, The Pennsylvania State University, 317 Buckhout Lab, University Park, PA, 16802, USA.
- Intercollege Graduate Degree Program in Ecology, The Pennsylvania State University, University Park, PA, 16802, USA.
- Intercollege Graduate Degree Program in International Agriculture and Development, The Pennsylvania State University, University Park, PA, 16802, USA.
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Li S, Wang C, Yang S, Chen W, Li G, Luo W, Wei G, Chen C. Determining the contribution of microbiome complexity to the soil nutrient heterogeneity of fertile islands in a desert ecosystem. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 857:159355. [PMID: 36240927 DOI: 10.1016/j.scitotenv.2022.159355] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Revised: 09/27/2022] [Accepted: 10/07/2022] [Indexed: 06/16/2023]
Abstract
"Fertile islands" are known as hotspots of soil nutrient spatial heterogeneity in dryland ecosystems. Although soil microorganisms play critical functional roles in nutrient capture and cycling within fertile islands, our understanding of polymicrobial community roles in regulating soil nutrient distribution in fertile islands remains limited. Herein, we aim to clarify the relationships between the complexity of soil microbial (bacterial, archaeal and fungal) communities and the nutrient distribution around fertile islands. Soil samples were collected along vertical profiles at varying depths in three patches under the canopy of Hedysarum scoparium (CENTRE), at the edge (EDGE) of the canopy and outside (OUTSIDE) the canopy in an area of flowing sand. All the three microbiota have showed spatial heterogeneity around the fertile islands. Among them, bacteria had the most significant heterogeneity, and bacterial community assembly was dominated by deterministic processes. Microbial interaction patterns also showed spatial heterogeneity among different patches. More interaction complexity within microbiota was found in the bacteria in the CENTRE patch and in the fungi in the OUTSIDE patch. In addition, the proportions of among-kingdom connections were reduced under the canopies. Bacteria had the highest connectivity and centrality in the polymicrobial networks and were the most important predictor of polymicrobial interaction complexity, which may have contributed to the distribution of soil nutrients. The random forest (RF) model provided evidence that bacterial beta-diversity and the polymicrobial network complexity index can be optimal predictors of the soil multinutrient cycling index. Our study highlighted the responses of bacteria and polymicrobial interactions to fertile islands and their importance in driving soil nutrient heterogeneity. This information will help in managing soil microorganisms to provide dryland ecosystem services.
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Affiliation(s)
- Shuyue Li
- State Key Laboratory of Crop Stress Biology in Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, China
| | - Chang Wang
- State Key Laboratory of Crop Stress Biology in Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, China
| | - Shanshan Yang
- State Key Laboratory of Crop Stress Biology in Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, China
| | - Weimin Chen
- State Key Laboratory of Crop Stress Biology in Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, China
| | - Guoqiang Li
- State Key Laboratory of Crop Stress Biology in Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, China
| | - Wen Luo
- State Key Laboratory of Crop Stress Biology in Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, China
| | - Gehong Wei
- State Key Laboratory of Crop Stress Biology in Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, China.
| | - Chun Chen
- State Key Laboratory of Crop Stress Biology in Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, China.
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Liu J, Gul Wazir Z, Hou GQ, Wang GZ, Rong FX, Xu YZ, Liu K, Li MY, Liu AJ, Liu HL. The dependent correlation between soil multifunctionality and bacterial community across different farmland soils. Front Microbiol 2023; 14:1144823. [PMID: 37125206 PMCID: PMC10132505 DOI: 10.3389/fmicb.2023.1144823] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2023] [Accepted: 03/03/2023] [Indexed: 05/02/2023] Open
Abstract
Introduction Microorganisms play a critical role in soil biogeochemical cycles, but it is still debated whether they influence soil biogeochemical processes through community composition and diversity or not. This study aims to investigate variation in bacterial community structure across different soils and its correlation to soil multifunctionality. Soil samples were collected from five typical farmland zones along distinct climatic gradients in China. Methods The high-throughput sequencing (Illumina MiSeq) of 16S rRNA genes was employed to analyze bacterial community composition in each soil sample. Multivariate analysis was used to determine the difference in soil properties, microbial community and functioning, and their interactions. Results Cluster and discrimination analysis indicated that bacterial community composition was similar in five tested soil samples, but bacterial richness combined with soil enzyme activities and potential nitrification rate (PNR) contributed most to the differentiations of soil samples. Mantel test analysis revealed that bacterial community composition and richness were more significantly shaped by soil nutrient conditions and edaphic variables than bacterial diversity. As for soil multifunctionality, soil microbial community level physiological profiles were little affected by abiotic and biotic factors, while soil enzymes and PNR were also significantly related to bacterial community composition and richness, in addition to soil N and P availability. Conclusion Cumulatively, soil enzymes' activities and PNR were greatly dependent on bacterial community composition and richness not diversity, which in turn were greatly modified by soil N and P availability. Therefore, in the future it should be considered for the role of fertilization in the modification of bacterial community and the consequent control of nutrient cycling in soil.
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Affiliation(s)
- Jing Liu
- School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, China
| | - Zafran Gul Wazir
- School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, China
| | - Guo-Qin Hou
- School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, China
| | - Gui-Zhen Wang
- School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, China
| | - Fang-Xu Rong
- School of Agricultural Engineering and Food Science, Shandong University of Technology, Zibo, China
| | - Yu-Zhi Xu
- School of Resources and Environmental Engineering, Shandong University of Technology, Zibo, China
| | - Kai Liu
- School of Resources and Environmental Engineering, Shandong University of Technology, Zibo, China
| | - Ming-Yue Li
- School of Resources and Environmental Engineering, Shandong University of Technology, Zibo, China
| | - Ai-Ju Liu
- School of Resources and Environmental Engineering, Shandong University of Technology, Zibo, China
- *Correspondence: Ai-Ju Liu,
| | - Hong-Liang Liu
- School of Life Sciences and Medicine, Shandong University of Technology, Zibo, China
- Hong-Liang Liu,
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Chu X, Bai N, Zheng X, Wang Q, Pan X, Li S, Zhang J, Zhang H, He W, Zhong F, Lv W, Zhang H. Effects of straw returning combined with earthworm addition on nitrification and ammonia oxidizers in paddy soil. Front Microbiol 2022; 13:1069554. [PMID: 36590424 PMCID: PMC9800607 DOI: 10.3389/fmicb.2022.1069554] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Accepted: 11/30/2022] [Indexed: 12/23/2022] Open
Abstract
Introduction Soil ammonia oxidation, which acts as the first and rate-limiting step of nitrification, is driven by ammonia-oxidizing bacteria (AOB), ammonia-oxidizing archaea (AOA) and complete ammonia oxidizer (comammox, amoA gene of clade-A and clade-B). Straw returning, widely used ecological technology in China, is an effective measure for promoting straw decomposition and soil nutrient cycling when combined with earthworm addition. However, the effects of straw returning combined with earthworm addition on soil ammonia oxidizers remain poorly understood. Methods A 2-year plot experiment was conducted with 5 treatments: no fertilizer (CK); regular fertilization (RT); straw returning (SR); earthworm addition (W); straw returning + earthworm addition (SRW). The AOA, AOB, comammox clade-A and clade-B community microbial diversities and structures were investigated by high-throughput sequencing. Results The results showed that (1) compared to RT treatment, W, SR, and SRW treatments all significantly increased the richness of AOA and comammox clade-A and clade-B (p < 0.05), and the richness of AOB was only significantly promoted by SRW treatment (p < 0.05). However, only SRW had a higher comammox clade-B diversity index than RT. (2) The ammonia oxidizer community structures were altered by both straw returning and earthworm addition. Soil NH4 +-N was the critical environmental driver for altering the ammonia oxidizer community structure. (3) Compared with RT treatment, the soil potential nitrification rate (PNR) of W and SRW treatments increased by 1.19 and 1.20 times, respectively. The PNR was significantly positively correlated with AOB abundance (path coefficient = 0.712, p < 0.05) and negatively correlated with clade-B abundance (path coefficient = -0.106, p < 0.05). Discussion This study provides scientific support for the application of straw returning combined with earthworm addition to improve soil nitrification with respect to soil ammonia-oxidizing microorganisms.
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Affiliation(s)
- Xiangqian Chu
- Shanghai Academy of Agricultural Sciences, Eco-environmental Protection Institute, Shanghai, China
- Shanghai Engineering Research Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Naling Bai
- Shanghai Academy of Agricultural Sciences, Eco-environmental Protection Institute, Shanghai, China
- Shanghai Agricultural Academy of Sciences, Key Laboratory of Integrated Rice-Fish Farming Ecosystem, Ministry of Agriculture and Rural Affairs, Shanghai, China
| | - Xianqing Zheng
- Shanghai Academy of Agricultural Sciences, Eco-environmental Protection Institute, Shanghai, China
- Shanghai Agricultural Academy of Sciences, Key Laboratory of Integrated Rice-Fish Farming Ecosystem, Ministry of Agriculture and Rural Affairs, Shanghai, China
| | - Quanhua Wang
- Shanghai Engineering Research Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Xi Pan
- Shanghai Engineering Research Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Shuangxi Li
- Shanghai Academy of Agricultural Sciences, Eco-environmental Protection Institute, Shanghai, China
- Shanghai Agricultural Academy of Sciences, Key Laboratory of Integrated Rice-Fish Farming Ecosystem, Ministry of Agriculture and Rural Affairs, Shanghai, China
| | - Juanqin Zhang
- Shanghai Academy of Agricultural Sciences, Eco-environmental Protection Institute, Shanghai, China
- Shanghai Agricultural Academy of Sciences, Key Laboratory of Integrated Rice-Fish Farming Ecosystem, Ministry of Agriculture and Rural Affairs, Shanghai, China
| | - Haiyun Zhang
- Shanghai Academy of Agricultural Sciences, Eco-environmental Protection Institute, Shanghai, China
- Shanghai Agricultural Academy of Sciences, Key Laboratory of Integrated Rice-Fish Farming Ecosystem, Ministry of Agriculture and Rural Affairs, Shanghai, China
| | - Wenjie He
- Faculty of Resources and Environmental Science, Hubei University, Wuhan, China
| | - Feng Zhong
- Faculty of Resources and Environmental Science, Hubei University, Wuhan, China
| | - Weiguang Lv
- Shanghai Academy of Agricultural Sciences, Eco-environmental Protection Institute, Shanghai, China
- Shanghai Agricultural Academy of Sciences, Key Laboratory of Integrated Rice-Fish Farming Ecosystem, Ministry of Agriculture and Rural Affairs, Shanghai, China
| | - Hanlin Zhang
- Shanghai Academy of Agricultural Sciences, Eco-environmental Protection Institute, Shanghai, China
- Shanghai Engineering Research Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, Shanghai, China
- Agricultural Environment and Farmland Conservation Experiment Station of Ministry Agriculture, Shanghai, China
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Asad NI, Wang XB, Dozois J, Azarbad H, Constant P, Yergeau E. Early season soil microbiome best predicts wheat grain quality. FEMS Microbiol Ecol 2022; 99:6845734. [PMID: 36423336 DOI: 10.1093/femsec/fiac144] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2022] [Revised: 11/18/2022] [Accepted: 11/22/2022] [Indexed: 11/27/2022] Open
Abstract
Previous studies have shown that it is possible to accurately predict wheat grain quality and yields using microbial indicators. However, it is uncertain what the best timing for sampling is. For optimal usefulness of this modeling approach, microbial indicators from samples taken early in the season should have the best predictive power. Here, we sampled a field every two weeks across a single growing season and measured a wide array of microbial parameters (amplicon sequencing, abundance of N-cycle related functional genes, and microbial carbon usage) to find the moment when the microbial predictive power for wheat grain baking quality is highest. We found that the highest predictive power for wheat grain quality was for microbial data derived from samples taken early in the season (May-June), which coincides roughly with the seedling and tillering growth stages, that are important for wheat N nutrition. Our models based on LASSO regression also highlighted a set of microbial parameters highly coherent with our previous surveys, including alpha- and beta-diversity indices and N-cycle genes. Taken together, our results suggest that measuring microbial parameters early in the wheat growing season could help farmers better predict wheat grain quality.
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Affiliation(s)
- Numan Ibne Asad
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, Laval, QC H7V 1B7, Canada
| | - Xiao-Bo Wang
- State Key Laboratory of Grassland Agroecosystems, Center for Grassland Microbiome and College of Pastoral, Agriculture Science and Technology, Lanzhou University, Lanzhou 730020, People's Republic of China
| | - Jessica Dozois
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, Laval, QC H7V 1B7, Canada
| | - Hamed Azarbad
- Department of Biology, Evolutionary Ecology of Plants, Philipps-University Marburg,Marburg, 35037, Germany
| | - Philippe Constant
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, Laval, QC H7V 1B7, Canada
| | - Etienne Yergeau
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, Laval, QC H7V 1B7, Canada
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Li YX, Duan WL, Zhai XT, Luan J, Guo F. Synthesis of dual-functional pyrazole-based transition metal complexes for improved urease and nitrification activities. Inorganica Chim Acta 2022. [DOI: 10.1016/j.ica.2022.121184] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Liu T, Yang J, Wang H, Chen Y, Ren J, Lin X, Zhao J, Chen B, Liu H. Effects of molecular weight of polyaspartic acid on nitrogen use efficiency and crop yield. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:7343-7352. [PMID: 35765972 DOI: 10.1002/jsfa.12101] [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: 07/20/2021] [Revised: 06/06/2022] [Accepted: 06/29/2022] [Indexed: 06/15/2023]
Abstract
BACKGROUND In the past decades, ever-increasing fertilizer use has led to a continuous increase in agricultural output. However, serious waste of resources occurs because of the low utilization of fertilizers. Polyaspartic acid (PASP) is a biodegradable polymer that can be used as a fertilizer synergist in agricultural production to improve the nutrient utilization capacity of plants. For polymers, the molecular weight (MW) often affects their effectiveness. However, little information is available on the effects of PASP MW in agriculture, especially on nitrogen leaching and plant element uptake. RESULTS This work was conducted to identify the effect of PASPs with three different MWs - PASP-1 (MW: 5517), PASP-2 (MW: 6934), and PASP-3 (MW: 7568) - on nitrogen leaching, lettuce growth, and wheat cultivation. The results revealed that PASP favored plant growth and nitrogen accumulation in the soil, independent of crop species. PASP with a higher MW improved yields and the agronomic characteristics of lettuce and wheat. Furthermore, apparent amelioration of nitrogen use efficiency for lettuce (7.6%, 12.8%, and 15.0%) and wheat (4.6%, 8.1%, and 9.2%) was observed in the treatments with PASP addition. The effects and merits of PASPs on preventing ammonium nitrogen leaching and improving lettuce and wheat productivity were as follows: PASP-3 > PASP-2 > PASP-1. CONCLUSION The MW of PASP is an essential factor affecting inorganic nitrogen leaching and crop productivity, and PASP with a higher MW (7568) is recommended for application in agriculture. © 2022 Society of Chemical Industry.
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Affiliation(s)
- Tai Liu
- School of Materials Science and Engineering, Shijiazhuang Tiedao University, Shijiazhuang, China
- Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau/Ministry of Education Collaborative Innovation Center for Grassland Ecological Security/Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, School of Ecology and Environment, Inner Mongolia University, Hohhot, China
| | - Jinhui Yang
- School of Materials Science and Engineering, Shijiazhuang Tiedao University, Shijiazhuang, China
| | - Hongyuan Wang
- Key Laboratory of Non-point Source Pollution Control, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Yanxue Chen
- School of Materials Science and Engineering, Shijiazhuang Tiedao University, Shijiazhuang, China
| | - Jie Ren
- School of Materials Science and Engineering, Shijiazhuang Tiedao University, Shijiazhuang, China
| | - Xiaobo Lin
- School of Materials Science and Engineering, Shijiazhuang Tiedao University, Shijiazhuang, China
| | - Junchai Zhao
- School of Materials Science and Engineering, Shijiazhuang Tiedao University, Shijiazhuang, China
| | - Bingyi Chen
- School of Materials Science and Engineering, Shijiazhuang Tiedao University, Shijiazhuang, China
| | - Hongbin Liu
- Key Laboratory of Non-point Source Pollution Control, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
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Cao X, Zhao W, Zhang H, Lin J, Hu J, Lou Y, Wang H, Yang Q, Pan H, Zhuge Y. Individual and combined contamination of oxytetracycline and cadmium inhibited nitrification by inhibiting ammonia oxidizers. Front Microbiol 2022; 13:1062703. [PMID: 36532490 PMCID: PMC9751337 DOI: 10.3389/fmicb.2022.1062703] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Accepted: 11/08/2022] [Indexed: 03/19/2024] Open
Abstract
INTRODUCTION The large-scale development of animal husbandry and industrialization lead to more and more serious co-contamination from heavy metals and antibiotics in soils. Ecotoxic effects of residues from antibiotics and heavy metals are of increasing concern. MATERIALS AND METHODS In this study, oxytetracycline (OTC) and cadmium (Cd) were selected as target pollutants to evaluate the individual and combined effects on nitrification process using four different soil types sampled from North to South China through a 56-day incubation experiment. RESULTS AND DISCUSSION The results demonstrated that the contaminations of OTC and Cd, especially combined pollution had significant inhibitory effects on net nitrification rates (NNRs) as well as on AOA and AOB abundance. The toxic effects of contaminants were greatly enhanced with increasing OTC concentration. AOB was more sensitive than AOA to exogenous contaminants. And the interaction effects of OTC and Cd on ammonia oxidizers were mainly antagonistic. Furthermore, Cd contaminant (with or without OTC) had indirect effects on nitrification activity via inhibiting mineral N and AOA/AOB, while OTC alone indirectly inhibited nitrification activity by inhibiting ammonia oxidizers. The results could provide theoretical foundation for exploring the eco-environmental risks of antibiotics and heavy metals, as well as their toxic effects on nitrification processes.
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Affiliation(s)
| | | | | | | | | | | | | | | | - Hong Pan
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Tai’an, China
| | - Yuping Zhuge
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Tai’an, China
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Bozal-Leorri A, Subbarao GV, Kishii M, Urmeneta L, Kommerell V, Karwat H, Braun HJ, Aparicio-Tejo PM, Ortiz-Monasterio I, González-Murua C, González-Moro MB. Biological nitrification inhibitor-trait enhances nitrogen uptake by suppressing nitrifier activity and improves ammonium assimilation in two elite wheat varieties. FRONTIERS IN PLANT SCIENCE 2022; 13:1034219. [PMID: 36438125 PMCID: PMC9695736 DOI: 10.3389/fpls.2022.1034219] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/01/2022] [Accepted: 10/19/2022] [Indexed: 06/16/2023]
Abstract
Synthetic nitrification inhibitors (SNI) and biological nitrification inhibitors (BNI) are promising tools to limit nitrogen (N) pollution derived from agriculture. Modern wheat cultivars lack sufficient capacity to exude BNIs, but, fortunately, the chromosome region (Lr#n-SA) controlling BNI production in Leymus racemosus, a wild relative of wheat, was introduced into two elite wheat cultivars, ROELFS and MUNAL. Using BNI-isogenic-lines could become a cost-effective, farmer-friendly, and globally scalable technology that incentivizes more sustainable and environmentally friendly agronomic practices. We studied how BNI-trait improves N-uptake, and N-use, both with ammonium and nitrate fertilization, analysing representative indicators of soil nitrification inhibition, and plant metabolism. Synthesizing BNI molecules did not mean a metabolic cost since Control and BNI-isogenic-lines from ROELFS and MUNAL presented similar agronomic performance and plant development. In the soil, ROELFS-BNI and MUNAL-BNI plants decreased ammonia-oxidizing bacteria (AOB) abundance by 60% and 45% respectively, delaying ammonium oxidation without reducing the total abundance of bacteria or archaea. Interestingly, BNI-trait presented a synergistic effect with SNIs since made it also possible to decrease the AOA abundance. ROELFS-BNI and MUNAL-BNI plants showed a reduced leaf nitrate reductase (NR) activity as a consequence of lower soil NO 3 - formation and a higher amino acid content compared to BNI-trait lacking lines, indicating that the transfer of Lr#-SA was able to induce a higher capacity to assimilate ammonium. Moreover, the impact of the BNI-trait in wheat cultivars was also noticeable for nitrate fertilization, with improved N absorption, and therefore, reducing soil nitrate content.
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Affiliation(s)
- Adrián Bozal-Leorri
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
| | - Guntur V. Subbarao
- Crop, Livestock and Environment Division, Japan International Research Center for Agricultural Sciences, Ibaraki, Japan
| | - Masahiro Kishii
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Leyre Urmeneta
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
| | - Víctor Kommerell
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Hannes Karwat
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Hans-Joachim Braun
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Pedro Mª Aparicio-Tejo
- Institute for Multidisciplinary Research in Applied Biology (IMAB), Public University of Navarre, Pamplona, Spain
| | - Iván Ortiz-Monasterio
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Carmen González-Murua
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
| | - Mª Begoña González-Moro
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
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Yang Y, Yin Z, Li L, Li Y, Liu Y, Luo Y, Li G, Yuan J. Effects of dicyandiamide, phosphogypsum and superphosphate on greenhouse gas emissions during pig manure composting. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 846:157487. [PMID: 35870587 DOI: 10.1016/j.scitotenv.2022.157487] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Revised: 07/01/2022] [Accepted: 07/14/2022] [Indexed: 06/15/2023]
Abstract
This study investigated the effects of dicyandiamide, phosphogypsum and superphosphate on greenhouse gas emissions and compost maturity during pig manure composting. The results indicated that the addition of dicyandiamide and phosphorus additives had no negative effect on organic matter degradation, and could improve the compost maturity. Adding dicyandiamide alone reduced the emissions of ammonia (NH3), methane (CH4) and nitrous oxide (N2O) by 9.37 %, 9.60 % and 31.79 %, respectively, which was attributed that dicyandiamide effectively inhibited nitrification to reduce the formation of N2O. Dicyandiamide combined with phosphogypsum or superphosphate could enhance mitigation of the total greenhouse gas (29.55 %-37.46 %) and NH3 emission (18.28 %-21.48 %), which was mainly due to lower pH value and phosphoric acid composition. The combination of dicyandiamide and phosphogypsum exhibited the most pronounced emission reduction effect, simultaneously decreasing the NH3, CH4 and N2O emissions by 18.28 %, 38.58 % and 36.14 %, respectively. The temperature and C/N content of the compost were significantly positively correlated with greenhouse gas emissions.
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Affiliation(s)
- Yan Yang
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Ziming Yin
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Liqiong Li
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Yun Li
- College of Resources and Environmental Sciences, Qingdao Agricultural University, Qingdao 266109, China
| | - Yan Liu
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Yiming Luo
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Guoxue Li
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, Suzhou 215128, China.
| | - Jing Yuan
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China; Organic Recycling Institute (Suzhou) of China Agricultural University, Wuzhong District, Suzhou 215128, China.
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